Citrus Sinensis ID: 029517

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190--
Protein Sequence
MFSLFYGLWKYIFTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSKRTEMLRARAGASTGSV
Secondary Structure (PSIPRED)
cHHHHHHHHHHHccccEEEEEEEEHHHHHHHHcccccccccccccccEEEEEEccEEEEEEEEccccccccHHHHHHccccEEEEEEEccccccHHHHHHHHHHHHcccccccccEEEEEccccccccccHHHHHHHccccccccccEEEEEccccccccHHHHHHHHHHHHHHccccHHHHHHcccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHccccHEEEEEcHHHHHHHccccccccccccccEEEEEccEccEEEEEEEEcccHHHHHHHHHHcccccEEEEEEEccccccHHHHHHHHHHHHccHHHcccEEEEEEEcccccccccHHHHHHHccHHHcccccEEEEEcEccccEcHHHHHHHHHHHccccccccccccccccccccc
Coil and Loop (DISEMBL)
MFSLFYGLWKYIFTKTEFHTLLEKLKSVYSnveglppdrivptvglnigrievsnsklvfwdlggqpglrSIWEKYYEEAHAVVFVIdaacpsrfedSKTALEKVLRnedlqgapLLILAnkqdlpdavsADELARYLDLKKLDERVCMFEavsgydgfgiKESVEWLVEVMERSKRTEMLRARAGASTGSV
Flexible Loop (DISEMBL)
MFSLFYGLWKYIFTKTEFHTLLEKLKSVYsnveglppdriVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEavsgydgfgiKESVEWLVEVMERskrtemlraragastgsv
Low Complexity Region (SEG)
MFSLFYGLWKYIFTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSKRTEMLRARAGASTGSV
Disordered region (IsUnstruct)
**SLFYGLWKYIFTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVM********************
Disordered Region (DISOPRED)
MFSLFYGLWKYIFTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL************************
Disordered Region (DISEMBL)
MFSLFYGLWKYIFTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSKRTE*************
Disordered Region (DISPRO)
*FSLFYGLWKYIFTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVME*******************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MFSLFYGLWKYIFTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSKRTEMLRARAGASTGSV
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	192	2.2.26 [Sep-21-2011]
Q63055	201	ADP-ribosylation factor-r	yes	no	0.911	0.870	0.4	4e-36
Q8BXL7	201	ADP-ribosylation factor-r	yes	no	0.911	0.870	0.4	4e-36
Q5R579	201	ADP-ribosylation factor-r	yes	no	0.911	0.870	0.394	5e-36
Q13795	201	ADP-ribosylation factor-r	yes	no	0.911	0.870	0.394	5e-36
Q32LJ2	201	ADP-ribosylation factor-r	yes	no	0.911	0.870	0.389	6e-36
Q02804	198	ADP-ribosylation factor-l	yes	no	0.911	0.883	0.317	2e-25
Q54R04	185	ADP-ribosylation factor-l	no	no	0.875	0.908	0.346	2e-24
P38116	183	ADP-ribosylation factor-l	no	no	0.703	0.737	0.4	4e-24
Q96BM9	186	ADP-ribosylation factor-l	no	no	0.916	0.946	0.345	1e-23
Q6P8C8	186	ADP-ribosylation factor-l	no	no	0.916	0.946	0.340	1e-23

>sp|Q63055|ARFRP_RAT ADP-ribosylation factor-related protein 1 OS=Rattus norvegicus GN=Arfrp1 PE=2 SV=1

 Score =  150 bits (380), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 76/190 (40%), Positives = 119/190 (62%), Gaps = 15/190 (7%)

Query: 1   MFSLFYGLWKYIFTKTEF------------HTLLEKLKSVYS-NVEGLPPDRIVPTVGLN 47
           M++L  GL+KY+F K E+             T LE+ K+ ++ N +G+   +I  TVGLN
Sbjct: 1   MYTLLSGLYKYMFQKDEYCILILGLDNAGKTTFLEQSKTRFNKNYKGMSLSKITTTVGLN 60

Query: 48  IGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLR 107
           IG ++V  ++L+FWDLGGQ  L+S+W+KYY E H V++VID+    R  +SK A EKV+ 
Sbjct: 61  IGTVDVGKARLMFWDLGGQEELQSLWDKYYAECHGVIYVIDSTDEERLSESKEAFEKVVS 120

Query: 108 NEDLQGAPLLILANKQDLPDAVSADEL-ARYLDLK-KLDERVCMFEAVSGYDGFGIKESV 165
           +E L G P+L+LANKQD+   +S  ++   + D   K+  R C+ +A S   G G++E +
Sbjct: 121 SEALDGVPILVLANKQDVETCLSIPDIKTAFSDCTCKIGRRDCLTQACSALTGKGVREGI 180

Query: 166 EWLVEVMERS 175
           EW+V+ + R+
Sbjct: 181 EWMVKCVVRN 190

Possibly involved in plasma membrane-related signaling events.
Rattus norvegicus (taxid: 10116)

>sp|Q8BXL7|ARFRP_MOUSE ADP-ribosylation factor-related protein 1 OS=Mus musculus GN=Arfrp1 PE=2 SV=2

 Score =  150 bits (380), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 76/190 (40%), Positives = 119/190 (62%), Gaps = 15/190 (7%)

Query: 1   MFSLFYGLWKYIFTKTEF------------HTLLEKLKSVYS-NVEGLPPDRIVPTVGLN 47
           M++L  GL+KY+F K E+             T LE+ K+ ++ N +G+   +I  TVGLN
Sbjct: 1   MYTLLSGLYKYMFQKDEYCILILGLDNAGKTTFLEQSKTRFNKNYKGMSLSKITTTVGLN 60

Query: 48  IGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLR 107
           IG ++V  ++L+FWDLGGQ  L+S+W+KYY E H V++VID+    R  +SK A EKV+ 
Sbjct: 61  IGTVDVGKARLMFWDLGGQEELQSLWDKYYAECHGVIYVIDSTDEERLSESKEAFEKVVS 120

Query: 108 NEDLQGAPLLILANKQDLPDAVSADEL-ARYLDLK-KLDERVCMFEAVSGYDGFGIKESV 165
           +E L G P+L+LANKQD+   +S  ++   + D   K+  R C+ +A S   G G++E +
Sbjct: 121 SEALDGVPILVLANKQDVETCLSIPDIKTAFSDCTCKIGRRDCLTQACSALTGKGVREGI 180

Query: 166 EWLVEVMERS 175
           EW+V+ + R+
Sbjct: 181 EWMVKCVVRN 190

Possibly involved in plasma membrane-related signaling events.

Mus musculus (taxid: 10090)

>sp|Q5R579|ARFRP_PONAB ADP-ribosylation factor-related protein 1 OS=Pongo abelii GN=ARFRP1 PE=2 SV=1

 Score =  150 bits (379), Expect = 5e-36,   Method: Compositional matrix adjust.
 Identities = 75/190 (39%), Positives = 117/190 (61%), Gaps = 15/190 (7%)

Query: 1   MFSLFYGLWKYIFTKTEF------------HTLLEKLKSVYS-NVEGLPPDRIVPTVGLN 47
           M++L  GL+KY+F K E+             T LE+ K+ ++ N +G+   +I  TVGLN
Sbjct: 1   MYTLLSGLYKYMFQKDEYCILILGLDNAGKTTFLEQSKTRFNKNYKGMSLSKITTTVGLN 60

Query: 48  IGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLR 107
           IG ++V  ++L+FWDLGGQ  L+S+W+KYY E H V++VID+    R  +SK A EKV+ 
Sbjct: 61  IGTVDVGKARLMFWDLGGQEELQSLWDKYYAECHGVIYVIDSTDEERLAESKQAFEKVVT 120

Query: 108 NEDLQGAPLLILANKQDLPDAVSADELARYLD--LKKLDERVCMFEAVSGYDGFGIKESV 165
           +E L G P+L+LANKQD+   +S  ++         K+  R C+ +A S   G G++E +
Sbjct: 121 SEALCGVPVLVLANKQDVETCLSIPDIKTAFSDCTSKIGRRDCLTQACSALTGKGVREGI 180

Query: 166 EWLVEVMERS 175
           EW+V+ + R+
Sbjct: 181 EWMVKCVVRN 190

Possibly involved in plasma membrane-related signaling events.

Pongo abelii (taxid: 9601)

>sp|Q13795|ARFRP_HUMAN ADP-ribosylation factor-related protein 1 OS=Homo sapiens GN=ARFRP1 PE=1 SV=1

 Score =  150 bits (379), Expect = 5e-36,   Method: Compositional matrix adjust.
 Identities = 75/190 (39%), Positives = 117/190 (61%), Gaps = 15/190 (7%)

Query: 1   MFSLFYGLWKYIFTKTEF------------HTLLEKLKSVYS-NVEGLPPDRIVPTVGLN 47
           M++L  GL+KY+F K E+             T LE+ K+ ++ N +G+   +I  TVGLN
Sbjct: 1   MYTLLSGLYKYMFQKDEYCILILGLDNAGKTTFLEQSKTRFNKNYKGMSLSKITTTVGLN 60

Query: 48  IGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLR 107
           IG ++V  ++L+FWDLGGQ  L+S+W+KYY E H V++VID+    R  +SK A EKV+ 
Sbjct: 61  IGTVDVGKARLMFWDLGGQEELQSLWDKYYAECHGVIYVIDSTDEERLAESKQAFEKVVT 120

Query: 108 NEDLQGAPLLILANKQDLPDAVSADELARYLD--LKKLDERVCMFEAVSGYDGFGIKESV 165
           +E L G P+L+LANKQD+   +S  ++         K+  R C+ +A S   G G++E +
Sbjct: 121 SEALCGVPVLVLANKQDVETCLSIPDIKTAFSDCTSKIGRRDCLTQACSALTGKGVREGI 180

Query: 166 EWLVEVMERS 175
           EW+V+ + R+
Sbjct: 181 EWMVKCVVRN 190

Possibly involved in plasma membrane-related signaling events.

Homo sapiens (taxid: 9606)

>sp|Q32LJ2|ARFRP_BOVIN ADP-ribosylation factor-related protein 1 OS=Bos taurus GN=ARFRP1 PE=2 SV=1

 Score =  150 bits (378), Expect = 6e-36,   Method: Compositional matrix adjust.
 Identities = 74/190 (38%), Positives = 117/190 (61%), Gaps = 15/190 (7%)

Query: 1   MFSLFYGLWKYIFTKTEF------------HTLLEKLKSVYS-NVEGLPPDRIVPTVGLN 47
           M++L  GL+KY+F K E+             T LE+ K+ ++ N +G+   +I  TVGLN
Sbjct: 1   MYTLLSGLYKYMFQKDEYCVLILGLDNAGKTTFLEQSKTRFNKNYKGMSLSKITTTVGLN 60

Query: 48  IGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLR 107
           IG ++V  ++L+FWDLGGQ  L+S+W+KYY E H V++VID+    R  +SK A EK++ 
Sbjct: 61  IGTVDVGKARLMFWDLGGQEELQSLWDKYYAECHGVIYVIDSTDEERLSESKQAFEKMVT 120

Query: 108 NEDLQGAPLLILANKQDLPDAVSADELARYLD--LKKLDERVCMFEAVSGYDGFGIKESV 165
           +E L G P+L+LANKQD+   +S  ++         K+  R C+ +A S   G G++E +
Sbjct: 121 SEALDGVPILVLANKQDVETCLSIPDIKTAFSDCASKIGRRDCLTQACSALTGKGVREGI 180

Query: 166 EWLVEVMERS 175
           EW+V+ + R+
Sbjct: 181 EWMVKCVVRN 190

Possibly involved in plasma membrane-related signaling events.

Bos taurus (taxid: 9913)

>sp|Q02804|ARL3_YEAST ADP-ribosylation factor-like protein 3 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=ARL3 PE=1 SV=1

 Score =  115 bits (287), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 62/195 (31%), Positives = 111/195 (56%), Gaps = 20/195 (10%)

Query: 1   MFSLFYGLWKYIFTKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNI 48
           MF L  GL+     K ++             T LE LK  YS +     ++I PTVG N+
Sbjct: 1   MFHLVKGLYNNWNKKEQYSILILGLDNAGKTTFLETLKKEYS-LAFKALEKIQPTVGQNV 59

Query: 49  GRIEVSNSKLV-FWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLR 107
             I V + +++ FWD+GGQ  LRS+W +YY   H ++F++D++   R ++  T L+ V+ 
Sbjct: 60  ATIPVDSKQILKFWDVGGQESLRSMWSEYYSLCHGIIFIVDSSDRERLDECSTTLQSVVM 119

Query: 108 NEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEA----VSGYDGFGIKE 163
           +E+++G P+L+LANKQD  D +   ++    +  K+ E +   ++    +S   G G+K+
Sbjct: 120 DEEIEGVPILMLANKQDRQDRMEVQDIKEVFN--KIAEHISARDSRVLPISALTGEGVKD 177

Query: 164 SVEWLVEVMERSKRT 178
           ++EW++  +ER+K++
Sbjct: 178 AIEWMIVRLERNKKS 192

Involved in the targeting of ARL1 to the Golgi. Can bind and hydrolyze GTP.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|Q54R04|ARL8_DICDI ADP-ribosylation factor-like protein 8 OS=Dictyostelium discoideum GN=arl8 PE=3 SV=1

 Score =  112 bits (280), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 61/176 (34%), Positives = 99/176 (56%), Gaps = 8/176 (4%)

Query: 2   FSLFYGLWKYIFTKTEFHTLLEKL----KSVYSNV--EGLPPDRIVPTVGLNIGRIEVSN 55
           F      +K +F K E    L  L    K+   NV   G   +  +PT+G N+ ++   N
Sbjct: 4   FESIINFFKSLFWKQEMELTLVGLQGSGKTTLVNVISNGGFIEDTIPTIGFNMKKVTKGN 63

Query: 56  SKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAP 115
             +  WD+GGQP  RS+WE+Y    +A+VFV+D+A   +FE SK AL+ ++    L   P
Sbjct: 64  VTIKLWDIGGQPRFRSMWERYCRGVNAIVFVVDSADREKFEQSKQALQDLINKPPLAKIP 123

Query: 116 LLILANKQDLPDAVSADELARYLDLKKLDER-VCMFEAVSGYDGFGIKESVEWLVE 170
           LL++ANK DLP++   DE+ + LDL+ +  R VC + ++S  +   I  +++WL++
Sbjct: 124 LLVVANKNDLPNSAGVDEMIQNLDLRGIVGREVCCY-SISAKNSVNIDITLDWLIK 178

Dictyostelium discoideum (taxid: 44689)

>sp|P38116|ARL1_YEAST ADP-ribosylation factor-like protein 1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=ARL1 PE=1 SV=4

 Score =  111 bits (277), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 54/135 (40%), Positives = 81/135 (60%)

Query: 42  PTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTA 101
           PT+G N+  +   N KL  WDLGGQ  +R  W  YY +  AV+FV+D+    R   +   
Sbjct: 48  PTIGFNVETLSYKNLKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKE 107

Query: 102 LEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGI 161
           L  +L+ E+LQ A LL+ ANKQD P A+SA E+++ L+L +L +R     A S   G GI
Sbjct: 108 LHLMLQEEELQDAALLVFANKQDQPGALSASEVSKELNLVELKDRSWSIVASSAIKGEGI 167

Query: 162 KESVEWLVEVMERSK 176
            E ++WL++V++  +
Sbjct: 168 TEGLDWLIDVIKEEQ 182

Recruits golgins such as IMH1 to the Golgi. Can bind and hydrolyze GTP. May be involved in trafficking events within the endosomal system.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|Q96BM9|ARL8A_HUMAN ADP-ribosylation factor-like protein 8A OS=Homo sapiens GN=ARL8A PE=1 SV=1

 Score =  109 bits (273), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 65/188 (34%), Positives = 106/188 (56%), Gaps = 12/188 (6%)

Query: 1   MFSLFYGL---WKYIFTKTEFHTLLEKL----KSVYSNV--EGLPPDRIVPTVGLNIGRI 51
           M +LF  L   +K +F K E    L  L    K+ + NV   G   + ++PTVG N+ +I
Sbjct: 1   MIALFNKLLDWFKALFWKEEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRKI 60

Query: 52  EVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDL 111
              N  +  WD+GGQP  RS+WE+Y     A+V+++DAA   + E SK  L  +L    L
Sbjct: 61  TKGNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQL 120

Query: 112 QGAPLLILANKQDLPDAVSADELARYLDLKKLDER-VCMFEAVSGYDGFGIKESVEWLVE 170
           QG P+L+L NK+DLP A+   EL   ++L  + +R +C + ++S  +   I  +++WL++
Sbjct: 121 QGIPVLVLGNKRDLPGALDEKELIEKMNLSAIQDREICCY-SISCKEKDNIDITLQWLIQ 179

Query: 171 VMERSKRT 178
              +S+R+
Sbjct: 180 -HSKSRRS 186

May play a role in lysosomes motility. Alternatively, may play a role in chromosome segregation.

Homo sapiens (taxid: 9606)

>sp|Q6P8C8|ARL8A_XENTR ADP-ribosylation factor-like protein 8A OS=Xenopus tropicalis GN=arl8a PE=2 SV=1

 Score =  109 bits (273), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 64/188 (34%), Positives = 106/188 (56%), Gaps = 12/188 (6%)

Query: 1   MFSLFYGL---WKYIFTKTEFHTLLEKL----KSVYSNV--EGLPPDRIVPTVGLNIGRI 51
           M +LF  L   +K +F K E    L  L    K+ + NV   G   + ++PTVG N+ +I
Sbjct: 1   MLALFNKLLDWFKALFWKEEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRKI 60

Query: 52  EVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDL 111
              N  +  WD+GGQP  RS+WE+Y     A+V+++DAA   + E SK  L  +L    L
Sbjct: 61  TKGNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQDKIEASKNELHNLLDKAQL 120

Query: 112 QGAPLLILANKQDLPDAVSADELARYLDLKKLDER-VCMFEAVSGYDGFGIKESVEWLVE 170
           QG P+L+L NK+D+P A+   EL   ++L  + +R +C + ++S  +   I  +++WL++
Sbjct: 121 QGIPVLVLGNKRDIPGALDEKELIERMNLSAIQDREICCY-SISCKEKDNIDITLQWLIQ 179

Query: 171 VMERSKRT 178
              +S+R+
Sbjct: 180 -HSKSRRS 186

May play a role in lysosomes motility. Alternatively, may play a role in chromosome segregation.

Xenopus tropicalis (taxid: 8364)

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	192
255539493	204	ADP-ribosylation factor, putative [Ricin	0.979	0.921	0.84	5e-93
224120084	204	predicted protein [Populus trichocarpa]	0.979	0.921	0.84	6e-93
356549001	204	PREDICTED: ADP-ribosylation factor-relat	0.973	0.916	0.819	7e-92
449446037	205	PREDICTED: ADP-ribosylation factor-relat	0.979	0.917	0.815	3e-91
449446039	202	PREDICTED: ADP-ribosylation factor-relat	0.968	0.920	0.823	1e-90
224136948	204	predicted protein [Populus trichocarpa]	0.979	0.921	0.815	2e-90
255646406	204	unknown [Glycine max]	0.973	0.916	0.804	1e-89
359495822	205	PREDICTED: ADP-ribosylation factor-relat	0.984	0.921	0.791	2e-89
217073166	205	unknown [Medicago truncatula] gi|3884967	0.973	0.912	0.809	7e-88
363807218	187	uncharacterized protein LOC100785527 [Gl	0.911	0.935	0.818	3e-86

>gi|255539493|ref|XP_002510811.1| ADP-ribosylation factor, putative [Ricinus communis] gi|223549926|gb|EEF51413.1| ADP-ribosylation factor, putative [Ricinus communis]

 Score =  345 bits (885), Expect = 5e-93,   Method: Compositional matrix adjust.
 Identities = 168/200 (84%), Positives = 181/200 (90%), Gaps = 12/200 (6%)

Query: 1   MFSLFYGLWKYIFTKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNI 48
           MFSLFYGLWKY+F+KTEFH            TLLEKLKS+YSN+EGLPPDRIVPTVGLNI
Sbjct: 1   MFSLFYGLWKYLFSKTEFHVLILGIDKAGKTTLLEKLKSLYSNLEGLPPDRIVPTVGLNI 60

Query: 49  GRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRN 108
           GRIEVS++KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA CPSRFEDSK+ALEKVLR+
Sbjct: 61  GRIEVSSTKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDATCPSRFEDSKSALEKVLRH 120

Query: 109 EDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL 168
           EDLQGAPLLILANKQDLPDA +A+E+ARYLDLKKLDERV MFEAVS YDG GI+ESVEWL
Sbjct: 121 EDLQGAPLLILANKQDLPDAATAEEIARYLDLKKLDERVYMFEAVSAYDGLGIRESVEWL 180

Query: 169 VEVMERSKRTEMLRARAGAS 188
           VEVMERSKRTEMLR RAG +
Sbjct: 181 VEVMERSKRTEMLRVRAGIT 200

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224120084|ref|XP_002318238.1| predicted protein [Populus trichocarpa] gi|118488882|gb|ABK96250.1| unknown [Populus trichocarpa x Populus deltoides] gi|222858911|gb|EEE96458.1| predicted protein [Populus trichocarpa]

 Score =  345 bits (884), Expect = 6e-93,   Method: Compositional matrix adjust.
 Identities = 168/200 (84%), Positives = 182/200 (91%), Gaps = 12/200 (6%)

Query: 1   MFSLFYGLWKYIFTKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNI 48
           MFSLFYGLWKYIF+KTEFH            TLLEKLKSV+SN+EGLPPDRI+PTVGLNI
Sbjct: 1   MFSLFYGLWKYIFSKTEFHVLILGIDKAGKTTLLEKLKSVHSNLEGLPPDRIIPTVGLNI 60

Query: 49  GRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRN 108
           GRIEV+NSKLVFWDLGGQPGLRSIWEKYYEEAHAV++VIDAACPSRFED+K+ALEKVLR+
Sbjct: 61  GRIEVANSKLVFWDLGGQPGLRSIWEKYYEEAHAVIYVIDAACPSRFEDAKSALEKVLRH 120

Query: 109 EDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL 168
           +DLQGAPLLILANKQDL DA SA+ELARYLDLKKLDERV +FEAVS YDG GIKESVEWL
Sbjct: 121 DDLQGAPLLILANKQDLTDAASAEELARYLDLKKLDERVYIFEAVSAYDGMGIKESVEWL 180

Query: 169 VEVMERSKRTEMLRARAGAS 188
           VEVMERSKRTEMLRARAG +
Sbjct: 181 VEVMERSKRTEMLRARAGVT 200

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356549001|ref|XP_003542887.1| PREDICTED: ADP-ribosylation factor-related protein 1-like [Glycine max]

 Score =  341 bits (875), Expect = 7e-92,   Method: Compositional matrix adjust.
 Identities = 163/199 (81%), Positives = 180/199 (90%), Gaps = 12/199 (6%)

Query: 1   MFSLFYGLWKYIFTKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNI 48
           MFSLFYGLWKY+F+K E H            TLLEK+KSVYSN+EG+PPDRI+PTVGLNI
Sbjct: 1   MFSLFYGLWKYLFSKMELHVLILGIDKAGKTTLLEKMKSVYSNIEGIPPDRIIPTVGLNI 60

Query: 49  GRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRN 108
           GRIEV+NSKLVFWDLGGQPGLRSIWEKYYEEAHAV+FV+DA+CPSRFED+K+ALEKVLR+
Sbjct: 61  GRIEVANSKLVFWDLGGQPGLRSIWEKYYEEAHAVIFVVDASCPSRFEDAKSALEKVLRH 120

Query: 109 EDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL 168
           EDLQGAPLLILANKQD+P+AVSADEL +YLDLKKLDERV MFEAVS YDG GI+ES EWL
Sbjct: 121 EDLQGAPLLILANKQDIPEAVSADELPQYLDLKKLDERVFMFEAVSAYDGMGIRESAEWL 180

Query: 169 VEVMERSKRTEMLRARAGA 187
           VEVMERSKRTEMLRARAGA
Sbjct: 181 VEVMERSKRTEMLRARAGA 199

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449446037|ref|XP_004140778.1| PREDICTED: ADP-ribosylation factor-related protein 1-like isoform 1 [Cucumis sativus] gi|449520110|ref|XP_004167077.1| PREDICTED: ADP-ribosylation factor-related protein 1-like isoform 1 [Cucumis sativus]

 Score =  339 bits (870), Expect = 3e-91,   Method: Compositional matrix adjust.
 Identities = 163/200 (81%), Positives = 183/200 (91%), Gaps = 12/200 (6%)

Query: 1   MFSLFYGLWKYIFTKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNI 48
           MFSLFYGLWKY+F+KTEFH            TLLEKLKS+YSN+EGL PDRIVPTVGLNI
Sbjct: 1   MFSLFYGLWKYLFSKTEFHVLILGIDKAGKTTLLEKLKSLYSNLEGLSPDRIVPTVGLNI 60

Query: 49  GRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRN 108
           GR+EV N+KLVFWDLGGQPGLRSIWEKYYEEAHAV++VIDAACPS+FEDSK+ALEKVLR+
Sbjct: 61  GRLEVLNAKLVFWDLGGQPGLRSIWEKYYEEAHAVIYVIDAACPSKFEDSKSALEKVLRH 120

Query: 109 EDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL 168
           EDLQGAPLL+LANKQDLP+AVSA+EL+RYLDLKKLDERV MFEAVSGYDG GIK+SVEWL
Sbjct: 121 EDLQGAPLLVLANKQDLPEAVSAEELSRYLDLKKLDERVYMFEAVSGYDGMGIKDSVEWL 180

Query: 169 VEVMERSKRTEMLRARAGAS 188
           V++MERSKRTE+LRARAG +
Sbjct: 181 VDIMERSKRTEILRARAGGA 200

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449446039|ref|XP_004140779.1| PREDICTED: ADP-ribosylation factor-related protein 1-like isoform 2 [Cucumis sativus] gi|449520112|ref|XP_004167078.1| PREDICTED: ADP-ribosylation factor-related protein 1-like isoform 2 [Cucumis sativus]

 Score =  338 bits (866), Expect = 1e-90,   Method: Compositional matrix adjust.
 Identities = 163/198 (82%), Positives = 182/198 (91%), Gaps = 12/198 (6%)

Query: 1   MFSLFYGLWKYIFTKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNI 48
           MFSLFYGLWKY+F+KTEFH            TLLEKLKS+YSN+EGL PDRIVPTVGLNI
Sbjct: 1   MFSLFYGLWKYLFSKTEFHVLILGIDKAGKTTLLEKLKSLYSNLEGLSPDRIVPTVGLNI 60

Query: 49  GRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRN 108
           GR+EV N+KLVFWDLGGQPGLRSIWEKYYEEAHAV++VIDAACPS+FEDSK+ALEKVLR+
Sbjct: 61  GRLEVLNAKLVFWDLGGQPGLRSIWEKYYEEAHAVIYVIDAACPSKFEDSKSALEKVLRH 120

Query: 109 EDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL 168
           EDLQGAPLL+LANKQDLP+AVSA+EL+RYLDLKKLDERV MFEAVSGYDG GIK+SVEWL
Sbjct: 121 EDLQGAPLLVLANKQDLPEAVSAEELSRYLDLKKLDERVYMFEAVSGYDGMGIKDSVEWL 180

Query: 169 VEVMERSKRTEMLRARAG 186
           V++MERSKRTE+LRARAG
Sbjct: 181 VDIMERSKRTEILRARAG 198

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224136948|ref|XP_002322456.1| predicted protein [Populus trichocarpa] gi|222869452|gb|EEF06583.1| predicted protein [Populus trichocarpa]

 Score =  337 bits (863), Expect = 2e-90,   Method: Compositional matrix adjust.
 Identities = 163/200 (81%), Positives = 180/200 (90%), Gaps = 12/200 (6%)

Query: 1   MFSLFYGLWKYIFTKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNI 48
           MFSLFYGLWKY+F+KTE H            TLLEKLKSVYSN+EGLPPDRIVPTVGLNI
Sbjct: 1   MFSLFYGLWKYMFSKTELHVLILGIDKAGKTTLLEKLKSVYSNLEGLPPDRIVPTVGLNI 60

Query: 49  GRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRN 108
           GRIEV NSKL+FWDLGGQPGLRSIWEKYY+EAHA+++VIDAACPSRFED+K+ LEKVLR+
Sbjct: 61  GRIEVENSKLLFWDLGGQPGLRSIWEKYYDEAHALIYVIDAACPSRFEDAKSELEKVLRH 120

Query: 109 EDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL 168
           ++LQGAPLLILANKQDLPD+VSADE+ RYLDLKKLDERV MFEAVS YDG GIKESVEWL
Sbjct: 121 DELQGAPLLILANKQDLPDSVSADEVDRYLDLKKLDERVYMFEAVSAYDGMGIKESVEWL 180

Query: 169 VEVMERSKRTEMLRARAGAS 188
           +EVMERSKRTEMLRARAG +
Sbjct: 181 LEVMERSKRTEMLRARAGVT 200

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255646406|gb|ACU23682.1| unknown [Glycine max]

 Score =  334 bits (856), Expect = 1e-89,   Method: Compositional matrix adjust.
 Identities = 160/199 (80%), Positives = 177/199 (88%), Gaps = 12/199 (6%)

Query: 1   MFSLFYGLWKYIFTKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNI 48
           MFSLFYGLWKY+F+K E H            TLLEK+KSVYS++EG+PPDRI+PTVGLNI
Sbjct: 1   MFSLFYGLWKYLFSKMELHVLILGIDKAGKTTLLEKMKSVYSDIEGIPPDRIIPTVGLNI 60

Query: 49  GRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRN 108
           GRIEV+NSKLVFWDLGGQPGLRSIWEKYYEEAHAV+FV+DA+CPSR ED+K+ALEKVLR 
Sbjct: 61  GRIEVANSKLVFWDLGGQPGLRSIWEKYYEEAHAVIFVVDASCPSRLEDAKSALEKVLRR 120

Query: 109 EDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL 168
           EDLQGAPLLILANKQD+P+AVSADEL +YLDLKKLDERV MFEAVS YDG GI+ES EWL
Sbjct: 121 EDLQGAPLLILANKQDIPEAVSADELPQYLDLKKLDERVFMFEAVSAYDGMGIRESAEWL 180

Query: 169 VEVMERSKRTEMLRARAGA 187
           VEV ERSKRTEMLRARAGA
Sbjct: 181 VEVTERSKRTEMLRARAGA 199

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359495822|ref|XP_002265687.2| PREDICTED: ADP-ribosylation factor-related protein 1-like [Vitis vinifera] gi|296086877|emb|CBI33044.3| unnamed protein product [Vitis vinifera]

 Score =  333 bits (854), Expect = 2e-89,   Method: Compositional matrix adjust.
 Identities = 159/201 (79%), Positives = 179/201 (89%), Gaps = 12/201 (5%)

Query: 1   MFSLFYGLWKYIFTKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNI 48
           MFSLFYGLWKY+F+K EFH            TLLEKLK++YSN+EGLPPDRI+PTVGLNI
Sbjct: 1   MFSLFYGLWKYLFSKAEFHVLILGINKAGKTTLLEKLKALYSNLEGLPPDRILPTVGLNI 60

Query: 49  GRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRN 108
           GR+E+SN+KLVFWDLGGQPGLRSIWEKYYEEAHAVV+VIDA+CPSRFEDSK+ALEK+LR+
Sbjct: 61  GRVELSNTKLVFWDLGGQPGLRSIWEKYYEEAHAVVYVIDASCPSRFEDSKSALEKILRH 120

Query: 109 EDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL 168
           EDLQGAPLLILANKQDL DA S++E+ARYLDLKKLDERV M EAVS YDG GIKESV+WL
Sbjct: 121 EDLQGAPLLILANKQDLGDAASSEEIARYLDLKKLDERVYMVEAVSAYDGMGIKESVDWL 180

Query: 169 VEVMERSKRTEMLRARAGAST 189
           VEVMERSKRTEMLR RA  ++
Sbjct: 181 VEVMERSKRTEMLRVRAAVTS 201

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|217073166|gb|ACJ84942.1| unknown [Medicago truncatula] gi|388496722|gb|AFK36427.1| unknown [Medicago truncatula] gi|434856055|gb|AGB56248.1| ADP-ribosylation factor-like protein [Medicago falcata]

 Score =  328 bits (841), Expect = 7e-88,   Method: Compositional matrix adjust.
 Identities = 161/199 (80%), Positives = 177/199 (88%), Gaps = 12/199 (6%)

Query: 1   MFSLFYGLWKYIFTKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNI 48
           MFSLFYGLW+++F+K E              TLLEK+KSVY+NVEGLPPDRIVPTVGLNI
Sbjct: 1   MFSLFYGLWQFMFSKLELRVLILGIDKAGKTTLLEKIKSVYTNVEGLPPDRIVPTVGLNI 60

Query: 49  GRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRN 108
           GRIEV+N KLVFWDLGGQ GLRSIWEKYYEEAHAVVFVIDA+CPSRFED+K+ALEKVLR+
Sbjct: 61  GRIEVANRKLVFWDLGGQLGLRSIWEKYYEEAHAVVFVIDASCPSRFEDAKSALEKVLRH 120

Query: 109 EDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL 168
           EDL+GAPLLILANKQDLP+AVS++ELARYLDLKKLDERV MFEAVS YDG GI+ES EWL
Sbjct: 121 EDLKGAPLLILANKQDLPEAVSSEELARYLDLKKLDERVYMFEAVSAYDGLGIRESAEWL 180

Query: 169 VEVMERSKRTEMLRARAGA 187
           VEVMERSKRTEMLR RAGA
Sbjct: 181 VEVMERSKRTEMLRLRAGA 199

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|363807218|ref|NP_001242354.1| uncharacterized protein LOC100785527 [Glycine max] gi|255647885|gb|ACU24401.1| unknown [Glycine max]

 Score =  322 bits (826), Expect = 3e-86,   Method: Compositional matrix adjust.
 Identities = 153/187 (81%), Positives = 169/187 (90%), Gaps = 12/187 (6%)

Query: 1   MFSLFYGLWKYIFTKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNI 48
           MFSLFYGLWKY+F+K E H            TLLEK+KSVYSN+EG+PPDRI+PTVGLNI
Sbjct: 1   MFSLFYGLWKYLFSKMELHVLILGIDKAGKTTLLEKMKSVYSNIEGIPPDRIIPTVGLNI 60

Query: 49  GRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRN 108
           GRIEV+NSKLVFWDLGGQPGLRSIWEKYYEEAHAV+FV+DA+CPSRFED+K+ALEKVLR+
Sbjct: 61  GRIEVANSKLVFWDLGGQPGLRSIWEKYYEEAHAVIFVVDASCPSRFEDAKSALEKVLRH 120

Query: 109 EDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL 168
           EDLQGAPLLILANKQD+P+AVSADELARYLDLKKLDERV MFEAVS YDG GI+ES EWL
Sbjct: 121 EDLQGAPLLILANKQDIPEAVSADELARYLDLKKLDERVSMFEAVSAYDGMGIRESAEWL 180

Query: 169 VEVMERS 175
           VEVMERS
Sbjct: 181 VEVMERS 187

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	192
TAIR|locus:2145151	205	GB1 "GTP-binding protein 1" [A	0.968	0.907	0.777	9e-77
DICTYBASE|DDB_G0283631	216	arfrp1 "ARF-like protein" [Dic	0.703	0.625	0.462	1.5e-37
FB|FBgn0030088	200	CG7039 [Drosophila melanogaste	0.906	0.87	0.417	1.1e-34
UNIPROTKB|E1C1J0	201	ARFRP1 "Uncharacterized protei	0.911	0.870	0.394	1.3e-34
MGI|MGI:1923938	201	Arfrp1 "ADP-ribosylation facto	0.911	0.870	0.4	2.8e-34
RGD|621683	201	Arfrp1 "ADP-ribosylation facto	0.911	0.870	0.4	2.8e-34
UNIPROTKB|Q32LJ2	201	ARFRP1 "ADP-ribosylation facto	0.911	0.870	0.394	4.6e-34
ZFIN|ZDB-GENE-050227-14	201	arfrp1 "ADP-ribosylation facto	0.911	0.870	0.394	4.6e-34
UNIPROTKB|Q13795	201	ARFRP1 "ADP-ribosylation facto	0.911	0.870	0.4	7.4e-34
UNIPROTKB|J9P4D5	201	ARFRP1 "Uncharacterized protei	0.911	0.870	0.389	1.1e-32

TAIR|locus:2145151 GB1 "GTP-binding protein 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 773 (277.2 bits), Expect = 9.0e-77, P = 9.0e-77
 Identities = 154/198 (77%), Positives = 172/198 (86%)

Query:     1 MFSLFYGLWKYIFTKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNI 48
             MFSL  GLW Y+F+KTEF+            T LEKLK++YS  EGLP DRIVPTVGLNI
Sbjct:     1 MFSLMSGLWSYMFSKTEFNVLILGIDKAGKTTFLEKLKTIYSISEGLPHDRIVPTVGLNI 60

Query:    49 GRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRN 108
             GRIEVSN+K+VFWDLGGQPGLRSIWEKYYEEAHA++++IDAACP+RFEDSK+ALEK LR+
Sbjct:    61 GRIEVSNAKIVFWDLGGQPGLRSIWEKYYEEAHALIYLIDAACPTRFEDSKSALEKALRH 120

Query:   109 EDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL 168
             EDLQGAPLLILANKQDL +AVSA+EL RYLDLKKLDERV MFEAVSGYDG GIKES+EWL
Sbjct:   121 EDLQGAPLLILANKQDLTNAVSAEELDRYLDLKKLDERVYMFEAVSGYDGRGIKESIEWL 180

Query:   169 VEVMERSKRTEMLRARAG 186
             V VME+SKRTE LRARAG
Sbjct:   181 VGVMEKSKRTESLRARAG 198

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

GO:0005622 "intracellular" evidence=IEA

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

GO:0006891 "intra-Golgi vesicle-mediated transport" evidence=RCA

GO:0006944 "cellular membrane fusion" evidence=RCA

DICTYBASE|DDB_G0283631 arfrp1 "ARF-like protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 366 (133.9 bits), Expect = 1.5e-37, Sum P(2) = 1.5e-37
 Identities = 68/147 (46%), Positives = 101/147 (68%)

Query:     1 MFSLFYGLWKYIFTKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNI 48
             M+SLF GLWKY+F+K E+             TLLE++K+ Y+ + GLPP +IVPTVGLNI
Sbjct:     1 MYSLFVGLWKYLFSKNEYFILILGLDNSGKTTLLEQIKTKYTKIPGLPPHKIVPTVGLNI 60

Query:    49 GRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRN 108
              R +  + KL++WDLGGQ  LR+IW K++ + HA+++V+D++   RF +SK  LE V+ +
Sbjct:    61 ARTQFQDIKLIYWDLGGQTQLRTIWNKFFSDVHAIIYVVDSSDKERFNESKDELEIVIND 120

Query:   109 EDLQGAPLLILANKQDLPDAVSADELA 135
               L+  PLL+  NKQDLPD+ + + L+
Sbjct:   121 SKLKDVPLLLFFNKQDLPDSETIEYLS 147

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

GO:0005622 "intracellular" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0000166 "nucleotide binding" evidence=IEA

FB|FBgn0030088 CG7039 [Drosophila melanogaster (taxid:7227)]

 Score = 376 (137.4 bits), Expect = 1.1e-34, P = 1.1e-34
 Identities = 79/189 (41%), Positives = 115/189 (60%)

Query:     1 MFSLFYGLWKYIFTKTEF------------HTLLEKLKSVYS-NVEGLPPDRIVPTVGLN 47
             M++L +G +KY+  K ++             T LE  K+ ++ N +GL P +I  TVGLN
Sbjct:     1 MYTLMHGFYKYMTQKDDYCVVILGLDNAGKTTYLEAAKTTFTRNYKGLNPSKITTTVGLN 60

Query:    48 IGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLR 107
             IG I+V   +L FWDLGGQ  L+S+W+KYY+E+H V++VID+    R E+SK   +K+++
Sbjct:    61 IGTIDVQGVRLNFWDLGGQQELQSLWDKYYQESHGVIYVIDSNDRERMEESKAIFDKMIK 120

Query:   108 NEDLQGAPLLILANKQDLPDAVSADELARYLDLKK--LDERVCMFEAVSGYDGFGIKESV 165
             NE L G PLLILANKQDLPD +   E+          +  R C+   VS   G G+ E +
Sbjct:   121 NELLSGVPLLILANKQDLPDVMGVREIKPVFQQAGALIGRRDCLTIPVSALHGEGVDEGI 180

Query:   166 EWLVEVMER 174
             +WLVE ++R
Sbjct:   181 KWLVEAIKR 189

GO:0003924 "GTPase activity" evidence=ISS

GO:0005622 "intracellular" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

UNIPROTKB|E1C1J0 ARFRP1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 375 (137.1 bits), Expect = 1.3e-34, P = 1.3e-34
 Identities = 75/190 (39%), Positives = 122/190 (64%)

Query:     1 MFSLFYGLWKYIFTKTEF------------HTLLEKLKSVYS-NVEGLPPDRIVPTVGLN 47
             M++L  GL+KY+F + E+             T LE+ K+ ++ N +G+   +I  TVGLN
Sbjct:     1 MYTLLSGLYKYMFQRDEYCILILGLDNAGKTTFLEQTKTRFNKNYKGMSLSKITTTVGLN 60

Query:    48 IGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLR 107
             IG I+V  ++L+FWDLGGQ  L+S+W+KYY E+H V++VID+    R  +SK A EK++ 
Sbjct:    61 IGTIDVGKTRLMFWDLGGQEELQSLWDKYYAESHGVIYVIDSTDEERLSESKRAFEKMIT 120

Query:   108 NEDLQGAPLLILANKQDLPDAVSADEL-ARYLD-LKKLDERVCMFEAVSGYDGFGIKESV 165
             +E L+G P+L+LANKQD+   +S  ++   + D + K+ +R C+ +A S   G G+ E +
Sbjct:   121 SEALEGVPILVLANKQDVETCLSIPDIKTAFSDCINKIGKRDCLTQACSALTGKGVNEGI 180

Query:   166 EWLVEVMERS 175
             EW+V+ + R+
Sbjct:   181 EWMVKCVVRN 190

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

GO:0005525 "GTP binding" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

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

GO:0007369 "gastrulation" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0034067 "protein localization to Golgi apparatus" evidence=IEA

GO:0042147 "retrograde transport, endosome to Golgi" evidence=IEA

GO:0043001 "Golgi to plasma membrane protein transport" evidence=IEA

MGI|MGI:1923938 Arfrp1 "ADP-ribosylation factor related protein 1" [Mus musculus (taxid:10090)]

 Score = 372 (136.0 bits), Expect = 2.8e-34, P = 2.8e-34
 Identities = 76/190 (40%), Positives = 119/190 (62%)

Query:     1 MFSLFYGLWKYIFTKTEF------------HTLLEKLKSVYS-NVEGLPPDRIVPTVGLN 47
             M++L  GL+KY+F K E+             T LE+ K+ ++ N +G+   +I  TVGLN
Sbjct:     1 MYTLLSGLYKYMFQKDEYCILILGLDNAGKTTFLEQSKTRFNKNYKGMSLSKITTTVGLN 60

Query:    48 IGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLR 107
             IG ++V  ++L+FWDLGGQ  L+S+W+KYY E H V++VID+    R  +SK A EKV+ 
Sbjct:    61 IGTVDVGKARLMFWDLGGQEELQSLWDKYYAECHGVIYVIDSTDEERLSESKEAFEKVVS 120

Query:   108 NEDLQGAPLLILANKQDLPDAVSADEL-ARYLDLK-KLDERVCMFEAVSGYDGFGIKESV 165
             +E L G P+L+LANKQD+   +S  ++   + D   K+  R C+ +A S   G G++E +
Sbjct:   121 SEALDGVPILVLANKQDVETCLSIPDIKTAFSDCTCKIGRRDCLTQACSALTGKGVREGI 180

Query:   166 EWLVEVMERS 175
             EW+V+ + R+
Sbjct:   181 EWMVKCVVRN 190

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=ISO

GO:0005525 "GTP binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=ISO

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

GO:0006184 "GTP catabolic process" evidence=ISO

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

GO:0007369 "gastrulation" evidence=IMP

GO:0016020 "membrane" evidence=IDA

GO:0034067 "protein localization to Golgi apparatus" evidence=ISO

GO:0042147 "retrograde transport, endosome to Golgi" evidence=ISO

GO:0043001 "Golgi to plasma membrane protein transport" evidence=ISO

RGD|621683 Arfrp1 "ADP-ribosylation factor related protein 1" [Rattus norvegicus (taxid:10116)]

 Score = 372 (136.0 bits), Expect = 2.8e-34, P = 2.8e-34
 Identities = 76/190 (40%), Positives = 119/190 (62%)

Query:     1 MFSLFYGLWKYIFTKTEF------------HTLLEKLKSVYS-NVEGLPPDRIVPTVGLN 47
             M++L  GL+KY+F K E+             T LE+ K+ ++ N +G+   +I  TVGLN
Sbjct:     1 MYTLLSGLYKYMFQKDEYCILILGLDNAGKTTFLEQSKTRFNKNYKGMSLSKITTTVGLN 60

Query:    48 IGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLR 107
             IG ++V  ++L+FWDLGGQ  L+S+W+KYY E H V++VID+    R  +SK A EKV+ 
Sbjct:    61 IGTVDVGKARLMFWDLGGQEELQSLWDKYYAECHGVIYVIDSTDEERLSESKEAFEKVVS 120

Query:   108 NEDLQGAPLLILANKQDLPDAVSADEL-ARYLDLK-KLDERVCMFEAVSGYDGFGIKESV 165
             +E L G P+L+LANKQD+   +S  ++   + D   K+  R C+ +A S   G G++E +
Sbjct:   121 SEALDGVPILVLANKQDVETCLSIPDIKTAFSDCTCKIGRRDCLTQACSALTGKGVREGI 180

Query:   166 EWLVEVMERS 175
             EW+V+ + R+
Sbjct:   181 EWMVKCVVRN 190

GO:0005525 "GTP binding" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA;ISO

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

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

GO:0007369 "gastrulation" evidence=ISO

GO:0016020 "membrane" evidence=ISO

GO:0034067 "protein localization to Golgi apparatus" evidence=ISO

GO:0042147 "retrograde transport, endosome to Golgi" evidence=ISO

GO:0043001 "Golgi to plasma membrane protein transport" evidence=ISO

UNIPROTKB|Q32LJ2 ARFRP1 "ADP-ribosylation factor-related protein 1" [Bos taurus (taxid:9913)]

 Score = 370 (135.3 bits), Expect = 4.6e-34, P = 4.6e-34
 Identities = 75/190 (39%), Positives = 119/190 (62%)

Query:     1 MFSLFYGLWKYIFTKTEF------------HTLLEKLKSVYS-NVEGLPPDRIVPTVGLN 47
             M++L  GL+KY+F K E+             T LE+ K+ ++ N +G+   +I  TVGLN
Sbjct:     1 MYTLLSGLYKYMFQKDEYCVLILGLDNAGKTTFLEQSKTRFNKNYKGMSLSKITTTVGLN 60

Query:    48 IGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLR 107
             IG ++V  ++L+FWDLGGQ  L+S+W+KYY E H V++VID+    R  +SK A EK++ 
Sbjct:    61 IGTVDVGKARLMFWDLGGQEELQSLWDKYYAECHGVIYVIDSTDEERLSESKQAFEKMVT 120

Query:   108 NEDLQGAPLLILANKQDLPDAVSADEL-ARYLDL-KKLDERVCMFEAVSGYDGFGIKESV 165
             +E L G P+L+LANKQD+   +S  ++   + D   K+  R C+ +A S   G G++E +
Sbjct:   121 SEALDGVPILVLANKQDVETCLSIPDIKTAFSDCASKIGRRDCLTQACSALTGKGVREGI 180

Query:   166 EWLVEVMERS 175
             EW+V+ + R+
Sbjct:   181 EWMVKCVVRN 190

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0043001 "Golgi to plasma membrane protein transport" evidence=IEA

GO:0042147 "retrograde transport, endosome to Golgi" evidence=IEA

GO:0034067 "protein localization to Golgi apparatus" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0007369 "gastrulation" evidence=IEA

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

GO:0005525 "GTP binding" evidence=IEA

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

ZFIN|ZDB-GENE-050227-14 arfrp1 "ADP-ribosylation factor related protein 1" [Danio rerio (taxid:7955)]

 Score = 370 (135.3 bits), Expect = 4.6e-34, P = 4.6e-34
 Identities = 75/190 (39%), Positives = 121/190 (63%)

Query:     1 MFSLFYGLWKYIFTKTEF------------HTLLEKLKSVYS-NVEGLPPDRIVPTVGLN 47
             M++L  GL+KY+F K E+             T LE+ K+ +S N +G+   +I  TVGLN
Sbjct:     1 MYTLLSGLYKYMFQKDEYCILILGLDNAGKTTFLEQTKTRFSKNYKGMNLSKITTTVGLN 60

Query:    48 IGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLR 107
             IG I+V  ++L+FWDLGGQ  L+S+W+KYY E+H V++VID+    R  +SK A EK++ 
Sbjct:    61 IGTIDVGKARLMFWDLGGQEELQSLWDKYYAESHGVIYVIDSTDEERLGESKNAFEKMIS 120

Query:   108 NEDLQGAPLLILANKQDLPDAVSADEL-ARYLDLK-KLDERVCMFEAVSGYDGFGIKESV 165
             +E L+G PLL+LANKQD+ + +S  ++   + D   K+ +R C+ +  +   G G+ + +
Sbjct:   121 SEALEGVPLLVLANKQDVENCLSVPDIKTAFSDCAPKIGKRDCLVQPCAALSGQGVNDGI 180

Query:   166 EWLVEVMERS 175
             EW+V+ + R+
Sbjct:   181 EWMVKCVIRN 190

GO:0005525 "GTP binding" evidence=IEA

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

GO:0005622 "intracellular" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|Q13795 ARFRP1 "ADP-ribosylation factor-related protein 1" [Homo sapiens (taxid:9606)]

 Score = 368 (134.6 bits), Expect = 7.4e-34, P = 7.4e-34
 Identities = 76/190 (40%), Positives = 119/190 (62%)

Query:     1 MFSLFYGLWKYIFTKTEF------------HTLLEKLKSVYS-NVEGLPPDRIVPTVGLN 47
             M++L  GL+KY+F K E+             T LE+ K+ ++ N +G+   +I  TVGLN
Sbjct:     1 MYTLLSGLYKYMFQKDEYCILILGLDNAGKTTFLEQSKTRFNKNYKGMSLSKITTTVGLN 60

Query:    48 IGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLR 107
             IG ++V  ++L+FWDLGGQ  L+S+W+KYY E H V++VID+    R  +SK A EKV+ 
Sbjct:    61 IGTVDVGKARLMFWDLGGQEELQSLWDKYYAECHGVIYVIDSTDEERLAESKQAFEKVVT 120

Query:   108 NEDLQGAPLLILANKQDLPDAVSADEL-ARYLDL-KKLDERVCMFEAVSGYDGFGIKESV 165
             +E L G P+L+LANKQD+   +S  ++   + D   K+  R C+ +A S   G G++E +
Sbjct:   121 SEALCGVPVLVLANKQDVETCLSIPDIKTAFSDCTSKIGRRDCLTQACSALTGKGVREGI 180

Query:   166 EWLVEVMERS 175
             EW+V+ + R+
Sbjct:   181 EWMVKCVVRN 190

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

GO:0005525 "GTP binding" evidence=IEA

GO:0007369 "gastrulation" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0034067 "protein localization to Golgi apparatus" evidence=IMP

GO:0005794 "Golgi apparatus" evidence=IDA

GO:0043001 "Golgi to plasma membrane protein transport" evidence=IMP

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

GO:0042147 "retrograde transport, endosome to Golgi" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

GO:0003924 "GTPase activity" evidence=TAS

GO:0007165 "signal transduction" evidence=TAS

GO:0006184 "GTP catabolic process" evidence=TAS

UNIPROTKB|J9P4D5 ARFRP1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 357 (130.7 bits), Expect = 1.1e-32, P = 1.1e-32
 Identities = 74/190 (38%), Positives = 116/190 (61%)

Query:     1 MFSLFYGLWKYIFTKTEF------------HTLLEKLKSVYS-NVEGLPPDRIVPTVGLN 47
             M++L  GL+KY+F K E+             T LE+ K+ ++ N +G+   +I  TVGLN
Sbjct:     1 MYTLLSGLYKYMFQKDEYCVLILGLDNAGKTTFLEQSKTRFNKNYKGMSLSKITTTVGLN 60

Query:    48 IGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLR 107
             I  +EV    L+FW+LGGQ  L+S+W+KYY E H V++VID+    R  +SK A EK++ 
Sbjct:    61 IRTVEVGKGPLMFWELGGQEELQSLWDKYYAECHGVIYVIDSTDEERLSESKRAFEKMVT 120

Query:   108 NEDLQGAPLLILANKQDLPDAVSADEL-ARYLDL-KKLDERVCMFEAVSGYDGFGIKESV 165
             +E L G P+L+LANKQD+   +S  ++   + D   K+  R C+ +A S   G G++E +
Sbjct:   121 SEALDGVPILVLANKQDVETCLSIPDIKTAFSDCTSKIGRRDCLTQACSALTGKGVREGI 180

Query:   166 EWLVEVMERS 175
             EW+V+ + R+
Sbjct:   181 EWMVKCVVRN 190

GO:0005525 "GTP binding" evidence=IEA

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

GO:0005622 "intracellular" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q8BXL7	ARFRP_MOUSE	No assigned EC number	0.4	0.9114	0.8706	yes	no
Q63055	ARFRP_RAT	No assigned EC number	0.4	0.9114	0.8706	yes	no
Q02804	ARL3_YEAST	No assigned EC number	0.3179	0.9114	0.8838	yes	no
Q5R579	ARFRP_PONAB	No assigned EC number	0.3947	0.9114	0.8706	yes	no
Q13795	ARFRP_HUMAN	No assigned EC number	0.3947	0.9114	0.8706	yes	no
Q32LJ2	ARFRP_BOVIN	No assigned EC number	0.3894	0.9114	0.8706	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: estExt_Genewise1_v1.C_LG_XII1001 hypothetical protein (204 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	192
cd04160	168	cd04160, Arfrp1, Arf-related protein 1 (Arfrp1)	7e-81
cd00878	158	cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf	3e-53
pfam00025	174	pfam00025, Arf, ADP-ribosylation factor family	6e-42
cd04155	174	cd04155, Arl3, Arf-like 3 (Arl3) GTPase	1e-39
cd04154	173	cd04154, Arl2, Arf-like 2 (Arl2) GTPase	2e-38
cd04153	174	cd04153, Arl5_Arl8, Arf-like 5 (Arl5) and 8 (Arl8)	1e-37
cd04159	159	cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl	4e-37
cd04151	158	cd04151, Arl1, ADP ribosylation factor 1 (Arf1)	1e-32
cd04156	160	cd04156, ARLTS1, Arf-like tumor suppressor gene 1	3e-32
cd04157	162	cd04157, Arl6, Arf-like 6 (Arl6) GTPase	3e-32
PTZ00133	182	PTZ00133, PTZ00133, ADP-ribosylation factor; Provi	8e-32
cd04150	159	cd04150, Arf1_5_like, ADP-ribosylation factor-1 (A	2e-30
cd00879	191	cd00879, Sar1, Sar1 is an essential component of C	8e-30
cd04152	183	cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7)	9e-30
cd04149	168	cd04149, Arf6, ADP ribosylation factor 6 (Arf6)	2e-29
smart00177	175	smart00177, ARF, ARF-like small GTPases; ARF, ADP-	2e-29
cd04161	167	cd04161, Arl2l1_Arl13_like, Arl2-like protein 1 (A	5e-29
PLN00223	181	PLN00223, PLN00223, ADP-ribosylation factor; Provi	6e-28
cd04158	169	cd04158, ARD1, (ADP-ribosylation factor domain pro	7e-27
cd04162	164	cd04162, Arl9_Arfrp2_like, Arf-like 9 (Arl9)/Arfrp	4e-24
smart00178	184	smart00178, SAR, Sar1p-like members of the Ras-fam	2e-19
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	4e-15
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	5e-15
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	2e-11
COG2229	187	COG2229, COG2229, Predicted GTPase [General functi	3e-11
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	4e-10
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	3e-09
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	5e-08
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	4e-07
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	8e-07
pfam00071	162	pfam00071, Ras, Ras family	1e-06
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	1e-06
pfam00503	329	pfam00503, G-alpha, G-protein alpha subunit	1e-06
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	2e-06
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	3e-06
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	9e-06
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	2e-05
PTZ00099	176	PTZ00099, PTZ00099, rab6; Provisional	2e-05
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	2e-05
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	2e-05
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	4e-05
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	5e-05
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	6e-05
cd04105	202	cd04105, SR_beta, Signal recognition particle rece	7e-05
TIGR02729	329	TIGR02729, Obg_CgtA, Obg family GTPase CgtA	7e-05
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	8e-05
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	5e-04
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	5e-04
cd04124	161	cd04124, RabL2, Rab GTPase-like family 2 (Rab-like	6e-04
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	6e-04
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	7e-04
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	0.001
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	0.001
cd01878	204	cd01878, HflX, HflX GTPase family	0.002
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	0.002
smart00275	342	smart00275, G_alpha, G protein alpha subunit	0.002
PRK12299	335	PRK12299, obgE, GTPase CgtA; Reviewed	0.003

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

 Score =  237 bits (606), Expect = 7e-81
 Identities = 81/155 (52%), Positives = 110/155 (70%), Gaps = 3/155 (1%)

Query: 20  TLLEKLKSVYS-NVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYE 78
           T LE+ K+ +S N +GL P +I PTVGLNIG IEV  ++L+FWDLGGQ  LRS+W+KYY 
Sbjct: 14  TFLEQTKTKFSKNYKGLNPSKITPTVGLNIGTIEVGKARLMFWDLGGQEELRSLWDKYYA 73

Query: 79  EAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYL 138
           E+H V++VID+    RF +SK+A EKV+ NE L+G PLL+LANKQDLPDA+S  E+    
Sbjct: 74  ESHGVIYVIDSTDRERFNESKSAFEKVINNEALEGVPLLVLANKQDLPDALSVAEIKEVF 133

Query: 139 DLK--KLDERVCMFEAVSGYDGFGIKESVEWLVEV 171
           D     +  R C+ + VS  +G G++E +EWLV+ 
Sbjct: 134 DDCIALIGRRDCLVQPVSALEGEGVEEGIEWLVDC 168

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

 Score =  166 bits (424), Expect = 3e-53
 Identities = 62/156 (39%), Positives = 90/156 (57%), Gaps = 10/156 (6%)

Query: 15  KTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWE 74
           KT   T+L KLK              +PT+G N+  +E  N K   WD+GGQ  +R +W+
Sbjct: 12  KT---TILYKLK-------LGEVVTTIPTIGFNVETVEYKNVKFTVWDVGGQDKIRPLWK 61

Query: 75  KYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADEL 134
            YYE    ++FV+D++   R E++K  L K+L  E+L+GAPLLILANKQDLP A++  EL
Sbjct: 62  HYYENTDGLIFVVDSSDRERIEEAKNELHKLLNEEELKGAPLLILANKQDLPGALTESEL 121

Query: 135 ARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE 170
              L L+ +  R    +  S   G G+ E ++WL+E
Sbjct: 122 IELLGLESIKGRRWHIQPCSAVTGDGLDEGLDWLIE 157

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|200938 pfam00025, Arf, ADP-ribosylation factor family

 Score =  138 bits (350), Expect = 6e-42
 Identities = 63/159 (39%), Positives = 85/159 (53%), Gaps = 16/159 (10%)

Query: 15  KTEFHTLLEKLKSVYSNVEGLPPDRIV---PTVGLNIGRIEVSNSKLVFWDLGGQPGLRS 71
           KT   T+L KLK             IV   PT+G N+  +   N K   WD+GGQ  LR 
Sbjct: 27  KT---TILYKLK----------LGEIVTTIPTIGFNVETVTYKNVKFTVWDVGGQESLRP 73

Query: 72  IWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSA 131
           +W  Y+    AV+FV+D+A   R E++K  L  +L  E+L  APLLILANKQDLP A+S 
Sbjct: 74  LWRNYFPNTDAVIFVVDSADRDRIEEAKEELHALLNEEELADAPLLILANKQDLPGAMSE 133

Query: 132 DELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE 170
            E+   L L +L +R    +  S   G G+ E ++WL  
Sbjct: 134 AEIRELLGLHELKDRPWEIQGCSAVTGEGLDEGLDWLSN 172

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

>gnl|CDD|206721 cd04155, Arl3, Arf-like 3 (Arl3) GTPase

 Score =  132 bits (334), Expect = 1e-39
 Identities = 50/131 (38%), Positives = 76/131 (58%)

Query: 40  IVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSK 99
           I PT G NI  ++    KL  WD+GGQ  +R  W  Y+E    +++VID+A   RFE++ 
Sbjct: 43  ITPTQGFNIKNVQADGFKLNVWDIGGQRKIRPYWRNYFENTDVLIYVIDSADRKRFEEAG 102

Query: 100 TALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGF 159
             L ++L  E L G P+L+ ANKQDL  A  A+E+A  L+L  + +R    +A S   G 
Sbjct: 103 QELVELLEEEKLAGVPVLVFANKQDLLTAAPAEEVAEALNLHDIRDRSWHIQACSAKTGE 162

Query: 160 GIKESVEWLVE 170
           G++E + W+ +
Sbjct: 163 GLQEGMNWVCK 173

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. Length = 174

>gnl|CDD|206720 cd04154, Arl2, Arf-like 2 (Arl2) GTPase

 Score =  129 bits (327), Expect = 2e-38
 Identities = 58/150 (38%), Positives = 83/150 (55%), Gaps = 7/150 (4%)

Query: 20  TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEE 79
           T+L+K         G     I PT+G NI  +E +  KL  WD+GGQ  LRS W  Y+E 
Sbjct: 29  TILKKFN-------GEDISTISPTLGFNIKTLEYNGYKLNIWDVGGQKSLRSYWRNYFES 81

Query: 80  AHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLD 139
             A+++V+D++  +R ED K  L+K+L  E L GA LLI ANKQDLP A+S +E+   L+
Sbjct: 82  TDALIWVVDSSDRARLEDCKRELQKLLVEERLAGATLLIFANKQDLPGALSPEEIREVLE 141

Query: 140 LKKLDERVCMFEAVSGYDGFGIKESVEWLV 169
           L  +          S   G  + + ++WLV
Sbjct: 142 LDSIKSHHWRIFGCSAVTGENLLDGIDWLV 171

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. Length = 173

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

 Score =  127 bits (322), Expect = 1e-37
 Identities = 48/128 (37%), Positives = 71/128 (55%)

Query: 42  PTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTA 101
           PT+G N+  I   N + + WD+GGQ  LRS W  YY    AV+ VID+    R   +K  
Sbjct: 45  PTIGSNVEEIVYKNIRFLMWDIGGQESLRSSWNTYYTNTDAVILVIDSTDRERLPLTKEE 104

Query: 102 LEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGI 161
           L K+L +EDL+ A LL+LANKQDL  A++  E++  L L  + +     +      G G+
Sbjct: 105 LYKMLAHEDLRKAVLLVLANKQDLKGAMTPAEISESLGLTSIRDHTWHIQGCCALTGEGL 164

Query: 162 KESVEWLV 169
            E ++W+ 
Sbjct: 165 PEGLDWIA 172

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

 Score =  125 bits (317), Expect = 4e-37
 Identities = 52/131 (39%), Positives = 81/131 (61%), Gaps = 2/131 (1%)

Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PTVG N+ ++   N  +  WDLGGQP  RS+WE+Y    +A+V+V+DAA   + E +K 
Sbjct: 29  IPTVGFNMRKVTKGNVTIKVWDLGGQPRFRSMWERYCRGVNAIVYVVDAADREKLEVAKN 88

Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDER-VCMFEAVSGYDGF 159
            L  +L    L+G PLL+L NK DLP A+S DEL   ++LK + +R V  + ++S  +  
Sbjct: 89  ELHDLLEKPSLEGIPLLVLGNKNDLPGALSVDELIEQMNLKSITDREVSCY-SISAKEKT 147

Query: 160 GIKESVEWLVE 170
            I   ++WL++
Sbjct: 148 NIDIVLDWLIK 158

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

 Score =  114 bits (286), Expect = 1e-32
 Identities = 50/131 (38%), Positives = 73/131 (55%)

Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PT+G N+  +   N K   WDLGGQ  +R  W  YY    A+++V+D+    R   SK+
Sbjct: 28  IPTIGFNVETVTYKNLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVDSTDRDRLGISKS 87

Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            L  +L  E+L+ A LL+ ANKQD+P A+S  E+A  L L +L +R       S   G G
Sbjct: 88  ELHAMLEEEELKDAVLLVFANKQDMPGALSEAEVAEKLGLSELKDRTWQIFKTSATKGEG 147

Query: 161 IKESVEWLVEV 171
           + E ++WLV  
Sbjct: 148 LDEGMDWLVNT 158

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

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

 Score =  113 bits (285), Expect = 3e-32
 Identities = 52/146 (35%), Positives = 87/146 (59%), Gaps = 9/146 (6%)

Query: 20  TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEV-SNSKLVFWDLGGQPGLRSIWEKYYE 78
           TLL KLK              +PTVG N+  +++  +  L  WD+GGQ  +R++W+ Y E
Sbjct: 14  TLLYKLK-------HAELVTTIPTVGFNVEMLQLEKHLSLTVWDVGGQEKMRTVWKCYLE 66

Query: 79  EAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYL 138
               +V+V+D++  +R ++S+  L+ +L+NE ++G P+++LANKQDLP A++A+E+ R  
Sbjct: 67  NTDGLVYVVDSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPGALTAEEITRRF 126

Query: 139 DLKKL-DERVCMFEAVSGYDGFGIKE 163
            LKK   +R    +  S   G G+ E
Sbjct: 127 KLKKYCSDRDWYVQPCSAVTGEGLAE 152

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|206722 cd04157, Arl6, Arf-like 6 (Arl6) GTPase

 Score =  113 bits (284), Expect = 3e-32
 Identities = 47/131 (35%), Positives = 74/131 (56%), Gaps = 2/131 (1%)

Query: 40  IVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSK 99
           IVPTVG N+   +  N     +D+ GQ   R +WE YY+    ++FVID++   R   +K
Sbjct: 29  IVPTVGFNVESFKKGNLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVIDSSDRLRMVVAK 88

Query: 100 TALEKVLRNEDLQGA--PLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYD 157
             LE +L + D++    P+L  ANK DLPDA++A ++ + L L+ + ++     A S   
Sbjct: 89  DELELLLNHPDIKHRRIPILFYANKMDLPDALTAVKITQLLCLENIKDKPWHIFASSALT 148

Query: 158 GFGIKESVEWL 168
           G G+ E V+WL
Sbjct: 149 GEGLDEGVDWL 159

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 Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily. Length = 162

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

 Score =  113 bits (283), Expect = 8e-32
 Identities = 47/136 (34%), Positives = 79/136 (58%)

Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PT+G N+  +E  N K   WD+GGQ  LR +W  YY+  + ++FV+D+    R  D++ 
Sbjct: 46  IPTIGFNVETVEYKNLKFTMWDVGGQDKLRPLWRHYYQNTNGLIFVVDSNDRERIGDARE 105

Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            LE++L  ++L+ A LL+ ANKQDLP+A+S  E+   L L  + +R    +        G
Sbjct: 106 ELERMLSEDELRDAVLLVFANKQDLPNAMSTTEVTEKLGLHSVRQRNWYIQGCCATTAQG 165

Query: 161 IKESVEWLVEVMERSK 176
           + E ++WL   +++S 
Sbjct: 166 LYEGLDWLSANIKKSM 181

Length = 182

>gnl|CDD|206717 cd04150, Arf1_5_like, ADP-ribosylation factor-1 (Arf1) and ADP-ribosylation factor-5 (Arf5)

 Score =  108 bits (272), Expect = 2e-30
 Identities = 45/128 (35%), Positives = 75/128 (58%)

Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PT+G N+  +E  N     WD+GGQ  +R +W  Y++    ++FV+D+    R  +++ 
Sbjct: 29  IPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERIGEARE 88

Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            L+++L  ++L+ A LL+ ANKQDLP+A+SA E+   L L  L  R    +A     G G
Sbjct: 89  ELQRMLNEDELRDAVLLVFANKQDLPNAMSAAEVTDKLGLHSLRNRNWYIQATCATSGDG 148

Query: 161 IKESVEWL 168
           + E ++WL
Sbjct: 149 LYEGLDWL 156

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|206645 cd00879, Sar1, Sar1 is an essential component of COPII vesicle coats

 Score =  108 bits (271), Expect = 8e-30
 Identities = 58/172 (33%), Positives = 77/172 (44%), Gaps = 34/172 (19%)

Query: 15  KTEFHTLLEKLKSVYSNVEGLPPDRI---VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRS 71
           KT   TLL  LK           DR+   VPT+      + + N K   +DLGG    R 
Sbjct: 32  KT---TLLHMLKD----------DRLAQHVPTLHPTSEELTIGNVKFTTFDLGGHEQARR 78

Query: 72  IWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSA 131
           +W+ Y+ E   +VF++DAA P RF++SK  L+ +L +E+L   P+LIL NK D P AVS 
Sbjct: 79  VWKDYFPEVDGIVFLVDAADPERFQESKEELDSLLNDEELANVPILILGNKIDKPGAVSE 138

Query: 132 DELARYLDLKKLDER---------------VCMFEAVSGYDGFGIKESVEWL 168
           +EL   L L                     V M   V      G  E   WL
Sbjct: 139 EELREALGLYGTTTGKGGVSLKVSNIRPVEVFMCSVVKRQ---GYGEGFRWL 187

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. Length = 191

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

 Score =  107 bits (270), Expect = 9e-30
 Identities = 59/148 (39%), Positives = 87/148 (58%), Gaps = 8/148 (5%)

Query: 41  VPTVGLNIGRIEVS--NSKLV---FWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRF 95
           VPT G N  +I+VS  N+K V   FWD+GGQ  LR +W+ Y      +VFV+D+    R 
Sbjct: 32  VPTKGFNTEKIKVSLGNAKGVTFHFWDVGGQEKLRPLWKSYTRCTDGIVFVVDSVDVERM 91

Query: 96  EDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKL-DERVCMFEAVS 154
           E++KT L K+ +  + QG P+L+LANKQDLP+A+   E+ + L L +L        +   
Sbjct: 92  EEAKTELHKITKFSENQGVPVLVLANKQDLPNALPVSEVEKLLALHELSSSTPWHVQPAC 151

Query: 155 GYDGFGIKESVEWLVEVMERSKRTEMLR 182
              G G++E +E L E++   KR +MLR
Sbjct: 152 AIIGEGLQEGLEKLYEMI--LKRRKMLR 177

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|206716 cd04149, Arf6, ADP ribosylation factor 6 (Arf6)

 Score =  106 bits (267), Expect = 2e-29
 Identities = 43/128 (33%), Positives = 73/128 (57%)

Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PTVG N+  +   N K   WD+GGQ  +R +W  YY     ++FV+D+A   R ++++ 
Sbjct: 38  IPTVGFNVETVTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDSADRDRIDEARQ 97

Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            L +++ + +++ A LL+ ANKQDLPDA+   E+   L L ++ +R    +      G G
Sbjct: 98  ELHRIINDREMRDALLLVFANKQDLPDAMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDG 157

Query: 161 IKESVEWL 168
           + E + WL
Sbjct: 158 LYEGLTWL 165

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

 Score =  106 bits (266), Expect = 2e-29
 Identities = 42/128 (32%), Positives = 71/128 (55%)

Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PT+G N+  +   N     WD+GGQ  +R +W  YY     ++FV+D+    R ++++ 
Sbjct: 42  IPTIGFNVETVTYKNISFTVWDVGGQDKIRPLWRHYYTNTQGLIFVVDSNDRDRIDEARE 101

Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            L ++L  ++L+ A +L+ ANKQDLPDA+ A E+   L L  + +R    +      G G
Sbjct: 102 ELHRMLNEDELRDAVILVFANKQDLPDAMKAAEITEKLGLHSIRDRNWYIQPTCATSGDG 161

Query: 161 IKESVEWL 168
           + E + WL
Sbjct: 162 LYEGLTWL 169

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|133361 cd04161, Arl2l1_Arl13_like, Arl2-like protein 1 (Arl2l1) and Arl13

 Score =  105 bits (263), Expect = 5e-29
 Identities = 51/151 (33%), Positives = 83/151 (54%), Gaps = 9/151 (5%)

Query: 30  SNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA 89
           S ++G  P ++ PTVG    ++ +   ++  +DLGG    R IW  YY EAH +VFV+D+
Sbjct: 17  SALQGEIPKKVAPTVGFTPTKLRLDKYEVCIFDLGGGANFRGIWVNYYAEAHGLVFVVDS 76

Query: 90  ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDER--- 146
           +   R ++ K  L ++L++  + G P+L+LANKQD  +A+   ++  YL L+KL      
Sbjct: 77  SDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKNALLGADVIEYLSLEKLVNENKS 136

Query: 147 VCMFEAVSGYDGFG------IKESVEWLVEV 171
           +C  E  S  +G G      I E + WL+  
Sbjct: 137 LCHIEPCSAIEGLGKKIDPSIVEGLRWLLAA 167

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. Length = 167

>gnl|CDD|165788 PLN00223, PLN00223, ADP-ribosylation factor; Provisional

 Score =  103 bits (257), Expect = 6e-28
 Identities = 54/173 (31%), Positives = 90/173 (52%), Gaps = 5/173 (2%)

Query: 1   MFSLFYGLWKYIFTKTEFHTLLEKLKSVYSN--VEGLPPDRIV---PTVGLNIGRIEVSN 55
           M   F  L+  +F K E   L+  L +      +  L    IV   PT+G N+  +E  N
Sbjct: 1   MGLSFTKLFSRLFAKKEMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKN 60

Query: 56  SKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAP 115
                WD+GGQ  +R +W  Y++    ++FV+D+    R  +++  L ++L  ++L+ A 
Sbjct: 61  ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAV 120

Query: 116 LLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL 168
           LL+ ANKQDLP+A++A E+   L L  L +R    ++     G G+ E ++WL
Sbjct: 121 LLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWL 173

Length = 181

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

 Score = 99.7 bits (248), Expect = 7e-27
 Identities = 50/129 (38%), Positives = 75/129 (58%), Gaps = 1/129 (0%)

Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PT+G N+  +E  N K   WD+GG+  LR +W+ YY    AVVFVID++   R  ++ +
Sbjct: 28  IPTIGFNVETVEYKNLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVIDSSHRDRVSEAHS 87

Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKL-DERVCMFEAVSGYDGF 159
            L K+L  ++L+ A LLI ANKQD+  A+S +E+   L L KL   R    +      G 
Sbjct: 88  ELAKLLTEKELRDALLLIFANKQDVAGALSVEEMTELLSLHKLCCGRSWYIQGCDARSGM 147

Query: 160 GIKESVEWL 168
           G+ E ++WL
Sbjct: 148 GLYEGLDWL 156

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

 Score = 92.5 bits (230), Expect = 4e-24
 Identities = 36/111 (32%), Positives = 63/111 (56%), Gaps = 4/111 (3%)

Query: 36  PPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRF 95
             + +VPT G N   I   ++ +   ++GG   LR  W++Y   +  ++FV+D+A   R 
Sbjct: 24  SLESVVPTTGFNSVAIPTQDAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVDSADSERL 83

Query: 96  EDSKTALEKVLRNE-DLQGAPLLILANKQDLPDAVSADELARYLDLKKLDE 145
             ++  L ++L++  DL   PL++LANKQDLP A S  E+ + L+L+ +  
Sbjct: 84  PLARQELHQLLQHPPDL---PLVVLANKQDLPAARSVQEIHKELELEPIAR 131

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|197556 smart00178, SAR, Sar1p-like members of the Ras-family of small GTPases

 Score = 81.1 bits (200), Expect = 2e-19
 Identities = 45/124 (36%), Positives = 63/124 (50%), Gaps = 13/124 (10%)

Query: 20  TLLEKLKSVYSNVEGLPPDRIV---PTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKY 76
           TLL  LK+          DR+    PT       + + N K   +DLGG    R +W+ Y
Sbjct: 32  TLLHMLKN----------DRLAQHQPTQHPTSEELAIGNIKFTTFDLGGHQQARRLWKDY 81

Query: 77  YEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELAR 136
           + E + +V+++DA    RF +SK  L+ +L +E+L   P LIL NK D P A S DEL  
Sbjct: 82  FPEVNGIVYLVDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAPYAASEDELRY 141

Query: 137 YLDL 140
            L L
Sbjct: 142 ALGL 145

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus. Length = 184

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

 Score = 69.0 bits (169), Expect = 4e-15
 Identities = 44/158 (27%), Positives = 67/158 (42%), Gaps = 15/158 (9%)

Query: 20  TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNS--KLVFWDLGGQ-----PGLRSI 72
           +LL  L  +   V G   D    T   ++   E+     KLV  D  G       G   +
Sbjct: 12  SLLNAL--LGGEV-GEVSDVPGTTRDPDVYVKELDKGKVKLVLVDTPGLDEFGGLGREEL 68

Query: 73  WEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSAD 132
                  A  ++ V+D+      ED   A   +LR    +G P++++ NK DL +    +
Sbjct: 69  ARLLLRGADLILLVVDSTDRESEED---AKLLILRRLRKEGIPIILVGNKIDLLEEREVE 125

Query: 133 ELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE 170
           EL R  +L K+   V +FE VS   G G+ E  E L+E
Sbjct: 126 ELLRLEELAKI-LGVPVFE-VSAKTGEGVDELFEKLIE 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|224025 COG1100, COG1100, GTPase SAR1 and related small G proteins [General function prediction only]

 Score = 70.0 bits (171), Expect = 5e-15
 Identities = 41/181 (22%), Positives = 62/181 (34%), Gaps = 19/181 (10%)

Query: 15  KTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWE 74
           KT   TLL +L       EG PP          I      N KL  WD  GQ   RS+  
Sbjct: 18  KT---TLLNRLVG-DEFPEGYPPTIGNLDPAKTI-EPYRRNIKLQLWDTAGQEEYRSLRP 72

Query: 75  KYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADEL 134
           +YY  A+ ++ V D+      ++      + LR       P+L++ NK DL D  S+ E 
Sbjct: 73  EYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDEQSSSEE 132

Query: 135 ARYL---------DLKKLDERV-----CMFEAVSGYDGFGIKESVEWLVEVMERSKRTEM 180
                           K           +  +     G  + E  + L+  +       +
Sbjct: 133 ILNQLNREVVLLVLAPKAVLPEVANPALLETSAKSLTGPNVNELFKELLRKLLEEIEKLV 192

Query: 181 L 181
           L
Sbjct: 193 L 193

Length = 219

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

 Score = 59.4 bits (144), Expect = 2e-11
 Identities = 32/110 (29%), Positives = 51/110 (46%), Gaps = 7/110 (6%)

Query: 37  PDRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLR-SIWEKYYEEAHAVVFVIDAAC 91
           P+R   T+G++       I+    K+  WD  GQ   R S+ + YY   HAVVFV D   
Sbjct: 28  PERTEATIGVDFRERTVEIDGERIKVQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDVTN 87

Query: 92  PSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDA--VSADELARYLD 139
            + F    + +E+  ++      P +++ NK DL +   V  D   R+ D
Sbjct: 88  MASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQIQVPTDLAQRFAD 137

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

 Score = 59.4 bits (144), Expect = 3e-11
 Identities = 29/114 (25%), Positives = 53/114 (46%), Gaps = 5/114 (4%)

Query: 43  TVGLNIGRIEV-SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTA 101
           TV ++ G IE+  ++ +  +   GQ   + +WE     A   + ++D++ P  F     A
Sbjct: 54  TVAMDFGSIELDEDTGVHLFGTPGQERFKFMWEILSRGAVGAIVLVDSSRPITFH----A 109

Query: 102 LEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSG 155
            E +         P+++  NKQDL DA+  +++   L L+ L   V   +A  G
Sbjct: 110 EEIIDFLTSRNPIPVVVAINKQDLFDALPPEKIREALKLELLSVPVIEIDATEG 163

Length = 187

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

 Score = 55.5 bits (135), Expect = 4e-10
 Identities = 39/135 (28%), Positives = 56/135 (41%), Gaps = 12/135 (8%)

Query: 42  PTVGLNIG--RIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFED 97
            T+G++     IEV     KL  WD  GQ   RSI   YY  AH  + V D      FE+
Sbjct: 31  STIGVDFKSKTIEVDGKKVKLQIWDTAGQERFRSITSSYYRGAHGAILVYDVTNRESFEN 90

Query: 98  SKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSG 155
               L ++         P++++ NK DL D   VS +E  ++     L     +F   S 
Sbjct: 91  LDKWLNELKEYAP-PNIPIILVGNKSDLEDERQVSTEEAQQFAKENGL-----LFFETSA 144

Query: 156 YDGFGIKESVEWLVE 170
             G  + E+ E L  
Sbjct: 145 KTGENVDEAFESLAR 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|232886 TIGR00231, small_GTP, small GTP-binding protein domain

 Score = 53.5 bits (129), Expect = 3e-09
 Identities = 29/115 (25%), Positives = 40/115 (34%), Gaps = 12/115 (10%)

Query: 20  TLLEKLKSVY-SNVEGLPPDRIVPTVGLNI--GRIEVSNSKLVF--WDLGGQPGLRSIWE 74
           TLL +L     S  E        P    N     IE       F   D  GQ    +I  
Sbjct: 16  TLLNRLLGNKISITEY------KPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYDAIRR 69

Query: 75  KYYEEAHAVVFVIDAACP-SRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDA 128
            YY    + + V D        E+      K + +    G P++++ NK DL DA
Sbjct: 70  LYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAESGVPIILVGNKIDLRDA 124

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|197555 smart00175, RAB, Rab subfamily of small GTPases

 Score = 49.8 bits (120), Expect = 5e-08
 Identities = 30/119 (25%), Positives = 45/119 (37%), Gaps = 14/119 (11%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           KL  WD  GQ   RSI   YY  A   + V D      FE+ +  L+++          +
Sbjct: 50  KLQIWDTAGQERFRSITSSYYRGAVGALLVYDITNRESFENLENWLKELREYAS-PNVVI 108

Query: 117 LILANKQDLPD--AVS---ADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE 170
           +++ NK DL +   VS   A+  A              F   S      ++E+ E L  
Sbjct: 109 MLVGNKSDLEEQRQVSREEAEAFAEEHG--------LPFFETSAKTNTNVEEAFEELAR 159

Rab GTPases are implicated in vesicle trafficking. Length = 164

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

 Score = 47.2 bits (113), Expect = 4e-07
 Identities = 31/109 (28%), Positives = 48/109 (44%), Gaps = 8/109 (7%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           +L  WD  GQ   RS+   Y  ++   V V D      F+++   ++ V R+E      +
Sbjct: 50  RLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDV-RDERGNDVII 108

Query: 117 LILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKE 163
           +++ NK DL D   VS +E       KK  E   MF   S   G  +K+
Sbjct: 109 VLVGNKTDLSDKRQVSTEEGE-----KKAKENNAMFIETSAKAGHNVKQ 152

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

 Score = 46.8 bits (111), Expect = 8e-07
 Identities = 23/68 (33%), Positives = 33/68 (48%), Gaps = 4/68 (5%)

Query: 33 EGLPPDRIVPTVGLN--IGRIEVSNSK--LVFWDLGGQPGLRSIWEKYYEEAHAVVFVID 88
          +GL P     T+G++  I  +E+   K  L  WD  GQ   RSI + YY  A+A++   D
Sbjct: 29 QGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQERFRSITQSYYRSANALILTYD 88

Query: 89 AACPSRFE 96
            C   F 
Sbjct: 89 ITCEESFR 96

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|215692 pfam00071, Ras, Ras family

 Score = 46.0 bits (110), Expect = 1e-06
 Identities = 45/147 (30%), Positives = 69/147 (46%), Gaps = 18/147 (12%)

Query: 37  PDRIVPTVGLN--IGRIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACP 92
           P+  +PT+G++     IEV     KL  WD  GQ   R++   YY  A   + V D    
Sbjct: 25  PEEYIPTIGVDFYTKTIEVDGKTVKLQIWDTAGQERFRALRPLYYRGAQGFLLVYDITSR 84

Query: 93  SRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADE---LARYLDLKKLDERV 147
             FE+ K  LE++LR+ D +  P++++ NK DL D   VS +E   LA+ L L       
Sbjct: 85  DSFENVKKWLEEILRHAD-ENVPIVLVGNKCDLEDQRVVSTEEGEALAKELGLP------ 137

Query: 148 CMFEAVSGYDGFGIKESVEWLVEVMER 174
             F   S      ++E+ E L   + +
Sbjct: 138 --FMETSAKTNENVEEAFEELAREILK 162

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

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

 Score = 46.3 bits (110), Expect = 1e-06
 Identities = 27/92 (29%), Positives = 41/92 (44%), Gaps = 12/92 (13%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAP- 115
           KL  WD  GQ   R+I + YY  A+  +   D    S FE    ++   +   +  GA  
Sbjct: 53  KLQIWDTAGQERFRTITQSYYRSANGAIIAYDITRRSSFE----SVPHWIEEVEKYGASN 108

Query: 116 --LLILANKQDLPD--AVSADE---LARYLDL 140
             LL++ NK DL +   V  +E   LA +  +
Sbjct: 109 VVLLLIGNKCDLEEQREVLFEEACTLAEHYGI 140

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|215955 pfam00503, G-alpha, G-protein alpha subunit

 Score = 46.9 bits (112), Expect = 1e-06
 Identities = 23/95 (24%), Positives = 44/95 (46%), Gaps = 10/95 (10%)

Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAAC--------- 91
           V T G+   + +    K   +D+GGQ   R  W   +E+  A++FV+  +          
Sbjct: 153 VKTTGIIETKFDFKGLKFRLFDVGGQRSERKKWIHCFEDVTAIIFVVSLSEYDQVLYEDD 212

Query: 92  -PSRFEDSKTALEKVLRNEDLQGAPLLILANKQDL 125
             +R E+S    E++  +   +  P+++  NK+DL
Sbjct: 213 STNRLEESLNLFEEICNSPWFKNTPIILFLNKKDL 247

G proteins couple receptors of extracellular signals to intracellular signaling pathways. The G protein alpha subunit binds guanyl nucleotide and is a weak GTPase. A set of residues that are unique to G-alpha as compared to its ancestor the Arf-like family form a ring of residues centered on the nucleotide binding site. A Ggamma is found fused to an inactive Galpha in the Dictyostelium protein gbqA. Length = 329

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

 Score = 45.4 bits (108), Expect = 2e-06
 Identities = 31/118 (26%), Positives = 50/118 (42%), Gaps = 12/118 (10%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           KL  WD  GQ   R++   YY  A  V+ V D      F++  T L ++        A  
Sbjct: 50  KLAIWDTAGQERFRTLTSSYYRGAQGVILVYDVTRRDTFDNLDTWLNELDTYSTNPDAVK 109

Query: 117 LILANKQDLPD-AVSADE---LARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE 170
           +++ NK D  +  V+ +E    AR        +   +F   S     G++++ E LVE
Sbjct: 110 MLVGNKIDKENREVTREEGQKFAR--------KHNMLFIETSAKTRIGVQQAFEELVE 159

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

 Score = 45.6 bits (108), Expect = 3e-06
 Identities = 35/104 (33%), Positives = 52/104 (50%), Gaps = 9/104 (8%)

Query: 43  TVGLNI--GRIEVSNSKLV---FWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFED 97
           T+GL+    RI +  S  V    WD+GGQ     + +KY   A AV  V D      FE+
Sbjct: 32  TIGLDFFSRRITLPGSLNVTLQVWDIGGQQIGGKMLDKYIYGAQAVCLVYDITNSQSFEN 91

Query: 98  SKTALEKVLR-NEDLQGAPLLIL-ANKQDLPD--AVSADELARY 137
            +  L  V + NE+ +  P ++L  NK DL     V+A++ AR+
Sbjct: 92  LEDWLSVVKKVNEESETKPKMVLVGNKTDLEHNRQVTAEKHARF 135

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

 Score = 44.2 bits (105), Expect = 9e-06
 Identities = 27/96 (28%), Positives = 43/96 (44%), Gaps = 9/96 (9%)

Query: 51  IEVSNSKLV---FWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDS---KTALEK 104
           IE   + +V    WD+ GQ     +   YY+ A   + V D   PS FE     K  L+ 
Sbjct: 42  IEWDPNTVVRLQLWDIAGQERFGGMTRVYYKGAVGAIIVFDVTRPSTFEAVLKWKADLDS 101

Query: 105 VLRNEDLQGAPLLILANKQDL---PDAVSADELARY 137
            +   + +  P L+LANK DL     A   +++ ++
Sbjct: 102 KVTLPNGEPIPALLLANKCDLKKERLAKDPEQMDQF 137

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

 Score = 42.7 bits (101), Expect = 2e-05
 Identities = 33/105 (31%), Positives = 50/105 (47%), Gaps = 11/105 (10%)

Query: 43  TVGLN--IGRIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDS 98
           T+G++  I  IE+     KL  WD  GQ   R+I   YY  AH ++ V D      F + 
Sbjct: 34  TIGVDFKIRTIELDGKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDQESFNNV 93

Query: 99  KTALEKVLR--NEDLQGAPLLILANKQDLPD--AVSADELARYLD 139
           K  L+++ R  +E++     L++ NK DL D   V   E   + D
Sbjct: 94  KQWLQEIDRYASENVNK---LLVGNKCDLTDKKVVDYTEAKEFAD 135

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|185444 PTZ00099, PTZ00099, rab6; Provisional

 Score = 43.2 bits (101), Expect = 2e-05
 Identities = 31/108 (28%), Positives = 49/108 (45%), Gaps = 8/108 (7%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           +L  WD  GQ   RS+   Y  ++ A + V D      FE++   ++ +L NE  +   +
Sbjct: 30  RLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDIL-NERGKDVII 88

Query: 117 LILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIK 162
            ++ NK DL D   V+ +E      ++K  E   MF   S   G  IK
Sbjct: 89  ALVGNKTDLGDLRKVTYEE-----GMQKAQEYNTMFHETSAKAGHNIK 131

Length = 176

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

 Score = 42.9 bits (101), Expect = 2e-05
 Identities = 34/127 (26%), Positives = 53/127 (41%), Gaps = 9/127 (7%)

Query: 43  TVGLN--IGRIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDS 98
           T+G++  + R EV      L  WD  GQ   + I   YY  A A++ V D    +  E +
Sbjct: 32  TIGVDFEMERFEVLGVPFSLQLWDTAGQERFKCIASTYYRGAQAIIIVFDLTDVASLEHT 91

Query: 99  KTALEKVLRNEDLQGAPLLILANKQDL--PDAVSADELARYLDLKKLDERVCMFEAVSGY 156
           +  LE  L+  D     L ++  K+DL  P       L     +K   E    + AVS  
Sbjct: 92  RQWLEDALKENDPSSVLLFLVGTKKDLSSPAQY---ALMEQDAIKLAREMKAEYWAVSAL 148

Query: 157 DGFGIKE 163
            G  +++
Sbjct: 149 TGENVRD 155

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

 Score = 42.6 bits (101), Expect = 2e-05
 Identities = 31/110 (28%), Positives = 51/110 (46%), Gaps = 10/110 (9%)

Query: 41  VPTVGLN--IGRIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE 96
           + T+G++  I  IE+     KL  WD  GQ   R+I   YY  A  ++ V D      FE
Sbjct: 33  ISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTITTSYYRGAMGIILVYDITDEKSFE 92

Query: 97  DSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADE---LARYLDLK 141
           + K  +  +  +   +    +++ NK D+ +   VS +E   LAR   +K
Sbjct: 93  NIKNWMRNIDEHAS-EDVERMLVGNKCDMEEKRVVSKEEGEALAREYGIK 141

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

 Score = 42.1 bits (99), Expect = 4e-05
 Identities = 27/85 (31%), Positives = 40/85 (47%), Gaps = 7/85 (8%)

Query: 43  TVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTAL 102
           TV +N  R+     KL  WD  GQ   R+I   YY   H V+ V D      F + K  L
Sbjct: 47  TVEINGERV-----KLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTNGESFVNVKRWL 101

Query: 103 EKVLRNEDLQGAPLLILANKQDLPD 127
           +++ +N D      +++ NK D P+
Sbjct: 102 QEIEQNCDD--VCKVLVGNKNDDPE 124

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

 Score = 41.6 bits (98), Expect = 5e-05
 Identities = 28/107 (26%), Positives = 51/107 (47%), Gaps = 18/107 (16%)

Query: 41  VPTVGLNIG--RIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE 96
           +PT+G++ G  ++ V N   ++ F+DL G P    +  ++Y++   V+ V D        
Sbjct: 30  LPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVYDV----TDR 85

Query: 97  DSKTALEK--------VLRNEDLQGAPLLILANKQDLPD--AVSADE 133
            S  AL+            + +++   +++ ANK DL    AVS DE
Sbjct: 86  QSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRAVSEDE 132

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

 Score = 41.3 bits (97), Expect = 6e-05
 Identities = 30/97 (30%), Positives = 40/97 (41%), Gaps = 7/97 (7%)

Query: 43  TVGLNIG----RIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDS 98
           T+G+  G     I+    KL  WD  GQ   RSI   YY  A   + V D      F   
Sbjct: 36  TIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHL 95

Query: 99  KTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADE 133
            + LE   ++ +     +LI  NK DL     VS +E
Sbjct: 96  TSWLEDARQHSNSNMTIMLI-GNKCDLESRREVSYEE 131

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|206691 cd04105, SR_beta, Signal recognition particle receptor, beta subunit (SR-beta), together with SR-alpha, forms the heterodimeric signal recognition particle (SRP)

 Score = 41.5 bits (98), Expect = 7e-05
 Identities = 26/83 (31%), Positives = 42/83 (50%), Gaps = 8/83 (9%)

Query: 55  NSKLVFWDLGGQPGLRSIWEKYYEEAH-AVVFVIDAACPSRFEDSKTALE---KVLRN-E 109
             KL   D+ G   LR    +Y + +  A+VFV+D+A  +  ++ +   E    +L + E
Sbjct: 46  GKKLTLVDVPGHEKLRDKLLEYLKASLKAIVFVVDSA--TFQKNIRDVAEFLYDILTDLE 103

Query: 110 DLQGA-PLLILANKQDLPDAVSA 131
            ++   P+LI  NKQDL  A  A
Sbjct: 104 KIKNKIPILIACNKQDLFTAKPA 126

Signal recognition particle receptor, beta subunit (SR-beta). 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 type of cancer. Length = 202

>gnl|CDD|233986 TIGR02729, Obg_CgtA, Obg family GTPase CgtA

 Score = 42.0 bits (100), Expect = 7e-05
 Identities = 25/101 (24%), Positives = 44/101 (43%), Gaps = 10/101 (9%)

Query: 78  EEAHAVVFVIDAACPSRFEDSKTALEKVLR-----NEDLQGAPLLILANKQDLPDAVSAD 132
           E    ++ +ID + P    D     E +       + +L   P +++ NK DL D    +
Sbjct: 234 ERTRVLLHLIDIS-PEDGSDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDEEELE 292

Query: 133 ELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVME 173
           EL + L  + L + V     +S   G G+ E +  L E++E
Sbjct: 293 ELLKEL-KEALGKPVF---PISALTGEGLDELLYALAELLE 329

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 [Protein synthesis, Other]. Length = 329

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

 Score = 41.3 bits (97), Expect = 8e-05
 Identities = 27/123 (21%), Positives = 56/123 (45%), Gaps = 14/123 (11%)

Query: 58  LVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLL 117
           L  WD  GQ   RS+   ++ +A   + + D      F + +  + ++  +   +   ++
Sbjct: 65  LQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSEQSFLNVRNWMSQLQAHAYCENPDIV 124

Query: 118 ILANKQDLPD--AVSAD---ELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE-V 171
           ++ NK DLPD   VS     ELA    +   +         +G +   ++++VE L++ +
Sbjct: 125 LIGNKADLPDQREVSERQARELADKYGIPYFETSAA-----TGQN---VEKAVETLLDLI 176

Query: 172 MER 174
           M+R
Sbjct: 177 MKR 179

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

 Score = 38.6 bits (90), Expect = 5e-04
 Identities = 26/92 (28%), Positives = 39/92 (42%), Gaps = 11/92 (11%)

Query: 43  TVGLNIG----RIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDS 98
           T+G+  G     +   + KL  WD  GQ   RS+   YY  A   + V D      F   
Sbjct: 32  TIGVEFGSRVVNVGGKSVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRESFN-- 89

Query: 99  KTALEKVLRNEDLQGAP---LLILANKQDLPD 127
             AL   L +     +P   ++++ NK+DL D
Sbjct: 90  --ALTNWLTDARTLASPDIVIILVGNKKDLED 119

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

 Score = 38.6 bits (90), Expect = 5e-04
 Identities = 32/122 (26%), Positives = 49/122 (40%), Gaps = 21/122 (17%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFV---IDAACPSRFEDSKTALEKVLRNEDLQG 113
           +L+ WD  GQ    +I + YY  A A + V    D       E  K  +E    +     
Sbjct: 52  RLMLWDTAGQEEFDAITKAYYRGAQACILVFSTTDRESFEAIESWKEKVEAECGD----- 106

Query: 114 APLLILANKQDLPD--AVSADE---LARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL 168
            P++++  K DL D   ++ +E   LA+ L L             S  D F + E  E+L
Sbjct: 107 IPMVLVQTKIDLLDQAVITNEEAEALAKRLQLP--------LFRTSVKDDFNVTELFEYL 158

Query: 169 VE 170
            E
Sbjct: 159 AE 160

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

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

 Score = 38.3 bits (89), Expect = 6e-04
 Identities = 23/71 (32%), Positives = 37/71 (52%), Gaps = 2/71 (2%)

Query: 60  FWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLIL 119
           FWD  GQ   +++   YY +AHA + V D      +++     E+ LR E     P +++
Sbjct: 53  FWDTAGQERFQTMHASYYHKAHACILVFDVTRKITYKNLSKWYEE-LR-EYRPEIPCIVV 110

Query: 120 ANKQDLPDAVS 130
           ANK DL  +V+
Sbjct: 111 ANKIDLDPSVT 121

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

 Score = 38.7 bits (90), Expect = 6e-04
 Identities = 23/71 (32%), Positives = 38/71 (53%), Gaps = 5/71 (7%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLR--NEDLQGA 114
           KL  WD  GQ   RS+   YY +AHA++ + D    S F++ +  L ++L     D+   
Sbjct: 51  KLQIWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKSSFDNIRAWLTEILEYAQSDVV-- 108

Query: 115 PLLILANKQDL 125
            +++L NK D+
Sbjct: 109 -IMLLGNKADM 118

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

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

 Score = 38.3 bits (89), Expect = 7e-04
 Identities = 33/128 (25%), Positives = 51/128 (39%), Gaps = 12/128 (9%)

Query: 43  TVGLNIGR--IEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDS 98
           T+G+  G   IEV+    KL  WD  GQ   R++   YY  A   + V D    S +   
Sbjct: 34  TIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHL 93

Query: 99  KTALEKVLRNEDLQGAPLLILANKQDLPDA--VSADELARYLDLKKLDERVCMFEAVSGY 156
            + L       +      LI  NK DL     V+ +E  ++ D   L     +F   S  
Sbjct: 94  SSWLTDARNLTNPNTVIFLI-GNKADLEAQRDVTYEEAKQFADENGL-----LFLECSAK 147

Query: 157 DGFGIKES 164
            G  ++++
Sbjct: 148 TGENVEDA 155

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

 Score = 37.9 bits (89), Expect = 0.001
 Identities = 35/112 (31%), Positives = 47/112 (41%), Gaps = 14/112 (12%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           K   WD  GQ   RS+   YY  A A + V D      FE +K+ + K L+     G P 
Sbjct: 51  KFEIWDTAGQERYRSLAPMYYRGAAAAIVVYDITSEESFEKAKSWV-KELQE---HGPPN 106

Query: 117 LILA---NKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKE 163
           +++A   NK DL     VS +E   Y D   L     +F   S   G  + E
Sbjct: 107 IVIALAGNKADLESKRQVSTEEAQEYADENGL-----LFMETSAKTGENVNE 153

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|178655 PLN03108, PLN03108, Rab family protein; Provisional

 Score = 38.0 bits (88), Expect = 0.001
 Identities = 31/97 (31%), Positives = 41/97 (42%), Gaps = 7/97 (7%)

Query: 43  TVGLNIG--RIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDS 98
           T+G+  G   I + N   KL  WD  GQ   RSI   YY  A   + V D      F   
Sbjct: 38  TIGVEFGARMITIDNKPIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHL 97

Query: 99  KTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADE 133
            + LE   R        ++++ NK DL    AVS +E
Sbjct: 98  ASWLEDA-RQHANANMTIMLIGNKCDLAHRRAVSTEE 133

Length = 210

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

 Score = 37.4 bits (88), Expect = 0.002
 Identities = 24/94 (25%), Positives = 42/94 (44%), Gaps = 9/94 (9%)

Query: 79  EAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYL 138
           EA  ++ V+DA+ P   E+    +E+VL+       P++++ NK DL D    DE     
Sbjct: 120 EADLLLHVVDASDP-DREEQIETVEEVLKELGADDIPIILVLNKIDLLD----DEELEER 174

Query: 139 DLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVM 172
                 + V     +S   G G+    E + E++
Sbjct: 175 LRAGRPDAV----FISAKTGEGLDLLKEAIEELL 204

HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms. Length = 204

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

 Score = 36.9 bits (85), Expect = 0.002
 Identities = 38/142 (26%), Positives = 58/142 (40%), Gaps = 7/142 (4%)

Query: 44  VGLNIGRIEVSNSK--LVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTA 101
           V   I  +E+   K  L  WD  GQ    SI   YY  A  ++ V D      F+D    
Sbjct: 35  VDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKW 94

Query: 102 LEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCM-FEAVSGYDGFG 160
           + K++     + A LL++ NK D     +  E+ R    K   +   M F   S  D F 
Sbjct: 95  M-KMIDKYASEDAELLLVGNKLDCE---TDREITRQQGEKFAQQITGMRFCEASAKDNFN 150

Query: 161 IKESVEWLVEVMERSKRTEMLR 182
           + E    LV+ + +    ++LR
Sbjct: 151 VDEIFLKLVDDILKKMPLDILR 172

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|214595 smart00275, G_alpha, G protein alpha subunit

 Score = 37.6 bits (88), Expect = 0.002
 Identities = 20/95 (21%), Positives = 37/95 (38%), Gaps = 10/95 (10%)

Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVI----------DAA 90
           VPT G+      V       +D+GGQ   R  W   ++   A++F +          +  
Sbjct: 169 VPTTGIQETAFIVKKLFFRMFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEEDE 228

Query: 91  CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDL 125
             +R ++S    E +  +       +++  NK DL
Sbjct: 229 STNRMQESLNLFESICNSRWFANTSIILFLNKIDL 263

Subunit of G proteins that contains the guanine nucleotide binding site. Length = 342

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

 Score = 37.4 bits (88), Expect = 0.003
 Identities = 27/98 (27%), Positives = 44/98 (44%), Gaps = 6/98 (6%)

Query: 84  VFVIDAACPSRFEDSKTALEKVLR--NEDLQGAPLLILANKQDLPDAVSADELARYLDLK 141
           + ++D       ED KT +   L   + +L   P +++ NK DL D     E    L+L 
Sbjct: 241 LHLVDIEAVDPVEDYKT-IRNELEKYSPELADKPRILVLNKIDLLDEEEEREKRAALELA 299

Query: 142 KLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSKRTE 179
            L   V     +S   G G+ E +  L E++E ++R E
Sbjct: 300 ALGGPV---FLISAVTGEGLDELLRALWELLEEARREE 334

Length = 335

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	192
KOG0084	205	consensus GTPase Rab1/YPT1, small G protein superf	99.98
PLN00223	181	ADP-ribosylation factor; Provisional	99.97
KOG0092	200	consensus GTPase Rab5/YPT51 and related small G pr	99.97
PTZ00133	182	ADP-ribosylation factor; Provisional	99.97
KOG0094	221	consensus GTPase Rab6/YPT6/Ryh1, small G protein s	99.96
KOG0078	207	consensus GTP-binding protein SEC4, small G protei	99.96
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	99.96
KOG0098	216	consensus GTPase Rab2, small G protein superfamily	99.96
KOG0070	181	consensus GTP-binding ADP-ribosylation factor Arf1	99.96
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	99.96
KOG0093	193	consensus GTPase Rab3, small G protein superfamily	99.96
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.95
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.95
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.95
KOG0394	210	consensus Ras-related GTPase [General function pre	99.95
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	99.95
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	99.95
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.95
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.95
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.95
KOG0079	198	consensus GTP-binding protein H-ray, small G prote	99.95
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.95
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	99.95
KOG0076	197	consensus GTP-binding ADP-ribosylation factor-like	99.95
PTZ00099	176	rab6; Provisional	99.95
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	99.95
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.95
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	99.95
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.95
KOG0080	209	consensus GTPase Rab18, small G protein superfamil	99.95
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.94
KOG0087	222	consensus GTPase Rab11/YPT3, small G protein super	99.94
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.94
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.94
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.94
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	99.94
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.94
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.94
KOG0075	186	consensus GTP-binding ADP-ribosylation factor-like	99.94
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.94
KOG0091	213	consensus GTPase Rab39, small G protein superfamil	99.94
PTZ00369	189	Ras-like protein; Provisional	99.94
KOG0071	180	consensus GTP-binding ADP-ribosylation factor Arf6	99.94
KOG0095	213	consensus GTPase Rab30, small G protein superfamil	99.94
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.94
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.94
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.94
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.94
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.93
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.93
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	99.93
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.93
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.93
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.93
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.93
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.93
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.93
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.93
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.93
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.93
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.93
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.93
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.93
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.93
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.92
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.92
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.92
KOG0097	215	consensus GTPase Rab14, small G protein superfamil	99.92
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.92
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.92
PLN03110	216	Rab GTPase; Provisional	99.92
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.92
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.92
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.92
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.92
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.92
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.92
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.92
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.92
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.92
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.92
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.92
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.92
PLN03108	210	Rab family protein; Provisional	99.92
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	99.91
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.91
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.91
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.91
KOG0088	218	consensus GTPase Rab21, small G protein superfamil	99.91
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.91
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.91
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.91
KOG0081	219	consensus GTPase Rab27, small G protein superfamil	99.91
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.91
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.91
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.91
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.91
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.91
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.91
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.91
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.91
KOG0083	192	consensus GTPase Rab26/Rab37, small G protein supe	99.9
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.9
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.9
PLN03118	211	Rab family protein; Provisional	99.9
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.9
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.9
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.9
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.9
KOG0395	196	consensus Ras-related GTPase [General function pre	99.9
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.9
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.9
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.89
KOG0072	182	consensus GTP-binding ADP-ribosylation factor-like	99.89
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.89
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.89
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.89
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.88
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.88
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.88
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.88
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.88
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.87
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.87
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.87
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.86
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.85
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.85
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.84
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.83
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.83
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.83
PRK12299	335	obgE GTPase CgtA; Reviewed	99.82
KOG0074	185	consensus GTP-binding ADP-ribosylation factor-like	99.82
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.82
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.81
KOG0393	198	consensus Ras-related small GTPase, Rho type [Gene	99.8
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.8
KOG4252	246	consensus GTP-binding protein [Signal transduction	99.78
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.78
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.77
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.77
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.77
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.76
PRK12296	500	obgE GTPase CgtA; Reviewed	99.76
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.76
PRK12297	424	obgE GTPase CgtA; Reviewed	99.76
cd00881	189	GTP_translation_factor GTP translation factor fami	99.76
PLN00023	334	GTP-binding protein; Provisional	99.76
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.76
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.76
PRK03003	472	GTP-binding protein Der; Reviewed	99.75
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.75
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.75
PRK15494	339	era GTPase Era; Provisional	99.75
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.75
PRK03003	472	GTP-binding protein Der; Reviewed	99.74
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.74
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.74
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.73
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.73
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.73
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.72
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.71
COG2229	187	Predicted GTPase [General function prediction only	99.71
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.71
KOG0096	216	consensus GTPase Ran/TC4/GSP1 (nuclear protein tra	99.7
PRK00093	435	GTP-binding protein Der; Reviewed	99.7
COG1160	444	Predicted GTPases [General function prediction onl	99.7
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.7
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.69
PRK05433	600	GTP-binding protein LepA; Provisional	99.69
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.69
PRK04213	201	GTP-binding protein; Provisional	99.69
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.68
PRK12298	390	obgE GTPase CgtA; Reviewed	99.68
PRK11058	426	GTPase HflX; Provisional	99.67
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.67
COG1100	219	GTPase SAR1 and related small G proteins [General	99.67
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.67
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.66
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.66
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.66
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.65
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.65
CHL00189	742	infB translation initiation factor 2; Provisional	99.65
PRK00093	435	GTP-binding protein Der; Reviewed	99.65
PRK05306	787	infB translation initiation factor IF-2; Validated	99.64
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.63
PRK00089	292	era GTPase Era; Reviewed	99.63
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.63
PRK12317	425	elongation factor 1-alpha; Reviewed	99.63
COG0486	454	ThdF Predicted GTPase [General function prediction	99.63
COG1159	298	Era GTPase [General function prediction only]	99.62
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.61
KOG3883	198	consensus Ras family small GTPase [Signal transduc	99.6
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.6
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.6
KOG1489	366	consensus Predicted GTP-binding protein (ODN super	99.6
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.6
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.59
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.59
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.59
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.58
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.58
PRK04004	586	translation initiation factor IF-2; Validated	99.57
COG1160	444	Predicted GTPases [General function prediction onl	99.57
KOG0077	193	consensus Vesicle coat complex COPII, GTPase subun	99.56
KOG1673	205	consensus Ras GTPases [General function prediction	99.56
PRK10218	607	GTP-binding protein; Provisional	99.55
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.55
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.55
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.55
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.55
KOG0462	650	consensus Elongation factor-type GTP-binding prote	99.53
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.53
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	99.5
COG0218	200	Predicted GTPase [General function prediction only	99.5
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	99.48
COG0536	369	Obg Predicted GTPase [General function prediction	99.45
COG1084	346	Predicted GTPase [General function prediction only	99.44
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.44
PRK13351	687	elongation factor G; Reviewed	99.44
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.43
PRK12736	394	elongation factor Tu; Reviewed	99.43
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	99.42
PLN00043	447	elongation factor 1-alpha; Provisional	99.42
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.42
COG2262	411	HflX GTPases [General function prediction only]	99.42
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.41
KOG0090	238	consensus Signal recognition particle receptor, be	99.4
PRK14845	1049	translation initiation factor IF-2; Provisional	99.4
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.4
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.39
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	99.39
CHL00071	409	tufA elongation factor Tu	99.38
PRK12735	396	elongation factor Tu; Reviewed	99.38
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	99.38
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.37
PRK12740	668	elongation factor G; Reviewed	99.37
PLN03126	478	Elongation factor Tu; Provisional	99.37
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.37
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.37
KOG4423	229	consensus GTP-binding protein-like, RAS superfamil	99.37
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.37
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	99.36
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.34
COG1163	365	DRG Predicted GTPase [General function prediction	99.33
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	99.32
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.32
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	99.32
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.32
PTZ00141	446	elongation factor 1- alpha; Provisional	99.32
TIGR00503	527	prfC peptide chain release factor 3. This translat	99.31
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	99.3
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.3
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.29
PRK00049	396	elongation factor Tu; Reviewed	99.28
KOG1145	683	consensus Mitochondrial translation initiation fac	99.27
PLN03127	447	Elongation factor Tu; Provisional	99.27
PRK12739	691	elongation factor G; Reviewed	99.21
KOG0082	354	consensus G-protein alpha subunit (small G protein	99.2
PF09439	181	SRPRB: Signal recognition particle receptor beta s	99.2
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	99.16
PRK09866	741	hypothetical protein; Provisional	99.16
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	99.13
PRK13768	253	GTPase; Provisional	99.12
PRK00007	693	elongation factor G; Reviewed	99.1
PRK09602	396	translation-associated GTPase; Reviewed	99.09
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	99.07
COG1217	603	TypA Predicted membrane GTPase involved in stress	99.06
KOG1490	620	consensus GTP-binding protein CRFG/NOG1 (ODN super	99.05
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	99.04
PRK12289	352	GTPase RsgA; Reviewed	99.01
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	99.01
KOG1191	531	consensus Mitochondrial GTPase [Translation, ribos	99.01
COG3276	447	SelB Selenocysteine-specific translation elongatio	98.99
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	98.98
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	98.98
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	98.98
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.97
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	98.9
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	98.87
PRK00098	298	GTPase RsgA; Reviewed	98.87
PRK12288	347	GTPase RsgA; Reviewed	98.86
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.85
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	98.84
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	98.84
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	98.82
COG3596	296	Predicted GTPase [General function prediction only	98.81
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.79
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.76
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.75
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.75
KOG1144	1064	consensus Translation initiation factor 5B (eIF-5B	98.74
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	98.71
PLN00116	843	translation elongation factor EF-2 subunit; Provis	98.69
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.69
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.65
PTZ00416	836	elongation factor 2; Provisional	98.62
PTZ00258	390	GTP-binding protein; Provisional	98.6
KOG3887	347	consensus Predicted small GTPase involved in nucle	98.59
PRK07560	731	elongation factor EF-2; Reviewed	98.58
KOG0099	379	consensus G protein subunit Galphas, small G prote	98.55
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	98.52
KOG0458	603	consensus Elongation factor 1 alpha [Translation,	98.52
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	98.51
KOG0085	359	consensus G protein subunit Galphaq/Galphay, small	98.5
COG0012	372	Predicted GTPase, probable translation factor [Tra	98.48
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	98.47
KOG1486	364	consensus GTP-binding protein DRG2 (ODN superfamil	98.44
TIGR00101	199	ureG urease accessory protein UreG. This model rep	98.43
KOG0461	522	consensus Selenocysteine-specific elongation facto	98.43
COG0050	394	TufB GTPases - translation elongation factors [Tra	98.4
PRK09435	332	membrane ATPase/protein kinase; Provisional	98.37
PRK13796	365	GTPase YqeH; Provisional	98.32
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	98.31
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	98.31
PRK09601	364	GTP-binding protein YchF; Reviewed	98.29
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	98.26
PRK01889	356	GTPase RsgA; Reviewed	98.26
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	98.17
KOG0410	410	consensus Predicted GTP binding protein [General f	98.14
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	98.12
KOG3886	295	consensus GTP-binding protein [Signal transduction	98.11
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	98.11
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	98.1
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	98.07
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	98.06
KOG0466	466	consensus Translation initiation factor 2, gamma s	98.04
KOG0468	971	consensus U5 snRNP-specific protein [Translation,	98.02
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	97.98
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	97.97
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	97.93
KOG3905	473	consensus Dynein light intermediate chain [Cell mo	97.85
COG5258	527	GTPBP1 GTPase [General function prediction only]	97.74
KOG1487	358	consensus GTP-binding protein DRG1 (ODN superfamil	97.7
KOG0460	449	consensus Mitochondrial translation elongation fac	97.7
COG1162	301	Predicted GTPases [General function prediction onl	97.66
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	97.65
KOG0464	753	consensus Elongation factor G [Translation, riboso	97.62
KOG0465	721	consensus Mitochondrial elongation factor [Transla	97.57
KOG1954	532	consensus Endocytosis/signaling protein EHD1 [Sign	97.56
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	97.55
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	97.53
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	97.46
KOG0467	887	consensus Translation elongation factor 2/ribosome	97.45
KOG2486	320	consensus Predicted GTPase [General function predi	97.44
KOG0705	749	consensus GTPase-activating protein Centaurin gamm	97.43
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	97.42
COG1161	322	Predicted GTPases [General function prediction onl	97.42
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	97.39
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	97.38
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	97.36
COG5019	373	CDC3 Septin family protein [Cell division and chro	97.35
KOG0459	501	consensus Polypeptide release factor 3 [Translatio	97.35
KOG2484	435	consensus GTPase [General function prediction only	97.14
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	97.1
KOG1424	562	consensus Predicted GTP-binding protein MMR1 [Gene	97.09
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	97.04
cd03110	179	Fer4_NifH_child This protein family's function is	96.99
KOG1547	336	consensus Septin CDC10 and related P-loop GTPases	96.89
KOG2655	366	consensus Septin family protein (P-loop GTPase) [C	96.89
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	96.84
KOG0447	980	consensus Dynamin-like GTP binding protein [Genera	96.83
KOG1143	591	consensus Predicted translation elongation factor	96.66
KOG0469	842	consensus Elongation factor 2 [Translation, riboso	96.54
KOG1491	391	consensus Predicted GTP-binding protein (ODN super	95.99
KOG2423	572	consensus Nucleolar GTPase [General function predi	95.68
TIGR00064	272	ftsY signal recognition particle-docking protein F	95.67
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	95.36
KOG0463	641	consensus GTP-binding protein GP-1 [General functi	95.33
PRK10416	318	signal recognition particle-docking protein FtsY;	95.31
cd02036	179	MinD Bacterial cell division requires the formatio	95.02
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	94.83
KOG2485	335	consensus Conserved ATP/GTP binding protein [Gener	94.74
PRK12288	347	GTPase RsgA; Reviewed	94.74
cd03111	106	CpaE_like This protein family consists of proteins	94.7
PRK14974	336	cell division protein FtsY; Provisional	94.7
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	94.67
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	94.63
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	94.6
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	94.47
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	94.32
COG4963	366	CpaE Flp pilus assembly protein, ATPase CpaE [Intr	94.21
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	94.08
KOG3859	406	consensus Septins (P-loop GTPases) [Cell cycle con	93.83
KOG0448	749	consensus Mitofusin 1 GTPase, involved in mitochon	93.45
COG1161	322	Predicted GTPases [General function prediction onl	93.44
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	93.4
PHA02518	211	ParA-like protein; Provisional	93.33
PF09547	492	Spore_IV_A: Stage IV sporulation protein A (spore_	93.32
PF14331	266	ImcF-related_N: ImcF-related N-terminal domain	93.31
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	93.22
PRK12289	352	GTPase RsgA; Reviewed	93.02
cd03114	148	ArgK-like The function of this protein family is u	93.02
COG1149	284	MinD superfamily P-loop ATPase containing an inser	92.89
PRK09563	287	rbgA GTPase YlqF; Reviewed	92.69
PF11111	176	CENP-M: Centromere protein M (CENP-M); InterPro: I	92.61
COG1162	301	Predicted GTPases [General function prediction onl	92.57
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	92.57
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	92.5
cd02037	169	MRP-like MRP (Multiple Resistance and pH adaptatio	91.98
TIGR01007	204	eps_fam capsular exopolysaccharide family. This mo	91.94
cd03112	158	CobW_like The function of this protein family is u	91.93
PRK13849	231	putative crown gall tumor protein VirC1; Provision	91.92
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	91.77
TIGR03371	246	cellulose_yhjQ cellulose synthase operon protein Y	91.47
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	90.18
TIGR01968	261	minD_bact septum site-determining protein MinD. Th	90.11
TIGR01969	251	minD_arch cell division ATPase MinD, archaeal. Thi	90.09
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	90.02
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	89.99
cd03115	173	SRP The signal recognition particle (SRP) mediates	89.77
CHL00175	281	minD septum-site determining protein; Validated	89.75
PRK00098	298	GTPase RsgA; Reviewed	89.7
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	89.64
TIGR00959	428	ffh signal recognition particle protein. This mode	89.09
PRK13505	557	formate--tetrahydrofolate ligase; Provisional	88.77
PRK00771	437	signal recognition particle protein Srp54; Provisi	88.75
cd02032	267	Bchl_like This family of proteins contains bchL an	88.66
KOG0780	483	consensus Signal recognition particle, subunit Srp	88.28
COG0523	323	Putative GTPases (G3E family) [General function pr	88.2
PRK13185	270	chlL protochlorophyllide reductase iron-sulfur ATP	87.37
PRK13796	365	GTPase YqeH; Provisional	87.29
KOG1424	562	consensus Predicted GTP-binding protein MMR1 [Gene	85.8
KOG4273	418	consensus Uncharacterized conserved protein [Funct	85.8
cd02117	212	NifH_like This family contains the NifH (iron prot	85.66
PRK10818	270	cell division inhibitor MinD; Provisional	85.51
TIGR03815	322	CpaE_hom_Actino helicase/secretion neighborhood Cp	85.0
PRK10867	433	signal recognition particle protein; Provisional	84.89
PF01656	195	CbiA: CobQ/CobB/MinD/ParA nucleotide binding domai	83.56
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	83.14
TIGR03029	274	EpsG chain length determinant protein tyrosine kin	83.07
CHL00072	290	chlL photochlorophyllide reductase subunit L	82.89
PF07015	231	VirC1: VirC1 protein; InterPro: IPR009744 This fam	82.83
TIGR01281	268	DPOR_bchL light-independent protochlorophyllide re	81.21
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	80.53
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	80.3

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

Probab=99.98  E-value=9.6e-32  Score=191.76  Aligned_cols=147  Identities=27%  Similarity=0.447  Sum_probs=133.5

Q ss_pred             HHHHHHHhhhhccCCCCCCCCCCCCcceEEEE----EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCccc
Q 029517           19 HTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSR   94 (192)
Q Consensus        19 ~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s   94 (192)
                      -+|+.|++.      +.|.+.|..|+|+++..    ++++.++++||||+||++|+.....|+++|+|||+|||+++.+|
T Consensus        23 tCL~~Rf~~------~~f~e~~~sTIGVDf~~rt~e~~gk~iKlQIWDTAGQERFrtit~syYR~ahGii~vyDiT~~~S   96 (205)
T KOG0084|consen   23 TCLLLRFKD------DTFTESYISTIGVDFKIRTVELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIFVYDITKQES   96 (205)
T ss_pred             hhhhhhhcc------CCcchhhcceeeeEEEEEEeeecceEEEEEeeeccccHHHhhhhHhhccCCCeEEEEEEcccHHH
Confidence            378899998      99999999999999984    56678899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceE-EEEeeecCCCCHHHHHHHHHHH
Q 029517           95 FEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCM-FEAVSGYDGFGIKESVEWLVEV  171 (192)
Q Consensus        95 ~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~gi~e~~~~i~~~  171 (192)
                      |..+..|+.++.+... .+.|.++||||+|+.+  .++.+++..++.     ..+++ ++|+|||++.||+++|..|...
T Consensus        97 F~~v~~Wi~Ei~~~~~-~~v~~lLVGNK~Dl~~~~~v~~~~a~~fa~-----~~~~~~f~ETSAK~~~NVe~~F~~la~~  170 (205)
T KOG0084|consen   97 FNNVKRWIQEIDRYAS-ENVPKLLVGNKCDLTEKRVVSTEEAQEFAD-----ELGIPIFLETSAKDSTNVEDAFLTLAKE  170 (205)
T ss_pred             hhhHHHHHHHhhhhcc-CCCCeEEEeeccccHhheecCHHHHHHHHH-----hcCCcceeecccCCccCHHHHHHHHHHH
Confidence            9999999999988754 5689999999999987  788899988887     66777 9999999999999999999998


Q ss_pred             HHhcch
Q 029517          172 MERSKR  177 (192)
Q Consensus       172 i~~~~~  177 (192)
                      +.....
T Consensus       171 lk~~~~  176 (205)
T KOG0084|consen  171 LKQRKG  176 (205)
T ss_pred             HHHhcc
Confidence            876653

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.97  E-value=2e-29  Score=184.65  Aligned_cols=167  Identities=33%  Similarity=0.646  Sum_probs=137.6

Q ss_pred             ChhhhHHHHhhhhccccHH------------HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcc
Q 029517            1 MFSLFYGLWKYIFTKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPG   68 (192)
Q Consensus         1 ~~~~~~~~~~~~~kst~~~------------~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~   68 (192)
                      |+++++.+++..+....++            +|++++..      +.+. .+.||+|.++..++...+.+++||+||+++
T Consensus         1 m~~~~~~~~~~~~~~~~~ki~ivG~~~~GKTsl~~~l~~------~~~~-~~~pt~g~~~~~~~~~~~~~~i~D~~Gq~~   73 (181)
T PLN00223          1 MGLSFTKLFSRLFAKKEMRILMVGLDAAGKTTILYKLKL------GEIV-TTIPTIGFNVETVEYKNISFTVWDVGGQDK   73 (181)
T ss_pred             CchHHHHHHHHhcCCCccEEEEECCCCCCHHHHHHHHcc------CCCc-cccCCcceeEEEEEECCEEEEEEECCCCHH
Confidence            8888888887765433333            77777764      4443 468999999888888899999999999999


Q ss_pred             cHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcce
Q 029517           69 LRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVC  148 (192)
Q Consensus        69 ~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  148 (192)
                      ++..|..+++++|++|+|+|+++.++++++..++..+.......++|+++++||+|+....+.+++.+.+.+.....+.+
T Consensus        74 ~~~~~~~~~~~a~~iI~V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~l~l~~~~~~~~  153 (181)
T PLN00223         74 IRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHW  153 (181)
T ss_pred             HHHHHHHHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCCCCCHHHHHHHhCccccCCCce
Confidence            99999999999999999999999999999988888887643335799999999999988778888888777544434556


Q ss_pred             EEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          149 MFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       149 ~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      .++++||++|+||+++|+||.+.+.+
T Consensus       154 ~~~~~Sa~~g~gv~e~~~~l~~~~~~  179 (181)
T PLN00223        154 YIQSTCATSGEGLYEGLDWLSNNIAN  179 (181)
T ss_pred             EEEeccCCCCCCHHHHHHHHHHHHhh
Confidence            78899999999999999999887654

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

Probab=99.97  E-value=6.2e-30  Score=181.84  Aligned_cols=149  Identities=24%  Similarity=0.364  Sum_probs=131.4

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRF   95 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~   95 (192)
                      +|+-|...      +.|.+...||||..+..  +..  ..+++.||||+|+++|..+.+.|+|+++++|+|||+++.+||
T Consensus        20 SlV~Rfvk------~~F~e~~e~TIGaaF~tktv~~~~~~ikfeIWDTAGQERy~slapMYyRgA~AAivvYDit~~~SF   93 (200)
T KOG0092|consen   20 SLVLRFVK------DQFHENIEPTIGAAFLTKTVTVDDNTIKFEIWDTAGQERYHSLAPMYYRGANAAIVVYDITDEESF   93 (200)
T ss_pred             hhhhhhhh------CccccccccccccEEEEEEEEeCCcEEEEEEEEcCCcccccccccceecCCcEEEEEEecccHHHH
Confidence            45556555      77777789999999875  333  358999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517           96 EDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus        96 ~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      .+++.|+..+.+... +++-+.++|||+||.+  ++..+++..+++     ..+..|+|+|||+|.||+++|..|.+.+.
T Consensus        94 ~~aK~WvkeL~~~~~-~~~vialvGNK~DL~~~R~V~~~ea~~yAe-----~~gll~~ETSAKTg~Nv~~if~~Ia~~lp  167 (200)
T KOG0092|consen   94 EKAKNWVKELQRQAS-PNIVIALVGNKADLLERREVEFEEAQAYAE-----SQGLLFFETSAKTGENVNEIFQAIAEKLP  167 (200)
T ss_pred             HHHHHHHHHHHhhCC-CCeEEEEecchhhhhhcccccHHHHHHHHH-----hcCCEEEEEecccccCHHHHHHHHHHhcc
Confidence            999999999998765 6788889999999987  899999999998     78999999999999999999999999998


Q ss_pred             hcchhhh
Q 029517          174 RSKRTEM  180 (192)
Q Consensus       174 ~~~~~~~  180 (192)
                      .....+.
T Consensus       168 ~~~~~~~  174 (200)
T KOG0092|consen  168 CSDPQER  174 (200)
T ss_pred             Ccccccc
Confidence            7765444

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.97  E-value=1.7e-28  Score=179.87  Aligned_cols=169  Identities=34%  Similarity=0.644  Sum_probs=138.9

Q ss_pred             ChhhhHHHHhhhhccccHH------------HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcc
Q 029517            1 MFSLFYGLWKYIFTKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPG   68 (192)
Q Consensus         1 ~~~~~~~~~~~~~kst~~~------------~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~   68 (192)
                      |..+++++++.+++.+-++            +|++++..      +.+.. +.||+|.++..+...++.+.+|||||+++
T Consensus         1 ~~~~~~~~~~~~~~~~~~kv~lvG~~~vGKTsli~~~~~------~~~~~-~~~T~~~~~~~~~~~~~~~~l~D~~G~~~   73 (182)
T PTZ00133          1 MGLWLSSAFKSLFGKKEVRILMVGLDAAGKTTILYKLKL------GEVVT-TIPTIGFNVETVEYKNLKFTMWDVGGQDK   73 (182)
T ss_pred             CchHHHHHHHHhcCCCccEEEEEcCCCCCHHHHHHHHhc------CCccc-cCCccccceEEEEECCEEEEEEECCCCHh
Confidence            7778888888876655453            77788764      44443 68999998888888889999999999999


Q ss_pred             cHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcce
Q 029517           69 LRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVC  148 (192)
Q Consensus        69 ~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  148 (192)
                      ++..+..+++++|++|+|+|+++.++++.+..++..+.......++|+++++||.|+.+....+++.+.+.........+
T Consensus        74 ~~~~~~~~~~~ad~iI~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~l~~~~~~~~~~  153 (182)
T PTZ00133         74 LRPLWRHYYQNTNGLIFVVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLPNAMSTTEVTEKLGLHSVRQRNW  153 (182)
T ss_pred             HHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCCCCCHHHHHHHhCCCcccCCcE
Confidence            99999999999999999999999999999988888887653335789999999999987777777777776544444566


Q ss_pred             EEEEeeecCCCCHHHHHHHHHHHHHhcc
Q 029517          149 MFEAVSGYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       149 ~~~~~Sa~~~~gi~e~~~~i~~~i~~~~  176 (192)
                      .++++||++|.|++++|+||.+.+.+..
T Consensus       154 ~~~~~Sa~tg~gv~e~~~~l~~~i~~~~  181 (182)
T PTZ00133        154 YIQGCCATTAQGLYEGLDWLSANIKKSM  181 (182)
T ss_pred             EEEeeeCCCCCCHHHHHHHHHHHHHHhc
Confidence            7889999999999999999998776643

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

Probab=99.96  E-value=1.9e-29  Score=179.55  Aligned_cols=146  Identities=23%  Similarity=0.359  Sum_probs=128.6

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEE----EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRF   95 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~   95 (192)
                      +|++|.-.      +.|...|.+|||+++..    +....+++++|||+|||+|+.+.+.|++++.++|+|||+++..||
T Consensus        37 slItRf~y------d~fd~~YqATIGiDFlskt~~l~d~~vrLQlWDTAGQERFrslipsY~Rds~vaviVyDit~~~Sf  110 (221)
T KOG0094|consen   37 SLITRFMY------DKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVIVYDITDRNSF  110 (221)
T ss_pred             HHHHHHHH------hhhcccccceeeeEEEEEEEEEcCcEEEEEEEecccHHHHhhhhhhhccCCeEEEEEEeccccchH
Confidence            56666666      77889999999999974    445578999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517           96 EDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus        96 ~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      +...+|++.+...+...+.-+++||||.||.+  +++.++....++     ..+..|.++||+.|.||.++|..|...+.
T Consensus       111 e~t~kWi~dv~~e~gs~~viI~LVGnKtDL~dkrqvs~eEg~~kAk-----el~a~f~etsak~g~NVk~lFrrIaa~l~  185 (221)
T KOG0094|consen  111 ENTSKWIEDVRRERGSDDVIIFLVGNKTDLSDKRQVSIEEGERKAK-----ELNAEFIETSAKAGENVKQLFRRIAAALP  185 (221)
T ss_pred             HHHHHHHHHHHhccCCCceEEEEEcccccccchhhhhHHHHHHHHH-----HhCcEEEEecccCCCCHHHHHHHHHHhcc
Confidence            99999999999987766788999999999987  677777777776     66779999999999999999999888776


Q ss_pred             hcc
Q 029517          174 RSK  176 (192)
Q Consensus       174 ~~~  176 (192)
                      ...
T Consensus       186 ~~~  188 (221)
T KOG0094|consen  186 GME  188 (221)
T ss_pred             Ccc
Confidence            553

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

Probab=99.96  E-value=4.3e-29  Score=180.46  Aligned_cols=147  Identities=22%  Similarity=0.329  Sum_probs=133.3

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEE----EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRF   95 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~   95 (192)
                      +|+.|+.-      +.|...+..|+|+++..    +++..+.+++|||+||++|+.....|+++|.++++|||+++..||
T Consensus        27 ~~l~rf~d------~~f~~~~~sTiGIDFk~kti~l~g~~i~lQiWDtaGQerf~ti~~sYyrgA~gi~LvyDitne~Sf  100 (207)
T KOG0078|consen   27 CLLLRFSD------DSFNTSFISTIGIDFKIKTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDITNEKSF  100 (207)
T ss_pred             Hhhhhhhh------ccCcCCccceEEEEEEEEEEEeCCeEEEEEEEEcccchhHHHHHHHHHhhcCeeEEEEEccchHHH
Confidence            67777777      88999999999999983    445678999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517           96 EDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus        96 ~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      +.+..|+..+.+..+ .+.|+++||||+|+..  +++.+...+++.     ..++.|+|+|||+|.||+++|-.|.+.+.
T Consensus       101 eni~~W~~~I~e~a~-~~v~~~LvGNK~D~~~~R~V~~e~ge~lA~-----e~G~~F~EtSAk~~~NI~eaF~~La~~i~  174 (207)
T KOG0078|consen  101 ENIRNWIKNIDEHAS-DDVVKILVGNKCDLEEKRQVSKERGEALAR-----EYGIKFFETSAKTNFNIEEAFLSLARDIL  174 (207)
T ss_pred             HHHHHHHHHHHhhCC-CCCcEEEeeccccccccccccHHHHHHHHH-----HhCCeEEEccccCCCCHHHHHHHHHHHHH
Confidence            999999999988754 5899999999999987  899999999998     77999999999999999999999999998


Q ss_pred             hcchh
Q 029517          174 RSKRT  178 (192)
Q Consensus       174 ~~~~~  178 (192)
                      +....
T Consensus       175 ~k~~~  179 (207)
T KOG0078|consen  175 QKLED  179 (207)
T ss_pred             hhcch
Confidence            65433

>cd04120 Rab12 Rab12 subfamily

Probab=99.96  E-value=3e-28  Score=180.97  Aligned_cols=138  Identities=22%  Similarity=0.343  Sum_probs=115.6

Q ss_pred             CCCCCCCCCCcceEEE--EEEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCC
Q 029517           34 GLPPDRIVPTVGLNIG--RIEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNE  109 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~--~~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~  109 (192)
                      +.|...|.||+|.++.  .+..  ..+.+++|||+|+++|+.++..|++++|++|+|||++++++|+.+..|+..+.+..
T Consensus        23 ~~f~~~~~~Ti~~~~~~~~i~~~~~~v~l~iwDtaGqe~~~~l~~~y~~~ad~iIlVfDvtd~~Sf~~l~~w~~~i~~~~  102 (202)
T cd04120          23 DTFCEACKSGVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYA  102 (202)
T ss_pred             CCCCCcCCCcceeEEEEEEEEECCEEEEEEEEeCCCchhhHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhC
Confidence            6677888999998775  3333  35899999999999999999999999999999999999999999999998776553


Q ss_pred             CCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhcc
Q 029517          110 DLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~~  176 (192)
                       ..+.|+++|+||+|+..  .+..++..++++    ...++.+++|||++|.||+++|+++.+.+.+..
T Consensus       103 -~~~~piilVgNK~DL~~~~~v~~~~~~~~a~----~~~~~~~~etSAktg~gV~e~F~~l~~~~~~~~  166 (202)
T cd04120         103 -SEDAELLLVGNKLDCETDREISRQQGEKFAQ----QITGMRFCEASAKDNFNVDEIFLKLVDDILKKM  166 (202)
T ss_pred             -CCCCcEEEEEECcccccccccCHHHHHHHHH----hcCCCEEEEecCCCCCCHHHHHHHHHHHHHHhC
Confidence             25799999999999964  566667766665    123578999999999999999999999886643

Rab12 was first identified in canine cells, where it was localized to the Golgi complex. The specific function of Rab12 remains unknown, and inconsistent results about its cellular localization have been reported. More recent studies have identified Rab12 associated with post-Golgi vesicles, or with other small vesicle-like structures but not with the Golgi complex. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic

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

Probab=99.96  E-value=1.4e-28  Score=173.95  Aligned_cols=150  Identities=23%  Similarity=0.329  Sum_probs=133.9

Q ss_pred             HHHHHHHhhhhccCCCCCCCCCCCCcceEEE----EEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCccc
Q 029517           19 HTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG----RIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSR   94 (192)
Q Consensus        19 ~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~----~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s   94 (192)
                      ..|+-|...      ..|.+.+..|+|++++    +++.++++++||||+||+.|+.....|++.+.|+|+|||+++.++
T Consensus        20 Sclllrf~~------krF~~~hd~TiGvefg~r~~~id~k~IKlqiwDtaGqe~frsv~~syYr~a~GalLVydit~r~s   93 (216)
T KOG0098|consen   20 SCLLLRFTD------KRFQPVHDLTIGVEFGARMVTIDGKQIKLQIWDTAGQESFRSVTRSYYRGAAGALLVYDITRRES   93 (216)
T ss_pred             HHHHHHHhc------cCccccccceeeeeeceeEEEEcCceEEEEEEecCCcHHHHHHHHHHhccCcceEEEEEccchhh
Confidence            366777776      7788888999999998    366778999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517           95 FEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus        95 ~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                      |..+..|+..+.+... .++.+++++||+||..  +++.||...+++     .++..+.++||+++.||+|+|......+
T Consensus        94 F~hL~~wL~D~rq~~~-~NmvImLiGNKsDL~~rR~Vs~EEGeaFA~-----ehgLifmETSakt~~~VEEaF~nta~~I  167 (216)
T KOG0098|consen   94 FNHLTSWLEDARQHSN-ENMVIMLIGNKSDLEARREVSKEEGEAFAR-----EHGLIFMETSAKTAENVEEAFINTAKEI  167 (216)
T ss_pred             HHHHHHHHHHHHHhcC-CCcEEEEEcchhhhhccccccHHHHHHHHH-----HcCceeehhhhhhhhhHHHHHHHHHHHH
Confidence            9999999999998753 6899999999999977  899999999998     7899999999999999999999999888


Q ss_pred             Hhcchhhh
Q 029517          173 ERSKRTEM  180 (192)
Q Consensus       173 ~~~~~~~~  180 (192)
                      .+..+...
T Consensus       168 y~~~q~g~  175 (216)
T KOG0098|consen  168 YRKIQDGV  175 (216)
T ss_pred             HHHHHhcc
Confidence            76554433

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

Probab=99.96  E-value=1.6e-28  Score=174.01  Aligned_cols=168  Identities=36%  Similarity=0.681  Sum_probs=154.0

Q ss_pred             ChhhhHHHHhhhhccccHH------------HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcc
Q 029517            1 MFSLFYGLWKYIFTKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPG   68 (192)
Q Consensus         1 ~~~~~~~~~~~~~kst~~~------------~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~   68 (192)
                      |..++++++..++...-++            |++++++.      +++.++ .||+|.++..+.++++++.+||++|+++
T Consensus         1 MG~~~s~~~~~~~~~~e~~IlmlGLD~AGKTTILykLk~------~E~vtt-vPTiGfnVE~v~ykn~~f~vWDvGGq~k   73 (181)
T KOG0070|consen    1 MGLIFSKLFSGLFGKKEMRILMVGLDAAGKTTILYKLKL------GEIVTT-VPTIGFNVETVEYKNISFTVWDVGGQEK   73 (181)
T ss_pred             CcchhhhhhhhccCcceEEEEEEeccCCCceeeeEeecc------CCcccC-CCccccceeEEEEcceEEEEEecCCCcc
Confidence            7888999999877766665            78888887      666666 9999999999999999999999999999


Q ss_pred             cHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcce
Q 029517           69 LRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVC  148 (192)
Q Consensus        69 ~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  148 (192)
                      ++..|..|+++.+++|||+|++|.+.+.++++.+..+....+..+.|+++++||.|++++.+..++.+.+.+..+..+.+
T Consensus        74 ~R~lW~~Y~~~t~~lIfVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~als~~ei~~~L~l~~l~~~~w  153 (181)
T KOG0070|consen   74 LRPLWKHYFQNTQGLIFVVDSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQDLPGALSAAEITNKLGLHSLRSRNW  153 (181)
T ss_pred             cccchhhhccCCcEEEEEEeCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechhhccccCCHHHHHhHhhhhccCCCCc
Confidence            99999999999999999999999999999999999999887777899999999999999999999999999888888999


Q ss_pred             EEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          149 MFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       149 ~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                      .+..|+|.+|+|+.|.++|+.+.+.+.
T Consensus       154 ~iq~~~a~~G~GL~egl~wl~~~~~~~  180 (181)
T KOG0070|consen  154 HIQSTCAISGEGLYEGLDWLSNNLKKR  180 (181)
T ss_pred             EEeeccccccccHHHHHHHHHHHHhcc
Confidence            999999999999999999999887653

>cd04121 Rab40 Rab40 subfamily

Probab=99.96  E-value=5.7e-28  Score=177.86  Aligned_cols=145  Identities=21%  Similarity=0.355  Sum_probs=122.7

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEE--E--EecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--I--EVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRF   95 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~--~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~   95 (192)
                      +|+.++..      +.+...|.||+|.++..  +  +...+.+++|||+|+++|..++..+++++|++|+|||++++.+|
T Consensus        21 sll~~~~~------~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~l~~~~~~~ad~illVfD~t~~~Sf   94 (189)
T cd04121          21 EILASLQD------GSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQGRFCTIFRSYSRGAQGIILVYDITNRWSF   94 (189)
T ss_pred             HHHHHHHc------CCCCCCCCCcceeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHH
Confidence            44555554      56667788898887652  3  33458999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517           96 EDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus        96 ~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      +.+..|+..+....  .+.|+++||||.|+..  .++.+++.++++     ..++++++|||++|.||+++|++|.+.+.
T Consensus        95 ~~~~~w~~~i~~~~--~~~piilVGNK~DL~~~~~v~~~~~~~~a~-----~~~~~~~e~SAk~g~~V~~~F~~l~~~i~  167 (189)
T cd04121          95 DGIDRWIKEIDEHA--PGVPKILVGNRLHLAFKRQVATEQAQAYAE-----RNGMTFFEVSPLCNFNITESFTELARIVL  167 (189)
T ss_pred             HHHHHHHHHHHHhC--CCCCEEEEEECccchhccCCCHHHHHHHHH-----HcCCEEEEecCCCCCCHHHHHHHHHHHHH
Confidence            99999999997754  5799999999999965  677888888886     55789999999999999999999999887


Q ss_pred             hcch
Q 029517          174 RSKR  177 (192)
Q Consensus       174 ~~~~  177 (192)
                      ....
T Consensus       168 ~~~~  171 (189)
T cd04121         168 MRHG  171 (189)
T ss_pred             HhcC
Confidence            6554

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

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

Probab=99.96  E-value=1.3e-28  Score=167.75  Aligned_cols=148  Identities=20%  Similarity=0.312  Sum_probs=129.8

Q ss_pred             HHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EE-ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCccc
Q 029517           19 HTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IE-VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSR   94 (192)
Q Consensus        19 ~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s   94 (192)
                      -+++-|...      +.|...+..|.|+.+..   +. .+.++++||||+|+++|+.....|+++++++|+|||+++.+|
T Consensus        35 TSfl~ry~d------dSFt~afvsTvGidFKvKTvyr~~kRiklQiwDTagqEryrtiTTayyRgamgfiLmyDitNeeS  108 (193)
T KOG0093|consen   35 TSFLFRYAD------DSFTSAFVSTVGIDFKVKTVYRSDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEES  108 (193)
T ss_pred             hhhhHHhhc------cccccceeeeeeeeEEEeEeeecccEEEEEEEecccchhhhHHHHHHhhccceEEEEEecCCHHH
Confidence            356666665      78888999999999874   22 245899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517           95 FEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus        95 ~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                      |..++.|...|...++ .+.|+|+++||+|+..  .++.|..+.++.     ..|+.|||+|||.+.||+++|+.++..+
T Consensus       109 f~svqdw~tqIktysw-~naqvilvgnKCDmd~eRvis~e~g~~l~~-----~LGfefFEtSaK~NinVk~~Fe~lv~~I  182 (193)
T KOG0093|consen  109 FNSVQDWITQIKTYSW-DNAQVILVGNKCDMDSERVISHERGRQLAD-----QLGFEFFETSAKENINVKQVFERLVDII  182 (193)
T ss_pred             HHHHHHHHHHheeeec-cCceEEEEecccCCccceeeeHHHHHHHHH-----HhChHHhhhcccccccHHHHHHHHHHHH
Confidence            9999999999998866 6899999999999977  577788888887     7789999999999999999999999999


Q ss_pred             Hhcchh
Q 029517          173 ERSKRT  178 (192)
Q Consensus       173 ~~~~~~  178 (192)
                      .+.+..
T Consensus       183 c~kmse  188 (193)
T KOG0093|consen  183 CDKMSE  188 (193)
T ss_pred             HHHhhh
Confidence            877643

>cd04149 Arf6 Arf6 subfamily

Probab=99.95  E-value=5.2e-27  Score=169.92  Aligned_cols=132  Identities=33%  Similarity=0.714  Sum_probs=115.0

Q ss_pred             CCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEE
Q 029517           39 RIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLI  118 (192)
Q Consensus        39 ~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piii  118 (192)
                      .+.||+|.++..+...++.+++|||||+++++..+..+++++|++|+|+|++++.+++++..|+..+.......++|+++
T Consensus        36 ~~~~t~g~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii~v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piil  115 (168)
T cd04149          36 TTIPTVGFNVETVTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDSADRDRIDEARQELHRIINDREMRDALLLV  115 (168)
T ss_pred             cccCCcccceEEEEECCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEE
Confidence            46889999888787888999999999999999999999999999999999999999999999988887653335789999


Q ss_pred             EEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHH
Q 029517          119 LANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE  170 (192)
Q Consensus       119 v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~  170 (192)
                      |+||+|+.+..+.+++.+.+++.......+.++++||++|.||+++|+||.+
T Consensus       116 v~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~SAk~g~gv~~~~~~l~~  167 (168)
T cd04149         116 FANKQDLPDAMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLSS  167 (168)
T ss_pred             EEECcCCccCCCHHHHHHHcCCCccCCCcEEEEEeeCCCCCChHHHHHHHhc
Confidence            9999999877778888888875444455678999999999999999999865

Arf6 (ADP ribosylation factor 6) proteins localize to the plasma membrane, where they perform a wide variety of functions. In its active, GTP-bound form, Arf6 is involved in cell spreading, Rac-induced formation of plasma membrane ruffles, cell migration, wound healing, and Fc-mediated phagocytosis. Arf6 appears to change the actin structure at the plasma membrane by activating Rac, a Rho family protein involved in membrane ruffling. Arf6 is required for and enhances Rac formation of ruffles. Arf6 can regulate dendritic branching in hippocampal neurons, and in yeast it localizes to the growing bud, where it plays a role in polarized growth and bud site selection. In leukocytes, Arf6 is required for chemokine-stimulated migration across endothelial cells. Arf6 also plays a role in down-regulation of beta2-adrenergic receptors and luteinizing hormone receptors by facilitating the release of sequestered arrestin to allow endocytosis. Arf6 is believed t

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

Probab=99.95  E-value=1e-26  Score=169.45  Aligned_cols=146  Identities=33%  Similarity=0.686  Sum_probs=121.6

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSK   99 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~   99 (192)
                      +|++++..      +.+ ..+.||+|.++..+....+.+.+||+||++++...+..+++++|++|+|+|++++++++++.
T Consensus        28 sL~~~~~~------~~~-~~~~~t~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~ad~ii~v~D~t~~~s~~~~~  100 (175)
T smart00177       28 TILYKLKL------GES-VTTIPTIGFNVETVTYKNISFTVWDVGGQDKIRPLWRHYYTNTQGLIFVVDSNDRDRIDEAR  100 (175)
T ss_pred             HHHHHHhc------CCC-CCcCCccccceEEEEECCEEEEEEECCCChhhHHHHHHHhCCCCEEEEEEECCCHHHHHHHH
Confidence            45555543      334 34689999988888788899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517          100 TALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus       100 ~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                      +|+..+.......++|+++|+||.|+.+..+.+++.+.+.........+.++++||++|.||+++|+||.+.+
T Consensus       101 ~~l~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~~~  173 (175)
T smart00177      101 EELHRMLNEDELRDAVILVFANKQDLPDAMKAAEITEKLGLHSIRDRNWYIQPTCATSGDGLYEGLTWLSNNL  173 (175)
T ss_pred             HHHHHHhhCHhhcCCcEEEEEeCcCcccCCCHHHHHHHhCccccCCCcEEEEEeeCCCCCCHHHHHHHHHHHh
Confidence            9999887653335789999999999987767777777776544445567788999999999999999998764

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).

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.95  E-value=1e-26  Score=166.98  Aligned_cols=146  Identities=33%  Similarity=0.654  Sum_probs=118.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS   93 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~   93 (192)
                      |||+++++.    .      +.+. .+.||+|.++..+....+.+.+||+||++++...+..+++++|++|+|+|+++..
T Consensus        13 KTsli~~l~----~------~~~~-~~~pt~g~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~   81 (159)
T cd04150          13 KTTILYKLK----L------GEIV-TTIPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRE   81 (159)
T ss_pred             HHHHHHHHh----c------CCCc-ccCCCCCcceEEEEECCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHH
Confidence            666666653    2      3333 4689999888778788899999999999999999999999999999999999999


Q ss_pred             cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHH
Q 029517           94 RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE  170 (192)
Q Consensus        94 s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~  170 (192)
                      +++.+..++..+.......+.|+++++||+|+.+....+++.+.+.+.......+.++++||++|+||+++|+||.+
T Consensus        82 s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~Sak~g~gv~~~~~~l~~  158 (159)
T cd04150          82 RIGEAREELQRMLNEDELRDAVLLVFANKQDLPNAMSAAEVTDKLGLHSLRNRNWYIQATCATSGDGLYEGLDWLSN  158 (159)
T ss_pred             HHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCCCCCCHHHHHHHhCccccCCCCEEEEEeeCCCCCCHHHHHHHHhc
Confidence            99999998888876533356899999999999776566666665554444455677889999999999999999864

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

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

Probab=99.95  E-value=3.3e-28  Score=171.69  Aligned_cols=149  Identities=19%  Similarity=0.301  Sum_probs=128.3

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEE----EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRF   95 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~   95 (192)
                      +|++|...      ..|...|..|||.++..    ++...+.++||||+|+++|.++.-.+++++|+.++|||..++.+|
T Consensus        24 SLmn~yv~------~kF~~qykaTIgadFltKev~Vd~~~vtlQiWDTAGQERFqsLg~aFYRgaDcCvlvydv~~~~Sf   97 (210)
T KOG0394|consen   24 SLMNQYVN------KKFSQQYKATIGADFLTKEVQVDDRSVTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDVNNPKSF   97 (210)
T ss_pred             HHHHHHHH------HHHHHHhccccchhheeeEEEEcCeEEEEEEEecccHHHhhhcccceecCCceEEEEeecCChhhh
Confidence            45555555      56677889999998874    455568999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhCCCC---CCCcEEEEEeCCCCCC----CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           96 EDSKTALEKVLRNEDL---QGAPLLILANKQDLPD----AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        96 ~~~~~~~~~i~~~~~~---~~~piiiv~nK~Dl~~----~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      +.+..|.++++.....   ...|++++|||+|+.+    +++.+.++++++    ...+++|||+|||.+.||.++|+.+
T Consensus        98 e~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~~~Aq~WC~----s~gnipyfEtSAK~~~NV~~AFe~i  173 (210)
T KOG0394|consen   98 ENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSRQVSEKKAQTWCK----SKGNIPYFETSAKEATNVDEAFEEI  173 (210)
T ss_pred             ccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCccceeeHHHHHHHHH----hcCCceeEEecccccccHHHHHHHH
Confidence            9999999999875432   3579999999999965    688899999998    4668999999999999999999999


Q ss_pred             HHHHHhcchh
Q 029517          169 VEVMERSKRT  178 (192)
Q Consensus       169 ~~~i~~~~~~  178 (192)
                      .+..+...+.
T Consensus       174 a~~aL~~E~~  183 (210)
T KOG0394|consen  174 ARRALANEDR  183 (210)
T ss_pred             HHHHHhccch
Confidence            9988877643

>cd04133 Rop_like Rop subfamily

Probab=99.95  E-value=2.6e-27  Score=172.50  Aligned_cols=141  Identities=18%  Similarity=0.264  Sum_probs=118.0

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE   96 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~   96 (192)
                      +|+.|+..      +.|...|.||+|..+..   +++..++++||||+|+++|+.++..++++++++|+|||++++++|+
T Consensus        16 sli~~~~~------~~f~~~~~~Ti~~~~~~~~~~~~~~v~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilvyd~~~~~Sf~   89 (176)
T cd04133          16 CMLICYTS------NKFPTDYIPTVFDNFSANVSVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLISRASYE   89 (176)
T ss_pred             HHHHHHhc------CCCCCCCCCcceeeeEEEEEECCEEEEEEEEECCCCccccccchhhcCCCcEEEEEEEcCCHHHHH
Confidence            45555555      77888899999977652   3345689999999999999999999999999999999999999999


Q ss_pred             HH-HHHHHHHHhCCCCCCCcEEEEEeCCCCCCC------------CCHHHHHhHcCccccCCcce-EEEEeeecCCCCHH
Q 029517           97 DS-KTALEKVLRNEDLQGAPLLILANKQDLPDA------------VSADELARYLDLKKLDERVC-MFEAVSGYDGFGIK  162 (192)
Q Consensus        97 ~~-~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~  162 (192)
                      .+ ..|+..+....  .+.|+++||||+|+.+.            ++.++..+++.     ..+. .++||||++|.||+
T Consensus        90 ~~~~~w~~~i~~~~--~~~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a~-----~~~~~~~~E~SAk~~~nV~  162 (176)
T cd04133          90 NVLKKWVPELRHYA--PNVPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEELRK-----QIGAAAYIECSSKTQQNVK  162 (176)
T ss_pred             HHHHHHHHHHHHhC--CCCCEEEEEeChhhccChhhhhhccCCCCCCHHHHHHHHH-----HcCCCEEEECCCCcccCHH
Confidence            98 68999887654  47999999999999542            66777777776     4455 69999999999999


Q ss_pred             HHHHHHHHHHH
Q 029517          163 ESVEWLVEVME  173 (192)
Q Consensus       163 e~~~~i~~~i~  173 (192)
                      ++|+.+.+.+.
T Consensus       163 ~~F~~~~~~~~  173 (176)
T cd04133         163 AVFDAAIKVVL  173 (176)
T ss_pred             HHHHHHHHHHh
Confidence            99999998764

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,

>cd01875 RhoG RhoG subfamily

Probab=99.95  E-value=7.6e-27  Score=172.39  Aligned_cols=143  Identities=20%  Similarity=0.305  Sum_probs=115.0

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEE---EEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIG---RIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE   96 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~---~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~   96 (192)
                      +|+.|+..      +.|.+.|.||+|..+.   .+++..+.+++|||+|+++|+.++..+++++|++|+|||++++.+|+
T Consensus        18 sli~~~~~------~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~l~~~~~~~a~~~ilvydit~~~Sf~   91 (191)
T cd01875          18 CLLICYTT------NAFPKEYIPTVFDNYSAQTAVDGRTVSLNLWDTAGQEEYDRLRTLSYPQTNVFIICFSIASPSSYE   91 (191)
T ss_pred             HHHHHHHh------CCCCcCCCCceEeeeEEEEEECCEEEEEEEEECCCchhhhhhhhhhccCCCEEEEEEECCCHHHHH
Confidence            44555554      6777889999998765   24455689999999999999999999999999999999999999999


Q ss_pred             HHH-HHHHHHHhCCCCCCCcEEEEEeCCCCCCC--------------CCHHHHHhHcCccccCCcc-eEEEEeeecCCCC
Q 029517           97 DSK-TALEKVLRNEDLQGAPLLILANKQDLPDA--------------VSADELARYLDLKKLDERV-CMFEAVSGYDGFG  160 (192)
Q Consensus        97 ~~~-~~~~~i~~~~~~~~~piiiv~nK~Dl~~~--------------~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~g  160 (192)
                      .+. .|+..+....  .++|+++|+||.|+.+.              +..++..++++     ..+ .+++++||++|.|
T Consensus        92 ~~~~~w~~~i~~~~--~~~piilvgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~-----~~~~~~~~e~SAk~g~~  164 (191)
T cd01875          92 NVRHKWHPEVCHHC--PNVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGALAK-----QIHAVKYLECSALNQDG  164 (191)
T ss_pred             HHHHHHHHHHHhhC--CCCCEEEEEeChhhhcChhhHHHHhhccCCCCCHHHHHHHHH-----HcCCcEEEEeCCCCCCC
Confidence            997 5877776543  47999999999999642              23344444443     334 6899999999999


Q ss_pred             HHHHHHHHHHHHHhc
Q 029517          161 IKESVEWLVEVMERS  175 (192)
Q Consensus       161 i~e~~~~i~~~i~~~  175 (192)
                      |+++|+++.+.+...
T Consensus       165 v~e~f~~l~~~~~~~  179 (191)
T cd01875         165 VKEVFAEAVRAVLNP  179 (191)
T ss_pred             HHHHHHHHHHHHhcc
Confidence            999999999988653

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

>cd04158 ARD1 ARD1 subfamily

Probab=99.95  E-value=3.7e-26  Score=165.52  Aligned_cols=151  Identities=34%  Similarity=0.635  Sum_probs=125.0

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS   93 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~   93 (192)
                      |||++++|.+.          .+ ..+.||+|.++..+....+++.+|||||++.+...+..+++++|++++|+|+++++
T Consensus        12 KTsl~~~l~~~----------~~-~~~~~T~~~~~~~~~~~~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~s~~~   80 (169)
T cd04158          12 KTTILFKLKQD----------EF-MQPIPTIGFNVETVEYKNLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVVDSSHRD   80 (169)
T ss_pred             HHHHHHHHhcC----------CC-CCcCCcCceeEEEEEECCEEEEEEECCCChhcchHHHHHhccCCEEEEEEeCCcHH
Confidence            66766666432          23 34789999988888888999999999999999999999999999999999999999


Q ss_pred             cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccC-CcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517           94 RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLD-ERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus        94 s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                      +++++..|+..+.+.....+.|+++++||+|+....+.+++.+++...... ...+.++++||++|.||+++|+||.+.+
T Consensus        81 s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~~f~~l~~~~  160 (169)
T cd04158          81 RVSEAHSELAKLLTEKELRDALLLIFANKQDVAGALSVEEMTELLSLHKLCCGRSWYIQGCDARSGMGLYEGLDWLSRQL  160 (169)
T ss_pred             HHHHHHHHHHHHhcChhhCCCCEEEEEeCcCcccCCCHHHHHHHhCCccccCCCcEEEEeCcCCCCCCHHHHHHHHHHHH
Confidence            999999999999876444568999999999998777888888877643221 2245788999999999999999998876


Q ss_pred             Hhc
Q 029517          173 ERS  175 (192)
Q Consensus       173 ~~~  175 (192)
                      ...
T Consensus       161 ~~~  163 (169)
T cd04158         161 VAA  163 (169)
T ss_pred             hhc
Confidence            654

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

>cd04157 Arl6 Arl6 subfamily

Probab=99.95  E-value=1.5e-26  Score=165.85  Aligned_cols=148  Identities=33%  Similarity=0.582  Sum_probs=119.0

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS   93 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~   93 (192)
                      |||++++|.+.         ..+...+.||+|.....+...++.+.+|||||++++...+..+++++|++|+|+|+++..
T Consensus        12 KTsl~~~l~~~---------~~~~~~~~~t~g~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~   82 (162)
T cd04157          12 KTTIINQLKPE---------NAQSQIIVPTVGFNVESFEKGNLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVIDSSDRL   82 (162)
T ss_pred             HHHHHHHHccc---------CCCcceecCccccceEEEEECCEEEEEEECCCCHhhHHHHHHHHccCCEEEEEEeCCcHH
Confidence            67777766542         123456789999887777778899999999999999999999999999999999999999


Q ss_pred             cHHHHHHHHHHHHhCCC--CCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHH
Q 029517           94 RFEDSKTALEKVLRNED--LQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE  170 (192)
Q Consensus        94 s~~~~~~~~~~i~~~~~--~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~  170 (192)
                      ++..+..|+..+.+...  ..++|+++++||+|+.++...+++.+.+.+.......+.++++||++|.|++++|+||.+
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~~~~~~~~~l~~~~~~~~~~~~~~~Sa~~g~gv~~~~~~l~~  161 (162)
T cd04157          83 RLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDALTAVKITQLLGLENIKDKPWHIFASNALTGEGLDEGVQWLQA  161 (162)
T ss_pred             HHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccCCCCHHHHHHHhCCccccCceEEEEEeeCCCCCchHHHHHHHhc
Confidence            99988888888766422  147999999999999876566666666553322234567999999999999999999875

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

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.95  E-value=1.1e-26  Score=168.77  Aligned_cols=138  Identities=20%  Similarity=0.254  Sum_probs=115.3

Q ss_pred             CCCCCCCCCCcceEEE-E--EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCC
Q 029517           34 GLPPDRIVPTVGLNIG-R--IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNED  110 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~-~--~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~  110 (192)
                      +.+...+.||++..+. .  +++..+.+++|||||+++|..++..+++.+|++|+|||++++.+|+.+..|...+.+...
T Consensus        25 ~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~~ilv~d~~~~~Sf~~~~~~~~~i~~~~~  104 (172)
T cd04141          25 HSFPDYHDPTIEDAYKQQARIDNEPALLDILDTAGQAEFTAMRDQYMRCGEGFIICYSVTDRHSFQEASEFKKLITRVRL  104 (172)
T ss_pred             CCCCCCcCCcccceEEEEEEECCEEEEEEEEeCCCchhhHHHhHHHhhcCCEEEEEEECCchhHHHHHHHHHHHHHHhcC
Confidence            5566778999987665 2  334457899999999999999999999999999999999999999999998877766433


Q ss_pred             CCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhcc
Q 029517          111 LQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       111 ~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~~  176 (192)
                      ..++|+++|+||+|+.+  .++.++..++++     ..++++++|||++|.||+++|++|++.+.+..
T Consensus       105 ~~~~piilvgNK~Dl~~~~~v~~~~~~~~a~-----~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~~  167 (172)
T cd04141         105 TEDIPLVLVGNKVDLESQRQVTTEEGRNLAR-----EFNCPFFETSAALRHYIDDAFHGLVREIRRKE  167 (172)
T ss_pred             CCCCCEEEEEEChhhhhcCccCHHHHHHHHH-----HhCCEEEEEecCCCCCHHHHHHHHHHHHHHhc
Confidence            35799999999999865  466777777765     45789999999999999999999998877543

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

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

Probab=99.95  E-value=2.7e-27  Score=161.56  Aligned_cols=145  Identities=23%  Similarity=0.383  Sum_probs=131.5

Q ss_pred             HHHHHHHhhhhccCCCCCCCCCCCCcceEEE----EEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCccc
Q 029517           19 HTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG----RIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSR   94 (192)
Q Consensus        19 ~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~----~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s   94 (192)
                      .+|+-++..      ++|...|..|+|+++.    .+++..++++|||++|+++|+.....|+++.+++++|||+++.+|
T Consensus        22 ssLl~rF~d------dtFs~sYitTiGvDfkirTv~i~G~~VkLqIwDtAGqErFrtitstyyrgthgv~vVYDVTn~ES   95 (198)
T KOG0079|consen   22 SSLLLRFAD------DTFSGSYITTIGVDFKIRTVDINGDRVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTNGES   95 (198)
T ss_pred             HHHHHHHhh------cccccceEEEeeeeEEEEEeecCCcEEEEEEeecccHHHHHHHHHHHccCCceEEEEEECcchhh
Confidence            356667776      8899999999999987    366778999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517           95 FEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus        95 ~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                      |..+..|++++...++  ..|-++||||.|+++  .+..++++.++.     ..++.+||+|||...|++..|.-|.+++
T Consensus        96 F~Nv~rWLeei~~ncd--sv~~vLVGNK~d~~~RrvV~t~dAr~~A~-----~mgie~FETSaKe~~NvE~mF~cit~qv  168 (198)
T KOG0079|consen   96 FNNVKRWLEEIRNNCD--SVPKVLVGNKNDDPERRVVDTEDARAFAL-----QMGIELFETSAKENENVEAMFHCITKQV  168 (198)
T ss_pred             hHhHHHHHHHHHhcCc--cccceecccCCCCccceeeehHHHHHHHH-----hcCchheehhhhhcccchHHHHHHHHHH
Confidence            9999999999999874  789999999999987  678899999998     8899999999999999999999999887


Q ss_pred             Hhcc
Q 029517          173 ERSK  176 (192)
Q Consensus       173 ~~~~  176 (192)
                      ...+
T Consensus       169 l~~k  172 (198)
T KOG0079|consen  169 LQAK  172 (198)
T ss_pred             HHHH
Confidence            7655

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

Probab=99.95  E-value=1.2e-26  Score=172.17  Aligned_cols=134  Identities=16%  Similarity=0.384  Sum_probs=112.9

Q ss_pred             CCCCCCCCCCcceEEEEE----EecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCC
Q 029517           34 GLPPDRIVPTVGLNIGRI----EVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNE  109 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~~----~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~  109 (192)
                      +.+...|.||+|.++...    +...+++.||||+|+++|..++..|+++++++|+|||+++..+|+.+..|+..+.+..
T Consensus        18 ~~f~~~~~~Tig~~~~~~~~~~~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~ilV~D~t~~~S~~~i~~w~~~i~~~~   97 (200)
T smart00176       18 GEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTARVTYKNVPNWHRDLVRVC   97 (200)
T ss_pred             CCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhcCCCEEEEEEECCChHHHHHHHHHHHHHHHhC
Confidence            567778899999888643    2346899999999999999999999999999999999999999999999999998764


Q ss_pred             CCCCCcEEEEEeCCCCCC-CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          110 DLQGAPLLILANKQDLPD-AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                        .++|+++|+||+|+.. .+..+. .+++.     ..++.|++|||++|.||+++|++|.+.+.+.
T Consensus        98 --~~~piilvgNK~Dl~~~~v~~~~-~~~~~-----~~~~~~~e~SAk~~~~v~~~F~~l~~~i~~~  156 (200)
T smart00176       98 --ENIPIVLCGNKVDVKDRKVKAKS-ITFHR-----KKNLQYYDISAKSNYNFEKPFLWLARKLIGD  156 (200)
T ss_pred             --CCCCEEEEEECcccccccCCHHH-HHHHH-----HcCCEEEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence              4799999999999865 333333 23433     4568999999999999999999999988664

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

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

Probab=99.95  E-value=5.1e-27  Score=161.10  Aligned_cols=155  Identities=23%  Similarity=0.308  Sum_probs=134.3

Q ss_pred             cccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE----EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           15 KTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        15 st~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      -|.-.+|+.++..      +.+.+....|+|+++..    +.++.++++||||+|+++|+.....|++++.+.++|||++
T Consensus        19 GtGKSCLLh~Fie------~kfkDdssHTiGveFgSrIinVGgK~vKLQIWDTAGQErFRSVtRsYYRGAAGAlLVYD~T   92 (214)
T KOG0086|consen   19 GTGKSCLLHQFIE------NKFKDDSSHTIGVEFGSRIVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDIT   92 (214)
T ss_pred             CCChhHHHHHHHH------hhhcccccceeeeeecceeeeecCcEEEEEEeecccHHHHHHHHHHHhccccceEEEEecc
Confidence            4455688888877      78888889999999985    3446789999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      +.++|+.+-.|+..+..... +++-+++++||.||.+  +++..++.+++.     .+...+.++||++|.||+|+|-..
T Consensus        93 srdsfnaLtnWL~DaR~lAs-~nIvviL~GnKkDL~~~R~VtflEAs~Faq-----Enel~flETSa~TGeNVEEaFl~c  166 (214)
T KOG0086|consen   93 SRDSFNALTNWLTDARTLAS-PNIVVILCGNKKDLDPEREVTFLEASRFAQ-----ENELMFLETSALTGENVEEAFLKC  166 (214)
T ss_pred             chhhHHHHHHHHHHHHhhCC-CcEEEEEeCChhhcChhhhhhHHHHHhhhc-----ccceeeeeecccccccHHHHHHHH
Confidence            99999999999999887643 6788999999999987  788889999998     667899999999999999999999


Q ss_pred             HHHHHhcchhhhh
Q 029517          169 VEVMERSKRTEML  181 (192)
Q Consensus       169 ~~~i~~~~~~~~~  181 (192)
                      .+.+........+
T Consensus       167 ~~tIl~kIE~GEl  179 (214)
T KOG0086|consen  167 ARTILNKIESGEL  179 (214)
T ss_pred             HHHHHHHHhhcCC
Confidence            8888755443333

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

Probab=99.95  E-value=2e-27  Score=166.22  Aligned_cols=175  Identities=54%  Similarity=0.918  Sum_probs=155.9

Q ss_pred             ChhhhHHHHhhhhccccHH------------HHHHHHhhhhc-cCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCc
Q 029517            1 MFSLFYGLWKYIFTKTEFH------------TLLEKLKSVYS-NVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQP   67 (192)
Q Consensus         1 ~~~~~~~~~~~~~kst~~~------------~l~~~~~~~~~-~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~   67 (192)
                      ||+|++++|+.+||..-++            |++.+.+..+. ...+-.+....||.|.+.+++......+.+||.+|++
T Consensus         1 m~tl~~gl~~~~~~Ke~y~vlIlgldnAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvgLnig~i~v~~~~l~fwdlgGQe   80 (197)
T KOG0076|consen    1 MFTLMSGLYKYMFKKEDYSVLILGLDNAGKTTFLEALKTDFSKAYGGLNPSKITPTVGLNIGTIEVCNAPLSFWDLGGQE   80 (197)
T ss_pred             ChhHHHHHHHHHhhhhhhhheeeccccCCchhHHHHHHHHHHhhhcCCCHHHeecccceeecceeeccceeEEEEcCChH
Confidence            9999999999999999887            77877777655 4445556788999999999999888899999999999


Q ss_pred             ccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCc-cccCCc
Q 029517           68 GLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDL-KKLDER  146 (192)
Q Consensus        68 ~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~-~~~~~~  146 (192)
                      ..++.|..|+..|+++|+++|+++++.|++....++.+.......+.|+++.+||.|+.++.+..++...+.+ ..+...
T Consensus        81 ~lrSlw~~yY~~~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~~~~~~El~~~~~~~e~~~~r  160 (197)
T KOG0076|consen   81 SLRSLWKKYYWLAHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQNAMEAAELDGVFGLAELIPRR  160 (197)
T ss_pred             HHHHHHHHHHHHhceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhhhhhHHHHHHHhhhhhhcCCc
Confidence            9999999999999999999999999999999999999888766689999999999999998888888888873 333456


Q ss_pred             ceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          147 VCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       147 ~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                      ..++.++||.+|.||+|..+|++..+.++
T Consensus       161 d~~~~pvSal~gegv~egi~w~v~~~~kn  189 (197)
T KOG0076|consen  161 DNPFQPVSALTGEGVKEGIEWLVKKLEKN  189 (197)
T ss_pred             cCccccchhhhcccHHHHHHHHHHHHhhc
Confidence            78899999999999999999999999887

>PTZ00099 rab6; Provisional

Probab=99.95  E-value=1.4e-26  Score=168.62  Aligned_cols=136  Identities=22%  Similarity=0.361  Sum_probs=116.2

Q ss_pred             CCCCCCCCCCcceEEEE----EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCC
Q 029517           34 GLPPDRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNE  109 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~  109 (192)
                      +.|.+.|.||+|.++..    +++..+++.||||||++++...+..+++++|++|+|||++++.+|+.+..|+..+....
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            56788899999988863    33456899999999999999999999999999999999999999999999999987653


Q ss_pred             CCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          110 DLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                      . .+.|+++|+||+|+..  .+..+++..++.     ..+..++++||++|.||+++|++|.+.+.+.
T Consensus        83 ~-~~~piilVgNK~DL~~~~~v~~~e~~~~~~-----~~~~~~~e~SAk~g~nV~~lf~~l~~~l~~~  144 (176)
T PTZ00099         83 G-KDVIIALVGNKTDLGDLRKVTYEEGMQKAQ-----EYNTMFHETSAKAGHNIKVLFKKIAAKLPNL  144 (176)
T ss_pred             C-CCCeEEEEEECcccccccCCCHHHHHHHHH-----HcCCEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            2 4789999999999964  456667766665     4467899999999999999999999988653

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=99.95  E-value=1.4e-26  Score=169.63  Aligned_cols=141  Identities=21%  Similarity=0.278  Sum_probs=117.9

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE   96 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~   96 (192)
                      +|+.|+..      +.|...|.||++..+..   ++...+.+++|||+|+++|...+..+++++|++|+|||++++.+|+
T Consensus        20 sli~~~~~------~~f~~~~~pT~~~~~~~~~~~~~~~~~l~iwDtaG~e~~~~~~~~~~~~ad~~ilvyDit~~~Sf~   93 (182)
T cd04172          20 ALLHVFAK------DCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLD   93 (182)
T ss_pred             HHHHHHHh------CCCCCccCCceeeeeEEEEEECCEEEEEEEEECCCchhhHhhhhhhcCCCCEEEEEEECCCHHHHH
Confidence            44445554      66778899999977652   3445689999999999999999999999999999999999999999


Q ss_pred             HH-HHHHHHHHhCCCCCCCcEEEEEeCCCCCC--------------CCCHHHHHhHcCccccCCcc-eEEEEeeecCCCC
Q 029517           97 DS-KTALEKVLRNEDLQGAPLLILANKQDLPD--------------AVSADELARYLDLKKLDERV-CMFEAVSGYDGFG  160 (192)
Q Consensus        97 ~~-~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--------------~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~g  160 (192)
                      .+ ..|+..+.+..  .+.|+++||||+|+.+              .++.++..++++     ..+ .+|+||||++|.|
T Consensus        94 ~~~~~w~~~i~~~~--~~~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~-----~~~~~~~~E~SAk~~~n  166 (182)
T cd04172          94 SVLKKWKGEIQEFC--PNTKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGANMAK-----QIGAATYIECSALQSEN  166 (182)
T ss_pred             HHHHHHHHHHHHHC--CCCCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHHHHHH-----HcCCCEEEECCcCCCCC
Confidence            97 78999887764  4789999999999853              377788888886     556 4899999999998


Q ss_pred             -HHHHHHHHHHHHH
Q 029517          161 -IKESVEWLVEVME  173 (192)
Q Consensus       161 -i~e~~~~i~~~i~  173 (192)
                       |+++|+.+.+.+.
T Consensus       167 ~v~~~F~~~~~~~~  180 (182)
T cd04172         167 SVRDIFHVATLACV  180 (182)
T ss_pred             CHHHHHHHHHHHHh
Confidence             9999999988643

Rnd3/RhoE/Rho8 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd2/Rho7. Rnd3/RhoE is known to bind the serine-threonine kinase ROCK I. Unphosphorylated Rnd3/RhoE associates primarily with membranes, but ROCK I-phosphorylated Rnd3/RhoE localizes in the cytosol. Phosphorylation of Rnd3/RhoE correlates with its activity in disrupting RhoA-induced stress fibers and inhibiting Ras-induced fibroblast transformation. In cells that lack stress fibers, such as macrophages and monocytes, Rnd3/RhoE induces a redistribution of actin, causing morphological changes in the cell. In addition, Rnd3/RhoE has been shown to inhibit cell cycle progression in G1 phase at a point upstream of the pRb family pocket protein checkpoint. Rnd3/RhoE has also been shown to inhibit Ras- and Raf-induced fibroblast transformation. In mammary epithelial tumor cells, Rnd3/RhoE regulates the assembly of the apical junction complex and tight

>cd04154 Arl2 Arl2 subfamily

Probab=99.95  E-value=2.6e-26  Score=166.91  Aligned_cols=146  Identities=39%  Similarity=0.708  Sum_probs=120.1

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS   93 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~   93 (192)
                      |||++++|+++           +...+.||+|..+..+..+.+.+.+||+||++.++..+..+++++|++++|+|++++.
T Consensus        27 KTsL~~~l~~~-----------~~~~~~~t~g~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~   95 (173)
T cd04154          27 KTTILKKLLGE-----------DIDTISPTLGFQIKTLEYEGYKLNIWDVGGQKTLRPYWRNYFESTDALIWVVDSSDRL   95 (173)
T ss_pred             HHHHHHHHccC-----------CCCCcCCccccceEEEEECCEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCCHH
Confidence            56666555432           2345788999877777777899999999999999999999999999999999999999


Q ss_pred             cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHH
Q 029517           94 RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE  170 (192)
Q Consensus        94 s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~  170 (192)
                      ++..+..|+..+.......++|+++|+||+|+.+....+++.+.+++.......++++++||++|.|++++|+++.+
T Consensus        96 s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~  172 (173)
T cd04154          96 RLDDCKRELKELLQEERLAGATLLILANKQDLPGALSEEEIREALELDKISSHHWRIQPCSAVTGEGLLQGIDWLVD  172 (173)
T ss_pred             HHHHHHHHHHHHHhChhhcCCCEEEEEECcccccCCCHHHHHHHhCccccCCCceEEEeccCCCCcCHHHHHHHHhc
Confidence            99999889888876433357999999999999876677778777764333456789999999999999999999864

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.

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=99.95  E-value=2.8e-26  Score=173.33  Aligned_cols=143  Identities=19%  Similarity=0.285  Sum_probs=119.9

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE   96 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~   96 (192)
                      +|+.++..      +.|...|.||+|.++..   +++..+.++||||+|+++|...+..+++++|++|+|||++++++|+
T Consensus        28 sLi~r~~~------~~F~~~y~pTi~~~~~~~i~~~~~~v~l~iwDTaG~e~~~~~~~~~~~~ad~vIlVyDit~~~Sf~  101 (232)
T cd04174          28 AMLQVLAK------DCYPETYVPTVFENYTAGLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVD  101 (232)
T ss_pred             HHHHHHhc------CCCCCCcCCceeeeeEEEEEECCEEEEEEEEeCCCchhhHHHHHHHcCCCcEEEEEEECCChHHHH
Confidence            45555555      67788899999987753   3445689999999999999999999999999999999999999999


Q ss_pred             HH-HHHHHHHHhCCCCCCCcEEEEEeCCCCCC--------------CCCHHHHHhHcCccccCCcce-EEEEeeecCCC-
Q 029517           97 DS-KTALEKVLRNEDLQGAPLLILANKQDLPD--------------AVSADELARYLDLKKLDERVC-MFEAVSGYDGF-  159 (192)
Q Consensus        97 ~~-~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--------------~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~-  159 (192)
                      .+ ..|+..+.+..  .+.|+++|+||+|+.+              .++.+++.++++     ..++ .|++|||++|. 
T Consensus       102 ~~~~~w~~~i~~~~--~~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e~~~~a~-----~~~~~~~~EtSAktg~~  174 (232)
T cd04174         102 SALKKWKAEIMDYC--PSTRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCALAK-----QLGAEVYLECSAFTSEK  174 (232)
T ss_pred             HHHHHHHHHHHHhC--CCCCEEEEEECcccccccchhhhhccccCCcCCHHHHHHHHH-----HcCCCEEEEccCCcCCc
Confidence            84 88999888754  4789999999999852              467788888887     5566 69999999997 


Q ss_pred             CHHHHHHHHHHHHHhc
Q 029517          160 GIKESVEWLVEVMERS  175 (192)
Q Consensus       160 gi~e~~~~i~~~i~~~  175 (192)
                      ||+++|+.++..+.+.
T Consensus       175 ~V~e~F~~~~~~~~~~  190 (232)
T cd04174         175 SIHSIFRSASLLCLNK  190 (232)
T ss_pred             CHHHHHHHHHHHHHHh
Confidence            8999999999887654

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.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.95  E-value=4.4e-26  Score=164.43  Aligned_cols=153  Identities=56%  Similarity=0.972  Sum_probs=128.1

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS   93 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~   93 (192)
                      |||++|+|.++..    ..++.+.+.+.||++.++..+..++..+.+|||||++.+...+..+++.+|++++|+|+++++
T Consensus        12 KstLi~~l~~~~~----~~~~~~~~~~~~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~v~vvd~~~~~   87 (167)
T cd04160          12 KTTFLEQLKTLFS----KYKGLPPSKITPTVGLNIGTIEVGNARLKFWDLGGQESLRSLWDKYYAECHAIIYVIDSTDRE   87 (167)
T ss_pred             HHHHHHHHhhhcc----cccCCcccccCCccccceEEEEECCEEEEEEECCCChhhHHHHHHHhCCCCEEEEEEECchHH
Confidence            7888888776532    234566778899999999988888899999999999999999999999999999999999988


Q ss_pred             cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccc--cCCcceEEEEeeecCCCCHHHHHHHHHH
Q 029517           94 RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKK--LDERVCMFEAVSGYDGFGIKESVEWLVE  170 (192)
Q Consensus        94 s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~--~~~~~~~~~~~Sa~~~~gi~e~~~~i~~  170 (192)
                      ++.....++..+.+.....+.|+++++||+|+......+++.+.++...  ......+++++||++|.|++++++||++
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~  166 (167)
T cd04160          88 RFEESKSALEKVLRNEALEGVPLLILANKQDLPDALSVEEIKEVFQDKAEEIGRRDCLVLPVSALEGTGVREGIEWLVE  166 (167)
T ss_pred             HHHHHHHHHHHHHhChhhcCCCEEEEEEccccccCCCHHHHHHHhccccccccCCceEEEEeeCCCCcCHHHHHHHHhc
Confidence            8999989988887764446799999999999988777777777765221  2234678999999999999999999975

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.

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

Probab=99.95  E-value=5.1e-27  Score=162.23  Aligned_cols=145  Identities=22%  Similarity=0.324  Sum_probs=130.5

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEE----EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRF   95 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~   95 (192)
                      +|+-++..      +.|.+....|||+++..    +++..+++-||||+|+++|+.+...|++++.++|+|||++..++|
T Consensus        26 SLllrFv~------~~fd~~~~~tIGvDFkvk~m~vdg~~~KlaiWDTAGqErFRtLTpSyyRgaqGiIlVYDVT~Rdtf   99 (209)
T KOG0080|consen   26 SLLLRFVS------NTFDDLHPTTIGVDFKVKVMQVDGKRLKLAIWDTAGQERFRTLTPSYYRGAQGIILVYDVTSRDTF   99 (209)
T ss_pred             HHHHHHHh------cccCccCCceeeeeEEEEEEEEcCceEEEEEEeccchHhhhccCHhHhccCceeEEEEEccchhhH
Confidence            55556665      77778878889999873    566788999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCCcEEEEEeCCCCC--CCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517           96 EDSKTALEKVLRNEDLQGAPLLILANKQDLP--DAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus        96 ~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      ..+..|++.+..++...++-.++|+||+|..  ..++.++...++.     .+.+-|+|+||++.+||+.+|+++++.+.
T Consensus       100 ~kLd~W~~Eld~Ystn~diikmlVgNKiDkes~R~V~reEG~kfAr-----~h~~LFiE~SAkt~~~V~~~FeelveKIi  174 (209)
T KOG0080|consen  100 VKLDIWLKELDLYSTNPDIIKMLVGNKIDKESERVVDREEGLKFAR-----KHRCLFIECSAKTRENVQCCFEELVEKII  174 (209)
T ss_pred             HhHHHHHHHHHhhcCCccHhHhhhcccccchhcccccHHHHHHHHH-----hhCcEEEEcchhhhccHHHHHHHHHHHHh
Confidence            9999999999998887899999999999987  3789999999998     88999999999999999999999999887


Q ss_pred             hc
Q 029517          174 RS  175 (192)
Q Consensus       174 ~~  175 (192)
                      +-
T Consensus       175 ~t  176 (209)
T KOG0080|consen  175 ET  176 (209)
T ss_pred             cC
Confidence            53

>cd04126 Rab20 Rab20 subfamily

Probab=99.94  E-value=6.6e-26  Score=170.31  Aligned_cols=160  Identities=17%  Similarity=0.229  Sum_probs=124.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS   93 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~   93 (192)
                      |||++++++    .      +.+.. +.||+|..+.......+.+.+|||+|++.|...+..+++++|++|+|||+++++
T Consensus        13 KTSLi~r~~----~------~~f~~-~~~Tig~~~~~~~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~IlV~Dvt~~~   81 (220)
T cd04126          13 KTSLLHRYM----E------RRFKD-TVSTVGGAFYLKQWGPYNISIWDTAGREQFHGLGSMYCRGAAAVILTYDVSNVQ   81 (220)
T ss_pred             HHHHHHHHh----c------CCCCC-CCCccceEEEEEEeeEEEEEEEeCCCcccchhhHHHHhccCCEEEEEEECCCHH
Confidence            566666654    3      44443 588999887766667789999999999999999999999999999999999999


Q ss_pred             cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC---------------------CCCHHHHHhHcCcccc---------
Q 029517           94 RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD---------------------AVSADELARYLDLKKL---------  143 (192)
Q Consensus        94 s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~---------------------~~~~~~~~~~~~~~~~---------  143 (192)
                      +|+.+..|+..+.+.. ..+.|+++|+||+|+.+                     .++.+++.++++....         
T Consensus        82 Sf~~l~~~~~~l~~~~-~~~~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~~~~r~v~~~e~~~~a~~~~~~~~~~~~~~  160 (220)
T cd04126          82 SLEELEDRFLGLTDTA-NEDCLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKMLDEDLS  160 (220)
T ss_pred             HHHHHHHHHHHHHHhc-CCCCcEEEEEECcccccccccccccccccccccccccccCCHHHHHHHHHHhCcccccccccc
Confidence            9999999988887643 25789999999999853                     4556777777651100         


Q ss_pred             CCcceEEEEeeecCCCCHHHHHHHHHHHHHhcchhhhhhhhc
Q 029517          144 DERVCMFEAVSGYDGFGIKESVEWLVEVMERSKRTEMLRARA  185 (192)
Q Consensus       144 ~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~~~~~~~~~~~  185 (192)
                      ....++|+||||++|.||+++|+++.+.+......+..++++
T Consensus       161 ~~~~~~~~E~SA~tg~~V~elf~~i~~~~~~~~~~~~~~~~~  202 (220)
T cd04126         161 PAAEKMCFETSAKTGYNVDELFEYLFNLVLPLILAQRAEANR  202 (220)
T ss_pred             ccccceEEEeeCCCCCCHHHHHHHHHHHHHHHHHhhhhhhhh
Confidence            011268999999999999999999999887665444444443

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

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

Probab=99.94  E-value=1.1e-26  Score=167.53  Aligned_cols=155  Identities=21%  Similarity=0.361  Sum_probs=137.4

Q ss_pred             hhhhccccH-------HHHHHHHhhhhccCCCCCCCCCCCCcceEEEE----EEecCEEEEEEeCCCCcccHHHHHHhhh
Q 029517           10 KYIFTKTEF-------HTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRSIWEKYYE   78 (192)
Q Consensus        10 ~~~~kst~~-------~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~~~~~~~~~~   78 (192)
                      -++||..++       .-|+.|++.      +.|...-.+|||+++.+    ++++.++.+||||+||++|+.....|++
T Consensus        12 dylFKiVliGDS~VGKsnLlsRftr------nEF~~~SksTIGvef~t~t~~vd~k~vkaqIWDTAGQERyrAitSaYYr   85 (222)
T KOG0087|consen   12 DYLFKIVLIGDSAVGKSNLLSRFTR------NEFSLESKSTIGVEFATRTVNVDGKTVKAQIWDTAGQERYRAITSAYYR   85 (222)
T ss_pred             ceEEEEEEeCCCccchhHHHHHhcc------cccCcccccceeEEEEeeceeecCcEEEEeeecccchhhhccccchhhc
Confidence            345665555       367888887      99999999999999986    5567789999999999999999999999


Q ss_pred             cCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeec
Q 029517           79 EAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGY  156 (192)
Q Consensus        79 ~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  156 (192)
                      ++-|+++|||++...+|+.+..|+.+++...+ +++++++||||+||..  ++..++...+++     ..+..++++||.
T Consensus        86 gAvGAllVYDITr~~Tfenv~rWL~ELRdhad-~nivimLvGNK~DL~~lraV~te~~k~~Ae-----~~~l~f~EtSAl  159 (222)
T KOG0087|consen   86 GAVGALLVYDITRRQTFENVERWLKELRDHAD-SNIVIMLVGNKSDLNHLRAVPTEDGKAFAE-----KEGLFFLETSAL  159 (222)
T ss_pred             ccceeEEEEechhHHHHHHHHHHHHHHHhcCC-CCeEEEEeecchhhhhccccchhhhHhHHH-----hcCceEEEeccc
Confidence            99999999999999999999999999998765 6899999999999976  788889988887     668899999999


Q ss_pred             CCCCHHHHHHHHHHHHHhcc
Q 029517          157 DGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       157 ~~~gi~e~~~~i~~~i~~~~  176 (192)
                      .+.||+++|+.+...+.+.-
T Consensus       160 ~~tNVe~aF~~~l~~I~~~v  179 (222)
T KOG0087|consen  160 DATNVEKAFERVLTEIYKIV  179 (222)
T ss_pred             ccccHHHHHHHHHHHHHHHH
Confidence            99999999999998887654

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.94  E-value=9e-26  Score=167.92  Aligned_cols=148  Identities=24%  Similarity=0.380  Sum_probs=121.4

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EE---ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEe
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IE---VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVID   88 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~---~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D   88 (192)
                      |||++++|++          +.+...+.||+|.++..  +.   +..+.+.+|||||+++|...+..++++++++|+|||
T Consensus        13 KTsli~~l~~----------~~~~~~~~~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv~D   82 (201)
T cd04107          13 KTSIIKRYVH----------GIFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQERFGGMTRVYYRGAVGAIIVFD   82 (201)
T ss_pred             HHHHHHHHHc----------CCCCCCCCCceeEEEEEEEEEECCCCEEEEEEEECCCchhhhhhHHHHhCCCCEEEEEEE
Confidence            6666666653          44566789999977642  33   346789999999999999999999999999999999


Q ss_pred             CCCcccHHHHHHHHHHHHhCC---CCCCCcEEEEEeCCCCC--CCCCHHHHHhHcCccccCCcc-eEEEEeeecCCCCHH
Q 029517           89 AACPSRFEDSKTALEKVLRNE---DLQGAPLLILANKQDLP--DAVSADELARYLDLKKLDERV-CMFEAVSGYDGFGIK  162 (192)
Q Consensus        89 ~~~~~s~~~~~~~~~~i~~~~---~~~~~piiiv~nK~Dl~--~~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~  162 (192)
                      ++++++|+.+..|+..+....   ...++|+++|+||+|+.  .....+++.++++     ..+ ..++++||++|.||+
T Consensus        83 ~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~e~Sak~~~~v~  157 (201)
T cd04107          83 VTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKKRLAKDGEQMDQFCK-----ENGFIGWFETSAKEGINIE  157 (201)
T ss_pred             CCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcccccccCHHHHHHHHH-----HcCCceEEEEeCCCCCCHH
Confidence            999999999999988876532   12578999999999997  4677788888876     334 689999999999999


Q ss_pred             HHHHHHHHHHHhcc
Q 029517          163 ESVEWLVEVMERSK  176 (192)
Q Consensus       163 e~~~~i~~~i~~~~  176 (192)
                      ++|++|.+.+.+..
T Consensus       158 e~f~~l~~~l~~~~  171 (201)
T cd04107         158 EAMRFLVKNILAND  171 (201)
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999999887654

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.

>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=99.94  E-value=3.2e-26  Score=166.79  Aligned_cols=146  Identities=42%  Similarity=0.818  Sum_probs=130.6

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSK   99 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~   99 (192)
                      ||++++..      +. ...+.||.|.+...+...++.+.+||++|+..++..|..|+++++++|+|+|+++.+.+.++.
T Consensus        29 tll~~l~~------~~-~~~~~pT~g~~~~~i~~~~~~~~~~d~gG~~~~~~~w~~y~~~~~~iIfVvDssd~~~l~e~~  101 (175)
T PF00025_consen   29 TLLNRLKN------GE-ISETIPTIGFNIEEIKYKGYSLTIWDLGGQESFRPLWKSYFQNADGIIFVVDSSDPERLQEAK  101 (175)
T ss_dssp             HHHHHHHS------SS-EEEEEEESSEEEEEEEETTEEEEEEEESSSGGGGGGGGGGHTTESEEEEEEETTGGGGHHHHH
T ss_pred             HHHHHhhh------cc-ccccCcccccccceeeeCcEEEEEEeccccccccccceeeccccceeEEEEecccceeecccc
Confidence            66666664      22 233799999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccC-CcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517          100 TALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLD-ERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus       100 ~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                      +.+..++......+.|+++++||.|++++.+.+++.+.+.+..+. ...+.++.|||.+|+|+.|.++||.+++
T Consensus       102 ~~L~~ll~~~~~~~~piLIl~NK~D~~~~~~~~~i~~~l~l~~l~~~~~~~v~~~sa~~g~Gv~e~l~WL~~~~  175 (175)
T PF00025_consen  102 EELKELLNDPELKDIPILILANKQDLPDAMSEEEIKEYLGLEKLKNKRPWSVFSCSAKTGEGVDEGLEWLIEQI  175 (175)
T ss_dssp             HHHHHHHTSGGGTTSEEEEEEESTTSTTSSTHHHHHHHTTGGGTTSSSCEEEEEEBTTTTBTHHHHHHHHHHHH
T ss_pred             cchhhhcchhhcccceEEEEeccccccCcchhhHHHhhhhhhhcccCCceEEEeeeccCCcCHHHHHHHHHhcC
Confidence            999999887655789999999999999988999999999877665 6789999999999999999999999865

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 ....

>cd04122 Rab14 Rab14 subfamily

Probab=99.94  E-value=8.1e-26  Score=163.15  Aligned_cols=145  Identities=20%  Similarity=0.318  Sum_probs=119.2

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE----EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||+++++.    .      +.+...+.||+|.++..    +++..+++.+||+||++++...+..+++++|++|+|||+
T Consensus        15 KTsli~~~~----~------~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~   84 (166)
T cd04122          15 KSCLLHQFT----E------KKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDI   84 (166)
T ss_pred             HHHHHHHHh----c------CCCCCCCCcccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEEC
Confidence            566666554    3      45667788899887753    334467899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++++|+.+..|+..+..... .+.|+++|+||+|+.+  ..+.+++.++++     ..+++++++||++|.||+++|.+
T Consensus        85 ~~~~s~~~~~~~~~~~~~~~~-~~~~iiiv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~e~Sa~~~~~i~e~f~~  158 (166)
T cd04122          85 TRRSTYNHLSSWLTDARNLTN-PNTVIFLIGNKADLEAQRDVTYEEAKQFAD-----ENGLLFLECSAKTGENVEDAFLE  158 (166)
T ss_pred             CCHHHHHHHHHHHHHHHHhCC-CCCeEEEEEECcccccccCcCHHHHHHHHH-----HcCCEEEEEECCCCCCHHHHHHH
Confidence            999999999999998866532 5689999999999976  456677777775     45679999999999999999999


Q ss_pred             HHHHHHh
Q 029517          168 LVEVMER  174 (192)
Q Consensus       168 i~~~i~~  174 (192)
                      +++.+.+
T Consensus       159 l~~~~~~  165 (166)
T cd04122         159 TAKKIYQ  165 (166)
T ss_pred             HHHHHhh
Confidence            9987754

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

>cd04131 Rnd Rnd subfamily

Probab=99.94  E-value=5.7e-26  Score=165.92  Aligned_cols=133  Identities=19%  Similarity=0.269  Sum_probs=112.6

Q ss_pred             CCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHH-HHHHHHHHhCC
Q 029517           34 GLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDS-KTALEKVLRNE  109 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~-~~~~~~i~~~~  109 (192)
                      +.|...|.||++..+..   ++...+.+++|||+|++.|...+..+++++|++|+|||++++++|+.+ ..|+..+.+..
T Consensus        24 ~~f~~~~~~t~~~~~~~~~~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~~ilvfdit~~~Sf~~~~~~w~~~i~~~~  103 (178)
T cd04131          24 DCYPETYVPTVFENYTASFEIDEQRIELSLWDTSGSPYYDNVRPLCYPDSDAVLICFDISRPETLDSVLKKWRGEIQEFC  103 (178)
T ss_pred             CcCCCCcCCceEEEEEEEEEECCEEEEEEEEECCCchhhhhcchhhcCCCCEEEEEEECCChhhHHHHHHHHHHHHHHHC
Confidence            56777889999887652   344568999999999999999999999999999999999999999996 78999888764


Q ss_pred             CCCCCcEEEEEeCCCCCC--------------CCCHHHHHhHcCccccCCcce-EEEEeeecCCCC-HHHHHHHHHHHHH
Q 029517          110 DLQGAPLLILANKQDLPD--------------AVSADELARYLDLKKLDERVC-MFEAVSGYDGFG-IKESVEWLVEVME  173 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~--------------~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~g-i~e~~~~i~~~i~  173 (192)
                        ++.|+++||||+|+.+              .++.++..++++     ..+. .|+||||++|.| |+++|..+.+...
T Consensus       104 --~~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~~~~a~-----~~~~~~~~E~SA~~~~~~v~~~F~~~~~~~~  176 (178)
T cd04131         104 --PNTKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQGCAIAK-----QLGAEIYLECSAFTSEKSVRDIFHVATMACL  176 (178)
T ss_pred             --CCCCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHHHHHHHH-----HhCCCEEEECccCcCCcCHHHHHHHHHHHHh
Confidence              4789999999999853              367778888886     5564 899999999995 9999999998543

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.

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.94  E-value=3e-25  Score=161.56  Aligned_cols=144  Identities=35%  Similarity=0.627  Sum_probs=119.5

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSK   99 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~   99 (192)
                      +|++++..      +.+.. +.||+|.++..+....+++.+||+||++.+...+..+++++|++++|+|+++++++..+.
T Consensus        30 sl~~~l~~------~~~~~-~~~t~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~vi~V~D~s~~~~~~~~~  102 (174)
T cd04153          30 TILYQFLL------GEVVH-TSPTIGSNVEEIVYKNIRFLMWDIGGQESLRSSWNTYYTNTDAVILVIDSTDRERLPLTK  102 (174)
T ss_pred             HHHHHHcc------CCCCC-cCCccccceEEEEECCeEEEEEECCCCHHHHHHHHHHhhcCCEEEEEEECCCHHHHHHHH
Confidence            66666654      34443 578999988888888899999999999999999999999999999999999999999888


Q ss_pred             HHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHH
Q 029517          100 TALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE  170 (192)
Q Consensus       100 ~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~  170 (192)
                      .++..+.+.....++|+++++||+|+.+..+.+++.+.+.........++++++||++|.||+++|+||.+
T Consensus       103 ~~l~~~~~~~~~~~~p~viv~NK~Dl~~~~~~~~i~~~l~~~~~~~~~~~~~~~SA~~g~gi~e~~~~l~~  173 (174)
T cd04153         103 EELYKMLAHEDLRKAVLLVLANKQDLKGAMTPAEISESLGLTSIRDHTWHIQGCCALTGEGLPEGLDWIAS  173 (174)
T ss_pred             HHHHHHHhchhhcCCCEEEEEECCCCCCCCCHHHHHHHhCcccccCCceEEEecccCCCCCHHHHHHHHhc
Confidence            88888876544457999999999999876667777666654333445678999999999999999999864

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.

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.94  E-value=2.8e-25  Score=160.64  Aligned_cols=146  Identities=34%  Similarity=0.673  Sum_probs=122.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS   93 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~   93 (192)
                      |||+++.|.+          . +...+.||+|.....+..+++.+++||+||++.++..+..|++++|++|+|+|+++..
T Consensus        12 KTsl~~~l~~----------~-~~~~~~~t~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~V~D~s~~~   80 (167)
T cd04161          12 KTTLVSALQG----------E-IPKKVAPTVGFTPTKLRLDKYEVCIFDLGGGANFRGIWVNYYAEAHGLVFVVDSSDDD   80 (167)
T ss_pred             HHHHHHHHhC----------C-CCccccCcccceEEEEEECCEEEEEEECCCcHHHHHHHHHHHcCCCEEEEEEECCchh
Confidence            5666665543          2 4567789999988888888999999999999999999999999999999999999999


Q ss_pred             cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccC---CcceEEEEeeecCC------CCHHHH
Q 029517           94 RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLD---ERVCMFEAVSGYDG------FGIKES  164 (192)
Q Consensus        94 s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~---~~~~~~~~~Sa~~~------~gi~e~  164 (192)
                      +++.+..|+..+.+.....++|+++|+||+|+.+..+.+++.+.+.+..+.   ...+.+++|||++|      .|+.+.
T Consensus        81 s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~~~~~i~~~~~l~~~~~~~~~~~~~~~~Sa~~g~~~~~~~g~~~~  160 (167)
T cd04161          81 RVQEVKEILRELLQHPRVSGKPILVLANKQDKKNALLGADVIEYLSLEKLVNENKSLCHIEPCSAIEGLGKKIDPSIVEG  160 (167)
T ss_pred             HHHHHHHHHHHHHcCccccCCcEEEEEeCCCCcCCCCHHHHHHhcCcccccCCCCceEEEEEeEceeCCCCccccCHHHH
Confidence            999999999998876544679999999999998877777877777654432   23578899999998      899999


Q ss_pred             HHHHHH
Q 029517          165 VEWLVE  170 (192)
Q Consensus       165 ~~~i~~  170 (192)
                      |+||..
T Consensus       161 ~~wl~~  166 (167)
T cd04161         161 LRWLLA  166 (167)
T ss_pred             HHHHhc
Confidence            999974

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.

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

Probab=99.94  E-value=4.5e-26  Score=155.33  Aligned_cols=141  Identities=36%  Similarity=0.693  Sum_probs=132.5

Q ss_pred             CCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCC
Q 029517           34 GLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQG  113 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~  113 (192)
                      +.+.+...||.|.+...+..+.+.+.+||.||+.+|+.+|+.|+++++++++|+|+.+++.++..+..+..++......+
T Consensus        43 g~~~edmiptvGfnmrk~tkgnvtiklwD~gGq~rfrsmWerycR~v~aivY~VDaad~~k~~~sr~EL~~LL~k~~l~g  122 (186)
T KOG0075|consen   43 GQYLEDMIPTVGFNMRKVTKGNVTIKLWDLGGQPRFRSMWERYCRGVSAIVYVVDAADPDKLEASRSELHDLLDKPSLTG  122 (186)
T ss_pred             ccchhhhcccccceeEEeccCceEEEEEecCCCccHHHHHHHHhhcCcEEEEEeecCCcccchhhHHHHHHHhcchhhcC
Confidence            45667889999999999999999999999999999999999999999999999999999999999999999999887889


Q ss_pred             CcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          114 APLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       114 ~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      +|++++|||.|++++.+...+.+.+.+..+.++.+.+|.+|++...|++.+.+||.++-..
T Consensus       123 ip~LVLGnK~d~~~AL~~~~li~rmgL~sitdREvcC~siScke~~Nid~~~~Wli~hsk~  183 (186)
T KOG0075|consen  123 IPLLVLGNKIDLPGALSKIALIERMGLSSITDREVCCFSISCKEKVNIDITLDWLIEHSKS  183 (186)
T ss_pred             CcEEEecccccCcccccHHHHHHHhCccccccceEEEEEEEEcCCccHHHHHHHHHHHhhh
Confidence            9999999999999999999999999999899999999999999999999999999886543

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

Probab=99.94  E-value=9.7e-26  Score=162.93  Aligned_cols=145  Identities=15%  Similarity=0.337  Sum_probs=117.8

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEE----ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIE----VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~----~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++++++    .      +.+...+.||+|.++....    ...+.+.+|||+|++.+...+..+++.+|++|+|||+
T Consensus        13 KTsli~~~~----~------~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~   82 (166)
T cd00877          13 KTTFVKRHL----T------GEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIMFDV   82 (166)
T ss_pred             HHHHHHHHH----h------CCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCChhhccccHHHhcCCCEEEEEEEC
Confidence            666666665    3      4556678999998877543    2468999999999999888888999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLV  169 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~  169 (192)
                      +++++++.+..|+..+....  .++|+++|+||+|+.+.....+..++.+     ....+++++||++|.|++++|++|.
T Consensus        83 ~~~~s~~~~~~~~~~i~~~~--~~~piiiv~nK~Dl~~~~~~~~~~~~~~-----~~~~~~~e~Sa~~~~~v~~~f~~l~  155 (166)
T cd00877          83 TSRVTYKNVPNWHRDLVRVC--GNIPIVLCGNKVDIKDRKVKAKQITFHR-----KKNLQYYEISAKSNYNFEKPFLWLA  155 (166)
T ss_pred             CCHHHHHHHHHHHHHHHHhC--CCCcEEEEEEchhcccccCCHHHHHHHH-----HcCCEEEEEeCCCCCChHHHHHHHH
Confidence            99999999999999998765  3799999999999975332233334443     4568899999999999999999999


Q ss_pred             HHHHhc
Q 029517          170 EVMERS  175 (192)
Q Consensus       170 ~~i~~~  175 (192)
                      +.+.+.
T Consensus       156 ~~~~~~  161 (166)
T cd00877         156 RKLLGN  161 (166)
T ss_pred             HHHHhc
Confidence            888653

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

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

Probab=99.94  E-value=2.5e-26  Score=159.27  Aligned_cols=151  Identities=23%  Similarity=0.350  Sum_probs=130.5

Q ss_pred             HHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE----EE-ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCc
Q 029517           18 FHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR----IE-VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACP   92 (192)
Q Consensus        18 ~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~----~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~   92 (192)
                      -.+|+..++.      +.+.+--.||.|+++..    +. +..+++++|||+|+++|+.....|++++-|+++|||+++.
T Consensus        21 kssll~~ft~------gkfaelsdptvgvdffarlie~~pg~riklqlwdtagqerfrsitksyyrnsvgvllvyditnr   94 (213)
T KOG0091|consen   21 KSSLLRYFTE------GKFAELSDPTVGVDFFARLIELRPGYRIKLQLWDTAGQERFRSITKSYYRNSVGVLLVYDITNR   94 (213)
T ss_pred             HHHHHHHHhc------CcccccCCCccchHHHHHHHhcCCCcEEEEEEeeccchHHHHHHHHHHhhcccceEEEEeccch
Confidence            4577777777      77888889999999863    32 3468999999999999999999999999999999999999


Q ss_pred             ccHHHHHHHHHHHHhCCCC-CCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHH
Q 029517           93 SRFEDSKTALEKVLRNEDL-QGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLV  169 (192)
Q Consensus        93 ~s~~~~~~~~~~i~~~~~~-~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~  169 (192)
                      +||+.+..|+....-.... ..+-+.+||+|+||..  +++.+++..+++     .+++.|+|+||++|.||+|+|+-|.
T Consensus        95 ~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~SqRqVt~EEaEklAa-----~hgM~FVETSak~g~NVeEAF~mla  169 (213)
T KOG0091|consen   95 ESFEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQSQRQVTAEEAEKLAA-----SHGMAFVETSAKNGCNVEEAFDMLA  169 (213)
T ss_pred             hhHHHHHHHHHHHHHhcCCCCeeEEEEeccccchhhhccccHHHHHHHHH-----hcCceEEEecccCCCcHHHHHHHHH
Confidence            9999999999988765442 3456778999999977  899999999998     8999999999999999999999999


Q ss_pred             HHHHhcchhh
Q 029517          170 EVMERSKRTE  179 (192)
Q Consensus       170 ~~i~~~~~~~  179 (192)
                      +.+....++.
T Consensus       170 qeIf~~i~qG  179 (213)
T KOG0091|consen  170 QEIFQAIQQG  179 (213)
T ss_pred             HHHHHHHhcC
Confidence            9887665543

>PTZ00369 Ras-like protein; Provisional

Probab=99.94  E-value=1.8e-25  Score=164.76  Aligned_cols=138  Identities=22%  Similarity=0.265  Sum_probs=114.6

Q ss_pred             CCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCC
Q 029517           34 GLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNED  110 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~  110 (192)
                      +.+...+.||++..+..   ++...+.+++|||||+++|..++..+++++|++++|||++++++|+.+..|+..+.+...
T Consensus        28 ~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~iilv~D~s~~~s~~~~~~~~~~i~~~~~  107 (189)
T PTZ00369         28 NHFIDEYDPTIEDSYRKQCVIDEETCLLDILDTAGQEEYSAMRDQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKD  107 (189)
T ss_pred             CCCCcCcCCchhhEEEEEEEECCEEEEEEEEeCCCCccchhhHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC
Confidence            45567788998877652   445567899999999999999999999999999999999999999999999998877644


Q ss_pred             CCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhcc
Q 029517          111 LQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       111 ~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~~  176 (192)
                      ..+.|+++++||+|+.+  .+..++..+..+     ..+.+++++||++|.||+++|++|.+.+.+..
T Consensus       108 ~~~~piiiv~nK~Dl~~~~~i~~~~~~~~~~-----~~~~~~~e~Sak~~~gi~~~~~~l~~~l~~~~  170 (189)
T PTZ00369        108 KDRVPMILVGNKCDLDSERQVSTGEGQELAK-----SFGIPFLETSAKQRVNVDEAFYELVREIRKYL  170 (189)
T ss_pred             CCCCCEEEEEECcccccccccCHHHHHHHHH-----HhCCEEEEeeCCCCCCHHHHHHHHHHHHHHHh
Confidence            45789999999999864  345555555554     34578999999999999999999999887654

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

Probab=99.94  E-value=1.9e-25  Score=151.19  Aligned_cols=166  Identities=34%  Similarity=0.669  Sum_probs=148.7

Q ss_pred             ChhhhHHHHhhhhccccHH------------HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcc
Q 029517            1 MFSLFYGLWKYIFTKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPG   68 (192)
Q Consensus         1 ~~~~~~~~~~~~~kst~~~------------~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~   68 (192)
                      |.+.|++++-..|-+.-++            |+++.+..      +. +....||.|.++..+.++.+.+++||++|+++
T Consensus         1 Mgn~~sk~~~k~f~~KE~~ilmlGLd~aGKTtiLyKLkl------~~-~~~~ipTvGFnvetVtykN~kfNvwdvGGqd~   73 (180)
T KOG0071|consen    1 MGNYMSKLLSKIFGNKEMRILMLGLDAAGKTTILYKLKL------GQ-SVTTIPTVGFNVETVTYKNVKFNVWDVGGQDK   73 (180)
T ss_pred             CcchHHHHHHHHhCcccceEEEEecccCCceehhhHHhc------CC-CcccccccceeEEEEEeeeeEEeeeeccCchh
Confidence            7777777776666655555            77777775      33 45569999999999999999999999999999


Q ss_pred             cHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcce
Q 029517           69 LRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVC  148 (192)
Q Consensus        69 ~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  148 (192)
                      .++.|.+|+.+..++|||+|+.+.+..++++..+.++....+..+.|+++.+||.|++++..+.++.++++++.+..+.+
T Consensus        74 iRplWrhYy~gtqglIFV~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~A~~pqei~d~leLe~~r~~~W  153 (180)
T KOG0071|consen   74 IRPLWRHYYTGTQGLIFVVDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLPDAMKPQEIQDKLELERIRDRNW  153 (180)
T ss_pred             hhHHHHhhccCCceEEEEEeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCcccccccCHHHHHHHhccccccCCcc
Confidence            99999999999999999999999999999999999999988878999999999999999999999999999988888899


Q ss_pred             EEEEeeecCCCCHHHHHHHHHHHHH
Q 029517          149 MFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus       149 ~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      .+.+++|.+|+|+.|-|.||.+.+.
T Consensus       154 ~vqp~~a~~gdgL~eglswlsnn~~  178 (180)
T KOG0071|consen  154 YVQPSCALSGDGLKEGLSWLSNNLK  178 (180)
T ss_pred             EeeccccccchhHHHHHHHHHhhcc
Confidence            9999999999999999999987653

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

Probab=99.94  E-value=2e-26  Score=157.65  Aligned_cols=156  Identities=23%  Similarity=0.381  Sum_probs=128.1

Q ss_pred             HhhhhccccH-H------HHHHHHhhhhccCCCCCCCCCCCCcceEEE----EEEecCEEEEEEeCCCCcccHHHHHHhh
Q 029517            9 WKYIFTKTEF-H------TLLEKLKSVYSNVEGLPPDRIVPTVGLNIG----RIEVSNSKLVFWDLGGQPGLRSIWEKYY   77 (192)
Q Consensus         9 ~~~~~kst~~-~------~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~----~~~~~~~~~~i~D~~G~~~~~~~~~~~~   77 (192)
                      ||++||--+. |      +|..|++.      +-|++....|+|+++-    ++++.+++++||||+|+++|+.....|+
T Consensus         4 ykflfkivlvgnagvgktclvrrftq------glfppgqgatigvdfmiktvev~gekiklqiwdtagqerfrsitqsyy   77 (213)
T KOG0095|consen    4 YKFLFKIVLVGNAGVGKTCLVRRFTQ------GLFPPGQGATIGVDFMIKTVEVNGEKIKLQIWDTAGQERFRSITQSYY   77 (213)
T ss_pred             cceeEEEEEEccCCcCcchhhhhhhc------cCCCCCCCceeeeeEEEEEEEECCeEEEEEEeeccchHHHHHHHHHHh
Confidence            5667776665 2      77888887      8888888999999876    3666789999999999999999999999


Q ss_pred             hcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeee
Q 029517           78 EEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSG  155 (192)
Q Consensus        78 ~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  155 (192)
                      +.++++|+|||+++..+|+.+.+|+..+.++.. ...--++|+||+|+.+  +++..-..++.+     ...+-|.++||
T Consensus        78 rsahalilvydiscqpsfdclpewlreie~yan-~kvlkilvgnk~d~~drrevp~qigeefs~-----~qdmyfletsa  151 (213)
T KOG0095|consen   78 RSAHALILVYDISCQPSFDCLPEWLREIEQYAN-NKVLKILVGNKIDLADRREVPQQIGEEFSE-----AQDMYFLETSA  151 (213)
T ss_pred             hhcceEEEEEecccCcchhhhHHHHHHHHHHhh-cceEEEeeccccchhhhhhhhHHHHHHHHH-----hhhhhhhhhcc
Confidence            999999999999999999999999999998753 4667789999999976  333333333333     45677899999


Q ss_pred             cCCCCHHHHHHHHHHHHHhcc
Q 029517          156 YDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       156 ~~~~gi~e~~~~i~~~i~~~~  176 (192)
                      +...||+.+|..+.-.+....
T Consensus       152 kea~nve~lf~~~a~rli~~a  172 (213)
T KOG0095|consen  152 KEADNVEKLFLDLACRLISEA  172 (213)
T ss_pred             cchhhHHHHHHHHHHHHHHHH
Confidence            999999999999977666543

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.94  E-value=1.6e-25  Score=168.63  Aligned_cols=142  Identities=15%  Similarity=0.381  Sum_probs=116.8

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEE----ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIE----VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRF   95 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~----~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~   95 (192)
                      +|++++..      +.+...|.||+|.++....    ...+++.+|||+|+++|...+..++++++++|+|||+++..++
T Consensus        28 sli~~~~~------~~f~~~~~~tig~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilvfD~~~~~s~  101 (219)
T PLN03071         28 TFVKRHLT------GEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQEKFGGLRDGYYIHGQCAIIMFDVTARLTY  101 (219)
T ss_pred             HHHHHHhh------CCCCCccCCccceeEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHcccccEEEEEEeCCCHHHH
Confidence            44455444      5677888999998877543    2458999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC-CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517           96 EDSKTALEKVLRNEDLQGAPLLILANKQDLPD-AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus        96 ~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      +.+..|+..+.+..  .++|+++|+||+|+.. .+..+++ ++..     ..+++++++||++|.||+++|+||.+.+.+
T Consensus       102 ~~i~~w~~~i~~~~--~~~piilvgNK~Dl~~~~v~~~~~-~~~~-----~~~~~~~e~SAk~~~~i~~~f~~l~~~~~~  173 (219)
T PLN03071        102 KNVPTWHRDLCRVC--ENIPIVLCGNKVDVKNRQVKAKQV-TFHR-----KKNLQYYEISAKSNYNFEKPFLYLARKLAG  173 (219)
T ss_pred             HHHHHHHHHHHHhC--CCCcEEEEEEchhhhhccCCHHHH-HHHH-----hcCCEEEEcCCCCCCCHHHHHHHHHHHHHc
Confidence            99999999998764  5799999999999965 3333444 4433     456889999999999999999999998875


Q ss_pred             c
Q 029517          175 S  175 (192)
Q Consensus       175 ~  175 (192)
                      .
T Consensus       174 ~  174 (219)
T PLN03071        174 D  174 (219)
T ss_pred             C
Confidence            4

>cd04175 Rap1 Rap1 subgroup

Probab=99.94  E-value=1.5e-25  Score=161.28  Aligned_cols=145  Identities=20%  Similarity=0.325  Sum_probs=115.4

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE-E--EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG-R--IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~-~--~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++++++    .      +.+...+.||++..+. .  +.+..+.+++|||||++++...+..+++++|++++|||++
T Consensus        14 KTsli~~~~----~------~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~   83 (164)
T cd04175          14 KSALTVQFV----Q------GIFVEKYDPTIEDSYRKQVEVDGQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLVYSIT   83 (164)
T ss_pred             HHHHHHHHH----h------CCCCcccCCcchheEEEEEEECCEEEEEEEEECCCcccchhHHHHHHhhCCEEEEEEECC
Confidence            666666664    2      4455667888886554 2  3334678899999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      +..+++.+..|+..+.......+.|+++++||+|+..  ....++..++.+     ..+.+++++||++|.|++++|+++
T Consensus        84 ~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~~~~~l  158 (164)
T cd04175          84 AQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLAR-----QWGCAFLETSAKAKINVNEIFYDL  158 (164)
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcchhccEEcHHHHHHHHH-----HhCCEEEEeeCCCCCCHHHHHHHH
Confidence            9999999999999988754446799999999999975  234444444443     335789999999999999999999


Q ss_pred             HHHHH
Q 029517          169 VEVME  173 (192)
Q Consensus       169 ~~~i~  173 (192)
                      .+.+.
T Consensus       159 ~~~l~  163 (164)
T cd04175         159 VRQIN  163 (164)
T ss_pred             HHHhh
Confidence            87653

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

>cd04127 Rab27A Rab27a subfamily

Probab=99.94  E-value=3.5e-25  Score=161.68  Aligned_cols=146  Identities=18%  Similarity=0.332  Sum_probs=119.6

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EE------------ecCEEEEEEeCCCCcccHHHHHHhhhc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IE------------VSNSKLVFWDLGGQPGLRSIWEKYYEE   79 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~------------~~~~~~~i~D~~G~~~~~~~~~~~~~~   79 (192)
                      |||+++++    ..      +.+...+.||+|.++..  +.            ...+++.+||+||++++...+..++++
T Consensus        17 KTsli~~~----~~------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~   86 (180)
T cd04127          17 KTSFLYQY----TD------NKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQERFRSLTTAFFRD   86 (180)
T ss_pred             HHHHHHHH----hc------CCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCChHHHHHHHHHHhCC
Confidence            56665555    43      55677889999987753  22            224789999999999999999999999


Q ss_pred             CCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecC
Q 029517           80 AHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYD  157 (192)
Q Consensus        80 ~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  157 (192)
                      +|++++|||+++++++..+..|+..+.......+.|+++|+||+|+.+  .++.+++.++++     ..+++++++||++
T Consensus        87 ~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~e~Sak~  161 (180)
T cd04127          87 AMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLEDQRQVSEEQAKALAD-----KYGIPYFETSAAT  161 (180)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchhcCccCHHHHHHHHH-----HcCCeEEEEeCCC
Confidence            999999999999999999999999987754335789999999999965  456667777765     4467899999999


Q ss_pred             CCCHHHHHHHHHHHHHh
Q 029517          158 GFGIKESVEWLVEVMER  174 (192)
Q Consensus       158 ~~gi~e~~~~i~~~i~~  174 (192)
                      |.|++++|++|.+.+.+
T Consensus       162 ~~~v~~l~~~l~~~~~~  178 (180)
T cd04127         162 GTNVEKAVERLLDLVMK  178 (180)
T ss_pred             CCCHHHHHHHHHHHHHh
Confidence            99999999999987754

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

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.94  E-value=4.6e-25  Score=159.10  Aligned_cols=145  Identities=29%  Similarity=0.517  Sum_probs=120.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS   93 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~   93 (192)
                      |||++++|.    .      +.+...+.||+|.....+...++++.+||+||+++++..+..+++++|++|+|+|++++.
T Consensus        12 KTsli~~~~----~------~~~~~~~~pt~g~~~~~i~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~t~~~   81 (164)
T cd04162          12 KTSLLHSLS----S------ERSLESVVPTTGFNSVAIPTQDAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVDSADSE   81 (164)
T ss_pred             HHHHHHHHh----c------CCCcccccccCCcceEEEeeCCeEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCCHH
Confidence            666666664    3      345567899999888778888999999999999999999999999999999999999999


Q ss_pred             cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCcccc-CCcceEEEEeeecC------CCCHHHHHH
Q 029517           94 RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKL-DERVCMFEAVSGYD------GFGIKESVE  166 (192)
Q Consensus        94 s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~~~Sa~~------~~gi~e~~~  166 (192)
                      ++..++.|+..+....  .++|+++|+||+|+..+...+++.+.+.+..+ ...++.++++||++      ++||+++|+
T Consensus        82 s~~~~~~~l~~~~~~~--~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~s~~~~~~v~~~~~  159 (164)
T cd04162          82 RLPLARQELHQLLQHP--PDLPLVVLANKQDLPAARSVQEIHKELELEPIARGRRWILQGTSLDDDGSPSRMEAVKDLLS  159 (164)
T ss_pred             HHHHHHHHHHHHHhCC--CCCcEEEEEeCcCCcCCCCHHHHHHHhCChhhcCCCceEEEEeeecCCCChhHHHHHHHHHH
Confidence            9999999988887553  57999999999999877666666666554433 34578899999999      999999999


Q ss_pred             HHHH
Q 029517          167 WLVE  170 (192)
Q Consensus       167 ~i~~  170 (192)
                      .+..
T Consensus       160 ~~~~  163 (164)
T cd04162         160 QLIN  163 (164)
T ss_pred             HHhc
Confidence            8764

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.

>cd04151 Arl1 Arl1 subfamily

Probab=99.93  E-value=7.1e-25  Score=156.97  Aligned_cols=146  Identities=36%  Similarity=0.659  Sum_probs=114.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS   93 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~   93 (192)
                      |||++++|..          +.+ ..+.||+|.++..+++.++.+++|||||++++...+..+++.+|++++|+|++++.
T Consensus        12 KTsl~~~l~~----------~~~-~~~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~   80 (158)
T cd04151          12 KTTILYRLQL----------GEV-VTTIPTIGFNVETVTYKNLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVDSTDRD   80 (158)
T ss_pred             HHHHHHHHcc----------CCC-cCcCCccCcCeEEEEECCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEECCCHH
Confidence            6777777632          122 23578999888888888899999999999999999999999999999999999988


Q ss_pred             cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHH
Q 029517           94 RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE  170 (192)
Q Consensus        94 s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~  170 (192)
                      ++.....++..+.+.....++|+++++||+|+.+....+++.+.+........+.+++++||++|.|++++|++|.+
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  157 (158)
T cd04151          81 RLGTAKEELHAMLEEEELKGAVLLVFANKQDMPGALSEAEISEKLGLSELKDRTWSIFKTSAIKGEGLDEGMDWLVN  157 (158)
T ss_pred             HHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCCCCCHHHHHHHhCccccCCCcEEEEEeeccCCCCHHHHHHHHhc
Confidence            88877777776655433357999999999999865555666555543222344578999999999999999999975

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.

>cd04144 Ras2 Ras2 subfamily

Probab=99.93  E-value=3.4e-25  Score=163.46  Aligned_cols=151  Identities=19%  Similarity=0.244  Sum_probs=119.0

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++++|.    .      +.+...+.||++..+..   +.+..+.+++|||||+++|...+..+++.+|++|+|||++
T Consensus        12 KTsli~~l~----~------~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~   81 (190)
T cd04144          12 KTALTIQLC----L------NHFVETYDPTIEDSYRKQVVVDGQPCMLEVLDTAGQEEYTALRDQWIREGEGFILVYSIT   81 (190)
T ss_pred             HHHHHHHHH----h------CCCCccCCCchHhhEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHHhCCEEEEEEECC
Confidence            666666664    3      45566778888865542   3334578999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCC--CCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNED--LQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVE  166 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~--~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~  166 (192)
                      +..+++.+..|+..+.....  ..+.|+++|+||+|+..  .+..++..++..     ..+.+++++||++|.||+++|+
T Consensus        82 ~~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~e~SAk~~~~v~~l~~  156 (190)
T cd04144          82 SRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYEREVSTEEGAALAR-----RLGCEFIEASAKTNVNVERAFY  156 (190)
T ss_pred             CHHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhccccCccCHHHHHHHHH-----HhCCEEEEecCCCCCCHHHHHH
Confidence            99999999999988876432  24789999999999964  444555555544     3457899999999999999999


Q ss_pred             HHHHHHHhcchhh
Q 029517          167 WLVEVMERSKRTE  179 (192)
Q Consensus       167 ~i~~~i~~~~~~~  179 (192)
                      ++++.+.+..+..
T Consensus       157 ~l~~~l~~~~~~~  169 (190)
T cd04144         157 TLVRALRQQRQGG  169 (190)
T ss_pred             HHHHHHHHhhccc
Confidence            9999887665443

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.

>cd01874 Cdc42 Cdc42 subfamily

Probab=99.93  E-value=4.7e-25  Score=160.69  Aligned_cols=133  Identities=19%  Similarity=0.280  Sum_probs=106.6

Q ss_pred             CCCCCCCCCCcceEEE-EEE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHH-HHHHHHHhCC
Q 029517           34 GLPPDRIVPTVGLNIG-RIE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSK-TALEKVLRNE  109 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~-~~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~-~~~~~i~~~~  109 (192)
                      +.|.+.|.||+|..+. .+.  ...+++++|||+|+++|...+..+++++|++|+|||++++++|+.+. .|+..+....
T Consensus        24 ~~f~~~~~pt~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~w~~~i~~~~  103 (175)
T cd01874          24 NKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC  103 (175)
T ss_pred             CCCCCCCCCceeeeeEEEEEECCEEEEEEEEECCCccchhhhhhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC
Confidence            5677789999998776 333  33588999999999999999999999999999999999999999997 5887776653


Q ss_pred             CCCCCcEEEEEeCCCCCCC--------------CCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517          110 DLQGAPLLILANKQDLPDA--------------VSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~~--------------~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                        .++|+++|+||+|+...              ++.+++.++++    ......++++||++|.||+++|+.+.++.
T Consensus       104 --~~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~a~----~~~~~~~~e~SA~tg~~v~~~f~~~~~~~  174 (175)
T cd01874         104 --PKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLAR----DLKAVKYVECSALTQKGLKNVFDEAILAA  174 (175)
T ss_pred             --CCCCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHHHH----HhCCcEEEEecCCCCCCHHHHHHHHHHHh
Confidence              47999999999998542              33344444443    12237899999999999999999998754

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

>cd04128 Spg1 Spg1p

Probab=99.93  E-value=4.9e-25  Score=161.54  Aligned_cols=136  Identities=17%  Similarity=0.252  Sum_probs=109.4

Q ss_pred             CCCCCCCCCCcceEEE--EEE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCC
Q 029517           34 GLPPDRIVPTVGLNIG--RIE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNE  109 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~--~~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~  109 (192)
                      +.|...|.||+|.++.  .+.  +..+.+++||++|+++|...+..+++++|++++|||++++.+++.+..|+..+.+..
T Consensus        23 ~~f~~~~~~T~g~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~iilv~D~t~~~s~~~i~~~~~~~~~~~  102 (182)
T cd04128          23 GEFDEDYIQTLGVNFMEKTISIRGTEITFSIWDLGGQREFINMLPLVCNDAVAILFMFDLTRKSTLNSIKEWYRQARGFN  102 (182)
T ss_pred             CCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCchhHHHhhHHHCcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhC
Confidence            5667789999998874  333  335789999999999999999999999999999999999999999999999987753


Q ss_pred             CCCCCcEEEEEeCCCCCCCC-------CHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhcc
Q 029517          110 DLQGAPLLILANKQDLPDAV-------SADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~~  176 (192)
                      . ...| ++|+||+|+....       ..++..++++     ..+.+++++||++|.||+++|+++.+.+.+..
T Consensus       103 ~-~~~p-ilVgnK~Dl~~~~~~~~~~~~~~~~~~~a~-----~~~~~~~e~SAk~g~~v~~lf~~l~~~l~~~~  169 (182)
T cd04128         103 K-TAIP-ILVGTKYDLFADLPPEEQEEITKQARKYAK-----AMKAPLIFCSTSHSINVQKIFKIVLAKAFDLP  169 (182)
T ss_pred             C-CCCE-EEEEEchhccccccchhhhhhHHHHHHHHH-----HcCCEEEEEeCCCCCCHHHHHHHHHHHHHhcC
Confidence            3 3567 5789999995311       1233444443     34578999999999999999999999887644

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

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=99.93  E-value=9.4e-25  Score=164.21  Aligned_cols=135  Identities=16%  Similarity=0.183  Sum_probs=110.0

Q ss_pred             CCCCCCCCCCcceEEE---EEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHH-HHHHHHHhCC
Q 029517           34 GLPPDRIVPTVGLNIG---RIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSK-TALEKVLRNE  109 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~---~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~-~~~~~i~~~~  109 (192)
                      +.|.+.|.||++.++.   .+++..+.+.+|||+|++.|...+..+++++|++|+|||++++++|+.+. .|...+....
T Consensus        24 ~~f~~~y~pTi~~~~~~~~~~~~~~v~L~iwDt~G~e~~~~l~~~~~~~~d~illvfdis~~~Sf~~i~~~w~~~~~~~~  103 (222)
T cd04173          24 DAYPGSYVPTVFENYTASFEIDKRRIELNMWDTSGSSYYDNVRPLAYPDSDAVLICFDISRPETLDSVLKKWQGETQEFC  103 (222)
T ss_pred             CCCCCccCCccccceEEEEEECCEEEEEEEEeCCCcHHHHHHhHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhC
Confidence            6677889999998775   23445689999999999999999999999999999999999999999984 5666554443


Q ss_pred             CCCCCcEEEEEeCCCCCC--------------CCCHHHHHhHcCccccCCcc-eEEEEeeecCCCC-HHHHHHHHHHHHH
Q 029517          110 DLQGAPLLILANKQDLPD--------------AVSADELARYLDLKKLDERV-CMFEAVSGYDGFG-IKESVEWLVEVME  173 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~--------------~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~g-i~e~~~~i~~~i~  173 (192)
                        .+.|+++|+||+|+.+              .++.++..++++     ..+ .+|+||||+++.| |+++|+.+.....
T Consensus       104 --~~~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~g~~~ak-----~~~~~~y~E~SAk~~~~~V~~~F~~~~~~~~  176 (222)
T cd04173         104 --PNAKVVLVGCKLDMRTDLATLRELSKQRLIPVTHEQGTVLAK-----QVGAVSYVECSSRSSERSVRDVFHVATVASL  176 (222)
T ss_pred             --CCCCEEEEEECcccccchhhhhhhhhccCCccCHHHHHHHHH-----HcCCCEEEEcCCCcCCcCHHHHHHHHHHHHH
Confidence              5799999999999954              245566666665     344 5899999999885 9999999999766


Q ss_pred             hc
Q 029517          174 RS  175 (192)
Q Consensus       174 ~~  175 (192)
                      ..
T Consensus       177 ~~  178 (222)
T cd04173         177 GR  178 (222)
T ss_pred             hc
Confidence            53

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

>cd01865 Rab3 Rab3 subfamily

Probab=99.93  E-value=1.4e-24  Score=156.60  Aligned_cols=145  Identities=21%  Similarity=0.311  Sum_probs=116.0

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++++|    ..      +.+...|.||+|.++..  +.  ...+.+++||++|++++...+..+++++|++++|||+
T Consensus        14 KSsli~~l----~~------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~g~~~~~~~~~~~~~~~~~~l~v~d~   83 (165)
T cd01865          14 KTSFLFRY----AD------DSFTSAFVSTVGIDFKVKTVFRNDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDI   83 (165)
T ss_pred             HHHHHHHH----hc------CCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHccCCcEEEEEEEC
Confidence            56655555    44      55667788999876642  32  2357899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      ++.++++.+..|+..+.+... .+.|+++|+||+|+.+  ....++..+...     ..+++++++||++|.|++++|++
T Consensus        84 ~~~~s~~~~~~~~~~i~~~~~-~~~piivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gv~~l~~~  157 (165)
T cd01865          84 TNEESFNAVQDWSTQIKTYSW-DNAQVILVGNKCDMEDERVVSSERGRQLAD-----QLGFEFFEASAKENINVKQVFER  157 (165)
T ss_pred             CCHHHHHHHHHHHHHHHHhCC-CCCCEEEEEECcccCcccccCHHHHHHHHH-----HcCCEEEEEECCCCCCHHHHHHH
Confidence            999999999999999876532 4689999999999965  344555555554     34568999999999999999999


Q ss_pred             HHHHHHh
Q 029517          168 LVEVMER  174 (192)
Q Consensus       168 i~~~i~~  174 (192)
                      +.+.+.+
T Consensus       158 l~~~~~~  164 (165)
T cd01865         158 LVDIICD  164 (165)
T ss_pred             HHHHHHh
Confidence            9887643

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

>cd04110 Rab35 Rab35 subfamily

Probab=99.93  E-value=1.5e-24  Score=161.10  Aligned_cols=148  Identities=21%  Similarity=0.367  Sum_probs=119.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++++|+    .      +.+...|.||+|.++..  +.  +..+.+.+||+||++.+...+..++++++++++|+|+
T Consensus        19 KTsli~~l~----~------~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~a~~iilv~D~   88 (199)
T cd04110          19 KSSLLLRFA----D------NTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDV   88 (199)
T ss_pred             HHHHHHHHh----c------CCCCCCcCccccceeEEEEEEECCEEEEEEEEeCCCchhHHHHHHHHhCCCcEEEEEEEC
Confidence            566665554    3      45566788999977653  33  3357899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++++++.+..|+..+....  ...|+++|+||+|+..  ....+++.++..     ..+.+++++||++|.||+++|++
T Consensus        89 ~~~~s~~~~~~~~~~i~~~~--~~~piivVgNK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~e~Sa~~~~gi~~lf~~  161 (199)
T cd04110          89 TNGESFVNVKRWLQEIEQNC--DDVCKVLVGNKNDDPERKVVETEDAYKFAG-----QMGISLFETSAKENINVEEMFNC  161 (199)
T ss_pred             CCHHHHHHHHHHHHHHHHhC--CCCCEEEEEECcccccccccCHHHHHHHHH-----HcCCEEEEEECCCCcCHHHHHHH
Confidence            99999999999999887654  4789999999999975  345566666665     34578999999999999999999


Q ss_pred             HHHHHHhcchh
Q 029517          168 LVEVMERSKRT  178 (192)
Q Consensus       168 i~~~i~~~~~~  178 (192)
                      |.+.+.+....
T Consensus       162 l~~~~~~~~~~  172 (199)
T cd04110         162 ITELVLRAKKD  172 (199)
T ss_pred             HHHHHHHhhhc
Confidence            99988765433

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

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.93  E-value=1.7e-24  Score=156.37  Aligned_cols=145  Identities=21%  Similarity=0.332  Sum_probs=118.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--E--EecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--I--EVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~--~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||+++++    ..      +.+...|.||+|..+..  +  .+..+.+++||+||++++...+..+++++|++++|+|+
T Consensus        16 KSsl~~~~----~~------~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~g~~~~~~~~~~~~~~ad~~i~v~d~   85 (167)
T cd01867          16 KSCLLLRF----SE------DSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGIILVYDI   85 (167)
T ss_pred             HHHHHHHH----hh------CcCCcccccCccceEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhCCCCEEEEEEEC
Confidence            55555555    44      55677889999987642  3  33357899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++++|+.+..|+..+..... .+.|+++++||+|+.+  ....+++.+.+.     ..+.+++++||++|.|++++|++
T Consensus        86 ~~~~s~~~~~~~~~~i~~~~~-~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~~~~~  159 (167)
T cd01867          86 TDEKSFENIRNWMRNIEEHAS-EDVERMLVGNKCDMEEKRVVSKEEGEALAD-----EYGIKFLETSAKANINVEEAFFT  159 (167)
T ss_pred             cCHHHHHhHHHHHHHHHHhCC-CCCcEEEEEECcccccccCCCHHHHHHHHH-----HcCCEEEEEeCCCCCCHHHHHHH
Confidence            999999999999998877532 5789999999999975  345566666665     44678999999999999999999


Q ss_pred             HHHHHHh
Q 029517          168 LVEVMER  174 (192)
Q Consensus       168 i~~~i~~  174 (192)
                      +.+.+.+
T Consensus       160 i~~~~~~  166 (167)
T cd01867         160 LAKDIKK  166 (167)
T ss_pred             HHHHHHh
Confidence            9998754

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

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.93  E-value=1.6e-24  Score=157.14  Aligned_cols=136  Identities=21%  Similarity=0.327  Sum_probs=109.9

Q ss_pred             CCCCCCCCCCcceEEEE--E--EecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCC
Q 029517           34 GLPPDRIVPTVGLNIGR--I--EVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNE  109 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~--~--~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~  109 (192)
                      +.|...|.||+|.++..  +  .+..+++++|||||+++|...+..+++++|++++|||++++++++.+..|+..+.+..
T Consensus        23 ~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~  102 (170)
T cd04108          23 DVFDKNYKATIGVDFEMERFEILGVPFSLQLWDTAGQERFKCIASTYYRGAQAIIIVFDLTDVASLEHTRQWLEDALKEN  102 (170)
T ss_pred             CCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCChHHHHhhHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhc
Confidence            56778889999988752  2  3345789999999999999999999999999999999999999999999999987654


Q ss_pred             CCCCCcEEEEEeCCCCCCCC----CHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          110 DLQGAPLLILANKQDLPDAV----SADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~~~----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      ...+.|+++|+||+|+.+..    ..++..++..     ..+.+++++||++|.|++++|+.|.+.+.+
T Consensus       103 ~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~~-----~~~~~~~e~Sa~~g~~v~~lf~~l~~~~~~  166 (170)
T cd04108         103 DPSSVLLFLVGTKKDLSSPAQYALMEQDAIKLAA-----EMQAEYWSVSALSGENVREFFFRVAALTFE  166 (170)
T ss_pred             CCCCCeEEEEEEChhcCccccccccHHHHHHHHH-----HcCCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            33457899999999986421    2333444443     335689999999999999999999987754

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

>cd04117 Rab15 Rab15 subfamily

Probab=99.93  E-value=1.5e-24  Score=155.92  Aligned_cols=142  Identities=21%  Similarity=0.321  Sum_probs=115.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE--EEEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG--RIEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~--~~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++++++    .      +.+...+.||+|.++.  .+..  ..+.+++||++|++++...+..+++.+|++++|||+
T Consensus        13 KTsli~~~~----~------~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~   82 (161)
T cd04117          13 KTCLLCRFT----D------NEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQERYQTITKQYYRRAQGIFLVYDI   82 (161)
T ss_pred             HHHHHHHHh----c------CCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCCcHhHHhhHHHHhcCCcEEEEEEEC
Confidence            566655553    3      5566778999998765  3333  347899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++++|+.+..|+..+..... .+.|+++|+||.|+.+  .+..++...+++     ..+.+++++||++|.||+++|++
T Consensus        83 ~~~~sf~~~~~~~~~~~~~~~-~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~e~Sa~~~~~v~~~f~~  156 (161)
T cd04117          83 SSERSYQHIMKWVSDVDEYAP-EGVQKILIGNKADEEQKRQVGDEQGNKLAK-----EYGMDFFETSACTNSNIKESFTR  156 (161)
T ss_pred             CCHHHHHHHHHHHHHHHHhCC-CCCeEEEEEECcccccccCCCHHHHHHHHH-----HcCCEEEEEeCCCCCCHHHHHHH
Confidence            999999999999998876532 4789999999999965  455667776665     34578999999999999999999


Q ss_pred             HHHH
Q 029517          168 LVEV  171 (192)
Q Consensus       168 i~~~  171 (192)
                      |.+.
T Consensus       157 l~~~  160 (161)
T cd04117         157 LTEL  160 (161)
T ss_pred             HHhh
Confidence            9864

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

>cd04136 Rap_like Rap-like subfamily

Probab=99.93  E-value=1.1e-24  Score=156.41  Aligned_cols=144  Identities=22%  Similarity=0.338  Sum_probs=113.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE-E--EecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR-I--EVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~-~--~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++++++    .      +.+...+.||++..+.. +  ++..+.+++|||||+++|...+..++++++++++|||++
T Consensus        14 KTsl~~~~~----~------~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~   83 (163)
T cd04136          14 KSALTVQFV----Q------GIFVEKYDPTIEDSYRKQIEVDGQQCMLEILDTAGTEQFTAMRDLYIKNGQGFVLVYSIT   83 (163)
T ss_pred             HHHHHHHHH----h------CCCCcccCCchhhhEEEEEEECCEEEEEEEEECCCccccchHHHHHhhcCCEEEEEEECC
Confidence            666666654    3      44566778888744332 3  334578999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      ++.+++.+..|+..+.......+.|+++++||+|+.+  ....++..++..     ..+.+++++||++|.|++++|+++
T Consensus        84 ~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~l~~~l  158 (163)
T cd04136          84 SQSSFNDLQDLREQILRVKDTENVPMVLVGNKCDLEDERVVSREEGQALAR-----QWGCPFYETSAKSKINVDEVFADL  158 (163)
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceecHHHHHHHHH-----HcCCeEEEecCCCCCCHHHHHHHH
Confidence            9999999999999888764446799999999999864  344444444443     334789999999999999999999


Q ss_pred             HHHH
Q 029517          169 VEVM  172 (192)
Q Consensus       169 ~~~i  172 (192)
                      .+.+
T Consensus       159 ~~~~  162 (163)
T cd04136         159 VRQI  162 (163)
T ss_pred             HHhc
Confidence            8754

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.

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.93  E-value=2e-24  Score=155.43  Aligned_cols=145  Identities=23%  Similarity=0.389  Sum_probs=118.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--E--EecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--I--EVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~--~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++          +.+...+.||+|.++..  +  .+..+.+++|||||++.+...+..+++.+|++|+|+|+
T Consensus        13 KTsli~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~   82 (168)
T cd04119          13 KSCIIKRYCE----------GRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVYDV   82 (168)
T ss_pred             HHHHHHHHHh----------CCCCCCCCCccceeEEEEEEEECCeEEEEEEEECCccHHHHHHHHHHhccCCEEEEEEEC
Confidence            6777766654          44556789999987652  3  33467899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCC----CCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDL----QGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKE  163 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~----~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e  163 (192)
                      +++++++.+..|+..+......    ...|+++|+||+|+.+  ....++...++.     ..+.+++++||++|.|+++
T Consensus        83 ~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~  157 (168)
T cd04119          83 TDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRAVSEDEGRLWAE-----SKGFKYFETSACTGEGVNE  157 (168)
T ss_pred             CCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhcccccccCHHHHHHHHH-----HcCCeEEEEECCCCCCHHH
Confidence            9999999999999998875432    4689999999999973  456666666665     4457899999999999999


Q ss_pred             HHHHHHHHHH
Q 029517          164 SVEWLVEVME  173 (192)
Q Consensus       164 ~~~~i~~~i~  173 (192)
                      +|++|.+.+.
T Consensus       158 l~~~l~~~l~  167 (168)
T cd04119         158 MFQTLFSSIV  167 (168)
T ss_pred             HHHHHHHHHh
Confidence            9999998765

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.

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

Probab=99.93  E-value=6.1e-24  Score=156.01  Aligned_cols=145  Identities=34%  Similarity=0.520  Sum_probs=120.1

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSK   99 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~   99 (192)
                      +|++++..      +.+ ..+.||.+.....+...++++.+||+||+..+...+..+++++|++++|+|+++++++....
T Consensus        32 sli~~l~~------~~~-~~~~~t~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~ad~ii~vvD~~~~~~~~~~~  104 (184)
T smart00178       32 TLLHMLKN------DRL-AQHQPTQHPTSEELAIGNIKFTTFDLGGHQQARRLWKDYFPEVNGIVYLVDAYDKERFAESK  104 (184)
T ss_pred             HHHHHHhc------CCC-cccCCccccceEEEEECCEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCcHHHHHHHH
Confidence            55566554      222 34567777777777778899999999999999999999999999999999999999999998


Q ss_pred             HHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCcccc-------CCcceEEEEeeecCCCCHHHHHHHHHHH
Q 029517          100 TALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKL-------DERVCMFEAVSGYDGFGIKESVEWLVEV  171 (192)
Q Consensus       100 ~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~Sa~~~~gi~e~~~~i~~~  171 (192)
                      .++..+.+.....++|+++++||+|+....+.+++.+.+.+...       ..+...+++|||++|.|++++++||.+.
T Consensus       105 ~~l~~l~~~~~~~~~piliv~NK~Dl~~~~~~~~i~~~l~l~~~~~~~~~~~~~~~~i~~~Sa~~~~g~~~~~~wl~~~  183 (184)
T smart00178      105 RELDALLSDEELATVPFLILGNKIDAPYAASEDELRYALGLTNTTGSKGKVGVRPLEVFMCSVVRRMGYGEGFKWLSQY  183 (184)
T ss_pred             HHHHHHHcChhhcCCCEEEEEeCccccCCCCHHHHHHHcCCCcccccccccCCceeEEEEeecccCCChHHHHHHHHhh
Confidence            88888876544467999999999999888888899888875432       2256789999999999999999999864

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

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

Probab=99.93  E-value=2.8e-24  Score=153.80  Aligned_cols=144  Identities=21%  Similarity=0.254  Sum_probs=115.6

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|++          +.+...+.||.+..+..   ++...+.+++|||+|++++..++..++++++++++|+|++
T Consensus        14 KTsl~~~~~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~~~~~i~v~~~~   83 (162)
T cd04138          14 KSALTIQLIQ----------NHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAIN   83 (162)
T ss_pred             HHHHHHHHHh----------CCCcCCcCCcchheEEEEEEECCEEEEEEEEECCCCcchHHHHHHHHhcCCEEEEEEECC
Confidence            6777777653          44556678888765542   3333567899999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC-CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD-AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLV  169 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~  169 (192)
                      +..+++.+..|+..+.+.....+.|+++|+||+|+.+ ....+++.+..+     ..+.+++++||++|.|++++|+++.
T Consensus        84 ~~~s~~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l~~~l~  158 (162)
T cd04138          84 SRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAARTVSSRQGQDLAK-----SYGIPYIETSAKTRQGVEEAFYTLV  158 (162)
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccceecHHHHHHHHH-----HhCCeEEEecCCCCCCHHHHHHHHH
Confidence            9999999999999888765446799999999999975 444556656654     4467899999999999999999998


Q ss_pred             HHH
Q 029517          170 EVM  172 (192)
Q Consensus       170 ~~i  172 (192)
                      +.+
T Consensus       159 ~~~  161 (162)
T cd04138         159 REI  161 (162)
T ss_pred             HHh
Confidence            754

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.

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.93  E-value=3.6e-24  Score=154.38  Aligned_cols=144  Identities=24%  Similarity=0.364  Sum_probs=116.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++++++    .      +.+...+.||+|.++..  +.  +..+.+++||+||++++...+..+++++|++|+|||+
T Consensus        15 KSsli~~~~----~------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~ii~v~d~   84 (166)
T cd01869          15 KSCLLLRFA----D------DTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDV   84 (166)
T ss_pred             HHHHHHHHh----c------CCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhCcCCEEEEEEEC
Confidence            566666554    3      44556778888876642  32  3357899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      ++++++..+..|+..+.... ..+.|+++++||+|+..  .+..+++.++..     ..+++++++||++|.|++++|++
T Consensus        85 ~~~~s~~~l~~~~~~~~~~~-~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~~~~~  158 (166)
T cd01869          85 TDQESFNNVKQWLQEIDRYA-SENVNKLLVGNKCDLTDKRVVDYSEAQEFAD-----ELGIPFLETSAKNATNVEQAFMT  158 (166)
T ss_pred             cCHHHHHhHHHHHHHHHHhC-CCCCcEEEEEEChhcccccCCCHHHHHHHHH-----HcCCeEEEEECCCCcCHHHHHHH
Confidence            99999999999999887653 24689999999999865  455566666665     45678999999999999999999


Q ss_pred             HHHHHH
Q 029517          168 LVEVME  173 (192)
Q Consensus       168 i~~~i~  173 (192)
                      |.+.+.
T Consensus       159 i~~~~~  164 (166)
T cd01869         159 MAREIK  164 (166)
T ss_pred             HHHHHH
Confidence            998775

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

>cd04111 Rab39 Rab39 subfamily

Probab=99.93  E-value=2.5e-24  Score=161.26  Aligned_cols=149  Identities=24%  Similarity=0.349  Sum_probs=121.1

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EE---ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEe
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IE---VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVID   88 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~---~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D   88 (192)
                      |||++++|++          +.+...+.||+|.++..  +.   +..+.+++|||+|++.+...+..+++++|++++|||
T Consensus        15 KTsLi~~l~~----------~~~~~~~~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D   84 (211)
T cd04111          15 KSSLLKRFTE----------GRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSITRSYYRNSVGVLLVFD   84 (211)
T ss_pred             HHHHHHHHHc----------CCCCCCCCceeceEEEEEEEEECCCCEEEEEEEeCCcchhHHHHHHHHhcCCcEEEEEEE
Confidence            6777777653          34455577899887653  32   235789999999999999999999999999999999


Q ss_pred             CCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHH
Q 029517           89 AACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVE  166 (192)
Q Consensus        89 ~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~  166 (192)
                      ++++++|+.+..|+..+.+.......|+++++||+|+.+  .+..++..++.+     ..+.+++++||++|.||+++|+
T Consensus        85 ~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~e~Sak~g~~v~e~f~  159 (211)
T cd04111          85 ITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQRQVTREEAEKLAK-----DLGMKYIETSARTGDNVEEAFE  159 (211)
T ss_pred             CCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEccccccccccCHHHHHHHHH-----HhCCEEEEEeCCCCCCHHHHHH
Confidence            999999999999999988764435678999999999965  455666666665     4568999999999999999999


Q ss_pred             HHHHHHHhcch
Q 029517          167 WLVEVMERSKR  177 (192)
Q Consensus       167 ~i~~~i~~~~~  177 (192)
                      +|.+.+.+...
T Consensus       160 ~l~~~~~~~~~  170 (211)
T cd04111         160 LLTQEIYERIK  170 (211)
T ss_pred             HHHHHHHHHhh
Confidence            99998876643

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.

>cd04109 Rab28 Rab28 subfamily

Probab=99.92  E-value=4.7e-24  Score=160.26  Aligned_cols=147  Identities=22%  Similarity=0.243  Sum_probs=119.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEe---cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEe
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEV---SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVID   88 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~---~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D   88 (192)
                      |||++++|+    .      +.+...|.||+|.++..  +..   ..+.+++|||+|++.+...+..+++++|++|+|||
T Consensus        13 KSsLi~~l~----~------~~~~~~~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~ad~iilV~D   82 (215)
T cd04109          13 KTSLCRRFA----K------EGFGKSYKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQSIGGKMLDKYIYGAHAVFLVYD   82 (215)
T ss_pred             HHHHHHHHh----c------CCCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCcHHHHHHHHHHhhcCCEEEEEEE
Confidence            666666664    3      55678889999988653  332   35799999999999999999999999999999999


Q ss_pred             CCCcccHHHHHHHHHHHHhCCC--CCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHH
Q 029517           89 AACPSRFEDSKTALEKVLRNED--LQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKES  164 (192)
Q Consensus        89 ~~~~~s~~~~~~~~~~i~~~~~--~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~  164 (192)
                      ++++++|+.+..|+..+.+...  ..+.|+++|+||+|+.+  .+..++..++..     ..+++++++||++|.||+++
T Consensus        83 ~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~~~-----~~~~~~~~iSAktg~gv~~l  157 (215)
T cd04109          83 VTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHNRTVKDDKHARFAQ-----ANGMESCLVSAKTGDRVNLL  157 (215)
T ss_pred             CCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECcccccccccCHHHHHHHHH-----HcCCEEEEEECCCCCCHHHH
Confidence            9999999999999998887532  13578999999999964  455666666665     44678999999999999999


Q ss_pred             HHHHHHHHHhc
Q 029517          165 VEWLVEVMERS  175 (192)
Q Consensus       165 ~~~i~~~i~~~  175 (192)
                      |++|.+.+.+.
T Consensus       158 f~~l~~~l~~~  168 (215)
T cd04109         158 FQQLAAELLGV  168 (215)
T ss_pred             HHHHHHHHHhc
Confidence            99999988754

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

>cd04112 Rab26 Rab26 subfamily

Probab=99.92  E-value=1.7e-24  Score=159.88  Aligned_cols=147  Identities=21%  Similarity=0.393  Sum_probs=117.2

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCC-CCCCCCcceEEEE----EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEe
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPP-DRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVID   88 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~-~~~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D   88 (192)
                      |||+++++.+          +.+. ..+.||++.++..    +++..+.++||||||++++...+..+++.+|++|+|+|
T Consensus        13 KTSli~~~~~----------~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~D   82 (191)
T cd04112          13 KTCLLVRFKD----------GAFLNGNFIATVGIDFRNKVVTVDGVKVKLQIWDTAGQERFRSVTHAYYRDAHALLLLYD   82 (191)
T ss_pred             HHHHHHHHhc----------CCCCccCcCCcccceeEEEEEEECCEEEEEEEEeCCCcHHHHHhhHHHccCCCEEEEEEE
Confidence            5666665543          3332 3678888877653    33345789999999999999889999999999999999


Q ss_pred             CCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHH
Q 029517           89 AACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVE  166 (192)
Q Consensus        89 ~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~  166 (192)
                      +++.++++.+..|+..+..... .++|+++++||+|+..  .+..++......     ..+.+++++||++|.|++++|+
T Consensus        83 ~~~~~s~~~~~~~~~~i~~~~~-~~~piiiv~NK~Dl~~~~~~~~~~~~~l~~-----~~~~~~~e~Sa~~~~~v~~l~~  156 (191)
T cd04112          83 ITNKASFDNIRAWLTEIKEYAQ-EDVVIMLLGNKADMSGERVVKREDGERLAK-----EYGVPFMETSAKTGLNVELAFT  156 (191)
T ss_pred             CCCHHHHHHHHHHHHHHHHhCC-CCCcEEEEEEcccchhccccCHHHHHHHHH-----HcCCeEEEEeCCCCCCHHHHHH
Confidence            9999999999999998887642 4789999999999963  445556666554     4457899999999999999999


Q ss_pred             HHHHHHHhcc
Q 029517          167 WLVEVMERSK  176 (192)
Q Consensus       167 ~i~~~i~~~~  176 (192)
                      +|.+.+.+..
T Consensus       157 ~l~~~~~~~~  166 (191)
T cd04112         157 AVAKELKHRK  166 (191)
T ss_pred             HHHHHHHHhc
Confidence            9999887764

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.

>cd04134 Rho3 Rho3 subfamily

Probab=99.92  E-value=1.5e-24  Score=159.92  Aligned_cols=147  Identities=19%  Similarity=0.252  Sum_probs=114.4

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++++++    .      +.+...|.||++.++..   +++..+.+++|||+|++.|...+..+++.++++++|||++
T Consensus        13 KTsli~~~~----~------~~~~~~~~~t~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv~dv~   82 (189)
T cd04134          13 KTSLLNVFT----R------GYFPQVYEPTVFENYVHDIFVDGLHIELSLWDTAGQEEFDRLRSLSYADTDVIMLCFSVD   82 (189)
T ss_pred             HHHHHHHHh----c------CCCCCccCCcceeeeEEEEEECCEEEEEEEEECCCChhccccccccccCCCEEEEEEECC
Confidence            566655554    3      56667788999877653   3334578999999999999888888999999999999999


Q ss_pred             CcccHHHHH-HHHHHHHhCCCCCCCcEEEEEeCCCCCCCC--------------CHHHHHhHcCccccCCcceEEEEeee
Q 029517           91 CPSRFEDSK-TALEKVLRNEDLQGAPLLILANKQDLPDAV--------------SADELARYLDLKKLDERVCMFEAVSG  155 (192)
Q Consensus        91 ~~~s~~~~~-~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~--------------~~~~~~~~~~~~~~~~~~~~~~~~Sa  155 (192)
                      ++++|+.+. .|+..+....  .+.|+++|+||+|+....              ..++..+++.    ....++++++||
T Consensus        83 ~~~sf~~~~~~~~~~i~~~~--~~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~----~~~~~~~~e~SA  156 (189)
T cd04134          83 SPDSLENVESKWLGEIREHC--PGVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAK----RINALRYLECSA  156 (189)
T ss_pred             CHHHHHHHHHHHHHHHHHhC--CCCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHH----HcCCCEEEEccC
Confidence            999999886 5888887653  479999999999997532              2233334333    122378999999


Q ss_pred             cCCCCHHHHHHHHHHHHHhcc
Q 029517          156 YDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       156 ~~~~gi~e~~~~i~~~i~~~~  176 (192)
                      ++|.||+++|+++.+.+....
T Consensus       157 k~~~~v~e~f~~l~~~~~~~~  177 (189)
T cd04134         157 KLNRGVNEAFTEAARVALNVR  177 (189)
T ss_pred             CcCCCHHHHHHHHHHHHhccc
Confidence            999999999999999887544

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

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

Probab=99.92  E-value=1.4e-24  Score=147.42  Aligned_cols=153  Identities=20%  Similarity=0.315  Sum_probs=130.8

Q ss_pred             HHHHHHHhhhhccCCCCCCCCCCCCcceEEEE----EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCccc
Q 029517           19 HTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSR   94 (192)
Q Consensus        19 ~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s   94 (192)
                      .+|+++++-      ..|...-+.|+|++++.    +.+.+++++||||+|+++|+.....|++++.+.++|||++...+
T Consensus        25 scllhqfte------kkfmadcphtigvefgtriievsgqkiklqiwdtagqerfravtrsyyrgaagalmvyditrrst   98 (215)
T KOG0097|consen   25 SCLLHQFTE------KKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRST   98 (215)
T ss_pred             HHHHHHHHH------HHHhhcCCcccceecceeEEEecCcEEEEEEeecccHHHHHHHHHHHhccccceeEEEEehhhhh
Confidence            477777776      56666778889988874    56678999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517           95 FEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus        95 ~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                      +..+..|+........ ++.-+++++||.|+..  .+..+++.++++     .++.-|.++||++|.||++.|-+..+++
T Consensus        99 ynhlsswl~dar~ltn-pnt~i~lignkadle~qrdv~yeeak~fae-----engl~fle~saktg~nvedafle~akki  172 (215)
T KOG0097|consen   99 YNHLSSWLTDARNLTN-PNTVIFLIGNKADLESQRDVTYEEAKEFAE-----ENGLMFLEASAKTGQNVEDAFLETAKKI  172 (215)
T ss_pred             hhhHHHHHhhhhccCC-CceEEEEecchhhhhhcccCcHHHHHHHHh-----hcCeEEEEecccccCcHHHHHHHHHHHH
Confidence            9999999988766532 5778999999999977  688999999998     7899999999999999999999888888


Q ss_pred             Hhcchhhhhhh
Q 029517          173 ERSKRTEMLRA  183 (192)
Q Consensus       173 ~~~~~~~~~~~  183 (192)
                      ....+...+..
T Consensus       173 yqniqdgsldl  183 (215)
T KOG0097|consen  173 YQNIQDGSLDL  183 (215)
T ss_pred             HHhhhcCcccc
Confidence            76655544443

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.92  E-value=2e-24  Score=157.20  Aligned_cols=131  Identities=18%  Similarity=0.288  Sum_probs=105.1

Q ss_pred             CCCCCCCCCCcceEEE---EEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHH-HHHHHHHhCC
Q 029517           34 GLPPDRIVPTVGLNIG---RIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSK-TALEKVLRNE  109 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~---~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~-~~~~~i~~~~  109 (192)
                      +.+...|.||++..+.   .+++..+.+++|||+|++.|...+..+++++|++|+|||++++++|+.+. .|+..+....
T Consensus        24 ~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~  103 (174)
T cd01871          24 NAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC  103 (174)
T ss_pred             CCCCCcCCCcceeeeEEEEEECCEEEEEEEEECCCchhhhhhhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC
Confidence            5667788899876544   23344578999999999999999999999999999999999999999996 5877776543


Q ss_pred             CCCCCcEEEEEeCCCCCCC--------------CCHHHHHhHcCccccCCcc-eEEEEeeecCCCCHHHHHHHHHHH
Q 029517          110 DLQGAPLLILANKQDLPDA--------------VSADELARYLDLKKLDERV-CMFEAVSGYDGFGIKESVEWLVEV  171 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~~--------------~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~e~~~~i~~~  171 (192)
                        .+.|+++|+||+|+.+.              ++.++..++++     ..+ .++++|||++|.||+++|+.+.+.
T Consensus       104 --~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~-----~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  173 (174)
T cd01871         104 --PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAK-----EIGAVKYLECSALTQKGLKTVFDEAIRA  173 (174)
T ss_pred             --CCCCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHHHHHH-----HcCCcEEEEecccccCCHHHHHHHHHHh
Confidence              47999999999999542              34455555554     223 589999999999999999999764

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

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

Probab=99.92  E-value=7.1e-24  Score=151.61  Aligned_cols=146  Identities=38%  Similarity=0.701  Sum_probs=122.2

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS   93 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~   93 (192)
                      |||+++++++.-           ...+.||.|..+..+....+.+.+||+||++.+...+..+++.+|++++|+|+++++
T Consensus        12 Kssli~~~~~~~-----------~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~D~~~~~   80 (158)
T cd00878          12 KTTILYKLKLGE-----------VVTTIPTIGFNVETVEYKNVSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVDSSDRE   80 (158)
T ss_pred             HHHHHHHHhcCC-----------CCCCCCCcCcceEEEEECCEEEEEEECCCChhhHHHHHHHhccCCEEEEEEECCCHH
Confidence            677777666442           345688899888888888899999999999999999999999999999999999999


Q ss_pred             cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHH
Q 029517           94 RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE  170 (192)
Q Consensus        94 s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~  170 (192)
                      ++..+..++..+.......+.|+++++||+|+......+++.+.+..........+++++||++|.|++++|++|..
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~~l~~  157 (158)
T cd00878          81 RIEEAKEELHKLLNEEELKGVPLLIFANKQDLPGALSVSELIEKLGLEKILGRRWHIQPCSAVTGDGLDEGLDWLLQ  157 (158)
T ss_pred             HHHHHHHHHHHHHhCcccCCCcEEEEeeccCCccccCHHHHHHhhChhhccCCcEEEEEeeCCCCCCHHHHHHHHhh
Confidence            99999999988887654468999999999999876667777777653323345689999999999999999999875

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

>PLN03110 Rab GTPase; Provisional

Probab=99.92  E-value=5.6e-24  Score=159.96  Aligned_cols=138  Identities=17%  Similarity=0.268  Sum_probs=114.6

Q ss_pred             CCCCCCCCCCcceEEEE--EE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCC
Q 029517           34 GLPPDRIVPTVGLNIGR--IE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNE  109 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~--~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~  109 (192)
                      +.+...+.||+|.++..  +.  +..+.+++||++|++++...+..++++++++|+|||++++.+|+.+..|+..+....
T Consensus        35 ~~~~~~~~~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~  114 (216)
T PLN03110         35 NEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHA  114 (216)
T ss_pred             CCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhCCCCEEEEEEECCChHHHHHHHHHHHHHHHhC
Confidence            45566778999988753  33  345799999999999999999999999999999999999999999999999887654


Q ss_pred             CCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhcch
Q 029517          110 DLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSKR  177 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~~~  177 (192)
                      . .++|+++++||+|+..  .+..++...+..     ..+++++++||++|.|++++|+++.+.+.+...
T Consensus       115 ~-~~~piiiv~nK~Dl~~~~~~~~~~~~~l~~-----~~~~~~~e~SA~~g~~v~~lf~~l~~~i~~~~~  178 (216)
T PLN03110        115 D-SNIVIMMAGNKSDLNHLRSVAEEDGQALAE-----KEGLSFLETSALEATNVEKAFQTILLEIYHIIS  178 (216)
T ss_pred             C-CCCeEEEEEEChhcccccCCCHHHHHHHHH-----HcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHhh
Confidence            3 5799999999999865  345556665554     457899999999999999999999998876543

>cd04125 RabA_like RabA-like subfamily

Probab=99.92  E-value=6.2e-24  Score=156.36  Aligned_cols=149  Identities=23%  Similarity=0.343  Sum_probs=119.4

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE--E--EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG--R--IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~--~--~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++++|+    .      +.+...|.||+|.++.  .  +++..+.+++||++|++.+...+..+++++|++++|||+
T Consensus        13 KSsli~~~~----~------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~g~~~~~~~~~~~~~~~d~iilv~d~   82 (188)
T cd04125          13 KSSLLKRFT----E------DEFSESTKSTIGVDFKIKTVYIENKIIKLQIWDTNGQERFRSLNNSYYRGAHGYLLVYDV   82 (188)
T ss_pred             HHHHHHHHh----c------CCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHhhHHHHccCCCEEEEEEEC
Confidence            666666654    3      4556668899987654  2  333457899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++++++.+..|+..+..... .+.|+++++||+|+.+  .++.++...++.     ..+++++++||++|.|++++|++
T Consensus        83 ~~~~s~~~i~~~~~~i~~~~~-~~~~~ivv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~evSa~~~~~i~~~f~~  156 (188)
T cd04125          83 TDQESFENLKFWINEINRYAR-ENVIKVIVANKSDLVNNKVVDSNIAKSFCD-----SLNIPFFETSAKQSINVEEAFIL  156 (188)
T ss_pred             cCHHHHHHHHHHHHHHHHhCC-CCCeEEEEEECCCCcccccCCHHHHHHHHH-----HcCCeEEEEeCCCCCCHHHHHHH
Confidence            999999999999998876532 4589999999999874  445556655554     34668999999999999999999


Q ss_pred             HHHHHHhcchh
Q 029517          168 LVEVMERSKRT  178 (192)
Q Consensus       168 i~~~i~~~~~~  178 (192)
                      +.+.+.+....
T Consensus       157 l~~~~~~~~~~  167 (188)
T cd04125         157 LVKLIIKRLEE  167 (188)
T ss_pred             HHHHHHHHhhc
Confidence            99988765433

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.

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.92  E-value=1.6e-23  Score=153.67  Aligned_cols=152  Identities=36%  Similarity=0.586  Sum_probs=118.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEe-----cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEe
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEV-----SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVID   88 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~-----~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D   88 (192)
                      |||+++++..          +.+.. +.||.|.+......     ..+.+.+|||||++++...+..+++++|++++|+|
T Consensus        16 KTsli~~~~~----------~~~~~-~~~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D   84 (183)
T cd04152          16 KTTVLYRLKF----------NEFVN-TVPTKGFNTEKIKVSLGNSKGITFHFWDVGGQEKLRPLWKSYTRCTDGIVFVVD   84 (183)
T ss_pred             HHHHHHHHhc----------CCcCC-cCCccccceeEEEeeccCCCceEEEEEECCCcHhHHHHHHHHhccCCEEEEEEE
Confidence            6677666643          22333 36888876654332     46899999999999999999999999999999999


Q ss_pred             CCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccC-CcceEEEEeeecCCCCHHHHHHH
Q 029517           89 AACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLD-ERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        89 ~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      ++++.+++.+..|+..+.......++|+++++||+|+.+....+++...+.+.... ...++++++||++|.|+++++++
T Consensus        85 ~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~  164 (183)
T cd04152          85 SVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLPNALSVSEVEKLLALHELSASTPWHVQPACAIIGEGLQEGLEK  164 (183)
T ss_pred             CCCHHHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCccccCCHHHHHHHhCccccCCCCceEEEEeecccCCCHHHHHHH
Confidence            99998999988888888765444579999999999998766667776666533222 23467899999999999999999


Q ss_pred             HHHHHHhcc
Q 029517          168 LVEVMERSK  176 (192)
Q Consensus       168 i~~~i~~~~  176 (192)
                      |.+.+.+.+
T Consensus       165 l~~~l~~~~  173 (183)
T cd04152         165 LYEMILKRR  173 (183)
T ss_pred             HHHHHHHHH
Confidence            999886543

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.

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

Probab=99.92  E-value=5.1e-24  Score=153.02  Aligned_cols=144  Identities=19%  Similarity=0.268  Sum_probs=114.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||+++++++.          .+...+.||.+..+..   +++..+.+++|||||++++...+..+++.+|++++|+|++
T Consensus        15 Ktsl~~~~~~~----------~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~   84 (164)
T cd04145          15 KSALTIQFIQS----------YFVTDYDPTIEDSYTKQCEIDGQWAILDILDTAGQEEFSAMREQYMRTGEGFLLVFSVT   84 (164)
T ss_pred             HHHHHHHHHhC----------CCCcccCCCccceEEEEEEECCEEEEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECC
Confidence            67777777642          3345667777654432   3344578999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      +..+++.+..|+..+.+.....+.|+++++||+|+..  ....++..++++     ..+++++++||++|.||+++|++|
T Consensus        85 ~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~i~~l~~~l  159 (164)
T cd04145          85 DRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQRKVSREEGQELAR-----KLKIPYIETSAKDRLNVDKAFHDL  159 (164)
T ss_pred             CHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCccccccceecHHHHHHHHH-----HcCCcEEEeeCCCCCCHHHHHHHH
Confidence            9999999999998887754335789999999999865  344556666554     445789999999999999999999


Q ss_pred             HHHH
Q 029517          169 VEVM  172 (192)
Q Consensus       169 ~~~i  172 (192)
                      .+.+
T Consensus       160 ~~~~  163 (164)
T cd04145         160 VRVI  163 (164)
T ss_pred             HHhh
Confidence            8764

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

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.92  E-value=9.1e-24  Score=151.29  Aligned_cols=146  Identities=34%  Similarity=0.639  Sum_probs=115.8

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEe-cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEV-SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACP   92 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~   92 (192)
                      |||++++|.+.          .+. .+.||+|.++..+.. ..+.+.+||+||++.+...+..+++.+|++++|+|++++
T Consensus        12 KTsl~~~~~~~----------~~~-~~~~t~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~D~~~~   80 (160)
T cd04156          12 KSTLLYKLKHA----------ELV-TTIPTVGFNVEMLQLEKHLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVDSSDE   80 (160)
T ss_pred             HHHHHHHHhcC----------Ccc-cccCccCcceEEEEeCCceEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCcH
Confidence            67777777543          222 346888877766654 357999999999999999999999999999999999999


Q ss_pred             ccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccC-CcceEEEEeeecCCCCHHHHHHHHHH
Q 029517           93 SRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLD-ERVCMFEAVSGYDGFGIKESVEWLVE  170 (192)
Q Consensus        93 ~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~e~~~~i~~  170 (192)
                      .++..+..|+..+.+.....+.|+++++||+|+......+++...+...... ..+++++++||++|.||+++|++|.+
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~~i~~  159 (160)
T cd04156          81 ARLDESQKELKHILKNEHIKGVPVVLLANKQDLPGALTAEEITRRFKLKKYCSDRDWYVQPCSAVTGEGLAEAFRKLAS  159 (160)
T ss_pred             HHHHHHHHHHHHHHhchhhcCCCEEEEEECcccccCcCHHHHHHHcCCcccCCCCcEEEEecccccCCChHHHHHHHhc
Confidence            9999999998888765433579999999999997666667776665432222 34678999999999999999999864

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

>cd04176 Rap2 Rap2 subgroup

Probab=99.92  E-value=5e-24  Score=153.18  Aligned_cols=144  Identities=22%  Similarity=0.289  Sum_probs=111.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE-E--EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG-R--IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~-~--~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++++++    .      +.+...+.||++..+. .  +++..+.+++|||||+++|...+..+++++|++++|+|++
T Consensus        14 KTsl~~~~~----~------~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~d~~   83 (163)
T cd04176          14 KSALTVQFV----S------GTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIVVYSLV   83 (163)
T ss_pred             HHHHHHHHH----c------CCCCCCCCCchhheEEEEEEECCEEEEEEEEECCCcccccchHHHHHhhCCEEEEEEECC
Confidence            566665554    3      4555667788763222 2  3344568999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      ++.+++++..|+..+.+.....++|+++|+||+|+..  .+..++...+..     ..+.+++++||++|.|++++|.++
T Consensus        84 ~~~s~~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~l~~~l  158 (163)
T cd04176          84 NQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLESEREVSSAEGRALAE-----EWGCPFMETSAKSKTMVNELFAEI  158 (163)
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcCccCHHHHHHHHH-----HhCCEEEEecCCCCCCHHHHHHHH
Confidence            9999999999999888754446799999999999854  334444444443     335689999999999999999999


Q ss_pred             HHHH
Q 029517          169 VEVM  172 (192)
Q Consensus       169 ~~~i  172 (192)
                      .+.+
T Consensus       159 ~~~l  162 (163)
T cd04176         159 VRQM  162 (163)
T ss_pred             HHhc
Confidence            8754

The Rap2 subgroup is part of the Rap subfamily of the Ras family. It consists of Rap2a, Rap2b, and Rap2c. Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton. In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments. In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway. The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis. Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation. A number of additional effector proteins for Rap2 have been identified, incl

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

Probab=99.92  E-value=4.3e-24  Score=153.27  Aligned_cols=144  Identities=26%  Similarity=0.455  Sum_probs=123.5

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++++|    .+      +.+...+.||+|.+...  +.  ...+.+++||++|+++|......+++++|++|+|||.
T Consensus        12 Ktsl~~~~----~~------~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ii~fd~   81 (162)
T PF00071_consen   12 KTSLINRL----IN------GEFPENYIPTIGIDSYSKEVSIDGKPVNLEIWDTSGQERFDSLRDIFYRNSDAIIIVFDV   81 (162)
T ss_dssp             HHHHHHHH----HH------SSTTSSSETTSSEEEEEEEEEETTEEEEEEEEEETTSGGGHHHHHHHHTTESEEEEEEET
T ss_pred             HHHHHHHH----Hh------hccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            55555555    44      55678899999888764  22  3467899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++++|+.+..|+..+..... .+.|+++++||.|+.+  .++.+++.+++.     ..+.+|+++||+++.||.++|..
T Consensus        82 ~~~~S~~~~~~~~~~i~~~~~-~~~~iivvg~K~D~~~~~~v~~~~~~~~~~-----~~~~~~~e~Sa~~~~~v~~~f~~  155 (162)
T PF00071_consen   82 TDEESFENLKKWLEEIQKYKP-EDIPIIVVGNKSDLSDEREVSVEEAQEFAK-----ELGVPYFEVSAKNGENVKEIFQE  155 (162)
T ss_dssp             TBHHHHHTHHHHHHHHHHHST-TTSEEEEEEETTTGGGGSSSCHHHHHHHHH-----HTTSEEEEEBTTTTTTHHHHHHH
T ss_pred             ccccccccccccccccccccc-ccccceeeeccccccccccchhhHHHHHHH-----HhCCEEEEEECCCCCCHHHHHHH
Confidence            999999999999999988754 4689999999999986  778888888887     55699999999999999999999


Q ss_pred             HHHHHH
Q 029517          168 LVEVME  173 (192)
Q Consensus       168 i~~~i~  173 (192)
                      +++.++
T Consensus       156 ~i~~i~  161 (162)
T PF00071_consen  156 LIRKIL  161 (162)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            999875

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 ....

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.92  E-value=9e-24  Score=151.90  Aligned_cols=146  Identities=21%  Similarity=0.290  Sum_probs=115.2

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|++.          .+...+.||++..+..   ++...+.+++|||||++++...+..+++.+|++++|+|++
T Consensus        13 KTsli~~~~~~----------~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~   82 (164)
T smart00173       13 KSALTIQFVQG----------HFVDDYDPTIEDSYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVYSIT   82 (164)
T ss_pred             HHHHHHHHHhC----------cCCcccCCchhhhEEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhCCEEEEEEECC
Confidence            67777777643          2344556666644332   3334578999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      ++++++.+..|...+.+.....+.|+++++||+|+..  ..+.+++.++.+     ..+.+++++||++|.|++++|++|
T Consensus        83 ~~~s~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~i~~l~~~l  157 (164)
T smart00173       83 DRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLESERVVSTEEGKELAR-----QWGCPFLETSAKERVNVDEAFYDL  157 (164)
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceEcHHHHHHHHH-----HcCCEEEEeecCCCCCHHHHHHHH
Confidence            9999999999988887764445789999999999965  344455555554     345789999999999999999999


Q ss_pred             HHHHHh
Q 029517          169 VEVMER  174 (192)
Q Consensus       169 ~~~i~~  174 (192)
                      .+.+.+
T Consensus       158 ~~~~~~  163 (164)
T smart00173      158 VREIRK  163 (164)
T ss_pred             HHHHhh
Confidence            987653

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.92  E-value=9.9e-24  Score=151.33  Aligned_cols=141  Identities=23%  Similarity=0.363  Sum_probs=114.8

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EE----ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IE----VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVI   87 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~----~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~   87 (192)
                      |||+++++.    .      +.+...+.||++.++..  +.    ...+.+++|||||++++...+..+++++|++++|+
T Consensus        13 KTsl~~~~~----~------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~v~   82 (162)
T cd04106          13 KSSMIQRFV----K------GIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAITKAYYRGAQACILVF   82 (162)
T ss_pred             HHHHHHHHh----c------CCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCchHHHHHhHHHHhcCCCEEEEEE
Confidence            566666554    3      44566778999988753  22    33578999999999999999999999999999999


Q ss_pred             eCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHH
Q 029517           88 DAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus        88 D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      |++++++++.+..|+..+....  .++|+++|+||+|+..  .+..+++.++.+     ..+++++++||++|.|++++|
T Consensus        83 d~~~~~s~~~l~~~~~~~~~~~--~~~p~iiv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~l~  155 (162)
T cd04106          83 STTDRESFEAIESWKEKVEAEC--GDIPMVLVQTKIDLLDQAVITNEEAEALAK-----RLQLPLFRTSVKDDFNVTELF  155 (162)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhC--CCCCEEEEEEChhcccccCCCHHHHHHHHH-----HcCCeEEEEECCCCCCHHHHH
Confidence            9999999999999998887643  5799999999999865  455566666665     446789999999999999999


Q ss_pred             HHHHHH
Q 029517          166 EWLVEV  171 (192)
Q Consensus       166 ~~i~~~  171 (192)
                      ++|.+.
T Consensus       156 ~~l~~~  161 (162)
T cd04106         156 EYLAEK  161 (162)
T ss_pred             HHHHHh
Confidence            999753

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

>cd04124 RabL2 RabL2 subfamily

Probab=99.92  E-value=1.3e-23  Score=150.96  Aligned_cols=144  Identities=19%  Similarity=0.290  Sum_probs=113.0

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE----EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||+++++++          +.+...+.+|.+..+..    ++...+.+++|||+|+++|...+..+++++|++|+|+|+
T Consensus        13 KTsli~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~   82 (161)
T cd04124          13 KSKLVERFLM----------DGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERFQTMHASYYHKAHACILVFDV   82 (161)
T ss_pred             HHHHHHHHHh----------CCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhCCCCEEEEEEEC
Confidence            6677666653          34555567777765543    334567899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLV  169 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~  169 (192)
                      +++.+++.+..|+..+.+..  .+.|+++++||+|+.... .++..++..     ..+++++++||++|.|++++|+.+.
T Consensus        83 ~~~~s~~~~~~~~~~i~~~~--~~~p~ivv~nK~Dl~~~~-~~~~~~~~~-----~~~~~~~~~Sa~~~~gv~~l~~~l~  154 (161)
T cd04124          83 TRKITYKNLSKWYEELREYR--PEIPCIVVANKIDLDPSV-TQKKFNFAE-----KHNLPLYYVSAADGTNVVKLFQDAI  154 (161)
T ss_pred             CCHHHHHHHHHHHHHHHHhC--CCCcEEEEEECccCchhH-HHHHHHHHH-----HcCCeEEEEeCCCCCCHHHHHHHHH
Confidence            99999999999999887653  478999999999985432 233333332     3357899999999999999999999


Q ss_pred             HHHHhc
Q 029517          170 EVMERS  175 (192)
Q Consensus       170 ~~i~~~  175 (192)
                      +.+.+.
T Consensus       155 ~~~~~~  160 (161)
T cd04124         155 KLAVSY  160 (161)
T ss_pred             HHHHhc
Confidence            877654

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

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.92  E-value=5e-24  Score=157.68  Aligned_cols=129  Identities=17%  Similarity=0.184  Sum_probs=104.4

Q ss_pred             CCCCCCCCCCcce-E-EE-----------EEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHH-
Q 029517           34 GLPPDRIVPTVGL-N-IG-----------RIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSK-   99 (192)
Q Consensus        34 ~~~~~~~~~T~g~-~-~~-----------~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~-   99 (192)
                      +.+...|.||+|. + +.           .+++..+++++|||+|++.+  ....+++++|++|+|||++++.+|+.+. 
T Consensus        31 ~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~~~~~v~l~iwDTaG~~~~--~~~~~~~~ad~iilv~d~t~~~Sf~~~~~  108 (195)
T cd01873          31 YQLLATHVPTVWAIDQYRVCQEVLERSRDVVDGVSVSLRLWDTFGDHDK--DRRFAYGRSDVVLLCFSIASPNSLRNVKT  108 (195)
T ss_pred             ccCccccCCceecccceeEEeeeccccceeeCCEEEEEEEEeCCCChhh--hhcccCCCCCEEEEEEECCChhHHHHHHH
Confidence            4567788999973 2 21           23455789999999999753  4456889999999999999999999997 


Q ss_pred             HHHHHHHhCCCCCCCcEEEEEeCCCCCC---------------------CCCHHHHHhHcCccccCCcceEEEEeeecCC
Q 029517          100 TALEKVLRNEDLQGAPLLILANKQDLPD---------------------AVSADELARYLDLKKLDERVCMFEAVSGYDG  158 (192)
Q Consensus       100 ~~~~~i~~~~~~~~~piiiv~nK~Dl~~---------------------~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  158 (192)
                      .|+..+....  .+.|+++|+||+|+..                     .++.+++.++++     ..+++|+||||++|
T Consensus       109 ~w~~~i~~~~--~~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~~~V~~~e~~~~a~-----~~~~~~~E~SAkt~  181 (195)
T cd01873         109 MWYPEIRHFC--PRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILPPETGRAVAK-----ELGIPYYETSVVTQ  181 (195)
T ss_pred             HHHHHHHHhC--CCCCEEEEEEchhccccccchhhhcccccccccccCCccCHHHHHHHHH-----HhCCEEEEcCCCCC
Confidence            5888887654  4789999999999852                     566778888876     56779999999999


Q ss_pred             CCHHHHHHHHHHH
Q 029517          159 FGIKESVEWLVEV  171 (192)
Q Consensus       159 ~gi~e~~~~i~~~  171 (192)
                      .||+++|+.+++.
T Consensus       182 ~~V~e~F~~~~~~  194 (195)
T cd01873         182 FGVKDVFDNAIRA  194 (195)
T ss_pred             CCHHHHHHHHHHh
Confidence            9999999998864

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.

>cd04116 Rab9 Rab9 subfamily

Probab=99.92  E-value=1.4e-23  Score=151.92  Aligned_cols=143  Identities=18%  Similarity=0.325  Sum_probs=116.2

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE----EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++++++    .      +.+...+.||+|.++..    +++..+.+++||+||++++...+..+++.+|++++|||+
T Consensus        18 KTsli~~~~----~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~   87 (170)
T cd04116          18 KSSLMNRYV----T------NKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQERFRSLRTPFYRGSDCCLLTFAV   87 (170)
T ss_pred             HHHHHHHHH----c------CCCCcCcCCceeeEEEEEEEEECCeEEEEEEEeCCChHHHHHhHHHHhcCCCEEEEEEEC
Confidence            666666664    3      55666678898887542    344567899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCC---CCCCcEEEEEeCCCCCC-CCCHHHHHhHcCccccCCc-ceEEEEeeecCCCCHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNED---LQGAPLLILANKQDLPD-AVSADELARYLDLKKLDER-VCMFEAVSGYDGFGIKES  164 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~---~~~~piiiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~gi~e~  164 (192)
                      +++++++.+..|...+.....   ..++|+++++||+|+.. .+..+++.+++.     .. ..+++++||++|.|+.++
T Consensus        88 ~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~e~Sa~~~~~v~~~  162 (170)
T cd04116          88 DDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIPERQVSTEEAQAWCR-----ENGDYPYFETSAKDATNVAAA  162 (170)
T ss_pred             CCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECccccccccCHHHHHHHHH-----HCCCCeEEEEECCCCCCHHHH
Confidence            999999999999988876432   24689999999999965 566777777775     23 358999999999999999


Q ss_pred             HHHHHHH
Q 029517          165 VEWLVEV  171 (192)
Q Consensus       165 ~~~i~~~  171 (192)
                      |+++.+.
T Consensus       163 ~~~~~~~  169 (170)
T cd04116         163 FEEAVRR  169 (170)
T ss_pred             HHHHHhh
Confidence            9999875

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

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.92  E-value=1.5e-23  Score=154.08  Aligned_cols=149  Identities=17%  Similarity=0.240  Sum_probs=118.1

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE-EE---ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR-IE---VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~-~~---~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++++|++          +.+...+.||++.++.. +.   ...+.+.+|||||+++|...+..+++++|++++|||+
T Consensus        13 KTsli~~l~~----------~~~~~~~~~t~~~~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v~d~   82 (187)
T cd04132          13 KTCLLIVYSQ----------GKFPEEYVPTVFENYVTNIQGPNGKIIELALWDTAGQEEYDRLRPLSYPDVDVLLICYAV   82 (187)
T ss_pred             HHHHHHHHHh----------CcCCCCCCCeeeeeeEEEEEecCCcEEEEEEEECCCchhHHHHHHHhCCCCCEEEEEEEC
Confidence            6777776653          45566788898877653 22   2357899999999999999999999999999999999


Q ss_pred             CCcccHHHHH-HHHHHHHhCCCCCCCcEEEEEeCCCCCCC------CCHHHHHhHcCccccCCcce-EEEEeeecCCCCH
Q 029517           90 ACPSRFEDSK-TALEKVLRNEDLQGAPLLILANKQDLPDA------VSADELARYLDLKKLDERVC-MFEAVSGYDGFGI  161 (192)
Q Consensus        90 ~~~~s~~~~~-~~~~~i~~~~~~~~~piiiv~nK~Dl~~~------~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi  161 (192)
                      ++..+|+.+. .|+..+....  .+.|+++|+||.|+...      +..++..+++.     ..+. +++++||++|.||
T Consensus        83 ~~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~-----~~~~~~~~e~Sa~~~~~v  155 (187)
T cd04132          83 DNPTSLDNVEDKWFPEVNHFC--PGTPIMLVGLKTDLRKDKNLDRKVTPAQAESVAK-----KQGAFAYLECSAKTMENV  155 (187)
T ss_pred             CCHHHHHHHHHHHHHHHHHhC--CCCCEEEEEeChhhhhCccccCCcCHHHHHHHHH-----HcCCcEEEEccCCCCCCH
Confidence            9999999986 4777766543  57899999999998652      34566666665     3344 8999999999999


Q ss_pred             HHHHHHHHHHHHhcchhh
Q 029517          162 KESVEWLVEVMERSKRTE  179 (192)
Q Consensus       162 ~e~~~~i~~~i~~~~~~~  179 (192)
                      +++|+++.+.+.......
T Consensus       156 ~~~f~~l~~~~~~~~~~~  173 (187)
T cd04132         156 EEVFDTAIEEALKKEGKA  173 (187)
T ss_pred             HHHHHHHHHHHHhhhhhh
Confidence            999999999888766443

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.

>PLN03108 Rab family protein; Provisional

Probab=99.92  E-value=2.3e-23  Score=156.00  Aligned_cols=148  Identities=22%  Similarity=0.315  Sum_probs=119.6

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE----EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++++|    ..      +.+...+.||++.++..    +....+.+.+|||+|++.+...+..+++.+|++++|||+
T Consensus        19 KStLi~~l----~~------~~~~~~~~~ti~~~~~~~~i~~~~~~i~l~l~Dt~G~~~~~~~~~~~~~~ad~~vlv~D~   88 (210)
T PLN03108         19 KSCLLLQF----TD------KRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDI   88 (210)
T ss_pred             HHHHHHHH----Hh------CCCCCCCCCCccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEEC
Confidence            56666555    43      34455677888877642    334457899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++++++.+..|+..+..... .+.|+++++||+|+..  .++.++..++++     ..+++++++||+++.||+++|++
T Consensus        89 ~~~~s~~~l~~~~~~~~~~~~-~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~e~Sa~~~~~v~e~f~~  162 (210)
T PLN03108         89 TRRETFNHLASWLEDARQHAN-ANMTIMLIGNKCDLAHRRAVSTEEGEQFAK-----EHGLIFMEASAKTAQNVEEAFIK  162 (210)
T ss_pred             CcHHHHHHHHHHHHHHHHhcC-CCCcEEEEEECccCccccCCCHHHHHHHHH-----HcCCEEEEEeCCCCCCHHHHHHH
Confidence            999999999999888765532 5789999999999975  566777777776     45678999999999999999999


Q ss_pred             HHHHHHhcch
Q 029517          168 LVEVMERSKR  177 (192)
Q Consensus       168 i~~~i~~~~~  177 (192)
                      +++.+.+..+
T Consensus       163 l~~~~~~~~~  172 (210)
T PLN03108        163 TAAKIYKKIQ  172 (210)
T ss_pred             HHHHHHHHhh
Confidence            9998876543

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

Probab=99.91  E-value=3.5e-23  Score=143.65  Aligned_cols=148  Identities=38%  Similarity=0.691  Sum_probs=133.0

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSK   99 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~   99 (192)
                      ++++++.       +...+...||.|.++.++..+.+++++||++|+...++.|..|+..+|++|+|+|+++..++++..
T Consensus        31 ti~~kl~-------~~~~~~i~pt~gf~Iktl~~~~~~L~iwDvGGq~~lr~~W~nYfestdglIwvvDssD~~r~~e~~  103 (185)
T KOG0073|consen   31 TIVKKLL-------GEDTDTISPTLGFQIKTLEYKGYTLNIWDVGGQKTLRSYWKNYFESTDGLIWVVDSSDRMRMQECK  103 (185)
T ss_pred             hHHHHhc-------CCCccccCCccceeeEEEEecceEEEEEEcCCcchhHHHHHHhhhccCeEEEEEECchHHHHHHHH
Confidence            5555555       456788899999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCcccc-CCcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          100 TALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKL-DERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       100 ~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      ..+..++......+.|+++++||.|+..+...+++...+.+..+ ..+.++.+.|||.+|+++.+.++|+++.+..
T Consensus       104 ~~L~~lL~eerlaG~~~Lvlank~dl~~~l~~~~i~~~~~L~~l~ks~~~~l~~cs~~tge~l~~gidWL~~~l~~  179 (185)
T KOG0073|consen  104 QELTELLVEERLAGAPLLVLANKQDLPGALSLEEISKALDLEELAKSHHWRLVKCSAVTGEDLLEGIDWLCDDLMS  179 (185)
T ss_pred             HHHHHHHhhhhhcCCceEEEEecCcCccccCHHHHHHhhCHHHhccccCceEEEEeccccccHHHHHHHHHHHHHH
Confidence            98888887655578999999999999988888888877776665 6789999999999999999999999998765

>cd00879 Sar1 Sar1 subfamily

Probab=99.91  E-value=4.5e-23  Score=151.91  Aligned_cols=134  Identities=37%  Similarity=0.600  Sum_probs=113.9

Q ss_pred             CCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEE
Q 029517           38 DRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLL  117 (192)
Q Consensus        38 ~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~pii  117 (192)
                      ..+.||.+.....+...++.+.+||+||++.+...+..+++.++++++|+|+++.++++....++..+.+.....+.|++
T Consensus        45 ~~~~~T~~~~~~~i~~~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~~pvi  124 (190)
T cd00879          45 AQHVPTLHPTSEELTIGNIKFKTFDLGGHEQARRLWKDYFPEVDGIVFLVDAADPERFQESKEELDSLLSDEELANVPFL  124 (190)
T ss_pred             cccCCccCcceEEEEECCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHcCccccCCCEE
Confidence            35678888877778878899999999999999889999999999999999999999999888999888875544679999


Q ss_pred             EEEeCCCCCCCCCHHHHHhHcCcccc-----------CCcceEEEEeeecCCCCHHHHHHHHHHH
Q 029517          118 ILANKQDLPDAVSADELARYLDLKKL-----------DERVCMFEAVSGYDGFGIKESVEWLVEV  171 (192)
Q Consensus       118 iv~nK~Dl~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~~Sa~~~~gi~e~~~~i~~~  171 (192)
                      +++||+|+...+..+++.+.++....           ......+++|||++|+|++|+|+||.+.
T Consensus       125 vv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~e~~~~l~~~  189 (190)
T cd00879         125 ILGNKIDLPGAVSEEELRQALGLYGTTTGKGVSLKVSGIRPIEVFMCSVVKRQGYGEAFRWLSQY  189 (190)
T ss_pred             EEEeCCCCCCCcCHHHHHHHhCcccccccccccccccCceeEEEEEeEecCCCChHHHHHHHHhh
Confidence            99999999888888888888864221           1134679999999999999999999764

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.

>cd04140 ARHI_like ARHI subfamily

Probab=99.91  E-value=1.7e-23  Score=150.84  Aligned_cols=142  Identities=18%  Similarity=0.257  Sum_probs=111.8

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++++++    .      +.+...+.||++..+..   .....+.+.+|||||+++|..++..+++.++++++|||++
T Consensus        14 KTsli~~~~----~------~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~   83 (165)
T cd04140          14 KSSLVLRFV----K------GTFRESYIPTIEDTYRQVISCSKNICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSVT   83 (165)
T ss_pred             HHHHHHHHH----h------CCCCCCcCCcchheEEEEEEECCEEEEEEEEECCCCCcchHHHHHHhhcCCEEEEEEECC
Confidence            667766654    3      44566778888765543   2334578999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCC--CCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNED--LQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVE  166 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~--~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~  166 (192)
                      +.++++.+..|+..+.+...  ..++|+++|+||+|+..  .+..++...++.     ..+.+++++||++|.||+++|+
T Consensus        84 ~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~e~SA~~g~~v~~~f~  158 (165)
T cd04140          84 SKQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDESHKREVSSNEGAACAT-----EWNCAFMETSAKTNHNVQELFQ  158 (165)
T ss_pred             CHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECccccccCeecHHHHHHHHH-----HhCCcEEEeecCCCCCHHHHHH
Confidence            99999999999877765321  25789999999999965  444555555554     3457899999999999999999


Q ss_pred             HHHH
Q 029517          167 WLVE  170 (192)
Q Consensus       167 ~i~~  170 (192)
                      +|.+
T Consensus       159 ~l~~  162 (165)
T cd04140         159 ELLN  162 (165)
T ss_pred             HHHh
Confidence            9975

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

>cd01866 Rab2 Rab2 subfamily

Probab=99.91  E-value=3.3e-23  Score=149.88  Aligned_cols=145  Identities=22%  Similarity=0.301  Sum_probs=116.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE----EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++++++    .      +.+...+.||.|.++..    +++..+.+.+||+||++++......+++.+|++++|+|+
T Consensus        17 KSsLl~~l~----~------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~il~v~d~   86 (168)
T cd01866          17 KSCLLLQFT----D------KRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDI   86 (168)
T ss_pred             HHHHHHHHH----c------CCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEEEC
Confidence            566666554    3      44555667788876642    333457899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+.+... +++|+++|+||+|+.+  ....+++.+++.     ..+..++++||+++.|++++|.+
T Consensus        87 ~~~~s~~~~~~~~~~~~~~~~-~~~pvivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~e~Sa~~~~~i~~~~~~  160 (168)
T cd01866          87 TRRETFNHLTSWLEDARQHSN-SNMTIMLIGNKCDLESRREVSYEEGEAFAK-----EHGLIFMETSAKTASNVEEAFIN  160 (168)
T ss_pred             CCHHHHHHHHHHHHHHHHhCC-CCCcEEEEEECcccccccCCCHHHHHHHHH-----HcCCEEEEEeCCCCCCHHHHHHH
Confidence            999999999999998877532 5799999999999974  456667766665     44678999999999999999999


Q ss_pred             HHHHHHh
Q 029517          168 LVEVMER  174 (192)
Q Consensus       168 i~~~i~~  174 (192)
                      +.+.+.+
T Consensus       161 ~~~~~~~  167 (168)
T cd01866         161 TAKEIYE  167 (168)
T ss_pred             HHHHHHh
Confidence            9987754

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

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

Probab=99.91  E-value=1.3e-25  Score=154.96  Aligned_cols=128  Identities=24%  Similarity=0.344  Sum_probs=110.3

Q ss_pred             ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCC
Q 029517           53 VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVS  130 (192)
Q Consensus        53 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~  130 (192)
                      .....+.||||+|+++|..+-+-|+++++++++|||++|.+||+.++.|+..+..... ..+-+++|+||+||.+  +++
T Consensus        59 d~ra~L~IWDTAGQErfHALGPIYYRgSnGalLVyDITDrdSFqKVKnWV~Elr~mlG-nei~l~IVGNKiDLEeeR~Vt  137 (218)
T KOG0088|consen   59 DCRADLHIWDTAGQERFHALGPIYYRGSNGALLVYDITDRDSFQKVKNWVLELRTMLG-NEIELLIVGNKIDLEEERQVT  137 (218)
T ss_pred             cceeeeeeeeccchHhhhccCceEEeCCCceEEEEeccchHHHHHHHHHHHHHHHHhC-CeeEEEEecCcccHHHhhhhh
Confidence            3467899999999999999999999999999999999999999999999999988643 4688999999999977  788


Q ss_pred             HHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHh-cchhhhhhhhcc
Q 029517          131 ADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMER-SKRTEMLRARAG  186 (192)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~-~~~~~~~~~~~~  186 (192)
                      ..++..++.     ..+..++++||+.+.||.|+|+.+.....+ ..++++.+++-+
T Consensus       138 ~qeAe~YAe-----svGA~y~eTSAk~N~Gi~elFe~Lt~~MiE~~s~~qr~~~~~s  189 (218)
T KOG0088|consen  138 RQEAEAYAE-----SVGALYMETSAKDNVGISELFESLTAKMIEHSSQRQRTRSPLS  189 (218)
T ss_pred             HHHHHHHHH-----hhchhheecccccccCHHHHHHHHHHHHHHHhhhcccccCCcC
Confidence            889999998     778899999999999999999999875544 445555554433

>cd01868 Rab11_like Rab11-like

Probab=99.91  E-value=3.3e-23  Score=149.13  Aligned_cols=143  Identities=22%  Similarity=0.363  Sum_probs=115.1

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++++|++          +.+...+.||+|.++..  +..  ..+.+++||+||++++...+..+++.++++|+|+|+
T Consensus        16 KSsli~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~   85 (165)
T cd01868          16 KSNLLSRFTR----------NEFNLDSKSTIGVEFATRSIQIDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALLVYDI   85 (165)
T ss_pred             HHHHHHHHhc----------CCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHCCCCEEEEEEEC
Confidence            6666666643          34455668888877653  332  346899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+.+... .+.|+++|+||+|+..  ....++..+++.     ..+.+++++||++|.|++++|++
T Consensus        86 ~~~~s~~~~~~~~~~~~~~~~-~~~pi~vv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~l~~~  159 (165)
T cd01868          86 TKKQTFENVERWLKELRDHAD-SNIVIMLVGNKSDLRHLRAVPTEEAKAFAE-----KNGLSFIETSALDGTNVEEAFKQ  159 (165)
T ss_pred             cCHHHHHHHHHHHHHHHHhCC-CCCeEEEEEECccccccccCCHHHHHHHHH-----HcCCEEEEEECCCCCCHHHHHHH
Confidence            999999999999998877642 3689999999999865  445566666665     34678999999999999999999


Q ss_pred             HHHHH
Q 029517          168 LVEVM  172 (192)
Q Consensus       168 i~~~i  172 (192)
                      +.+.+
T Consensus       160 l~~~i  164 (165)
T cd01868         160 LLTEI  164 (165)
T ss_pred             HHHHh
Confidence            98764

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

>cd04118 Rab24 Rab24 subfamily

Probab=99.91  E-value=2.2e-23  Score=154.00  Aligned_cols=146  Identities=18%  Similarity=0.215  Sum_probs=114.5

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCC-CCCCCCcceEEEE--E--EecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEe
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPP-DRIVPTVGLNIGR--I--EVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVID   88 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~-~~~~~T~g~~~~~--~--~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D   88 (192)
                      |||++++|++          +.+. ..|.||+|..+..  +  .+..+.+.+||++|++++...+..+++++|++++|||
T Consensus        13 KSsLi~~~~~----------~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~iilv~d   82 (193)
T cd04118          13 KTSLVERYVH----------HRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSERYEAMSRIYYRGAKAAIVCYD   82 (193)
T ss_pred             HHHHHHHHHh----------CCcCCcCcccceeeEEEEEEEEECCEEEEEEEEECCCchhhhhhhHhhcCCCCEEEEEEE
Confidence            6666666643          3343 3678899876642  3  3345788999999999999999999999999999999


Q ss_pred             CCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC------CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHH
Q 029517           89 AACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD------AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIK  162 (192)
Q Consensus        89 ~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~------~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  162 (192)
                      ++++.+++.+..|+..+....  .+.|+++|+||+|+..      .+..+++.++..     ..+.+++++||++|.|++
T Consensus        83 ~~~~~s~~~~~~~~~~i~~~~--~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~~~gv~  155 (193)
T cd04118          83 LTDSSSFERAKFWVKELQNLE--EHCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFAD-----EIKAQHFETSSKTGQNVD  155 (193)
T ss_pred             CCCHHHHHHHHHHHHHHHhcC--CCCCEEEEEEcccccccccccCccCHHHHHHHHH-----HcCCeEEEEeCCCCCCHH
Confidence            999999999999999887653  4789999999999853      223344555543     345789999999999999


Q ss_pred             HHHHHHHHHHHhcc
Q 029517          163 ESVEWLVEVMERSK  176 (192)
Q Consensus       163 e~~~~i~~~i~~~~  176 (192)
                      ++|+++.+.+.+..
T Consensus       156 ~l~~~i~~~~~~~~  169 (193)
T cd04118         156 ELFQKVAEDFVSRA  169 (193)
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999999886543

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

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.91  E-value=3e-23  Score=150.36  Aligned_cols=144  Identities=24%  Similarity=0.370  Sum_probs=116.0

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--E--EecCEEEEEEeCCCCcccH-HHHHHhhhcCCEEEEEEe
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--I--EVSNSKLVFWDLGGQPGLR-SIWEKYYEEAHAVVFVID   88 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~--~~~~~~~~i~D~~G~~~~~-~~~~~~~~~~d~ii~v~D   88 (192)
                      |||++++++    .      +.+...+.||++.++..  +  .+..+.+.+||++|+++++ ..+..+++++|++++|||
T Consensus        15 KTsli~~~~----~------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i~v~d   84 (170)
T cd04115          15 KTCLTYRFC----A------GRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQERFRKSMVQHYYRNVHAVVFVYD   84 (170)
T ss_pred             HHHHHHHHH----h------CCCCCccccceeEEEEEEEEEECCeEEEEEEEeCCChHHHHHhhHHHhhcCCCEEEEEEE
Confidence            566666654    3      45666778999877653  3  3345789999999999887 468888999999999999


Q ss_pred             CCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecC---CCCHHH
Q 029517           89 AACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYD---GFGIKE  163 (192)
Q Consensus        89 ~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~---~~gi~e  163 (192)
                      ++++.+++.+..|+..+.......++|+++|+||+|+.+  .+..++..++.+     ...++++++||++   +.||++
T Consensus        85 ~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~e~Sa~~~~~~~~i~~  159 (170)
T cd04115          85 VTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQIQVPTDLAQRFAD-----AHSMPLFETSAKDPSENDHVEA  159 (170)
T ss_pred             CCCHHHHHhHHHHHHHHHHhcCCCCCCEEEEEECccchhhcCCCHHHHHHHHH-----HcCCcEEEEeccCCcCCCCHHH
Confidence            999999999999999888765446799999999999865  445566666665     4458899999999   999999


Q ss_pred             HHHHHHHHH
Q 029517          164 SVEWLVEVM  172 (192)
Q Consensus       164 ~~~~i~~~i  172 (192)
                      +|.++++.+
T Consensus       160 ~f~~l~~~~  168 (170)
T cd04115         160 IFMTLAHKL  168 (170)
T ss_pred             HHHHHHHHh
Confidence            999998866

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

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

Probab=99.91  E-value=4.1e-24  Score=147.72  Aligned_cols=141  Identities=21%  Similarity=0.382  Sum_probs=122.1

Q ss_pred             cCCCCCCCCCCCCcceEEEE----EE---------ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHH
Q 029517           31 NVEGLPPDRIVPTVGLNIGR----IE---------VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFED   97 (192)
Q Consensus        31 ~~~~~~~~~~~~T~g~~~~~----~~---------~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~   97 (192)
                      .+.+.|......|+|+++.+    ++         +..+++++|||+|+++|+++...+++.+=++++++|++++.||-+
T Consensus        29 YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAGQERFRSLTTAFfRDAMGFlLiFDlT~eqSFLn  108 (219)
T KOG0081|consen   29 YTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAGQERFRSLTTAFFRDAMGFLLIFDLTSEQSFLN  108 (219)
T ss_pred             ecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeeeccccHHHHHHHHHHHHHhhccceEEEeccchHHHHH
Confidence            34588899999999999874    11         235899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517           98 SKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus        98 ~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                      ++.|+.++....-..+..+++++||+||.+  .++.+++.+.+.     ..++||||+||.+|.||++..+-+++.+-+.
T Consensus       109 vrnWlSQL~~hAYcE~PDivlcGNK~DL~~~R~Vs~~qa~~La~-----kyglPYfETSA~tg~Nv~kave~LldlvM~R  183 (219)
T KOG0081|consen  109 VRNWLSQLQTHAYCENPDIVLCGNKADLEDQRVVSEDQAAALAD-----KYGLPYFETSACTGTNVEKAVELLLDLVMKR  183 (219)
T ss_pred             HHHHHHHHHHhhccCCCCEEEEcCccchhhhhhhhHHHHHHHHH-----HhCCCeeeeccccCcCHHHHHHHHHHHHHHH
Confidence            999999998754446788999999999987  677788888887     7799999999999999999999888766554


Q ss_pred             c
Q 029517          176 K  176 (192)
Q Consensus       176 ~  176 (192)
                      .
T Consensus       184 i  184 (219)
T KOG0081|consen  184 I  184 (219)
T ss_pred             H
Confidence            3

>cd04113 Rab4 Rab4 subfamily

Probab=99.91  E-value=3e-23  Score=148.79  Aligned_cols=142  Identities=24%  Similarity=0.350  Sum_probs=115.2

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE----EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++++|+    +      +.+...+.||.+.++..    +++..+.+++||+||++.+...+..+++++|++++|+|+
T Consensus        13 KTsli~~l~----~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~   82 (161)
T cd04113          13 KSCLLHRFV----E------NKFKEDSQHTIGVEFGSKIIRVGGKRVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDI   82 (161)
T ss_pred             HHHHHHHHH----h------CCCCCCCCCceeeeEEEEEEEECCEEEEEEEEECcchHHHHHhHHHHhcCCCEEEEEEEC
Confidence            666666665    3      44556677888876653    333357899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.++..+..|+..+..... .+.|+++++||+|+..  .+..+++..++.     ..++.++++||+++.|++++|++
T Consensus        83 ~~~~s~~~~~~~~~~~~~~~~-~~~~iivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~i~~~~~~  156 (161)
T cd04113          83 TNRTSFEALPTWLSDARALAS-PNIVVILVGNKSDLADQREVTFLEASRFAQ-----ENGLLFLETSALTGENVEEAFLK  156 (161)
T ss_pred             CCHHHHHHHHHHHHHHHHhCC-CCCeEEEEEEchhcchhccCCHHHHHHHHH-----HcCCEEEEEECCCCCCHHHHHHH
Confidence            999999999999998765432 5789999999999965  455667776666     44589999999999999999999


Q ss_pred             HHHH
Q 029517          168 LVEV  171 (192)
Q Consensus       168 i~~~  171 (192)
                      +++.
T Consensus       157 ~~~~  160 (161)
T cd04113         157 CARS  160 (161)
T ss_pred             HHHh
Confidence            9875

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

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

Probab=99.91  E-value=2.2e-23  Score=151.37  Aligned_cols=143  Identities=18%  Similarity=0.264  Sum_probs=112.5

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||+++++++          +.+...|.||++..+..   +++..+.+++|||||++.|...+..+++++|++|+|||++
T Consensus        11 KTsli~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~   80 (174)
T smart00174       11 KTCLLISYTT----------NAFPEDYVPTVFENYSADVEVDGKPVELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSVD   80 (174)
T ss_pred             HHHHHHHHHh----------CCCCCCCCCcEEeeeeEEEEECCEEEEEEEEECCCCcccchhchhhcCCCCEEEEEEECC
Confidence            6777776653          44556677887766542   3334578999999999999999999999999999999999


Q ss_pred             CcccHHHHH-HHHHHHHhCCCCCCCcEEEEEeCCCCCCC--------------CCHHHHHhHcCccccCCcc-eEEEEee
Q 029517           91 CPSRFEDSK-TALEKVLRNEDLQGAPLLILANKQDLPDA--------------VSADELARYLDLKKLDERV-CMFEAVS  154 (192)
Q Consensus        91 ~~~s~~~~~-~~~~~i~~~~~~~~~piiiv~nK~Dl~~~--------------~~~~~~~~~~~~~~~~~~~-~~~~~~S  154 (192)
                      ++++|+.+. .|+..+....  .+.|+++|+||+|+...              ++.++..++++     ..+ ..++++|
T Consensus        81 ~~~s~~~~~~~~~~~i~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~-----~~~~~~~~e~S  153 (174)
T smart00174       81 SPASFENVKEKWYPEVKHFC--PNTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEALAK-----RIGAVKYLECS  153 (174)
T ss_pred             CHHHHHHHHHHHHHHHHhhC--CCCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHHHH-----HcCCcEEEEec
Confidence            999999986 5888877653  57999999999998641              44455555554     334 4899999


Q ss_pred             ecCCCCHHHHHHHHHHHHH
Q 029517          155 GYDGFGIKESVEWLVEVME  173 (192)
Q Consensus       155 a~~~~gi~e~~~~i~~~i~  173 (192)
                      |++|.||+++|+.+.+.+.
T Consensus       154 a~~~~~v~~lf~~l~~~~~  172 (174)
T smart00174      154 ALTQEGVREVFEEAIRAAL  172 (174)
T ss_pred             CCCCCCHHHHHHHHHHHhc
Confidence            9999999999999998764

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

>cd04155 Arl3 Arl3 subfamily

Probab=99.91  E-value=4.1e-23  Score=149.79  Aligned_cols=133  Identities=38%  Similarity=0.734  Sum_probs=111.9

Q ss_pred             CCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEE
Q 029517           38 DRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLL  117 (192)
Q Consensus        38 ~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~pii  117 (192)
                      ..+.||.|.+...+...+..+.+||+||+..+...+..+++++|++++|+|+++..++.....++..+.......++|++
T Consensus        40 ~~~~~t~g~~~~~i~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~i  119 (173)
T cd04155          40 SHITPTQGFNIKTVQSDGFKLNVWDIGGQRAIRPYWRNYFENTDCLIYVIDSADKKRLEEAGAELVELLEEEKLAGVPVL  119 (173)
T ss_pred             cccCCCCCcceEEEEECCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhChhhcCCCEE
Confidence            34678899888888777899999999999999889999999999999999999988888888888877765444579999


Q ss_pred             EEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHH
Q 029517          118 ILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE  170 (192)
Q Consensus       118 iv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~  170 (192)
                      +++||+|+.+....+++.+.+.+.......++++++||++|.|++++|+||++
T Consensus       120 vv~nK~D~~~~~~~~~i~~~l~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~  172 (173)
T cd04155         120 VFANKQDLATAAPAEEIAEALNLHDLRDRTWHIQACSAKTGEGLQEGMNWVCK  172 (173)
T ss_pred             EEEECCCCccCCCHHHHHHHcCCcccCCCeEEEEEeECCCCCCHHHHHHHHhc
Confidence            99999999876666777777765444455667899999999999999999975

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.

>cd01864 Rab19 Rab19 subfamily

Probab=99.91  E-value=4e-23  Score=148.88  Aligned_cols=143  Identities=23%  Similarity=0.358  Sum_probs=112.1

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE--EEEec--CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG--RIEVS--NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~--~~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++++|+    .      +.+...+.+|.+.++.  .+...  .+.+++||+||++.+...+..+++.+|++++|||+
T Consensus        16 KTsli~~l~----~------~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~llv~d~   85 (165)
T cd01864          16 KTCVVQRFK----S------GTFSERQGNTIGVDFTMKTLEIEGKRVKLQIWDTAGQERFRTITQSYYRSANGAIIAYDI   85 (165)
T ss_pred             HHHHHHHHh----h------CCCcccCCCccceEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEEEEEC
Confidence            566666553    3      4456677888886554  34333  37899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+..... .++|+++|+||+|+..  ....+++.+.+.    ......++++||++|.|++++|++
T Consensus        86 ~~~~s~~~~~~~~~~i~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~----~~~~~~~~e~Sa~~~~~v~~~~~~  160 (165)
T cd01864          86 TRRSSFESVPHWIEEVEKYGA-SNVVLLLIGNKCDLEEQREVLFEEACTLAE----KNGMLAVLETSAKESQNVEEAFLL  160 (165)
T ss_pred             cCHHHHHhHHHHHHHHHHhCC-CCCcEEEEEECcccccccccCHHHHHHHHH----HcCCcEEEEEECCCCCCHHHHHHH
Confidence            999999999999999876532 5789999999999865  344455555554    122357899999999999999999


Q ss_pred             HHHH
Q 029517          168 LVEV  171 (192)
Q Consensus       168 i~~~  171 (192)
                      +.+.
T Consensus       161 l~~~  164 (165)
T cd01864         161 MATE  164 (165)
T ss_pred             HHHh
Confidence            9875

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.

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.91  E-value=4.3e-23  Score=147.98  Aligned_cols=128  Identities=14%  Similarity=0.249  Sum_probs=98.6

Q ss_pred             CCCCCCCCCcceEEEEEEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCC
Q 029517           35 LPPDRIVPTVGLNIGRIEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQ  112 (192)
Q Consensus        35 ~~~~~~~~T~g~~~~~~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~  112 (192)
                      .|...+.|+.+.....+..  ..+.+.+||++|++..     .+++++|++++|||+++.++|+.+..|+..+.......
T Consensus        24 ~f~~~~~~~~~~~~~~i~~~~~~~~l~i~D~~g~~~~-----~~~~~~~~~ilv~d~~~~~sf~~~~~~~~~i~~~~~~~   98 (158)
T cd04103          24 SYVQLESPEGGRFKKEVLVDGQSHLLLIRDEGGAPDA-----QFASWVDAVIFVFSLENEASFQTVYNLYHQLSSYRNIS   98 (158)
T ss_pred             CCCCCCCCCccceEEEEEECCEEEEEEEEECCCCCch-----hHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCC
Confidence            3444455655443333433  3478999999999752     46788999999999999999999999999998765446


Q ss_pred             CCcEEEEEeCCCCC----CCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHH
Q 029517          113 GAPLLILANKQDLP----DAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEV  171 (192)
Q Consensus       113 ~~piiiv~nK~Dl~----~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~  171 (192)
                      ++|+++|+||.|+.    ..++.++..++++    ...++.|++|||++|.||+++|+++.+.
T Consensus        99 ~~piilvgnK~Dl~~~~~~~v~~~~~~~~~~----~~~~~~~~e~SAk~~~~i~~~f~~~~~~  157 (158)
T cd04103          99 EIPLILVGTQDAISESNPRVIDDARARQLCA----DMKRCSYYETCATYGLNVERVFQEAAQK  157 (158)
T ss_pred             CCCEEEEeeHHHhhhcCCcccCHHHHHHHHH----HhCCCcEEEEecCCCCCHHHHHHHHHhh
Confidence            78999999999984    2456666666664    1235899999999999999999999864

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.

>cd04177 RSR1 RSR1 subgroup

Probab=99.91  E-value=3.4e-23  Score=149.74  Aligned_cols=146  Identities=18%  Similarity=0.233  Sum_probs=114.5

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||+++++.    .      +.+...+.||++..+..   +....+.+++|||||+++|..++..+++.++++++|+|.+
T Consensus        14 KTsli~~~~----~------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv~~~~   83 (168)
T cd04177          14 KSALTVQFV----Q------NVFIESYDPTIEDSYRKQVEIDGRQCDLEILDTAGTEQFTAMRELYIKSGQGFLLVYSVT   83 (168)
T ss_pred             HHHHHHHHH----h------CCCCcccCCcchheEEEEEEECCEEEEEEEEeCCCcccchhhhHHHHhhCCEEEEEEECC
Confidence            666666664    3      45566678888765542   3334578999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      ++++++.+..|...+.+.....+.|+++++||+|+.+  ....++..++..    .....+++++||++|.|++++|+++
T Consensus        84 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~----~~~~~~~~~~SA~~~~~i~~~f~~i  159 (168)
T cd04177          84 SEASLNELGELREQVLRIKDSDNVPMVLVGNKADLEDDRQVSREDGVSLSQ----QWGNVPFYETSARKRTNVDEVFIDL  159 (168)
T ss_pred             CHHHHHHHHHHHHHHHHhhCCCCCCEEEEEEChhccccCccCHHHHHHHHH----HcCCceEEEeeCCCCCCHHHHHHHH
Confidence            9999999999988887654446799999999999865  344455544443    1123789999999999999999999


Q ss_pred             HHHHH
Q 029517          169 VEVME  173 (192)
Q Consensus       169 ~~~i~  173 (192)
                      +.++.
T Consensus       160 ~~~~~  164 (168)
T cd04177         160 VRQII  164 (168)
T ss_pred             HHHHh
Confidence            87653

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

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.91  E-value=2e-22  Score=143.28  Aligned_cols=147  Identities=37%  Similarity=0.683  Sum_probs=119.5

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS   93 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~   93 (192)
                      |||++|+|.+          ..+...+.||.+.++..+..+.+.+.+||+||++.+...+..+++.+|++++|+|+++..
T Consensus        12 Kssl~~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~~~   81 (159)
T cd04159          12 KTTLVNVIAG----------GQFSEDTIPTVGFNMRKVTKGNVTLKVWDLGGQPRFRSMWERYCRGVNAIVYVVDAADRT   81 (159)
T ss_pred             HHHHHHHHcc----------CCCCcCccCCCCcceEEEEECCEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECCCHH
Confidence            6666666643          345667789999998888777899999999999999999999999999999999999988


Q ss_pred             cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHH
Q 029517           94 RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE  170 (192)
Q Consensus        94 s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~  170 (192)
                      ++.....++..+.......++|+++|+||+|+.+....+++.+...+........+++++||++|.|+++++++|.+
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  158 (159)
T cd04159          82 ALEAAKNELHDLLEKPSLEGIPLLVLGNKNDLPGALSVDELIEQMNLKSITDREVSCYSISCKEKTNIDIVLDWLIK  158 (159)
T ss_pred             HHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCCcCHHHHHHHhCcccccCCceEEEEEEeccCCChHHHHHHHhh
Confidence            89888888888776543457899999999998775555555555543333345678999999999999999999864

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.

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.91  E-value=8.3e-23  Score=156.21  Aligned_cols=145  Identities=18%  Similarity=0.214  Sum_probs=115.5

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE---EEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG---RIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~---~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++++++    .      +.+...|.||++..+.   .+++..+.++||||+|++.|..++..++..+|++|+|||++
T Consensus        13 KTSLi~r~~----~------~~f~~~y~pTi~d~~~k~~~i~~~~~~l~I~Dt~G~~~~~~~~~~~~~~ad~iIlVfdv~   82 (247)
T cd04143          13 KTAIVSRFL----G------GRFEEQYTPTIEDFHRKLYSIRGEVYQLDILDTSGNHPFPAMRRLSILTGDVFILVFSLD   82 (247)
T ss_pred             HHHHHHHHH----c------CCCCCCCCCChhHhEEEEEEECCEEEEEEEEECCCChhhhHHHHHHhccCCEEEEEEeCC
Confidence            566666664    3      4556678888873222   23344588999999999999888888899999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCC--------CCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCC
Q 029517           91 CPSRFEDSKTALEKVLRNE--------DLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFG  160 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~--------~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g  160 (192)
                      +.++|+.+..|+..+....        ...+.|+++|+||+|+..  .+..+++.+.+..    ..++.++++||++|.|
T Consensus        83 ~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~~~~v~~~ei~~~~~~----~~~~~~~evSAktg~g  158 (247)
T cd04143          83 NRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFPREVQRDEVEQLVGG----DENCAYFEVSAKKNSN  158 (247)
T ss_pred             CHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchhccccCHHHHHHHHHh----cCCCEEEEEeCCCCCC
Confidence            9999999999999887642        224789999999999974  5667777777651    2357899999999999


Q ss_pred             HHHHHHHHHHHH
Q 029517          161 IKESVEWLVEVM  172 (192)
Q Consensus       161 i~e~~~~i~~~i  172 (192)
                      |+++|++|.+..
T Consensus       159 I~elf~~L~~~~  170 (247)
T cd04143         159 LDEMFRALFSLA  170 (247)
T ss_pred             HHHHHHHHHHHh
Confidence            999999999865

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

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

Probab=99.90  E-value=2.1e-24  Score=145.10  Aligned_cols=133  Identities=26%  Similarity=0.453  Sum_probs=115.9

Q ss_pred             CCCCCCcceEEEE----EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCC
Q 029517           38 DRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQG  113 (192)
Q Consensus        38 ~~~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~  113 (192)
                      .....|+|+++..    +...++++++|||+||++|++....|++.+|+++++||+++..||+..+.|+.+|.++.. ..
T Consensus        25 ~~fistvgid~rnkli~~~~~kvklqiwdtagqerfrsvt~ayyrda~allllydiankasfdn~~~wlsei~ey~k-~~  103 (192)
T KOG0083|consen   25 GNFISTVGIDFRNKLIDMDDKKVKLQIWDTAGQERFRSVTHAYYRDADALLLLYDIANKASFDNCQAWLSEIHEYAK-EA  103 (192)
T ss_pred             CceeeeeeeccccceeccCCcEEEEEEeeccchHHHhhhhHhhhcccceeeeeeecccchhHHHHHHHHHHHHHHHH-hh
Confidence            3557889998874    455678999999999999999999999999999999999999999999999999998743 46


Q ss_pred             CcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhcc
Q 029517          114 APLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       114 ~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~~  176 (192)
                      ..+.+++||+|+..  .+..++....++     ..+++|.++||++|.||+-.|-.|.+.+.+.+
T Consensus       104 v~l~llgnk~d~a~er~v~~ddg~kla~-----~y~ipfmetsaktg~nvd~af~~ia~~l~k~~  163 (192)
T KOG0083|consen  104 VALMLLGNKCDLAHERAVKRDDGEKLAE-----AYGIPFMETSAKTGFNVDLAFLAIAEELKKLK  163 (192)
T ss_pred             HhHhhhccccccchhhccccchHHHHHH-----HHCCCceeccccccccHhHHHHHHHHHHHHhc
Confidence            78899999999954  566677777776     67899999999999999999999999887654

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.90  E-value=1.4e-22  Score=145.67  Aligned_cols=131  Identities=22%  Similarity=0.357  Sum_probs=107.0

Q ss_pred             CCCCCCCCCcceEEEE--E--E-ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCC
Q 029517           35 LPPDRIVPTVGLNIGR--I--E-VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNE  109 (192)
Q Consensus        35 ~~~~~~~~T~g~~~~~--~--~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~  109 (192)
                      .+...|.||+|.++..  +  . +..+.+.+|||||++.+..++..+++.+|++++|+|++++++++.+..|+..+....
T Consensus        26 ~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~  105 (164)
T cd04101          26 VFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQELYSDMVSNYWESPSVFILVYDVSNKASFENCSRWVNKVRTAS  105 (164)
T ss_pred             CcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCHHHHHHHHHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhC
Confidence            4667889999987653  2  2 345899999999999999999999999999999999999999999999998887653


Q ss_pred             CCCCCcEEEEEeCCCCCCC--CCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517          110 DLQGAPLLILANKQDLPDA--VSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                        .+.|+++|+||+|+.+.  ...++...+..     ..+++++++||++|.|++++|+++.+.+
T Consensus       106 --~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  163 (164)
T cd04101         106 --KHMPGVLVGNKMDLADKAEVTDAQAQAFAQ-----ANQLKFFKTSALRGVGYEEPFESLARAF  163 (164)
T ss_pred             --CCCCEEEEEECcccccccCCCHHHHHHHHH-----HcCCeEEEEeCCCCCChHHHHHHHHHHh
Confidence              46899999999999653  34334333333     3357899999999999999999998864

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.

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.90  E-value=4.7e-23  Score=148.50  Aligned_cols=145  Identities=19%  Similarity=0.219  Sum_probs=110.2

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE---EEEecCEEEEEEeCCCCcc-cHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG---RIEVSNSKLVFWDLGGQPG-LRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~---~~~~~~~~~~i~D~~G~~~-~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||+++++++          +.+...|.||.+..+.   .+++..+.+++||+||++. +......+++.+|++|+|+|+
T Consensus        12 Ktsli~~~~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~   81 (165)
T cd04146          12 KSALVVRFLT----------KRFIGEYDPNLESLYSRQVTIDGEQVSLEILDTAGQQQADTEQLERSIRWADGFVLVYSI   81 (165)
T ss_pred             HHHHHHHHHh----------CccccccCCChHHhceEEEEECCEEEEEEEEECCCCcccccchHHHHHHhCCEEEEEEEC
Confidence            6777766653          3344556676654332   2444567899999999985 344567789999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCC-CCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCC-CHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNED-LQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGF-GIKESV  165 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~-~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~-gi~e~~  165 (192)
                      +++++|+.+..|+..+..... ..+.|+++|+||+|+..  .++.+++.++.+     ..+.+++++||++|. ||+++|
T Consensus        82 ~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~e~Sa~~~~~~v~~~f  156 (165)
T cd04146          82 TDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLLHYRQVSTEEGEKLAS-----ELGCLFFEVSAAEDYDGVHSVF  156 (165)
T ss_pred             CCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchHHhCccCHHHHHHHHH-----HcCCEEEEeCCCCCchhHHHHH
Confidence            999999999999888876532 35799999999999854  455666666665     445789999999994 999999


Q ss_pred             HHHHHHHH
Q 029517          166 EWLVEVME  173 (192)
Q Consensus       166 ~~i~~~i~  173 (192)
                      +++++.+.
T Consensus       157 ~~l~~~~~  164 (165)
T cd04146         157 HELCREVR  164 (165)
T ss_pred             HHHHHHHh
Confidence            99998654

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

>PLN03118 Rab family protein; Provisional

Probab=99.90  E-value=1.5e-22  Score=151.63  Aligned_cols=146  Identities=21%  Similarity=0.326  Sum_probs=112.4

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE--EEE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG--RIE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~--~~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++++|++.          . ...+.||.|.++.  .+.  ...+.+.+|||||++++...+..+++.+|++|+|||+
T Consensus        27 KTsli~~l~~~----------~-~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~vlv~D~   95 (211)
T PLN03118         27 KSSLLVSFISS----------S-VEDLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQERFRTLTSSYYRNAQGIILVYDV   95 (211)
T ss_pred             HHHHHHHHHhC----------C-CCCcCCCceeEEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEEC
Confidence            67777776542          1 2356788887664  233  3357899999999999999999999999999999999


Q ss_pred             CCcccHHHHHH-HHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHH
Q 029517           90 ACPSRFEDSKT-ALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVE  166 (192)
Q Consensus        90 ~~~~s~~~~~~-~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~  166 (192)
                      ++.++|+.+.. |...+.......+.|+++|+||+|+..  .+..++..++..     ..+..++++||++|.|++++|+
T Consensus        96 ~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~i~~~~~~~~~~-----~~~~~~~e~SAk~~~~v~~l~~  170 (211)
T PLN03118         96 TRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERDVSREEGMALAK-----EHGCLFLECSAKTRENVEQCFE  170 (211)
T ss_pred             CCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHH-----HcCCEEEEEeCCCCCCHHHHHH
Confidence            99999999876 444443333335689999999999965  344555555554     4467899999999999999999


Q ss_pred             HHHHHHHhc
Q 029517          167 WLVEVMERS  175 (192)
Q Consensus       167 ~i~~~i~~~  175 (192)
                      +|.+.+.+.
T Consensus       171 ~l~~~~~~~  179 (211)
T PLN03118        171 ELALKIMEV  179 (211)
T ss_pred             HHHHHHHhh
Confidence            999988764

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.90  E-value=2.5e-22  Score=144.13  Aligned_cols=145  Identities=26%  Similarity=0.394  Sum_probs=116.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++++|++.          .+...+.+|++.++..  +..  ..+.+++||+||++++...+..+++.+|++++|+|+
T Consensus        13 KTtli~~l~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~ilv~d~   82 (164)
T smart00175       13 KSSLLSRFTDG----------KFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSITSSYYRGAVGALLVYDI   82 (164)
T ss_pred             HHHHHHHHhcC----------CCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhCCCCEEEEEEEC
Confidence            66666666533          3455667888876543  333  347899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+..... .++|+++++||+|+..  ....+.+.++..     ..+++++++||++|.|+++++++
T Consensus        83 ~~~~s~~~~~~~l~~~~~~~~-~~~pivvv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~e~Sa~~~~~i~~l~~~  156 (164)
T smart00175       83 TNRESFENLKNWLKELREYAD-PNVVIMLVGNKSDLEDQRQVSREEAEAFAE-----EHGLPFFETSAKTNTNVEEAFEE  156 (164)
T ss_pred             CCHHHHHHHHHHHHHHHHhCC-CCCeEEEEEEchhcccccCCCHHHHHHHHH-----HcCCeEEEEeCCCCCCHHHHHHH
Confidence            999999999999998877643 4799999999999875  445666666654     44678999999999999999999


Q ss_pred             HHHHHHh
Q 029517          168 LVEVMER  174 (192)
Q Consensus       168 i~~~i~~  174 (192)
                      |.+.+.+
T Consensus       157 i~~~~~~  163 (164)
T smart00175      157 LAREILK  163 (164)
T ss_pred             HHHHHhh
Confidence            9988754

Rab GTPases are implicated in vesicle trafficking.

>cd01863 Rab18 Rab18 subfamily

Probab=99.90  E-value=1.9e-22  Score=144.60  Aligned_cols=143  Identities=21%  Similarity=0.343  Sum_probs=115.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE----EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++          ..+...+.||.+.++..    +....+.+.+||+||++.+...+..+++.+|++++|+|+
T Consensus        13 KSsli~~l~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~   82 (161)
T cd01863          13 KSSLLLRFTD----------DTFDPDLAATIGVDFKVKTLTVDGKKVKLAIWDTAGQERFRTLTSSYYRGAQGVILVYDV   82 (161)
T ss_pred             HHHHHHHHHc----------CCCCcccCCcccceEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhCCCCEEEEEEEC
Confidence            6677666653          33344567888876542    223457899999999999998899999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC-CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD-AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      +++.+++.+..|+..+.......+.|+++++||+|+.. ....++..++..     ..+++++++||++|.|++++++++
T Consensus        83 ~~~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~~~~~~  157 (161)
T cd01863          83 TRRDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKENREVTREEGLKFAR-----KHNMLFIETSAKTRDGVQQAFEEL  157 (161)
T ss_pred             CCHHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCcccccccCHHHHHHHHH-----HcCCEEEEEecCCCCCHHHHHHHH
Confidence            99999999999999888765556899999999999974 455666666665     457889999999999999999998


Q ss_pred             HHH
Q 029517          169 VEV  171 (192)
Q Consensus       169 ~~~  171 (192)
                      .+.
T Consensus       158 ~~~  160 (161)
T cd01863         158 VEK  160 (161)
T ss_pred             HHh
Confidence            875

Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of mos

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.90  E-value=1.7e-22  Score=144.91  Aligned_cols=145  Identities=20%  Similarity=0.245  Sum_probs=115.6

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++++|++          +.+...+.||++..+..   ++...+.+.+||+||++.+...+..+++.++++++|+|++
T Consensus        13 KTsl~~~l~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~   82 (164)
T cd04139          13 KSALTLQFMY----------DEFVEDYEPTKADSYRKKVVLDGEDVQLNILDTAGQEDYAAIRDNYHRSGEGFLLVFSIT   82 (164)
T ss_pred             HHHHHHHHHh----------CCCccccCCcchhhEEEEEEECCEEEEEEEEECCChhhhhHHHHHHhhcCCEEEEEEECC
Confidence            6777777763          33444566776655443   3334678999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      ++.++..+..|+..+.......++|+++|+||+|+.+  ....++..+...     ..+.+++++||++|.|++++|+++
T Consensus        83 ~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l~~~l  157 (164)
T cd04139          83 DMESFTATAEFREQILRVKDDDNVPLLLVGNKCDLEDKRQVSSEEAANLAR-----QWGVPYVETSAKTRQNVEKAFYDL  157 (164)
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEccccccccccCHHHHHHHHH-----HhCCeEEEeeCCCCCCHHHHHHHH
Confidence            9999999999999998865446799999999999975  344455555554     345789999999999999999999


Q ss_pred             HHHHH
Q 029517          169 VEVME  173 (192)
Q Consensus       169 ~~~i~  173 (192)
                      .+.+.
T Consensus       158 ~~~~~  162 (164)
T cd04139         158 VREIR  162 (164)
T ss_pred             HHHHH
Confidence            88764

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

>cd04142 RRP22 RRP22 subfamily

Probab=99.90  E-value=1.3e-22  Score=150.57  Aligned_cols=150  Identities=15%  Similarity=0.179  Sum_probs=111.2

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE--E--EEecCEEEEEEeCCCCcccH--------HHHHHhhhcCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG--R--IEVSNSKLVFWDLGGQPGLR--------SIWEKYYEEAH   81 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~--~--~~~~~~~~~i~D~~G~~~~~--------~~~~~~~~~~d   81 (192)
                      |||++++++    .      +.+...|.||++.++.  .  +++..+.+.+|||||.+.+.        .....+++.+|
T Consensus        13 KTsLi~~~~----~------~~f~~~~~pt~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~~~~ad   82 (198)
T cd04142          13 KTAIVRQFL----A------QEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQRYPGTAGQEWMDPRFRGLRNSR   82 (198)
T ss_pred             HHHHHHHHH----c------CCCCcccCCccccccceeEEEECCEEEEEEEEeCCCcccCCccchhHHHHHHHhhhccCC
Confidence            666666654    3      4556677888876543  2  33344789999999975431        11334578999


Q ss_pred             EEEEEEeCCCcccHHHHHHHHHHHHhCC--CCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecC
Q 029517           82 AVVFVIDAACPSRFEDSKTALEKVLRNE--DLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYD  157 (192)
Q Consensus        82 ~ii~v~D~~~~~s~~~~~~~~~~i~~~~--~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  157 (192)
                      ++|+|||++++++++.+..|+..+.+..  ...++|+++|+||+|+..  .+..+++.+++.    ...+++++++||++
T Consensus        83 ~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~~~~~~~~~~~~~~----~~~~~~~~e~Sak~  158 (198)
T cd04142          83 AFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQRHRFAPRHVLSVLVR----KSWKCGYLECSAKY  158 (198)
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccccccccccHHHHHHHHH----HhcCCcEEEecCCC
Confidence            9999999999999999999998887753  235799999999999965  344555554433    13367899999999


Q ss_pred             CCCHHHHHHHHHHHHHhcch
Q 029517          158 GFGIKESVEWLVEVMERSKR  177 (192)
Q Consensus       158 ~~gi~e~~~~i~~~i~~~~~  177 (192)
                      |.||+++|+.+.+.+....+
T Consensus       159 g~~v~~lf~~i~~~~~~~~~  178 (198)
T cd04142         159 NWHILLLFKELLISATTRGR  178 (198)
T ss_pred             CCCHHHHHHHHHHHhhccCC
Confidence            99999999999988876543

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.

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

Probab=99.90  E-value=1.3e-22  Score=149.68  Aligned_cols=138  Identities=22%  Similarity=0.308  Sum_probs=123.2

Q ss_pred             CCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCC
Q 029517           34 GLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNED  110 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~  110 (192)
                      +.|.+.|.||++..+..   +++..+.+.|+||+|++.|..+...++++++++++||++++..||+.+..+...+.+...
T Consensus        26 ~~f~~~y~ptied~y~k~~~v~~~~~~l~ilDt~g~~~~~~~~~~~~~~~~gF~lVysitd~~SF~~~~~l~~~I~r~~~  105 (196)
T KOG0395|consen   26 GRFVEDYDPTIEDSYRKELTVDGEVCMLEILDTAGQEEFSAMRDLYIRNGDGFLLVYSITDRSSFEEAKQLREQILRVKG  105 (196)
T ss_pred             cccccccCCCccccceEEEEECCEEEEEEEEcCCCcccChHHHHHhhccCcEEEEEEECCCHHHHHHHHHHHHHHHHhhC
Confidence            88899999999976663   555678999999999999999999999999999999999999999999999999977666


Q ss_pred             CCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhcc
Q 029517          111 LQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       111 ~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~~  176 (192)
                      ...+|+++||||+|+..  .++.++..+++.     ..+++|+|+||+.+.+|+++|..|.+.+...+
T Consensus       106 ~~~~PivlVGNK~Dl~~~R~V~~eeg~~la~-----~~~~~f~E~Sak~~~~v~~~F~~L~r~~~~~~  168 (196)
T KOG0395|consen  106 RDDVPIILVGNKCDLERERQVSEEEGKALAR-----SWGCAFIETSAKLNYNVDEVFYELVREIRLPR  168 (196)
T ss_pred             cCCCCEEEEEEcccchhccccCHHHHHHHHH-----hcCCcEEEeeccCCcCHHHHHHHHHHHHHhhh
Confidence            56789999999999987  788888888866     56678999999999999999999999887743

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.90  E-value=4.3e-22  Score=142.95  Aligned_cols=143  Identities=24%  Similarity=0.360  Sum_probs=115.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE----EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++.          .+...+.||.|..+..    ++...+.+.+||+||++++...+..+++++|++++|+|+
T Consensus        14 KSsli~~l~~~----------~~~~~~~~t~~~~~~~~~v~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~   83 (163)
T cd01860          14 KSSLVLRFVKN----------EFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVVYDI   83 (163)
T ss_pred             HHHHHHHHHcC----------CCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhccCCEEEEEEEC
Confidence            67777776543          3344567888765532    334467899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++++++.+..|+..+..... ...|+++++||+|+..  ..+.++..+...     ..+..++++||++|.|+.++|++
T Consensus        84 ~~~~s~~~~~~~~~~~~~~~~-~~~~iivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~l~~~  157 (163)
T cd01860          84 TSEESFEKAKSWVKELQRNAS-PNIIIALVGNKADLESKRQVSTEEAQEYAD-----ENGLLFFETSAKTGENVNELFTE  157 (163)
T ss_pred             cCHHHHHHHHHHHHHHHHhCC-CCCeEEEEEECccccccCcCCHHHHHHHHH-----HcCCEEEEEECCCCCCHHHHHHH
Confidence            999999999999999887643 5789999999999874  445566666665     44578999999999999999999


Q ss_pred             HHHHH
Q 029517          168 LVEVM  172 (192)
Q Consensus       168 i~~~i  172 (192)
                      |.+.+
T Consensus       158 l~~~l  162 (163)
T cd01860         158 IAKKL  162 (163)
T ss_pred             HHHHh
Confidence            99875

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

>cd01861 Rab6 Rab6 subfamily

Probab=99.90  E-value=3.2e-22  Score=143.34  Aligned_cols=143  Identities=21%  Similarity=0.347  Sum_probs=113.9

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEe
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVID   88 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D   88 (192)
                      =|||++|+|++.          .+...+.|+.+.++..  +..  ..+++++||+||++++...+..+++.+|++++|+|
T Consensus        12 GKSsli~~l~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~~~~~~~~~~~~~~~~~ii~v~d   81 (161)
T cd01861          12 GKTSIITRFMYD----------TFDNQYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYD   81 (161)
T ss_pred             CHHHHHHHHHcC----------CCCccCCCceeeeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEEE
Confidence            367777777543          3344567788776543  333  34689999999999999999999999999999999


Q ss_pred             CCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHH
Q 029517           89 AACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVE  166 (192)
Q Consensus        89 ~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~  166 (192)
                      ++++++|+.+..|+..+..... .+.|+++++||+|+.+  ....++.....+     ..+.+++++||+++.|++++|+
T Consensus        82 ~~~~~s~~~~~~~~~~~~~~~~-~~~~iilv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~l~~  155 (161)
T cd01861          82 ITNRQSFDNTDKWIDDVRDERG-NDVIIVLVGNKTDLSDKRQVSTEEGEKKAK-----ELNAMFIETSAKAGHNVKELFR  155 (161)
T ss_pred             CcCHHHHHHHHHHHHHHHHhCC-CCCEEEEEEEChhccccCccCHHHHHHHHH-----HhCCEEEEEeCCCCCCHHHHHH
Confidence            9999999999999998876532 3699999999999944  345556666655     4468899999999999999999


Q ss_pred             HHHHH
Q 029517          167 WLVEV  171 (192)
Q Consensus       167 ~i~~~  171 (192)
                      +|.+.
T Consensus       156 ~i~~~  160 (161)
T cd01861         156 KIASA  160 (161)
T ss_pred             HHHHh
Confidence            99874

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

>cd04123 Rab21 Rab21 subfamily

Probab=99.89  E-value=2.7e-22  Score=143.53  Aligned_cols=143  Identities=22%  Similarity=0.277  Sum_probs=111.4

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE--EEE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG--RIE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~--~~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++.          .+...+.+|.+..+.  .+.  +..+.+.+||+||++.+...+..+++++|++++|+|+
T Consensus        13 KStli~~l~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~   82 (162)
T cd04123          13 KTSLVLRYVEN----------KFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQERYHALGPIYYRDADGAILVYDI   82 (162)
T ss_pred             HHHHHHHHHhC----------CCCCCcCCccceeEEEEEEEECCEEEEEEEEECCchHHHHHhhHHHhccCCEEEEEEEC
Confidence            77877777643          222344555544433  222  3456899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      ++.++++.+..|+..+..... .++|+++++||+|+..  ....+++.+...     ..+.+++++||++|.|+++++++
T Consensus        83 ~~~~s~~~~~~~~~~i~~~~~-~~~piiiv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~s~~~~~gi~~~~~~  156 (162)
T cd04123          83 TDADSFQKVKKWIKELKQMRG-NNISLVIVGNKIDLERQRVVSKSEAEEYAK-----SVGAKHFETSAKTGKGIEELFLS  156 (162)
T ss_pred             CCHHHHHHHHHHHHHHHHhCC-CCCeEEEEEECcccccccCCCHHHHHHHHH-----HcCCEEEEEeCCCCCCHHHHHHH
Confidence            999999999999988877643 3789999999999875  344555655554     44678999999999999999999


Q ss_pred             HHHHH
Q 029517          168 LVEVM  172 (192)
Q Consensus       168 i~~~i  172 (192)
                      +.+.+
T Consensus       157 l~~~~  161 (162)
T cd04123         157 LAKRM  161 (162)
T ss_pred             HHHHh
Confidence            98765

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

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

Probab=99.89  E-value=3.4e-23  Score=140.82  Aligned_cols=142  Identities=32%  Similarity=0.591  Sum_probs=129.2

Q ss_pred             CCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCC
Q 029517           34 GLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQG  113 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~  113 (192)
                      .....+..||+|.+...+.+++.++++||.+|+-..++.|..|+.+.|++|+|+|.+|.+........+..+++.....+
T Consensus        40 vgevvttkPtigfnve~v~yKNLk~~vwdLggqtSirPyWRcYy~dt~avIyVVDssd~dris~a~~el~~mL~E~eLq~  119 (182)
T KOG0072|consen   40 VGEVVTTKPTIGFNVETVPYKNLKFQVWDLGGQTSIRPYWRCYYADTDAVIYVVDSSDRDRISIAGVELYSMLQEEELQH  119 (182)
T ss_pred             cCcccccCCCCCcCccccccccccceeeEccCcccccHHHHHHhcccceEEEEEeccchhhhhhhHHHHHHHhccHhhcC
Confidence            34456779999999999999999999999999999999999999999999999999999999888889999988777778


Q ss_pred             CcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          114 APLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       114 ~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                      ..+++++||.|...+....|+...+.+..++++.+.++++||.+|.|++++.+|+.+.+...
T Consensus       120 a~llv~anKqD~~~~~t~~E~~~~L~l~~Lk~r~~~Iv~tSA~kg~Gld~~~DWL~~~l~~~  181 (182)
T KOG0072|consen  120 AKLLVFANKQDYSGALTRSEVLKMLGLQKLKDRIWQIVKTSAVKGEGLDPAMDWLQRPLKSR  181 (182)
T ss_pred             ceEEEEeccccchhhhhHHHHHHHhChHHHhhheeEEEeeccccccCCcHHHHHHHHHHhcc
Confidence            89999999999998888889988888877778889999999999999999999999987653

>cd04148 RGK RGK subfamily

Probab=99.89  E-value=6.3e-22  Score=149.27  Aligned_cols=147  Identities=20%  Similarity=0.166  Sum_probs=110.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCC-CCCCCCcceEEE--E--EEecCEEEEEEeCCCCcccHHHHHHhhh-cCCEEEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPP-DRIVPTVGLNIG--R--IEVSNSKLVFWDLGGQPGLRSIWEKYYE-EAHAVVFVI   87 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~-~~~~~T~g~~~~--~--~~~~~~~~~i~D~~G~~~~~~~~~~~~~-~~d~ii~v~   87 (192)
                      |||++++++    .      +.+. ..|.||.+.++.  .  +++..+.+.+||++|++.  .....+++ ++|++++||
T Consensus        13 KTsLi~~~~----~------~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~--~~~~~~~~~~ad~iilV~   80 (221)
T cd04148          13 KSSLASQFT----S------GEYDDHAYDASGDDDTYERTVSVDGEESTLVVIDHWEQEM--WTEDSCMQYQGDAFVVVY   80 (221)
T ss_pred             HHHHHHHHh----c------CCcCccCcCCCccccceEEEEEECCEEEEEEEEeCCCcch--HHHhHHhhcCCCEEEEEE
Confidence            666666664    2      3333 566777753332  2  334568899999999982  33445667 999999999


Q ss_pred             eCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHH
Q 029517           88 DAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus        88 D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      |++++.+|+.+..|+..+.......++|+++|+||+|+..  .+..++..+++.     ..+.+++++||++|.||+++|
T Consensus        81 d~td~~S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~a~-----~~~~~~~e~SA~~~~gv~~l~  155 (221)
T cd04148          81 SVTDRSSFERASELRIQLRRNRQLEDRPIILVGNKSDLARSREVSVQEGRACAV-----VFDCKFIETSAGLQHNVDELL  155 (221)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhccccceecHHHHHHHHH-----HcCCeEEEecCCCCCCHHHHH
Confidence            9999999999999999887764445799999999999865  344555555554     345789999999999999999


Q ss_pred             HHHHHHHHhcch
Q 029517          166 EWLVEVMERSKR  177 (192)
Q Consensus       166 ~~i~~~i~~~~~  177 (192)
                      +++.+.+.....
T Consensus       156 ~~l~~~~~~~~~  167 (221)
T cd04148         156 EGIVRQIRLRRD  167 (221)
T ss_pred             HHHHHHHHhhhc
Confidence            999998875443

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

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.89  E-value=4.6e-22  Score=144.51  Aligned_cols=130  Identities=17%  Similarity=0.265  Sum_probs=100.7

Q ss_pred             CCCCCCCCCCcceEEE---EEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHH-HHHHHHHhCC
Q 029517           34 GLPPDRIVPTVGLNIG---RIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSK-TALEKVLRNE  109 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~---~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~-~~~~~i~~~~  109 (192)
                      +.+...|.||.+..+.   .+++..+++++|||||++++...+..+++++|++|+|||++++++|+.+. .|+..+....
T Consensus        23 ~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~a~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~  102 (173)
T cd04130          23 NGYPTEYVPTAFDNFSVVVLVDGKPVRLQLCDTAGQDEFDKLRPLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRKHN  102 (173)
T ss_pred             CCCCCCCCCceeeeeeEEEEECCEEEEEEEEECCCChhhccccccccCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhhC
Confidence            4456677787643332   23334578999999999999988888999999999999999999999885 5877776542


Q ss_pred             CCCCCcEEEEEeCCCCCC--------------CCCHHHHHhHcCccccCCcce-EEEEeeecCCCCHHHHHHHHHH
Q 029517          110 DLQGAPLLILANKQDLPD--------------AVSADELARYLDLKKLDERVC-MFEAVSGYDGFGIKESVEWLVE  170 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~--------------~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~e~~~~i~~  170 (192)
                        .+.|+++++||+|+..              .+..+++.++++     ..+. .++++||++|.||+++|+.+..
T Consensus       103 --~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~a~-----~~~~~~~~e~Sa~~~~~v~~lf~~~~~  171 (173)
T cd04130         103 --PKAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAE-----KIGACEYIECSALTQKNLKEVFDTAIL  171 (173)
T ss_pred             --CCCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHHHHHH-----HhCCCeEEEEeCCCCCCHHHHHHHHHh
Confidence              4699999999999853              234445555554     3344 8999999999999999998764

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,

>cd01862 Rab7 Rab7 subfamily

Probab=99.89  E-value=1.8e-21  Score=140.82  Aligned_cols=147  Identities=19%  Similarity=0.323  Sum_probs=115.2

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE----EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++.          .+...+.+|++.++..    +.+..+.+.+||+||++.+...+..+++++|++|+|+|+
T Consensus        13 KSsl~~~l~~~----------~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~   82 (172)
T cd01862          13 KTSLMNQYVNK----------KFSNQYKATIGADFLTKEVTVDDKLVTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDV   82 (172)
T ss_pred             HHHHHHHHhcC----------CCCcCcCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHhHHHHHhcCCCEEEEEEEC
Confidence            67777777653          3345566777766542    233457889999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCC---CCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCc-ceEEEEeeecCCCCHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNED---LQGAPLLILANKQDLPD--AVSADELARYLDLKKLDER-VCMFEAVSGYDGFGIKE  163 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~---~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~gi~e  163 (192)
                      .++.+++.+..|...+.....   ..++|+++|+||+|+..  ....++...++.     .. ..+++++||++|.|+++
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~gv~~  157 (172)
T cd01862          83 TNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEEKRQVSTKKAQQWCQ-----SNGNIPYFETSAKEAINVEQ  157 (172)
T ss_pred             CCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECcccccccccCHHHHHHHHH-----HcCCceEEEEECCCCCCHHH
Confidence            999999998888877665432   23789999999999973  445666666655     23 37899999999999999


Q ss_pred             HHHHHHHHHHhc
Q 029517          164 SVEWLVEVMERS  175 (192)
Q Consensus       164 ~~~~i~~~i~~~  175 (192)
                      +|+++.+.+.+.
T Consensus       158 l~~~i~~~~~~~  169 (172)
T cd01862         158 AFETIARKALEQ  169 (172)
T ss_pred             HHHHHHHHHHhc
Confidence            999999887665

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-

>cd04114 Rab30 Rab30 subfamily

Probab=99.88  E-value=2.4e-21  Score=139.86  Aligned_cols=143  Identities=22%  Similarity=0.344  Sum_probs=108.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE--EEEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG--RIEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~--~~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++++|++.          .+...+.+|++..+.  .+..  ..+.+.+||+||++.+...+..+++.+|++++|+|+
T Consensus        20 KSsli~~l~~~----------~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~   89 (169)
T cd04114          20 KTCLVRRFTQG----------LFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQERFRSITQSYYRSANALILTYDI   89 (169)
T ss_pred             HHHHHHHHHhC----------CCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEEC
Confidence            67777776542          334456777776543  2333  347899999999999999989999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+..... .+.|+++++||+|+..  .+..+....+..     ....+++++||++|.|++++|++
T Consensus        90 ~~~~s~~~~~~~~~~l~~~~~-~~~~~i~v~NK~D~~~~~~i~~~~~~~~~~-----~~~~~~~~~Sa~~~~gv~~l~~~  163 (169)
T cd04114          90 TCEESFRCLPEWLREIEQYAN-NKVITILVGNKIDLAERREVSQQRAEEFSD-----AQDMYYLETSAKESDNVEKLFLD  163 (169)
T ss_pred             cCHHHHHHHHHHHHHHHHhCC-CCCeEEEEEECcccccccccCHHHHHHHHH-----HcCCeEEEeeCCCCCCHHHHHHH
Confidence            999999999999887765432 4689999999999864  233333333332     22478999999999999999999


Q ss_pred             HHHHH
Q 029517          168 LVEVM  172 (192)
Q Consensus       168 i~~~i  172 (192)
                      |.+.+
T Consensus       164 i~~~~  168 (169)
T cd04114         164 LACRL  168 (169)
T ss_pred             HHHHh
Confidence            98764

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

>cd01892 Miro2 Miro2 subfamily

Probab=99.88  E-value=8.8e-22  Score=142.64  Aligned_cols=132  Identities=14%  Similarity=0.094  Sum_probs=101.7

Q ss_pred             CCCC-CCCCCCcceEEE--EE--EecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhC
Q 029517           34 GLPP-DRIVPTVGLNIG--RI--EVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRN  108 (192)
Q Consensus        34 ~~~~-~~~~~T~g~~~~--~~--~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~  108 (192)
                      +.+. ..|.||++..+.  .+  ++..+.+.+||++|++.+...+..+++++|++++|+|++++.+++.+..|+..+...
T Consensus        27 ~~f~~~~~~~T~~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~~~~~  106 (169)
T cd01892          27 RSFSLNAYSPTIKPRYAVNTVEVYGQEKYLILREVGEDEVAILLNDAELAACDVACLVYDSSDPKSFSYCAEVYKKYFML  106 (169)
T ss_pred             CCCCcccCCCccCcceEEEEEEECCeEEEEEEEecCCcccccccchhhhhcCCEEEEEEeCCCHHHHHHHHHHHHHhccC
Confidence            5555 778999987654  23  344578999999999999888888999999999999999999999988888765432


Q ss_pred             CCCCCCcEEEEEeCCCCCCC--CCHHHHHhHcCccccCCcce-EEEEeeecCCCCHHHHHHHHHHHHH
Q 029517          109 EDLQGAPLLILANKQDLPDA--VSADELARYLDLKKLDERVC-MFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus       109 ~~~~~~piiiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                         .++|+++|+||+|+.+.  ...++..++.+     ..+. .++++||++|.|++++|+.+.+.+.
T Consensus       107 ---~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~~v~~lf~~l~~~~~  166 (169)
T cd01892         107 ---GEIPCLFVAAKADLDEQQQRYEVQPDEFCR-----KLGLPPPLHFSSKLGDSSNELFTKLATAAQ  166 (169)
T ss_pred             ---CCCeEEEEEEcccccccccccccCHHHHHH-----HcCCCCCEEEEeccCccHHHHHHHHHHHhh
Confidence               47999999999999642  21222233332     1122 3589999999999999999998764

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=99.88  E-value=1.2e-21  Score=139.17  Aligned_cols=140  Identities=26%  Similarity=0.431  Sum_probs=115.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEE--Ee--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRI--EV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~--~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|.+          +.+...+.+|.+.++...  ..  ..+++.+||+||++.+...+..+++++|++++|+|+
T Consensus        13 KStl~~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~ii~v~d~   82 (159)
T cd00154          13 KTSLLLRFVD----------GKFDENYKSTIGVDFKSKTIEIDGKTVKLQIWDTAGQERFRSITPSYYRGAHGAILVYDI   82 (159)
T ss_pred             HHHHHHHHHh----------CcCCCccCCceeeeeEEEEEEECCEEEEEEEEecCChHHHHHHHHHHhcCCCEEEEEEEC
Confidence            6777777653          344455678888777643  22  357899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCC--CCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLP--DAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++++++.+..|+..+..... ...|+++++||+|+.  .....+++.++..     ..+.+++++||+++.|+++++++
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~~~~~~  156 (159)
T cd00154          83 TNRESFENLDKWLKELKEYAP-ENIPIILVGNKIDLEDQRQVSTEEAQQFAK-----ENGLLFFETSAKTGENVEELFQS  156 (159)
T ss_pred             CCHHHHHHHHHHHHHHHHhCC-CCCcEEEEEEcccccccccccHHHHHHHHH-----HcCCeEEEEecCCCCCHHHHHHH
Confidence            999999999999998887642 478999999999995  4667777777776     45789999999999999999999


Q ss_pred             HH
Q 029517          168 LV  169 (192)
Q Consensus       168 i~  169 (192)
                      |.
T Consensus       157 i~  158 (159)
T cd00154         157 LA  158 (159)
T ss_pred             Hh
Confidence            86

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

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

Probab=99.88  E-value=2.1e-21  Score=141.75  Aligned_cols=149  Identities=22%  Similarity=0.294  Sum_probs=115.0

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE-EEEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG-RIEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~-~~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||+++++++          +.+...+.||.+..+. .+..  ..+.+.+||+||++++...+..++..++++++|+|++
T Consensus        14 KTtl~~~~~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~   83 (180)
T cd04137          14 KSSLTVQFVE----------GHFVESYYPTIENTFSKIIRYKGQDYHLEIVDTAGQDEYSILPQKYSIGIHGYILVYSVT   83 (180)
T ss_pred             HHHHHHHHHh----------CCCccccCcchhhhEEEEEEECCEEEEEEEEECCChHhhHHHHHHHHhhCCEEEEEEECC
Confidence            6777777763          3334555666654433 2333  3467899999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      +..+++.+..|+..+.+.....+.|+++++||+|+..  ....++......     ..+.+++++||++|.|+.++++++
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gv~~l~~~l  158 (180)
T cd04137          84 SRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHTQRQVSTEEGKELAE-----SWGAAFLESSARENENVEEAFELL  158 (180)
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEchhhhhcCccCHHHHHHHHH-----HcCCeEEEEeCCCCCCHHHHHHHH
Confidence            9999999999988888754445789999999999864  334444444443     334789999999999999999999


Q ss_pred             HHHHHhcch
Q 029517          169 VEVMERSKR  177 (192)
Q Consensus       169 ~~~i~~~~~  177 (192)
                      .+.+.+...
T Consensus       159 ~~~~~~~~~  167 (180)
T cd04137         159 IEEIEKVEN  167 (180)
T ss_pred             HHHHHHhcC
Confidence            998876543

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

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.88  E-value=5.8e-21  Score=141.75  Aligned_cols=146  Identities=18%  Similarity=0.208  Sum_probs=110.5

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceE-EEEEEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLN-IGRIEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~-~~~~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||+++++++          +.+...+.+|++.. ...+..  ..+.+++||+||++.|..++..+++.+|++|+|+|++
T Consensus        12 KTsll~~~~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vilv~d~~   81 (198)
T cd04147          12 KTALIQRFLY----------DTFEPKYRRTVEEMHRKEYEVGGVSLTLDILDTSGSYSFPAMRKLSIQNSDAFALVYAVD   81 (198)
T ss_pred             HHHHHHHHHh----------CCCCccCCCchhhheeEEEEECCEEEEEEEEECCCchhhhHHHHHHhhcCCEEEEEEECC
Confidence            6777777653          33445566666422 223333  3478999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC---CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD---AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~---~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      ++.+++.+..|+..+.......++|+++|+||+|+..   .+..+...+...    ...+..++++||++|.|++++|++
T Consensus        82 ~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~v~~~~~~~~~~----~~~~~~~~~~Sa~~g~gv~~l~~~  157 (198)
T cd04147          82 DPESFEEVERLREEILEVKEDKFVPIVVVGNKADSLEEERQVPAKDALSTVE----LDWNCGFVETSAKDNENVLEVFKE  157 (198)
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEccccccccccccHHHHHHHHH----hhcCCcEEEecCCCCCCHHHHHHH
Confidence            9999999999998888765445799999999999864   233333333322    022467899999999999999999


Q ss_pred             HHHHHH
Q 029517          168 LVEVME  173 (192)
Q Consensus       168 i~~~i~  173 (192)
                      +.+.+.
T Consensus       158 l~~~~~  163 (198)
T cd04147         158 LLRQAN  163 (198)
T ss_pred             HHHHhh
Confidence            998765

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.

>cd04129 Rho2 Rho2 subfamily

Probab=99.87  E-value=1.8e-21  Score=143.19  Aligned_cols=149  Identities=21%  Similarity=0.301  Sum_probs=111.4

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||+++++.    .      +.+...+.||.+..+..   +....+.+.+||++|++.+......+++.++++++|||++
T Consensus        14 KStLl~~l~----~------~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~a~~~llv~~i~   83 (187)
T cd04129          14 KTSLLSVFT----L------GEFPEEYHPTVFENYVTDCRVDGKPVQLALWDTAGQEEYERLRPLSYSKAHVILIGFAVD   83 (187)
T ss_pred             HHHHHHHHH----h------CCCCcccCCcccceEEEEEEECCEEEEEEEEECCCChhccccchhhcCCCCEEEEEEECC
Confidence            677777664    2      34445667777665542   2333577999999999988777767789999999999999


Q ss_pred             CcccHHHHH-HHHHHHHhCCCCCCCcEEEEEeCCCCCC------------CCCHHHHHhHcCccccCCcc-eEEEEeeec
Q 029517           91 CPSRFEDSK-TALEKVLRNEDLQGAPLLILANKQDLPD------------AVSADELARYLDLKKLDERV-CMFEAVSGY  156 (192)
Q Consensus        91 ~~~s~~~~~-~~~~~i~~~~~~~~~piiiv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~  156 (192)
                      +.++++.+. .|+..+....  .+.|+++|+||+|+..            .++.++...+++     ..+ .+++++||+
T Consensus        84 ~~~s~~~~~~~~~~~i~~~~--~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~e~Sa~  156 (187)
T cd04129          84 TPDSLENVRTKWIEEVRRYC--PNVPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGKRVAK-----EIGAKKYMECSAL  156 (187)
T ss_pred             CHHHHHHHHHHHHHHHHHhC--CCCCEEEEeeChhhhhCcccccccccCCcCCHHHHHHHHH-----HhCCcEEEEccCC
Confidence            999999986 5888877653  4699999999999843            122334444443     233 479999999


Q ss_pred             CCCCHHHHHHHHHHHHHhcchhh
Q 029517          157 DGFGIKESVEWLVEVMERSKRTE  179 (192)
Q Consensus       157 ~~~gi~e~~~~i~~~i~~~~~~~  179 (192)
                      +|.||+++|+++.+.+...+..+
T Consensus       157 ~~~~v~~~f~~l~~~~~~~~~~~  179 (187)
T cd04129         157 TGEGVDDVFEAATRAALLVRKSE  179 (187)
T ss_pred             CCCCHHHHHHHHHHHHhcccCcc
Confidence            99999999999999887766443

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).

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.87  E-value=2.8e-21  Score=140.40  Aligned_cols=143  Identities=18%  Similarity=0.255  Sum_probs=105.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE-EE--EecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG-RI--EVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~-~~--~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||+++++.    .      +.+...|.||++..+. .+  ....+.+.+|||+|++.|...+..+++++|++++|||++
T Consensus        14 KTsl~~~~~----~------~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~~~~   83 (175)
T cd01870          14 KTCLLIVFS----K------DQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSID   83 (175)
T ss_pred             HHHHHHHHh----c------CCCCCCCCCccccceEEEEEECCEEEEEEEEeCCCchhhhhccccccCCCCEEEEEEECC
Confidence            566665554    3      4555677888887653 33  334578999999999999888888899999999999999


Q ss_pred             CcccHHHHH-HHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC--------------HHHHHhHcCccccCCcceEEEEeee
Q 029517           91 CPSRFEDSK-TALEKVLRNEDLQGAPLLILANKQDLPDAVS--------------ADELARYLDLKKLDERVCMFEAVSG  155 (192)
Q Consensus        91 ~~~s~~~~~-~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~--------------~~~~~~~~~~~~~~~~~~~~~~~Sa  155 (192)
                      +.++++.+. .|+..+....  .+.|+++++||+|+.....              .++..++.+    .....++++|||
T Consensus        84 ~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~~~~----~~~~~~~~~~Sa  157 (175)
T cd01870          84 SPDSLENIPEKWTPEVKHFC--PNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMAN----KIGAFGYMECSA  157 (175)
T ss_pred             CHHHHHHHHHHHHHHHHhhC--CCCCEEEEeeChhcccChhhhhhhhhccCCCccHHHHHHHHH----HcCCcEEEEecc
Confidence            999998885 4777666542  4789999999999864211              122222222    112358999999


Q ss_pred             cCCCCHHHHHHHHHHHH
Q 029517          156 YDGFGIKESVEWLVEVM  172 (192)
Q Consensus       156 ~~~~gi~e~~~~i~~~i  172 (192)
                      ++|.||+++|++|.+.+
T Consensus       158 ~~~~~v~~lf~~l~~~~  174 (175)
T cd01870         158 KTKEGVREVFEMATRAA  174 (175)
T ss_pred             ccCcCHHHHHHHHHHHh
Confidence            99999999999998754

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

>cd04135 Tc10 TC10 subfamily

Probab=99.87  E-value=3.1e-21  Score=140.00  Aligned_cols=142  Identities=16%  Similarity=0.228  Sum_probs=106.6

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE-E--EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG-R--IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~-~--~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||+++++.+          +.+...+.||++..+. .  ++...+.+.+|||||++.|...+..+++++|++++|+|++
T Consensus        13 KTsl~~~~~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~~~~   82 (174)
T cd04135          13 KTCLLMSYAN----------DAFPEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVV   82 (174)
T ss_pred             HHHHHHHHHh----------CCCCCCCCCceeeeeEEEEEECCEEEEEEEEeCCCcccccccccccCCCCCEEEEEEECC
Confidence            6666666643          3455667777764443 2  3333567899999999999988989999999999999999


Q ss_pred             CcccHHHHH-HHHHHHHhCCCCCCCcEEEEEeCCCCCCC--------------CCHHHHHhHcCccccCCcc-eEEEEee
Q 029517           91 CPSRFEDSK-TALEKVLRNEDLQGAPLLILANKQDLPDA--------------VSADELARYLDLKKLDERV-CMFEAVS  154 (192)
Q Consensus        91 ~~~s~~~~~-~~~~~i~~~~~~~~~piiiv~nK~Dl~~~--------------~~~~~~~~~~~~~~~~~~~-~~~~~~S  154 (192)
                      ++.+|+.+. .|+..+...  ..+.|+++++||+|+.+.              ++.+++..++.     ..+ ..++++|
T Consensus        83 ~~~s~~~~~~~~~~~l~~~--~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~-----~~~~~~~~e~S  155 (174)
T cd04135          83 NPASFQNVKEEWVPELKEY--APNVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKLAK-----EIGAHCYVECS  155 (174)
T ss_pred             CHHHHHHHHHHHHHHHHhh--CCCCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHHHH-----HcCCCEEEEec
Confidence            999999886 466666544  267999999999998542              33344444443     223 4799999


Q ss_pred             ecCCCCHHHHHHHHHHHH
Q 029517          155 GYDGFGIKESVEWLVEVM  172 (192)
Q Consensus       155 a~~~~gi~e~~~~i~~~i  172 (192)
                      |++|.||+++|+.+.+.+
T Consensus       156 a~~~~gi~~~f~~~~~~~  173 (174)
T cd04135         156 ALTQKGLKTVFDEAILAI  173 (174)
T ss_pred             CCcCCCHHHHHHHHHHHh
Confidence            999999999999998865

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

>cd00876 Ras Ras family

Probab=99.86  E-value=5.2e-21  Score=136.56  Aligned_cols=143  Identities=24%  Similarity=0.309  Sum_probs=112.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE-EEEec--CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG-RIEVS--NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~-~~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++++|++.          .+...+.||.+..+. .+...  .+.+++||+||++.+...+..+++.+|++++|+|++
T Consensus        12 KTsli~~l~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~   81 (160)
T cd00876          12 KSAITIQFVKG----------TFVEEYDPTIEDSYRKTIVVDGETYTLDILDTAGQEEFSAMRDLYIRQGDGFILVYSIT   81 (160)
T ss_pred             HHHHHHHHHhC----------CCCcCcCCChhHeEEEEEEECCEEEEEEEEECCChHHHHHHHHHHHhcCCEEEEEEECC
Confidence            67777777543          244555666663333 23333  578999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      ++++++.+..|...+.........|+++++||+|+..  ....+++.+...     ..+.+++++||+++.|++++|++|
T Consensus        82 ~~~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~S~~~~~~i~~l~~~l  156 (160)
T cd00876          82 DRESFEEIKGYREQILRVKDDEDIPIVLVGNKCDLENERQVSKEEGKALAK-----EWGCPFIETSAKDNINIDEVFKLL  156 (160)
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCcccccceecHHHHHHHHH-----HcCCcEEEeccCCCCCHHHHHHHH
Confidence            9999999999998888765435799999999999875  345566666665     334789999999999999999999


Q ss_pred             HHH
Q 029517          169 VEV  171 (192)
Q Consensus       169 ~~~  171 (192)
                      .+.
T Consensus       157 ~~~  159 (160)
T cd00876         157 VRE  159 (160)
T ss_pred             Hhh
Confidence            875

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

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.85  E-value=5e-20  Score=138.39  Aligned_cols=135  Identities=15%  Similarity=0.379  Sum_probs=110.9

Q ss_pred             CCCCCCCCCCcceEEEEEE----ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCC
Q 029517           34 GLPPDRIVPTVGLNIGRIE----VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNE  109 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~~~----~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~  109 (192)
                      +.+...|.||+|.++....    .+.+.+++|||+|++++...+..+++.++++++|+|+++..++..+..|+..+....
T Consensus        32 ~~~~~~~~~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~  111 (215)
T PTZ00132         32 GEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQEKFGGLRDGYYIKGQCAIIMFDVTSRITYKNVPNWHRDIVRVC  111 (215)
T ss_pred             CCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhC
Confidence            5567788999999887643    356899999999999999899999999999999999999999999999999887654


Q ss_pred             CCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          110 DLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                        .++|+++++||+|+.+.....+..++..     ..++.++++||++|.|++++|.+|.+.+...
T Consensus       112 --~~~~i~lv~nK~Dl~~~~~~~~~~~~~~-----~~~~~~~e~Sa~~~~~v~~~f~~ia~~l~~~  170 (215)
T PTZ00132        112 --ENIPIVLVGNKVDVKDRQVKARQITFHR-----KKNLQYYDISAKSNYNFEKPFLWLARRLTND  170 (215)
T ss_pred             --CCCCEEEEEECccCccccCCHHHHHHHH-----HcCCEEEEEeCCCCCCHHHHHHHHHHHHhhc
Confidence              4789999999999865322222233333     3467899999999999999999999988754

>cd01893 Miro1 Miro1 subfamily

Probab=99.85  E-value=6.4e-20  Score=132.35  Aligned_cols=118  Identities=18%  Similarity=0.220  Sum_probs=91.2

Q ss_pred             EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHH-HHHHHHHhCCCCCCCcEEEEEeCCCCCCCC
Q 029517           51 IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSK-TALEKVLRNEDLQGAPLLILANKQDLPDAV  129 (192)
Q Consensus        51 ~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~-~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~  129 (192)
                      +....+++++|||||++.+...+..+++.+|++++|+|++++.+++.+. .|+..+....  .+.|+++|+||+|+.+..
T Consensus        42 ~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~i~~~~--~~~pviiv~nK~Dl~~~~  119 (166)
T cd01893          42 VTPERVPTTIVDTSSRPQDRANLAAEIRKANVICLVYSVDRPSTLERIRTKWLPLIRRLG--VKVPIILVGNKSDLRDGS  119 (166)
T ss_pred             ecCCeEEEEEEeCCCchhhhHHHhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC--CCCCEEEEEEchhccccc
Confidence            3345789999999999988888888889999999999999999999975 5666665543  479999999999997643


Q ss_pred             CH----HHHHhHcCccccCCcc-eEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          130 SA----DELARYLDLKKLDERV-CMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       130 ~~----~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      ..    +++....+    .... .+++++||++|.|++++|+.+.+.+.+
T Consensus       120 ~~~~~~~~~~~~~~----~~~~~~~~~e~Sa~~~~~v~~lf~~~~~~~~~  165 (166)
T cd01893         120 SQAGLEEEMLPIMN----EFREIETCVECSAKTLINVSEVFYYAQKAVLH  165 (166)
T ss_pred             chhHHHHHHHHHHH----HHhcccEEEEeccccccCHHHHHHHHHHHhcC
Confidence            31    22222211    0111 379999999999999999999987764

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.

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

Probab=99.84  E-value=9.6e-20  Score=131.37  Aligned_cols=144  Identities=17%  Similarity=0.150  Sum_probs=98.0

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCccc----H-----HHHHHhhhcCCEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGL----R-----SIWEKYYEEAHAVV   84 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~----~-----~~~~~~~~~~d~ii   84 (192)
                      |||++|+|.+....    .    .....+|.+.....+....+.+++|||||+...    .     .........+|+++
T Consensus        13 Kssli~~l~~~~~~----~----~~~~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~d~~l   84 (168)
T cd01897          13 KSSLVNKLTRAKPE----V----APYPFTTKSLFVGHFDYKYLRWQVIDTPGLLDRPLEERNTIEMQAITALAHLRAAVL   84 (168)
T ss_pred             HHHHHHHHhcCCCc----c----CCCCCcccceeEEEEccCceEEEEEECCCcCCccccCCchHHHHHHHHHHhccCcEE
Confidence            78888887654221    1    112244666766666667789999999997421    0     11111123368999


Q ss_pred             EEEeCCCccc--HHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHH
Q 029517           85 FVIDAACPSR--FEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIK  162 (192)
Q Consensus        85 ~v~D~~~~~s--~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  162 (192)
                      +|+|+++..+  ++....|+..+....  .+.|+++|+||+|+.......+..++..     ....+++++||++|.|++
T Consensus        85 ~v~d~~~~~~~~~~~~~~~~~~l~~~~--~~~pvilv~NK~Dl~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~  157 (168)
T cd01897          85 FLFDPSETCGYSLEEQLSLFEEIKPLF--KNKPVIVVLNKIDLLTFEDLSEIEEEEE-----LEGEEVLKISTLTEEGVD  157 (168)
T ss_pred             EEEeCCcccccchHHHHHHHHHHHhhc--CcCCeEEEEEccccCchhhHHHHHHhhh-----hccCceEEEEecccCCHH
Confidence            9999998764  366667777775542  4799999999999976433333333333     346789999999999999


Q ss_pred             HHHHHHHHHH
Q 029517          163 ESVEWLVEVM  172 (192)
Q Consensus       163 e~~~~i~~~i  172 (192)
                      ++++++.+.+
T Consensus       158 ~l~~~l~~~~  167 (168)
T cd01897         158 EVKNKACELL  167 (168)
T ss_pred             HHHHHHHHHh
Confidence            9999998875

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.

>cd01890 LepA LepA subfamily

Probab=99.83  E-value=1.1e-19  Score=132.47  Aligned_cols=146  Identities=18%  Similarity=0.218  Sum_probs=99.4

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCC------cceEEE----EE-----EecCEEEEEEeCCCCcccHHHHHHhhh
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPT------VGLNIG----RI-----EVSNSKLVFWDLGGQPGLRSIWEKYYE   78 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T------~g~~~~----~~-----~~~~~~~~i~D~~G~~~~~~~~~~~~~   78 (192)
                      |||++++|++...... +  ..+...+.+|      .|..+.    .+     +...+.+.+|||||++++...+..+++
T Consensus        13 KssL~~~l~~~~~~~~-~--~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~   89 (179)
T cd01890          13 KSTLADRLLELTGTVS-K--REMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHVDFSYEVSRSLA   89 (179)
T ss_pred             HHHHHHHHHHHhCCCC-c--CCCceEeccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCChhhHHHHHHHHH
Confidence            8999999987532211 0  1112223332      233332    12     345788999999999999999999999


Q ss_pred             cCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHH---HHHhHcCccccCCcceEEEEeee
Q 029517           79 EAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSAD---ELARYLDLKKLDERVCMFEAVSG  155 (192)
Q Consensus        79 ~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~---~~~~~~~~~~~~~~~~~~~~~Sa  155 (192)
                      .+|++|+|+|+++..+.+....|.... .    .++|+++|+||+|+.+....+   ++.+...     .....++++||
T Consensus        90 ~ad~~i~v~D~~~~~~~~~~~~~~~~~-~----~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa  159 (179)
T cd01890          90 ACEGALLLVDATQGVEAQTLANFYLAL-E----NNLEIIPVINKIDLPSADPERVKQQIEDVLG-----LDPSEAILVSA  159 (179)
T ss_pred             hcCeEEEEEECCCCccHhhHHHHHHHH-H----cCCCEEEEEECCCCCcCCHHHHHHHHHHHhC-----CCcccEEEeec
Confidence            999999999999876666655553322 1    368999999999986532221   2222222     11235899999


Q ss_pred             cCCCCHHHHHHHHHHHH
Q 029517          156 YDGFGIKESVEWLVEVM  172 (192)
Q Consensus       156 ~~~~gi~e~~~~i~~~i  172 (192)
                      ++|.|++++|++|.+.+
T Consensus       160 ~~g~gi~~l~~~l~~~~  176 (179)
T cd01890         160 KTGLGVEDLLEAIVERI  176 (179)
T ss_pred             cCCCCHHHHHHHHHhhC
Confidence            99999999999998764

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.

>cd00157 Rho Rho (Ras homology) family

Probab=99.83  E-value=1e-19  Score=131.49  Aligned_cols=140  Identities=21%  Similarity=0.294  Sum_probs=102.4

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++++|++.          .+...+.||.......   ..+..+.+++||+||++.+......+++.+|++++|||++
T Consensus        13 KSsli~~l~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~   82 (171)
T cd00157          13 KTCLLISYTTG----------KFPTEYVPTVFDNYSATVTVDGKQVNLGLWDTAGQEEYDRLRPLSYPNTDVFLICFSVD   82 (171)
T ss_pred             HHHHHHHHHhC----------CCCCCCCCceeeeeEEEEEECCEEEEEEEEeCCCcccccccchhhcCCCCEEEEEEECC
Confidence            66666666543          3334556666544332   3344678999999999988878888889999999999999


Q ss_pred             CcccHHHHHH-HHHHHHhCCCCCCCcEEEEEeCCCCCCCC-------------CHHHHHhHcCccccCCcce-EEEEeee
Q 029517           91 CPSRFEDSKT-ALEKVLRNEDLQGAPLLILANKQDLPDAV-------------SADELARYLDLKKLDERVC-MFEAVSG  155 (192)
Q Consensus        91 ~~~s~~~~~~-~~~~i~~~~~~~~~piiiv~nK~Dl~~~~-------------~~~~~~~~~~~~~~~~~~~-~~~~~Sa  155 (192)
                      ++.++..+.. |+..+....  .+.|+++|+||+|+....             ..++..+...     ..+. +++++||
T Consensus        83 ~~~s~~~~~~~~~~~~~~~~--~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~~-----~~~~~~~~~~Sa  155 (171)
T cd00157          83 SPSSFENVKTKWIPEIRHYC--PNVPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLAK-----EIGAIGYMECSA  155 (171)
T ss_pred             CHHHHHHHHHHHHHHHHhhC--CCCCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHHH-----HhCCeEEEEeec
Confidence            9888877654 666665543  479999999999987533             2334444443     2333 8999999


Q ss_pred             cCCCCHHHHHHHHHH
Q 029517          156 YDGFGIKESVEWLVE  170 (192)
Q Consensus       156 ~~~~gi~e~~~~i~~  170 (192)
                      ++|.|++++|++|.+
T Consensus       156 ~~~~gi~~l~~~i~~  170 (171)
T cd00157         156 LTQEGVKEVFEEAIR  170 (171)
T ss_pred             CCCCCHHHHHHHHhh
Confidence            999999999999875

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

>cd01898 Obg Obg subfamily

Probab=99.83  E-value=2e-19  Score=129.88  Aligned_cols=146  Identities=23%  Similarity=0.271  Sum_probs=98.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecC-EEEEEEeCCCCc----c---cHHHHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSN-SKLVFWDLGGQP----G---LRSIWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~-~~~~i~D~~G~~----~---~~~~~~~~~~~~d~ii~   85 (192)
                      |||++|+|.+...    .+...+..++.|++|.    +...+ .++.+|||||+.    .   +...+...++.+|++++
T Consensus        13 KStl~~~l~~~~~----~v~~~~~~t~~~~~~~----~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~d~vi~   84 (170)
T cd01898          13 KSTLLSAISNAKP----KIADYPFTTLVPNLGV----VRVDDGRSFVVADIPGLIEGASEGKGLGHRFLRHIERTRLLLH   84 (170)
T ss_pred             HHHHHHHHhcCCc----cccCCCccccCCcceE----EEcCCCCeEEEEecCcccCcccccCCchHHHHHHHHhCCEEEE
Confidence            7888888875322    2222222333444443    44444 489999999963    1   12222233456999999


Q ss_pred             EEeCCCc-ccHHHHHHHHHHHHhCCC-CCCCcEEEEEeCCCCCCCCCHH-HHHhHcCccccCCcceEEEEeeecCCCCHH
Q 029517           86 VIDAACP-SRFEDSKTALEKVLRNED-LQGAPLLILANKQDLPDAVSAD-ELARYLDLKKLDERVCMFEAVSGYDGFGIK  162 (192)
Q Consensus        86 v~D~~~~-~s~~~~~~~~~~i~~~~~-~~~~piiiv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  162 (192)
                      |+|+++. .+++.+..|.+.+..... ..++|+++|+||+|+....... .+.....    .....+++++||+++.|++
T Consensus        85 v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~----~~~~~~~~~~Sa~~~~gi~  160 (170)
T cd01898          85 VIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLDEEELFELLKELLK----ELWGKPVFPISALTGEGLD  160 (170)
T ss_pred             EEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCCchhhHHHHHHHHh----hCCCCCEEEEecCCCCCHH
Confidence            9999998 788888888888766432 2468999999999986643332 2333333    1135679999999999999


Q ss_pred             HHHHHHHHH
Q 029517          163 ESVEWLVEV  171 (192)
Q Consensus       163 e~~~~i~~~  171 (192)
                      ++|+++.+.
T Consensus       161 ~l~~~i~~~  169 (170)
T cd01898         161 ELLRKLAEL  169 (170)
T ss_pred             HHHHHHHhh
Confidence            999999864

The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.82  E-value=4.3e-19  Score=140.89  Aligned_cols=150  Identities=22%  Similarity=0.285  Sum_probs=107.4

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEe-cCEEEEEEeCCCCc-------ccHHHHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEV-SNSKLVFWDLGGQP-------GLRSIWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~-~~~~~~i~D~~G~~-------~~~~~~~~~~~~~d~ii~   85 (192)
                      |||++|+|.+    ..+++++++.++..|++|.    +.. ....+.+||+||..       .....+..+++.|+++++
T Consensus       171 KSTLln~ls~----a~~~va~ypfTT~~p~~G~----v~~~~~~~~~i~D~PGli~ga~~~~gLg~~flrhie~a~vlI~  242 (335)
T PRK12299        171 KSTLISAVSA----AKPKIADYPFTTLHPNLGV----VRVDDYKSFVIADIPGLIEGASEGAGLGHRFLKHIERTRLLLH  242 (335)
T ss_pred             HHHHHHHHHc----CCCccCCCCCceeCceEEE----EEeCCCcEEEEEeCCCccCCCCccccHHHHHHHHhhhcCEEEE
Confidence            5666666654    3456667766655565554    554 45689999999953       133344557788999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCC-CCCCcEEEEEeCCCCCCCCC--HHHHHhHcCccccCCcceEEEEeeecCCCCHH
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNED-LQGAPLLILANKQDLPDAVS--ADELARYLDLKKLDERVCMFEAVSGYDGFGIK  162 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~-~~~~piiiv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  162 (192)
                      |+|+++.++++.+..|...+..... ..++|+++|+||+|+.....  .+....++.     ..+.+++++||+++.||+
T Consensus       243 ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~~~~~~~~~~~~~~-----~~~~~i~~iSAktg~GI~  317 (335)
T PRK12299        243 LVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLDEEEEREKRAALELA-----ALGGPVFLISAVTGEGLD  317 (335)
T ss_pred             EEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCchhHHHHHHHHHHH-----hcCCCEEEEEcCCCCCHH
Confidence            9999988889998888888876532 24789999999999975322  122333322     334789999999999999


Q ss_pred             HHHHHHHHHHHhcc
Q 029517          163 ESVEWLVEVMERSK  176 (192)
Q Consensus       163 e~~~~i~~~i~~~~  176 (192)
                      +++++|.+.+.+.+
T Consensus       318 eL~~~L~~~l~~~~  331 (335)
T PRK12299        318 ELLRALWELLEEAR  331 (335)
T ss_pred             HHHHHHHHHHHhhh
Confidence            99999998876543

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

Probab=99.82  E-value=8.6e-20  Score=123.97  Aligned_cols=146  Identities=36%  Similarity=0.635  Sum_probs=130.3

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecC-EEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSN-SKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDS   98 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~-~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~   98 (192)
                      |++.++++       .-+....||.|.+...+...+ +++.+||++|+...+..|..|+.+.|++|+|+|++|...|+++
T Consensus        32 T~LKqL~s-------ED~~hltpT~GFn~k~v~~~g~f~LnvwDiGGqr~IRpyWsNYyenvd~lIyVIDS~D~krfeE~  104 (185)
T KOG0074|consen   32 TFLKQLKS-------EDPRHLTPTNGFNTKKVEYDGTFHLNVWDIGGQRGIRPYWSNYYENVDGLIYVIDSTDEKRFEEI  104 (185)
T ss_pred             hHHHHHcc-------CChhhccccCCcceEEEeecCcEEEEEEecCCccccchhhhhhhhccceEEEEEeCCchHhHHHH
Confidence            77888884       445567999999999988865 8999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517           99 KTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus        99 ~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                      .+.+-.+.+.......|+.+..||.|+..+...+++...+.+..+..+.+++.+|||..+.|+.+-.+|+....
T Consensus       105 ~~el~ELleeeKl~~vpvlIfankQdlltaa~~eeia~klnl~~lrdRswhIq~csals~eg~~dg~~wv~sn~  178 (185)
T KOG0074|consen  105 SEELVELLEEEKLAEVPVLIFANKQDLLTAAKVEEIALKLNLAGLRDRSWHIQECSALSLEGSTDGSDWVQSNP  178 (185)
T ss_pred             HHHHHHHhhhhhhhccceeehhhhhHHHhhcchHHHHHhcchhhhhhceEEeeeCccccccCccCcchhhhcCC
Confidence            99888888876677899999999999998888889988888777778899999999999999999999986543

>cd04171 SelB SelB subfamily

Probab=99.82  E-value=2.7e-19  Score=128.26  Aligned_cols=144  Identities=21%  Similarity=0.135  Sum_probs=94.1

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCC--CCCcceEEEEEEec-CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRI--VPTVGLNIGRIEVS-NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~--~~T~g~~~~~~~~~-~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|.+...       +.+...+  .+|++..+..+... ...+.+|||||++++......+++++|++++|+|++
T Consensus        13 Kssl~~~l~~~~~-------~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~ad~ii~V~d~~   85 (164)
T cd04171          13 KTTLIKALTGIET-------DRLPEEKKRGITIDLGFAYLDLPSGKRLGFIDVPGHEKFIKNMLAGAGGIDLVLLVVAAD   85 (164)
T ss_pred             HHHHHHHHhCccc-------ccchhhhccCceEEeeeEEEEecCCcEEEEEECCChHHHHHHHHhhhhcCCEEEEEEECC
Confidence            7888888875422       2222222  33555555555544 678999999999998777777889999999999998


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC----HHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVS----ADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVE  166 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~----~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~  166 (192)
                      +... ......+..+...   ...|+++++||+|+.....    .+++.+.+..  ....+.+++++||++|.|++++++
T Consensus        86 ~~~~-~~~~~~~~~~~~~---~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~Sa~~~~~v~~l~~  159 (164)
T cd04171          86 EGIM-PQTREHLEILELL---GIKRGLVVLTKADLVDEDWLELVEEEIRELLAG--TFLADAPIFPVSAVTGEGIEELKE  159 (164)
T ss_pred             CCcc-HhHHHHHHHHHHh---CCCcEEEEEECccccCHHHHHHHHHHHHHHHHh--cCcCCCcEEEEeCCCCcCHHHHHH
Confidence            6321 1122222222212   2249999999999975321    2333344431  001367899999999999999999


Q ss_pred             HHHH
Q 029517          167 WLVE  170 (192)
Q Consensus       167 ~i~~  170 (192)
                      ++..
T Consensus       160 ~l~~  163 (164)
T cd04171         160 YLDE  163 (164)
T ss_pred             HHhh
Confidence            8753

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

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.81  E-value=9.1e-19  Score=130.02  Aligned_cols=94  Identities=19%  Similarity=0.287  Sum_probs=79.2

Q ss_pred             CCCCCCCCCCcceEEEE--EE-------ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHH
Q 029517           34 GLPPDRIVPTVGLNIGR--IE-------VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEK  104 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~--~~-------~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~  104 (192)
                      +.|.+.+.||+|.++..  +.       ...+.+++|||+|+++|..++..++++++++|+|||+++..+|+.+..|+..
T Consensus        23 ~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~e~~~~l~~~~yr~ad~iIlVyDvtn~~Sf~~l~~W~~e  102 (202)
T cd04102          23 NQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGSESVKSTRAVFYNQVNGIILVHDLTNRKSSQNLQRWSLE  102 (202)
T ss_pred             CCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCchhHHHHHHHHhCcCCEEEEEEECcChHHHHHHHHHHHH
Confidence            56777889999976642  22       2357899999999999999999999999999999999999999999999999


Q ss_pred             HHhCC------------------CCCCCcEEEEEeCCCCCC
Q 029517          105 VLRNE------------------DLQGAPLLILANKQDLPD  127 (192)
Q Consensus       105 i~~~~------------------~~~~~piiiv~nK~Dl~~  127 (192)
                      +....                  ...++|+++||||.|+.+
T Consensus       103 i~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~  143 (202)
T cd04102         103 ALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIP  143 (202)
T ss_pred             HHHhhccccccccccccccccccCCCCceEEEEEECccchh
Confidence            97631                  124689999999999865

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

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

Probab=99.80  E-value=2.5e-19  Score=130.20  Aligned_cols=141  Identities=18%  Similarity=0.311  Sum_probs=116.8

Q ss_pred             cCCCCCCCCCCCCcceEEEE---EE-ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHH-HHHHHHH
Q 029517           31 NVEGLPPDRIVPTVGLNIGR---IE-VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDS-KTALEKV  105 (192)
Q Consensus        31 ~~~~~~~~~~~~T~g~~~~~---~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~-~~~~~~i  105 (192)
                      ...+.|++.|.||.--++..   +. +..+.+.+|||+||++|...+...+..+|+++++|++.++.||+++ .+|+-++
T Consensus        24 ~t~~~fp~~yvPTVFdnys~~v~V~dg~~v~L~LwDTAGqedYDrlRplsY~~tdvfl~cfsv~~p~S~~nv~~kW~pEi  103 (198)
T KOG0393|consen   24 YTTNAFPEEYVPTVFDNYSANVTVDDGKPVELGLWDTAGQEDYDRLRPLSYPQTDVFLLCFSVVSPESFENVKSKWIPEI  103 (198)
T ss_pred             eccCcCcccccCeEEccceEEEEecCCCEEEEeeeecCCCcccccccccCCCCCCEEEEEEEcCChhhHHHHHhhhhHHH
Confidence            44478999999999977763   53 6678999999999999998887788999999999999999999985 6799988


Q ss_pred             HhCCCCCCCcEEEEEeCCCCCC--------------CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHH
Q 029517          106 LRNEDLQGAPLLILANKQDLPD--------------AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEV  171 (192)
Q Consensus       106 ~~~~~~~~~piiiv~nK~Dl~~--------------~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~  171 (192)
                      ...+  ++.|+++||+|.||..              .+..++....++    ......|+||||++..|++++|+..++.
T Consensus       104 ~~~c--p~vpiiLVGtk~DLr~d~~~~~~l~~~~~~~Vt~~~g~~lA~----~iga~~y~EcSa~tq~~v~~vF~~a~~~  177 (198)
T KOG0393|consen  104 KHHC--PNVPIILVGTKADLRDDPSTLEKLQRQGLEPVTYEQGLELAK----EIGAVKYLECSALTQKGVKEVFDEAIRA  177 (198)
T ss_pred             HhhC--CCCCEEEEeehHHhhhCHHHHHHHHhccCCcccHHHHHHHHH----HhCcceeeeehhhhhCCcHHHHHHHHHH
Confidence            8886  6899999999999963              344455555554    1224789999999999999999999998


Q ss_pred             HHhcch
Q 029517          172 MERSKR  177 (192)
Q Consensus       172 i~~~~~  177 (192)
                      .....+
T Consensus       178 ~l~~~~  183 (198)
T KOG0393|consen  178 ALRPPQ  183 (198)
T ss_pred             Hhcccc
Confidence            877653

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.80  E-value=2.2e-18  Score=136.72  Aligned_cols=147  Identities=22%  Similarity=0.296  Sum_probs=103.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecC-EEEEEEeCCCCcc-------cHHHHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSN-SKLVFWDLGGQPG-------LRSIWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~-~~~~i~D~~G~~~-------~~~~~~~~~~~~d~ii~   85 (192)
                      |||++|+|.+    ..+++++++.++..|++|.    +...+ .++.+||+||...       ....+..+++.|+++++
T Consensus       170 KSTLl~~lt~----~~~~va~y~fTT~~p~ig~----v~~~~~~~~~i~D~PGli~~a~~~~gLg~~flrhierad~ll~  241 (329)
T TIGR02729       170 KSTLISAVSA----AKPKIADYPFTTLVPNLGV----VRVDDGRSFVIADIPGLIEGASEGAGLGHRFLKHIERTRVLLH  241 (329)
T ss_pred             HHHHHHHHhc----CCccccCCCCCccCCEEEE----EEeCCceEEEEEeCCCcccCCcccccHHHHHHHHHHhhCEEEE
Confidence            5666666654    3456667766667777665    44444 7899999999631       23344455678999999


Q ss_pred             EEeCCCc---ccHHHHHHHHHHHHhCC-CCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCH
Q 029517           86 VIDAACP---SRFEDSKTALEKVLRNE-DLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGI  161 (192)
Q Consensus        86 v~D~~~~---~s~~~~~~~~~~i~~~~-~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  161 (192)
                      |+|+++.   ++++.+..|.+.+.... ...++|+++|+||+|+......+++.+.+.    ...+.+++++||+++.||
T Consensus       242 VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~~~~~~~~~~l~----~~~~~~vi~iSAktg~GI  317 (329)
T TIGR02729       242 LIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDEEELAELLKELK----KALGKPVFPISALTGEGL  317 (329)
T ss_pred             EEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCChHHHHHHHHHHH----HHcCCcEEEEEccCCcCH
Confidence            9999976   67777777777766542 224789999999999976433333333322    122468999999999999


Q ss_pred             HHHHHHHHHHH
Q 029517          162 KESVEWLVEVM  172 (192)
Q Consensus       162 ~e~~~~i~~~i  172 (192)
                      ++++++|.+.+
T Consensus       318 ~eL~~~I~~~l  328 (329)
T TIGR02729       318 DELLYALAELL  328 (329)
T ss_pred             HHHHHHHHHHh
Confidence            99999998754

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.

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

Probab=99.78  E-value=7.6e-20  Score=129.03  Aligned_cols=138  Identities=21%  Similarity=0.355  Sum_probs=122.4

Q ss_pred             CCCCCCCCCCcceEEEE----EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCC
Q 029517           34 GLPPDRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNE  109 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~  109 (192)
                      +-|...|..|||.++..    +....+...+||++|++.|......|++++.+.++||.-+|..||+...+|.+++....
T Consensus        43 gifTkdykktIgvdflerqi~v~~Edvr~mlWdtagqeEfDaItkAyyrgaqa~vLVFSTTDr~SFea~~~w~~kv~~e~  122 (246)
T KOG4252|consen   43 GIFTKDYKKTIGVDFLERQIKVLIEDVRSMLWDTAGQEEFDAITKAYYRGAQASVLVFSTTDRYSFEATLEWYNKVQKET  122 (246)
T ss_pred             cccccccccccchhhhhHHHHhhHHHHHHHHHHhccchhHHHHHHHHhccccceEEEEecccHHHHHHHHHHHHHHHHHh
Confidence            77889999999999874    44567889999999999999999999999999999999999999999999999998765


Q ss_pred             CCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhcchh
Q 029517          110 DLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSKRT  178 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~~~~  178 (192)
                        .++|.++|-||+|+.+  ++..+++...++     .....++.+|++...||..+|..|.+.+.....+
T Consensus       123 --~~IPtV~vqNKIDlveds~~~~~evE~lak-----~l~~RlyRtSvked~NV~~vF~YLaeK~~q~~kq  186 (246)
T KOG4252|consen  123 --ERIPTVFVQNKIDLVEDSQMDKGEVEGLAK-----KLHKRLYRTSVKEDFNVMHVFAYLAEKLTQQKKQ  186 (246)
T ss_pred             --ccCCeEEeeccchhhHhhhcchHHHHHHHH-----HhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence              5899999999999987  677777777776     5578899999999999999999999988766544

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

Probab=99.78  E-value=3.7e-18  Score=123.76  Aligned_cols=145  Identities=21%  Similarity=0.229  Sum_probs=98.5

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEec-CEEEEEEeCCCCccc-------HHHHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVS-NSKLVFWDLGGQPGL-------RSIWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~-~~~~~i~D~~G~~~~-------~~~~~~~~~~~d~ii~   85 (192)
                      |||++|+|.+...    .+.+.    ..+|.+.....+... ...+.+|||||....       ......+++++|++++
T Consensus         9 KStll~~l~~~~~----~~~~~----~~~t~~~~~~~~~~~~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~d~ii~   80 (176)
T cd01881           9 KSTLLNALTNAKP----KVANY----PFTTLEPNLGVVEVPDGARIQVADIPGLIEGASEGRGLGNQFLAHIRRADAILH   80 (176)
T ss_pred             HHHHHHHHhcCCc----cccCC----CceeecCcceEEEcCCCCeEEEEeccccchhhhcCCCccHHHHHHHhccCEEEE
Confidence            7888888876532    11122    233344444455556 788999999996321       1123345788999999


Q ss_pred             EEeCCCc------ccHHHHHHHHHHHHhCCC------CCCCcEEEEEeCCCCCCCCCHHHH--HhHcCccccCCcceEEE
Q 029517           86 VIDAACP------SRFEDSKTALEKVLRNED------LQGAPLLILANKQDLPDAVSADEL--ARYLDLKKLDERVCMFE  151 (192)
Q Consensus        86 v~D~~~~------~s~~~~~~~~~~i~~~~~------~~~~piiiv~nK~Dl~~~~~~~~~--~~~~~~~~~~~~~~~~~  151 (192)
                      |+|+++.      .++++...|...+.....      ..++|+++|+||+|+.......+.  .....     ..+.+++
T Consensus        81 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~  155 (176)
T cd01881          81 VVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDAEELEEELVRELAL-----EEGAEVV  155 (176)
T ss_pred             EEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCchhHHHHHHHHHHhc-----CCCCCEE
Confidence            9999987      567777777777765432      147899999999999753332222  11221     3467799


Q ss_pred             EeeecCCCCHHHHHHHHHHH
Q 029517          152 AVSGYDGFGIKESVEWLVEV  171 (192)
Q Consensus       152 ~~Sa~~~~gi~e~~~~i~~~  171 (192)
                      ++||+++.|++++++++.+.
T Consensus       156 ~~Sa~~~~gl~~l~~~l~~~  175 (176)
T cd01881         156 PISAKTEEGLDELIRAIYEL  175 (176)
T ss_pred             EEehhhhcCHHHHHHHHHhh
Confidence            99999999999999998764

Four of these groups (Obg, DRG, YyaF/YchF, and Ygr210) are characterized by a distinct glycine-rich motif immediately following the Walker B motif (G3 box). Obg/CgtA is an essential gene that is involved in the initiation of sporulation and DNA replication in the bacteria Caulobacter and Bacillus, but its exact molecular role is unknown. Furthermore, several OBG family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. Nog1 is a nucleolar protein that might function in ribosome assembly. The DRG and Nog1 subfamilies are ubiquitous in archaea and eukaryotes, the Ygr210 subfamily is present in archaea and fungi, and the Obg and YyaF/YchF subfamilies are ubiquitous in bacteria and eukaryotes. The Obg/Nog1 and DRG subfamilies appear to

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

Probab=99.77  E-value=5.2e-18  Score=120.88  Aligned_cols=140  Identities=21%  Similarity=0.219  Sum_probs=93.8

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHH------HHHHhhh--cCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRS------IWEKYYE--EAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~------~~~~~~~--~~d~ii~   85 (192)
                      |||++|++.+....    +    ......|.......+...+..+.+|||||++.+..      .+..++.  ++|++++
T Consensus         9 Kssl~~~~~~~~~~----~----~~~~~~t~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~   80 (158)
T cd01879           9 KTTLFNALTGARQK----V----GNWPGVTVEKKEGRFKLGGKEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDLIVN   80 (158)
T ss_pred             HHHHHHHHhcCccc----c----cCCCCcccccceEEEeeCCeEEEEEECCCccccCCCChhHHHHHHHhcCCCCcEEEE
Confidence            78888888654211    1    11123345554555666677899999999876543      3455564  8999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCH-HHHHhHcCccccCCcceEEEEeeecCCCCHHHH
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSA-DELARYLDLKKLDERVCMFEAVSGYDGFGIKES  164 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~  164 (192)
                      |+|+++.+...   .+...+..    .++|+++++||+|+...... .+...+..     ..+.+++++||++|.|++++
T Consensus        81 v~d~~~~~~~~---~~~~~~~~----~~~~~iiv~NK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~iSa~~~~~~~~l  148 (158)
T cd01879          81 VVDATNLERNL---YLTLQLLE----LGLPVVVALNMIDEAEKRGIKIDLDKLSE-----LLGVPVVPTSARKGEGIDEL  148 (158)
T ss_pred             EeeCCcchhHH---HHHHHHHH----cCCCEEEEEehhhhcccccchhhHHHHHH-----hhCCCeEEEEccCCCCHHHH
Confidence            99998754332   34433333    36899999999999653211 22222222     23578999999999999999


Q ss_pred             HHHHHHHHH
Q 029517          165 VEWLVEVME  173 (192)
Q Consensus       165 ~~~i~~~i~  173 (192)
                      ++++.+.++
T Consensus       149 ~~~l~~~~~  157 (158)
T cd01879         149 KDAIAELAE  157 (158)
T ss_pred             HHHHHHHhc
Confidence            999987643

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.

>cd01878 HflX HflX subfamily

Probab=99.77  E-value=1.1e-17  Score=124.52  Aligned_cols=141  Identities=22%  Similarity=0.253  Sum_probs=94.6

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecC-EEEEEEeCCCCcc---------cHHHHHHhhhcCCEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSN-SKLVFWDLGGQPG---------LRSIWEKYYEEAHAV   83 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~-~~~~i~D~~G~~~---------~~~~~~~~~~~~d~i   83 (192)
                      |||++|+|++.-..        ....+.+|.......+...+ ..+.+|||||...         +...+ ..+..+|++
T Consensus        54 KStLl~~l~~~~~~--------~~~~~~~t~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~-~~~~~~d~i  124 (204)
T cd01878          54 KSTLFNALTGADVY--------AEDQLFATLDPTTRRLRLPDGREVLLTDTVGFIRDLPHQLVEAFRSTL-EEVAEADLL  124 (204)
T ss_pred             HHHHHHHHhcchhc--------cCCccceeccceeEEEEecCCceEEEeCCCccccCCCHHHHHHHHHHH-HHHhcCCeE
Confidence            67777776654211        11233455555555554433 4899999999732         22222 236789999


Q ss_pred             EEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHH
Q 029517           84 VFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKE  163 (192)
Q Consensus        84 i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e  163 (192)
                      ++|+|++++.++.....|...+.... ..++|+++|+||+|+.......   ....     ....+++++||++|.|+++
T Consensus       125 i~v~D~~~~~~~~~~~~~~~~l~~~~-~~~~~viiV~NK~Dl~~~~~~~---~~~~-----~~~~~~~~~Sa~~~~gi~~  195 (204)
T cd01878         125 LHVVDASDPDYEEQIETVEKVLKELG-AEDIPMILVLNKIDLLDDEELE---ERLE-----AGRPDAVFISAKTGEGLDE  195 (204)
T ss_pred             EEEEECCCCChhhHHHHHHHHHHHcC-cCCCCEEEEEEccccCChHHHH---HHhh-----cCCCceEEEEcCCCCCHHH
Confidence            99999998888877666665554432 2468999999999987532221   2222     3456899999999999999


Q ss_pred             HHHHHHHHH
Q 029517          164 SVEWLVEVM  172 (192)
Q Consensus       164 ~~~~i~~~i  172 (192)
                      ++++|.+.+
T Consensus       196 l~~~L~~~~  204 (204)
T cd01878         196 LLEAIEELL  204 (204)
T ss_pred             HHHHHHhhC
Confidence            999998753

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

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

Probab=99.77  E-value=1.5e-17  Score=119.74  Aligned_cols=146  Identities=15%  Similarity=0.128  Sum_probs=94.5

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEe---cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEV---SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~---~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|.+.-..      ..  ....+|.......+..   .+..+.+|||||++.|...+..++..+|++++|+|++
T Consensus        13 Ktsli~~l~~~~~~------~~--~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~~~~~~~~~~~~~~d~il~v~d~~   84 (168)
T cd01887          13 KTTLLDKIRKTNVA------AG--EAGGITQHIGAFEVPAEVLKIPGITFIDTPGHEAFTNMRARGASLTDIAILVVAAD   84 (168)
T ss_pred             HHHHHHHHHhcccc------cc--cCCCeEEeeccEEEecccCCcceEEEEeCCCcHHHHHHHHHHHhhcCEEEEEEECC
Confidence            78888888643211      11  1112333333344443   3678999999999999988888999999999999998


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcC---ccc--cCCcceEEEEeeecCCCCHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLD---LKK--LDERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~---~~~--~~~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      +....+. ...+..+..    .++|+++|+||+|+.... .+.+...+.   ...  .....++++++||++|.|+++++
T Consensus        85 ~~~~~~~-~~~~~~~~~----~~~p~ivv~NK~Dl~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  158 (168)
T cd01887          85 DGVMPQT-IEAIKLAKA----ANVPFIVALNKIDKPNAN-PERVKNELSELGLQGEDEWGGDVQIVPTSAKTGEGIDDLL  158 (168)
T ss_pred             CCccHHH-HHHHHHHHH----cCCCEEEEEEceeccccc-HHHHHHHHHHhhccccccccCcCcEEEeecccCCCHHHHH
Confidence            7542221 122222222    468999999999987532 122111111   000  01235789999999999999999


Q ss_pred             HHHHHHHH
Q 029517          166 EWLVEVME  173 (192)
Q Consensus       166 ~~i~~~i~  173 (192)
                      ++|.+...
T Consensus       159 ~~l~~~~~  166 (168)
T cd01887         159 EAILLLAE  166 (168)
T ss_pred             HHHHHhhh
Confidence            99987654

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.

>cd01894 EngA1 EngA1 subfamily

Probab=99.76  E-value=1.4e-17  Score=118.30  Aligned_cols=138  Identities=22%  Similarity=0.224  Sum_probs=90.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHH--------HHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRS--------IWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~--------~~~~~~~~~d~ii~   85 (192)
                      |||++|+|++........       ....|...........+..+.+|||||+..+..        .+..+++.+|++++
T Consensus        10 Kssl~~~l~~~~~~~~~~-------~~~~t~~~~~~~~~~~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~ii~   82 (157)
T cd01894          10 KSTLFNRLTGRRDAIVED-------TPGVTRDRIYGEAEWGGREFILIDTGGIEPDDEGISKEIREQAELAIEEADVILF   82 (157)
T ss_pred             HHHHHHHHhCCcEEeecC-------CCCceeCceeEEEEECCeEEEEEECCCCCCchhHHHHHHHHHHHHHHHhCCEEEE
Confidence            788888887653221111       112233333445556678899999999887543        34456788999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcce-EEEEeeecCCCCHHHH
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVC-MFEAVSGYDGFGIKES  164 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~e~  164 (192)
                      |+|+.+..+...  .++..+...   .+.|+++++||+|+......   .+.+.     ..+. +++++||++|.|++++
T Consensus        83 v~d~~~~~~~~~--~~~~~~~~~---~~~piiiv~nK~D~~~~~~~---~~~~~-----~~~~~~~~~~Sa~~~~gv~~l  149 (157)
T cd01894          83 VVDGREGLTPAD--EEIAKYLRK---SKKPVILVVNKVDNIKEEDE---AAEFY-----SLGFGEPIPISAEHGRGIGDL  149 (157)
T ss_pred             EEeccccCCccH--HHHHHHHHh---cCCCEEEEEECcccCChHHH---HHHHH-----hcCCCCeEEEecccCCCHHHH
Confidence            999986544433  223333332   35999999999999763221   11221     1122 6899999999999999


Q ss_pred             HHHHHHH
Q 029517          165 VEWLVEV  171 (192)
Q Consensus       165 ~~~i~~~  171 (192)
                      +++|.+.
T Consensus       150 ~~~l~~~  156 (157)
T cd01894         150 LDAILEL  156 (157)
T ss_pred             HHHHHhh
Confidence            9999875

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.

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.76  E-value=7.8e-18  Score=138.82  Aligned_cols=150  Identities=22%  Similarity=0.263  Sum_probs=99.8

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcc-------cHHHHHHhhhcCCEEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPG-------LRSIWEKYYEEAHAVVFV   86 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~~d~ii~v   86 (192)
                      |||++|+|.+.    .+++++++.+    |...+...+......+.+||+||...       .......+++.|+++|+|
T Consensus       172 KSTLln~Ls~a----kpkIadypfT----Tl~P~lGvv~~~~~~f~laDtPGliegas~g~gLg~~fLrhieradvLv~V  243 (500)
T PRK12296        172 KSSLISALSAA----KPKIADYPFT----TLVPNLGVVQAGDTRFTVADVPGLIPGASEGKGLGLDFLRHIERCAVLVHV  243 (500)
T ss_pred             HHHHHHHHhcC----CccccccCcc----cccceEEEEEECCeEEEEEECCCCccccchhhHHHHHHHHHHHhcCEEEEE
Confidence            67777777653    3445555544    44445556777788999999999521       112234467889999999


Q ss_pred             EeCCCc----ccHHHHHHHHHHHHhCC----------CCCCCcEEEEEeCCCCCCCCCH-HHHHhHcCccccCCcceEEE
Q 029517           87 IDAACP----SRFEDSKTALEKVLRNE----------DLQGAPLLILANKQDLPDAVSA-DELARYLDLKKLDERVCMFE  151 (192)
Q Consensus        87 ~D~~~~----~s~~~~~~~~~~i~~~~----------~~~~~piiiv~nK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~~~  151 (192)
                      +|+++.    +.++.+..+...+..+.          ....+|+++|+||+|+++.... +.+.+.+.     ..+++++
T Consensus       244 VD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da~el~e~l~~~l~-----~~g~~Vf  318 (500)
T PRK12296        244 VDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDARELAEFVRPELE-----ARGWPVF  318 (500)
T ss_pred             ECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchhhHHHHHHHHHHHH-----HcCCeEE
Confidence            999753    34444444444443332          2347899999999999753222 22222222     3367899


Q ss_pred             EeeecCCCCHHHHHHHHHHHHHhcc
Q 029517          152 AVSGYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       152 ~~Sa~~~~gi~e~~~~i~~~i~~~~  176 (192)
                      ++||+++.|+++++++|.+.+...+
T Consensus       319 ~ISA~tgeGLdEL~~~L~ell~~~r  343 (500)
T PRK12296        319 EVSAASREGLRELSFALAELVEEAR  343 (500)
T ss_pred             EEECCCCCCHHHHHHHHHHHHHhhh
Confidence            9999999999999999999887654

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.76  E-value=1.9e-17  Score=115.95  Aligned_cols=142  Identities=27%  Similarity=0.388  Sum_probs=103.0

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEec----CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVS----NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~----~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|.+....         ...+.+|. .+.......    ...+.+||+||+..+...+..+++.+|++++|+|+
T Consensus         9 KStl~~~l~~~~~~---------~~~~~~t~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~   78 (157)
T cd00882           9 KTSLLNRLLGGEFV---------PEEYETTI-IDFYSKTIEVDGKKVKLQIWDTAGQERFRSLRRLYYRGADGIILVYDV   78 (157)
T ss_pred             HHHHHHHHHhCCcC---------Ccccccch-hheeeEEEEECCEEEEEEEEecCChHHHHhHHHHHhcCCCEEEEEEEC
Confidence            77777777655432         23344554 445544332    67899999999998888888889999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHH--HhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADEL--ARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~--~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+......|.............|+++++||+|+......+..  .....    .....+++++|++.+.|+++++++
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~~~~~~~~~~~~~~----~~~~~~~~~~s~~~~~~i~~~~~~  154 (157)
T cd00882          79 TDRESFENVKEWLLLILINKEGENIPIILVGNKIDLPEERVVSEEELAEQLA----KELGVPYFETSAKTGENVEELFEE  154 (157)
T ss_pred             cCHHHHHHHHHHHHHHHHhhccCCCcEEEEEeccccccccchHHHHHHHHHH----hhcCCcEEEEecCCCCChHHHHHH
Confidence            998888888777333333333367999999999999764333332  11111    144688999999999999999999


Q ss_pred             HH
Q 029517          168 LV  169 (192)
Q Consensus       168 i~  169 (192)
                      |.
T Consensus       155 l~  156 (157)
T cd00882         155 LA  156 (157)
T ss_pred             Hh
Confidence            86

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

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.76  E-value=1.6e-17  Score=135.23  Aligned_cols=148  Identities=22%  Similarity=0.324  Sum_probs=101.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEec-CEEEEEEeCCCCcc-------cHHHHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVS-NSKLVFWDLGGQPG-------LRSIWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~-~~~~~i~D~~G~~~-------~~~~~~~~~~~~d~ii~   85 (192)
                      |||++|+|.++    .+++++++.++..|+.|    .+... ...+.+||+||...       ....+..+++.|+++++
T Consensus       171 KSTLLn~Lt~a----k~kIa~ypfTTl~PnlG----~v~~~~~~~~~laD~PGliega~~~~gLg~~fLrhier~~llI~  242 (424)
T PRK12297        171 KSTLLSVVSNA----KPKIANYHFTTLVPNLG----VVETDDGRSFVMADIPGLIEGASEGVGLGHQFLRHIERTRVIVH  242 (424)
T ss_pred             HHHHHHHHHcC----CCccccCCcceeceEEE----EEEEeCCceEEEEECCCCcccccccchHHHHHHHHHhhCCEEEE
Confidence            66776666543    35566666555555544    45544 67899999999531       12233445677999999


Q ss_pred             EEeCCCc---ccHHHHHHHHHHHHhCCC-CCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCH
Q 029517           86 VIDAACP---SRFEDSKTALEKVLRNED-LQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGI  161 (192)
Q Consensus        86 v~D~~~~---~s~~~~~~~~~~i~~~~~-~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  161 (192)
                      |+|+++.   +.++....|...+..... ..++|+++|+||+|+...  .+.+.++.+     ..+.+++++||+++.|+
T Consensus       243 VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL~~~--~e~l~~l~~-----~l~~~i~~iSA~tgeGI  315 (424)
T PRK12297        243 VIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLPEA--EENLEEFKE-----KLGPKVFPISALTGQGL  315 (424)
T ss_pred             EEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCCcCC--HHHHHHHHH-----HhCCcEEEEeCCCCCCH
Confidence            9999864   566766667666665422 247899999999998532  233333333     12267999999999999


Q ss_pred             HHHHHHHHHHHHhcc
Q 029517          162 KESVEWLVEVMERSK  176 (192)
Q Consensus       162 ~e~~~~i~~~i~~~~  176 (192)
                      ++++++|.+.+.+..
T Consensus       316 ~eL~~~L~~~l~~~~  330 (424)
T PRK12297        316 DELLYAVAELLEETP  330 (424)
T ss_pred             HHHHHHHHHHHHhCc
Confidence            999999998887654

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.76  E-value=5.3e-17  Score=118.89  Aligned_cols=155  Identities=18%  Similarity=0.184  Sum_probs=104.4

Q ss_pred             ccccHHHHHHHHhhhhccCCCC--------CCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGL--------PPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~--------~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   85 (192)
                      |||++|+|++............        .......|.......+......+.+|||||+..+...+..+++.+|++++
T Consensus        12 KStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~d~~i~   91 (189)
T cd00881          12 KTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEWPDRRVNFIDTPGHEDFSSEVIRGLSVSDGAIL   91 (189)
T ss_pred             HHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEeeCCEEEEEEeCCCcHHHHHHHHHHHHhcCEEEE
Confidence            8999999987754421100000        00011233444444566667899999999999998889999999999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC----HHHHHhHcCcccc---------CCcceEEEE
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVS----ADELARYLDLKKL---------DERVCMFEA  152 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~----~~~~~~~~~~~~~---------~~~~~~~~~  152 (192)
                      |+|++.+.+... ..++.....    .+.|+++++||+|+.....    .+++.+.++....         .....++++
T Consensus        92 v~d~~~~~~~~~-~~~~~~~~~----~~~~i~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~  166 (189)
T cd00881          92 VVDANEGVQPQT-REHLRIARE----GGLPIIVAINKIDRVGEEDLEEVLREIKELLGLIGFISTKEEGTRNGLLVPIVP  166 (189)
T ss_pred             EEECCCCCcHHH-HHHHHHHHH----CCCCeEEEEECCCCcchhcHHHHHHHHHHHHccccccchhhhhcccCCcceEEE
Confidence            999987654432 233333332    4799999999999975222    2334444432111         124688999


Q ss_pred             eeecCCCCHHHHHHHHHHHHH
Q 029517          153 VSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus       153 ~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      +||++|.|++++++++.+.+.
T Consensus       167 ~Sa~~g~gi~~l~~~l~~~l~  187 (189)
T cd00881         167 GSALTGIGVEELLEAIVEHLP  187 (189)
T ss_pred             EecccCcCHHHHHHHHHhhCC
Confidence            999999999999999998763

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.

>PLN00023 GTP-binding protein; Provisional

Probab=99.76  E-value=9.9e-18  Score=130.95  Aligned_cols=114  Identities=18%  Similarity=0.336  Sum_probs=91.6

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEE--EEEe---------------cCEEEEEEeCCCCcccHHHHHHhhhcCCE
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIG--RIEV---------------SNSKLVFWDLGGQPGLRSIWEKYYEEAHA   82 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~--~~~~---------------~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   82 (192)
                      +|+.++..      +.+...+.||+|.++.  .+..               ..+.++||||+|+++|..++..|++++++
T Consensus        36 SLI~rf~~------g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGqErfrsL~~~yyr~Adg  109 (334)
T PLN00023         36 SLVHLIVK------GSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGHERYKDCRSLFYSQING  109 (334)
T ss_pred             HHHHHHhc------CCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCChhhhhhhHHhccCCCE
Confidence            44555554      5667788999998764  2322               34789999999999999999999999999


Q ss_pred             EEEEEeCCCcccHHHHHHHHHHHHhCCC-----------CCCCcEEEEEeCCCCCCC--------CCHHHHHhHcC
Q 029517           83 VVFVIDAACPSRFEDSKTALEKVLRNED-----------LQGAPLLILANKQDLPDA--------VSADELARYLD  139 (192)
Q Consensus        83 ii~v~D~~~~~s~~~~~~~~~~i~~~~~-----------~~~~piiiv~nK~Dl~~~--------~~~~~~~~~~~  139 (192)
                      +|+|||+++..+++.+..|+..+.....           ..++|+++|+||+||...        +..+++.++++
T Consensus       110 iILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~~~~~r~~s~~~~e~a~~~A~  185 (334)
T PLN00023        110 VIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAPKEGTRGSSGNLVDAARQWVE  185 (334)
T ss_pred             EEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECccccccccccccccccHHHHHHHHH
Confidence            9999999999999999999999987531           125899999999999652        24677888876

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.76  E-value=4.3e-17  Score=115.29  Aligned_cols=141  Identities=21%  Similarity=0.237  Sum_probs=103.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEecC--EEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEVSN--SKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~~~--~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++.          .+...+.++.+.++..  +..++  +.+.+||+||+..+...+..+.+.+++++.++|.
T Consensus        14 Kstl~~~l~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~~~d~   83 (161)
T TIGR00231        14 KSTLLNRLLGN----------KFITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYRAIRRLYYRAVESSLRVFDI   83 (161)
T ss_pred             HHHHHHHHhCC----------CCcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhhhEEEEEEEE
Confidence            67777777543          2445556677766654  44555  7899999999999999999899999999999999


Q ss_pred             CCc-ccHHHHH-HHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACP-SRFEDSK-TALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~-~s~~~~~-~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      ... .++.... .+...+..... .+.|+++++||.|+......+.....+.    .....+++++||++|.|+.+++++
T Consensus        84 ~~~v~~~~~~~~~~~~~~~~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~----~~~~~~~~~~sa~~~~gv~~~~~~  158 (161)
T TIGR00231        84 VILVLDVEEILEKQTKEIIHHAE-SNVPIILVGNKIDLRDAKLKTHVAFLFA----KLNGEPIIPLSAETGKNIDSAFKI  158 (161)
T ss_pred             eeeehhhhhHhHHHHHHHHHhcc-cCCcEEEEEEcccCCcchhhHHHHHHHh----hccCCceEEeecCCCCCHHHHHHH
Confidence            876 6666655 56666655443 2789999999999976433334444443    133457999999999999999998


Q ss_pred             HH
Q 029517          168 LV  169 (192)
Q Consensus       168 i~  169 (192)
                      |.
T Consensus       159 l~  160 (161)
T TIGR00231       159 VE  160 (161)
T ss_pred             hh
Confidence            63

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.

>TIGR00436 era GTP-binding protein Era

Probab=99.76  E-value=1.3e-17  Score=129.33  Aligned_cols=145  Identities=17%  Similarity=0.108  Sum_probs=93.2

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCccc--------HHHHHHhhhcCCEEE
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGL--------RSIWEKYYEEAHAVV   84 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~--------~~~~~~~~~~~d~ii   84 (192)
                      =|||++|+|+++....++..++++...       ........+.++.+|||||....        ......+++.+|+++
T Consensus        12 GKSTLln~L~~~~~~~vs~~~~TTr~~-------i~~i~~~~~~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~~aDvvl   84 (270)
T TIGR00436        12 GKSTLLNQLHGQKISITSPKAQTTRNR-------ISGIHTTGASQIIFIDTPGFHEKKHSLNRLMMKEARSAIGGVDLIL   84 (270)
T ss_pred             CHHHHHHHHhCCcEeecCCCCCcccCc-------EEEEEEcCCcEEEEEECcCCCCCcchHHHHHHHHHHHHHhhCCEEE
Confidence            389999999987544433333333221       11122334567999999996432        112345678999999


Q ss_pred             EEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC-HHHHHhHcCccccCCcceEEEEeeecCCCCHHH
Q 029517           85 FVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVS-ADELARYLDLKKLDERVCMFEAVSGYDGFGIKE  163 (192)
Q Consensus        85 ~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e  163 (192)
                      +|+|+++..+.+  ..++..+ ..   .+.|+++|+||+|+..... .+.+..+...    ....+++++||++|.|+++
T Consensus        85 ~VvD~~~~~~~~--~~i~~~l-~~---~~~p~ilV~NK~Dl~~~~~~~~~~~~~~~~----~~~~~v~~iSA~~g~gi~~  154 (270)
T TIGR00436        85 FVVDSDQWNGDG--EFVLTKL-QN---LKRPVVLTRNKLDNKFKDKLLPLIDKYAIL----EDFKDIVPISALTGDNTSF  154 (270)
T ss_pred             EEEECCCCCchH--HHHHHHH-Hh---cCCCEEEEEECeeCCCHHHHHHHHHHHHhh----cCCCceEEEecCCCCCHHH
Confidence            999999876664  2333333 22   3689999999999864211 1222233221    1122789999999999999


Q ss_pred             HHHHHHHHHHh
Q 029517          164 SVEWLVEVMER  174 (192)
Q Consensus       164 ~~~~i~~~i~~  174 (192)
                      ++++|.+.+..
T Consensus       155 L~~~l~~~l~~  165 (270)
T TIGR00436       155 LAAFIEVHLPE  165 (270)
T ss_pred             HHHHHHHhCCC
Confidence            99999887654

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

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.75  E-value=3.1e-17  Score=136.43  Aligned_cols=146  Identities=25%  Similarity=0.247  Sum_probs=93.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCC----------cccHHHH-HHhhhcCCE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQ----------PGLRSIW-EKYYEEAHA   82 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~----------~~~~~~~-~~~~~~~d~   82 (192)
                      |||++|+|++.-....+..++.+.+       .....+...+..+.+|||||.          +.|.... ..+++.+|+
T Consensus       224 KSSLin~l~~~~~~~~s~~~gtT~d-------~~~~~~~~~~~~~~l~DTaG~~~~~~~~~~~e~~~~~~~~~~i~~ad~  296 (472)
T PRK03003        224 KSSLLNKLAGEERSVVDDVAGTTVD-------PVDSLIELGGKTWRFVDTAGLRRRVKQASGHEYYASLRTHAAIEAAEV  296 (472)
T ss_pred             HHHHHHHHhCCCcccccCCCCccCC-------cceEEEEECCEEEEEEECCCccccccccchHHHHHHHHHHHHHhcCCE
Confidence            6777777765432222222222211       112334556677899999995          2333322 346789999


Q ss_pred             EEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHH----HHHhHcCccccCCcceEEEEeeecCC
Q 029517           83 VVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSAD----ELARYLDLKKLDERVCMFEAVSGYDG  158 (192)
Q Consensus        83 ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~----~~~~~~~~~~~~~~~~~~~~~Sa~~~  158 (192)
                      +++|+|+++..+++.+. ++..+..    .++|+++|+||+|+.+.....    ++.+.+.    .....+++++||++|
T Consensus       297 vilV~Da~~~~s~~~~~-~~~~~~~----~~~piIiV~NK~Dl~~~~~~~~~~~~i~~~l~----~~~~~~~~~~SAk~g  367 (472)
T PRK03003        297 AVVLIDASEPISEQDQR-VLSMVIE----AGRALVLAFNKWDLVDEDRRYYLEREIDRELA----QVPWAPRVNISAKTG  367 (472)
T ss_pred             EEEEEeCCCCCCHHHHH-HHHHHHH----cCCCEEEEEECcccCChhHHHHHHHHHHHhcc----cCCCCCEEEEECCCC
Confidence            99999999988877653 3343332    368999999999997532211    2222222    123467899999999


Q ss_pred             CCHHHHHHHHHHHHHhc
Q 029517          159 FGIKESVEWLVEVMERS  175 (192)
Q Consensus       159 ~gi~e~~~~i~~~i~~~  175 (192)
                      .||+++|+.+.+.+...
T Consensus       368 ~gv~~lf~~i~~~~~~~  384 (472)
T PRK03003        368 RAVDKLVPALETALESW  384 (472)
T ss_pred             CCHHHHHHHHHHHHHHh
Confidence            99999999999877644

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.75  E-value=3.9e-18  Score=119.81  Aligned_cols=122  Identities=17%  Similarity=0.101  Sum_probs=84.1

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCc-----ccHHHHHHhhhcCCEEEEEEe
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQP-----GLRSIWEKYYEEAHAVVFVID   88 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~-----~~~~~~~~~~~~~d~ii~v~D   88 (192)
                      |||++|+|.+.          .+  .+.+|++.++..        .+|||||+.     .+..... .++++|++++|+|
T Consensus        13 KSsL~~~l~~~----------~~--~~~~t~~~~~~~--------~~iDt~G~~~~~~~~~~~~~~-~~~~ad~vilv~d   71 (142)
T TIGR02528        13 KTTLTQALQGE----------EI--LYKKTQAVEYND--------GAIDTPGEYVENRRLYSALIV-TAADADVIALVQS   71 (142)
T ss_pred             HHHHHHHHcCC----------cc--ccccceeEEEcC--------eeecCchhhhhhHHHHHHHHH-HhhcCCEEEEEec
Confidence            77777777533          11  245676655422        689999973     2333333 5789999999999


Q ss_pred             CCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC-CCCHHHHHhHcCccccCCcc-eEEEEeeecCCCCHHHHHH
Q 029517           89 AACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD-AVSADELARYLDLKKLDERV-CMFEAVSGYDGFGIKESVE  166 (192)
Q Consensus        89 ~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~gi~e~~~  166 (192)
                      ++++.++.. ..|...       ...|+++++||+|+.+ ....++..++++     ..+ .+++++||++|.|++++|+
T Consensus        72 ~~~~~s~~~-~~~~~~-------~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~gi~~l~~  138 (142)
T TIGR02528        72 ATDPESRFP-PGFASI-------FVKPVIGLVTKIDLAEADVDIERAKELLE-----TAGAEPIFEISSVDEQGLEALVD  138 (142)
T ss_pred             CCCCCcCCC-hhHHHh-------ccCCeEEEEEeeccCCcccCHHHHHHHHH-----HcCCCcEEEEecCCCCCHHHHHH
Confidence            999988754 233321       1249999999999965 334455555554     223 3789999999999999999


Q ss_pred             HHH
Q 029517          167 WLV  169 (192)
Q Consensus       167 ~i~  169 (192)
                      ++.
T Consensus       139 ~l~  141 (142)
T TIGR02528       139 YLN  141 (142)
T ss_pred             HHh
Confidence            874

This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site.

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.75  E-value=2.5e-17  Score=131.76  Aligned_cols=139  Identities=22%  Similarity=0.255  Sum_probs=93.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEe-cCEEEEEEeCCCC---------cccHHHHHHhhhcCCEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEV-SNSKLVFWDLGGQ---------PGLRSIWEKYYEEAHAV   83 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~-~~~~~~i~D~~G~---------~~~~~~~~~~~~~~d~i   83 (192)
                      |||++|+|+++-.    .    ..+.+.+|.+.....+.. ++..+.+|||+|.         +.|...+ ..++++|++
T Consensus       202 KSSLln~L~~~~~----~----v~~~~~tT~d~~~~~i~~~~~~~i~l~DT~G~~~~l~~~lie~f~~tl-e~~~~ADli  272 (351)
T TIGR03156       202 KSTLFNALTGADV----Y----AADQLFATLDPTTRRLDLPDGGEVLLTDTVGFIRDLPHELVAAFRATL-EEVREADLL  272 (351)
T ss_pred             HHHHHHHHhCCce----e----eccCCccccCCEEEEEEeCCCceEEEEecCcccccCCHHHHHHHHHHH-HHHHhCCEE
Confidence            7888888776421    1    112334555555555555 4578999999997         2233333 357899999


Q ss_pred             EEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHH
Q 029517           84 VFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKE  163 (192)
Q Consensus        84 i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e  163 (192)
                      ++|+|++++.+.+....|...+.... ..++|+++|+||+|+...   +++.....      ...+++++||++|.|+++
T Consensus       273 l~VvD~s~~~~~~~~~~~~~~L~~l~-~~~~piIlV~NK~Dl~~~---~~v~~~~~------~~~~~i~iSAktg~GI~e  342 (351)
T TIGR03156       273 LHVVDASDPDREEQIEAVEKVLEELG-AEDIPQLLVYNKIDLLDE---PRIERLEE------GYPEAVFVSAKTGEGLDL  342 (351)
T ss_pred             EEEEECCCCchHHHHHHHHHHHHHhc-cCCCCEEEEEEeecCCCh---HhHHHHHh------CCCCEEEEEccCCCCHHH
Confidence            99999999887777655544443332 247899999999998642   22222211      124589999999999999


Q ss_pred             HHHHHHHH
Q 029517          164 SVEWLVEV  171 (192)
Q Consensus       164 ~~~~i~~~  171 (192)
                      ++++|.+.
T Consensus       343 L~~~I~~~  350 (351)
T TIGR03156       343 LLEAIAER  350 (351)
T ss_pred             HHHHHHhh
Confidence            99998764

This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).

>PRK15494 era GTPase Era; Provisional

Probab=99.75  E-value=2.1e-17  Score=131.86  Aligned_cols=145  Identities=17%  Similarity=0.250  Sum_probs=94.5

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcc-cHHH-------HHHhhhcCCEEE
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPG-LRSI-------WEKYYEEAHAVV   84 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~-~~~~-------~~~~~~~~d~ii   84 (192)
                      =|||++|+|++.....+       ...+.+|.+.....+..++.++.+|||||... +...       ....++.+|+++
T Consensus        64 GKSTLin~l~~~k~~iv-------s~k~~tTr~~~~~~~~~~~~qi~~~DTpG~~~~~~~l~~~~~r~~~~~l~~aDvil  136 (339)
T PRK15494         64 GKSTLLNRIIGEKLSIV-------TPKVQTTRSIITGIITLKDTQVILYDTPGIFEPKGSLEKAMVRCAWSSLHSADLVL  136 (339)
T ss_pred             CHHHHHHHHhCCceeec-------cCCCCCccCcEEEEEEeCCeEEEEEECCCcCCCcccHHHHHHHHHHHHhhhCCEEE
Confidence            37888888876543221       12334444444455666778899999999742 2111       123467999999


Q ss_pred             EEEeCCCcccHHHHHH-HHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHH
Q 029517           85 FVIDAACPSRFEDSKT-ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKE  163 (192)
Q Consensus        85 ~v~D~~~~~s~~~~~~-~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e  163 (192)
                      +|+|.++.  +..... ++..+...    +.|.++|+||+|+... ...++.+.+...   .....++++||++|.|+++
T Consensus       137 ~VvD~~~s--~~~~~~~il~~l~~~----~~p~IlViNKiDl~~~-~~~~~~~~l~~~---~~~~~i~~iSAktg~gv~e  206 (339)
T PRK15494        137 LIIDSLKS--FDDITHNILDKLRSL----NIVPIFLLNKIDIESK-YLNDIKAFLTEN---HPDSLLFPISALSGKNIDG  206 (339)
T ss_pred             EEEECCCC--CCHHHHHHHHHHHhc----CCCEEEEEEhhcCccc-cHHHHHHHHHhc---CCCcEEEEEeccCccCHHH
Confidence            99997653  444433 33333322    4677889999998754 345555555410   1235799999999999999


Q ss_pred             HHHHHHHHHHh
Q 029517          164 SVEWLVEVMER  174 (192)
Q Consensus       164 ~~~~i~~~i~~  174 (192)
                      ++++|.+.+..
T Consensus       207 L~~~L~~~l~~  217 (339)
T PRK15494        207 LLEYITSKAKI  217 (339)
T ss_pred             HHHHHHHhCCC
Confidence            99999987654

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

Probab=99.75  E-value=5.6e-17  Score=119.97  Aligned_cols=146  Identities=19%  Similarity=0.231  Sum_probs=93.4

Q ss_pred             ccccHHHHHHHHhhhhccC--CCCC--CCCCCCCcceE----EEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNV--EGLP--PDRIVPTVGLN----IGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~--~~~~--~~~~~~T~g~~----~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   85 (192)
                      |||++++|++.........  .+..  .....++.|..    ...+..+.+++.+|||||+++|...+..+++++|++++
T Consensus        15 KTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~d~~il   94 (194)
T cd01891          15 KTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTYKDTKINIVDTPGHADFGGEVERVLSMVDGVLL   94 (194)
T ss_pred             HHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEECCEEEEEEECCCcHHHHHHHHHHHHhcCEEEE
Confidence            8899999887422111110  0000  01112333433    33466778999999999999999999999999999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC---HHHHHhHcC-cc-ccCCcceEEEEeeecCCCC
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVS---ADELARYLD-LK-KLDERVCMFEAVSGYDGFG  160 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~---~~~~~~~~~-~~-~~~~~~~~~~~~Sa~~~~g  160 (192)
                      |+|+++.. ......++..+..    .++|+++++||+|+.....   .+++.+.+. +. .....+++++++||++|.|
T Consensus        95 V~d~~~~~-~~~~~~~~~~~~~----~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~~Sa~~g~~  169 (194)
T cd01891          95 LVDASEGP-MPQTRFVLKKALE----LGLKPIVVINKIDRPDARPEEVVDEVFDLFIELGATEEQLDFPVLYASAKNGWA  169 (194)
T ss_pred             EEECCCCc-cHHHHHHHHHHHH----cCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHhCCccccCccCEEEeehhcccc
Confidence            99998742 3333344444332    3689999999999975322   233334331 00 0113467899999999988


Q ss_pred             HHHH
Q 029517          161 IKES  164 (192)
Q Consensus       161 i~e~  164 (192)
                      +.+.
T Consensus       170 ~~~~  173 (194)
T cd01891         170 SLNL  173 (194)
T ss_pred             cccc
Confidence            8555

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

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.74  E-value=3.3e-17  Score=136.25  Aligned_cols=143  Identities=24%  Similarity=0.242  Sum_probs=93.4

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcc--------cHHHHHHhhhcCCEEE
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPG--------LRSIWEKYYEEAHAVV   84 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~~~~~d~ii   84 (192)
                      =|||++|+|++.........+       ..|.......+...+..+.+|||||.+.        +...+..+++.||++|
T Consensus        50 GKSSL~nrl~~~~~~~v~~~~-------gvT~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~aD~il  122 (472)
T PRK03003         50 GKSTLVNRILGRREAVVEDVP-------GVTRDRVSYDAEWNGRRFTVVDTGGWEPDAKGLQASVAEQAEVAMRTADAVL  122 (472)
T ss_pred             CHHHHHHHHhCcCcccccCCC-------CCCEeeEEEEEEECCcEEEEEeCCCcCCcchhHHHHHHHHHHHHHHhCCEEE
Confidence            388999988865332222211       1222233444555677899999999762        3444566889999999


Q ss_pred             EEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHH
Q 029517           85 FVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKES  164 (192)
Q Consensus        85 ~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~  164 (192)
                      +|+|+++..++.. ..+... .+.   .++|+++|+||+|+.... .+ ..+...+    ..+ ..+++||++|.|++++
T Consensus       123 ~VvD~~~~~s~~~-~~i~~~-l~~---~~~piilV~NK~Dl~~~~-~~-~~~~~~~----g~~-~~~~iSA~~g~gi~eL  190 (472)
T PRK03003        123 FVVDATVGATATD-EAVARV-LRR---SGKPVILAANKVDDERGE-AD-AAALWSL----GLG-EPHPVSALHGRGVGDL  190 (472)
T ss_pred             EEEECCCCCCHHH-HHHHHH-HHH---cCCCEEEEEECccCCccc-hh-hHHHHhc----CCC-CeEEEEcCCCCCcHHH
Confidence            9999998766543 223222 222   479999999999986532 11 2222221    112 2468999999999999


Q ss_pred             HHHHHHHHHh
Q 029517          165 VEWLVEVMER  174 (192)
Q Consensus       165 ~~~i~~~i~~  174 (192)
                      |++|.+.+.+
T Consensus       191 ~~~i~~~l~~  200 (472)
T PRK03003        191 LDAVLAALPE  200 (472)
T ss_pred             HHHHHhhccc
Confidence            9999988755

>cd01889 SelB_euk SelB subfamily

Probab=99.74  E-value=4e-17  Score=120.53  Aligned_cols=154  Identities=17%  Similarity=0.107  Sum_probs=94.6

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEec--------------CEEEEEEeCCCCcccHHHHHHhhhc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVS--------------NSKLVFWDLGGQPGLRSIWEKYYEE   79 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~--------------~~~~~i~D~~G~~~~~~~~~~~~~~   79 (192)
                      |||++++|+++.....-+. ........+|++..+..+...              ...+.+|||||+..+........+.
T Consensus        13 KstLi~~l~~~~~~~~~~~-~~~e~~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~~~~~~~~~~~~   91 (192)
T cd01889          13 KTSLAKALSEIASTAAFDK-NPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGHASLIRTIIGGAQI   91 (192)
T ss_pred             HHHHHHHHHhccchhhhcc-CHHHHHcCCeeeecceEEEecccccccccccccccCceEEEEECCCcHHHHHHHHHHHhh
Confidence            7888888886411100000 000011234556555444332              6799999999997655444445667


Q ss_pred             CCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC----HHHHHhHcC--ccccCCcceEEEEe
Q 029517           80 AHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVS----ADELARYLD--LKKLDERVCMFEAV  153 (192)
Q Consensus        80 ~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~----~~~~~~~~~--~~~~~~~~~~~~~~  153 (192)
                      +|++++|+|+++.........+.  +...   .+.|+++++||+|+.....    .+++.+.+.  +......+++++++
T Consensus        92 ~d~vi~VvD~~~~~~~~~~~~~~--~~~~---~~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~vi~i  166 (192)
T cd01889          92 IDLMLLVVDATKGIQTQTAECLV--IGEI---LCKKLIVVLNKIDLIPEEERERKIEKMKKKLQKTLEKTRFKNSPIIPV  166 (192)
T ss_pred             CCEEEEEEECCCCccHHHHHHHH--HHHH---cCCCEEEEEECcccCCHHHHHHHHHHHHHHHHHHHHhcCcCCCCEEEE
Confidence            89999999998765444332222  2222   3579999999999874222    222322221  00011346789999


Q ss_pred             eecCCCCHHHHHHHHHHHHH
Q 029517          154 SGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus       154 Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      ||++|.|+++++++|.+++.
T Consensus       167 Sa~~g~gi~~L~~~l~~~~~  186 (192)
T cd01889         167 SAKPGGGEAELGKDLNNLIV  186 (192)
T ss_pred             eccCCCCHHHHHHHHHhccc
Confidence            99999999999999988765

SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and euk

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.74  E-value=8.4e-17  Score=136.51  Aligned_cols=149  Identities=18%  Similarity=0.200  Sum_probs=102.5

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCC------CCcceEEE----EEE-----ecCEEEEEEeCCCCcccHHHHHHhhh
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIV------PTVGLNIG----RIE-----VSNSKLVFWDLGGQPGLRSIWEKYYE   78 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~------~T~g~~~~----~~~-----~~~~~~~i~D~~G~~~~~~~~~~~~~   78 (192)
                      |||++++|++..-.+...   .+...+.      .+.|+.+.    .+.     +..+.+++|||||+.+|...+..+++
T Consensus        16 KTTL~~rLl~~~g~i~~~---~~~~~~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~dF~~~v~~~l~   92 (595)
T TIGR01393        16 KSTLADRLLEYTGAISER---EMREQVLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVDFSYEVSRSLA   92 (595)
T ss_pred             HHHHHHHHHHHcCCCccc---cccccccCCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcHHHHHHHHHHHH
Confidence            899999998754322111   1122222      22244333    232     23488999999999999999999999


Q ss_pred             cCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCH---HHHHhHcCccccCCcceEEEEeee
Q 029517           79 EAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSA---DELARYLDLKKLDERVCMFEAVSG  155 (192)
Q Consensus        79 ~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~---~~~~~~~~~~~~~~~~~~~~~~Sa  155 (192)
                      .||++|+|+|+++..+.+....|.....     .+.|+++|+||+|+......   +++.+.+.     .....++++||
T Consensus        93 ~aD~aILVvDat~g~~~qt~~~~~~~~~-----~~ipiIiViNKiDl~~~~~~~~~~el~~~lg-----~~~~~vi~vSA  162 (595)
T TIGR01393        93 ACEGALLLVDAAQGIEAQTLANVYLALE-----NDLEIIPVINKIDLPSADPERVKKEIEEVIG-----LDASEAILASA  162 (595)
T ss_pred             hCCEEEEEecCCCCCCHhHHHHHHHHHH-----cCCCEEEEEECcCCCccCHHHHHHHHHHHhC-----CCcceEEEeec
Confidence            9999999999998777776666544331     36899999999999753222   22333322     11235899999


Q ss_pred             cCCCCHHHHHHHHHHHHHhc
Q 029517          156 YDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       156 ~~~~gi~e~~~~i~~~i~~~  175 (192)
                      ++|.||++++++|.+.+...
T Consensus       163 ktG~GI~~Lle~I~~~lp~p  182 (595)
T TIGR01393       163 KTGIGIEEILEAIVKRVPPP  182 (595)
T ss_pred             cCCCCHHHHHHHHHHhCCCC
Confidence            99999999999999877543

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.

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.73  E-value=4.5e-17  Score=134.38  Aligned_cols=136  Identities=24%  Similarity=0.278  Sum_probs=94.8

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHH--------HHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSI--------WEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~~~~~~~d~ii~   85 (192)
                      |||++|+|++.-....++.+       ..|.......+...+..+.+|||||...+...        ...+++.+|++++
T Consensus       228 KSSLln~L~~~~~a~v~~~~-------gtT~d~~~~~i~~~g~~i~l~DT~G~~~~~~~ie~~gi~~~~~~~~~aD~il~  300 (449)
T PRK05291        228 KSSLLNALLGEERAIVTDIA-------GTTRDVIEEHINLDGIPLRLIDTAGIRETDDEVEKIGIERSREAIEEADLVLL  300 (449)
T ss_pred             HHHHHHHHhCCCCcccCCCC-------CcccccEEEEEEECCeEEEEEeCCCCCCCccHHHHHHHHHHHHHHHhCCEEEE
Confidence            67888887764322222222       22333334456667788999999998654322        2346889999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHH
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      |+|++++.+++....|..       ..+.|+++|+||+|+.......      .     ..+.+++++||++|.|+++++
T Consensus       301 VvD~s~~~s~~~~~~l~~-------~~~~piiiV~NK~DL~~~~~~~------~-----~~~~~~i~iSAktg~GI~~L~  362 (449)
T PRK05291        301 VLDASEPLTEEDDEILEE-------LKDKPVIVVLNKADLTGEIDLE------E-----ENGKPVIRISAKTGEGIDELR  362 (449)
T ss_pred             EecCCCCCChhHHHHHHh-------cCCCCcEEEEEhhhccccchhh------h-----ccCCceEEEEeeCCCCHHHHH
Confidence            999998887775444432       2578999999999997532211      1     224678999999999999999


Q ss_pred             HHHHHHHHh
Q 029517          166 EWLVEVMER  174 (192)
Q Consensus       166 ~~i~~~i~~  174 (192)
                      ++|.+.+..
T Consensus       363 ~~L~~~l~~  371 (449)
T PRK05291        363 EAIKELAFG  371 (449)
T ss_pred             HHHHHHHhh
Confidence            999987754

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.73  E-value=4.1e-17  Score=134.35  Aligned_cols=149  Identities=24%  Similarity=0.232  Sum_probs=93.6

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHH-----------HHHHhhhcCCE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRS-----------IWEKYYEEAHA   82 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~-----------~~~~~~~~~d~   82 (192)
                      |||++|+|++.-.......++       .|.......+...+..+.+|||||..++..           ....+++.+|+
T Consensus       185 KSsLin~l~~~~~~~~~~~~g-------tt~~~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~  257 (429)
T TIGR03594       185 KSTLVNALLGEERVIVSDIAG-------TTRDSIDIPFERNGKKYLLIDTAGIRRKGKVTEGVEKYSVLRTLKAIERADV  257 (429)
T ss_pred             HHHHHHHHHCCCeeecCCCCC-------ceECcEeEEEEECCcEEEEEECCCccccccchhhHHHHHHHHHHHHHHhCCE
Confidence            677777777543222222222       222222334555667899999999644321           12346889999


Q ss_pred             EEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCC-CCCCHHHHHhHcCccccCCcceEEEEeeecCCCCH
Q 029517           83 VVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLP-DAVSADELARYLDLKKLDERVCMFEAVSGYDGFGI  161 (192)
Q Consensus        83 ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  161 (192)
                      +++|+|++++.+..... ++..+..    .+.|+++|+||+|+. +....+++.+.+..........+++++||++|.|+
T Consensus       258 ~ilV~D~~~~~~~~~~~-~~~~~~~----~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~vi~~SA~~g~~v  332 (429)
T TIGR03594       258 VLLVLDATEGITEQDLR-IAGLILE----AGKALVIVVNKWDLVKDEKTREEFKKELRRKLPFLDFAPIVFISALTGQGV  332 (429)
T ss_pred             EEEEEECCCCccHHHHH-HHHHHHH----cCCcEEEEEECcccCCCHHHHHHHHHHHHHhcccCCCCceEEEeCCCCCCH
Confidence            99999999877665542 2232222    368999999999997 22222333333221101123578999999999999


Q ss_pred             HHHHHHHHHHHHh
Q 029517          162 KESVEWLVEVMER  174 (192)
Q Consensus       162 ~e~~~~i~~~i~~  174 (192)
                      +++|+++.+....
T Consensus       333 ~~l~~~i~~~~~~  345 (429)
T TIGR03594       333 DKLLDAIDEVYEN  345 (429)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999887654

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.

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.73  E-value=7.2e-17  Score=132.61  Aligned_cols=139  Identities=20%  Similarity=0.278  Sum_probs=94.1

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHH--------HHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSI--------WEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~~~~~~~d~ii~   85 (192)
                      |||++|+|++.-...++..+       ..|.......+..++..+.+|||||...+...        ...+++++|++++
T Consensus       216 KSSLiN~L~~~~~aivs~~p-------gtTrd~~~~~i~~~g~~v~l~DTaG~~~~~~~ie~~gi~~~~~~~~~aD~il~  288 (442)
T TIGR00450       216 KSSLLNALLKQDRAIVSDIK-------GTTRDVVEGDFELNGILIKLLDTAGIREHADFVERLGIEKSFKAIKQADLVIY  288 (442)
T ss_pred             HHHHHHHHhCCCCcccCCCC-------CcEEEEEEEEEEECCEEEEEeeCCCcccchhHHHHHHHHHHHHHHhhCCEEEE
Confidence            67777777764322222211       11222333456667888999999998654332        2357889999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHH
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      |+|++++.+++..  |+..+..    .+.|+++|+||+|+... +.+   .+.+     ..+.+++++||++ .||+++|
T Consensus       289 V~D~s~~~s~~~~--~l~~~~~----~~~piIlV~NK~Dl~~~-~~~---~~~~-----~~~~~~~~vSak~-~gI~~~~  352 (442)
T TIGR00450       289 VLDASQPLTKDDF--LIIDLNK----SKKPFILVLNKIDLKIN-SLE---FFVS-----SKVLNSSNLSAKQ-LKIKALV  352 (442)
T ss_pred             EEECCCCCChhHH--HHHHHhh----CCCCEEEEEECccCCCc-chh---hhhh-----hcCCceEEEEEec-CCHHHHH
Confidence            9999988877764  6555432    36899999999999654 222   2222     2345788999998 6999999


Q ss_pred             HHHHHHHHhc
Q 029517          166 EWLVEVMERS  175 (192)
Q Consensus       166 ~~i~~~i~~~  175 (192)
                      +.+.+.+.+.
T Consensus       353 ~~L~~~i~~~  362 (442)
T TIGR00450       353 DLLTQKINAF  362 (442)
T ss_pred             HHHHHHHHHH
Confidence            9999887654

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.

>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=99.72  E-value=2.1e-17  Score=117.07  Aligned_cols=133  Identities=24%  Similarity=0.305  Sum_probs=92.3

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCccc------HHHHHHhh--hcCCEEE
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGL------RSIWEKYY--EEAHAVV   84 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~------~~~~~~~~--~~~d~ii   84 (192)
                      =|||+||+|.++... .++++       ..|.....+.+...+..+.++|+||....      ......++  .+.|+++
T Consensus        12 GKStLfN~Ltg~~~~-v~n~p-------G~Tv~~~~g~~~~~~~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~~D~ii   83 (156)
T PF02421_consen   12 GKSTLFNALTGAKQK-VGNWP-------GTTVEKKEGIFKLGDQQVELVDLPGIYSLSSKSEEERVARDYLLSEKPDLII   83 (156)
T ss_dssp             SHHHHHHHHHTTSEE-EEEST-------TSSSEEEEEEEEETTEEEEEEE----SSSSSSSHHHHHHHHHHHHTSSSEEE
T ss_pred             CHHHHHHHHHCCCce-ecCCC-------CCCeeeeeEEEEecCceEEEEECCCcccCCCCCcHHHHHHHHHhhcCCCEEE
Confidence            489999999887633 34443       34455556678878899999999994321      22334444  5799999


Q ss_pred             EEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC----CCCHHHHHhHcCccccCCcceEEEEeeecCCCC
Q 029517           85 FVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD----AVSADELARYLDLKKLDERVCMFEAVSGYDGFG  160 (192)
Q Consensus        85 ~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~----~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g  160 (192)
                      +|+|+++   +++-.....++.+.    ++|+++++||+|+..    .++.+.+.+.+        +++++++||+++.|
T Consensus        84 ~VvDa~~---l~r~l~l~~ql~e~----g~P~vvvlN~~D~a~~~g~~id~~~Ls~~L--------g~pvi~~sa~~~~g  148 (156)
T PF02421_consen   84 VVVDATN---LERNLYLTLQLLEL----GIPVVVVLNKMDEAERKGIEIDAEKLSERL--------GVPVIPVSARTGEG  148 (156)
T ss_dssp             EEEEGGG---HHHHHHHHHHHHHT----TSSEEEEEETHHHHHHTTEEE-HHHHHHHH--------TS-EEEEBTTTTBT
T ss_pred             EECCCCC---HHHHHHHHHHHHHc----CCCEEEEEeCHHHHHHcCCEECHHHHHHHh--------CCCEEEEEeCCCcC
Confidence            9999986   45544555566554    699999999999865    34455666555        47999999999999


Q ss_pred             HHHHHHHH
Q 029517          161 IKESVEWL  168 (192)
Q Consensus       161 i~e~~~~i  168 (192)
                      +++++++|
T Consensus       149 ~~~L~~~I  156 (156)
T PF02421_consen  149 IDELKDAI  156 (156)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHhhC
Confidence            99999875

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 ....

>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2)

Probab=99.71  E-value=9.8e-17  Score=119.53  Aligned_cols=114  Identities=16%  Similarity=0.162  Sum_probs=78.5

Q ss_pred             EEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCH----
Q 029517           56 SKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSA----  131 (192)
Q Consensus        56 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~----  131 (192)
                      .++.||||||++++...+...+..+|++++|+|++++..-......+..+...   ...|+++++||+|+......    
T Consensus        83 ~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~~~~---~~~~iiivvNK~Dl~~~~~~~~~~  159 (203)
T cd01888          83 RHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAALEIM---GLKHIIIVQNKIDLVKEEQALENY  159 (203)
T ss_pred             cEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHHHHc---CCCcEEEEEEchhccCHHHHHHHH
Confidence            68999999999998888888888999999999998642111111222222222   23579999999999752211    


Q ss_pred             HHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          132 DELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      +++.+.++.  ......+++++||++|.|+++++++|.+.+..
T Consensus       160 ~~i~~~~~~--~~~~~~~i~~vSA~~g~gi~~L~~~l~~~l~~  200 (203)
T cd01888         160 EQIKKFVKG--TIAENAPIIPISAQLKYNIDVLLEYIVKKIPT  200 (203)
T ss_pred             HHHHHHHhc--cccCCCcEEEEeCCCCCCHHHHHHHHHHhCCC
Confidence            233333321  11235789999999999999999999876543

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

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.71  E-value=3.7e-16  Score=111.14  Aligned_cols=152  Identities=19%  Similarity=0.301  Sum_probs=116.5

Q ss_pred             hccccHHHHHHHHhhhhccCC--CCCCCCCCCCcceEEEEEEecC-EEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           13 FTKTEFHTLLEKLKSVYSNVE--GLPPDRIVPTVGLNIGRIEVSN-SKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~--~~~~~~~~~T~g~~~~~~~~~~-~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      -|+|+++++.....-.+.-.+  .........|+.++++.....+ ..+.++|||||++|..+|.-+++++.++|+++|.
T Consensus        22 gKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~~~~~~~~~v~LfgtPGq~RF~fm~~~l~~ga~gaivlVDs  101 (187)
T COG2229          22 GKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIELDEDTGVHLFGTPGQERFKFMWEILSRGAVGAIVLVDS  101 (187)
T ss_pred             chhhHHHHhhccccceeeccccccccccccceeEeecccceEEcCcceEEEecCCCcHHHHHHHHHHhCCcceEEEEEec
Confidence            367777777665531111100  1111133578899999887765 8999999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLV  169 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~  169 (192)
                      +.+..+ .....+..+...   ..+|+++.+||.|+..+.+.+.+.+.+++..   ...+.++++|..+.|..+.++.+.
T Consensus       102 s~~~~~-~a~~ii~f~~~~---~~ip~vVa~NK~DL~~a~ppe~i~e~l~~~~---~~~~vi~~~a~e~~~~~~~L~~ll  174 (187)
T COG2229         102 SRPITF-HAEEIIDFLTSR---NPIPVVVAINKQDLFDALPPEKIREALKLEL---LSVPVIEIDATEGEGARDQLDVLL  174 (187)
T ss_pred             CCCcch-HHHHHHHHHhhc---cCCCEEEEeeccccCCCCCHHHHHHHHHhcc---CCCceeeeecccchhHHHHHHHHH
Confidence            999888 444444444333   2399999999999999999999999998422   478999999999999999998887


Q ss_pred             HH
Q 029517          170 EV  171 (192)
Q Consensus       170 ~~  171 (192)
                      ..
T Consensus       175 ~~  176 (187)
T COG2229         175 LK  176 (187)
T ss_pred             hh
Confidence            65

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

Probab=99.71  E-value=4.7e-16  Score=110.41  Aligned_cols=135  Identities=23%  Similarity=0.183  Sum_probs=91.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHH--------HHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRS--------IWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~--------~~~~~~~~~d~ii~   85 (192)
                      |||++|+|.+.-.....       .....|.......+.....++.+|||||...+..        ....++..+|++++
T Consensus        14 Kstli~~l~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~v~   86 (157)
T cd04164          14 KSSLLNALAGRDRAIVS-------DIAGTTRDVIEESIDIGGIPVRLIDTAGIRETEDEIEKIGIERAREAIEEADLVLF   86 (157)
T ss_pred             HHHHHHHHHCCceEecc-------CCCCCccceEEEEEEeCCEEEEEEECCCcCCCcchHHHHHHHHHHHHHhhCCEEEE
Confidence            78888877654221111       1112233333344555677899999999765422        12346779999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHH
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      |+|++++.+......+..       ..+.|+++++||+|+......     ..     .....+++++||+++.|+++++
T Consensus        87 v~d~~~~~~~~~~~~~~~-------~~~~~vi~v~nK~D~~~~~~~-----~~-----~~~~~~~~~~Sa~~~~~v~~l~  149 (157)
T cd04164          87 VIDASRGLDEEDLEILEL-------PADKPIIVVLNKSDLLPDSEL-----LS-----LLAGKPIIAISAKTGEGLDELK  149 (157)
T ss_pred             EEECCCCCCHHHHHHHHh-------hcCCCEEEEEEchhcCCcccc-----cc-----ccCCCceEEEECCCCCCHHHHH
Confidence            999998777766544322       257999999999998753322     11     2346789999999999999999


Q ss_pred             HHHHHHH
Q 029517          166 EWLVEVM  172 (192)
Q Consensus       166 ~~i~~~i  172 (192)
                      ++|.+.+
T Consensus       150 ~~l~~~~  156 (157)
T cd04164         150 EALLELA  156 (157)
T ss_pred             HHHHHhh
Confidence            9988754

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.

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

Probab=99.70  E-value=2.3e-17  Score=117.42  Aligned_cols=135  Identities=13%  Similarity=0.317  Sum_probs=113.9

Q ss_pred             CCCCCCCCCCcceEEEEEE----ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCC
Q 029517           34 GLPPDRIVPTVGLNIGRIE----VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNE  109 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~~~----~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~  109 (192)
                      +.|...|.||+|.++....    .+.+++..|||.|++.+......|+-...|+|+|+|++..-++..+..|...+.+.+
T Consensus        33 geFe~~y~at~Gv~~~pl~f~tn~g~irf~~wdtagqEk~gglrdgyyI~~qcAiimFdVtsr~t~~n~~rwhrd~~rv~  112 (216)
T KOG0096|consen   33 GEFEKTYPATLGVEVHPLLFDTNRGQIRFNVWDTAGQEKKGGLRDGYYIQGQCAIIMFDVTSRFTYKNVPRWHRDLVRVR  112 (216)
T ss_pred             ccceecccCcceeEEeeeeeecccCcEEEEeeecccceeecccccccEEecceeEEEeeeeehhhhhcchHHHHHHHHHh
Confidence            7788899999999998643    235899999999999999999999999999999999999999999999999999887


Q ss_pred             CCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          110 DLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                        .++||+++|||.|..+......-..+..     ..+++++++||+.+.|.+.-|-|+.+.+...
T Consensus       113 --~NiPiv~cGNKvDi~~r~~k~k~v~~~r-----kknl~y~~iSaksn~NfekPFl~LarKl~G~  171 (216)
T KOG0096|consen  113 --ENIPIVLCGNKVDIKARKVKAKPVSFHR-----KKNLQYYEISAKSNYNFERPFLWLARKLTGD  171 (216)
T ss_pred             --cCCCeeeeccceeccccccccccceeee-----cccceeEEeecccccccccchHHHhhhhcCC
Confidence              4699999999999765332222222332     5689999999999999999999999988654

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.70  E-value=3.4e-16  Score=129.13  Aligned_cols=139  Identities=24%  Similarity=0.302  Sum_probs=93.3

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcc--------cHHHHHHhhhcCCEEE
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPG--------LRSIWEKYYEEAHAVV   84 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~~~~~d~ii   84 (192)
                      =|||++|+|+++......+.+       ..|....+......+..+.+|||||++.        +......+++.+|+++
T Consensus        13 GKStL~n~l~~~~~~~v~~~~-------~~t~d~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~il   85 (435)
T PRK00093         13 GKSTLFNRLTGKRDAIVADTP-------GVTRDRIYGEAEWLGREFILIDTGGIEPDDDGFEKQIREQAELAIEEADVIL   85 (435)
T ss_pred             CHHHHHHHHhCCCceeeCCCC-------CCcccceEEEEEECCcEEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEE
Confidence            389999999865433222222       2233334555666678999999999876        3334556788999999


Q ss_pred             EEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcce-EEEEeeecCCCCHHH
Q 029517           85 FVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVC-MFEAVSGYDGFGIKE  163 (192)
Q Consensus        85 ~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~e  163 (192)
                      +|+|++++.+...  .++..++..   .++|+++|+||+|+.+.  .+...++..      .++ .++++||++|.|+++
T Consensus        86 ~vvd~~~~~~~~~--~~~~~~l~~---~~~piilv~NK~D~~~~--~~~~~~~~~------lg~~~~~~iSa~~g~gv~~  152 (435)
T PRK00093         86 FVVDGRAGLTPAD--EEIAKILRK---SNKPVILVVNKVDGPDE--EADAYEFYS------LGLGEPYPISAEHGRGIGD  152 (435)
T ss_pred             EEEECCCCCCHHH--HHHHHHHHH---cCCcEEEEEECccCccc--hhhHHHHHh------cCCCCCEEEEeeCCCCHHH
Confidence            9999987544322  223333333   37899999999997541  223333322      122 378999999999999


Q ss_pred             HHHHHHHH
Q 029517          164 SVEWLVEV  171 (192)
Q Consensus       164 ~~~~i~~~  171 (192)
                      +++++...
T Consensus       153 l~~~I~~~  160 (435)
T PRK00093        153 LLDAILEE  160 (435)
T ss_pred             HHHHHHhh
Confidence            99999873

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.70  E-value=1.8e-16  Score=127.16  Aligned_cols=144  Identities=23%  Similarity=0.303  Sum_probs=109.7

Q ss_pred             hhhccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCccc---------HHHHHHhhhcCC
Q 029517           11 YIFTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGL---------RSIWEKYYEEAH   81 (192)
Q Consensus        11 ~~~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~---------~~~~~~~~~~~d   81 (192)
                      ++=|||+||+|+++..+++++.++.+++..       +......+..+.+.||+|.+.-         .......+..||
T Consensus        13 NVGKSTLFNRL~g~r~AIV~D~pGvTRDr~-------y~~~~~~~~~f~lIDTgGl~~~~~~~l~~~i~~Qa~~Ai~eAD   85 (444)
T COG1160          13 NVGKSTLFNRLTGRRIAIVSDTPGVTRDRI-------YGDAEWLGREFILIDTGGLDDGDEDELQELIREQALIAIEEAD   85 (444)
T ss_pred             CCcHHHHHHHHhCCeeeEeecCCCCccCCc-------cceeEEcCceEEEEECCCCCcCCchHHHHHHHHHHHHHHHhCC
Confidence            456999999999999999999999999986       5666667788999999996532         223455678899


Q ss_pred             EEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCH
Q 029517           82 AVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGI  161 (192)
Q Consensus        82 ~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  161 (192)
                      ++|||+|....-+-+.  +.+.+++..   .++|+++|+||+|...  ..+.+.++..     ..--..+.+||..|.|+
T Consensus        86 vilfvVD~~~Git~~D--~~ia~~Lr~---~~kpviLvvNK~D~~~--~e~~~~efys-----lG~g~~~~ISA~Hg~Gi  153 (444)
T COG1160          86 VILFVVDGREGITPAD--EEIAKILRR---SKKPVILVVNKIDNLK--AEELAYEFYS-----LGFGEPVPISAEHGRGI  153 (444)
T ss_pred             EEEEEEeCCCCCCHHH--HHHHHHHHh---cCCCEEEEEEcccCch--hhhhHHHHHh-----cCCCCceEeehhhccCH
Confidence            9999999987543333  555555553   5799999999999763  2233444443     11235789999999999


Q ss_pred             HHHHHHHHHHHH
Q 029517          162 KESVEWLVEVME  173 (192)
Q Consensus       162 ~e~~~~i~~~i~  173 (192)
                      .++.+++.+.+.
T Consensus       154 ~dLld~v~~~l~  165 (444)
T COG1160         154 GDLLDAVLELLP  165 (444)
T ss_pred             HHHHHHHHhhcC
Confidence            999999999874

>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=99.70  E-value=1.6e-16  Score=117.02  Aligned_cols=155  Identities=21%  Similarity=0.244  Sum_probs=103.8

Q ss_pred             ccccHHHHHHHHhhhhcc--------CCCCC--CCCCCCCcceEEEEEE--ecCEEEEEEeCCCCcccHHHHHHhhhcCC
Q 029517           14 TKTEFHTLLEKLKSVYSN--------VEGLP--PDRIVPTVGLNIGRIE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAH   81 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~--------~~~~~--~~~~~~T~g~~~~~~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   81 (192)
                      |||++++|+.........        .....  .....-|+......+.  .....+.++|+||+.+|.......++.+|
T Consensus        16 KTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~~~~~~~~~~~~~~~i~~iDtPG~~~f~~~~~~~~~~~D   95 (188)
T PF00009_consen   16 KTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITIDLSFISFEKNENNRKITLIDTPGHEDFIKEMIRGLRQAD   95 (188)
T ss_dssp             HHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSSSEEEEEEBTESSEEEEEEEESSSHHHHHHHHHHHTTSS
T ss_pred             cEeechhhhhhccccccccccccccccccccchhhhcccccccccccccccccccceeecccccccceeecccceecccc
Confidence            789999988766431110        00000  1123556666677777  77899999999999999998888899999


Q ss_pred             EEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCC---CCHHHHH-hHcCccccCC-cceEEEEeeec
Q 029517           82 AVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDA---VSADELA-RYLDLKKLDE-RVCMFEAVSGY  156 (192)
Q Consensus        82 ~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~---~~~~~~~-~~~~~~~~~~-~~~~~~~~Sa~  156 (192)
                      ++|+|+|+.++-.... .+.+..+..    .++|+++++||+|+...   ...+++. .+++...... ..++++++||+
T Consensus        96 ~ailvVda~~g~~~~~-~~~l~~~~~----~~~p~ivvlNK~D~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~vi~~Sa~  170 (188)
T PF00009_consen   96 IAILVVDANDGIQPQT-EEHLKILRE----LGIPIIVVLNKMDLIEKELEEIIEEIKEKLLKEYGENGEEIVPVIPISAL  170 (188)
T ss_dssp             EEEEEEETTTBSTHHH-HHHHHHHHH----TT-SEEEEEETCTSSHHHHHHHHHHHHHHHHHHTTSTTTSTEEEEEEBTT
T ss_pred             cceeeeeccccccccc-ccccccccc----cccceEEeeeeccchhhhHHHHHHHHHHHhccccccCccccceEEEEecC
Confidence            9999999987643332 233333333    36899999999999731   1112222 1211111111 35899999999


Q ss_pred             CCCCHHHHHHHHHHHHH
Q 029517          157 DGFGIKESVEWLVEVME  173 (192)
Q Consensus       157 ~~~gi~e~~~~i~~~i~  173 (192)
                      +|.|++++++.|.+.++
T Consensus       171 ~g~gi~~Ll~~l~~~~P  187 (188)
T PF00009_consen  171 TGDGIDELLEALVELLP  187 (188)
T ss_dssp             TTBTHHHHHHHHHHHS-
T ss_pred             CCCCHHHHHHHHHHhCc
Confidence            99999999999988764

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 ....

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.69  E-value=7.8e-17  Score=115.46  Aligned_cols=106  Identities=13%  Similarity=0.142  Sum_probs=75.2

Q ss_pred             EEeCCCCc----ccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHH
Q 029517           60 FWDLGGQP----GLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELA  135 (192)
Q Consensus        60 i~D~~G~~----~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~  135 (192)
                      +|||||..    ++.......++++|++++|+|+++..++..  .|+..+   .  .+.|+++++||+|+.. ...+.+.
T Consensus        41 ~iDtpG~~~~~~~~~~~~~~~~~~ad~il~v~d~~~~~s~~~--~~~~~~---~--~~~~ii~v~nK~Dl~~-~~~~~~~  112 (158)
T PRK15467         41 DIDTPGEYFSHPRWYHALITTLQDVDMLIYVHGANDPESRLP--AGLLDI---G--VSKRQIAVISKTDMPD-ADVAATR  112 (158)
T ss_pred             cccCCccccCCHHHHHHHHHHHhcCCEEEEEEeCCCcccccC--HHHHhc---c--CCCCeEEEEEccccCc-ccHHHHH
Confidence            69999973    222222334789999999999998766532  344333   1  3579999999999865 3456666


Q ss_pred             hHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhcc
Q 029517          136 RYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~~  176 (192)
                      ++++..   ....+++++||++|+||+++|+++.+.+....
T Consensus       113 ~~~~~~---~~~~p~~~~Sa~~g~gi~~l~~~l~~~~~~~~  150 (158)
T PRK15467        113 KLLLET---GFEEPIFELNSHDPQSVQQLVDYLASLTKQEE  150 (158)
T ss_pred             HHHHHc---CCCCCEEEEECCCccCHHHHHHHHHHhchhhh
Confidence            655411   11258999999999999999999988775543

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.69  E-value=6e-16  Score=131.48  Aligned_cols=112  Identities=20%  Similarity=0.218  Sum_probs=85.1

Q ss_pred             cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCH--
Q 029517           54 SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSA--  131 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~--  131 (192)
                      ..+.+++|||||+.+|...+..+++.||++|+|+|+++....+....|.... .    .+.|+++|+||+|+......  
T Consensus        72 ~~~~lnLiDTPGh~dF~~~v~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~-~----~~lpiIvViNKiDl~~a~~~~v  146 (600)
T PRK05433         72 ETYILNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLAL-E----NDLEIIPVLNKIDLPAADPERV  146 (600)
T ss_pred             CcEEEEEEECCCcHHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHH-H----CCCCEEEEEECCCCCcccHHHH
Confidence            3689999999999999999999999999999999999876665554443322 1    36899999999998754322  


Q ss_pred             -HHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          132 -DELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       132 -~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                       +++.+.+.     .....++++||++|.|+++++++|.+.+...
T Consensus       147 ~~ei~~~lg-----~~~~~vi~iSAktG~GI~~Ll~~I~~~lp~P  186 (600)
T PRK05433        147 KQEIEDVIG-----IDASDAVLVSAKTGIGIEEVLEAIVERIPPP  186 (600)
T ss_pred             HHHHHHHhC-----CCcceEEEEecCCCCCHHHHHHHHHHhCccc
Confidence             23333322     1123589999999999999999999877543

>cd01895 EngA2 EngA2 subfamily

Probab=99.69  E-value=1.7e-15  Score=109.10  Aligned_cols=146  Identities=22%  Similarity=0.180  Sum_probs=91.1

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCccc----------H-HHHHHhhhcCCE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGL----------R-SIWEKYYEEAHA   82 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~----------~-~~~~~~~~~~d~   82 (192)
                      |||++|+|++.........+       ..|.......+...+..+.+|||||....          . .....++..+|+
T Consensus        15 Kstli~~l~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~iiDtpG~~~~~~~~~~~e~~~~~~~~~~~~~~d~   87 (174)
T cd01895          15 KSSLVNALLGEERVIVSDIA-------GTTRDSIDVPFEYDGKKYTLIDTAGIRRKGKVEEGIEKYSVLRTLKAIERADV   87 (174)
T ss_pred             HHHHHHHHhCccceeccCCC-------CCccCceeeEEEECCeeEEEEECCCCccccchhccHHHHHHHHHHHHHhhcCe
Confidence            78889988765322111111       11222222334555677899999996432          1 112235678999


Q ss_pred             EEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCC--CCHHHHHhHcCccccCCcceEEEEeeecCCCC
Q 029517           83 VVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDA--VSADELARYLDLKKLDERVCMFEAVSGYDGFG  160 (192)
Q Consensus        83 ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g  160 (192)
                      +++|+|++++.+.... .++..+..    .+.|+++++||+|+...  ...+.+.+.+..........+++++||+++.|
T Consensus        88 vi~v~d~~~~~~~~~~-~~~~~~~~----~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  162 (174)
T cd01895          88 VLLVIDATEGITEQDL-RIAGLILE----EGKALVIVVNKWDLVEKDSKTMKEFKKEIRRKLPFLDYAPIVFISALTGQG  162 (174)
T ss_pred             EEEEEeCCCCcchhHH-HHHHHHHh----cCCCEEEEEeccccCCccHHHHHHHHHHHHhhcccccCCceEEEeccCCCC
Confidence            9999999988765543 22222222    36899999999999764  33333333333110011247899999999999


Q ss_pred             HHHHHHHHHHH
Q 029517          161 IKESVEWLVEV  171 (192)
Q Consensus       161 i~e~~~~i~~~  171 (192)
                      ++++++++.+.
T Consensus       163 i~~~~~~l~~~  173 (174)
T cd01895         163 VDKLFDAIDEV  173 (174)
T ss_pred             HHHHHHHHHHh
Confidence            99999998763

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.

>PRK04213 GTP-binding protein; Provisional

Probab=99.69  E-value=8.3e-16  Score=114.18  Aligned_cols=147  Identities=24%  Similarity=0.266  Sum_probs=86.4

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCC-----------CcccHHHHHHhhh----
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGG-----------QPGLRSIWEKYYE----   78 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G-----------~~~~~~~~~~~~~----   78 (192)
                      |||++|+|.+.          .+...+.|+.+.....+...  .+.+|||||           ++.++..+..+++    
T Consensus        22 KSsLin~l~~~----------~~~~~~~~~~t~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (201)
T PRK04213         22 KSTLVRELTGK----------KVRVGKRPGVTRKPNHYDWG--DFILTDLPGFGFMSGVPKEVQEKIKDEIVRYIEDNAD   89 (201)
T ss_pred             HHHHHHHHhCC----------CCccCCCCceeeCceEEeec--ceEEEeCCccccccccCHHHHHHHHHHHHHHHHhhhh
Confidence            67777777532          12222334333333333333  689999999           4667766666664    


Q ss_pred             cCCEEEEEEeCCCcccH-HH--------HHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCC--CHHHHHhHcCcc-ccCCc
Q 029517           79 EAHAVVFVIDAACPSRF-ED--------SKTALEKVLRNEDLQGAPLLILANKQDLPDAV--SADELARYLDLK-KLDER  146 (192)
Q Consensus        79 ~~d~ii~v~D~~~~~s~-~~--------~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~--~~~~~~~~~~~~-~~~~~  146 (192)
                      .++++++|+|++....+ +.        ....+......   .++|+++|+||+|+.+..  ..+++.+.+... .....
T Consensus        90 ~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  166 (201)
T PRK04213         90 RILAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFLRE---LGIPPIVAVNKMDKIKNRDEVLDEIAERLGLYPPWRQW  166 (201)
T ss_pred             hheEEEEEEeCccccccccccccCCCcHHHHHHHHHHHH---cCCCeEEEEECccccCcHHHHHHHHHHHhcCCcccccc
Confidence            35788899998653221 00        00111222222   468999999999986532  122333333310 00001


Q ss_pred             ceEEEEeeecCCCCHHHHHHHHHHHHHhcc
Q 029517          147 VCMFEAVSGYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       147 ~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~~  176 (192)
                      +.+++++||++| ||++++++|.+.+....
T Consensus       167 ~~~~~~~SA~~g-gi~~l~~~l~~~~~~~~  195 (201)
T PRK04213        167 QDIIAPISAKKG-GIEELKEAIRKRLHEAK  195 (201)
T ss_pred             CCcEEEEecccC-CHHHHHHHHHHhhcCcc
Confidence            236899999999 99999999998875544

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.68  E-value=9.2e-16  Score=126.38  Aligned_cols=142  Identities=25%  Similarity=0.328  Sum_probs=96.7

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCC--------cccHHHHHHhhhcCCEEE
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQ--------PGLRSIWEKYYEEAHAVV   84 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~--------~~~~~~~~~~~~~~d~ii   84 (192)
                      =|||++|+|+++......+.++.+       ....+......+..+.+|||||.        +.+......+++.+|+++
T Consensus        11 GKStL~n~l~~~~~~~v~~~~g~t-------~d~~~~~~~~~~~~~~liDTpG~~~~~~~~~~~~~~~~~~~~~~ad~vl   83 (429)
T TIGR03594        11 GKSTLFNRLTGKRDAIVSDTPGVT-------RDRKYGDAEWGGREFILIDTGGIEEDDDGLDKQIREQAEIAIEEADVIL   83 (429)
T ss_pred             CHHHHHHHHhCCCcceecCCCCcc-------cCceEEEEEECCeEEEEEECCCCCCcchhHHHHHHHHHHHHHhhCCEEE
Confidence            489999999876544333333322       23334556667788999999996        334455667789999999


Q ss_pred             EEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcce-EEEEeeecCCCCHHH
Q 029517           85 FVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVC-MFEAVSGYDGFGIKE  163 (192)
Q Consensus        85 ~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~e  163 (192)
                      +|+|+++..+...  ..+..+++.   .++|+++|+||+|+.....  ...+...      .++ +++++||++|.|+.+
T Consensus        84 ~vvD~~~~~~~~d--~~i~~~l~~---~~~piilVvNK~D~~~~~~--~~~~~~~------lg~~~~~~vSa~~g~gv~~  150 (429)
T TIGR03594        84 FVVDGREGLTPED--EEIAKWLRK---SGKPVILVANKIDGKKEDA--VAAEFYS------LGFGEPIPISAEHGRGIGD  150 (429)
T ss_pred             EEEeCCCCCCHHH--HHHHHHHHH---hCCCEEEEEECccCCcccc--cHHHHHh------cCCCCeEEEeCCcCCChHH
Confidence            9999987544432  222233332   3689999999999875321  1222222      233 689999999999999


Q ss_pred             HHHHHHHHHHh
Q 029517          164 SVEWLVEVMER  174 (192)
Q Consensus       164 ~~~~i~~~i~~  174 (192)
                      +++++.+.+..
T Consensus       151 ll~~i~~~l~~  161 (429)
T TIGR03594       151 LLDAILELLPE  161 (429)
T ss_pred             HHHHHHHhcCc
Confidence            99999987754

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.

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.68  E-value=6.7e-16  Score=125.00  Aligned_cols=151  Identities=22%  Similarity=0.290  Sum_probs=101.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecC-EEEEEEeCCCCcc-------cHHHHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSN-SKLVFWDLGGQPG-------LRSIWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~-~~~~i~D~~G~~~-------~~~~~~~~~~~~d~ii~   85 (192)
                      |||++|+|.++.    +.+++++.++..|..|+    +.... ..+.++||||...       .......+++.++++++
T Consensus       172 KSTLln~Lt~~k----~~vs~~p~TT~~p~~Gi----v~~~~~~~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~radvlL~  243 (390)
T PRK12298        172 KSTFIRAVSAAK----PKVADYPFTTLVPNLGV----VRVDDERSFVVADIPGLIEGASEGAGLGIRFLKHLERCRVLLH  243 (390)
T ss_pred             HHHHHHHHhCCc----ccccCCCCCccCcEEEE----EEeCCCcEEEEEeCCCccccccchhhHHHHHHHHHHhCCEEEE
Confidence            788888887643    35566666666665554    54443 4699999999532       12223346889999999


Q ss_pred             EEeCC---CcccHHHHHHHHHHHHhCC-CCCCCcEEEEEeCCCCCCCCCHHH-HHhHcCccccCCcceEEEEeeecCCCC
Q 029517           86 VIDAA---CPSRFEDSKTALEKVLRNE-DLQGAPLLILANKQDLPDAVSADE-LARYLDLKKLDERVCMFEAVSGYDGFG  160 (192)
Q Consensus        86 v~D~~---~~~s~~~~~~~~~~i~~~~-~~~~~piiiv~nK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~~~~~Sa~~~~g  160 (192)
                      |+|++   ..+.++....|+..+.... ...++|+++|+||+|+.......+ +.++.+.   .....+++++||+++.|
T Consensus       244 VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~~el~~~l~~l~~~---~~~~~~Vi~ISA~tg~G  320 (390)
T PRK12298        244 LIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLDEEEAEERAKAIVEA---LGWEGPVYLISAASGLG  320 (390)
T ss_pred             EeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCChHHHHHHHHHHHHH---hCCCCCEEEEECCCCcC
Confidence            99988   4456677777777766542 124689999999999865322222 2222220   01123689999999999


Q ss_pred             HHHHHHHHHHHHHhc
Q 029517          161 IKESVEWLVEVMERS  175 (192)
Q Consensus       161 i~e~~~~i~~~i~~~  175 (192)
                      +++++++|.+.+...
T Consensus       321 IdeLl~~I~~~L~~~  335 (390)
T PRK12298        321 VKELCWDLMTFIEEN  335 (390)
T ss_pred             HHHHHHHHHHHhhhC
Confidence            999999999988653

>PRK11058 GTPase HflX; Provisional

Probab=99.67  E-value=1.9e-15  Score=123.60  Aligned_cols=145  Identities=20%  Similarity=0.153  Sum_probs=90.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCE-EEEEEeCCCCccc--HHHH------HHhhhcCCEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNS-KLVFWDLGGQPGL--RSIW------EKYYEEAHAVV   84 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~-~~~i~D~~G~~~~--~~~~------~~~~~~~d~ii   84 (192)
                      |||+||+|.+.-..    +.+.+.    .|.......+...+. .+.+|||+|..+.  ...+      ...++.+|+++
T Consensus       210 KSSLlN~Lt~~~~~----v~~~~~----tTld~~~~~i~l~~~~~~~l~DTaG~~r~lp~~lve~f~~tl~~~~~ADlIL  281 (426)
T PRK11058        210 KSTLFNRITEARVY----AADQLF----ATLDPTLRRIDVADVGETVLADTVGFIRHLPHDLVAAFKATLQETRQATLLL  281 (426)
T ss_pred             HHHHHHHHhCCcee----eccCCC----CCcCCceEEEEeCCCCeEEEEecCcccccCCHHHHHHHHHHHHHhhcCCEEE
Confidence            67888877653211    222222    333333334444433 7889999997431  2222      23468899999


Q ss_pred             EEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceE-EEEeeecCCCCHHH
Q 029517           85 FVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCM-FEAVSGYDGFGIKE  163 (192)
Q Consensus        85 ~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~gi~e  163 (192)
                      +|+|++++.+++.+..|...+.... ..++|+++|+||+|+..... ..... ..      .+.+ ++++||++|.|+++
T Consensus       282 ~VvDaS~~~~~e~l~~v~~iL~el~-~~~~pvIiV~NKiDL~~~~~-~~~~~-~~------~~~~~~v~ISAktG~GIde  352 (426)
T PRK11058        282 HVVDAADVRVQENIEAVNTVLEEID-AHEIPTLLVMNKIDMLDDFE-PRIDR-DE------ENKPIRVWLSAQTGAGIPL  352 (426)
T ss_pred             EEEeCCCccHHHHHHHHHHHHHHhc-cCCCCEEEEEEcccCCCchh-HHHHH-Hh------cCCCceEEEeCCCCCCHHH
Confidence            9999999887776654433333322 14789999999999864211 11111 11      1223 57899999999999


Q ss_pred             HHHHHHHHHHhc
Q 029517          164 SVEWLVEVMERS  175 (192)
Q Consensus       164 ~~~~i~~~i~~~  175 (192)
                      ++++|.+.+...
T Consensus       353 L~e~I~~~l~~~  364 (426)
T PRK11058        353 LFQALTERLSGE  364 (426)
T ss_pred             HHHHHHHHhhhc
Confidence            999999988643

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.67  E-value=6.5e-16  Score=131.01  Aligned_cols=150  Identities=19%  Similarity=0.160  Sum_probs=101.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCC--CcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVP--TVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAAC   91 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~--T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~   91 (192)
                      |||++++|.+...       +.+.+++.+  |+...+..+..++..+.+||+||+++|.......+.++|++++|+|+++
T Consensus        13 KTTLi~aLtg~~~-------d~~~eE~~rGiTid~~~~~~~~~~~~v~~iDtPGhe~f~~~~~~g~~~aD~aILVVDa~~   85 (581)
T TIGR00475        13 KTTLLKALTGIAA-------DRLPEEKKRGMTIDLGFAYFPLPDYRLGFIDVPGHEKFISNAIAGGGGIDAALLVVDADE   85 (581)
T ss_pred             HHHHHHHHhCccC-------cCChhHhcCCceEEeEEEEEEeCCEEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCC
Confidence            7888888875431       233333344  4455555677677899999999999998888888999999999999987


Q ss_pred             cccHHHHHHHHHHHHhCCCCCCCc-EEEEEeCCCCCCCCC----HHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHH
Q 029517           92 PSRFEDSKTALEKVLRNEDLQGAP-LLILANKQDLPDAVS----ADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVE  166 (192)
Q Consensus        92 ~~s~~~~~~~~~~i~~~~~~~~~p-iiiv~nK~Dl~~~~~----~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~  166 (192)
                      ....+ ..+.+. +...   .++| +++++||+|+.+...    .+++.+++..... ..+.+++++||++|.|++++++
T Consensus        86 G~~~q-T~ehl~-il~~---lgi~~iIVVlNK~Dlv~~~~~~~~~~ei~~~l~~~~~-~~~~~ii~vSA~tG~GI~eL~~  159 (581)
T TIGR00475        86 GVMTQ-TGEHLA-VLDL---LGIPHTIVVITKADRVNEEEIKRTEMFMKQILNSYIF-LKNAKIFKTSAKTGQGIGELKK  159 (581)
T ss_pred             CCcHH-HHHHHH-HHHH---cCCCeEEEEEECCCCCCHHHHHHHHHHHHHHHHHhCC-CCCCcEEEEeCCCCCCchhHHH
Confidence            43222 122222 2222   3577 999999999975321    1233333321000 1257899999999999999999


Q ss_pred             HHHHHHHhcc
Q 029517          167 WLVEVMERSK  176 (192)
Q Consensus       167 ~i~~~i~~~~  176 (192)
                      +|.+.+....
T Consensus       160 ~L~~l~~~~~  169 (581)
T TIGR00475       160 ELKNLLESLD  169 (581)
T ss_pred             HHHHHHHhCC
Confidence            9987665543

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.

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

Probab=99.67  E-value=2.4e-15  Score=112.97  Aligned_cols=148  Identities=28%  Similarity=0.334  Sum_probs=109.2

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEe--c--CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCC-ccc
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEV--S--NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAAC-PSR   94 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~--~--~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~-~~s   94 (192)
                      ||++++..      +.+...+.||++..+.....  .  .+++.+|||+|+++|+..+..|+.+++++++|+|.++ ..+
T Consensus        20 tl~~~l~~------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~~~y~~~~~~~l~~~d~~~~~~~   93 (219)
T COG1100          20 TLLNRLVG------DEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGANGILIVYDSTLRESS   93 (219)
T ss_pred             HHHHHHhc------CcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHHHHHhcCCCEEEEEEecccchhh
Confidence            55556665      67778889999887765332  1  5679999999999999999999999999999999998 555


Q ss_pred             HHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC-HHHH-------------HhHcCccccCCcceEEEEeeec--CC
Q 029517           95 FEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVS-ADEL-------------ARYLDLKKLDERVCMFEAVSGY--DG  158 (192)
Q Consensus        95 ~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~-~~~~-------------~~~~~~~~~~~~~~~~~~~Sa~--~~  158 (192)
                      .+....|...+..... ...|+++++||+|+..... ...+             ......  .......++++|++  .+
T Consensus        94 ~~~~~~~~~~l~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~s~~~~~~  170 (219)
T COG1100          94 DELTEEWLEELRELAP-DDVPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVLAPKAVL--PEVANPALLETSAKSLTG  170 (219)
T ss_pred             hHHHHHHHHHHHHhCC-CCceEEEEecccccccchhHHHHHHhhhhcCcchhhhHhHHhh--hhhcccceeEeecccCCC
Confidence            6666778777776642 3689999999999976321 1111             111110  01123348999999  99


Q ss_pred             CCHHHHHHHHHHHHHhcc
Q 029517          159 FGIKESVEWLVEVMERSK  176 (192)
Q Consensus       159 ~gi~e~~~~i~~~i~~~~  176 (192)
                      .||+++|.++.+.+....
T Consensus       171 ~~v~~~~~~~~~~~~~~~  188 (219)
T COG1100         171 PNVNELFKELLRKLLEEI  188 (219)
T ss_pred             cCHHHHHHHHHHHHHHhh
Confidence            999999999999886543

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

Probab=99.67  E-value=3.4e-15  Score=111.23  Aligned_cols=117  Identities=29%  Similarity=0.364  Sum_probs=88.3

Q ss_pred             cCEEEEEEeCCCCcccHHHHHHhhhcC-CEEEEEEeCCCc-ccHHHHHHHHHHHHhCCC--CCCCcEEEEEeCCCCCCCC
Q 029517           54 SNSKLVFWDLGGQPGLRSIWEKYYEEA-HAVVFVIDAACP-SRFEDSKTALEKVLRNED--LQGAPLLILANKQDLPDAV  129 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~~~~~~~-d~ii~v~D~~~~-~s~~~~~~~~~~i~~~~~--~~~~piiiv~nK~Dl~~~~  129 (192)
                      ....+.+||+||+.+++..+..+++.+ +++|+|+|+++. .++..+..++..+.....  ..++|+++++||+|+..+.
T Consensus        46 ~~~~~~l~D~pG~~~~~~~~~~~~~~~~~~vV~VvD~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~a~  125 (203)
T cd04105          46 KGKKFRLVDVPGHPKLRDKLLETLKNSAKGIVFVVDSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFTAK  125 (203)
T ss_pred             CCceEEEEECCCCHHHHHHHHHHHhccCCEEEEEEECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhcccC
Confidence            367899999999999999999999999 999999999987 678888888777654321  1479999999999987654


Q ss_pred             CHHHHHhHcC-------------cc-------------c-------c--CCcceEEEEeeecCCC-CHHHHHHHHHH
Q 029517          130 SADELARYLD-------------LK-------------K-------L--DERVCMFEAVSGYDGF-GIKESVEWLVE  170 (192)
Q Consensus       130 ~~~~~~~~~~-------------~~-------------~-------~--~~~~~~~~~~Sa~~~~-gi~e~~~~i~~  170 (192)
                      +.+.+.+.++             +.             .       +  ....+.+.++|++.+. |+++..+||.+
T Consensus       126 ~~~~i~~~le~ei~~~~~~r~~~l~~~~~~~~~~~~~~~~~~~~f~f~~~~~~v~~~~~s~~~~~~~~~~~~~w~~~  202 (203)
T cd04105         126 PAKKIKEQLEKELNTLRESRSKSLSSLDGDEGSKESLGDKGGKSFEFDQLEGKVEFLEGSVKVDGGGIDGWEEWIDE  202 (203)
T ss_pred             CHHHHHHHHHHHHHHHHHHHhccccccccccccccccccccCcceeeccCceeEEEEEeEEecCCCChHhHHHHHhh
Confidence            4444333332             00             0       0  1236778999998876 69999999864

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

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.66  E-value=6.8e-16  Score=131.03  Aligned_cols=139  Identities=19%  Similarity=0.205  Sum_probs=91.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHH------HHHhh--hcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSI------WEKYY--EEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~------~~~~~--~~~d~ii~   85 (192)
                      |||++|+|.+...    ++.++    ...|.......+..++.++++|||||++++...      ...++  +.+|++++
T Consensus         7 KSSL~N~Ltg~~~----~v~n~----pG~Tv~~~~~~i~~~~~~i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI~   78 (591)
T TIGR00437         7 KSTLFNALTGANQ----TVGNW----PGVTVEKKEGKLGFQGEDIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVVN   78 (591)
T ss_pred             HHHHHHHHhCCCC----eecCC----CCeEEEEEEEEEEECCeEEEEEECCCccccCccchHHHHHHHHHhhcCCCEEEE
Confidence            8888888865421    12221    123333334456667778999999998876432      33343  36899999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC-HHHHHhHcCccccCCcceEEEEeeecCCCCHHHH
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVS-ADELARYLDLKKLDERVCMFEAVSGYDGFGIKES  164 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~  164 (192)
                      |+|+++.+   +...+..++.+    .++|+++++||+|+.+... ..+..+..+     ..+.+++++||++|.|++++
T Consensus        79 VvDat~le---r~l~l~~ql~~----~~~PiIIVlNK~Dl~~~~~i~~d~~~L~~-----~lg~pvv~tSA~tg~Gi~eL  146 (591)
T TIGR00437        79 VVDASNLE---RNLYLTLQLLE----LGIPMILALNLVDEAEKKGIRIDEEKLEE-----RLGVPVVPTSATEGRGIERL  146 (591)
T ss_pred             EecCCcch---hhHHHHHHHHh----cCCCEEEEEehhHHHHhCCChhhHHHHHH-----HcCCCEEEEECCCCCCHHHH
Confidence            99998743   22333334433    3689999999999864221 122333332     33578999999999999999


Q ss_pred             HHHHHHHH
Q 029517          165 VEWLVEVM  172 (192)
Q Consensus       165 ~~~i~~~i  172 (192)
                      ++++.+..
T Consensus       147 ~~~i~~~~  154 (591)
T TIGR00437       147 KDAIRKAI  154 (591)
T ss_pred             HHHHHHHh
Confidence            99998754

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.

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.66  E-value=2.3e-15  Score=127.38  Aligned_cols=121  Identities=21%  Similarity=0.292  Sum_probs=83.3

Q ss_pred             cceEEEEEEecCE-EEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeC
Q 029517           44 VGLNIGRIEVSNS-KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANK  122 (192)
Q Consensus        44 ~g~~~~~~~~~~~-~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK  122 (192)
                      +......+...+. .+.|||||||+.|..++...++.+|++++|+|+++....+.. +.+... ..   .++|+++++||
T Consensus       122 ~~ig~~~v~~~~~~~i~~iDTPGhe~F~~~r~rga~~aDiaILVVda~dgv~~qT~-e~i~~~-~~---~~vPiIVviNK  196 (587)
T TIGR00487       122 QHIGAYHVENEDGKMITFLDTPGHEAFTSMRARGAKVTDIVVLVVAADDGVMPQTI-EAISHA-KA---ANVPIIVAINK  196 (587)
T ss_pred             ecceEEEEEECCCcEEEEEECCCCcchhhHHHhhhccCCEEEEEEECCCCCCHhHH-HHHHHH-HH---cCCCEEEEEEC
Confidence            3333344444333 899999999999999999899999999999999865332222 222222 11   46899999999


Q ss_pred             CCCCCCCCHHHHHhHcCccccC----CcceEEEEeeecCCCCHHHHHHHHHH
Q 029517          123 QDLPDAVSADELARYLDLKKLD----ERVCMFEAVSGYDGFGIKESVEWLVE  170 (192)
Q Consensus       123 ~Dl~~~~~~~~~~~~~~~~~~~----~~~~~~~~~Sa~~~~gi~e~~~~i~~  170 (192)
                      +|+.+. ..+++.+.+......    ....+++++||++|.|+++++++|..
T Consensus       197 iDl~~~-~~e~v~~~L~~~g~~~~~~~~~~~~v~iSAktGeGI~eLl~~I~~  247 (587)
T TIGR00487       197 IDKPEA-NPDRVKQELSEYGLVPEDWGGDTIFVPVSALTGDGIDELLDMILL  247 (587)
T ss_pred             cccccC-CHHHHHHHHHHhhhhHHhcCCCceEEEEECCCCCChHHHHHhhhh
Confidence            999753 344444444311100    11357999999999999999999874

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.

>cd00880 Era_like Era (E

Probab=99.66  E-value=3.5e-15  Score=105.53  Aligned_cols=146  Identities=26%  Similarity=0.218  Sum_probs=94.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEec-CEEEEEEeCCCCcccH-------HHHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVS-NSKLVFWDLGGQPGLR-------SIWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~-~~~~~i~D~~G~~~~~-------~~~~~~~~~~d~ii~   85 (192)
                      |||++|+|.+.....       .......|........... ...+.+||+||...+.       .....+++.+|++++
T Consensus         9 Kstl~~~l~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~il~   81 (163)
T cd00880           9 KSSLLNALLGQEVAI-------VSPVPGTTTDPVEYVWELGPLGPVVLIDTPGIDEAGGLGREREELARRVLERADLILF   81 (163)
T ss_pred             HHHHHHHHhCccccc-------cCCCCCcEECCeEEEEEecCCCcEEEEECCCCCccccchhhHHHHHHHHHHhCCEEEE
Confidence            788888887643321       1111122333333334333 6689999999976543       244557889999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHH
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      |+|+++..+..... +......    ...|+++++||+|+..........+............+++++||+++.|+++++
T Consensus        82 v~~~~~~~~~~~~~-~~~~~~~----~~~~~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~v~~l~  156 (163)
T cd00880          82 VVDADLRADEEEEK-LLELLRE----RGKPVLLVLNKIDLLPEEEEEELLELRLLILLLLLGLPVIAVSALTGEGIDELR  156 (163)
T ss_pred             EEeCCCCCCHHHHH-HHHHHHh----cCCeEEEEEEccccCChhhHHHHHHHHHhhcccccCCceEEEeeeccCCHHHHH
Confidence            99999887666654 2222222    478999999999987644333332101111112457889999999999999999


Q ss_pred             HHHHHH
Q 029517          166 EWLVEV  171 (192)
Q Consensus       166 ~~i~~~  171 (192)
                      +++.+.
T Consensus       157 ~~l~~~  162 (163)
T cd00880         157 EALIEA  162 (163)
T ss_pred             HHHHhh
Confidence            999864

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

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.65  E-value=2.6e-15  Score=130.40  Aligned_cols=149  Identities=19%  Similarity=0.223  Sum_probs=93.6

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCc----------ccHHH-HHHhhhcCCE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQP----------GLRSI-WEKYYEEAHA   82 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~----------~~~~~-~~~~~~~~d~   82 (192)
                      |||++|+|++.-.....+.++.+       .......+...+..+.+|||||..          .|... ...+++.+|+
T Consensus       463 KSSLin~l~~~~~~~v~~~~gtT-------~d~~~~~~~~~~~~~~liDTaG~~~~~~~~~~~e~~~~~r~~~~i~~adv  535 (712)
T PRK09518        463 KSSLLNQLTHEERAVVNDLAGTT-------RDPVDEIVEIDGEDWLFIDTAGIKRRQHKLTGAEYYSSLRTQAAIERSEL  535 (712)
T ss_pred             HHHHHHHHhCccccccCCCCCCC-------cCcceeEEEECCCEEEEEECCCcccCcccchhHHHHHHHHHHHHhhcCCE
Confidence            67777777655332222222222       222223344556678899999953          12221 2345789999


Q ss_pred             EEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHH
Q 029517           83 VVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIK  162 (192)
Q Consensus        83 ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  162 (192)
                      +++|+|+++..+.+... ++..+..    .++|+++|+||+|+.+....+.+.+.+..........+++.+||++|.|++
T Consensus       536 vilViDat~~~s~~~~~-i~~~~~~----~~~piIiV~NK~DL~~~~~~~~~~~~~~~~l~~~~~~~ii~iSAktg~gv~  610 (712)
T PRK09518        536 ALFLFDASQPISEQDLK-VMSMAVD----AGRALVLVFNKWDLMDEFRRQRLERLWKTEFDRVTWARRVNLSAKTGWHTN  610 (712)
T ss_pred             EEEEEECCCCCCHHHHH-HHHHHHH----cCCCEEEEEEchhcCChhHHHHHHHHHHHhccCCCCCCEEEEECCCCCCHH
Confidence            99999999888777654 3333332    368999999999997533323333222210001224567899999999999


Q ss_pred             HHHHHHHHHHHh
Q 029517          163 ESVEWLVEVMER  174 (192)
Q Consensus       163 e~~~~i~~~i~~  174 (192)
                      ++++.+.+....
T Consensus       611 ~L~~~i~~~~~~  622 (712)
T PRK09518        611 RLAPAMQEALES  622 (712)
T ss_pred             HHHHHHHHHHHH
Confidence            999999987765

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.65  E-value=1.2e-15  Score=132.44  Aligned_cols=143  Identities=20%  Similarity=0.240  Sum_probs=91.4

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcc--------cHHHHHHhhhcCCEEE
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPG--------LRSIWEKYYEEAHAVV   84 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~~~~~d~ii   84 (192)
                      =|||+||+|+++......+.++.       |...........+..+.+|||||.+.        +......+++.+|++|
T Consensus       287 GKSSL~n~l~~~~~~iv~~~pGv-------T~d~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~aD~iL  359 (712)
T PRK09518        287 GKSTLVNRILGRREAVVEDTPGV-------TRDRVSYDAEWAGTDFKLVDTGGWEADVEGIDSAIASQAQIAVSLADAVV  359 (712)
T ss_pred             CHHHHHHHHhCCCceeecCCCCe-------eEEEEEEEEEECCEEEEEEeCCCcCCCCccHHHHHHHHHHHHHHhCCEEE
Confidence            48899998886543322222221       22222233445578899999999653        3445566789999999


Q ss_pred             EEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHH
Q 029517           85 FVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKES  164 (192)
Q Consensus        85 ~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~  164 (192)
                      +|+|+++.-.  .....+...++.   .++|+++|+||+|+....  ....+...+    ..+ ..+++||++|.||+++
T Consensus       360 ~VvDa~~~~~--~~d~~i~~~Lr~---~~~pvIlV~NK~D~~~~~--~~~~~~~~l----g~~-~~~~iSA~~g~GI~eL  427 (712)
T PRK09518        360 FVVDGQVGLT--STDERIVRMLRR---AGKPVVLAVNKIDDQASE--YDAAEFWKL----GLG-EPYPISAMHGRGVGDL  427 (712)
T ss_pred             EEEECCCCCC--HHHHHHHHHHHh---cCCCEEEEEECcccccch--hhHHHHHHc----CCC-CeEEEECCCCCCchHH
Confidence            9999976422  222222222332   479999999999986431  222222221    111 3468999999999999


Q ss_pred             HHHHHHHHHh
Q 029517          165 VEWLVEVMER  174 (192)
Q Consensus       165 ~~~i~~~i~~  174 (192)
                      +++|.+.+..
T Consensus       428 l~~i~~~l~~  437 (712)
T PRK09518        428 LDEALDSLKV  437 (712)
T ss_pred             HHHHHHhccc
Confidence            9999988755

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.65  E-value=3.9e-15  Score=128.02  Aligned_cols=113  Identities=18%  Similarity=0.273  Sum_probs=81.2

Q ss_pred             cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHH
Q 029517           54 SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADE  133 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~  133 (192)
                      ....+.||||||++.|..++..+++.+|++|+|+|+++....+....+ ..+ ..   .++|+++++||+|+... ..+.
T Consensus       293 ~~~kItfiDTPGhe~F~~mr~rg~~~aDiaILVVDA~dGv~~QT~E~I-~~~-k~---~~iPiIVViNKiDl~~~-~~e~  366 (742)
T CHL00189        293 ENQKIVFLDTPGHEAFSSMRSRGANVTDIAILIIAADDGVKPQTIEAI-NYI-QA---ANVPIIVAINKIDKANA-NTER  366 (742)
T ss_pred             CceEEEEEECCcHHHHHHHHHHHHHHCCEEEEEEECcCCCChhhHHHH-HHH-Hh---cCceEEEEEECCCcccc-CHHH
Confidence            358999999999999999999999999999999999875333322222 222 12   46899999999999753 2333


Q ss_pred             HHhHcCcccc--C--CcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517          134 LARYLDLKKL--D--ERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus       134 ~~~~~~~~~~--~--~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                      +.+.+.....  .  ...++++++||++|.|+++++++|....
T Consensus       367 v~~eL~~~~ll~e~~g~~vpvv~VSAktG~GIdeLle~I~~l~  409 (742)
T CHL00189        367 IKQQLAKYNLIPEKWGGDTPMIPISASQGTNIDKLLETILLLA  409 (742)
T ss_pred             HHHHHHHhccchHhhCCCceEEEEECCCCCCHHHHHHhhhhhh
Confidence            3333221000  0  1136899999999999999999998754

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.65  E-value=1.7e-15  Score=125.05  Aligned_cols=150  Identities=23%  Similarity=0.225  Sum_probs=93.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcc----------cHH-HHHHhhhcCCE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPG----------LRS-IWEKYYEEAHA   82 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~----------~~~-~~~~~~~~~d~   82 (192)
                      |||++|+|++.-....+..++       .|.......+...+..+.+|||||..+          |.. ....+++.+|+
T Consensus       186 KStlin~ll~~~~~~~~~~~g-------tt~~~~~~~~~~~~~~~~lvDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~  258 (435)
T PRK00093        186 KSSLINALLGEERVIVSDIAG-------TTRDSIDTPFERDGQKYTLIDTAGIRRKGKVTEGVEKYSVIRTLKAIERADV  258 (435)
T ss_pred             HHHHHHHHhCCCceeecCCCC-------ceEEEEEEEEEECCeeEEEEECCCCCCCcchhhHHHHHHHHHHHHHHHHCCE
Confidence            788888887643322222211       122211233455677899999999532          211 12346789999


Q ss_pred             EEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHH
Q 029517           83 VVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIK  162 (192)
Q Consensus        83 ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  162 (192)
                      +|+|+|++++.+.+... ++..+.+    .+.|+++++||+|+.+....+++.+.+..........+++++||++|.|++
T Consensus       259 ~ilViD~~~~~~~~~~~-i~~~~~~----~~~~~ivv~NK~Dl~~~~~~~~~~~~~~~~l~~~~~~~i~~~SA~~~~gv~  333 (435)
T PRK00093        259 VLLVIDATEGITEQDLR-IAGLALE----AGRALVIVVNKWDLVDEKTMEEFKKELRRRLPFLDYAPIVFISALTGQGVD  333 (435)
T ss_pred             EEEEEeCCCCCCHHHHH-HHHHHHH----cCCcEEEEEECccCCCHHHHHHHHHHHHHhcccccCCCEEEEeCCCCCCHH
Confidence            99999999886665532 2222222    368999999999987432223333322211011235789999999999999


Q ss_pred             HHHHHHHHHHHhc
Q 029517          163 ESVEWLVEVMERS  175 (192)
Q Consensus       163 e~~~~i~~~i~~~  175 (192)
                      ++++++.+.....
T Consensus       334 ~l~~~i~~~~~~~  346 (435)
T PRK00093        334 KLLEAIDEAYENA  346 (435)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999998766543

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.64  E-value=4.1e-15  Score=128.84  Aligned_cols=120  Identities=23%  Similarity=0.323  Sum_probs=83.7

Q ss_pred             eEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCC
Q 029517           46 LNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDL  125 (192)
Q Consensus        46 ~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl  125 (192)
                      +....+...+..+.|||||||+.|..++...++.+|++|+|+|+++...-+....| ... ..   .++|+++++||+|+
T Consensus       327 iga~~v~~~~~~ItfiDTPGhe~F~~m~~rga~~aDiaILVVdAddGv~~qT~e~i-~~a-~~---~~vPiIVviNKiDl  401 (787)
T PRK05306        327 IGAYQVETNGGKITFLDTPGHEAFTAMRARGAQVTDIVVLVVAADDGVMPQTIEAI-NHA-KA---AGVPIIVAINKIDK  401 (787)
T ss_pred             ccEEEEEECCEEEEEEECCCCccchhHHHhhhhhCCEEEEEEECCCCCCHhHHHHH-HHH-Hh---cCCcEEEEEECccc
Confidence            33345555678899999999999999999899999999999999875322222222 222 11   46899999999999


Q ss_pred             CCCCCHHHHHhHcCcccc--C--CcceEEEEeeecCCCCHHHHHHHHHHH
Q 029517          126 PDAVSADELARYLDLKKL--D--ERVCMFEAVSGYDGFGIKESVEWLVEV  171 (192)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~--~--~~~~~~~~~Sa~~~~gi~e~~~~i~~~  171 (192)
                      .+. +.+.+...+.....  .  ...++++++||++|.||++++++|...
T Consensus       402 ~~a-~~e~V~~eL~~~~~~~e~~g~~vp~vpvSAktG~GI~eLle~I~~~  450 (787)
T PRK05306        402 PGA-NPDRVKQELSEYGLVPEEWGGDTIFVPVSAKTGEGIDELLEAILLQ  450 (787)
T ss_pred             ccc-CHHHHHHHHHHhcccHHHhCCCceEEEEeCCCCCCchHHHHhhhhh
Confidence            753 23333322210000  0  123789999999999999999999753

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=99.63  E-value=1.5e-15  Score=124.96  Aligned_cols=122  Identities=14%  Similarity=0.109  Sum_probs=81.9

Q ss_pred             CCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHH--HHHHHHHHHhCCCCCCCcEEE
Q 029517           41 VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFED--SKTALEKVLRNEDLQGAPLLI  118 (192)
Q Consensus        41 ~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~--~~~~~~~i~~~~~~~~~piii  118 (192)
                      ..|+......+..+++.+.+|||||+++|.......++.+|++++|+|+++.++...  ...++ .+....  ...|+++
T Consensus        70 g~Tid~~~~~~~~~~~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~-~~~~~~--~~~~iIV  146 (426)
T TIGR00483        70 GVTIDVAHWKFETDKYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHA-FLARTL--GINQLIV  146 (426)
T ss_pred             CceEEEEEEEEccCCeEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHH-HHHHHc--CCCeEEE
Confidence            445555566677778999999999999887766667889999999999998743211  11111 122221  2358999


Q ss_pred             EEeCCCCCCCCC------HHHHHhHcCccccCCcceEEEEeeecCCCCHHHHH
Q 029517          119 LANKQDLPDAVS------ADELARYLDLKKLDERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus       119 v~nK~Dl~~~~~------~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      ++||+|+.+...      .+++.++++........++++++||++|.|+.+++
T Consensus       147 viNK~Dl~~~~~~~~~~~~~ei~~~~~~~g~~~~~~~~i~iSA~~g~ni~~~~  199 (426)
T TIGR00483       147 AINKMDSVNYDEEEFEAIKKEVSNLIKKVGYNPDTVPFIPISAWNGDNVIKKS  199 (426)
T ss_pred             EEEChhccCccHHHHHHHHHHHHHHHHHcCCCcccceEEEeeccccccccccc
Confidence            999999964211      23444444322222235789999999999998744

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.

>PRK00089 era GTPase Era; Reviewed

Probab=99.63  E-value=3e-15  Score=117.43  Aligned_cols=145  Identities=17%  Similarity=0.199  Sum_probs=91.2

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccH--------HHHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLR--------SIWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~--------~~~~~~~~~~d~ii~   85 (192)
                      |||++|+|+++..+..+..++++...       ........+..+.+|||||.....        ......+..+|++++
T Consensus        18 KSTLin~L~g~~~~~vs~~~~tt~~~-------i~~i~~~~~~qi~~iDTPG~~~~~~~l~~~~~~~~~~~~~~~D~il~   90 (292)
T PRK00089         18 KSTLLNALVGQKISIVSPKPQTTRHR-------IRGIVTEDDAQIIFVDTPGIHKPKRALNRAMNKAAWSSLKDVDLVLF   90 (292)
T ss_pred             HHHHHHHHhCCceeecCCCCCccccc-------EEEEEEcCCceEEEEECCCCCCchhHHHHHHHHHHHHHHhcCCEEEE
Confidence            89999999876544333322222111       111233345789999999964322        223345788999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC-CCCHH-HHHhHcCccccCCcceEEEEeeecCCCCHHH
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD-AVSAD-ELARYLDLKKLDERVCMFEAVSGYDGFGIKE  163 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~-~~~~~-~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e  163 (192)
                      |+|+++.  +.....++......   .+.|+++|+||+|+.. ..... .+.++..    .....+++++||+++.|+++
T Consensus        91 vvd~~~~--~~~~~~~i~~~l~~---~~~pvilVlNKiDl~~~~~~l~~~~~~l~~----~~~~~~i~~iSA~~~~gv~~  161 (292)
T PRK00089         91 VVDADEK--IGPGDEFILEKLKK---VKTPVILVLNKIDLVKDKEELLPLLEELSE----LMDFAEIVPISALKGDNVDE  161 (292)
T ss_pred             EEeCCCC--CChhHHHHHHHHhh---cCCCEEEEEECCcCCCCHHHHHHHHHHHHh----hCCCCeEEEecCCCCCCHHH
Confidence            9999873  22222333333332   3689999999999973 11122 2222222    11246799999999999999


Q ss_pred             HHHHHHHHHHh
Q 029517          164 SVEWLVEVMER  174 (192)
Q Consensus       164 ~~~~i~~~i~~  174 (192)
                      ++++|.+.+..
T Consensus       162 L~~~L~~~l~~  172 (292)
T PRK00089        162 LLDVIAKYLPE  172 (292)
T ss_pred             HHHHHHHhCCC
Confidence            99999987754

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

Probab=99.63  E-value=5.3e-15  Score=125.05  Aligned_cols=107  Identities=19%  Similarity=0.248  Sum_probs=75.4

Q ss_pred             EEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCc---ccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCC----
Q 029517           57 KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACP---SRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAV----  129 (192)
Q Consensus        57 ~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~---~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~----  129 (192)
                      .+.+|||||++.|..++..+++.+|++++|+|+++.   .+++.+.     +...   .++|+++++||+|+....    
T Consensus        70 ~l~~iDTpG~e~f~~l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i~-----~l~~---~~vpiIVv~NK~Dl~~~~~~~~  141 (590)
T TIGR00491        70 GLLFIDTPGHEAFTNLRKRGGALADLAILIVDINEGFKPQTQEALN-----ILRM---YKTPFVVAANKIDRIPGWRSHE  141 (590)
T ss_pred             cEEEEECCCcHhHHHHHHHHHhhCCEEEEEEECCcCCCHhHHHHHH-----HHHH---cCCCEEEEEECCCccchhhhcc
Confidence            388999999999999999999999999999999874   3333322     1222   368999999999986310    


Q ss_pred             ----------CHHHHH------------hHcCcccc----------CCcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517          130 ----------SADELA------------RYLDLKKL----------DERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus       130 ----------~~~~~~------------~~~~~~~~----------~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                                ..+.+.            ++.+ ..+          .....+++++||++|+|++++.++|....
T Consensus       142 ~~~f~e~sak~~~~v~~~~~~~~~~lv~~l~~-~G~~~e~~~~i~~~~~~v~iVpVSA~tGeGideLl~~l~~l~  215 (590)
T TIGR00491       142 GRPFMESFSKQEIQVQQNLDTKVYNLVIKLHE-EGFEAERFDRVTDFTKTVAIIPISAITGEGIPELLTMLAGLA  215 (590)
T ss_pred             CchHHHHHHhhhHHHHHHHHHHHHHHHHHHHh-cCccHHhhhhhhhcCCCceEEEeecCCCCChhHHHHHHHHHH
Confidence                      011111            1111 001          02257899999999999999999987543

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.

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.63  E-value=2.4e-15  Score=123.76  Aligned_cols=151  Identities=17%  Similarity=0.129  Sum_probs=95.8

Q ss_pred             ccccHHHHHHHHhhhhccC---------------------CCCCCC--CCCCCcceEEEEEEecCEEEEEEeCCCCcccH
Q 029517           14 TKTEFHTLLEKLKSVYSNV---------------------EGLPPD--RIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLR   70 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~---------------------~~~~~~--~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~   70 (192)
                      |||++++|++..-.+....                     -+...+  ....|+...+..+..+++++.+|||||+++|.
T Consensus        19 KSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~~~~~~i~liDtpG~~~~~   98 (425)
T PRK12317         19 KSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHKKFETDKYYFTIVDCPGHRDFV   98 (425)
T ss_pred             hHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeEEEecCCeEEEEEECCCcccch
Confidence            8999999997654432210                     011111  33567777777788888999999999999887


Q ss_pred             HHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC------HHHHHhHcCccccC
Q 029517           71 SIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVS------ADELARYLDLKKLD  144 (192)
Q Consensus        71 ~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~------~~~~~~~~~~~~~~  144 (192)
                      ......++.+|++++|+|+++...+.....+...+....  ...|+++++||+|+.+...      .+++.++++.....
T Consensus        99 ~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~--~~~~iivviNK~Dl~~~~~~~~~~~~~~i~~~l~~~g~~  176 (425)
T PRK12317         99 KNMITGASQADAAVLVVAADDAGGVMPQTREHVFLARTL--GINQLIVAINKMDAVNYDEKRYEEVKEEVSKLLKMVGYK  176 (425)
T ss_pred             hhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHHc--CCCeEEEEEEccccccccHHHHHHHHHHHHHHHHhhCCC
Confidence            766566789999999999987211211111122222221  2347999999999975211      12444444321222


Q ss_pred             CcceEEEEeeecCCCCHHHHHH
Q 029517          145 ERVCMFEAVSGYDGFGIKESVE  166 (192)
Q Consensus       145 ~~~~~~~~~Sa~~~~gi~e~~~  166 (192)
                      ....+++++||++|.|+++.++
T Consensus       177 ~~~~~ii~iSA~~g~gi~~~~~  198 (425)
T PRK12317        177 PDDIPFIPVSAFEGDNVVKKSE  198 (425)
T ss_pred             cCcceEEEeecccCCCcccccc
Confidence            2246899999999999998553

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.63  E-value=6.2e-15  Score=118.74  Aligned_cols=142  Identities=19%  Similarity=0.262  Sum_probs=106.9

Q ss_pred             hhccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHH--------HHHhhhcCCEE
Q 029517           12 IFTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSI--------WEKYYEEAHAV   83 (192)
Q Consensus        12 ~~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~~~~~~~d~i   83 (192)
                      .=|||++|+|+++-.++++++++++++..       ...++.+++.+.+.||+|.......        ....++.||.+
T Consensus       228 vGKSSLLNaL~~~d~AIVTdI~GTTRDvi-------ee~i~i~G~pv~l~DTAGiRet~d~VE~iGIeRs~~~i~~ADlv  300 (454)
T COG0486         228 VGKSSLLNALLGRDRAIVTDIAGTTRDVI-------EEDINLNGIPVRLVDTAGIRETDDVVERIGIERAKKAIEEADLV  300 (454)
T ss_pred             CcHHHHHHHHhcCCceEecCCCCCccceE-------EEEEEECCEEEEEEecCCcccCccHHHHHHHHHHHHHHHhCCEE
Confidence            34899999999999999999999998886       5567888999999999995433222        23357889999


Q ss_pred             EEEEeCCCcc-cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHH
Q 029517           84 VFVIDAACPS-RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIK  162 (192)
Q Consensus        84 i~v~D~~~~~-s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  162 (192)
                      ++|+|.+.+. ..+....+       ....+.|+++|.||.|+......+.. +..       .+.+++.+||++|.|++
T Consensus       301 L~v~D~~~~~~~~d~~~~~-------~~~~~~~~i~v~NK~DL~~~~~~~~~-~~~-------~~~~~i~iSa~t~~Gl~  365 (454)
T COG0486         301 LFVLDASQPLDKEDLALIE-------LLPKKKPIIVVLNKADLVSKIELESE-KLA-------NGDAIISISAKTGEGLD  365 (454)
T ss_pred             EEEEeCCCCCchhhHHHHH-------hcccCCCEEEEEechhcccccccchh-hcc-------CCCceEEEEecCccCHH
Confidence            9999999852 22221111       11257899999999999875443333 222       24578999999999999


Q ss_pred             HHHHHHHHHHHhc
Q 029517          163 ESVEWLVEVMERS  175 (192)
Q Consensus       163 e~~~~i~~~i~~~  175 (192)
                      .+.++|.+.+...
T Consensus       366 ~L~~~i~~~~~~~  378 (454)
T COG0486         366 ALREAIKQLFGKG  378 (454)
T ss_pred             HHHHHHHHHHhhc
Confidence            9999998877654

>COG1159 Era GTPase [General function prediction only]

Probab=99.62  E-value=5.6e-15  Score=112.93  Aligned_cols=149  Identities=17%  Similarity=0.217  Sum_probs=103.7

Q ss_pred             hhccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcc--------cHHHHHHhhhcCCEE
Q 029517           12 IFTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPG--------LRSIWEKYYEEAHAV   83 (192)
Q Consensus        12 ~~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~~~~~d~i   83 (192)
                      .=||||+|+|+++..+++++.+++++...       -+-+..++.++.+.||||--.        ........+..+|++
T Consensus        17 vGKSTLlN~l~G~KisIvS~k~QTTR~~I-------~GI~t~~~~QiIfvDTPGih~pk~~l~~~m~~~a~~sl~dvDli   89 (298)
T COG1159          17 VGKSTLLNALVGQKISIVSPKPQTTRNRI-------RGIVTTDNAQIIFVDTPGIHKPKHALGELMNKAARSALKDVDLI   89 (298)
T ss_pred             CcHHHHHHHHhcCceEeecCCcchhhhhe-------eEEEEcCCceEEEEeCCCCCCcchHHHHHHHHHHHHHhccCcEE
Confidence            34899999999999999998888776663       222445678999999999321        111223356789999


Q ss_pred             EEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC-HHHHHhHcCccccCCcceEEEEeeecCCCCHH
Q 029517           84 VFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVS-ADELARYLDLKKLDERVCMFEAVSGYDGFGIK  162 (192)
Q Consensus        84 i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  162 (192)
                      ++|+|++.+..-  -.+++-..+..   .+.|+++++||+|...... ...+.+.+..   ......++++||++|.|++
T Consensus        90 lfvvd~~~~~~~--~d~~il~~lk~---~~~pvil~iNKID~~~~~~~l~~~~~~~~~---~~~f~~ivpiSA~~g~n~~  161 (298)
T COG1159          90 LFVVDADEGWGP--GDEFILEQLKK---TKTPVILVVNKIDKVKPKTVLLKLIAFLKK---LLPFKEIVPISALKGDNVD  161 (298)
T ss_pred             EEEEeccccCCc--cHHHHHHHHhh---cCCCeEEEEEccccCCcHHHHHHHHHHHHh---hCCcceEEEeeccccCCHH
Confidence            999999874222  22333333333   3689999999999876433 2333333331   1223479999999999999


Q ss_pred             HHHHHHHHHHHhc
Q 029517          163 ESVEWLVEVMERS  175 (192)
Q Consensus       163 e~~~~i~~~i~~~  175 (192)
                      .+.+.+...+...
T Consensus       162 ~L~~~i~~~Lpeg  174 (298)
T COG1159         162 TLLEIIKEYLPEG  174 (298)
T ss_pred             HHHHHHHHhCCCC
Confidence            9999998877643

>cd04163 Era Era subfamily

Probab=99.61  E-value=1.1e-14  Score=103.98  Aligned_cols=143  Identities=20%  Similarity=0.208  Sum_probs=88.2

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHH--------HHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRS--------IWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~--------~~~~~~~~~d~ii~   85 (192)
                      |||++|+|+++........       ...+..............+.+|||||......        .....+..+|++++
T Consensus        16 Kttl~~~l~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~i~~   88 (168)
T cd04163          16 KSTLLNALVGQKISIVSPK-------PQTTRNRIRGIYTDDDAQIIFVDTPGIHKPKKKLGERMVKAAWSALKDVDLVLF   88 (168)
T ss_pred             HHHHHHHHhCCceEeccCC-------CCceeceEEEEEEcCCeEEEEEECCCCCcchHHHHHHHHHHHHHHHHhCCEEEE
Confidence            7888888876532211111       11122222223444568899999999754322        23445788999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC-CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHH
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD-AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKES  164 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~  164 (192)
                      |+|++++.  .....++......   .+.|+++++||+|+.. .....+..+.+..   .....+++++|++++.|++++
T Consensus        89 v~d~~~~~--~~~~~~~~~~~~~---~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~~s~~~~~~~~~l  160 (168)
T cd04163          89 VVDASEPI--GEGDEFILELLKK---SKTPVILVLNKIDLVKDKEDLLPLLEKLKE---LGPFAEIFPISALKGENVDEL  160 (168)
T ss_pred             EEECCCcc--CchHHHHHHHHHH---hCCCEEEEEEchhccccHHHHHHHHHHHHh---ccCCCceEEEEeccCCChHHH
Confidence            99998762  2222233232222   2589999999999873 2222333333331   122468899999999999999


Q ss_pred             HHHHHHH
Q 029517          165 VEWLVEV  171 (192)
Q Consensus       165 ~~~i~~~  171 (192)
                      +++|.+.
T Consensus       161 ~~~l~~~  167 (168)
T cd04163         161 LEEIVKY  167 (168)
T ss_pred             HHHHHhh
Confidence            9998764

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.

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

Probab=99.60  E-value=3.5e-14  Score=98.01  Aligned_cols=157  Identities=20%  Similarity=0.304  Sum_probs=122.1

Q ss_pred             cccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE-EEEe-c--CEEEEEEeCCCCccc-HHHHHHhhhcCCEEEEEEeC
Q 029517           15 KTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG-RIEV-S--NSKLVFWDLGGQPGL-RSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        15 st~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~-~~~~-~--~~~~~i~D~~G~~~~-~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |-.--+++.|+....    ..+..++.||+...|. .++. .  .-.+.++||.|...+ ..+-..|++-+|++++||++
T Consensus        19 ~VGKTaileQl~yg~----~~~~~e~~pTiEDiY~~svet~rgarE~l~lyDTaGlq~~~~eLprhy~q~aDafVLVYs~   94 (198)
T KOG3883|consen   19 SVGKTAILEQLLYGN----HVPGTELHPTIEDIYVASVETDRGAREQLRLYDTAGLQGGQQELPRHYFQFADAFVLVYSP   94 (198)
T ss_pred             cccHHHHHHHHHhcc----CCCCCccccchhhheeEeeecCCChhheEEEeecccccCchhhhhHhHhccCceEEEEecC
Confidence            333446777777633    2345677888886554 2332 1  237999999998776 45667889999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      .+++||+++..+...|.+..+...+||++++||+|+.+  .++.+-+..|++     .-.+..++++|++...+-|.|..
T Consensus        95 ~d~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~~p~~vd~d~A~~Wa~-----rEkvkl~eVta~dR~sL~epf~~  169 (198)
T KOG3883|consen   95 MDPESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRAEPREVDMDVAQIWAK-----REKVKLWEVTAMDRPSLYEPFTY  169 (198)
T ss_pred             CCHHHHHHHHHHHHHHhhccccccccEEEEechhhcccchhcCHHHHHHHHh-----hhheeEEEEEeccchhhhhHHHH
Confidence            99999999888888887776667899999999999955  677888888887     55788999999999999999999


Q ss_pred             HHHHHHhcchhhh
Q 029517          168 LVEVMERSKRTEM  180 (192)
Q Consensus       168 i~~~i~~~~~~~~  180 (192)
                      +...+..-+.++.
T Consensus       170 l~~rl~~pqskS~  182 (198)
T KOG3883|consen  170 LASRLHQPQSKST  182 (198)
T ss_pred             HHHhccCCccccc
Confidence            9988766554433

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.60  E-value=1.1e-14  Score=124.10  Aligned_cols=146  Identities=17%  Similarity=0.149  Sum_probs=96.2

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCC--CCCCcceEEEEEEe-cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDR--IVPTVGLNIGRIEV-SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~--~~~T~g~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++++|.+...       +.+.++  ...|+...+..+.. .+..+.+|||||+++|.......+..+|++++|+|++
T Consensus        13 KTtLi~aLtg~~~-------dr~~eE~~rGiTI~l~~~~~~~~~g~~i~~IDtPGhe~fi~~m~~g~~~~D~~lLVVda~   85 (614)
T PRK10512         13 KTTLLQAITGVNA-------DRLPEEKKRGMTIDLGYAYWPQPDGRVLGFIDVPGHEKFLSNMLAGVGGIDHALLVVACD   85 (614)
T ss_pred             HHHHHHHHhCCCC-------ccchhcccCCceEEeeeEEEecCCCcEEEEEECCCHHHHHHHHHHHhhcCCEEEEEEECC
Confidence            7888888764321       222222  36677776666543 3467899999999999877777789999999999998


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCc-EEEEEeCCCCCCCCCH----HHHHhHcCccccCCcceEEEEeeecCCCCHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAP-LLILANKQDLPDAVSA----DELARYLDLKKLDERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~p-iiiv~nK~Dl~~~~~~----~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      +...-+ ..+.+. +...   .++| +++|+||+|+.+....    +++.+.+..  ......+++++||++|.|+++++
T Consensus        86 eg~~~q-T~ehl~-il~~---lgi~~iIVVlNKiDlv~~~~~~~v~~ei~~~l~~--~~~~~~~ii~VSA~tG~gI~~L~  158 (614)
T PRK10512         86 DGVMAQ-TREHLA-ILQL---TGNPMLTVALTKADRVDEARIAEVRRQVKAVLRE--YGFAEAKLFVTAATEGRGIDALR  158 (614)
T ss_pred             CCCcHH-HHHHHH-HHHH---cCCCeEEEEEECCccCCHHHHHHHHHHHHHHHHh--cCCCCCcEEEEeCCCCCCCHHHH
Confidence            643222 112222 2232   2455 6799999998752222    234344321  11124689999999999999999


Q ss_pred             HHHHHHHH
Q 029517          166 EWLVEVME  173 (192)
Q Consensus       166 ~~i~~~i~  173 (192)
                      ++|.+...
T Consensus       159 ~~L~~~~~  166 (614)
T PRK10512        159 EHLLQLPE  166 (614)
T ss_pred             HHHHHhhc
Confidence            99986543

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.60  E-value=2e-14  Score=121.90  Aligned_cols=157  Identities=18%  Similarity=0.180  Sum_probs=107.8

Q ss_pred             ccccHHHHHHHHhhhhc--cCCCCCC------CCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYS--NVEGLPP------DRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~--~~~~~~~------~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   85 (192)
                      |||++++|+++.-....  .+.....      .+...|+......+.+++.++.+|||||+.+|...+..+++.+|++++
T Consensus        14 KTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~~~~kinlIDTPGh~DF~~ev~~~l~~aD~alL   93 (594)
T TIGR01394        14 KTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRYNGTKINIVDTPGHADFGGEVERVLGMVDGVLL   93 (594)
T ss_pred             HHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEECCEEEEEEECCCHHHHHHHHHHHHHhCCEEEE
Confidence            89999999875322111  0111000      112345555555688889999999999999999999999999999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC---HHHHHhHcCcccc--CCcceEEEEeeecCCC-
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVS---ADELARYLDLKKL--DERVCMFEAVSGYDGF-  159 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~---~~~~~~~~~~~~~--~~~~~~~~~~Sa~~~~-  159 (192)
                      |+|+++.. ......++..+...    ++|+++++||+|+.++..   .+++.+.+.....  ....++++.+||++|. 
T Consensus        94 VVDa~~G~-~~qT~~~l~~a~~~----~ip~IVviNKiD~~~a~~~~v~~ei~~l~~~~g~~~e~l~~pvl~~SA~~g~~  168 (594)
T TIGR01394        94 LVDASEGP-MPQTRFVLKKALEL----GLKPIVVINKIDRPSARPDEVVDEVFDLFAELGADDEQLDFPIVYASGRAGWA  168 (594)
T ss_pred             EEeCCCCC-cHHHHHHHHHHHHC----CCCEEEEEECCCCCCcCHHHHHHHHHHHHHhhccccccccCcEEechhhcCcc
Confidence            99998643 44445666665543    689999999999975322   2333343321111  1235789999999995 


Q ss_pred             ---------CHHHHHHHHHHHHHhc
Q 029517          160 ---------GIKESVEWLVEVMERS  175 (192)
Q Consensus       160 ---------gi~e~~~~i~~~i~~~  175 (192)
                               |+..+|+.|++.+...
T Consensus       169 ~~~~~~~~~gi~~Lld~Iv~~lP~P  193 (594)
T TIGR01394       169 SLDLDDPSDNMAPLFDAIVRHVPAP  193 (594)
T ss_pred             cccCcccccCHHHHHHHHHHhCCCC
Confidence                     7999999999877644

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.

>KOG1489 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=99.60  E-value=1.6e-14  Score=110.87  Aligned_cols=140  Identities=26%  Similarity=0.361  Sum_probs=104.2

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCE-EEEEEeCCCCc-------ccHHHHHHhhhcCCEEEEEEeCCC
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNS-KLVFWDLGGQP-------GLRSIWEKYYEEAHAVVFVIDAAC   91 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~-~~~i~D~~G~~-------~~~~~~~~~~~~~d~ii~v~D~~~   91 (192)
                      ||++.++...++++++.+++..|++|.    +.+++. .+.+-|.||.-       -.......+++.|+.+++|+|++.
T Consensus       211 TLL~als~AKpkVa~YaFTTL~P~iG~----v~yddf~q~tVADiPGiI~GAh~nkGlG~~FLrHiER~~~l~fVvD~s~  286 (366)
T KOG1489|consen  211 TLLNALSRAKPKVAHYAFTTLRPHIGT----VNYDDFSQITVADIPGIIEGAHMNKGLGYKFLRHIERCKGLLFVVDLSG  286 (366)
T ss_pred             HHHHHhhccCCcccccceeeeccccce----eeccccceeEeccCccccccccccCcccHHHHHHHHhhceEEEEEECCC
Confidence            566666777788999999999999994    333333 49999999921       223345567889999999999998


Q ss_pred             c---ccHHHHHHHHHHHHhC-CCCCCCcEEEEEeCCCCCC-CCCH-HHHHhHcCccccCCcceEEEEeeecCCCCHHHHH
Q 029517           92 P---SRFEDSKTALEKVLRN-EDLQGAPLLILANKQDLPD-AVSA-DELARYLDLKKLDERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus        92 ~---~s~~~~~~~~~~i~~~-~~~~~~piiiv~nK~Dl~~-~~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      .   ..++.++.+..++..+ ....+.|.++|+||+|+++ +.+. +++...++       +..++++||++++|+.++.
T Consensus       287 ~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~eae~~~l~~L~~~lq-------~~~V~pvsA~~~egl~~ll  359 (366)
T KOG1489|consen  287 KQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLPEAEKNLLSSLAKRLQ-------NPHVVPVSAKSGEGLEELL  359 (366)
T ss_pred             cccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCchhHHHHHHHHHHHHcC-------CCcEEEeeeccccchHHHH
Confidence            8   7777777776666543 2346899999999999964 2222 44544444       3469999999999999999


Q ss_pred             HHHHH
Q 029517          166 EWLVE  170 (192)
Q Consensus       166 ~~i~~  170 (192)
                      +.|.+
T Consensus       360 ~~lr~  364 (366)
T KOG1489|consen  360 NGLRE  364 (366)
T ss_pred             HHHhh
Confidence            88754

>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=99.60  E-value=3.3e-14  Score=108.01  Aligned_cols=141  Identities=24%  Similarity=0.217  Sum_probs=91.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccH-------HHHHHhhhcCCEEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLR-------SIWEKYYEEAHAVVFV   86 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~-------~~~~~~~~~~d~ii~v   86 (192)
                      |||++|+|.+..    +.+.+++    .+|.....+.+...+..+++||+||..+..       .....+++++|++++|
T Consensus        13 KStLl~~Ltg~~----~~v~~~~----~tT~~~~~g~~~~~~~~i~l~DtpG~~~~~~~~~~~~~~~l~~~~~ad~il~V   84 (233)
T cd01896          13 KSTLLSKLTNTK----SEVAAYE----FTTLTCVPGVLEYKGAKIQLLDLPGIIEGAADGKGRGRQVIAVARTADLILMV   84 (233)
T ss_pred             HHHHHHHHHCCC----ccccCCC----CccccceEEEEEECCeEEEEEECCCcccccccchhHHHHHHHhhccCCEEEEE
Confidence            677777776542    2333333    333344445566678899999999974321       2344578999999999


Q ss_pred             EeCCCcc-cHHHHHHHHH----------------------------------------HHHhC-----------------
Q 029517           87 IDAACPS-RFEDSKTALE----------------------------------------KVLRN-----------------  108 (192)
Q Consensus        87 ~D~~~~~-s~~~~~~~~~----------------------------------------~i~~~-----------------  108 (192)
                      +|++++. ..+.+.+.++                                        .++..                 
T Consensus        85 ~D~t~~~~~~~~~~~~l~~~gi~l~~~~~~v~~~~~~~ggi~~~~~~~~~~~~~~~v~~~l~~~~i~~~~v~~~~~~~~~  164 (233)
T cd01896          85 LDATKPEGHREILERELEGVGIRLNKRPPNITIKKKKKGGINITSTVPLTKLDEKTIKAILREYKIHNADVLIREDITVD  164 (233)
T ss_pred             ecCCcchhHHHHHHHHHHHcCceecCCCCeEEEEEEecCCEEEeccCCCCCCCHHHHHHHHHHhCeeeEEEEEccCCCHH
Confidence            9998754 3333322221                                        11100                 


Q ss_pred             -------CCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517          109 -------EDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus       109 -------~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                             .....+|+++|+||+|+.   +.++...+..       ...++++||++|.|++++|+.+.+.+
T Consensus       165 ~~~~~~~~~~~y~p~iiV~NK~Dl~---~~~~~~~~~~-------~~~~~~~SA~~g~gi~~l~~~i~~~L  225 (233)
T cd01896         165 DLIDVIEGNRVYIPCLYVYNKIDLI---SIEELDLLAR-------QPNSVVISAEKGLNLDELKERIWDKL  225 (233)
T ss_pred             HHHHHHhCCceEeeEEEEEECccCC---CHHHHHHHhc-------CCCEEEEcCCCCCCHHHHHHHHHHHh
Confidence                   001347999999999985   3455554443       24588999999999999999998865

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=99.59  E-value=6.8e-15  Score=110.86  Aligned_cols=120  Identities=19%  Similarity=0.213  Sum_probs=78.9

Q ss_pred             CCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCccc---H---HHHHHHHHHHHhCCCCCCC
Q 029517           41 VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSR---F---EDSKTALEKVLRNEDLQGA  114 (192)
Q Consensus        41 ~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s---~---~~~~~~~~~i~~~~~~~~~  114 (192)
                      ..|.......+..++.++.+|||||+.+|...+...++.+|++|+|+|+++...   +   ......+......   ...
T Consensus        62 g~T~d~~~~~~~~~~~~i~liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~~~~~~---~~~  138 (219)
T cd01883          62 GVTIDVGLAKFETEKYRFTILDAPGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHALLARTL---GVK  138 (219)
T ss_pred             ccCeecceEEEeeCCeEEEEEECCChHHHHHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHHHHHHHc---CCC
Confidence            445555566677788999999999998888777777888999999999987421   1   1112222222222   236


Q ss_pred             cEEEEEeCCCCCCC-CC---HHHHHh----HcCccccCCcceEEEEeeecCCCCHHH
Q 029517          115 PLLILANKQDLPDA-VS---ADELAR----YLDLKKLDERVCMFEAVSGYDGFGIKE  163 (192)
Q Consensus       115 piiiv~nK~Dl~~~-~~---~~~~~~----~~~~~~~~~~~~~~~~~Sa~~~~gi~e  163 (192)
                      |+++++||+|+... .+   .+++.+    .++........++++++||++|.||++
T Consensus       139 ~iiivvNK~Dl~~~~~~~~~~~~i~~~l~~~l~~~~~~~~~~~ii~iSA~tg~gi~~  195 (219)
T cd01883         139 QLIVAVNKMDDVTVNWSEERYDEIKKELSPFLKKVGYNPKDVPFIPISGLTGDNLIE  195 (219)
T ss_pred             eEEEEEEccccccccccHHHHHHHHHHHHHHHHHcCCCcCCceEEEeecCcCCCCCc
Confidence            89999999999742 11   122222    222111122358899999999999973

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

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.59  E-value=6.8e-14  Score=106.49  Aligned_cols=155  Identities=19%  Similarity=0.208  Sum_probs=103.1

Q ss_pred             ccccHHHHHHHHhhhhc--cCCC--CCCC------CCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEE
Q 029517           14 TKTEFHTLLEKLKSVYS--NVEG--LPPD------RIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAV   83 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~--~~~~--~~~~------~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   83 (192)
                      |||+.++|+...-.+..  .+..  .+.+      ....|+......+..++.++.+|||||+.+|...+..+++.+|++
T Consensus        12 KTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~~~~~~~i~liDTPG~~~f~~~~~~~l~~aD~~   91 (237)
T cd04168          12 KTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASFQWEDTKVNLIDTPGHMDFIAEVERSLSVLDGA   91 (237)
T ss_pred             HHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEEEECCEEEEEEeCCCccchHHHHHHHHHHhCeE
Confidence            89999999876432111  1111  1111      123355555667788899999999999999999999999999999


Q ss_pred             EEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCC---CHHHH--------------------------
Q 029517           84 VFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAV---SADEL--------------------------  134 (192)
Q Consensus        84 i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~---~~~~~--------------------------  134 (192)
                      ++|+|+++.... ....++..+..    .++|+++++||+|+....   ..+++                          
T Consensus        92 IlVvd~~~g~~~-~~~~~~~~~~~----~~~P~iivvNK~D~~~a~~~~~~~~i~~~~~~~~~~~~~p~~~~~~~~~~~~  166 (237)
T cd04168          92 ILVISAVEGVQA-QTRILWRLLRK----LNIPTIIFVNKIDRAGADLEKVYQEIKEKLSSDIVPMQKVGLAPNICETNEI  166 (237)
T ss_pred             EEEEeCCCCCCH-HHHHHHHHHHH----cCCCEEEEEECccccCCCHHHHHHHHHHHHCCCeEEEECCcEeeeeeeeeec
Confidence            999999876543 23344443332    368999999999986311   01111                          


Q ss_pred             ----------------HhHcCccc--------------cCCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517          135 ----------------ARYLDLKK--------------LDERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus       135 ----------------~~~~~~~~--------------~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                                      ..+++-..              ....-+|++..||.++.|+..+++.+.+.+.
T Consensus       167 ~~~l~e~vae~dd~l~e~yl~~~~~~~~el~~~l~~~~~~~~~~Pv~~gsa~~~~Gv~~ll~~~~~~~p  235 (237)
T cd04168         167 DDEFWETLAEGDDELLEKYLEGGPIEELELDNELSARIAKRKVFPVYHGSALKGIGIEELLEGITKLFP  235 (237)
T ss_pred             cHHHHHHHhcCCHHHHHHHhCCCCCCHHHHHHHHHHHHHhCCeEEEEEccccCCcCHHHHHHHHHHhcC
Confidence                            11111000              1234578888999999999999999987653

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.

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.59  E-value=2.2e-14  Score=105.95  Aligned_cols=109  Identities=24%  Similarity=0.272  Sum_probs=73.3

Q ss_pred             CEEEEEEeCCCC----------cccHHHHHHhhhcC---CEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEe
Q 029517           55 NSKLVFWDLGGQ----------PGLRSIWEKYYEEA---HAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILAN  121 (192)
Q Consensus        55 ~~~~~i~D~~G~----------~~~~~~~~~~~~~~---d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~n  121 (192)
                      +..+.+|||||.          +.+......+++.+   +++++|+|.+.+.+...  .++......   .++|+++++|
T Consensus        69 ~~~l~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~--~~i~~~l~~---~~~~~iiv~n  143 (196)
T PRK00454         69 NDKLRLVDLPGYGYAKVSKEEKEKWQKLIEEYLRTRENLKGVVLLIDSRHPLKELD--LQMIEWLKE---YGIPVLIVLT  143 (196)
T ss_pred             CCeEEEeCCCCCCCcCCCchHHHHHHHHHHHHHHhCccceEEEEEEecCCCCCHHH--HHHHHHHHH---cCCcEEEEEE
Confidence            468999999994          34444556666654   67888899876544332  222222232   3689999999


Q ss_pred             CCCCCCCCCHH----HHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517          122 KQDLPDAVSAD----ELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus       122 K~Dl~~~~~~~----~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      |+|+......+    .+.+.+.     ....+++++||+++.|++++++.|.+.+.
T Consensus       144 K~Dl~~~~~~~~~~~~i~~~l~-----~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~  194 (196)
T PRK00454        144 KADKLKKGERKKQLKKVRKALK-----FGDDEVILFSSLKKQGIDELRAAIAKWLA  194 (196)
T ss_pred             CcccCCHHHHHHHHHHHHHHHH-----hcCCceEEEEcCCCCCHHHHHHHHHHHhc
Confidence            99986532222    2333333     22578899999999999999999987654

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.58  E-value=1.1e-14  Score=119.05  Aligned_cols=114  Identities=18%  Similarity=0.133  Sum_probs=79.7

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC----
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVS----  130 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~----  130 (192)
                      ...+.+||+||+++|...+......+|++++|+|++++.......+.+..+...   ...|+++++||+|+.+...    
T Consensus        79 ~~~i~liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~~l~~~---gi~~iIVvvNK~Dl~~~~~~~~~  155 (406)
T TIGR03680        79 LRRVSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTKEHLMALEII---GIKNIVIVQNKIDLVSKEKALEN  155 (406)
T ss_pred             ccEEEEEECCCHHHHHHHHHHHHHHCCEEEEEEECCCCccccchHHHHHHHHHc---CCCeEEEEEEccccCCHHHHHHH
Confidence            468999999999999888888888999999999998643112222233322222   2357999999999875221    


Q ss_pred             HHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517          131 ADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      .+++.+++..  .....++++++||++|.|+++++++|...+.
T Consensus       156 ~~~i~~~l~~--~~~~~~~ii~vSA~~g~gi~~L~e~L~~~l~  196 (406)
T TIGR03680       156 YEEIKEFVKG--TVAENAPIIPVSALHNANIDALLEAIEKFIP  196 (406)
T ss_pred             HHHHHhhhhh--cccCCCeEEEEECCCCCChHHHHHHHHHhCC
Confidence            2333333321  0122578999999999999999999988654

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>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=99.58  E-value=3e-15  Score=101.97  Aligned_cols=105  Identities=23%  Similarity=0.428  Sum_probs=71.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS   93 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~   93 (192)
                      |||++++|++....    ..........++..............+.+||++|++.+...+...+.++|++++|||++++.
T Consensus        12 KTsLi~~l~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~d~~ilv~D~s~~~   87 (119)
T PF08477_consen   12 KTSLIRRLCGGEFP----DNSVPEETSEITIGVDVIVVDGDRQSLQFWDFGGQEEFYSQHQFFLKKADAVILVYDLSDPE   87 (119)
T ss_dssp             HHHHHHHHHHSS------------SSTTSCEEEEEEEETTEEEEEEEEEESSSHCHHCTSHHHHHHSCEEEEEEECCGHH
T ss_pred             HHHHHHHHhcCCCc----ccccccccCCCcEEEEEEEecCCceEEEEEecCccceecccccchhhcCcEEEEEEcCCChH
Confidence            77888877765443    00111223334444444444444556999999999988887777799999999999999999


Q ss_pred             cHHHHHHH---HHHHHhCCCCCCCcEEEEEeCCC
Q 029517           94 RFEDSKTA---LEKVLRNEDLQGAPLLILANKQD  124 (192)
Q Consensus        94 s~~~~~~~---~~~i~~~~~~~~~piiiv~nK~D  124 (192)
                      +++.+..+   +..+....  .++|+++|+||.|
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            99887555   44444322  4699999999998

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.

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.57  E-value=3.7e-14  Score=120.23  Aligned_cols=106  Identities=21%  Similarity=0.287  Sum_probs=74.1

Q ss_pred             EEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCC---cccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC----
Q 029517           58 LVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAAC---PSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVS----  130 (192)
Q Consensus        58 ~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~---~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~----  130 (192)
                      +.+|||||++.|..++...++.+|++++|+|+++   +.+++.+..    + ..   .++|+++++||+|+.....    
T Consensus        73 i~~iDTPG~e~f~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~~----~-~~---~~vpiIvviNK~D~~~~~~~~~~  144 (586)
T PRK04004         73 LLFIDTPGHEAFTNLRKRGGALADIAILVVDINEGFQPQTIEAINI----L-KR---RKTPFVVAANKIDRIPGWKSTED  144 (586)
T ss_pred             EEEEECCChHHHHHHHHHhHhhCCEEEEEEECCCCCCHhHHHHHHH----H-HH---cCCCEEEEEECcCCchhhhhhcC
Confidence            6899999999999998888899999999999987   344443322    2 22   4689999999999852100    


Q ss_pred             ----------HHH-----------HHhHcCccccC----------CcceEEEEeeecCCCCHHHHHHHHHHH
Q 029517          131 ----------ADE-----------LARYLDLKKLD----------ERVCMFEAVSGYDGFGIKESVEWLVEV  171 (192)
Q Consensus       131 ----------~~~-----------~~~~~~~~~~~----------~~~~~~~~~Sa~~~~gi~e~~~~i~~~  171 (192)
                                ...           +...+....+.          ....+++++||++|.|++++.+.+...
T Consensus       145 ~~~~e~~~~~~~~v~~~f~~~l~ev~~~L~~~g~~~e~~~~~~~~~~~v~ivpiSA~tGeGi~dLl~~i~~~  216 (586)
T PRK04004        145 APFLESIEKQSQRVQQELEEKLYELIGQLSELGFSADRFDRVKDFTKTVAIVPVSAKTGEGIPDLLMVLAGL  216 (586)
T ss_pred             chHHHHHhhhhHHHHHHHHHHHHHHHHHHHhcCCChhhhhhhhccCCCceEeeccCCCCCChHHHHHHHHHH
Confidence                      011           11111111111          135789999999999999999988653

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.57  E-value=5.3e-14  Score=113.15  Aligned_cols=152  Identities=22%  Similarity=0.254  Sum_probs=111.3

Q ss_pred             hhccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCC----------cccHHH-HHHhhhcC
Q 029517           12 IFTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQ----------PGLRSI-WEKYYEEA   80 (192)
Q Consensus        12 ~~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~----------~~~~~~-~~~~~~~~   80 (192)
                      .=|||++|+|+++-..+++..++++++..       ...+..++.++.+.||+|.          +.|... ....+..+
T Consensus       189 vGKSsLiN~ilgeeR~Iv~~~aGTTRD~I-------~~~~e~~~~~~~liDTAGiRrk~ki~e~~E~~Sv~rt~~aI~~a  261 (444)
T COG1160         189 VGKSSLINAILGEERVIVSDIAGTTRDSI-------DIEFERDGRKYVLIDTAGIRRKGKITESVEKYSVARTLKAIERA  261 (444)
T ss_pred             CCchHHHHHhccCceEEecCCCCccccce-------eeeEEECCeEEEEEECCCCCcccccccceEEEeehhhHhHHhhc
Confidence            34899999999999999999999888875       4457777889999999993          333332 34467889


Q ss_pred             CEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCC--CCHHHHHhHcCccccCCcceEEEEeeecCC
Q 029517           81 HAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDA--VSADELARYLDLKKLDERVCMFEAVSGYDG  158 (192)
Q Consensus        81 d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  158 (192)
                      |.+++|+|++.+-+-+.  .-+..+...   .+.+++++.||.|+.+.  ...++....+..........+.+.+||++|
T Consensus       262 ~vvllviDa~~~~~~qD--~~ia~~i~~---~g~~~vIvvNKWDl~~~~~~~~~~~k~~i~~~l~~l~~a~i~~iSA~~~  336 (444)
T COG1160         262 DVVLLVIDATEGISEQD--LRIAGLIEE---AGRGIVIVVNKWDLVEEDEATMEEFKKKLRRKLPFLDFAPIVFISALTG  336 (444)
T ss_pred             CEEEEEEECCCCchHHH--HHHHHHHHH---cCCCeEEEEEccccCCchhhHHHHHHHHHHHHhccccCCeEEEEEecCC
Confidence            99999999987743332  333343333   57999999999998764  444444444432111234678999999999


Q ss_pred             CCHHHHHHHHHHHHHhc
Q 029517          159 FGIKESVEWLVEVMERS  175 (192)
Q Consensus       159 ~gi~e~~~~i~~~i~~~  175 (192)
                      .|+.++|+++.+.....
T Consensus       337 ~~i~~l~~~i~~~~~~~  353 (444)
T COG1160         337 QGLDKLFEAIKEIYECA  353 (444)
T ss_pred             CChHHHHHHHHHHHHHh
Confidence            99999999988765543

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

Probab=99.56  E-value=1.3e-14  Score=101.40  Aligned_cols=144  Identities=33%  Similarity=0.521  Sum_probs=118.2

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSK   99 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~   99 (192)
                      ||++.++.       .-...+.||....-.++...+++++.+|.+||...+..|..|+-.+|++++.+|+-|.+.+.+.+
T Consensus        35 TLLHMLKd-------Drl~qhvPTlHPTSE~l~Ig~m~ftt~DLGGH~qArr~wkdyf~~v~~iv~lvda~d~er~~es~  107 (193)
T KOG0077|consen   35 TLLHMLKD-------DRLGQHVPTLHPTSEELSIGGMTFTTFDLGGHLQARRVWKDYFPQVDAIVYLVDAYDQERFAESK  107 (193)
T ss_pred             hHHHHHcc-------ccccccCCCcCCChHHheecCceEEEEccccHHHHHHHHHHHHhhhceeEeeeehhhHHHhHHHH
Confidence            78888884       33455677777766677778899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCc------------cccCCcceEEEEeeecCCCCHHHHHHH
Q 029517          100 TALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDL------------KKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus       100 ~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~------------~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      ..++.++........|+++.+||+|.+.+.+.++....+.+            .....+....+.||...+.|.-+.|.|
T Consensus       108 ~eld~ll~~e~la~vp~lilgnKId~p~a~se~~l~~~l~l~~~t~~~~~v~~~~~~~rp~evfmcsi~~~~gy~e~fkw  187 (193)
T KOG0077|consen  108 KELDALLSDESLATVPFLILGNKIDIPYAASEDELRFHLGLSNFTTGKGKVNLTDSNVRPLEVFMCSIVRKMGYGEGFKW  187 (193)
T ss_pred             HHHHHHHhHHHHhcCcceeecccccCCCcccHHHHHHHHHHHHHhcccccccccCCCCCeEEEEEEEEEccCccceeeee
Confidence            99999988766678999999999999987766665544431            112234678899999999999999988


Q ss_pred             HHH
Q 029517          168 LVE  170 (192)
Q Consensus       168 i~~  170 (192)
                      +..
T Consensus       188 l~q  190 (193)
T KOG0077|consen  188 LSQ  190 (193)
T ss_pred             hhh
Confidence            764

>KOG1673 consensus Ras GTPases [General function prediction only]

Probab=99.56  E-value=7.6e-15  Score=101.55  Aligned_cols=141  Identities=16%  Similarity=0.234  Sum_probs=111.5

Q ss_pred             hccCCCCCCCCCCCCcceEEEE----EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHH
Q 029517           29 YSNVEGLPPDRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEK  104 (192)
Q Consensus        29 ~~~~~~~~~~~~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~  104 (192)
                      +..+++...+++..|.|+++..    +.+-.+.+.|||.+|++++..+.+-.++.+-++++|+|.+.++++..+.+|..+
T Consensus        38 vkYV~~~~de~~~q~~GvN~mdkt~~i~~t~IsfSIwdlgG~~~~~n~lPiac~dsvaIlFmFDLt~r~TLnSi~~WY~Q  117 (205)
T KOG1673|consen   38 VKYVQNEYDEEYTQTLGVNFMDKTVSIRGTDISFSIWDLGGQREFINMLPIACKDSVAILFMFDLTRRSTLNSIKEWYRQ  117 (205)
T ss_pred             hhhhcchhHHHHHHHhCccceeeEEEecceEEEEEEEecCCcHhhhccCceeecCcEEEEEEEecCchHHHHHHHHHHHH
Confidence            3445566667888899999874    444567899999999999999999899999999999999999999999999999


Q ss_pred             HHhCCCCCCCcEEEEEeCCCCCCCCCHH-------HHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhcc
Q 029517          105 VLRNEDLQGAPLLILANKQDLPDAVSAD-------ELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       105 i~~~~~~~~~piiiv~nK~Dl~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~~  176 (192)
                      ...... .-+|+ +||+|.|+--..+.+       +++.+++     ..+.+.+.+|+..+.||+.+|.-+..++.+..
T Consensus       118 Ar~~Nk-tAiPi-lvGTKyD~fi~lp~e~Q~~I~~qar~YAk-----~mnAsL~F~Sts~sINv~KIFK~vlAklFnL~  189 (205)
T KOG1673|consen  118 ARGLNK-TAIPI-LVGTKYDLFIDLPPELQETISRQARKYAK-----VMNASLFFCSTSHSINVQKIFKIVLAKLFNLP  189 (205)
T ss_pred             HhccCC-ccceE-EeccchHhhhcCCHHHHHHHHHHHHHHHH-----HhCCcEEEeeccccccHHHHHHHHHHHHhCCc
Confidence            877643 34666 679999974322222       2344444     55788999999999999999999988877653

>PRK10218 GTP-binding protein; Provisional

Probab=99.55  E-value=1.3e-13  Score=117.13  Aligned_cols=157  Identities=17%  Similarity=0.193  Sum_probs=103.1

Q ss_pred             ccccHHHHHHHHhhhhccCC--CCC--CCCCCCCcceEE----EEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVE--GLP--PDRIVPTVGLNI----GRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~--~~~--~~~~~~T~g~~~----~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   85 (192)
                      |||++++|+.+.-.......  ...  ....+++.|+.+    ..+..+++++.+|||||+.+|...+..+++.+|++|+
T Consensus        18 KTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~~~~~~inliDTPG~~df~~~v~~~l~~aDg~IL   97 (607)
T PRK10218         18 KTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWNDYRINIVDTPGHADFGGEVERVMSMVDSVLL   97 (607)
T ss_pred             HHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEecCCEEEEEEECCCcchhHHHHHHHHHhCCEEEE
Confidence            89999999864322111100  000  011233444443    3566788999999999999999999999999999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC---HHHHHhHcCc-ccc-CCcceEEEEeeecCCC-
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVS---ADELARYLDL-KKL-DERVCMFEAVSGYDGF-  159 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~---~~~~~~~~~~-~~~-~~~~~~~~~~Sa~~~~-  159 (192)
                      |+|+++....+ ...++..+..    .++|.++++||+|+..+..   .+++.+.+.. ... ....++++.+||++|. 
T Consensus        98 VVDa~~G~~~q-t~~~l~~a~~----~gip~IVviNKiD~~~a~~~~vl~ei~~l~~~l~~~~~~~~~PVi~~SA~~G~~  172 (607)
T PRK10218         98 VVDAFDGPMPQ-TRFVTKKAFA----YGLKPIVVINKVDRPGARPDWVVDQVFDLFVNLDATDEQLDFPIVYASALNGIA  172 (607)
T ss_pred             EEecccCccHH-HHHHHHHHHH----cCCCEEEEEECcCCCCCchhHHHHHHHHHHhccCccccccCCCEEEeEhhcCcc
Confidence            99998754332 2333333333    3689999999999976432   2344444321 111 1235789999999998 


Q ss_pred             ---------CHHHHHHHHHHHHHhc
Q 029517          160 ---------GIKESVEWLVEVMERS  175 (192)
Q Consensus       160 ---------gi~e~~~~i~~~i~~~  175 (192)
                               |+..+++.|.+.+...
T Consensus       173 ~~~~~~~~~~i~~Lld~Ii~~iP~P  197 (607)
T PRK10218        173 GLDHEDMAEDMTPLYQAIVDHVPAP  197 (607)
T ss_pred             cCCccccccchHHHHHHHHHhCCCC
Confidence                     5888888888776543

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.55  E-value=1e-13  Score=103.60  Aligned_cols=117  Identities=16%  Similarity=0.134  Sum_probs=75.1

Q ss_pred             CCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEe
Q 029517           42 PTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILAN  121 (192)
Q Consensus        42 ~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~n  121 (192)
                      .|.......+...+.++.+|||||+++|.......++.+|++++|+|++.+..-.. .... .+....  ...++++|+|
T Consensus        63 ~T~~~~~~~~~~~~~~~~liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~~~~~~-~~~~-~~~~~~--~~~~iIvviN  138 (208)
T cd04166          63 ITIDVAYRYFSTPKRKFIIADTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQT-RRHS-YILSLL--GIRHVVVAVN  138 (208)
T ss_pred             cCeecceeEEecCCceEEEEECCcHHHHHHHHHHhhhhCCEEEEEEECCCCccHhH-HHHH-HHHHHc--CCCcEEEEEE
Confidence            34444455566677899999999999887777777899999999999986532211 1111 222221  2246788999


Q ss_pred             CCCCCCCCC--H----HHHHhHcCccccCCcceEEEEeeecCCCCHHHH
Q 029517          122 KQDLPDAVS--A----DELARYLDLKKLDERVCMFEAVSGYDGFGIKES  164 (192)
Q Consensus       122 K~Dl~~~~~--~----~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~  164 (192)
                      |+|+.+...  .    .++.+++.  .+.....+++++||++|.|+.+.
T Consensus       139 K~D~~~~~~~~~~~i~~~~~~~~~--~~~~~~~~ii~iSA~~g~ni~~~  185 (208)
T cd04166         139 KMDLVDYSEEVFEEIVADYLAFAA--KLGIEDITFIPISALDGDNVVSR  185 (208)
T ss_pred             chhcccCCHHHHHHHHHHHHHHHH--HcCCCCceEEEEeCCCCCCCccC
Confidence            999875211  1    12222222  11122356999999999999864

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.

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=99.55  E-value=3.2e-14  Score=103.87  Aligned_cols=132  Identities=20%  Similarity=0.261  Sum_probs=77.8

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCc----------ccHHHHHHhhhc---C
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQP----------GLRSIWEKYYEE---A   80 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~----------~~~~~~~~~~~~---~   80 (192)
                      |||++|+|.+...  ...+    ......|.++.+...+  . .+.+|||||..          .+......+++.   +
T Consensus        31 KStlin~l~~~~~--~~~~----~~~~~~t~~~~~~~~~--~-~~~liDtpG~~~~~~~~~~~~~~~~~~~~~l~~~~~~  101 (179)
T TIGR03598        31 KSSLINALTNRKK--LART----SKTPGRTQLINFFEVN--D-GFRLVDLPGYGYAKVSKEEKEKWQKLIEEYLEKRENL  101 (179)
T ss_pred             HHHHHHHHhCCCC--cccc----cCCCCcceEEEEEEeC--C-cEEEEeCCCCccccCChhHHHHHHHHHHHHHHhChhh
Confidence            6777777765420  0111    1122234444433332  2 68999999952          234444456654   5


Q ss_pred             CEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCC----CHHHHHhHcCccccCCcceEEEEeeec
Q 029517           81 HAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAV----SADELARYLDLKKLDERVCMFEAVSGY  156 (192)
Q Consensus        81 d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~----~~~~~~~~~~~~~~~~~~~~~~~~Sa~  156 (192)
                      +++++|+|++++-+....  .+......   .++|+++++||+|+....    ..+++.+.+...   ....+++++||+
T Consensus       102 ~~ii~vvd~~~~~~~~~~--~~~~~~~~---~~~pviiv~nK~D~~~~~~~~~~~~~i~~~l~~~---~~~~~v~~~Sa~  173 (179)
T TIGR03598       102 KGVVLLMDIRHPLKELDL--EMLEWLRE---RGIPVLIVLTKADKLKKSELNKQLKKIKKALKKD---ADDPSVQLFSSL  173 (179)
T ss_pred             cEEEEEecCCCCCCHHHH--HHHHHHHH---cCCCEEEEEECcccCCHHHHHHHHHHHHHHHhhc---cCCCceEEEECC
Confidence            799999999875444443  22223333   368999999999987522    233444444411   123589999999


Q ss_pred             CCCCHH
Q 029517          157 DGFGIK  162 (192)
Q Consensus       157 ~~~gi~  162 (192)
                      +|+|++
T Consensus       174 ~g~gi~  179 (179)
T TIGR03598       174 KKTGID  179 (179)
T ss_pred             CCCCCC
Confidence            999974

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.

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=99.55  E-value=5.4e-14  Score=115.01  Aligned_cols=113  Identities=18%  Similarity=0.147  Sum_probs=76.8

Q ss_pred             EEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc-cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC----
Q 029517           56 SKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS-RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVS----  130 (192)
Q Consensus        56 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~-s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~----  130 (192)
                      ..+.+|||||+++|..........+|++++|+|++++. .-+. ...+..+...   ...|+++++||+|+.+...    
T Consensus        85 ~~i~liDtPG~~~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t-~~~l~~l~~~---~i~~iiVVlNK~Dl~~~~~~~~~  160 (411)
T PRK04000         85 RRVSFVDAPGHETLMATMLSGAALMDGAILVIAANEPCPQPQT-KEHLMALDII---GIKNIVIVQNKIDLVSKERALEN  160 (411)
T ss_pred             cEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCCChhH-HHHHHHHHHc---CCCcEEEEEEeeccccchhHHHH
Confidence            68999999999988776655566789999999998643 1221 1222222222   2347999999999975322    


Q ss_pred             HHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          131 ADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      .+++.++++.  ......+++++||++|.|+++++++|.+.+..
T Consensus       161 ~~~i~~~l~~--~~~~~~~ii~vSA~~g~gI~~L~~~L~~~l~~  202 (411)
T PRK04000        161 YEQIKEFVKG--TVAENAPIIPVSALHKVNIDALIEAIEEEIPT  202 (411)
T ss_pred             HHHHHHHhcc--ccCCCCeEEEEECCCCcCHHHHHHHHHHhCCC
Confidence            1334444331  01235789999999999999999999886643

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.55  E-value=3.4e-14  Score=123.55  Aligned_cols=139  Identities=19%  Similarity=0.211  Sum_probs=93.4

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHH----------HHHhh--hcCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSI----------WEKYY--EEAH   81 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~----------~~~~~--~~~d   81 (192)
                      |||+||+|.+...    ++.+.    ...|.......+..++.++.+|||||+.++...          ...++  +.+|
T Consensus        16 KSTLfN~Ltg~~~----~vgn~----pGvTve~k~g~~~~~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~~l~~~~aD   87 (772)
T PRK09554         16 KTTLFNQLTGARQ----RVGNW----AGVTVERKEGQFSTTDHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDAD   87 (772)
T ss_pred             HHHHHHHHhCCCC----ccCCC----CCceEeeEEEEEEcCceEEEEEECCCccccccccccccHHHHHHHHHHhccCCC
Confidence            8899998865432    22232    233444444556777889999999998765321          22233  4799


Q ss_pred             EEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC-HHHHHhHcCccccCCcceEEEEeeecCCCC
Q 029517           82 AVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVS-ADELARYLDLKKLDERVCMFEAVSGYDGFG  160 (192)
Q Consensus        82 ~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g  160 (192)
                      ++++|+|+++.++   ...+..++.+.    ++|+++++||+|+.+... ..+..+..+     ..+.+++++||++|.|
T Consensus        88 ~vI~VvDat~ler---~l~l~~ql~e~----giPvIvVlNK~Dl~~~~~i~id~~~L~~-----~LG~pVvpiSA~~g~G  155 (772)
T PRK09554         88 LLINVVDASNLER---NLYLTLQLLEL----GIPCIVALNMLDIAEKQNIRIDIDALSA-----RLGCPVIPLVSTRGRG  155 (772)
T ss_pred             EEEEEecCCcchh---hHHHHHHHHHc----CCCEEEEEEchhhhhccCcHHHHHHHHH-----HhCCCEEEEEeecCCC
Confidence            9999999987543   33444454433    689999999999864222 222333222     3467899999999999


Q ss_pred             HHHHHHHHHHHH
Q 029517          161 IKESVEWLVEVM  172 (192)
Q Consensus       161 i~e~~~~i~~~i  172 (192)
                      ++++.+.+.+..
T Consensus       156 IdeL~~~I~~~~  167 (772)
T PRK09554        156 IEALKLAIDRHQ  167 (772)
T ss_pred             HHHHHHHHHHhh
Confidence            999999988754

>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]

Probab=99.53  E-value=1.1e-13  Score=112.88  Aligned_cols=116  Identities=17%  Similarity=0.180  Sum_probs=88.0

Q ss_pred             ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHH
Q 029517           53 VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSAD  132 (192)
Q Consensus        53 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~  132 (192)
                      +..+.++++|||||-+|+.....-+..|+|+|+|+|+...-.-+.+..+...+.     .+.-+|.|+||+|++.+. .+
T Consensus       122 ~~~ylLNLIDTPGHvDFs~EVsRslaac~G~lLvVDA~qGvqAQT~anf~lAfe-----~~L~iIpVlNKIDlp~ad-pe  195 (650)
T KOG0462|consen  122 GQSYLLNLIDTPGHVDFSGEVSRSLAACDGALLVVDASQGVQAQTVANFYLAFE-----AGLAIIPVLNKIDLPSAD-PE  195 (650)
T ss_pred             CCceEEEeecCCCcccccceehehhhhcCceEEEEEcCcCchHHHHHHHHHHHH-----cCCeEEEeeeccCCCCCC-HH
Confidence            345899999999999999999999999999999999987754555444444332     357789999999999753 33


Q ss_pred             HHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          133 ELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                      .+.+.+. +.+....-+++.+|||+|.|+.+++++|++.+..-
T Consensus       196 ~V~~q~~-~lF~~~~~~~i~vSAK~G~~v~~lL~AII~rVPpP  237 (650)
T KOG0462|consen  196 RVENQLF-ELFDIPPAEVIYVSAKTGLNVEELLEAIIRRVPPP  237 (650)
T ss_pred             HHHHHHH-HHhcCCccceEEEEeccCccHHHHHHHHHhhCCCC
Confidence            3333322 11124566899999999999999999999988643

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.53  E-value=2.7e-13  Score=100.26  Aligned_cols=144  Identities=15%  Similarity=0.083  Sum_probs=88.6

Q ss_pred             ccccHHHHHHHHhhhhcc------CCCCCCC--CCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSN------VEGLPPD--RIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~------~~~~~~~--~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   85 (192)
                      |||+.++|++........      ..+....  ....|+......+..++.++.++||||+.+|.......+..+|++++
T Consensus        15 KTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~~~~~~~~~~~~~~D~~il   94 (195)
T cd01884          15 KTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTAHVEYETANRHYAHVDCPGHADYIKNMITGAAQMDGAIL   94 (195)
T ss_pred             HHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEeeeeEecCCCeEEEEEECcCHHHHHHHHHHHhhhCCEEEE
Confidence            899999998764321000      0001111  22334444444566667889999999999888877778889999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCc-EEEEEeCCCCCCCCC-H----HHHHhHcCccccCCcceEEEEeeecCCC
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAP-LLILANKQDLPDAVS-A----DELARYLDLKKLDERVCMFEAVSGYDGF  159 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~p-iiiv~nK~Dl~~~~~-~----~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  159 (192)
                      |+|+...-.-+ ....+..+...    ++| +++++||+|+..... .    +++.+.+..........+++++||++|.
T Consensus        95 Vvda~~g~~~~-~~~~~~~~~~~----~~~~iIvviNK~D~~~~~~~~~~~~~~i~~~l~~~g~~~~~v~iipiSa~~g~  169 (195)
T cd01884          95 VVSATDGPMPQ-TREHLLLARQV----GVPYIVVFLNKADMVDDEELLELVEMEVRELLSKYGFDGDNTPIVRGSALKAL  169 (195)
T ss_pred             EEECCCCCcHH-HHHHHHHHHHc----CCCcEEEEEeCCCCCCcHHHHHHHHHHHHHHHHHhcccccCCeEEEeeCcccc
Confidence            99997653222 22333333322    466 789999999863111 1    1233333211122346889999999999


Q ss_pred             CHH
Q 029517          160 GIK  162 (192)
Q Consensus       160 gi~  162 (192)
                      |+.
T Consensus       170 n~~  172 (195)
T cd01884         170 EGD  172 (195)
T ss_pred             CCC
Confidence            863

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.

>smart00275 G_alpha G protein alpha subunit

Probab=99.50  E-value=7.5e-13  Score=105.74  Aligned_cols=137  Identities=17%  Similarity=0.320  Sum_probs=109.1

Q ss_pred             CCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCC----------cccHHHHHHHHHHHHhC
Q 029517           39 RIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAAC----------PSRFEDSKTALEKVLRN  108 (192)
Q Consensus        39 ~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~----------~~s~~~~~~~~~~i~~~  108 (192)
                      ...||.|++...+..+++.+.+||++|+...+..|..++.+++++|+|+|+++          ...+.+....+..+...
T Consensus       167 ~r~~T~Gi~~~~f~~~~~~~~~~DvgGqr~~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~  246 (342)
T smart00275      167 SRVPTTGIQETAFIVKKLFFRMFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNS  246 (342)
T ss_pred             eeCCccceEEEEEEECCeEEEEEecCCchhhhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHHcC
Confidence            45789999999999999999999999999999999999999999999999986          34677888888888887


Q ss_pred             CCCCCCcEEEEEeCCCCCC-----------------CCCHHHHHhHcCc----ccc--CCcceEEEEeeecCCCCHHHHH
Q 029517          109 EDLQGAPLLILANKQDLPD-----------------AVSADELARYLDL----KKL--DERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus       109 ~~~~~~piiiv~nK~Dl~~-----------------~~~~~~~~~~~~~----~~~--~~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      ....+.|+++++||.|+..                 ..+.+.+.+++..    ...  ..+.+..+.++|.+..++..+|
T Consensus       247 ~~~~~~piil~~NK~D~~~~Kl~~~~l~~~fp~y~g~~~~~~~~~yi~~~F~~~~~~~~~r~~y~h~t~a~Dt~~~~~v~  326 (342)
T smart00275      247 RWFANTSIILFLNKIDLFEEKIKKVPLVDYFPDYKGPNDYEAAAKFIKQKFLRLNRNSSRKSIYHHFTCATDTRNIRVVF  326 (342)
T ss_pred             ccccCCcEEEEEecHHhHHHHhCCCchhccCCCCCCCCCHHHHHHHHHHHHHHhccCCCCceEEEEEeeecccHHHHHHH
Confidence            6667899999999999732                 1233344443331    111  1246778889999999999999


Q ss_pred             HHHHHHHHhc
Q 029517          166 EWLVEVMERS  175 (192)
Q Consensus       166 ~~i~~~i~~~  175 (192)
                      +.+.+.+...
T Consensus       327 ~~v~~~I~~~  336 (342)
T smart00275      327 DAVKDIILQR  336 (342)
T ss_pred             HHHHHHHHHH
Confidence            9988877654

Subunit of G proteins that contains the guanine nucleotide binding site

>COG0218 Predicted GTPase [General function prediction only]

Probab=99.50  E-value=4.1e-13  Score=97.55  Aligned_cols=145  Identities=20%  Similarity=0.239  Sum_probs=98.3

Q ss_pred             hhccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCC----------CcccHHHHHHhhhc--
Q 029517           12 IFTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGG----------QPGLRSIWEKYYEE--   79 (192)
Q Consensus        12 ~~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G----------~~~~~~~~~~~~~~--   79 (192)
                      +=|||++|+|+++..-      ..+..++..|.-+++..+...   +.++|.||          .+.+..+...|++.  
T Consensus        35 VGKSSlIN~l~~~k~L------ArtSktPGrTq~iNff~~~~~---~~lVDlPGYGyAkv~k~~~e~w~~~i~~YL~~R~  105 (200)
T COG0218          35 VGKSSLINALTNQKNL------ARTSKTPGRTQLINFFEVDDE---LRLVDLPGYGYAKVPKEVKEKWKKLIEEYLEKRA  105 (200)
T ss_pred             ccHHHHHHHHhCCcce------eecCCCCCccceeEEEEecCc---EEEEeCCCcccccCCHHHHHHHHHHHHHHHhhch
Confidence            4589999999997643      222334466666777766543   88999999          34556666777764  


Q ss_pred             -CCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCH----HHHHhHcCccccCCcceE--EEE
Q 029517           80 -AHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSA----DELARYLDLKKLDERVCM--FEA  152 (192)
Q Consensus        80 -~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~----~~~~~~~~~~~~~~~~~~--~~~  152 (192)
                       ..++++++|+..+-.  .....+.++...   .++|+++++||+|.......    ..+.+.+..    .....  ++.
T Consensus       106 ~L~~vvlliD~r~~~~--~~D~em~~~l~~---~~i~~~vv~tK~DKi~~~~~~k~l~~v~~~l~~----~~~~~~~~~~  176 (200)
T COG0218         106 NLKGVVLLIDARHPPK--DLDREMIEFLLE---LGIPVIVVLTKADKLKKSERNKQLNKVAEELKK----PPPDDQWVVL  176 (200)
T ss_pred             hheEEEEEEECCCCCc--HHHHHHHHHHHH---cCCCeEEEEEccccCChhHHHHHHHHHHHHhcC----CCCccceEEE
Confidence             577899999976533  322344444444   48999999999998764333    334433331    11222  888


Q ss_pred             eeecCCCCHHHHHHHHHHHHHh
Q 029517          153 VSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       153 ~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      .|+..+.|++++...|.+.+..
T Consensus       177 ~ss~~k~Gi~~l~~~i~~~~~~  198 (200)
T COG0218         177 FSSLKKKGIDELKAKILEWLKE  198 (200)
T ss_pred             EecccccCHHHHHHHHHHHhhc
Confidence            9999999999999999876653

>cd00066 G-alpha G protein alpha subunit

Probab=99.48  E-value=7.8e-13  Score=104.77  Aligned_cols=136  Identities=19%  Similarity=0.351  Sum_probs=107.7

Q ss_pred             CCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCc----------ccHHHHHHHHHHHHhCC
Q 029517           40 IVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACP----------SRFEDSKTALEKVLRNE  109 (192)
Q Consensus        40 ~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~----------~s~~~~~~~~~~i~~~~  109 (192)
                      ..||.|+....+..+++.+.+||++|+...+..|..++.+++++++|+|+++-          ..+.+....+..+....
T Consensus       145 r~~T~Gi~~~~f~~~~~~~~~~DvgGq~~~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~  224 (317)
T cd00066         145 RVKTTGIVETKFTIKNLKFRMFDVGGQRSERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSR  224 (317)
T ss_pred             ecccCCeeEEEEEecceEEEEECCCCCcccchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCc
Confidence            46888999889999999999999999999999999999999999999999863          56777778888888776


Q ss_pred             CCCCCcEEEEEeCCCCCC------------------CCCHHHHHhHcCcc-----ccCCcceEEEEeeecCCCCHHHHHH
Q 029517          110 DLQGAPLLILANKQDLPD------------------AVSADELARYLDLK-----KLDERVCMFEAVSGYDGFGIKESVE  166 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~------------------~~~~~~~~~~~~~~-----~~~~~~~~~~~~Sa~~~~gi~e~~~  166 (192)
                      ...+.|+++++||.|+..                  ..+.+.+.+++...     .-..+.+..+.++|.+..++..+|+
T Consensus       225 ~~~~~pill~~NK~D~f~~ki~~~~l~~~fp~y~g~~~~~~~~~~~i~~~F~~~~~~~~~~~~~~~t~a~Dt~~i~~vf~  304 (317)
T cd00066         225 WFANTSIILFLNKKDLFEEKIKKSPLTDYFPDYTGPPNDYEEAAKFIRKKFLDLNRNPNKEIYPHFTCATDTENIRFVFD  304 (317)
T ss_pred             cccCCCEEEEccChHHHHHhhcCCCccccCCCCCCCCCCHHHHHHHHHHHHHHhhcCCCCeEEEEeccccchHHHHHHHH
Confidence            667899999999999632                  12334444444311     0113567778899999999999999


Q ss_pred             HHHHHHHhc
Q 029517          167 WLVEVMERS  175 (192)
Q Consensus       167 ~i~~~i~~~  175 (192)
                      .+.+.+...
T Consensus       305 ~v~~~i~~~  313 (317)
T cd00066         305 AVKDIILQN  313 (317)
T ss_pred             HHHHHHHHH
Confidence            988877654

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.

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=99.45  E-value=2e-12  Score=100.54  Aligned_cols=151  Identities=24%  Similarity=0.316  Sum_probs=104.4

Q ss_pred             HHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCC-----c--ccHHHHHHhhhcCCEEEEEEeCCC
Q 029517           19 HTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQ-----P--GLRSIWEKYYEEAHAVVFVIDAAC   91 (192)
Q Consensus        19 ~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~-----~--~~~~~~~~~~~~~d~ii~v~D~~~   91 (192)
                      .||++.++++.+++++|++++..|.+|+-..   ...-.+.+-|+||.     +  -.......++++|.++++|+|++.
T Consensus       173 STlls~vS~AkPKIadYpFTTL~PnLGvV~~---~~~~sfv~ADIPGLIEGAs~G~GLG~~FLrHIERt~vL~hviD~s~  249 (369)
T COG0536         173 STLLSAVSAAKPKIADYPFTTLVPNLGVVRV---DGGESFVVADIPGLIEGASEGVGLGLRFLRHIERTRVLLHVIDLSP  249 (369)
T ss_pred             HHHHHHHhhcCCcccCCccccccCcccEEEe---cCCCcEEEecCcccccccccCCCccHHHHHHHHhhheeEEEEecCc
Confidence            3777788899999999999999999998433   33457999999992     1  223345567889999999999985


Q ss_pred             ccc---HHHHHHHHHHHHhC-CCCCCCcEEEEEeCCCCCC-CCCHHHHHhHcCccccCCcceEE-EEeeecCCCCHHHHH
Q 029517           92 PSR---FEDSKTALEKVLRN-EDLQGAPLLILANKQDLPD-AVSADELARYLDLKKLDERVCMF-EAVSGYDGFGIKESV  165 (192)
Q Consensus        92 ~~s---~~~~~~~~~~i~~~-~~~~~~piiiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~-~~~Sa~~~~gi~e~~  165 (192)
                      .+.   .+.......++..+ ..+.++|.++|+||+|+.. ....+...+.+.    ...+... +.+||.++.|++++.
T Consensus       250 ~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~~~~e~~~~~~~~l~----~~~~~~~~~~ISa~t~~g~~~L~  325 (369)
T COG0536         250 IDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLPLDEEELEELKKALA----EALGWEVFYLISALTREGLDELL  325 (369)
T ss_pred             ccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCCcCHHHHHHHHHHHH----HhcCCCcceeeehhcccCHHHHH
Confidence            442   44444444444443 2235899999999999654 222233333332    1122221 129999999999999


Q ss_pred             HHHHHHHHhcc
Q 029517          166 EWLVEVMERSK  176 (192)
Q Consensus       166 ~~i~~~i~~~~  176 (192)
                      ..+.+.+....
T Consensus       326 ~~~~~~l~~~~  336 (369)
T COG0536         326 RALAELLEETK  336 (369)
T ss_pred             HHHHHHHHHhh
Confidence            99998877664

>COG1084 Predicted GTPase [General function prediction only]

Probab=99.44  E-value=4.5e-12  Score=98.11  Aligned_cols=143  Identities=21%  Similarity=0.272  Sum_probs=106.2

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcc-c-------HHHHHHhhhc-CCEEEEEEeCC
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPG-L-------RSIWEKYYEE-AHAVVFVIDAA   90 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~-~-------~~~~~~~~~~-~d~ii~v~D~~   90 (192)
                      ||++.++.+-+++++|+    ..|-|+.++++..+..++|+.||||.-+ -       ....-..++. .++|+|++|++
T Consensus       183 Slv~~lT~AkpEvA~YP----FTTK~i~vGhfe~~~~R~QvIDTPGlLDRPl~ErN~IE~qAi~AL~hl~~~IlF~~D~S  258 (346)
T COG1084         183 SLVRKLTTAKPEVAPYP----FTTKGIHVGHFERGYLRIQVIDTPGLLDRPLEERNEIERQAILALRHLAGVILFLFDPS  258 (346)
T ss_pred             HHHHHHhcCCCccCCCC----ccccceeEeeeecCCceEEEecCCcccCCChHHhcHHHHHHHHHHHHhcCeEEEEEcCc
Confidence            67777788888888887    6678899999999999999999999321 1       1111112332 68899999997


Q ss_pred             --CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           91 --CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        91 --~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                        +.-+.+....++..+...   .+.|+++|+||+|.......+++...+..    ..+.....+++..+.+++.+.+.+
T Consensus       259 e~cgy~lE~Q~~L~~eIk~~---f~~p~v~V~nK~D~~~~e~~~~~~~~~~~----~~~~~~~~~~~~~~~~~d~~~~~v  331 (346)
T COG1084         259 ETCGYSLEEQISLLEEIKEL---FKAPIVVVINKIDIADEEKLEEIEASVLE----EGGEEPLKISATKGCGLDKLREEV  331 (346)
T ss_pred             cccCCCHHHHHHHHHHHHHh---cCCCeEEEEecccccchhHHHHHHHHHHh----hccccccceeeeehhhHHHHHHHH
Confidence              456788888888888776   35899999999999876566666666541    223446678899999999888887


Q ss_pred             HHHHH
Q 029517          169 VEVME  173 (192)
Q Consensus       169 ~~~i~  173 (192)
                      .....
T Consensus       332 ~~~a~  336 (346)
T COG1084         332 RKTAL  336 (346)
T ss_pred             HHHhh
Confidence            77643

>cd04169 RF3 RF3 subfamily

Probab=99.44  E-value=3.1e-12  Score=99.03  Aligned_cols=121  Identities=20%  Similarity=0.181  Sum_probs=79.6

Q ss_pred             ccccHHHHHHHHhhhh--ccCC-----CCCCC-------CCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhc
Q 029517           14 TKTEFHTLLEKLKSVY--SNVE-----GLPPD-------RIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEE   79 (192)
Q Consensus        14 kst~~~~l~~~~~~~~--~~~~-----~~~~~-------~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   79 (192)
                      |||++++|+...-.+.  ..+.     +.+..       ....|+......+..++.++.+|||||+.+|......+++.
T Consensus        15 KTTL~e~ll~~~g~i~~~g~v~~~~~~~~t~~D~~~~e~~rg~si~~~~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~   94 (267)
T cd04169          15 KTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQFEYRDCVINLLDTPGHEDFSEDTYRTLTA   94 (267)
T ss_pred             HHHHHHHHHHhcCCcccCceecccccCCCccCCCcHHHHhCCCCeEEEEEEEeeCCEEEEEEECCCchHHHHHHHHHHHH
Confidence            8999999986532211  1111     11111       11334445555788889999999999999998877788999


Q ss_pred             CCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC---HHHHHhHcC
Q 029517           80 AHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVS---ADELARYLD  139 (192)
Q Consensus        80 ~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~---~~~~~~~~~  139 (192)
                      +|++|+|+|+++..... ...++.. ...   .++|+++++||+|+.....   .+++.+.+.
T Consensus        95 aD~~IlVvda~~g~~~~-~~~i~~~-~~~---~~~P~iivvNK~D~~~a~~~~~~~~l~~~l~  152 (267)
T cd04169          95 VDSAVMVIDAAKGVEPQ-TRKLFEV-CRL---RGIPIITFINKLDREGRDPLELLDEIEEELG  152 (267)
T ss_pred             CCEEEEEEECCCCccHH-HHHHHHH-HHh---cCCCEEEEEECCccCCCCHHHHHHHHHHHHC
Confidence            99999999998753322 2233322 222   4689999999999876533   355555554

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.

>PRK13351 elongation factor G; Reviewed

Probab=99.44  E-value=2.8e-12  Score=111.35  Aligned_cols=109  Identities=20%  Similarity=0.167  Sum_probs=80.2

Q ss_pred             ccccHHHHHHHHhhh--hccCC-CCCC-------CCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEE
Q 029517           14 TKTEFHTLLEKLKSV--YSNVE-GLPP-------DRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAV   83 (192)
Q Consensus        14 kst~~~~l~~~~~~~--~~~~~-~~~~-------~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   83 (192)
                      |||++++|+...-.+  ...+. +.+.       ..+.+|++.....+.....++.+|||||+.+|...+..+++.+|++
T Consensus        21 KTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~~~~~~~~~~i~liDtPG~~df~~~~~~~l~~aD~~  100 (687)
T PRK13351         21 KTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCDWDNHRINLIDTPGHIDFTGEVERSLRVLDGA  100 (687)
T ss_pred             chhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccceEEEEECCEEEEEEECCCcHHHHHHHHHHHHhCCEE
Confidence            899999998643211  00111 1111       1357788888888888899999999999999999999999999999


Q ss_pred             EEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           84 VFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        84 i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      ++|+|+++.........| ..+..    .++|+++++||+|+..
T Consensus       101 ilVvd~~~~~~~~~~~~~-~~~~~----~~~p~iiviNK~D~~~  139 (687)
T PRK13351        101 VVVFDAVTGVQPQTETVW-RQADR----YGIPRLIFINKMDRVG  139 (687)
T ss_pred             EEEEeCCCCCCHHHHHHH-HHHHh----cCCCEEEEEECCCCCC
Confidence            999999987666554333 22322    3689999999999875

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.43  E-value=2.1e-12  Score=108.42  Aligned_cols=81  Identities=17%  Similarity=0.221  Sum_probs=60.9

Q ss_pred             CcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeC
Q 029517           43 TVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANK  122 (192)
Q Consensus        43 T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK  122 (192)
                      |+......+.++++++.+|||||+.+|......+++.+|++|+|+|+++..... ...++... ..   .++|+++++||
T Consensus        66 Si~~~~~~~~~~~~~inliDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~~-t~~l~~~~-~~---~~iPiiv~iNK  140 (526)
T PRK00741         66 SVTSSVMQFPYRDCLINLLDTPGHEDFSEDTYRTLTAVDSALMVIDAAKGVEPQ-TRKLMEVC-RL---RDTPIFTFINK  140 (526)
T ss_pred             ceeeeeEEEEECCEEEEEEECCCchhhHHHHHHHHHHCCEEEEEEecCCCCCHH-HHHHHHHH-Hh---cCCCEEEEEEC
Confidence            344444567788899999999999999988888899999999999998753222 22333322 22   47999999999


Q ss_pred             CCCCCC
Q 029517          123 QDLPDA  128 (192)
Q Consensus       123 ~Dl~~~  128 (192)
                      +|+...
T Consensus       141 ~D~~~a  146 (526)
T PRK00741        141 LDRDGR  146 (526)
T ss_pred             Cccccc
Confidence            998653

>PRK12736 elongation factor Tu; Reviewed

Probab=99.43  E-value=1.9e-12  Score=105.58  Aligned_cols=128  Identities=16%  Similarity=0.103  Sum_probs=82.3

Q ss_pred             CCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCc-EEEE
Q 029517           41 VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAP-LLIL  119 (192)
Q Consensus        41 ~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~p-iiiv  119 (192)
                      ..|+......+..+...+.++||||+++|......-...+|++++|+|++....-+ ..+.+..+...    ++| ++++
T Consensus        60 g~T~~~~~~~~~~~~~~i~~iDtPGh~~f~~~~~~~~~~~d~~llVvd~~~g~~~~-t~~~~~~~~~~----g~~~~Ivv  134 (394)
T PRK12736         60 GITINTAHVEYETEKRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQ-TREHILLARQV----GVPYLVVF  134 (394)
T ss_pred             CccEEEEeeEecCCCcEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCchh-HHHHHHHHHHc----CCCEEEEE
Confidence            44555544455556778999999999988777666678899999999998643222 22333333322    577 6789


Q ss_pred             EeCCCCCCCCC-H----HHHHhHcCccccCCcceEEEEeeecCCC--------CHHHHHHHHHHHHH
Q 029517          120 ANKQDLPDAVS-A----DELARYLDLKKLDERVCMFEAVSGYDGF--------GIKESVEWLVEVME  173 (192)
Q Consensus       120 ~nK~Dl~~~~~-~----~~~~~~~~~~~~~~~~~~~~~~Sa~~~~--------gi~e~~~~i~~~i~  173 (192)
                      +||+|+.+... .    +++.+++..........+++++||++|.        ++.++++.+.+.+.
T Consensus       135 iNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~~~~~ii~vSa~~g~~~~~~~~~~i~~Ll~~l~~~lp  201 (394)
T PRK12736        135 LNKVDLVDDEELLELVEMEVRELLSEYDFPGDDIPVIRGSALKALEGDPKWEDAIMELMDAVDEYIP  201 (394)
T ss_pred             EEecCCcchHHHHHHHHHHHHHHHHHhCCCcCCccEEEeeccccccCCCcchhhHHHHHHHHHHhCC
Confidence            99999864211 1    2333333211111224689999999983        57777777776554

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=99.42  E-value=5e-13  Score=107.67  Aligned_cols=113  Identities=19%  Similarity=0.217  Sum_probs=86.6

Q ss_pred             cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCH--
Q 029517           54 SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSA--  131 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~--  131 (192)
                      ..+.+.+.|||||-+|......-+..|.|+++|+|++..-.-+.+...+..+.     .+.-++-|+||+||+.+...  
T Consensus        74 ~~Y~lnlIDTPGHVDFsYEVSRSLAACEGalLvVDAsQGveAQTlAN~YlAle-----~~LeIiPViNKIDLP~Adperv  148 (603)
T COG0481          74 ETYVLNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALE-----NNLEIIPVLNKIDLPAADPERV  148 (603)
T ss_pred             CEEEEEEcCCCCccceEEEehhhHhhCCCcEEEEECccchHHHHHHHHHHHHH-----cCcEEEEeeecccCCCCCHHHH
Confidence            56899999999999998888888899999999999998754444444443332     35789999999999985322  


Q ss_pred             -HHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhcc
Q 029517          132 -DELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       132 -~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~~  176 (192)
                       .++.+.+.     ......+.+|||+|.||++++++|++.+..-+
T Consensus       149 k~eIe~~iG-----id~~dav~~SAKtG~gI~~iLe~Iv~~iP~P~  189 (603)
T COG0481         149 KQEIEDIIG-----IDASDAVLVSAKTGIGIEDVLEAIVEKIPPPK  189 (603)
T ss_pred             HHHHHHHhC-----CCcchheeEecccCCCHHHHHHHHHhhCCCCC
Confidence             23444443     33456788999999999999999999886544

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.42  E-value=2.4e-12  Score=106.21  Aligned_cols=118  Identities=19%  Similarity=0.251  Sum_probs=82.6

Q ss_pred             CCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHH-------HHHHHHHHHHhCCCCCC
Q 029517           41 VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE-------DSKTALEKVLRNEDLQG  113 (192)
Q Consensus        41 ~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~-------~~~~~~~~i~~~~~~~~  113 (192)
                      .-|+...+..+..++..+.++|+|||++|.......+..+|++|+|+|+++. .++       ...+.+.....    .+
T Consensus        70 GiTi~~~~~~~~~~~~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~G-~~e~g~~~~~qT~eh~~~~~~----~g  144 (447)
T PLN00043         70 GITIDIALWKFETTKYYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTG-GFEAGISKDGQTREHALLAFT----LG  144 (447)
T ss_pred             CceEEEEEEEecCCCEEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEcccC-ceecccCCCchHHHHHHHHHH----cC
Confidence            4466666667777889999999999999999888899999999999999863 232       22333222222    25


Q ss_pred             C-cEEEEEeCCCCCC-CC-------CHHHHHhHcCccccCCcceEEEEeeecCCCCHHH
Q 029517          114 A-PLLILANKQDLPD-AV-------SADELARYLDLKKLDERVCMFEAVSGYDGFGIKE  163 (192)
Q Consensus       114 ~-piiiv~nK~Dl~~-~~-------~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e  163 (192)
                      + ++++++||+|+.. ..       ..+++.++++...+....++++++||++|.|+.+
T Consensus       145 i~~iIV~vNKmD~~~~~~~~~~~~~i~~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni~~  203 (447)
T PLN00043        145 VKQMICCCNKMDATTPKYSKARYDEIVKEVSSYLKKVGYNPDKIPFVPISGFEGDNMIE  203 (447)
T ss_pred             CCcEEEEEEcccCCchhhhHHHHHHHHHHHHHHHHHcCCCcccceEEEEeccccccccc
Confidence            5 5788999999862 11       1334555444222222357899999999999864

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.42  E-value=6.9e-12  Score=102.63  Aligned_cols=148  Identities=20%  Similarity=0.256  Sum_probs=96.2

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEe-cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEV-SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACP   92 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~   92 (192)
                      |||++..+  |-+++    ....--.+...+|-..-..+. ....+.|.|||||+.|..++..=.+-+|++|+|+|+.+.
T Consensus        18 KTtLLD~I--R~t~V----a~~EaGGITQhIGA~~v~~~~~~~~~itFiDTPGHeAFt~mRaRGa~vtDIaILVVa~dDG   91 (509)
T COG0532          18 KTTLLDKI--RKTNV----AAGEAGGITQHIGAYQVPLDVIKIPGITFIDTPGHEAFTAMRARGASVTDIAILVVAADDG   91 (509)
T ss_pred             ccchhhhH--hcCcc----ccccCCceeeEeeeEEEEeccCCCceEEEEcCCcHHHHHHHHhcCCccccEEEEEEEccCC
Confidence            67777777  43332    232223333333332222321 235899999999999999998877889999999999876


Q ss_pred             ccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccC----CcceEEEEeeecCCCCHHHHHHHH
Q 029517           93 SRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLD----ERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        93 ~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~----~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      --.+.+... + ..+.   .+.|+++..||+|+++.. ++.+...+....+.    .....++++||++|.|++++++.+
T Consensus        92 v~pQTiEAI-~-hak~---a~vP~iVAiNKiDk~~~n-p~~v~~el~~~gl~~E~~gg~v~~VpvSA~tg~Gi~eLL~~i  165 (509)
T COG0532          92 VMPQTIEAI-N-HAKA---AGVPIVVAINKIDKPEAN-PDKVKQELQEYGLVPEEWGGDVIFVPVSAKTGEGIDELLELI  165 (509)
T ss_pred             cchhHHHHH-H-HHHH---CCCCEEEEEecccCCCCC-HHHHHHHHHHcCCCHhhcCCceEEEEeeccCCCCHHHHHHHH
Confidence            433332221 1 1222   589999999999999643 33333333322211    235889999999999999999988


Q ss_pred             HHHHH
Q 029517          169 VEVME  173 (192)
Q Consensus       169 ~~~i~  173 (192)
                      .-...
T Consensus       166 ll~ae  170 (509)
T COG0532         166 LLLAE  170 (509)
T ss_pred             HHHHH
Confidence            75443

>COG2262 HflX GTPases [General function prediction only]

Probab=99.42  E-value=4.1e-12  Score=101.05  Aligned_cols=146  Identities=24%  Similarity=0.320  Sum_probs=95.6

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEec-CEEEEEEeCCCC---------cccHHHHHHhhhcCCEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVS-NSKLVFWDLGGQ---------PGLRSIWEKYYEEAHAV   83 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~-~~~~~i~D~~G~---------~~~~~~~~~~~~~~d~i   83 (192)
                      |||+||+|.    +.....    .+....|....-..+... +..+.+-||.|.         +.|.+..+. ...+|.+
T Consensus       205 KSTL~N~LT----~~~~~~----~d~LFATLdpttR~~~l~~g~~vlLtDTVGFI~~LP~~LV~AFksTLEE-~~~aDll  275 (411)
T COG2262         205 KSTLFNALT----GADVYV----ADQLFATLDPTTRRIELGDGRKVLLTDTVGFIRDLPHPLVEAFKSTLEE-VKEADLL  275 (411)
T ss_pred             HHHHHHHHh----ccCeec----cccccccccCceeEEEeCCCceEEEecCccCcccCChHHHHHHHHHHHH-hhcCCEE
Confidence            677777776    322222    334455555545555554 578999999993         234444443 4689999


Q ss_pred             EEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHH
Q 029517           84 VFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKE  163 (192)
Q Consensus        84 i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e  163 (192)
                      +.|+|++++.-.+.+.. ...++......++|+++|.||+|+.....   ....+..    ..+ ..+.+||++|.|++.
T Consensus       276 lhVVDaSdp~~~~~~~~-v~~vL~el~~~~~p~i~v~NKiD~~~~~~---~~~~~~~----~~~-~~v~iSA~~~~gl~~  346 (411)
T COG2262         276 LHVVDASDPEILEKLEA-VEDVLAEIGADEIPIILVLNKIDLLEDEE---ILAELER----GSP-NPVFISAKTGEGLDL  346 (411)
T ss_pred             EEEeecCChhHHHHHHH-HHHHHHHcCCCCCCEEEEEecccccCchh---hhhhhhh----cCC-CeEEEEeccCcCHHH
Confidence            99999999954444433 34444433335799999999999765322   1111210    112 588999999999999


Q ss_pred             HHHHHHHHHHhcch
Q 029517          164 SVEWLVEVMERSKR  177 (192)
Q Consensus       164 ~~~~i~~~i~~~~~  177 (192)
                      +.+.|.+.+.....
T Consensus       347 L~~~i~~~l~~~~~  360 (411)
T COG2262         347 LRERIIELLSGLRT  360 (411)
T ss_pred             HHHHHHHHhhhccc
Confidence            99999998885543

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.41  E-value=3.9e-12  Score=103.74  Aligned_cols=141  Identities=13%  Similarity=0.060  Sum_probs=84.1

Q ss_pred             ccccHHHHHHHHhhhhc-c-----CCCCCCC--CCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYS-N-----VEGLPPD--RIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~-~-----~~~~~~~--~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   85 (192)
                      |||+.++|++.+..... .     ..+...+  +...|+......+..++.++.+|||||+++|..........+|++++
T Consensus        25 KStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~~~~~~~~~~~~~~liDtpGh~~f~~~~~~~~~~~D~~il  104 (394)
T TIGR00485        25 KTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINTAHVEYETENRHYAHVDCPGHADYVKNMITGAAQMDGAIL  104 (394)
T ss_pred             HHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceeeEEEEEcCCCEEEEEEECCchHHHHHHHHHHHhhCCEEEE
Confidence            78888888755332100 0     0011111  12445555555565567789999999999987766666778999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCcEE-EEEeCCCCCCCCC-H----HHHHhHcCccccCCcceEEEEeeecCCC
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAPLL-ILANKQDLPDAVS-A----DELARYLDLKKLDERVCMFEAVSGYDGF  159 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~pii-iv~nK~Dl~~~~~-~----~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  159 (192)
                      |+|+......+. .+.+..+...    ++|.+ +++||+|+.+... .    +++.+++.........++++++||.+|.
T Consensus       105 Vvda~~g~~~qt-~e~l~~~~~~----gi~~iIvvvNK~Dl~~~~~~~~~~~~~i~~~l~~~~~~~~~~~ii~vSa~~g~  179 (394)
T TIGR00485       105 VVSATDGPMPQT-REHILLARQV----GVPYIVVFLNKCDMVDDEELLELVEMEVRELLSEYDFPGDDTPIIRGSALKAL  179 (394)
T ss_pred             EEECCCCCcHHH-HHHHHHHHHc----CCCEEEEEEEecccCCHHHHHHHHHHHHHHHHHhcCCCccCccEEECcccccc
Confidence            999986432222 2333333322    56654 6899999864211 1    2344444321111223789999999875

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.

>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.40  E-value=4e-12  Score=92.70  Aligned_cols=130  Identities=28%  Similarity=0.434  Sum_probs=97.7

Q ss_pred             CCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhh---cCCEEEEEEeCC-CcccHHHHHHHHHHHHhCC--CCCCC
Q 029517           41 VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYE---EAHAVVFVIDAA-CPSRFEDSKTALEKVLRNE--DLQGA  114 (192)
Q Consensus        41 ~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~---~~d~ii~v~D~~-~~~s~~~~~~~~~~i~~~~--~~~~~  114 (192)
                      .+++..+...+..+.-...++|.|||++.+.....++.   .+-++|||+|+. .......+.+++..++...  ....+
T Consensus        67 vtSiepn~a~~r~gs~~~~LVD~PGH~rlR~kl~e~~~~~~~akaiVFVVDSa~f~k~vrdvaefLydil~~~~~~~~~~  146 (238)
T KOG0090|consen   67 VTSIEPNEATYRLGSENVTLVDLPGHSRLRRKLLEYLKHNYSAKAIVFVVDSATFLKNVRDVAEFLYDILLDSRVKKNKP  146 (238)
T ss_pred             eeeeccceeeEeecCcceEEEeCCCcHHHHHHHHHHccccccceeEEEEEeccccchhhHHHHHHHHHHHHhhccccCCC
Confidence            45555556666666656899999999999888888887   799999999985 3445677778888887654  23578


Q ss_pred             cEEEEEeCCCCCCCCCHHHHHhHcCcc-----------------------------------ccCCcceEEEEeeecCCC
Q 029517          115 PLLILANKQDLPDAVSADELARYLDLK-----------------------------------KLDERVCMFEAVSGYDGF  159 (192)
Q Consensus       115 piiiv~nK~Dl~~~~~~~~~~~~~~~~-----------------------------------~~~~~~~~~~~~Sa~~~~  159 (192)
                      |+++++||.|+..+.+.+.+++.++.+                                   .+......|.++|++++ 
T Consensus       147 ~vLIaCNKqDl~tAkt~~~Ir~~LEkEi~~lr~sRsa~~~~~~ed~~~~~tlg~~g~dF~fs~l~~~~V~F~e~S~~~~-  225 (238)
T KOG0090|consen  147 PVLIACNKQDLFTAKTAEKIRQQLEKEIHKLRESRSALRSISDEDIAKDFTLGKEGEDFKFSHLEDQKVTFAEASAKTG-  225 (238)
T ss_pred             CEEEEecchhhhhcCcHHHHHHHHHHHHHHHHHHHhhhhccccccccccccccccccccchhhcccceeEEeecccCcC-
Confidence            999999999997766666655555410                                   12234678999999998 


Q ss_pred             CHHHHHHHHHHH
Q 029517          160 GIKESVEWLVEV  171 (192)
Q Consensus       160 gi~e~~~~i~~~  171 (192)
                      ++++.-+|+.+.
T Consensus       226 ~i~~~~~wi~~~  237 (238)
T KOG0090|consen  226 EIDQWESWIREA  237 (238)
T ss_pred             ChHHHHHHHHHh
Confidence            899999998764

>PRK14845 translation initiation factor IF-2; Provisional

Probab=99.40  E-value=9.4e-12  Score=110.59  Aligned_cols=108  Identities=25%  Similarity=0.247  Sum_probs=74.0

Q ss_pred             EEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCc---ccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC-CC--C-
Q 029517           58 LVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACP---SRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD-AV--S-  130 (192)
Q Consensus        58 ~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~---~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~-~~--~-  130 (192)
                      +.|||||||+.|..+....+..+|++++|+|+++.   .+++.+.    .+ ..   .++|+++++||+|+.. ..  . 
T Consensus       528 i~fiDTPGhe~F~~lr~~g~~~aDivlLVVDa~~Gi~~qT~e~I~----~l-k~---~~iPiIVViNKiDL~~~~~~~~~  599 (1049)
T PRK14845        528 LLFIDTPGHEAFTSLRKRGGSLADLAVLVVDINEGFKPQTIEAIN----IL-RQ---YKTPFVVAANKIDLIPGWNISED  599 (1049)
T ss_pred             EEEEECCCcHHHHHHHHhhcccCCEEEEEEECcccCCHhHHHHHH----HH-HH---cCCCEEEEEECCCCccccccccc
Confidence            89999999999988888788889999999999863   3333322    22 22   3689999999999853 11  0 


Q ss_pred             --------------HHHHHh----H---cCcccc----------CCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517          131 --------------ADELAR----Y---LDLKKL----------DERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus       131 --------------~~~~~~----~---~~~~~~----------~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                                    ..++..    .   +...++          .....+++++||++|.||+++..+|.....
T Consensus       600 ~~~~~~~~~q~~~~~~el~~~l~~v~~~L~~~G~~~e~~~~~~d~~~~v~iVpVSA~tGeGId~Ll~~l~~l~~  673 (1049)
T PRK14845        600 EPFLLNFNEQDQHALTELEIKLYELIGKLYELGFDADRFDRVQDFTRTVAIVPVSAKTGEGIPELLMMVAGLAQ  673 (1049)
T ss_pred             hhhhhhhhhhHHHHHHHHHHHHHHHhhHHHhcCcchhhhhhhhhcCCCceEEEEEcCCCCCHHHHHHHHHHhhH
Confidence                          011110    0   110000          023678999999999999999998865433

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=99.40  E-value=1.8e-11  Score=94.93  Aligned_cols=108  Identities=19%  Similarity=0.192  Sum_probs=74.2

Q ss_pred             ccccHHHHHHHHhhhh--ccC-CCCCCC-------CCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEE
Q 029517           14 TKTEFHTLLEKLKSVY--SNV-EGLPPD-------RIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAV   83 (192)
Q Consensus        14 kst~~~~l~~~~~~~~--~~~-~~~~~~-------~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   83 (192)
                      |||++|+|+...-.+.  ..+ .+.+..       ...+|+......+...+.++.+|||||+.++...+..+++.+|++
T Consensus        12 KStL~~~Ll~~~g~~~~~g~v~~g~~~~d~~~~e~~r~~ti~~~~~~~~~~~~~i~liDtPG~~~f~~~~~~~l~~aD~~   91 (268)
T cd04170          12 KTTLAEALLYATGAIDRLGSVEDGTTVSDYDPEEIKRKMSISTSVAPLEWKGHKINLIDTPGYADFVGETRAALRAADAA   91 (268)
T ss_pred             HHHHHHHHHHhcCCCccCCeecCCcccCCCCHHHHhhcccccceeEEEEECCEEEEEEECcCHHHHHHHHHHHHHHCCEE
Confidence            8999999886532211  011 111111       124455555667777889999999999998888888899999999


Q ss_pred             EEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCC
Q 029517           84 VFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLP  126 (192)
Q Consensus        84 i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~  126 (192)
                      ++|+|+++.........| ..+. .   .++|.++++||+|+.
T Consensus        92 i~Vvd~~~g~~~~~~~~~-~~~~-~---~~~p~iivvNK~D~~  129 (268)
T cd04170          92 LVVVSAQSGVEVGTEKLW-EFAD-E---AGIPRIIFINKMDRE  129 (268)
T ss_pred             EEEEeCCCCCCHHHHHHH-HHHH-H---cCCCEEEEEECCccC
Confidence            999999876555432222 2222 2   368999999999974

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

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.39  E-value=7.7e-12  Score=94.20  Aligned_cols=67  Identities=18%  Similarity=0.175  Sum_probs=54.3

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCC
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLP  126 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~  126 (192)
                      ++.+.+|||||+.+|......+++.+|++++|+|++.....+. ...+.....    .++|+++++||+|+.
T Consensus        72 ~~~i~iiDTPG~~~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t-~~~l~~~~~----~~~p~ilviNKiD~~  138 (222)
T cd01885          72 EYLINLIDSPGHVDFSSEVTAALRLCDGALVVVDAVEGVCVQT-ETVLRQALK----ERVKPVLVINKIDRL  138 (222)
T ss_pred             ceEEEEECCCCccccHHHHHHHHHhcCeeEEEEECCCCCCHHH-HHHHHHHHH----cCCCEEEEEECCCcc
Confidence            7889999999999999999999999999999999998765554 222333322    357999999999986

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

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=99.39  E-value=1.2e-12  Score=100.02  Aligned_cols=95  Identities=20%  Similarity=0.136  Sum_probs=74.0

Q ss_pred             cccHHHHHHhhhcCCEEEEEEeCCCcc-cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCH-HHHHhHcCccccC
Q 029517           67 PGLRSIWEKYYEEAHAVVFVIDAACPS-RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSA-DELARYLDLKKLD  144 (192)
Q Consensus        67 ~~~~~~~~~~~~~~d~ii~v~D~~~~~-s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~-~~~~~~~~~~~~~  144 (192)
                      +++..+...+++++|++++|+|++++. +++.+..|+..+..    .++|+++|+||+||.+.... ++..+.+.     
T Consensus        24 eR~~~L~r~~~~n~D~viiV~d~~~p~~s~~~l~r~l~~~~~----~~i~~vIV~NK~DL~~~~~~~~~~~~~~~-----   94 (245)
T TIGR00157        24 ERKNELTRPIVANIDQIVIVSSAVLPELSLNQLDRFLVVAEA----QNIEPIIVLNKIDLLDDEDMEKEQLDIYR-----   94 (245)
T ss_pred             cccceEECcccccCCEEEEEEECCCCCCCHHHHHHHHHHHHH----CCCCEEEEEECcccCCCHHHHHHHHHHHH-----
Confidence            566667777999999999999999877 89999999876543    47999999999999642211 12222332     


Q ss_pred             CcceEEEEeeecCCCCHHHHHHHHHH
Q 029517          145 ERVCMFEAVSGYDGFGIKESVEWLVE  170 (192)
Q Consensus       145 ~~~~~~~~~Sa~~~~gi~e~~~~i~~  170 (192)
                      ..+++++++||++|.|++++|+.+.+
T Consensus        95 ~~g~~v~~~SAktg~gi~eLf~~l~~  120 (245)
T TIGR00157        95 NIGYQVLMTSSKNQDGLKELIEALQN  120 (245)
T ss_pred             HCCCeEEEEecCCchhHHHHHhhhcC
Confidence            34689999999999999999998764

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

>CHL00071 tufA elongation factor Tu

Probab=99.38  E-value=8.8e-12  Score=102.12  Aligned_cols=143  Identities=15%  Similarity=0.075  Sum_probs=86.5

Q ss_pred             ccccHHHHHHHHhhhhccC------CCCCCCC--CCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNV------EGLPPDR--IVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~------~~~~~~~--~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   85 (192)
                      |||+.++|++....+....      .+....+  ...|+......+..++.++.+.||||+.+|.......+..+|++++
T Consensus        25 KSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~~iDtPGh~~~~~~~~~~~~~~D~~il  104 (409)
T CHL00071         25 KTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAHVEYETENRHYAHVDCPGHADYVKNMITGAAQMDGAIL  104 (409)
T ss_pred             HHHHHHHHHHHhCccccccccccccccCChhhhcCCEeEEccEEEEccCCeEEEEEECCChHHHHHHHHHHHHhCCEEEE
Confidence            8999999987644321110      0111111  1223333333455567789999999999887777777889999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCc-EEEEEeCCCCCCCCC-H----HHHHhHcCccccCCcceEEEEeeecCCC
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAP-LLILANKQDLPDAVS-A----DELARYLDLKKLDERVCMFEAVSGYDGF  159 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~p-iiiv~nK~Dl~~~~~-~----~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  159 (192)
                      |+|+..... ....+.+..+..    .++| +++++||+|+.+... .    +++.+++..........+++++||.+|.
T Consensus       105 Vvda~~g~~-~qt~~~~~~~~~----~g~~~iIvvvNK~D~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~ii~~Sa~~g~  179 (409)
T CHL00071        105 VVSAADGPM-PQTKEHILLAKQ----VGVPNIVVFLNKEDQVDDEELLELVELEVRELLSKYDFPGDDIPIVSGSALLAL  179 (409)
T ss_pred             EEECCCCCc-HHHHHHHHHHHH----cCCCEEEEEEEccCCCCHHHHHHHHHHHHHHHHHHhCCCCCcceEEEcchhhcc
Confidence            999986532 222233333322    3577 778999999975211 1    2333333311112224789999999987


Q ss_pred             CH
Q 029517          160 GI  161 (192)
Q Consensus       160 gi  161 (192)
                      |+
T Consensus       180 n~  181 (409)
T CHL00071        180 EA  181 (409)
T ss_pred             cc
Confidence            43

>PRK12735 elongation factor Tu; Reviewed

Probab=99.38  E-value=6.6e-12  Score=102.44  Aligned_cols=155  Identities=14%  Similarity=0.094  Sum_probs=92.4

Q ss_pred             ccccHHHHHHHHhhhhc-c-----CCCCCCC--CCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYS-N-----VEGLPPD--RIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~-~-----~~~~~~~--~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   85 (192)
                      |||+.++|++....... +     ..+...+  ....|+......+..++.++.++||||+++|......-+..+|++++
T Consensus        25 KSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~~~~~~~~~~~~i~~iDtPGh~~f~~~~~~~~~~aD~~ll  104 (396)
T PRK12735         25 KTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINTSHVEYETANRHYAHVDCPGHADYVKNMITGAAQMDGAIL  104 (396)
T ss_pred             HHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEEeeeEEcCCCcEEEEEECCCHHHHHHHHHhhhccCCEEEE
Confidence            89999999874321100 0     0011111  22334444444555567789999999999887766677788999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCcEE-EEEeCCCCCCCCC-HH----HHHhHcCccccCCcceEEEEeeecCCC
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAPLL-ILANKQDLPDAVS-AD----ELARYLDLKKLDERVCMFEAVSGYDGF  159 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~pii-iv~nK~Dl~~~~~-~~----~~~~~~~~~~~~~~~~~~~~~Sa~~~~  159 (192)
                      |+|+.+...-+ ..+.+..+..    .++|.+ +++||+|+.+... .+    ++..++.........++++++||++|.
T Consensus       105 Vvda~~g~~~q-t~e~l~~~~~----~gi~~iivvvNK~Dl~~~~~~~~~~~~ei~~~l~~~~~~~~~~~ii~~Sa~~g~  179 (396)
T PRK12735        105 VVSAADGPMPQ-TREHILLARQ----VGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYDFPGDDTPIIRGSALKAL  179 (396)
T ss_pred             EEECCCCCchh-HHHHHHHHHH----cCCCeEEEEEEecCCcchHHHHHHHHHHHHHHHHHcCCCcCceeEEecchhccc
Confidence            99998643222 2233333322    357755 5799999964211 11    333333211111124789999999984


Q ss_pred             ----------CHHHHHHHHHHHHH
Q 029517          160 ----------GIKESVEWLVEVME  173 (192)
Q Consensus       160 ----------gi~e~~~~i~~~i~  173 (192)
                                ++.++++.|...+.
T Consensus       180 n~~~~~~w~~~~~~Ll~~l~~~~~  203 (396)
T PRK12735        180 EGDDDEEWEAKILELMDAVDSYIP  203 (396)
T ss_pred             cCCCCCcccccHHHHHHHHHhcCC
Confidence                      67777777766543

>cd01899 Ygr210 Ygr210 subfamily

Probab=99.38  E-value=4.7e-12  Score=100.02  Aligned_cols=153  Identities=21%  Similarity=0.263  Sum_probs=97.9

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEE-------------------Ee-cCEEEEEEeCCCC----cc
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRI-------------------EV-SNSKLVFWDLGGQ----PG   68 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~-------------------~~-~~~~~~i~D~~G~----~~   68 (192)
                      =|||+||+|.+.    ...+++++++++.|++|..+...                   ++ ..+.+++||+||.    +.
T Consensus        10 GKStLfn~lt~~----~~~~~~~pftT~~p~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~v~i~l~D~aGlv~ga~~   85 (318)
T cd01899          10 GKSTFFNAATLA----DVEIANYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVPVELIDVAGLVPGAHE   85 (318)
T ss_pred             CHHHHHHHHhCC----CCcccCCCCccccceeEEEEEecCCCchhhhhhhcccccccccCcCcceEEEEECCCCCCCccc
Confidence            378888888753    34667888888999999876421                   11 2468999999997    34


Q ss_pred             cHHHHHH---hhhcCCEEEEEEeCCCc-------------c---cHHHHHHHHHH-------------------------
Q 029517           69 LRSIWEK---YYEEAHAVVFVIDAACP-------------S---RFEDSKTALEK-------------------------  104 (192)
Q Consensus        69 ~~~~~~~---~~~~~d~ii~v~D~~~~-------------~---s~~~~~~~~~~-------------------------  104 (192)
                      +..+...   ++++||++++|+|++..             +   .++.+...+..                         
T Consensus        86 ~~glg~~fL~~ir~aD~ii~Vvd~~~~~d~~~~~~~~~~~dp~~d~~~i~~El~~~d~~~~~~~~~~~~~~~~~~~~~~~  165 (318)
T cd01899          86 GKGLGNKFLDDLRDADALIHVVDASGGTDAEGNGVETGGHDPLEDIEFLENEIDMWIYGILEKNWEKIVRKADAEKTDIV  165 (318)
T ss_pred             hhhHHHHHHHHHHHCCEEEEEEeCCCCcccccccccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccHH
Confidence            4443333   58999999999999731             1   12111111111                         


Q ss_pred             -------------------HHhC-C--------------------CCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccC
Q 029517          105 -------------------VLRN-E--------------------DLQGAPLLILANKQDLPDAVSADELARYLDLKKLD  144 (192)
Q Consensus       105 -------------------i~~~-~--------------------~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~  144 (192)
                                         +++. .                    ....+|+++++||+|+...   ++..+.+..   .
T Consensus       166 ~~~~~~~~~~~~~~~~v~~~L~~~~~~~~~~~~~~~~~~~~~~~~llt~KPvI~VlNK~Dl~~~---~~~~~~l~~---~  239 (318)
T cd01899         166 EALSEQLSGFGVNEKDVIEALEELELPEDLSKWTDEDLLRLARALRKRSKPMVIAANKADIPDA---ENNISKLRL---K  239 (318)
T ss_pred             HHHHHHHhhccccHHHHHHHHHhCCCCCcccCCCHHHHHHHHHHHHhcCCcEEEEEEHHHccCh---HHHHHHHHh---h
Confidence                               0000 0                    0235799999999997532   222222211   1


Q ss_pred             CcceEEEEeeecCCCCHHHHHH-HHHHHHHhc
Q 029517          145 ERVCMFEAVSGYDGFGIKESVE-WLVEVMERS  175 (192)
Q Consensus       145 ~~~~~~~~~Sa~~~~gi~e~~~-~i~~~i~~~  175 (192)
                      .....++.+||+.+.|+.++.+ .+.+.+...
T Consensus       240 ~~~~~iI~iSA~~e~~L~~L~~~~i~~~lPe~  271 (318)
T cd01899         240 YPDEIVVPTSAEAELALRRAAKQGLIKYDPGD  271 (318)
T ss_pred             CCCCeEEEEeCcccccHHHHHHhhHHHhCCCC
Confidence            2356799999999999999998 688877654

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.

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=99.37  E-value=2.9e-11  Score=93.71  Aligned_cols=121  Identities=16%  Similarity=0.113  Sum_probs=79.8

Q ss_pred             ccccHHHHHHHHhhh--hccCC------CCCC--CCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEE
Q 029517           14 TKTEFHTLLEKLKSV--YSNVE------GLPP--DRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAV   83 (192)
Q Consensus        14 kst~~~~l~~~~~~~--~~~~~------~~~~--~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   83 (192)
                      |||++++|+...-.+  ...+.      +...  .....|+......+..++.++.+|||||+.++...+..+++.+|++
T Consensus        12 KTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~a   91 (270)
T cd01886          12 KTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCFWKDHRINIIDTPGHVDFTIEVERSLRVLDGA   91 (270)
T ss_pred             HHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEEECCEEEEEEECCCcHHHHHHHHHHHHHcCEE
Confidence            899999998643211  01111      1111  1223455555667778899999999999999988899999999999


Q ss_pred             EEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCC---CHHHHHhHcC
Q 029517           84 VFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAV---SADELARYLD  139 (192)
Q Consensus        84 i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~---~~~~~~~~~~  139 (192)
                      |+|+|+.+...-.. ...+..+..    .++|+++++||+|+.+..   ..+++.+.+.
T Consensus        92 ilVVDa~~g~~~~t-~~~~~~~~~----~~~p~ivviNK~D~~~a~~~~~~~~l~~~l~  145 (270)
T cd01886          92 VAVFDAVAGVEPQT-ETVWRQADR----YNVPRIAFVNKMDRTGADFFRVVEQIREKLG  145 (270)
T ss_pred             EEEEECCCCCCHHH-HHHHHHHHH----cCCCEEEEEECCCCCCCCHHHHHHHHHHHhC
Confidence            99999987543222 233333322    368999999999987532   2345555554

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

>PRK12740 elongation factor G; Reviewed

Probab=99.37  E-value=1.3e-11  Score=106.91  Aligned_cols=109  Identities=17%  Similarity=0.125  Sum_probs=78.5

Q ss_pred             ccccHHHHHHHHhhhhc--cCCC--CCCC------CCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEE
Q 029517           14 TKTEFHTLLEKLKSVYS--NVEG--LPPD------RIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAV   83 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~--~~~~--~~~~------~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   83 (192)
                      |||++++|+...-.+..  ++.+  ...+      ....|++.....+...++.+.+|||||+.++...+..+++.+|++
T Consensus         8 KTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~~~~~i~liDtPG~~~~~~~~~~~l~~aD~v   87 (668)
T PRK12740          8 KTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEWKGHKINLIDTPGHVDFTGEVERALRVLDGA   87 (668)
T ss_pred             HHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEECCEEEEEEECCCcHHHHHHHHHHHHHhCeE
Confidence            89999999876332211  1111  1111      235677777778888899999999999998888888899999999


Q ss_pred             EEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           84 VFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        84 i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      ++|+|++..........| ..+..    .++|+++++||+|+..
T Consensus        88 llvvd~~~~~~~~~~~~~-~~~~~----~~~p~iiv~NK~D~~~  126 (668)
T PRK12740         88 VVVVCAVGGVEPQTETVW-RQAEK----YGVPRIIFVNKMDRAG  126 (668)
T ss_pred             EEEEeCCCCcCHHHHHHH-HHHHH----cCCCEEEEEECCCCCC
Confidence            999999887655543332 22222    3689999999999864

>PLN03126 Elongation factor Tu; Provisional

Probab=99.37  E-value=1.4e-11  Score=102.27  Aligned_cols=142  Identities=16%  Similarity=0.107  Sum_probs=88.1

Q ss_pred             ccccHHHHHHHHhhhhccCCCC------CCCC--CCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGL------PPDR--IVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~------~~~~--~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   85 (192)
                      |||+.++|++....+.......      ..++  ...|+......+..++.++.++|+||+++|.......+..+|++++
T Consensus        94 KSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~~~i~liDtPGh~~f~~~~~~g~~~aD~ail  173 (478)
T PLN03126         94 KTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYETENRHYAHVDCPGHADYVKNMITGAAQMDGAIL  173 (478)
T ss_pred             HHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEecCCcEEEEEECCCHHHHHHHHHHHHhhCCEEEE
Confidence            7888888887554432222111      1111  1234444444566677899999999999998877777889999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCc-EEEEEeCCCCCCCCC-HH----HHHhHcCccccCCcceEEEEeeecCCC
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAP-LLILANKQDLPDAVS-AD----ELARYLDLKKLDERVCMFEAVSGYDGF  159 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~p-iiiv~nK~Dl~~~~~-~~----~~~~~~~~~~~~~~~~~~~~~Sa~~~~  159 (192)
                      |+|+.+...-+. .+.+..+..    .++| +++++||+|+..... .+    ++.+++....+.....+++++||.+|.
T Consensus       174 VVda~~G~~~qt-~e~~~~~~~----~gi~~iIvvvNK~Dl~~~~~~~~~i~~~i~~~l~~~g~~~~~~~~vp~Sa~~g~  248 (478)
T PLN03126        174 VVSGADGPMPQT-KEHILLAKQ----VGVPNMVVFLNKQDQVDDEELLELVELEVRELLSSYEFPGDDIPIISGSALLAL  248 (478)
T ss_pred             EEECCCCCcHHH-HHHHHHHHH----cCCCeEEEEEecccccCHHHHHHHHHHHHHHHHHhcCCCcCcceEEEEEccccc
Confidence            999986543322 333333332    3577 788999999864111 12    333333311122346889999999885


Q ss_pred             C
Q 029517          160 G  160 (192)
Q Consensus       160 g  160 (192)
                      +
T Consensus       249 n  249 (478)
T PLN03126        249 E  249 (478)
T ss_pred             c
Confidence            4

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.37  E-value=7.2e-12  Score=89.56  Aligned_cols=105  Identities=26%  Similarity=0.254  Sum_probs=68.0

Q ss_pred             EEEEEeCCCCcc----------cHHHHHHhhh---cCCEEEEEEeCCCcccHH--HHHHHHHHHHhCCCCCCCcEEEEEe
Q 029517           57 KLVFWDLGGQPG----------LRSIWEKYYE---EAHAVVFVIDAACPSRFE--DSKTALEKVLRNEDLQGAPLLILAN  121 (192)
Q Consensus        57 ~~~i~D~~G~~~----------~~~~~~~~~~---~~d~ii~v~D~~~~~s~~--~~~~~~~~i~~~~~~~~~piiiv~n  121 (192)
                      .+.+|||||...          +......++.   .++++++++|.....+..  .+..|+.    .   .+.|+++++|
T Consensus        46 ~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~~l~----~---~~~~vi~v~n  118 (170)
T cd01876          46 KFRLVDLPGYGYAKVSKEVKEKWGKLIEEYLENRENLKGVVLLIDSRHGPTEIDLEMLDWLE----E---LGIPFLVVLT  118 (170)
T ss_pred             eEEEecCCCccccccCHHHHHHHHHHHHHHHHhChhhhEEEEEEEcCcCCCHhHHHHHHHHH----H---cCCCEEEEEE
Confidence            899999999532          3444455554   357889999987653222  2223322    2   2589999999


Q ss_pred             CCCCCCCCCHH----HHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHH
Q 029517          122 KQDLPDAVSAD----ELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEV  171 (192)
Q Consensus       122 K~Dl~~~~~~~----~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~  171 (192)
                      |+|+.......    .....++.   .....+++++||+++.|+.+++++|.+.
T Consensus       119 K~D~~~~~~~~~~~~~~~~~l~~---~~~~~~~~~~Sa~~~~~~~~l~~~l~~~  169 (170)
T cd01876         119 KADKLKKSELAKALKEIKKELKL---FEIDPPIILFSSLKGQGIDELRALIEKW  169 (170)
T ss_pred             chhcCChHHHHHHHHHHHHHHHh---ccCCCceEEEecCCCCCHHHHHHHHHHh
Confidence            99985421111    12111110   1335688999999999999999999864

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.

>cd04167 Snu114p Snu114p subfamily

Probab=99.37  E-value=4.5e-12  Score=95.08  Aligned_cols=68  Identities=16%  Similarity=0.207  Sum_probs=54.0

Q ss_pred             cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCC
Q 029517           54 SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLP  126 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~  126 (192)
                      ..+.+.+|||||+.+|......++..+|++++|+|++...+... ..++.....    .++|+++++||+|+.
T Consensus        69 ~~~~i~iiDtpG~~~f~~~~~~~~~~aD~~llVvD~~~~~~~~~-~~~~~~~~~----~~~p~iiviNK~D~~  136 (213)
T cd04167          69 KSYLFNIIDTPGHVNFMDEVAAALRLSDGVVLVVDVVEGVTSNT-ERLIRHAIL----EGLPIVLVINKIDRL  136 (213)
T ss_pred             CEEEEEEEECCCCcchHHHHHHHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHH----cCCCEEEEEECcccC
Confidence            35789999999999998888889999999999999987765543 233333322    358999999999975

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.

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

Probab=99.37  E-value=1.6e-13  Score=97.78  Aligned_cols=135  Identities=22%  Similarity=0.302  Sum_probs=107.5

Q ss_pred             CCCCCCCCcceEEEE----EEec-CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCC
Q 029517           36 PPDRIVPTVGLNIGR----IEVS-NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNED  110 (192)
Q Consensus        36 ~~~~~~~T~g~~~~~----~~~~-~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~  110 (192)
                      |...|..|||..+.-    .+.. -+++++||+.||++|..+..-|++.+.+..+|+|.+...+|+....|...+.....
T Consensus        50 fs~~yRAtIgvdfalkVl~wdd~t~vRlqLwdIagQerfg~mtrVyykea~~~~iVfdvt~s~tfe~~skwkqdldsk~q  129 (229)
T KOG4423|consen   50 FSYHYRATIGVDFALKVLQWDDKTIVRLQLWDIAGQERFGNMTRVYYKEAHGAFIVFDVTRSLTFEPVSKWKQDLDSKLQ  129 (229)
T ss_pred             HHHHHHHHHhHHHHHHHhccChHHHHHHHHhcchhhhhhcceEEEEecCCcceEEEEEccccccccHHHHHHHhccCccc
Confidence            344567788876652    2222 46899999999999999999999999999999999999999999999998876432


Q ss_pred             C---CCCcEEEEEeCCCCCC---CCCHHHHHhHcCccccCCcce-EEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          111 L---QGAPLLILANKQDLPD---AVSADELARYLDLKKLDERVC-MFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       111 ~---~~~piiiv~nK~Dl~~---~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                      +   ...|+++..||+|...   ......+.++.+     .+++ .++++|+|.+.|++|+-+.+++.+.-.
T Consensus       130 Lpng~Pv~~vllankCd~e~~a~~~~~~~~d~f~k-----engf~gwtets~Kenkni~Ea~r~lVe~~lvn  196 (229)
T KOG4423|consen  130 LPNGTPVPCVLLANKCDQEKSAKNEATRQFDNFKK-----ENGFEGWTETSAKENKNIPEAQRELVEKILVN  196 (229)
T ss_pred             CCCCCcchheeccchhccChHhhhhhHHHHHHHHh-----ccCccceeeeccccccChhHHHHHHHHHHHhh
Confidence            2   3578999999999876   223466777776     4444 599999999999999999999977643

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.37  E-value=8.8e-12  Score=102.00  Aligned_cols=120  Identities=15%  Similarity=0.066  Sum_probs=77.4

Q ss_pred             CCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEE
Q 029517           41 VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILA  120 (192)
Q Consensus        41 ~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~  120 (192)
                      ..|+...+..+..++.++.++||||+++|.......+..+|++++|+|+.....-+.. +.+..+...   ...++++++
T Consensus        65 giTid~~~~~~~~~~~~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~qt~-~~~~~~~~~---~~~~iivvi  140 (406)
T TIGR02034        65 GITIDVAYRYFSTDKRKFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQTR-RHSYIASLL---GIRHVVLAV  140 (406)
T ss_pred             CcCeEeeeEEEccCCeEEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCCccccH-HHHHHHHHc---CCCcEEEEE
Confidence            4466666667777788999999999999977766778899999999999765322211 111111122   234689999


Q ss_pred             eCCCCCCCCC--HHHHHhHcC--ccccCCcceEEEEeeecCCCCHHHH
Q 029517          121 NKQDLPDAVS--ADELARYLD--LKKLDERVCMFEAVSGYDGFGIKES  164 (192)
Q Consensus       121 nK~Dl~~~~~--~~~~~~~~~--~~~~~~~~~~~~~~Sa~~~~gi~e~  164 (192)
                      ||+|+.+...  .+++.+.+.  +........+++++||++|.|+++.
T Consensus       141 NK~D~~~~~~~~~~~i~~~~~~~~~~~~~~~~~iipiSA~~g~ni~~~  188 (406)
T TIGR02034       141 NKMDLVDYDEEVFENIKKDYLAFAEQLGFRDVTFIPLSALKGDNVVSR  188 (406)
T ss_pred             EecccccchHHHHHHHHHHHHHHHHHcCCCCccEEEeecccCCCCccc
Confidence            9999874211  111222111  0011122467999999999999863

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).

>TIGR00484 EF-G translation elongation factor EF-G

Probab=99.36  E-value=3.6e-11  Score=104.46  Aligned_cols=110  Identities=16%  Similarity=0.098  Sum_probs=75.9

Q ss_pred             hccccHHHHHHHHhhh--hccCCC--CCCC------CCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCE
Q 029517           13 FTKTEFHTLLEKLKSV--YSNVEG--LPPD------RIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHA   82 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~--~~~~~~--~~~~------~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   82 (192)
                      =|||++|+|++..-.+  ..++.+  .+.+      ....|+......+..++.++.+|||||+.++...+...++.+|+
T Consensus        22 GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~~~~~i~liDTPG~~~~~~~~~~~l~~~D~  101 (689)
T TIGR00484        22 GKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFWKGHRINIIDTPGHVDFTVEVERSLRVLDG  101 (689)
T ss_pred             CHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEECCeEEEEEECCCCcchhHHHHHHHHHhCE
Confidence            3899999998643221  111111  1111      22345555566778889999999999999988888899999999


Q ss_pred             EEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           83 VVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        83 ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      +++|+|+++....+.. ..+..+..    .++|+++++||+|+..
T Consensus       102 ~ilVvda~~g~~~~~~-~~~~~~~~----~~~p~ivviNK~D~~~  141 (689)
T TIGR00484       102 AVAVLDAVGGVQPQSE-TVWRQANR----YEVPRIAFVNKMDKTG  141 (689)
T ss_pred             EEEEEeCCCCCChhHH-HHHHHHHH----cCCCEEEEEECCCCCC
Confidence            9999999876554432 22232222    3689999999999864

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.

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=99.34  E-value=1e-11  Score=86.44  Aligned_cols=98  Identities=22%  Similarity=0.279  Sum_probs=70.0

Q ss_pred             EEEeCCCCc----ccHHHHHHhhhcCCEEEEEEeCCCccc-HHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCC-CCCCHH
Q 029517           59 VFWDLGGQP----GLRSIWEKYYEEAHAVVFVIDAACPSR-FEDSKTALEKVLRNEDLQGAPLLILANKQDLP-DAVSAD  132 (192)
Q Consensus        59 ~i~D~~G~~----~~~~~~~~~~~~~d~ii~v~D~~~~~s-~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~-~~~~~~  132 (192)
                      .++||||..    .|..........||.+++|.|++++.+ |.-   -   +...   ...|+|-|+||+|+. +....+
T Consensus        39 ~~IDTPGEyiE~~~~y~aLi~ta~dad~V~ll~dat~~~~~~pP---~---fa~~---f~~pvIGVITK~Dl~~~~~~i~  109 (143)
T PF10662_consen   39 NTIDTPGEYIENPRFYHALIVTAQDADVVLLLQDATEPRSVFPP---G---FASM---FNKPVIGVITKIDLPSDDANIE  109 (143)
T ss_pred             cEEECChhheeCHHHHHHHHHHHhhCCEEEEEecCCCCCccCCc---h---hhcc---cCCCEEEEEECccCccchhhHH
Confidence            459999943    444555556678999999999997643 221   1   1111   368999999999998 344566


Q ss_pred             HHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHH
Q 029517          133 ELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLV  169 (192)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~  169 (192)
                      .+.++++.....    ..|++|+.+|+||+++.++|-
T Consensus       110 ~a~~~L~~aG~~----~if~vS~~~~eGi~eL~~~L~  142 (143)
T PF10662_consen  110 RAKKWLKNAGVK----EIFEVSAVTGEGIEELKDYLE  142 (143)
T ss_pred             HHHHHHHHcCCC----CeEEEECCCCcCHHHHHHHHh
Confidence            666777633222    469999999999999999874

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

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=99.33  E-value=3.5e-11  Score=93.08  Aligned_cols=145  Identities=25%  Similarity=0.296  Sum_probs=104.1

Q ss_pred             ccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCc---cc----HHHHHHhhhcCCEEEEEEe
Q 029517           16 TEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQP---GL----RSIWEKYYEEAHAVVFVID   88 (192)
Q Consensus        16 t~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~---~~----~~~~~~~~~~~d~ii~v~D   88 (192)
                      ..-.+|++.++++.++++.+++++..|..|+    +++++..+|++|+||.-   ..    ........++||++++|+|
T Consensus        74 vGKStLL~~LTnt~seva~y~FTTl~~VPG~----l~Y~ga~IQild~Pgii~gas~g~grG~~vlsv~R~ADlIiiVld  149 (365)
T COG1163          74 VGKSTLLNKLTNTKSEVADYPFTTLEPVPGM----LEYKGAQIQLLDLPGIIEGASSGRGRGRQVLSVARNADLIIIVLD  149 (365)
T ss_pred             ccHHHHHHHHhCCCccccccCceecccccce----EeecCceEEEEcCcccccCcccCCCCcceeeeeeccCCEEEEEEe
Confidence            3345778888888899999998888887777    88999999999999831   11    1234556799999999999


Q ss_pred             CCCccc-HHHHHHHHH----------------------------------------HHHhC-------------------
Q 029517           89 AACPSR-FEDSKTALE----------------------------------------KVLRN-------------------  108 (192)
Q Consensus        89 ~~~~~s-~~~~~~~~~----------------------------------------~i~~~-------------------  108 (192)
                      +..... .+.+...+.                                        .++..                   
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            985443 332222111                                        11110                   


Q ss_pred             -----CCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          109 -----EDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       109 -----~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                           ....-+|.+.|.||+|+..   .+++....+       ....+.+||+++.|++++.+.|++.+.-
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---LEELERLAR-------KPNSVPISAKKGINLDELKERIWDVLGL  290 (365)
T ss_pred             HHHHhhcceeeeeEEEEecccccC---HHHHHHHHh-------ccceEEEecccCCCHHHHHHHHHHhhCe
Confidence                 0012479999999999875   455555554       2378899999999999999999998754

>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=99.32  E-value=5.9e-12  Score=95.02  Aligned_cols=138  Identities=18%  Similarity=0.263  Sum_probs=85.9

Q ss_pred             CCCCCCCCCCcceEEEEEEe-cCEEEEEEeCCCCcccHH-----HHHHhhhcCCEEEEEEeCCCcc---cHHHHHHHHHH
Q 029517           34 GLPPDRIVPTVGLNIGRIEV-SNSKLVFWDLGGQPGLRS-----IWEKYYEEAHAVVFVIDAACPS---RFEDSKTALEK  104 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~~~~-~~~~~~i~D~~G~~~~~~-----~~~~~~~~~d~ii~v~D~~~~~---s~~~~~~~~~~  104 (192)
                      +.......||+.++..++.. ..+.+++||+||+..+..     .....+++++++|+|+|+...+   .+..+...+..
T Consensus        25 p~dT~~L~~T~~ve~~~v~~~~~~~l~iwD~pGq~~~~~~~~~~~~~~if~~v~~LIyV~D~qs~~~~~~l~~~~~~i~~  104 (232)
T PF04670_consen   25 PRDTLRLEPTIDVEKSHVRFLSFLPLNIWDCPGQDDFMENYFNSQREEIFSNVGVLIYVFDAQSDDYDEDLAYLSDCIEA  104 (232)
T ss_dssp             GGGGGG-----SEEEEEEECTTSCEEEEEEE-SSCSTTHTTHTCCHHHHHCTESEEEEEEETT-STCHHHHHHHHHHHHH
T ss_pred             chhccccCCcCCceEEEEecCCCcEEEEEEcCCccccccccccccHHHHHhccCEEEEEEEcccccHHHHHHHHHHHHHH
Confidence            44455678999999888864 467999999999875433     3677899999999999998443   23344444555


Q ss_pred             HHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcC---ccccCCc---ceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          105 VLRNEDLQGAPLLILANKQDLPDAVSADELARYLD---LKKLDER---VCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       105 i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~---~~~~~~~---~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      +.+..  +++.+.++++|+|+......+++.+...   .......   .+.++.||..+ +.+.+++..++..+..
T Consensus       105 l~~~s--p~~~v~vfiHK~D~l~~~~r~~~~~~~~~~i~~~~~~~~~~~~~~~~TSI~D-~Sly~A~S~Ivq~LiP  177 (232)
T PF04670_consen  105 LRQYS--PNIKVFVFIHKMDLLSEDEREEIFRDIQQRIRDELEDLGIEDITFFLTSIWD-ESLYEAWSKIVQKLIP  177 (232)
T ss_dssp             HHHHS--TT-EEEEEEE-CCCS-HHHHHHHHHHHHHHHHHHHHHTT-TSEEEEEE-TTS-THHHHHHHHHHHTTST
T ss_pred             HHHhC--CCCeEEEEEeecccCCHHHHHHHHHHHHHHHHHHhhhccccceEEEeccCcC-cHHHHHHHHHHHHHcc
Confidence            55544  6899999999999865222222211111   0001122   48999999999 6899999999887654

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.

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.32  E-value=1.9e-11  Score=101.74  Aligned_cols=121  Identities=14%  Similarity=0.090  Sum_probs=77.3

Q ss_pred             CCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEE
Q 029517           41 VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILA  120 (192)
Q Consensus        41 ~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~  120 (192)
                      ..|+...+..+..++.++.|+||||+++|......-+..+|++++|+|+.....-.....+  .+....  ...|+++++
T Consensus        92 giTid~~~~~~~~~~~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G~~~qt~~~~--~l~~~l--g~~~iIvvv  167 (474)
T PRK05124         92 GITIDVAYRYFSTEKRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQTRRHS--FIATLL--GIKHLVVAV  167 (474)
T ss_pred             CCCeEeeEEEeccCCcEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccccchHHH--HHHHHh--CCCceEEEE
Confidence            3456666666777788999999999998877666667999999999999754221111111  112211  225799999


Q ss_pred             eCCCCCCCCC--HHHHHhHcC--ccccC-CcceEEEEeeecCCCCHHHHH
Q 029517          121 NKQDLPDAVS--ADELARYLD--LKKLD-ERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus       121 nK~Dl~~~~~--~~~~~~~~~--~~~~~-~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      ||+|+.+...  .+++.+.+.  +.... ....+++++||++|.|+.++-
T Consensus       168 NKiD~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~iipvSA~~g~ni~~~~  217 (474)
T PRK05124        168 NKMDLVDYSEEVFERIREDYLTFAEQLPGNLDIRFVPLSALEGDNVVSQS  217 (474)
T ss_pred             EeeccccchhHHHHHHHHHHHHHHHhcCCCCCceEEEEEeecCCCccccc
Confidence            9999874211  222222221  00011 225789999999999998753

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=99.32  E-value=4.6e-11  Score=100.47  Aligned_cols=141  Identities=21%  Similarity=0.272  Sum_probs=99.8

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCccc------HHHHHHhhh--cCCEEE
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGL------RSIWEKYYE--EAHAVV   84 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~------~~~~~~~~~--~~d~ii   84 (192)
                      =|||+||+|.+.    ..++.|.+    ..|.+-..+.+..++-.+++.|.||....      ......|+.  +.|++|
T Consensus        15 GKTtlFN~LTG~----~q~VgNwp----GvTVEkkeg~~~~~~~~i~ivDLPG~YSL~~~S~DE~Var~~ll~~~~D~iv   86 (653)
T COG0370          15 GKTTLFNALTGA----NQKVGNWP----GVTVEKKEGKLKYKGHEIEIVDLPGTYSLTAYSEDEKVARDFLLEGKPDLIV   86 (653)
T ss_pred             cHHHHHHHHhcc----CceecCCC----CeeEEEEEEEEEecCceEEEEeCCCcCCCCCCCchHHHHHHHHhcCCCCEEE
Confidence            367777766544    44444554    34444456667777888999999995432      222333443  579999


Q ss_pred             EEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC----CCCHHHHHhHcCccccCCcceEEEEeeecCCCC
Q 029517           85 FVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD----AVSADELARYLDLKKLDERVCMFEAVSGYDGFG  160 (192)
Q Consensus        85 ~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~----~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g  160 (192)
                      .|+|+++   +++.....-++++.    ++|++++.|++|..+    .++.+...+.+        +++++++||++|.|
T Consensus        87 nVvDAtn---LeRnLyltlQLlE~----g~p~ilaLNm~D~A~~~Gi~ID~~~L~~~L--------GvPVv~tvA~~g~G  151 (653)
T COG0370          87 NVVDATN---LERNLYLTLQLLEL----GIPMILALNMIDEAKKRGIRIDIEKLSKLL--------GVPVVPTVAKRGEG  151 (653)
T ss_pred             EEcccch---HHHHHHHHHHHHHc----CCCeEEEeccHhhHHhcCCcccHHHHHHHh--------CCCEEEEEeecCCC
Confidence            9999998   45555555555555    689999999999866    45666666655        58999999999999


Q ss_pred             HHHHHHHHHHHHHhcc
Q 029517          161 IKESVEWLVEVMERSK  176 (192)
Q Consensus       161 i~e~~~~i~~~i~~~~  176 (192)
                      ++++.+++.+...+..
T Consensus       152 ~~~l~~~i~~~~~~~~  167 (653)
T COG0370         152 LEELKRAIIELAESKT  167 (653)
T ss_pred             HHHHHHHHHHhccccc
Confidence            9999999987554443

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.32  E-value=5.9e-11  Score=89.66  Aligned_cols=114  Identities=23%  Similarity=0.215  Sum_probs=75.7

Q ss_pred             EecCEEEEEEeCCCCcccHHHHHHhhh--cCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCC
Q 029517           52 EVSNSKLVFWDLGGQPGLRSIWEKYYE--EAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAV  129 (192)
Q Consensus        52 ~~~~~~~~i~D~~G~~~~~~~~~~~~~--~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~  129 (192)
                      ...+..+.+.||||+++|.......+.  .+|++++|+|+.....- ....++..+..    .++|+++++||+|+.+..
T Consensus        80 ~~~~~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~~-~d~~~l~~l~~----~~ip~ivvvNK~D~~~~~  154 (224)
T cd04165          80 EKSSKLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGIIG-MTKEHLGLALA----LNIPVFVVVTKIDLAPAN  154 (224)
T ss_pred             eeCCcEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCcH-HHHHHHHHHHH----cCCCEEEEEECccccCHH
Confidence            344678999999999988776555554  68999999998765322 22233333332    368999999999986522


Q ss_pred             CH----HHHHhHcCcccc---------------------CCcceEEEEeeecCCCCHHHHHHHHHH
Q 029517          130 SA----DELARYLDLKKL---------------------DERVCMFEAVSGYDGFGIKESVEWLVE  170 (192)
Q Consensus       130 ~~----~~~~~~~~~~~~---------------------~~~~~~~~~~Sa~~~~gi~e~~~~i~~  170 (192)
                      ..    +++.+.++....                     .....+++.+||.+|.|++++...|..
T Consensus       155 ~~~~~~~~l~~~L~~~g~~~~p~~~~~~~~~~~~~~~~~~~~~~pi~~vSavtg~Gi~~L~~~L~~  220 (224)
T cd04165         155 ILQETLKDLKRILKVPGVRKLPVPVKSDDDVVLAASNFSSERIVPIFQVSNVTGEGLDLLHAFLNL  220 (224)
T ss_pred             HHHHHHHHHHHHhcCCCccccceeeecccceeehhhcCCccccCcEEEeeCCCccCHHHHHHHHHh
Confidence            22    223333331100                     122458999999999999999887643

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

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.32  E-value=1.6e-11  Score=101.43  Aligned_cols=119  Identities=15%  Similarity=0.202  Sum_probs=79.6

Q ss_pred             CCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCccc---H---HHHHHHHHHHHhCCCCCCC
Q 029517           41 VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSR---F---EDSKTALEKVLRNEDLQGA  114 (192)
Q Consensus        41 ~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s---~---~~~~~~~~~i~~~~~~~~~  114 (192)
                      ..|+...+..+..++..+.|+|||||.+|.......+..+|++++|+|++...-   +   ....+.+..+..    .++
T Consensus        70 GiTid~~~~~~~~~~~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~----~gi  145 (446)
T PTZ00141         70 GITIDIALWKFETPKYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAFT----LGV  145 (446)
T ss_pred             CEeEEeeeEEEccCCeEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHHH----cCC
Confidence            446666666777788999999999999998888888899999999999986420   0   122222222222    355


Q ss_pred             c-EEEEEeCCCCCCC----CC----HHHHHhHcCccccCCcceEEEEeeecCCCCHHH
Q 029517          115 P-LLILANKQDLPDA----VS----ADELARYLDLKKLDERVCMFEAVSGYDGFGIKE  163 (192)
Q Consensus       115 p-iiiv~nK~Dl~~~----~~----~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e  163 (192)
                      | +++++||+|....    ..    .+++.+.+....+....++++++||.+|.|+.+
T Consensus       146 ~~iiv~vNKmD~~~~~~~~~~~~~i~~~i~~~l~~~g~~~~~~~~ipiSa~~g~ni~~  203 (446)
T PTZ00141        146 KQMIVCINKMDDKTVNYSQERYDEIKKEVSAYLKKVGYNPEKVPFIPISGWQGDNMIE  203 (446)
T ss_pred             CeEEEEEEccccccchhhHHHHHHHHHHHHHHHHhcCCCcccceEEEeecccCCCccc
Confidence            5 7799999995421    11    233333333112222368899999999999964

>TIGR00503 prfC peptide chain release factor 3

Probab=99.31  E-value=4.8e-11  Score=100.29  Aligned_cols=79  Identities=18%  Similarity=0.221  Sum_probs=58.8

Q ss_pred             cceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCC
Q 029517           44 VGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQ  123 (192)
Q Consensus        44 ~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~  123 (192)
                      +......+.++++.+.+|||||+.+|......+++.+|++|+|+|+++.-. .....++. +...   .++|+++++||+
T Consensus        68 i~~~~~~~~~~~~~inliDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~-~~t~~l~~-~~~~---~~~PiivviNKi  142 (527)
T TIGR00503        68 ITTSVMQFPYRDCLVNLLDTPGHEDFSEDTYRTLTAVDNCLMVIDAAKGVE-TRTRKLME-VTRL---RDTPIFTFMNKL  142 (527)
T ss_pred             EEEEEEEEeeCCeEEEEEECCChhhHHHHHHHHHHhCCEEEEEEECCCCCC-HHHHHHHH-HHHh---cCCCEEEEEECc
Confidence            333344577789999999999999988877778999999999999986522 12223333 3333   468999999999


Q ss_pred             CCCC
Q 029517          124 DLPD  127 (192)
Q Consensus       124 Dl~~  127 (192)
                      |+..
T Consensus       143 D~~~  146 (527)
T TIGR00503       143 DRDI  146 (527)
T ss_pred             cccC
Confidence            9853

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.

>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=99.30  E-value=2.1e-11  Score=93.59  Aligned_cols=152  Identities=20%  Similarity=0.176  Sum_probs=96.8

Q ss_pred             hhhccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCc------ccHH------HHHHhhh
Q 029517           11 YIFTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQP------GLRS------IWEKYYE   78 (192)
Q Consensus        11 ~~~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~------~~~~------~~~~~~~   78 (192)
                      +.=|||+-|.++++..+.++...++++...       .+.+..++.++.++||||--      ++..      .....+.
T Consensus        82 NvGKStLtN~mig~kv~~vS~K~~TTr~~i-------lgi~ts~eTQlvf~DTPGlvs~~~~r~~~l~~s~lq~~~~a~q  154 (379)
T KOG1423|consen   82 NVGKSTLTNQMIGQKVSAVSRKVHTTRHRI-------LGIITSGETQLVFYDTPGLVSKKMHRRHHLMMSVLQNPRDAAQ  154 (379)
T ss_pred             CcchhhhhhHhhCCccccccccccceeeee-------eEEEecCceEEEEecCCcccccchhhhHHHHHHhhhCHHHHHh
Confidence            345899999999998887766555554442       44566778999999999921      1111      1223467


Q ss_pred             cCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCC---------------CC--HHHHHhHcCcc
Q 029517           79 EAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDA---------------VS--ADELARYLDLK  141 (192)
Q Consensus        79 ~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~---------------~~--~~~~~~~~~~~  141 (192)
                      .+|+++.|+|+++....-.- ..+.-+..+   ..+|-++|+||+|...+               ..  .-++++.+...
T Consensus       155 ~AD~vvVv~Das~tr~~l~p-~vl~~l~~y---s~ips~lvmnkid~~k~k~~Ll~l~~~Lt~g~l~~~kl~v~~~f~~~  230 (379)
T KOG1423|consen  155 NADCVVVVVDASATRTPLHP-RVLHMLEEY---SKIPSILVMNKIDKLKQKRLLLNLKDLLTNGELAKLKLEVQEKFTDV  230 (379)
T ss_pred             hCCEEEEEEeccCCcCccCh-HHHHHHHHH---hcCCceeeccchhcchhhhHHhhhHHhccccccchhhhhHHHHhccC
Confidence            89999999999864322111 111222223   57899999999997541               11  12222222210


Q ss_pred             c-----c---C-CcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517          142 K-----L---D-ERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus       142 ~-----~---~-~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      .     .   . .+--.+|.+||+.|.||+|+.++|..++.
T Consensus       231 p~~~~~~~~~gwshfe~vF~vSaL~G~GikdlkqyLmsqa~  271 (379)
T KOG1423|consen  231 PSDEKWRTICGWSHFERVFMVSALYGEGIKDLKQYLMSQAP  271 (379)
T ss_pred             CcccccccccCcccceeEEEEecccccCHHHHHHHHHhcCC
Confidence            0     0   0 11234899999999999999999987664

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=99.30  E-value=2.6e-11  Score=104.37  Aligned_cols=146  Identities=17%  Similarity=0.105  Sum_probs=89.8

Q ss_pred             ccccHHHHHHHHhhhhcc----------CCCCCCC---------------CCCCCcceEEEEEEecCEEEEEEeCCCCcc
Q 029517           14 TKTEFHTLLEKLKSVYSN----------VEGLPPD---------------RIVPTVGLNIGRIEVSNSKLVFWDLGGQPG   68 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~----------~~~~~~~---------------~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~   68 (192)
                      |||++++|++..-.+..+          ..+.+.+               ....|+...+..+..++.++.++||||+++
T Consensus        37 KSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~tr~~~~~~~~~d~~~~E~~rg~Tid~~~~~~~~~~~~~~liDtPG~~~  116 (632)
T PRK05506         37 KSTLIGRLLYDSKMIFEDQLAALERDSKKVGTQGDEIDLALLVDGLAAEREQGITIDVAYRYFATPKRKFIVADTPGHEQ  116 (632)
T ss_pred             hHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCCCCcceeeeeccCCHHHHhCCcCceeeeeEEccCCceEEEEECCChHH
Confidence            899999999866543321          1222110               123455565666777788999999999998


Q ss_pred             cHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCC--CCHHHHHhHcC--ccccC
Q 029517           69 LRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDA--VSADELARYLD--LKKLD  144 (192)
Q Consensus        69 ~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~--~~~~~~~~~~~--~~~~~  144 (192)
                      |.......+..+|++++|+|+.....-+. .+.+..+...   ...|+++++||+|+.+.  ...+++...+.  +....
T Consensus       117 f~~~~~~~~~~aD~~llVvda~~g~~~~t-~e~~~~~~~~---~~~~iivvvNK~D~~~~~~~~~~~i~~~i~~~~~~~~  192 (632)
T PRK05506        117 YTRNMVTGASTADLAIILVDARKGVLTQT-RRHSFIASLL---GIRHVVLAVNKMDLVDYDQEVFDEIVADYRAFAAKLG  192 (632)
T ss_pred             HHHHHHHHHHhCCEEEEEEECCCCccccC-HHHHHHHHHh---CCCeEEEEEEecccccchhHHHHHHHHHHHHHHHHcC
Confidence            87766667889999999999975532211 1111112222   23688999999998641  11122222111  00111


Q ss_pred             CcceEEEEeeecCCCCHHH
Q 029517          145 ERVCMFEAVSGYDGFGIKE  163 (192)
Q Consensus       145 ~~~~~~~~~Sa~~~~gi~e  163 (192)
                      ....+++++||++|.|+.+
T Consensus       193 ~~~~~iipiSA~~g~ni~~  211 (632)
T PRK05506        193 LHDVTFIPISALKGDNVVT  211 (632)
T ss_pred             CCCccEEEEecccCCCccc
Confidence            2246789999999999985

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.29  E-value=2.6e-11  Score=100.14  Aligned_cols=113  Identities=16%  Similarity=0.148  Sum_probs=77.7

Q ss_pred             EEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc-cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC----
Q 029517           56 SKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS-RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVS----  130 (192)
Q Consensus        56 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~-s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~----  130 (192)
                      .++.++|+|||++|......-+..+|++++|+|+..+. ..+. .+.+. +....  .-.|+++++||+|+.+...    
T Consensus       117 ~~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT-~ehl~-i~~~l--gi~~iIVvlNKiDlv~~~~~~~~  192 (460)
T PTZ00327        117 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQT-SEHLA-AVEIM--KLKHIIILQNKIDLVKEAQAQDQ  192 (460)
T ss_pred             ceEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhh-HHHHH-HHHHc--CCCcEEEEEecccccCHHHHHHH
Confidence            47899999999999887777788999999999998642 2222 22222 22221  2357899999999875211    


Q ss_pred             HHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          131 ADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      .+++.+++..  ......+++++||++|.|++++++.|.+.+..
T Consensus       193 ~~ei~~~l~~--~~~~~~~iipVSA~~G~nI~~Ll~~L~~~lp~  234 (460)
T PTZ00327        193 YEEIRNFVKG--TIADNAPIIPISAQLKYNIDVVLEYICTQIPI  234 (460)
T ss_pred             HHHHHHHHHh--hccCCCeEEEeeCCCCCCHHHHHHHHHhhCCC
Confidence            2233333321  11246799999999999999999999875543

>PRK00049 elongation factor Tu; Reviewed

Probab=99.28  E-value=7.5e-11  Score=96.27  Aligned_cols=154  Identities=14%  Similarity=0.070  Sum_probs=92.0

Q ss_pred             ccccHHHHHHHHhhhhcc------CCCCCCC--CCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSN------VEGLPPD--RIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~------~~~~~~~--~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   85 (192)
                      |||+.++|++........      ..+...+  ....|+......+..++..+.+.||||+.+|.......+..+|++++
T Consensus        25 KSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~~f~~~~~~~~~~aD~~ll  104 (396)
T PRK00049         25 KTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINTAHVEYETEKRHYAHVDCPGHADYVKNMITGAAQMDGAIL  104 (396)
T ss_pred             HHHHHHHHHHhhhhccCCcccchhhccCChHHHhcCeEEeeeEEEEcCCCeEEEEEECCCHHHHHHHHHhhhccCCEEEE
Confidence            899999998754221000      0011111  22334444444455567789999999999887777777889999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCcEE-EEEeCCCCCCCCC-H----HHHHhHcCccccCCcceEEEEeeecCCC
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAPLL-ILANKQDLPDAVS-A----DELARYLDLKKLDERVCMFEAVSGYDGF  159 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~pii-iv~nK~Dl~~~~~-~----~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  159 (192)
                      |+|+.....- ...+.+..+..    .++|.+ +++||+|+.+... .    +++.+++..........+++++||++|.
T Consensus       105 VVDa~~g~~~-qt~~~~~~~~~----~g~p~iiVvvNK~D~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~iv~iSa~~g~  179 (396)
T PRK00049        105 VVSAADGPMP-QTREHILLARQ----VGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYDFPGDDTPIIRGSALKAL  179 (396)
T ss_pred             EEECCCCCch-HHHHHHHHHHH----cCCCEEEEEEeecCCcchHHHHHHHHHHHHHHHHhcCCCccCCcEEEeeccccc
Confidence            9999865322 22233333332    357876 5899999864111 1    1333333211111235789999999875


Q ss_pred             ----------CHHHHHHHHHHHH
Q 029517          160 ----------GIKESVEWLVEVM  172 (192)
Q Consensus       160 ----------gi~e~~~~i~~~i  172 (192)
                                |+..+++.|...+
T Consensus       180 ~~~~~~~w~~~~~~ll~~l~~~~  202 (396)
T PRK00049        180 EGDDDEEWEKKILELMDAVDSYI  202 (396)
T ss_pred             CCCCcccccccHHHHHHHHHhcC
Confidence                      4566666666543

>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.27  E-value=1.1e-10  Score=95.64  Aligned_cols=113  Identities=16%  Similarity=0.192  Sum_probs=83.1

Q ss_pred             cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHH
Q 029517           54 SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADE  133 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~  133 (192)
                      .+-.+.|.|||||..|..++..--+-+|.+++|+.+.|.--.+.+.    .|... ...+.|+++.+||+|.+++....-
T Consensus       199 ~G~~iTFLDTPGHaAF~aMRaRGA~vtDIvVLVVAadDGVmpQT~E----aIkhA-k~A~VpiVvAinKiDkp~a~pekv  273 (683)
T KOG1145|consen  199 SGKSITFLDTPGHAAFSAMRARGANVTDIVVLVVAADDGVMPQTLE----AIKHA-KSANVPIVVAINKIDKPGANPEKV  273 (683)
T ss_pred             CCCEEEEecCCcHHHHHHHHhccCccccEEEEEEEccCCccHhHHH----HHHHH-HhcCCCEEEEEeccCCCCCCHHHH
Confidence            4578999999999999999998888899999999988764333322    22211 125899999999999997654444


Q ss_pred             HHhHcCcccc--C--CcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517          134 LARYLDLKKL--D--ERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus       134 ~~~~~~~~~~--~--~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                      ..+++. ..+  +  ....+++++||++|.|++.+-+++.-..
T Consensus       274 ~~eL~~-~gi~~E~~GGdVQvipiSAl~g~nl~~L~eaill~A  315 (683)
T KOG1145|consen  274 KRELLS-QGIVVEDLGGDVQVIPISALTGENLDLLEEAILLLA  315 (683)
T ss_pred             HHHHHH-cCccHHHcCCceeEEEeecccCCChHHHHHHHHHHH
Confidence            444443 111  1  2358899999999999999999987544

>PLN03127 Elongation factor Tu; Provisional

Probab=99.27  E-value=1.3e-10  Score=96.05  Aligned_cols=128  Identities=17%  Similarity=0.138  Sum_probs=80.2

Q ss_pred             CCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCc-EEEE
Q 029517           41 VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAP-LLIL  119 (192)
Q Consensus        41 ~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~p-iiiv  119 (192)
                      ..|+......+..++.++.+.||||+.+|......-...+|++++|+|+.....-+ ..+.+..+..    .++| ++++
T Consensus       109 GiTi~~~~~~~~~~~~~i~~iDtPGh~~f~~~~~~g~~~aD~allVVda~~g~~~q-t~e~l~~~~~----~gip~iIvv  183 (447)
T PLN03127        109 GITIATAHVEYETAKRHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQ-TKEHILLARQ----VGVPSLVVF  183 (447)
T ss_pred             CceeeeeEEEEcCCCeEEEEEECCCccchHHHHHHHHhhCCEEEEEEECCCCCchh-HHHHHHHHHH----cCCCeEEEE
Confidence            44666655666667789999999999988776666677899999999997653222 2233333322    3678 5788


Q ss_pred             EeCCCCCCCCC-HH----HHHhHcCccccCCcceEEEEeeec---CCCC-------HHHHHHHHHHHHH
Q 029517          120 ANKQDLPDAVS-AD----ELARYLDLKKLDERVCMFEAVSGY---DGFG-------IKESVEWLVEVME  173 (192)
Q Consensus       120 ~nK~Dl~~~~~-~~----~~~~~~~~~~~~~~~~~~~~~Sa~---~~~g-------i~e~~~~i~~~i~  173 (192)
                      +||+|+.+... .+    ++.+++.........++++++||.   +|.|       +.++++++.+.+.
T Consensus       184 iNKiDlv~~~~~~~~i~~~i~~~l~~~~~~~~~vpiip~Sa~sa~~g~n~~~~~~~i~~Ll~~l~~~lp  252 (447)
T PLN03127        184 LNKVDVVDDEELLELVEMELRELLSFYKFPGDEIPIIRGSALSALQGTNDEIGKNAILKLMDAVDEYIP  252 (447)
T ss_pred             EEeeccCCHHHHHHHHHHHHHHHHHHhCCCCCcceEEEeccceeecCCCcccccchHHHHHHHHHHhCC
Confidence            99999874111 11    222222211111235788888775   4555       6777777766543

>PRK12739 elongation factor G; Reviewed

Probab=99.21  E-value=4.3e-10  Score=97.82  Aligned_cols=110  Identities=15%  Similarity=0.077  Sum_probs=75.1

Q ss_pred             hccccHHHHHHHHhhh--hccCCC------CCC--CCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCE
Q 029517           13 FTKTEFHTLLEKLKSV--YSNVEG------LPP--DRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHA   82 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~--~~~~~~------~~~--~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   82 (192)
                      =|||++++|+...-..  ...+.+      ...  ....-|+......+..++.++.++||||+.+|...+...++.+|+
T Consensus        20 GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~i~liDTPG~~~f~~e~~~al~~~D~   99 (691)
T PRK12739         20 GKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKGHRINIIDTPGHVDFTIEVERSLRVLDG   99 (691)
T ss_pred             CHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEEECCEEEEEEcCCCHHHHHHHHHHHHHHhCe
Confidence            3899999998643211  011111      000  122446666666787888999999999999888888899999999


Q ss_pred             EEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           83 VVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        83 ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      +++|+|+.+...-+.. ..+..+..    .++|+++++||+|+..
T Consensus       100 ~ilVvDa~~g~~~qt~-~i~~~~~~----~~~p~iv~iNK~D~~~  139 (691)
T PRK12739        100 AVAVFDAVSGVEPQSE-TVWRQADK----YGVPRIVFVNKMDRIG  139 (691)
T ss_pred             EEEEEeCCCCCCHHHH-HHHHHHHH----cCCCEEEEEECCCCCC
Confidence            9999999876433322 22222322    3689999999999874

>KOG0082 consensus G-protein alpha subunit (small G protein superfamily) [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=99.20  E-value=3.5e-10  Score=89.42  Aligned_cols=138  Identities=21%  Similarity=0.387  Sum_probs=108.3

Q ss_pred             CCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCC----------cccHHHHHHHHHHHHhC
Q 029517           39 RIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAAC----------PSRFEDSKTALEKVLRN  108 (192)
Q Consensus        39 ~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~----------~~s~~~~~~~~~~i~~~  108 (192)
                      ...||.|+....+..++.++.+.|+|||..-+.-|.+++.+++++|||+++++          .....+...+++.++..
T Consensus       178 ~R~~T~GI~e~~F~~k~~~f~~~DvGGQRseRrKWihcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~sI~n~  257 (354)
T KOG0082|consen  178 SRVPTTGIVEVEFTIKGLKFRMFDVGGQRSERKKWIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFESICNN  257 (354)
T ss_pred             hccCcCCeeEEEEEeCCCceEEEeCCCcHHHhhhHHHhhcCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHHHHhcC
Confidence            44789999999999999999999999999889999999999999999998763          23445667788888888


Q ss_pred             CCCCCCcEEEEEeCCCCCC-----------------CCCHHHHHhHcC-----ccccCCcceEEEEeeecCCCCHHHHHH
Q 029517          109 EDLQGAPLLILANKQDLPD-----------------AVSADELARYLD-----LKKLDERVCMFEAVSGYDGFGIKESVE  166 (192)
Q Consensus       109 ~~~~~~piiiv~nK~Dl~~-----------------~~~~~~~~~~~~-----~~~~~~~~~~~~~~Sa~~~~gi~e~~~  166 (192)
                      ....+.++++++||.|+-+                 ....+++..++.     +..-..+.+-+..+.|.+-.+|+.+|+
T Consensus       258 ~~F~~tsiiLFLNK~DLFeEKi~~~~~~~~Fpdy~G~~~~~~a~~yI~~kF~~l~~~~~k~iy~h~T~AtDT~nv~~vf~  337 (354)
T KOG0082|consen  258 KWFANTSIILFLNKKDLFEEKIKKVPLTDCFPDYKGVNTYEEAAKYIRKKFEELNKNKDKKIYVHFTCATDTQNVQFVFD  337 (354)
T ss_pred             cccccCcEEEEeecHHHHHHHhccCchhhhCcCCCCCCChHHHHHHHHHHHHHHhcccCCcceEEEEeeccHHHHHHHHH
Confidence            8888999999999999832                 223344444443     111112566677889999999999999


Q ss_pred             HHHHHHHhcc
Q 029517          167 WLVEVMERSK  176 (192)
Q Consensus       167 ~i~~~i~~~~  176 (192)
                      .+.+.+....
T Consensus       338 av~d~Ii~~n  347 (354)
T KOG0082|consen  338 AVTDTIIQNN  347 (354)
T ss_pred             HHHHHHHHHH
Confidence            9998887653

>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=99.20  E-value=4.2e-12  Score=92.01  Aligned_cols=85  Identities=31%  Similarity=0.518  Sum_probs=59.6

Q ss_pred             CEEEEEEeCCCCcccHHHHHH---hhhcCCEEEEEEeCCC-cccHHHHHHHHHHHHhCCC--CCCCcEEEEEeCCCCCCC
Q 029517           55 NSKLVFWDLGGQPGLRSIWEK---YYEEAHAVVFVIDAAC-PSRFEDSKTALEKVLRNED--LQGAPLLILANKQDLPDA  128 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~---~~~~~d~ii~v~D~~~-~~s~~~~~~~~~~i~~~~~--~~~~piiiv~nK~Dl~~~  128 (192)
                      ...+.++|+|||.+.+.....   +...+.+||||+|++. ...+.++.+++..++....  ...+|+++++||.|+..+
T Consensus        48 ~~~~~lvD~PGH~rlr~~~~~~~~~~~~~k~IIfvvDSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~A  127 (181)
T PF09439_consen   48 GKKLRLVDIPGHPRLRSKLLDELKYLSNAKGIIFVVDSSTDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFTA  127 (181)
T ss_dssp             GTCECEEEETT-HCCCHHHHHHHHHHGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT-
T ss_pred             CCEEEEEECCCcHHHHHHHHHhhhchhhCCEEEEEEeCccchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCcccccc
Confidence            457999999999988764433   5889999999999973 4567777777777775422  357899999999999877


Q ss_pred             CCHHHHHhHcC
Q 029517          129 VSADELARYLD  139 (192)
Q Consensus       129 ~~~~~~~~~~~  139 (192)
                      .+...+...++
T Consensus       128 ~~~~~Ik~~LE  138 (181)
T PF09439_consen  128 KPPKKIKKLLE  138 (181)
T ss_dssp             --HHHHHHHHH
T ss_pred             CCHHHHHHHHH
Confidence            66666666654

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.

>cd01859 MJ1464 MJ1464

Probab=99.16  E-value=2e-10  Score=82.00  Aligned_cols=96  Identities=22%  Similarity=0.222  Sum_probs=64.4

Q ss_pred             cHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcce
Q 029517           69 LRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVC  148 (192)
Q Consensus        69 ~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  148 (192)
                      ++.++.++++++|++++|+|++++.....  ..+......   .++|+++|+||+|+......+....+..     ..+.
T Consensus         2 ~~~~~~~i~~~aD~vl~V~D~~~~~~~~~--~~l~~~~~~---~~~p~iiv~NK~Dl~~~~~~~~~~~~~~-----~~~~   71 (156)
T cd01859           2 WKRLVRRIIKESDVVLEVLDARDPELTRS--RKLERYVLE---LGKKLLIVLNKADLVPKEVLEKWKSIKE-----SEGI   71 (156)
T ss_pred             HHHHHHHHHhhCCEEEEEeeCCCCcccCC--HHHHHHHHh---CCCcEEEEEEhHHhCCHHHHHHHHHHHH-----hCCC
Confidence            35667788889999999999987542221  112222222   3689999999999864211122211221     2346


Q ss_pred             EEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          149 MFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       149 ~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      +++.+||+++.|++++++.+.+.+..
T Consensus        72 ~~~~iSa~~~~gi~~L~~~l~~~~~~   97 (156)
T cd01859          72 PVVYVSAKERLGTKILRRTIKELAKI   97 (156)
T ss_pred             cEEEEEccccccHHHHHHHHHHHHhh
Confidence            78999999999999999999887653

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.

>PRK09866 hypothetical protein; Provisional

Probab=99.16  E-value=7.5e-10  Score=93.31  Aligned_cols=127  Identities=23%  Similarity=0.256  Sum_probs=83.3

Q ss_pred             CCCcceEEEEEEec---CEEEEEEeCCCCcc-----cHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCC
Q 029517           41 VPTVGLNIGRIEVS---NSKLVFWDLGGQPG-----LRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQ  112 (192)
Q Consensus        41 ~~T~g~~~~~~~~~---~~~~~i~D~~G~~~-----~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~  112 (192)
                      .|.+.+++.++.+.   ...+.|+||||-..     ........++.+|++++|+|.+...+... ....+.+.+..  .
T Consensus       212 ~p~iev~f~hl~g~l~~~~QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~~s~~D-eeIlk~Lkk~~--K  288 (741)
T PRK09866        212 IPVIEVEFVHLAGLESYPGQLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQLKSISD-EEVREAILAVG--Q  288 (741)
T ss_pred             CceeeeeeeeccccccccCCEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCCCChhH-HHHHHHHHhcC--C
Confidence            46677777776542   35789999999532     23334457899999999999987543333 12223332221  1


Q ss_pred             CCcEEEEEeCCCCCCCC--CHHHHHhHcC--ccccCCcceEEEEeeecCCCCHHHHHHHHHH
Q 029517          113 GAPLLILANKQDLPDAV--SADELARYLD--LKKLDERVCMFEAVSGYDGFGIKESVEWLVE  170 (192)
Q Consensus       113 ~~piiiv~nK~Dl~~~~--~~~~~~~~~~--~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~  170 (192)
                      ..|+++|+||+|+.+..  ..+.+.+++.  +.........++++||++|.|++++.+.|..
T Consensus       289 ~~PVILVVNKIDl~dreeddkE~Lle~V~~~L~q~~i~f~eIfPVSAlkG~nid~LLdeI~~  350 (741)
T PRK09866        289 SVPLYVLVNKFDQQDRNSDDADQVRALISGTLMKGCITPQQIFPVSSMWGYLANRARHELAN  350 (741)
T ss_pred             CCCEEEEEEcccCCCcccchHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHh
Confidence            25999999999986422  2455555432  1011122457999999999999999999887

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=99.13  E-value=2.8e-10  Score=84.40  Aligned_cols=118  Identities=15%  Similarity=0.233  Sum_probs=72.0

Q ss_pred             EEEEEEeCCCCcccHHHHHHh-----hhcCCEEEEEEeCCCcccHHHHH-HHHHHHHhCCCCCCCcEEEEEeCCCCCCCC
Q 029517           56 SKLVFWDLGGQPGLRSIWEKY-----YEEAHAVVFVIDAACPSRFEDSK-TALEKVLRNEDLQGAPLLILANKQDLPDAV  129 (192)
Q Consensus        56 ~~~~i~D~~G~~~~~~~~~~~-----~~~~d~ii~v~D~~~~~s~~~~~-~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~  129 (192)
                      ..+.+||+||..........|     +.++|++++|.|..    +.... .++..+...    +.|+++|+||+|+....
T Consensus        52 ~~l~l~DtpG~~~~~~~~~~~l~~~~~~~~d~~l~v~~~~----~~~~d~~~~~~l~~~----~~~~ilV~nK~D~~~~~  123 (197)
T cd04104          52 PNVTLWDLPGIGSTAFPPDDYLEEMKFSEYDFFIIISSTR----FSSNDVKLAKAIQCM----GKKFYFVRTKVDRDLSN  123 (197)
T ss_pred             CCceEEeCCCCCcccCCHHHHHHHhCccCcCEEEEEeCCC----CCHHHHHHHHHHHHh----CCCEEEEEecccchhhh
Confidence            378999999975322222222     56789988885432    33333 333333332    58999999999984311


Q ss_pred             ---------CHHHHHhHcC------ccccCCcceEEEEeeec--CCCCHHHHHHHHHHHHHhcchhhhh
Q 029517          130 ---------SADELARYLD------LKKLDERVCMFEAVSGY--DGFGIKESVEWLVEVMERSKRTEML  181 (192)
Q Consensus       130 ---------~~~~~~~~~~------~~~~~~~~~~~~~~Sa~--~~~gi~e~~~~i~~~i~~~~~~~~~  181 (192)
                               ..+++.+.+.      +........++|.+|+.  .+.|+..+.+.+...+.+.++.-.+
T Consensus       124 ~~~~~~~~~~~~~~l~~i~~~~~~~~~~~~~~~p~v~~vS~~~~~~~~~~~l~~~~~~~l~~~~~~~~~  192 (197)
T cd04104         124 EQRSKPRSFNREQVLQEIRDNCLENLQEAGVSEPPVFLVSNFDPSDYDFPKLRETLLKDLPAHKRHVFL  192 (197)
T ss_pred             hhccccccccHHHHHHHHHHHHHHHHHHcCCCCCCEEEEeCCChhhcChHHHHHHHHHHhhHHHHHHHH
Confidence                     1122222221      00011224579999998  5789999999999999887765443

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

>PRK13768 GTPase; Provisional

Probab=99.12  E-value=4.3e-10  Score=86.48  Aligned_cols=117  Identities=26%  Similarity=0.275  Sum_probs=75.0

Q ss_pred             EEEEEEeCCCCccc---HHHHHHhhhc-----CCEEEEEEeCCCcccHHHHH--HHHHHHHhCCCCCCCcEEEEEeCCCC
Q 029517           56 SKLVFWDLGGQPGL---RSIWEKYYEE-----AHAVVFVIDAACPSRFEDSK--TALEKVLRNEDLQGAPLLILANKQDL  125 (192)
Q Consensus        56 ~~~~i~D~~G~~~~---~~~~~~~~~~-----~d~ii~v~D~~~~~s~~~~~--~~~~~i~~~~~~~~~piiiv~nK~Dl  125 (192)
                      ..+.+||+||+.+.   +..+..+++.     ++++++|+|++...+.....  .|+.......  .++|+++|+||+|+
T Consensus        97 ~~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~~--~~~~~i~v~nK~D~  174 (253)
T PRK13768         97 ADYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQLR--LGLPQIPVLNKADL  174 (253)
T ss_pred             CCEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHHH--cCCCEEEEEEhHhh
Confidence            37899999997653   3344333333     89999999996544332221  2222111111  47999999999999


Q ss_pred             CCCCCHHHHHhHcCc-----------------------cccC--CcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          126 PDAVSADELARYLDL-----------------------KKLD--ERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       126 ~~~~~~~~~~~~~~~-----------------------~~~~--~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      ....+.+...+.+..                       ..+.  ....+++++||+++.|++++.++|.+.+..
T Consensus       175 ~~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~~~vi~iSa~~~~gl~~L~~~I~~~l~~  248 (253)
T PRK13768        175 LSEEELERILKWLEDPEYLLEELKLEKGLQGLLSLELLRALEETGLPVRVIPVSAKTGEGFDELYAAIQEVFCG  248 (253)
T ss_pred             cCchhHHHHHHHHhCHHHHHHHHhcccchHHHHHHHHHHHHHHHCCCCcEEEEECCCCcCHHHHHHHHHHHcCC
Confidence            765444444443331                       0000  123588999999999999999999887643

>PRK00007 elongation factor G; Reviewed

Probab=99.10  E-value=2.7e-09  Score=92.91  Aligned_cols=110  Identities=15%  Similarity=0.039  Sum_probs=72.6

Q ss_pred             hccccHHHHHHHHhhh--hccCCC------CCC--CCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCE
Q 029517           13 FTKTEFHTLLEKLKSV--YSNVEG------LPP--DRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHA   82 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~--~~~~~~------~~~--~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   82 (192)
                      =|||++++|+...-..  ..++.+      ...  .....|+......+...+.++.+.||||+.+|.......++.+|+
T Consensus        22 GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~~~~~~~liDTPG~~~f~~ev~~al~~~D~  101 (693)
T PRK00007         22 GKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKDHRINIIDTPGHVDFTIEVERSLRVLDG  101 (693)
T ss_pred             CHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEECCeEEEEEeCCCcHHHHHHHHHHHHHcCE
Confidence            3899999998543221  001111      000  122345544455677778999999999999888778888899999


Q ss_pred             EEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           83 VVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        83 ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      +++|+|+...-.-+.. ..+..+..    .++|.++++||+|+.+
T Consensus       102 ~vlVvda~~g~~~qt~-~~~~~~~~----~~~p~iv~vNK~D~~~  141 (693)
T PRK00007        102 AVAVFDAVGGVEPQSE-TVWRQADK----YKVPRIAFVNKMDRTG  141 (693)
T ss_pred             EEEEEECCCCcchhhH-HHHHHHHH----cCCCEEEEEECCCCCC
Confidence            9999998766434332 22233333    3689999999999864

>PRK09602 translation-associated GTPase; Reviewed

Probab=99.09  E-value=1.4e-09  Score=88.51  Aligned_cols=73  Identities=22%  Similarity=0.292  Sum_probs=50.5

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEE-------------------E-ecCEEEEEEeCCCC----ccc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRI-------------------E-VSNSKLVFWDLGGQ----PGL   69 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~-------------------~-~~~~~~~i~D~~G~----~~~   69 (192)
                      |||+||+|.+.    ...++++++++..|++|......                   + ...+.+++||+||.    ...
T Consensus        14 KSTlfn~Lt~~----~~~~~~y~f~t~~p~~g~~~v~~~~~~~r~~~~~~~~~~~~~~~~~~~~i~i~D~aGl~~ga~~g   89 (396)
T PRK09602         14 KSTFFNAATLA----DVEIANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGKCIDGTRFIPVELIDVAGLVPGAHEG   89 (396)
T ss_pred             HHHHHHHHhCC----cccccCCCCcceeeeeeeeeeccCCchhhhhhhhccccccccCCcceeeEEEEEcCCcCCCccch
Confidence            78888888754    33556777788888888755311                   0 12367999999994    223


Q ss_pred             HHHHHH---hhhcCCEEEEEEeCC
Q 029517           70 RSIWEK---YYEEAHAVVFVIDAA   90 (192)
Q Consensus        70 ~~~~~~---~~~~~d~ii~v~D~~   90 (192)
                      ..+...   .+++||++++|+|+.
T Consensus        90 ~glg~~fL~~ir~ad~ll~Vvd~~  113 (396)
T PRK09602         90 RGLGNQFLDDLRQADALIHVVDAS  113 (396)
T ss_pred             hhHHHHHHHHHHHCCEEEEEEeCC
Confidence            333333   489999999999996

>cd01855 YqeH YqeH

Probab=99.07  E-value=9.9e-10  Score=80.92  Aligned_cols=98  Identities=15%  Similarity=0.192  Sum_probs=65.3

Q ss_pred             cHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC-CCCHHHHHhHc---CccccC
Q 029517           69 LRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD-AVSADELARYL---DLKKLD  144 (192)
Q Consensus        69 ~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~-~~~~~~~~~~~---~~~~~~  144 (192)
                      +...+..+++++|++++|+|+++...-     |...+....  .++|+++|+||+|+.. ....+.+..+.   ......
T Consensus        24 ~~~~l~~~~~~ad~il~VvD~~~~~~~-----~~~~l~~~~--~~~~~ilV~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~   96 (190)
T cd01855          24 ILNLLSSISPKKALVVHVVDIFDFPGS-----LIPRLRLFG--GNNPVILVGNKIDLLPKDKNLVRIKNWLRAKAAAGLG   96 (190)
T ss_pred             HHHHHHhcccCCcEEEEEEECccCCCc-----cchhHHHhc--CCCcEEEEEEchhcCCCCCCHHHHHHHHHHHHHhhcC
Confidence            577889999999999999999875311     111221111  4689999999999864 23333333332   000001


Q ss_pred             CcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517          145 ERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus       145 ~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      .....++++||++|.|+++++++|.+.+.
T Consensus        97 ~~~~~i~~vSA~~~~gi~eL~~~l~~~l~  125 (190)
T cd01855          97 LKPKDVILISAKKGWGVEELINAIKKLAK  125 (190)
T ss_pred             CCcccEEEEECCCCCCHHHHHHHHHHHhh
Confidence            11236899999999999999999988764

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.

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=99.06  E-value=2.1e-09  Score=86.87  Aligned_cols=120  Identities=18%  Similarity=0.235  Sum_probs=87.1

Q ss_pred             EEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCC
Q 029517           50 RIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAV  129 (192)
Q Consensus        50 ~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~  129 (192)
                      .+.+++++++|+|||||.+|....+..+.-.|++++++|+....-.+ .+-.+.+.+..    +.+-|+|.||+|.+.+-
T Consensus        62 av~~~~~~INIvDTPGHADFGGEVERvl~MVDgvlLlVDA~EGpMPQ-TrFVlkKAl~~----gL~PIVVvNKiDrp~Ar  136 (603)
T COG1217          62 AVNYNGTRINIVDTPGHADFGGEVERVLSMVDGVLLLVDASEGPMPQ-TRFVLKKALAL----GLKPIVVINKIDRPDAR  136 (603)
T ss_pred             eeecCCeEEEEecCCCcCCccchhhhhhhhcceEEEEEEcccCCCCc-hhhhHHHHHHc----CCCcEEEEeCCCCCCCC
Confidence            37788999999999999999999999999999999999998654333 33344444444    45666889999998865


Q ss_pred             CHHHHHhHcC----cc-ccCCcceEEEEeeecCCC----------CHHHHHHHHHHHHHh
Q 029517          130 SADELARYLD----LK-KLDERVCMFEAVSGYDGF----------GIKESVEWLVEVMER  174 (192)
Q Consensus       130 ~~~~~~~~~~----~~-~~~~~~~~~~~~Sa~~~~----------gi~e~~~~i~~~i~~  174 (192)
                      ..+-+.+.+.    +. .-....++++..||..|.          ++.-+|+.|++.+..
T Consensus       137 p~~Vvd~vfDLf~~L~A~deQLdFPivYAS~~~G~a~~~~~~~~~~m~pLfe~I~~hvp~  196 (603)
T COG1217         137 PDEVVDEVFDLFVELGATDEQLDFPIVYASARNGTASLDPEDEADDMAPLFETILDHVPA  196 (603)
T ss_pred             HHHHHHHHHHHHHHhCCChhhCCCcEEEeeccCceeccCccccccchhHHHHHHHHhCCC
Confidence            4444444333    11 112457899999998764          467778888777654

>KOG1490 consensus GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]

Probab=99.05  E-value=3.3e-10  Score=92.11  Aligned_cols=155  Identities=16%  Similarity=0.152  Sum_probs=106.7

Q ss_pred             HHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCccc----HHHHHH----hhh-cCCEEEEEEeCC-
Q 029517           21 LLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGL----RSIWEK----YYE-EAHAVVFVIDAA-   90 (192)
Q Consensus        21 l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~----~~~~~~----~~~-~~d~ii~v~D~~-   90 (192)
                      +++-++.+..++++++    .+|-++-+++++++-..+++.||||..+.    +...+.    .+. --.+++++.|++ 
T Consensus       184 f~~~vtradvevqpYa----FTTksL~vGH~dykYlrwQViDTPGILD~plEdrN~IEmqsITALAHLraaVLYfmDLSe  259 (620)
T KOG1490|consen  184 FNNKVTRADDEVQPYA----FTTKLLLVGHLDYKYLRWQVIDTPGILDRPEEDRNIIEMQIITALAHLRSAVLYFMDLSE  259 (620)
T ss_pred             hcccccccccccCCcc----cccchhhhhhhhhheeeeeecCCccccCcchhhhhHHHHHHHHHHHHhhhhheeeeechh
Confidence            3344444555666655    55666667778887789999999994321    111111    111 135789999997 


Q ss_pred             -CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHH----HHHhHcCccccCCcceEEEEeeecCCCCHHHHH
Q 029517           91 -CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSAD----ELARYLDLKKLDERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus        91 -~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~----~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                       +..|.++...++..|....  .+.|.|+|+||+|+....+..    ++.+.+.    ...+++++++|+.+..||.++.
T Consensus       260 ~CGySva~QvkLfhsIKpLF--aNK~~IlvlNK~D~m~~edL~~~~~~ll~~~~----~~~~v~v~~tS~~~eegVm~Vr  333 (620)
T KOG1490|consen  260 MCGYSVAAQVKLYHSIKPLF--ANKVTILVLNKIDAMRPEDLDQKNQELLQTII----DDGNVKVVQTSCVQEEGVMDVR  333 (620)
T ss_pred             hhCCCHHHHHHHHHHhHHHh--cCCceEEEeecccccCccccCHHHHHHHHHHH----hccCceEEEecccchhceeeHH
Confidence             5678888888888887653  689999999999987632222    2223332    2446899999999999999999


Q ss_pred             HHHHHHHHhcchhhhhhhhc
Q 029517          166 EWLVEVMERSKRTEMLRARA  185 (192)
Q Consensus       166 ~~i~~~i~~~~~~~~~~~~~  185 (192)
                      ...++.++..+-.+.+++..
T Consensus       334 t~ACe~LLa~RVE~Klks~~  353 (620)
T KOG1490|consen  334 TTACEALLAARVEQKLKSES  353 (620)
T ss_pred             HHHHHHHHHHHHHHHhhhhh
Confidence            99999998877666665543

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=99.04  E-value=2.5e-09  Score=85.87  Aligned_cols=75  Identities=21%  Similarity=0.228  Sum_probs=60.1

Q ss_pred             EEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           48 IGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        48 ~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      +-++++.+..+++.|||||++|+......+..+|.+++|+|+...-.-+.++  +-.+++.   .++||+-++||.|...
T Consensus        73 VMqF~Y~~~~iNLLDTPGHeDFSEDTYRtLtAvDsAvMVIDaAKGiE~qT~K--LfeVcrl---R~iPI~TFiNKlDR~~  147 (528)
T COG4108          73 VMQFDYADCLVNLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGIEPQTLK--LFEVCRL---RDIPIFTFINKLDREG  147 (528)
T ss_pred             EEEeccCCeEEeccCCCCccccchhHHHHHHhhheeeEEEecccCccHHHHH--HHHHHhh---cCCceEEEeecccccc
Confidence            4468889999999999999999998888899999999999998664333322  2244444   7899999999999743

>PRK12289 GTPase RsgA; Reviewed

Probab=99.01  E-value=1.8e-09  Score=86.49  Aligned_cols=90  Identities=19%  Similarity=0.135  Sum_probs=65.7

Q ss_pred             HHHhhhcCCEEEEEEeCCCcc-cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEE
Q 029517           73 WEKYYEEAHAVVFVIDAACPS-RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFE  151 (192)
Q Consensus        73 ~~~~~~~~d~ii~v~D~~~~~-s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (192)
                      ....+.++|.+++|+|+.++. ....+..|+..+..    .++|+++|+||+||......+.+.+.+.     ..++.++
T Consensus        83 ~R~~~aNvD~vLlV~d~~~p~~~~~~LdR~L~~a~~----~~ip~ILVlNK~DLv~~~~~~~~~~~~~-----~~g~~v~  153 (352)
T PRK12289         83 DRPPVANADQILLVFALAEPPLDPWQLSRFLVKAES----TGLEIVLCLNKADLVSPTEQQQWQDRLQ-----QWGYQPL  153 (352)
T ss_pred             echhhhcCCEEEEEEECCCCCCCHHHHHHHHHHHHH----CCCCEEEEEEchhcCChHHHHHHHHHHH-----hcCCeEE
Confidence            344688999999999998765 45566677665532    4799999999999964322223333332     3467899


Q ss_pred             EeeecCCCCHHHHHHHHHHH
Q 029517          152 AVSGYDGFGIKESVEWLVEV  171 (192)
Q Consensus       152 ~~Sa~~~~gi~e~~~~i~~~  171 (192)
                      .+||+++.|++++++.+...
T Consensus       154 ~iSA~tg~GI~eL~~~L~~k  173 (352)
T PRK12289        154 FISVETGIGLEALLEQLRNK  173 (352)
T ss_pred             EEEcCCCCCHHHHhhhhccc
Confidence            99999999999999988653

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.01  E-value=1.6e-09  Score=86.55  Aligned_cols=120  Identities=19%  Similarity=0.242  Sum_probs=80.6

Q ss_pred             CCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHH-------HHHHHHHHHhCCCCCC
Q 029517           41 VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFED-------SKTALEKVLRNEDLQG  113 (192)
Q Consensus        41 ~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~-------~~~~~~~i~~~~~~~~  113 (192)
                      .-|+...+..+.-+.+.+.|.|+|||.+|-.....-...+|++|+|+|+.+.+ |+.       .++-+ .+.+..  .-
T Consensus        70 GvTi~~~~~~fet~k~~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~e-fE~g~~~~gQtrEH~-~La~tl--Gi  145 (428)
T COG5256          70 GVTIDVAHSKFETDKYNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGE-FEAGFGVGGQTREHA-FLARTL--GI  145 (428)
T ss_pred             ceEEEEEEEEeecCCceEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCCc-cccccccCCchhHHH-HHHHhc--CC
Confidence            45666767778888889999999999988877766778899999999998653 211       11111 111111  23


Q ss_pred             CcEEEEEeCCCCCC--CCCHHHHHhH----cCccccCCcceEEEEeeecCCCCHHHH
Q 029517          114 APLLILANKQDLPD--AVSADELARY----LDLKKLDERVCMFEAVSGYDGFGIKES  164 (192)
Q Consensus       114 ~piiiv~nK~Dl~~--~~~~~~~~~~----~~~~~~~~~~~~~~~~Sa~~~~gi~e~  164 (192)
                      ..+++++||+|+.+  +...+++...    .+.-.+....++|+++||..|.|+.+.
T Consensus       146 ~~lIVavNKMD~v~wde~rf~ei~~~v~~l~k~~G~~~~~v~FIPiSg~~G~Nl~~~  202 (428)
T COG5256         146 KQLIVAVNKMDLVSWDEERFEEIVSEVSKLLKMVGYNPKDVPFIPISGFKGDNLTKK  202 (428)
T ss_pred             ceEEEEEEcccccccCHHHHHHHHHHHHHHHHHcCCCccCCeEEecccccCCccccc
Confidence            57889999999986  2222222222    222223344688999999999998764

>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]

Probab=99.01  E-value=5.1e-09  Score=85.16  Aligned_cols=154  Identities=20%  Similarity=0.194  Sum_probs=100.7

Q ss_pred             hhccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcc-c--------HHHHHHhhhcCCE
Q 029517           12 IFTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPG-L--------RSIWEKYYEEAHA   82 (192)
Q Consensus        12 ~~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~-~--------~~~~~~~~~~~d~   82 (192)
                      .=|||++|+|.+.-..+++.+++++++-.       -..++.+++++.+.||+|... -        -.....-++.+|+
T Consensus       279 vGKSSLlNaL~~~drsIVSpv~GTTRDai-------ea~v~~~G~~v~L~DTAGiRe~~~~~iE~~gI~rA~k~~~~adv  351 (531)
T KOG1191|consen  279 VGKSSLLNALSREDRSIVSPVPGTTRDAI-------EAQVTVNGVPVRLSDTAGIREESNDGIEALGIERARKRIERADV  351 (531)
T ss_pred             CCHHHHHHHHhcCCceEeCCCCCcchhhh-------eeEeecCCeEEEEEeccccccccCChhHHHhHHHHHHHHhhcCE
Confidence            45899999999999999999999998876       334667899999999999533 1        0112334678999


Q ss_pred             EEEEEeC--CCcccHHHHHHHHHHHHhC-----CCCCCCcEEEEEeCCCCCCCCCHHHH--HhHcCccccCCcceE-EEE
Q 029517           83 VVFVIDA--ACPSRFEDSKTALEKVLRN-----EDLQGAPLLILANKQDLPDAVSADEL--ARYLDLKKLDERVCM-FEA  152 (192)
Q Consensus        83 ii~v~D~--~~~~s~~~~~~~~~~i~~~-----~~~~~~piiiv~nK~Dl~~~~~~~~~--~~~~~~~~~~~~~~~-~~~  152 (192)
                      +++|+|+  ++-++-..+...+......     ......|++++.||+|+....+.-..  ..+... . ....++ ..+
T Consensus       352 i~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~~~~~~~~~~~~~~~-~-~~~~~~i~~~  429 (531)
T KOG1191|consen  352 ILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSKIPEMTKIPVVYPSA-E-GRSVFPIVVE  429 (531)
T ss_pred             EEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCccccccCCceecccc-c-cCcccceEEE
Confidence            9999999  3333222222333222211     11135799999999998763211111  111110 0 011333 455


Q ss_pred             eeecCCCCHHHHHHHHHHHHHh
Q 029517          153 VSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       153 ~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      +|+++++|++++.+.+.+.+..
T Consensus       430 vs~~tkeg~~~L~~all~~~~~  451 (531)
T KOG1191|consen  430 VSCTTKEGCERLSTALLNIVER  451 (531)
T ss_pred             eeechhhhHHHHHHHHHHHHHH
Confidence            9999999999999999887764

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.99  E-value=4.4e-09  Score=84.60  Aligned_cols=151  Identities=16%  Similarity=0.082  Sum_probs=100.1

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCc
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACP   92 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~   92 (192)
                      -|||++.++    ++......+... .-..|+.+.++....++..+.|+|+||++++-.....-+...|.+++|+|+.+.
T Consensus        12 gkT~L~~al----tg~~~d~l~Eek-KRG~TiDlg~~y~~~~d~~~~fIDvpgh~~~i~~miag~~~~d~alLvV~~deG   86 (447)
T COG3276          12 GKTTLLKAL----TGGVTDRLPEEK-KRGITIDLGFYYRKLEDGVMGFIDVPGHPDFISNLLAGLGGIDYALLVVAADEG   86 (447)
T ss_pred             cchhhhhhh----cccccccchhhh-hcCceEeeeeEeccCCCCceEEeeCCCcHHHHHHHHhhhcCCceEEEEEeCccC
Confidence            355444444    443333333333 337788888888887778999999999999888777777889999999999654


Q ss_pred             ccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517           93 SRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus        93 ~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                      -..+....  ..+++..  .....++|+||+|+.+....++..+.+. ........+++.+|+++|+||+++.+.|.+..
T Consensus        87 l~~qtgEh--L~iLdll--gi~~giivltk~D~~d~~r~e~~i~~Il-~~l~l~~~~i~~~s~~~g~GI~~Lk~~l~~L~  161 (447)
T COG3276          87 LMAQTGEH--LLILDLL--GIKNGIIVLTKADRVDEARIEQKIKQIL-ADLSLANAKIFKTSAKTGRGIEELKNELIDLL  161 (447)
T ss_pred             cchhhHHH--HHHHHhc--CCCceEEEEeccccccHHHHHHHHHHHH-hhcccccccccccccccCCCHHHHHHHHHHhh
Confidence            33332111  1223321  2346699999999886333333222222 11113466789999999999999999999877


Q ss_pred             H
Q 029517          173 E  173 (192)
Q Consensus       173 ~  173 (192)
                      .
T Consensus       162 ~  162 (447)
T COG3276         162 E  162 (447)
T ss_pred             h
Confidence            4

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=98.98  E-value=1.4e-09  Score=85.16  Aligned_cols=116  Identities=16%  Similarity=0.167  Sum_probs=79.5

Q ss_pred             CCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHH--HHHHHHHHhCCCCCCCcEE
Q 029517           40 IVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDS--KTALEKVLRNEDLQGAPLL  117 (192)
Q Consensus        40 ~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~--~~~~~~i~~~~~~~~~pii  117 (192)
                      ..-||.+.|..|.-.+.++.|-|||||+.|......-...||++|+++|+...- ++..  ..++..++.     -..++
T Consensus        70 QGITIDVAYRyFsT~KRkFIiADTPGHeQYTRNMaTGASTadlAIlLVDAR~Gv-l~QTrRHs~I~sLLG-----Irhvv  143 (431)
T COG2895          70 QGITIDVAYRYFSTEKRKFIIADTPGHEQYTRNMATGASTADLAILLVDARKGV-LEQTRRHSFIASLLG-----IRHVV  143 (431)
T ss_pred             cCceEEEEeeecccccceEEEecCCcHHHHhhhhhcccccccEEEEEEecchhh-HHHhHHHHHHHHHhC-----CcEEE
Confidence            356777777788888999999999999999877766667899999999996431 2221  123333322     35788


Q ss_pred             EEEeCCCCCC--CCCHHH----HHhHcCccccCCcceEEEEeeecCCCCHHH
Q 029517          118 ILANKQDLPD--AVSADE----LARYLDLKKLDERVCMFEAVSGYDGFGIKE  163 (192)
Q Consensus       118 iv~nK~Dl~~--~~~~~~----~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e  163 (192)
                      +..||+||.+  +...++    ...++.  .+......++++||..|+||-.
T Consensus       144 vAVNKmDLvdy~e~~F~~I~~dy~~fa~--~L~~~~~~~IPiSAl~GDNV~~  193 (431)
T COG2895         144 VAVNKMDLVDYSEEVFEAIVADYLAFAA--QLGLKDVRFIPISALLGDNVVS  193 (431)
T ss_pred             EEEeeecccccCHHHHHHHHHHHHHHHH--HcCCCcceEEechhccCCcccc
Confidence            9999999987  111222    222222  1223456899999999999864

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=98.98  E-value=7.2e-09  Score=70.15  Aligned_cols=96  Identities=23%  Similarity=0.317  Sum_probs=59.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCccc---------HHHHHHhhhcCCEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGL---------RSIWEKYYEEAHAVV   84 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~---------~~~~~~~~~~~d~ii   84 (192)
                      |||++|+|+++....   +.+.    ...|....+..+......+.++||||...-         .......+..+|+++
T Consensus        12 KSTlin~l~~~~~~~---~~~~----~~~T~~~~~~~~~~~~~~~~~vDtpG~~~~~~~~~~~~~~~~~~~~~~~~d~ii   84 (116)
T PF01926_consen   12 KSTLINALTGKKLAK---VSNI----PGTTRDPVYGQFEYNNKKFILVDTPGINDGESQDNDGKEIRKFLEQISKSDLII   84 (116)
T ss_dssp             HHHHHHHHHTSTSSE---ESSS----TTSSSSEEEEEEEETTEEEEEEESSSCSSSSHHHHHHHHHHHHHHHHCTESEEE
T ss_pred             HHHHHHHHhcccccc---cccc----ccceeeeeeeeeeeceeeEEEEeCCCCcccchhhHHHHHHHHHHHHHHHCCEEE
Confidence            899999998643221   2222    234444444556667888899999995321         112333457899999


Q ss_pred             EEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeC
Q 029517           85 FVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANK  122 (192)
Q Consensus        85 ~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK  122 (192)
                      +|+|+.++.. +.....+..+.     .+.|+++|+||
T Consensus        85 ~vv~~~~~~~-~~~~~~~~~l~-----~~~~~i~v~NK  116 (116)
T PF01926_consen   85 YVVDASNPIT-EDDKNILRELK-----NKKPIILVLNK  116 (116)
T ss_dssp             EEEETTSHSH-HHHHHHHHHHH-----TTSEEEEEEES
T ss_pred             EEEECCCCCC-HHHHHHHHHHh-----cCCCEEEEEcC
Confidence            9999776321 22233333342     47999999998

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 ....

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=98.98  E-value=8.4e-09  Score=76.38  Aligned_cols=149  Identities=12%  Similarity=0.040  Sum_probs=86.4

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCccc-------HHHH----HHhhhcCCE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGL-------RSIW----EKYYEEAHA   82 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~-------~~~~----~~~~~~~d~   82 (192)
                      |||++|+|+++-...      ........|..+........+..+.++||||..+.       ....    .....+.++
T Consensus        13 KSsl~N~ilg~~~~~------~~~~~~~~T~~~~~~~~~~~~~~i~viDTPG~~d~~~~~~~~~~~i~~~~~~~~~g~~~   86 (196)
T cd01852          13 KSATGNTILGREVFE------SKLSASSVTKTCQKESAVWDGRRVNVIDTPGLFDTSVSPEQLSKEIVRCLSLSAPGPHA   86 (196)
T ss_pred             HHHHHHHhhCCCccc------cccCCCCcccccceeeEEECCeEEEEEECcCCCCccCChHHHHHHHHHHHHhcCCCCEE
Confidence            899999999764321      11112234555555555557789999999995432       1111    112356899


Q ss_pred             EEEEEeCCCcc-cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHH--------HHhHcCccccCCcceEEEEe
Q 029517           83 VVFVIDAACPS-RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADE--------LARYLDLKKLDERVCMFEAV  153 (192)
Q Consensus        83 ii~v~D~~~~~-s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~  153 (192)
                      +++|+|+.... ....+.+++..+...  ..-.+++++.|+.|.....+.++        +...++     .++-.++..
T Consensus        87 illVi~~~~~t~~d~~~l~~l~~~fg~--~~~~~~ivv~T~~d~l~~~~~~~~~~~~~~~l~~l~~-----~c~~r~~~f  159 (196)
T cd01852          87 FLLVVPLGRFTEEEEQAVETLQELFGE--KVLDHTIVLFTRGDDLEGGTLEDYLENSCEALKRLLE-----KCGGRYVAF  159 (196)
T ss_pred             EEEEEECCCcCHHHHHHHHHHHHHhCh--HhHhcEEEEEECccccCCCcHHHHHHhccHHHHHHHH-----HhCCeEEEE
Confidence            99999987622 122233333332221  12358899999999765332222        222222     223344444


Q ss_pred             e-----ecCCCCHHHHHHHHHHHHHhc
Q 029517          154 S-----GYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       154 S-----a~~~~gi~e~~~~i~~~i~~~  175 (192)
                      +     +..+.++.++++.+.+.+..+
T Consensus       160 ~~~~~~~~~~~q~~~Ll~~i~~~~~~~  186 (196)
T cd01852         160 NNKAKGEEQEQQVKELLAKVESMVKEN  186 (196)
T ss_pred             eCCCCcchhHHHHHHHHHHHHHHHHhc
Confidence            3     566788999999998887764

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).

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.97  E-value=2.5e-09  Score=83.75  Aligned_cols=88  Identities=20%  Similarity=0.091  Sum_probs=66.0

Q ss_pred             HHhhhcCCEEEEEEeCCCcc-cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEE
Q 029517           74 EKYYEEAHAVVFVIDAACPS-RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEA  152 (192)
Q Consensus        74 ~~~~~~~d~ii~v~D~~~~~-s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~  152 (192)
                      +..+.++|.+++|+|+.++. ++..+..|+..+..    .++|+++|+||+|+..............     ..+++++.
T Consensus        73 ~~i~anvD~vllV~d~~~p~~s~~~ldr~L~~~~~----~~ip~iIVlNK~DL~~~~~~~~~~~~~~-----~~g~~v~~  143 (287)
T cd01854          73 QVIAANVDQLVIVVSLNEPFFNPRLLDRYLVAAEA----AGIEPVIVLTKADLLDDEEEELELVEAL-----ALGYPVLA  143 (287)
T ss_pred             eeEEEeCCEEEEEEEcCCCCCCHHHHHHHHHHHHH----cCCCEEEEEEHHHCCChHHHHHHHHHHH-----hCCCeEEE
Confidence            33578999999999999887 88888888776654    3689999999999965311111122122     34679999


Q ss_pred             eeecCCCCHHHHHHHHHH
Q 029517          153 VSGYDGFGIKESVEWLVE  170 (192)
Q Consensus       153 ~Sa~~~~gi~e~~~~i~~  170 (192)
                      +||+++.|+++++.++..
T Consensus       144 vSA~~g~gi~~L~~~L~~  161 (287)
T cd01854         144 VSAKTGEGLDELREYLKG  161 (287)
T ss_pred             EECCCCccHHHHHhhhcc
Confidence            999999999999988764

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.

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=98.90  E-value=9.7e-09  Score=89.76  Aligned_cols=83  Identities=14%  Similarity=0.062  Sum_probs=59.4

Q ss_pred             CCCCcceEEEE----EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCc
Q 029517           40 IVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAP  115 (192)
Q Consensus        40 ~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~p  115 (192)
                      +..|++.....    +...++++.+|||||+.+|.......++.+|++|+|+|+......+.. ..+.....    .+.|
T Consensus        66 rg~Ti~~~~~~~~~~~~~~~~~i~liDTPG~~~f~~~~~~al~~aD~~llVvda~~g~~~~t~-~~~~~~~~----~~~p  140 (720)
T TIGR00490        66 RGITINAANVSMVHEYEGNEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTE-TVLRQALK----ENVK  140 (720)
T ss_pred             hcchhhcccceeEEeecCCceEEEEEeCCCccccHHHHHHHHHhcCEEEEEEecCCCCCccHH-HHHHHHHH----cCCC
Confidence            34566654433    456688999999999999988888899999999999999765322221 22222222    3578


Q ss_pred             EEEEEeCCCCCC
Q 029517          116 LLILANKQDLPD  127 (192)
Q Consensus       116 iiiv~nK~Dl~~  127 (192)
                      .++++||+|...
T Consensus       141 ~ivviNKiD~~~  152 (720)
T TIGR00490       141 PVLFINKVDRLI  152 (720)
T ss_pred             EEEEEEChhccc
Confidence            889999999864

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.

>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=98.87  E-value=7.6e-09  Score=84.43  Aligned_cols=132  Identities=22%  Similarity=0.378  Sum_probs=97.7

Q ss_pred             CCCCcceEEEEEEe-cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCC----------cccHHHHHHHHHHHHhC
Q 029517           40 IVPTVGLNIGRIEV-SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAAC----------PSRFEDSKTALEKVLRN  108 (192)
Q Consensus        40 ~~~T~g~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~----------~~s~~~~~~~~~~i~~~  108 (192)
                      ..+|.|+....+.. .+..+.++|++|+..-+..|..++.+++++|||+++++          ...+.+....+..+...
T Consensus       219 r~~T~Gi~e~~f~~~~~~~~~~~DvGGqr~eRkKW~~~F~~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~~~  298 (389)
T PF00503_consen  219 RVKTTGITEIDFNFSGSRKFRLIDVGGQRSERKKWIHCFEDVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFESICNN  298 (389)
T ss_dssp             ----SSEEEEEEEE-TTEEEEEEEETSSGGGGGGGGGGGTTESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHHTS
T ss_pred             cCCCCCeeEEEEEeecccccceecCCCCchhhhhHHHHhccccEEEEeecccchhhhhcccchHHHHHHHHHHHHHHHhC
Confidence            46889998888998 89999999999999888999999999999999998752          24577778888888887


Q ss_pred             CCCCCCcEEEEEeCCCCCC------------------C--CCHHHHHhHcCcc-----ccCC--cceEEEEeeecCCCCH
Q 029517          109 EDLQGAPLLILANKQDLPD------------------A--VSADELARYLDLK-----KLDE--RVCMFEAVSGYDGFGI  161 (192)
Q Consensus       109 ~~~~~~piiiv~nK~Dl~~------------------~--~~~~~~~~~~~~~-----~~~~--~~~~~~~~Sa~~~~gi  161 (192)
                      ....+.|+++++||.|+..                  .  .+.+.+.+++...     ....  +.+.++.++|.+..++
T Consensus       299 ~~~~~~~iil~lnK~D~f~~Kl~~~~~l~~~fp~y~g~~~~~~~~~~~~i~~~f~~~~~~~~~~~~~~~h~t~a~d~~~~  378 (389)
T PF00503_consen  299 PWFKNTPIILFLNKIDLFEEKLKKGPKLSKYFPDYTGDRPNDVDSAIKFIKNKFLRLNRNNSPSRRIYVHFTCATDTENI  378 (389)
T ss_dssp             GGGTTSEEEEEEE-HHHHHHHTTTSSCGGGTSTTGGSH-TSSHHHHHHHHHHHHHCTHSTTTTCS-EEEEEESTTSHHHH
T ss_pred             cccccCceEEeeecHHHHHHHccCCCchHhhCCCCCCCcccCHHHHHHHHHHHHHHhccCCCCCcceEEEEeeecccHHH
Confidence            7777899999999999721                  0  2334444444311     1111  5667778999998889


Q ss_pred             HHHHHHHHHH
Q 029517          162 KESVEWLVEV  171 (192)
Q Consensus       162 ~e~~~~i~~~  171 (192)
                      ..+|+.+.+.
T Consensus       379 ~~v~~~v~~~  388 (389)
T PF00503_consen  379 RKVFNAVKDI  388 (389)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHhcCc
Confidence            9998887764

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 ....

>PRK00098 GTPase RsgA; Reviewed

Probab=98.87  E-value=6.1e-09  Score=81.99  Aligned_cols=86  Identities=24%  Similarity=0.183  Sum_probs=61.3

Q ss_pred             hhhcCCEEEEEEeCCCcccHHH-HHHHHHHHHhCCCCCCCcEEEEEeCCCCCCC-CCHHHHHhHcCccccCCcceEEEEe
Q 029517           76 YYEEAHAVVFVIDAACPSRFED-SKTALEKVLRNEDLQGAPLLILANKQDLPDA-VSADELARYLDLKKLDERVCMFEAV  153 (192)
Q Consensus        76 ~~~~~d~ii~v~D~~~~~s~~~-~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~~~~  153 (192)
                      ...++|++++|+|++++..... +..|+..+..    .++|+++|+||+|+.+. ...+++.+...     ..+++++++
T Consensus        77 iaaniD~vllV~d~~~p~~~~~~idr~L~~~~~----~~ip~iIVlNK~DL~~~~~~~~~~~~~~~-----~~g~~v~~v  147 (298)
T PRK00098         77 IAANVDQAVLVFAAKEPDFSTDLLDRFLVLAEA----NGIKPIIVLNKIDLLDDLEEARELLALYR-----AIGYDVLEL  147 (298)
T ss_pred             eeecCCEEEEEEECCCCCCCHHHHHHHHHHHHH----CCCCEEEEEEhHHcCCCHHHHHHHHHHHH-----HCCCeEEEE
Confidence            3589999999999987765443 4566655433    47899999999999631 11122233332     346789999


Q ss_pred             eecCCCCHHHHHHHHHH
Q 029517          154 SGYDGFGIKESVEWLVE  170 (192)
Q Consensus       154 Sa~~~~gi~e~~~~i~~  170 (192)
                      ||+++.|++++++.+..
T Consensus       148 SA~~g~gi~~L~~~l~g  164 (298)
T PRK00098        148 SAKEGEGLDELKPLLAG  164 (298)
T ss_pred             eCCCCccHHHHHhhccC
Confidence            99999999999988753

>PRK12288 GTPase RsgA; Reviewed

Probab=98.86  E-value=2.2e-08  Score=80.18  Aligned_cols=89  Identities=21%  Similarity=0.095  Sum_probs=65.9

Q ss_pred             hhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeec
Q 029517           77 YEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGY  156 (192)
Q Consensus        77 ~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  156 (192)
                      ..++|.+++|+++.+..++..+..|+..+. .   .++|.++|+||+|+......+...+...  .....+++++++||+
T Consensus       118 aANvD~vlIV~s~~p~~s~~~Ldr~L~~a~-~---~~i~~VIVlNK~DL~~~~~~~~~~~~~~--~y~~~g~~v~~vSA~  191 (347)
T PRK12288        118 AANIDQIVIVSAVLPELSLNIIDRYLVACE-T---LGIEPLIVLNKIDLLDDEGRAFVNEQLD--IYRNIGYRVLMVSSH  191 (347)
T ss_pred             EEEccEEEEEEeCCCCCCHHHHHHHHHHHH-h---cCCCEEEEEECccCCCcHHHHHHHHHHH--HHHhCCCeEEEEeCC
Confidence            356999999999988889999999987543 2   4689999999999975322222222221  011346799999999


Q ss_pred             CCCCHHHHHHHHHHH
Q 029517          157 DGFGIKESVEWLVEV  171 (192)
Q Consensus       157 ~~~gi~e~~~~i~~~  171 (192)
                      ++.|+++++++|...
T Consensus       192 tg~GideL~~~L~~k  206 (347)
T PRK12288        192 TGEGLEELEAALTGR  206 (347)
T ss_pred             CCcCHHHHHHHHhhC
Confidence            999999999998753

>cd01856 YlqF YlqF

Probab=98.85  E-value=8.7e-09  Score=74.66  Aligned_cols=98  Identities=18%  Similarity=0.219  Sum_probs=65.2

Q ss_pred             CCC-cccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccc
Q 029517           64 GGQ-PGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKK  142 (192)
Q Consensus        64 ~G~-~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~  142 (192)
                      ||+ .+........++++|.+++|+|++++..-.. ......+      .+.|.++|+||+|+.......+..++..   
T Consensus         3 ~~~~~~~~~~~~~~i~~aD~il~v~D~~~~~~~~~-~~i~~~~------~~k~~ilVlNK~Dl~~~~~~~~~~~~~~---   72 (171)
T cd01856           3 PGHMAKALRQIKEKLKLVDLVIEVRDARIPLSSRN-PLLEKIL------GNKPRIIVLNKADLADPKKTKKWLKYFE---   72 (171)
T ss_pred             chHHHHHHHHHHHHHhhCCEEEEEeeccCccCcCC-hhhHhHh------cCCCEEEEEehhhcCChHHHHHHHHHHH---
Confidence            444 4555666778899999999999986543211 1111111      3579999999999864211122223322   


Q ss_pred             cCCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517          143 LDERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus       143 ~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                        .....++.+||+++.|++++.+.+...+.
T Consensus        73 --~~~~~vi~iSa~~~~gi~~L~~~l~~~l~  101 (171)
T cd01856          73 --SKGEKVLFVNAKSGKGVKKLLKAAKKLLK  101 (171)
T ss_pred             --hcCCeEEEEECCCcccHHHHHHHHHHHHH
Confidence              22456889999999999999999988764

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.

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.84  E-value=1.4e-08  Score=78.80  Aligned_cols=116  Identities=15%  Similarity=0.137  Sum_probs=82.4

Q ss_pred             EEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC----CCCH
Q 029517           56 SKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD----AVSA  131 (192)
Q Consensus        56 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~----~~~~  131 (192)
                      .++.|+|.|||+-.......--.-.|++++|+++..+..--...+-+..+.-.   .-..++++-||+|+..    ...+
T Consensus        86 R~VSfVDaPGHe~LMATMLsGAAlMDgAlLvIaANEpcPQPQT~EHl~AleIi---gik~iiIvQNKIDlV~~E~AlE~y  162 (415)
T COG5257          86 RRVSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTREHLMALEII---GIKNIIIVQNKIDLVSRERALENY  162 (415)
T ss_pred             EEEEEeeCCchHHHHHHHhcchhhhcceEEEEecCCCCCCCchHHHHHHHhhh---ccceEEEEecccceecHHHHHHHH
Confidence            57999999999865443333233469999999987554333333333333222   2367999999999976    3567


Q ss_pred             HHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhcc
Q 029517          132 DELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~~  176 (192)
                      +++.++.+-..  .-+.+++++||..+.||+-+++.|.+.+....
T Consensus       163 ~qIk~FvkGt~--Ae~aPIIPiSA~~~~NIDal~e~i~~~IptP~  205 (415)
T COG5257         163 EQIKEFVKGTV--AENAPIIPISAQHKANIDALIEAIEKYIPTPE  205 (415)
T ss_pred             HHHHHHhcccc--cCCCceeeehhhhccCHHHHHHHHHHhCCCCc
Confidence            78888887322  23678999999999999999999999887543

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

Probab=98.84  E-value=8.1e-09  Score=85.46  Aligned_cols=117  Identities=15%  Similarity=0.084  Sum_probs=86.0

Q ss_pred             cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHH-HHHHHHhCC-CCCCCcEEEEEeCCCCCCCCCH
Q 029517           54 SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT-ALEKVLRNE-DLQGAPLLILANKQDLPDAVSA  131 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~-~~~~i~~~~-~~~~~piiiv~nK~Dl~~~~~~  131 (192)
                      ..+...|.|++..+.-+.....-++++|++.++|+++++++++++.. |+-.+.+.. +-...|+|+||||+|+......
T Consensus        54 e~vpt~ivD~ss~~~~~~~l~~EirkA~vi~lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~~  133 (625)
T KOG1707|consen   54 ENVPTSIVDTSSDSDDRLCLRKEIRKADVICLVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNENN  133 (625)
T ss_pred             CcCceEEEecccccchhHHHHHHHhhcCEEEEEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCcccccc
Confidence            45678999999877666666778899999999999999999998854 666666543 2246899999999998763222


Q ss_pred             --HH-HHhHcCccccCCc-ceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          132 --DE-LARYLDLKKLDER-VCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       132 --~~-~~~~~~~~~~~~~-~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                        +. ......    ... --.+++|||++-.++.|+|....+++..
T Consensus       134 s~e~~~~pim~----~f~EiEtciecSA~~~~n~~e~fYyaqKaVih  176 (625)
T KOG1707|consen  134 SDEVNTLPIMI----AFAEIETCIECSALTLANVSELFYYAQKAVIH  176 (625)
T ss_pred             chhHHHHHHHH----HhHHHHHHHhhhhhhhhhhHhhhhhhhheeec
Confidence              22 111111    011 2247899999999999999998887654

>cd01850 CDC_Septin CDC/Septin

Probab=98.82  E-value=1e-08  Score=79.84  Aligned_cols=132  Identities=14%  Similarity=0.147  Sum_probs=70.2

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEec--CEEEEEEeCCCCcccHH---HHH-----------
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEVS--NSKLVFWDLGGQPGLRS---IWE-----------   74 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~~--~~~~~i~D~~G~~~~~~---~~~-----------   74 (192)
                      =|||++|+|++.-........+.....+.+|+++....  +...  .+++.+|||||..+...   .|.           
T Consensus        16 GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpGfgd~~~~~~~~~~i~~yi~~q~~   95 (276)
T cd01850          16 GKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPGFGDNINNSDCWKPIVDYIDDQFD   95 (276)
T ss_pred             CHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCCccccccchhhHHHHHHHHHHHHH
Confidence            38999999976533211111111223456777665543  3333  36899999999432210   010           


Q ss_pred             ------------Hhhh--cCCEEEEEEeCCCcccHHHH-HHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC----HHHHH
Q 029517           75 ------------KYYE--EAHAVVFVIDAACPSRFEDS-KTALEKVLRNEDLQGAPLLILANKQDLPDAVS----ADELA  135 (192)
Q Consensus        75 ------------~~~~--~~d~ii~v~D~~~~~s~~~~-~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~----~~~~~  135 (192)
                                  ..+.  .+++++++++.+... +... .+.++.+.     ..+|+++|+||+|+....+    ...+.
T Consensus        96 ~~l~~e~~~~r~~~~~d~rvh~~ly~i~~~~~~-l~~~D~~~lk~l~-----~~v~vi~VinK~D~l~~~e~~~~k~~i~  169 (276)
T cd01850          96 QYLREESRIKRNPRIPDTRVHACLYFIEPTGHG-LKPLDIEFMKRLS-----KRVNIIPVIAKADTLTPEELKEFKQRIM  169 (276)
T ss_pred             HHHHHHhhhcccccCCCCceEEEEEEEeCCCCC-CCHHHHHHHHHHh-----ccCCEEEEEECCCcCCHHHHHHHHHHHH
Confidence                        1122  367888888876421 2221 23333332     2589999999999864211    22333


Q ss_pred             hHcCccccCCcceEEEEeee
Q 029517          136 RYLDLKKLDERVCMFEAVSG  155 (192)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~Sa  155 (192)
                      +.+.     ..+++++....
T Consensus       170 ~~l~-----~~~i~~~~~~~  184 (276)
T cd01850         170 EDIE-----EHNIKIYKFPE  184 (276)
T ss_pred             HHHH-----HcCCceECCCC
Confidence            3333     44566666544

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.

>COG3596 Predicted GTPase [General function prediction only]

Probab=98.81  E-value=1.4e-08  Score=77.27  Aligned_cols=153  Identities=20%  Similarity=0.269  Sum_probs=94.5

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcc-------cHHHHHHhhhcCCEEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPG-------LRSIWEKYYEEAHAVVFV   86 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~~d~ii~v   86 (192)
                      |||++|+|+...-..+++++.....+.       +....+..-.+.+||+||-++       |+.....++.+.|.++.+
T Consensus        52 KSSliNALF~~~~~~v~~vg~~t~~~~-------~~~~~~~~~~l~lwDtPG~gdg~~~D~~~r~~~~d~l~~~DLvL~l  124 (296)
T COG3596          52 KSSLINALFQGEVKEVSKVGVGTDITT-------RLRLSYDGENLVLWDTPGLGDGKDKDAEHRQLYRDYLPKLDLVLWL  124 (296)
T ss_pred             HHHHHHHHHhccCceeeecccCCCchh-------hHHhhccccceEEecCCCcccchhhhHHHHHHHHHHhhhccEEEEe
Confidence            899999998544443443332221110       111223345799999999543       666777888999999999


Q ss_pred             EeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCC---------CHHHHHhHcC-----ccccCCcceEEEE
Q 029517           87 IDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAV---------SADELARYLD-----LKKLDERVCMFEA  152 (192)
Q Consensus        87 ~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~---------~~~~~~~~~~-----~~~~~~~~~~~~~  152 (192)
                      .|..++. +.--.++++.+....  .+.|++++.|.+|.....         ....+.++..     +......-.+++.
T Consensus       125 ~~~~dra-L~~d~~f~~dVi~~~--~~~~~i~~VtQ~D~a~p~~~W~~~~~~p~~a~~qfi~~k~~~~~~~~q~V~pV~~  201 (296)
T COG3596         125 IKADDRA-LGTDEDFLRDVIILG--LDKRVLFVVTQADRAEPGREWDSAGHQPSPAIKQFIEEKAEALGRLFQEVKPVVA  201 (296)
T ss_pred             ccCCCcc-ccCCHHHHHHHHHhc--cCceeEEEEehhhhhccccccccccCCCCHHHHHHHHHHHHHHHHHHhhcCCeEE
Confidence            9987653 222224445554432  358999999999985421         1111222221     0001122456778


Q ss_pred             eeecCCCCHHHHHHHHHHHHHhcc
Q 029517          153 VSGYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       153 ~Sa~~~~gi~e~~~~i~~~i~~~~  176 (192)
                      .|+..+.|++++...++..+....
T Consensus       202 ~~~r~~wgl~~l~~ali~~lp~e~  225 (296)
T COG3596         202 VSGRLPWGLKELVRALITALPVEA  225 (296)
T ss_pred             eccccCccHHHHHHHHHHhCcccc
Confidence            888999999999999999877543

>cd01858 NGP_1 NGP-1

Probab=98.79  E-value=4.5e-08  Score=69.87  Aligned_cols=88  Identities=20%  Similarity=0.208  Sum_probs=57.7

Q ss_pred             hhhcCCEEEEEEeCCCccc--HHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEe
Q 029517           76 YYEEAHAVVFVIDAACPSR--FEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAV  153 (192)
Q Consensus        76 ~~~~~d~ii~v~D~~~~~s--~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~  153 (192)
                      .++.+|++++|+|++++..  ...+..++..   .  ..+.|+++|+||+|+........+...+.    +......+.+
T Consensus         5 ~l~~aD~il~VvD~~~p~~~~~~~i~~~l~~---~--~~~~p~ilVlNKiDl~~~~~~~~~~~~~~----~~~~~~~~~i   75 (157)
T cd01858           5 VIDSSDVVIQVLDARDPMGTRCKHVEEYLKK---E--KPHKHLIFVLNKCDLVPTWVTARWVKILS----KEYPTIAFHA   75 (157)
T ss_pred             hhhhCCEEEEEEECCCCccccCHHHHHHHHh---c--cCCCCEEEEEEchhcCCHHHHHHHHHHHh----cCCcEEEEEe
Confidence            4688999999999987632  2333333322   1  13589999999999964222222233332    1223346789


Q ss_pred             eecCCCCHHHHHHHHHHHH
Q 029517          154 SGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus       154 Sa~~~~gi~e~~~~i~~~i  172 (192)
                      ||+.+.|++++.+++.+.+
T Consensus        76 Sa~~~~~~~~L~~~l~~~~   94 (157)
T cd01858          76 SINNPFGKGSLIQLLRQFS   94 (157)
T ss_pred             eccccccHHHHHHHHHHHH
Confidence            9999999999999987654

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.

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.76  E-value=2.4e-08  Score=80.66  Aligned_cols=98  Identities=19%  Similarity=0.277  Sum_probs=67.2

Q ss_pred             CcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC-CCCHHHHHhHcCccccC
Q 029517           66 QPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD-AVSADELARYLDLKKLD  144 (192)
Q Consensus        66 ~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~-~~~~~~~~~~~~~~~~~  144 (192)
                      .++|......+.+.++++++|+|+.+...     .|...+.+..  .+.|+++|+||+|+.. ....+.+.+++.. ...
T Consensus        50 ~e~f~~~l~~~~~~~~~Il~VvD~~d~~~-----s~~~~l~~~~--~~~piilV~NK~DLl~k~~~~~~~~~~l~~-~~k  121 (360)
T TIGR03597        50 DDDFLNLLNSLGDSNALIVYVVDIFDFEG-----SLIPELKRFV--GGNPVLLVGNKIDLLPKSVNLSKIKEWMKK-RAK  121 (360)
T ss_pred             HHHHHHHHhhcccCCcEEEEEEECcCCCC-----CccHHHHHHh--CCCCEEEEEEchhhCCCCCCHHHHHHHHHH-HHH
Confidence            55788888888899999999999976531     1222333221  3679999999999864 3344555544320 001


Q ss_pred             Ccce---EEEEeeecCCCCHHHHHHHHHHH
Q 029517          145 ERVC---MFEAVSGYDGFGIKESVEWLVEV  171 (192)
Q Consensus       145 ~~~~---~~~~~Sa~~~~gi~e~~~~i~~~  171 (192)
                      ..++   .++++||++|.|++++++.|.+.
T Consensus       122 ~~g~~~~~i~~vSAk~g~gv~eL~~~l~~~  151 (360)
T TIGR03597       122 ELGLKPVDIILVSAKKGNGIDELLDKIKKA  151 (360)
T ss_pred             HcCCCcCcEEEecCCCCCCHHHHHHHHHHH
Confidence            2233   58999999999999999998653

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.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.75  E-value=3.2e-08  Score=77.17  Aligned_cols=100  Identities=21%  Similarity=0.327  Sum_probs=67.3

Q ss_pred             CCCc-ccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccc
Q 029517           64 GGQP-GLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKK  142 (192)
Q Consensus        64 ~G~~-~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~  142 (192)
                      |||. +........++.+|++++|+|+.++.+-..  ..+....     .+.|+++|+||+|+.+....+.+.+.+.   
T Consensus         5 pgHm~k~~~~~~~~l~~aDvVl~V~Dar~p~~~~~--~~i~~~l-----~~kp~IiVlNK~DL~~~~~~~~~~~~~~---   74 (276)
T TIGR03596         5 PGHMAKARREIKEKLKLVDVVIEVLDARIPLSSRN--PMIDEIR-----GNKPRLIVLNKADLADPAVTKQWLKYFE---   74 (276)
T ss_pred             hHHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCCCC--hhHHHHH-----CCCCEEEEEEccccCCHHHHHHHHHHHH---
Confidence            5654 445566778899999999999986643322  2222222     2579999999999864211222222332   


Q ss_pred             cCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          143 LDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       143 ~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                        ..+.+++.+||+++.|++++.+.+.+.+...
T Consensus        75 --~~~~~vi~iSa~~~~gi~~L~~~i~~~~~~~  105 (276)
T TIGR03596        75 --EKGIKALAINAKKGKGVKKIIKAAKKLLKEK  105 (276)
T ss_pred             --HcCCeEEEEECCCcccHHHHHHHHHHHHHHh
Confidence              2245789999999999999999988876543

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.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.75  E-value=3.7e-08  Score=70.23  Aligned_cols=82  Identities=22%  Similarity=0.359  Sum_probs=54.9

Q ss_pred             CEEEEEEeCCCcccHHHHHHHHH-HHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcC-ccccCCcceEEEEeeecCC
Q 029517           81 HAVVFVIDAACPSRFEDSKTALE-KVLRNEDLQGAPLLILANKQDLPDAVSADELARYLD-LKKLDERVCMFEAVSGYDG  158 (192)
Q Consensus        81 d~ii~v~D~~~~~s~~~~~~~~~-~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~-~~~~~~~~~~~~~~Sa~~~  158 (192)
                      |++++|+|++++.+...  .++. .....   .++|+++|+||+|+...   ++..++.. ..  ......++.+||++|
T Consensus         1 Dvvl~VvD~~~p~~~~~--~~i~~~~~~~---~~~p~IiVlNK~Dl~~~---~~~~~~~~~~~--~~~~~~ii~vSa~~~   70 (155)
T cd01849           1 DVILEVLDARDPLGTRS--PDIERVLIKE---KGKKLILVLNKADLVPK---EVLRKWLAYLR--HSYPTIPFKISATNG   70 (155)
T ss_pred             CEEEEEEeccCCccccC--HHHHHHHHhc---CCCCEEEEEechhcCCH---HHHHHHHHHHH--hhCCceEEEEeccCC
Confidence            78999999987754432  2333 22222   46899999999998642   22222211 00  122467889999999


Q ss_pred             CCHHHHHHHHHHHH
Q 029517          159 FGIKESVEWLVEVM  172 (192)
Q Consensus       159 ~gi~e~~~~i~~~i  172 (192)
                      .|++++.+.+.+..
T Consensus        71 ~gi~~L~~~i~~~~   84 (155)
T cd01849          71 QGIEKKESAFTKQT   84 (155)
T ss_pred             cChhhHHHHHHHHh
Confidence            99999999987754

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.

>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]

Probab=98.74  E-value=5.8e-08  Score=82.50  Aligned_cols=112  Identities=19%  Similarity=0.254  Sum_probs=78.0

Q ss_pred             EEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCC---cccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC------
Q 029517           57 KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAAC---PSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD------  127 (192)
Q Consensus        57 ~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~---~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~------  127 (192)
                      -+-++|||||+.|..++......||.+|+|+|+-.   +.+++.+..     ++.   .+.|+|+.+||+|..=      
T Consensus       541 g~lvIdtpghEsFtnlRsrgsslC~~aIlvvdImhGlepqtiESi~l-----LR~---rktpFivALNKiDRLYgwk~~p  612 (1064)
T KOG1144|consen  541 GLLVIDTPGHESFTNLRSRGSSLCDLAILVVDIMHGLEPQTIESINL-----LRM---RKTPFIVALNKIDRLYGWKSCP  612 (1064)
T ss_pred             eeEEecCCCchhhhhhhhccccccceEEEEeehhccCCcchhHHHHH-----HHh---cCCCeEEeehhhhhhcccccCC
Confidence            57899999999999999988899999999999863   444444333     222   5799999999999721      


Q ss_pred             -C-----------CCHHHHHhH-------cCccc------c----CCcceEEEEeeecCCCCHHHHHHHHHHHHHhcc
Q 029517          128 -A-----------VSADELARY-------LDLKK------L----DERVCMFEAVSGYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       128 -~-----------~~~~~~~~~-------~~~~~------~----~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~~  176 (192)
                       .           ....++...       +...+      .    ....+.++++||..|.||-+++-+|++......
T Consensus       613 ~~~i~~~lkkQ~k~v~~EF~~R~~~ii~efaEQgLN~~LyykNk~~~~~vsiVPTSA~sGeGipdLl~llv~ltQk~m  690 (1064)
T KOG1144|consen  613 NAPIVEALKKQKKDVQNEFKERLNNIIVEFAEQGLNAELYYKNKEMGETVSIVPTSAISGEGIPDLLLLLVQLTQKTM  690 (1064)
T ss_pred             CchHHHHHHHhhHHHHHHHHHHHHHHHHHHHHcccchhheeecccccceEEeeecccccCCCcHHHHHHHHHHHHHHH
Confidence             0           000111111       11111      1    122577899999999999999999998766543

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=98.71  E-value=3.3e-08  Score=66.49  Aligned_cols=127  Identities=17%  Similarity=0.135  Sum_probs=82.6

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCc----ccHHHHHHhhhcCCEEEEEEe
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQP----GLRSIWEKYYEEAHAVVFVID   88 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~----~~~~~~~~~~~~~d~ii~v~D   88 (192)
                      =|+|++|+|-+.-..            |..|..+++..       -...||||..    .+..........+|++++|-.
T Consensus        13 GKTtL~q~L~G~~~l------------ykKTQAve~~d-------~~~IDTPGEy~~~~~~Y~aL~tt~~dadvi~~v~~   73 (148)
T COG4917          13 GKTTLFQSLYGNDTL------------YKKTQAVEFND-------KGDIDTPGEYFEHPRWYHALITTLQDADVIIYVHA   73 (148)
T ss_pred             CchhHHHHhhcchhh------------hcccceeeccC-------ccccCCchhhhhhhHHHHHHHHHhhccceeeeeec
Confidence            378888888655433            33344333211       1247999943    333334445678999999999


Q ss_pred             CCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           89 AACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        89 ~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      +.++++.-.  .   .+...   ...|+|-+.+|+|+++..+.+...+++..    ...-++|++|+.++.||+++++.|
T Consensus        74 and~~s~f~--p---~f~~~---~~k~vIgvVTK~DLaed~dI~~~~~~L~e----aGa~~IF~~s~~d~~gv~~l~~~L  141 (148)
T COG4917          74 ANDPESRFP--P---GFLDI---GVKKVIGVVTKADLAEDADISLVKRWLRE----AGAEPIFETSAVDNQGVEELVDYL  141 (148)
T ss_pred             ccCccccCC--c---ccccc---cccceEEEEecccccchHhHHHHHHHHHH----cCCcceEEEeccCcccHHHHHHHH
Confidence            887743211  1   11111   35679999999999965455666666652    225689999999999999999987


Q ss_pred             HH
Q 029517          169 VE  170 (192)
Q Consensus       169 ~~  170 (192)
                      ..
T Consensus       142 ~~  143 (148)
T COG4917         142 AS  143 (148)
T ss_pred             Hh
Confidence            64

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=98.69  E-value=1.2e-07  Score=84.24  Aligned_cols=67  Identities=15%  Similarity=0.111  Sum_probs=53.1

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCC
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLP  126 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~  126 (192)
                      +..+.++|||||.+|.......++.+|++|+|+|+...-...... .+..+..    .++|+++++||+|+.
T Consensus        97 ~~~inliDtPGh~dF~~e~~~al~~~D~ailVvda~~Gv~~~t~~-~~~~~~~----~~~p~i~~iNK~D~~  163 (843)
T PLN00116         97 EYLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGVCVQTET-VLRQALG----ERIRPVLTVNKMDRC  163 (843)
T ss_pred             ceEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCCCCcccHHH-HHHHHHH----CCCCEEEEEECCccc
Confidence            678899999999999998888899999999999998764433322 2333322    368999999999987

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.69  E-value=6.2e-08  Score=67.94  Aligned_cols=78  Identities=23%  Similarity=0.264  Sum_probs=52.2

Q ss_pred             HHHhhhcCCEEEEEEeCCCcccHH--HHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEE
Q 029517           73 WEKYYEEAHAVVFVIDAACPSRFE--DSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMF  150 (192)
Q Consensus        73 ~~~~~~~~d~ii~v~D~~~~~s~~--~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  150 (192)
                      ....++.+|++++|+|++++.+..  .+.+++...    . .++|+++++||+|+.......++.+.++     ..+..+
T Consensus         5 ~~~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~----~-~~k~~iivlNK~DL~~~~~~~~~~~~~~-----~~~~~i   74 (141)
T cd01857           5 LWRVVERSDIVVQIVDARNPLLFRPPDLERYVKEV----D-PRKKNILLLNKADLLTEEQRKAWAEYFK-----KEGIVV   74 (141)
T ss_pred             HHHHHhhCCEEEEEEEccCCcccCCHHHHHHHHhc----c-CCCcEEEEEechhcCCHHHHHHHHHHHH-----hcCCeE
Confidence            345688999999999998775433  333443322    1 4689999999999864322233334443     334688


Q ss_pred             EEeeecCCCC
Q 029517          151 EAVSGYDGFG  160 (192)
Q Consensus       151 ~~~Sa~~~~g  160 (192)
                      +.+||+++.+
T Consensus        75 i~iSa~~~~~   84 (141)
T cd01857          75 VFFSALKENA   84 (141)
T ss_pred             EEEEecCCCc
Confidence            9999998765

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.

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.65  E-value=7.8e-08  Score=75.37  Aligned_cols=101  Identities=22%  Similarity=0.347  Sum_probs=67.8

Q ss_pred             CCCCc-ccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCcc
Q 029517           63 LGGQP-GLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLK  141 (192)
Q Consensus        63 ~~G~~-~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~  141 (192)
                      .|||. +-.......++.+|++++|+|+.++.+.+.  .++....     .+.|+++|+||+|+.+....+.+.+++.  
T Consensus         7 fpgHm~k~~~~l~~~l~~aDvIL~VvDar~p~~~~~--~~l~~~~-----~~kp~iiVlNK~DL~~~~~~~~~~~~~~--   77 (287)
T PRK09563          7 FPGHMAKARREIKENLKLVDVVIEVLDARIPLSSEN--PMIDKII-----GNKPRLLILNKSDLADPEVTKKWIEYFE--   77 (287)
T ss_pred             cHHHHHHHHHHHHHHhhhCCEEEEEEECCCCCCCCC--hhHHHHh-----CCCCEEEEEEchhcCCHHHHHHHHHHHH--
Confidence            46654 344456677899999999999987643322  2223322     2589999999999864211223333332  


Q ss_pred             ccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          142 KLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       142 ~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                         ..+.+++.+||+++.|++++.+.+.+.+...
T Consensus        78 ---~~~~~vi~vSa~~~~gi~~L~~~l~~~l~~~  108 (287)
T PRK09563         78 ---EQGIKALAINAKKGQGVKKILKAAKKLLKEK  108 (287)
T ss_pred             ---HcCCeEEEEECCCcccHHHHHHHHHHHHHHH
Confidence               2245788999999999999999988876543

>PTZ00416 elongation factor 2; Provisional

Probab=98.62  E-value=1.9e-07  Score=82.92  Aligned_cols=67  Identities=16%  Similarity=0.152  Sum_probs=52.7

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCC
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLP  126 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~  126 (192)
                      +..+.++||||+.+|.......++.+|++|+|+|+...-..+.- ..+..+...    ++|+++++||+|+.
T Consensus        91 ~~~i~liDtPG~~~f~~~~~~al~~~D~ailVvda~~g~~~~t~-~~~~~~~~~----~~p~iv~iNK~D~~  157 (836)
T PTZ00416         91 PFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQTE-TVLRQALQE----RIRPVLFINKVDRA  157 (836)
T ss_pred             ceEEEEEcCCCHHhHHHHHHHHHhcCCeEEEEEECCCCcCccHH-HHHHHHHHc----CCCEEEEEEChhhh
Confidence            56799999999999988888889999999999999876433332 333333333    58999999999987

>PTZ00258 GTP-binding protein; Provisional

Probab=98.60  E-value=4.9e-07  Score=73.30  Aligned_cols=73  Identities=18%  Similarity=0.177  Sum_probs=45.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE----------EEe---cCEEEEEEeCCCCcc-------cHHHH
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR----------IEV---SNSKLVFWDLGGQPG-------LRSIW   73 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~----------~~~---~~~~~~i~D~~G~~~-------~~~~~   73 (192)
                      |||+||+|.+.    ...+.+++.++..|..|.-...          +..   -..+++++||||...       .....
T Consensus        34 KSTLfnaLt~~----~~~v~n~pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtpGLv~ga~~g~gLg~~f  109 (390)
T PTZ00258         34 KSTTFNALCKQ----QVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGLVKGASEGEGLGNAF  109 (390)
T ss_pred             hHHHHHHHhcC----cccccCCCCCcccceEEEEecccchhhHHHHHcCCcccCCCCeEEEECCCcCcCCcchhHHHHHH
Confidence            78888888543    3455566666666666653211          000   134589999999421       22233


Q ss_pred             HHhhhcCCEEEEEEeCC
Q 029517           74 EKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        74 ~~~~~~~d~ii~v~D~~   90 (192)
                      ...++++|++++|+|+.
T Consensus       110 L~~Ir~aD~il~VVd~f  126 (390)
T PTZ00258        110 LSHIRAVDGIYHVVRAF  126 (390)
T ss_pred             HHHHHHCCEEEEEEeCC
Confidence            44678899999999974

>KOG3887 consensus Predicted small GTPase involved in nuclear protein import [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.59  E-value=2.9e-07  Score=68.99  Aligned_cols=132  Identities=19%  Similarity=0.223  Sum_probs=83.8

Q ss_pred             CCCcceEEEEEEecCEEEEEEeCCCCcccHH---HHHHhhhcCCEEEEEEeCCCc--ccHHHHHHHHHHHHhCCCCCCCc
Q 029517           41 VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRS---IWEKYYEEAHAVVFVIDAACP--SRFEDSKTALEKVLRNEDLQGAP  115 (192)
Q Consensus        41 ~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~---~~~~~~~~~d~ii~v~D~~~~--~s~~~~~~~~~~i~~~~~~~~~p  115 (192)
                      +.|..+...++...-+.+++||.|||..+-.   .....++++.++|+|+|+.+.  +.+.++...+.+..+.  .+++-
T Consensus        60 ESTski~~d~is~sfinf~v~dfPGQ~~~Fd~s~D~e~iF~~~gALifvIDaQddy~eala~L~~~v~raykv--Np~in  137 (347)
T KOG3887|consen   60 ESTSKITRDHISNSFINFQVWDFPGQMDFFDPSFDYEMIFRGVGALIFVIDAQDDYMEALARLHMTVERAYKV--NPNIN  137 (347)
T ss_pred             eccCcccHhhhhhhhcceEEeecCCccccCCCccCHHHHHhccCeEEEEEechHHHHHHHHHHHHHhhheeec--CCCce
Confidence            3333333333444456899999999865422   356678999999999998754  2233333333333333  36889


Q ss_pred             EEEEEeCCCCCCC----CCHHHHHhHcC----ccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          116 LLILANKQDLPDA----VSADELARYLD----LKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       116 iiiv~nK~Dl~~~----~~~~~~~~~~~----~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                      +-++++|.|....    .....+.+..+    -.........|+.+|..+ ..|.|+|.++++.+..+
T Consensus       138 ~EVfiHKvDGLsdd~kietqrdI~qr~~d~l~d~gle~v~vsf~LTSIyD-HSIfEAFSkvVQkLipq  204 (347)
T KOG3887|consen  138 FEVFIHKVDGLSDDFKIETQRDIHQRTNDELADAGLEKVQVSFYLTSIYD-HSIFEAFSKVVQKLIPQ  204 (347)
T ss_pred             EEEEEEeccCCchhhhhhhHHHHHHHhhHHHHhhhhccceEEEEEeeecc-hHHHHHHHHHHHHHhhh
Confidence            9999999997541    11112222222    112235578899999887 67999999999877654

>PRK07560 elongation factor EF-2; Reviewed

Probab=98.58  E-value=3.2e-07  Score=80.51  Aligned_cols=69  Identities=17%  Similarity=0.158  Sum_probs=52.0

Q ss_pred             cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           54 SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      .+..+.++||||+.+|.......++.+|++|+|+|+...-..+.. ..+......    +.|.++++||+|+..
T Consensus        85 ~~~~i~liDtPG~~df~~~~~~~l~~~D~avlVvda~~g~~~~t~-~~~~~~~~~----~~~~iv~iNK~D~~~  153 (731)
T PRK07560         85 KEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVDAVEGVMPQTE-TVLRQALRE----RVKPVLFINKVDRLI  153 (731)
T ss_pred             CcEEEEEEcCCCccChHHHHHHHHHhcCEEEEEEECCCCCCccHH-HHHHHHHHc----CCCeEEEEECchhhc
Confidence            478899999999999988888899999999999999765333322 222222222    467899999999863

>KOG0099 consensus G protein subunit Galphas, small G protein superfamily [Signal transduction mechanisms]

Probab=98.55  E-value=6.4e-07  Score=67.91  Aligned_cols=133  Identities=19%  Similarity=0.390  Sum_probs=95.6

Q ss_pred             CCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCC----------cccHHHHHHHHHHHHhCCCC
Q 029517           42 PTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAAC----------PSRFEDSKTALEKVLRNEDL  111 (192)
Q Consensus        42 ~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~----------~~s~~~~~~~~~~i~~~~~~  111 (192)
                      -|.|+-...+..+.+++..+|++|+.+-+..|..+++...++|+|+.++.          ...+++...+++.+...+++
T Consensus       188 lTsGIfet~FqVdkv~FhMfDVGGQRDeRrKWIQcFndvtAiifv~acSsyn~vlrED~~qNRL~EaL~LFksiWnNRwL  267 (379)
T KOG0099|consen  188 LTSGIFETKFQVDKVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVACSSYNMVLREDNQQNRLQEALNLFKSIWNNRWL  267 (379)
T ss_pred             hccceeeEEEeccccceeeeccCCchhhhhhHHHHhcCccEEEEEEeccchhhhhhcCCchhHHHHHHHHHHHHHhhhHH
Confidence            36677667788889999999999999999999999999999999997752          34566677777888888887


Q ss_pred             CCCcEEEEEeCCCCCCC---CCHHHHHhHcC----------------------------------c---cccCCcceEEE
Q 029517          112 QGAPLLILANKQDLPDA---VSADELARYLD----------------------------------L---KKLDERVCMFE  151 (192)
Q Consensus       112 ~~~piiiv~nK~Dl~~~---~~~~~~~~~~~----------------------------------~---~~~~~~~~~~~  151 (192)
                      ..+.+|+++||.|+...   -....+.+++.                                  .   ..-..+.+-..
T Consensus       268 ~tisvIlFLNKqDllaeKi~Agk~~i~dyFpEf~~y~~p~da~~es~~d~~v~raK~fird~FlRiSta~~Dg~h~CYpH  347 (379)
T KOG0099|consen  268 RTISVILFLNKQDLLAEKILAGKSKIEDYFPEFARYTTPEDATPESGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPH  347 (379)
T ss_pred             hhhheeEEecHHHHHHHHHHcchhhHHHhChHHhccCCccccCCCCCCChhhHHHHHhhhhhHhhhccccCCCceecccc
Confidence            88999999999998320   00011111111                                  0   00112334456


Q ss_pred             EeeecCCCCHHHHHHHHHHHHHh
Q 029517          152 AVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       152 ~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      .+.|.+..+|..+|....+.+..
T Consensus       348 FTcAvDTenIrrVFnDcrdiIqr  370 (379)
T KOG0099|consen  348 FTCAVDTENIRRVFNDCRDIIQR  370 (379)
T ss_pred             eeEeechHHHHHHHHHHHHHHHH
Confidence            67889999999999997766543

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=98.52  E-value=2e-06  Score=69.62  Aligned_cols=147  Identities=18%  Similarity=0.134  Sum_probs=79.5

Q ss_pred             hccccHHHHHHHHh----h-----------hhccCCCCCCC----CCCCCcceEEEEEEecCEEEEEEeCCCCc------
Q 029517           13 FTKTEFHTLLEKLK----S-----------VYSNVEGLPPD----RIVPTVGLNIGRIEVSNSKLVFWDLGGQP------   67 (192)
Q Consensus        13 ~kst~~~~l~~~~~----~-----------~~~~~~~~~~~----~~~~T~g~~~~~~~~~~~~~~i~D~~G~~------   67 (192)
                      =|||++|+|++++.    .           +.+..++.+..    .+.|.-.+++...++-...+.+.||+|-.      
T Consensus        29 GKSTfIn~fm~q~VlP~i~~~~~k~Ra~DELpqs~~GktItTTePkfvP~kAvEI~~~~~~~~~VrlIDcvG~~v~GalG  108 (492)
T TIGR02836        29 GKSTFIKKFMELLVLPNISNEYDKERAQDELPQSAAGKTIMTTEPKFVPNEAVEININEGTKFKVRLVDCVGYTVKGALG  108 (492)
T ss_pred             ChHHHHHHHHhhhccccccchhHHhHHHhccCcCCCCCCcccCCCccccCcceEEeccCCCcccEEEEECCCcccCCCcc
Confidence            48999999998822    2           22233342222    22333344444444456789999999911      


Q ss_pred             --ccH---------------------HHHHHhhh-cCCEEEEEE-eCC----CcccHHHHH-HHHHHHHhCCCCCCCcEE
Q 029517           68 --GLR---------------------SIWEKYYE-EAHAVVFVI-DAA----CPSRFEDSK-TALEKVLRNEDLQGAPLL  117 (192)
Q Consensus        68 --~~~---------------------~~~~~~~~-~~d~ii~v~-D~~----~~~s~~~~~-~~~~~i~~~~~~~~~pii  117 (192)
                        +-.                     -.....++ .+|..|+|. |.+    ..+.+..+. .++..+.+.    ++|++
T Consensus       109 ~~r~~k~RmV~TPW~d~~IPF~~AAeiGT~kVI~dhstIgivVtTDgsi~dI~Re~y~~aEe~~i~eLk~~----~kPfi  184 (492)
T TIGR02836       109 YMEEDKPRMVSTPWYDYEIPFEEAAEIGTRKVIQEHSTIGVVVTTDGTITDIPREDYVEAEERVIEELKEL----NKPFI  184 (492)
T ss_pred             ceeccccccccCCcccccCchhhhhhhhHHHHHHhcCcEEEEEEcCCCccccccccchHHHHHHHHHHHhc----CCCEE
Confidence              100                     11344566 899999988 774    112333332 445554444    79999


Q ss_pred             EEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecC--CCCHHHHHHHH
Q 029517          118 ILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYD--GFGIKESVEWL  168 (192)
Q Consensus       118 iv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~--~~gi~e~~~~i  168 (192)
                      +++||.|-.... ..++.+.+.    ...+.+++.+|+..  ...|..+++.+
T Consensus       185 ivlN~~dp~~~e-t~~l~~~l~----eky~vpvl~v~c~~l~~~DI~~il~~v  232 (492)
T TIGR02836       185 ILLNSTHPYHPE-TEALRQELE----EKYDVPVLAMDVESMRESDILSVLEEV  232 (492)
T ss_pred             EEEECcCCCCch-hHHHHHHHH----HHhCCceEEEEHHHcCHHHHHHHHHHH
Confidence            999999943222 222222222    12346667777744  23344444443

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.

>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]

Probab=98.52  E-value=6.5e-07  Score=74.44  Aligned_cols=113  Identities=21%  Similarity=0.275  Sum_probs=76.7

Q ss_pred             EEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHH-------HHHHHHHHHhCCCCCCCcEEEEE
Q 029517           48 IGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFED-------SKTALEKVLRNEDLQGAPLLILA  120 (192)
Q Consensus        48 ~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~-------~~~~~~~i~~~~~~~~~piiiv~  120 (192)
                      ...++-....+.+.|.|||..|......-...+|++++|+|++. ..|+.       .++ +..+++..  .-..+++++
T Consensus       247 ~~~fes~~~~~tliDaPGhkdFi~nmi~g~sqaD~avLvvd~s~-~~FE~gfd~~gQtrE-ha~llr~L--gi~qlivai  322 (603)
T KOG0458|consen  247 TTWFESKSKIVTLIDAPGHKDFIPNMISGASQADVAVLVVDAST-GEFESGFDPGGQTRE-HALLLRSL--GISQLIVAI  322 (603)
T ss_pred             eEEEecCceeEEEecCCCccccchhhhccccccceEEEEEECCc-chhhhccCCCCchHH-HHHHHHHc--CcceEEEEe
Confidence            33566667889999999999998877666778999999999973 23432       222 22223321  235789999


Q ss_pred             eCCCCCC--CCCHHHHHh----Hc-CccccCCcceEEEEeeecCCCCHHHH
Q 029517          121 NKQDLPD--AVSADELAR----YL-DLKKLDERVCMFEAVSGYDGFGIKES  164 (192)
Q Consensus       121 nK~Dl~~--~~~~~~~~~----~~-~~~~~~~~~~~~~~~Sa~~~~gi~e~  164 (192)
                      ||+|+.+  +..-+++..    ++ +...+....+.|++||+..|+|+...
T Consensus       323 NKmD~V~Wsq~RF~eIk~~l~~fL~~~~gf~es~v~FIPiSGl~GeNL~k~  373 (603)
T KOG0458|consen  323 NKMDLVSWSQDRFEEIKNKLSSFLKESCGFKESSVKFIPISGLSGENLIKI  373 (603)
T ss_pred             ecccccCccHHHHHHHHHHHHHHHHHhcCcccCCcceEecccccCCccccc
Confidence            9999987  323333333    33 23345566789999999999997544

>cd01882 BMS1 Bms1

Probab=98.51  E-value=1.9e-06  Score=65.24  Aligned_cols=129  Identities=16%  Similarity=0.105  Sum_probs=71.2

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCc
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACP   92 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~   92 (192)
                      -|||++|+|++......       .   ....|. +.-....+.++.++||||..  ... ....+.+|++++|+|++..
T Consensus        51 GKstl~~~l~~~~~~~~-------~---~~~~g~-i~i~~~~~~~i~~vDtPg~~--~~~-l~~ak~aDvVllviDa~~~  116 (225)
T cd01882          51 GKTTLIKSLVKNYTKQN-------I---SDIKGP-ITVVTGKKRRLTFIECPNDI--NAM-IDIAKVADLVLLLIDASFG  116 (225)
T ss_pred             CHHHHHHHHHhhcccCc-------c---cccccc-EEEEecCCceEEEEeCCchH--HHH-HHHHHhcCEEEEEEecCcC
Confidence            38899998887643210       0   011111 12233356789999999864  222 3346889999999999755


Q ss_pred             ccHHHHHHHHHHHHhCCCCCCCcE-EEEEeCCCCCCCC-CHHHHHhHcCcccc--CCcceEEEEeeecCCCC
Q 029517           93 SRFEDSKTALEKVLRNEDLQGAPL-LILANKQDLPDAV-SADELARYLDLKKL--DERVCMFEAVSGYDGFG  160 (192)
Q Consensus        93 ~s~~~~~~~~~~i~~~~~~~~~pi-iiv~nK~Dl~~~~-~~~~~~~~~~~~~~--~~~~~~~~~~Sa~~~~g  160 (192)
                      ..... ...+. ....   .+.|. ++|+||+|+.+.. ..+++.+.+.....  ...+.+++.+||++...
T Consensus       117 ~~~~~-~~i~~-~l~~---~g~p~vi~VvnK~D~~~~~~~~~~~~~~l~~~~~~~~~~~~ki~~iSa~~~~~  183 (225)
T cd01882         117 FEMET-FEFLN-ILQV---HGFPRVMGVLTHLDLFKKNKTLRKTKKRLKHRFWTEVYQGAKLFYLSGIVHGR  183 (225)
T ss_pred             CCHHH-HHHHH-HHHH---cCCCeEEEEEeccccCCcHHHHHHHHHHHHHHHHHhhCCCCcEEEEeeccCCC
Confidence            43322 12222 2222   35674 5599999986421 12222222210000  12357899999998643

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.

>KOG0085 consensus G protein subunit Galphaq/Galphay, small G protein superfamily [Signal transduction mechanisms]

Probab=98.50  E-value=2.1e-07  Score=69.35  Aligned_cols=136  Identities=18%  Similarity=0.324  Sum_probs=101.7

Q ss_pred             CCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC----------CCcccHHHHHHHHHHHHhCC
Q 029517           40 IVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA----------ACPSRFEDSKTALEKVLRNE  109 (192)
Q Consensus        40 ~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~----------~~~~s~~~~~~~~~~i~~~~  109 (192)
                      ..||.|+..+.++..++.+.++|++|+..-+..|.+++.+...+++++..          .++...++...++..+....
T Consensus       183 RvPTTGi~eypfdl~~iifrmvDvGGqrserrKWIHCFEnvtsi~fLvaLSEYDQvL~E~dnENRMeESkALFrTIi~yP  262 (359)
T KOG0085|consen  183 RVPTTGIIEYPFDLQKIIFRMVDVGGQRSERRKWIHCFENVTSIIFLVALSEYDQVLVESDNENRMEESKALFRTIITYP  262 (359)
T ss_pred             ecCcccceecCcchhhheeeeeecCCchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHhccc
Confidence            36888988888888899999999999998899999999998888887744          35566778888888899998


Q ss_pred             CCCCCcEEEEEeCCCCCCC-C-----------------CHHHHHhHcC-----ccccCCcceEEEEeeecCCCCHHHHHH
Q 029517          110 DLQGAPLLILANKQDLPDA-V-----------------SADELARYLD-----LKKLDERVCMFEAVSGYDGFGIKESVE  166 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~~-~-----------------~~~~~~~~~~-----~~~~~~~~~~~~~~Sa~~~~gi~e~~~  166 (192)
                      +..+.++|+++||-|+.+. +                 +.+.+.+++-     +..-..+.+--..+.|.+.+||.-+|.
T Consensus       263 WF~nssVIlFLNKkDlLEekI~ySHl~~YFPe~~GP~qDa~AAreFILkm~~d~nPd~dKii~SHfTcATDT~NIRfVFa  342 (359)
T KOG0085|consen  263 WFQNSSVILFLNKKDLLEEKILYSHLADYFPEFDGPKQDAQAAREFILKMYVDMNPDSDKIIYSHFTCATDTENIRFVFA  342 (359)
T ss_pred             cccCCceEEEechhhhhhhhhhHHHHHHhCcccCCCcccHHHHHHHHHHHHHhhCCCccceeeeeeeecccchhHHHHHH
Confidence            8889999999999998541 1                 1122222211     111122333345678999999999999


Q ss_pred             HHHHHHHhc
Q 029517          167 WLVEVMERS  175 (192)
Q Consensus       167 ~i~~~i~~~  175 (192)
                      +.-+.+...
T Consensus       343 aVkDtiLq~  351 (359)
T KOG0085|consen  343 AVKDTILQL  351 (359)
T ss_pred             HHHHHHHHh
Confidence            988877654

>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

Probab=98.48  E-value=1.2e-06  Score=69.65  Aligned_cols=75  Identities=21%  Similarity=0.320  Sum_probs=56.0

Q ss_pred             hhccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE----------EE-ec---CEEEEEEeCCC-------CcccH
Q 029517           12 IFTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR----------IE-VS---NSKLVFWDLGG-------QPGLR   70 (192)
Q Consensus        12 ~~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~----------~~-~~---~~~~~i~D~~G-------~~~~~   70 (192)
                      +=|||+||+|...    ....+++|+.+..|..|+.+-.          .. .+   ...++++|++|       .+...
T Consensus        13 VGKSTlFnAlT~~----~a~~aNYPF~TIePN~Giv~v~d~rl~~L~~~~~c~~k~~~~~ve~vDIAGLV~GAs~GeGLG   88 (372)
T COG0012          13 VGKSTLFNALTKA----GAEIANYPFCTIEPNVGVVYVPDCRLDELAEIVKCPPKIRPAPVEFVDIAGLVKGASKGEGLG   88 (372)
T ss_pred             CcHHHHHHHHHcC----CccccCCCcccccCCeeEEecCchHHHHHHHhcCCCCcEEeeeeEEEEecccCCCcccCCCcc
Confidence            4589999988543    2567799999999999986652          12 11   35799999999       23455


Q ss_pred             HHHHHhhhcCCEEEEEEeCC
Q 029517           71 SIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        71 ~~~~~~~~~~d~ii~v~D~~   90 (192)
                      +.....+|.+|+++.|+|+.
T Consensus        89 NkFL~~IRevdaI~hVVr~f  108 (372)
T COG0012          89 NKFLDNIREVDAIIHVVRCF  108 (372)
T ss_pred             hHHHHhhhhcCeEEEEEEec
Confidence            56667789999999999986

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=98.47  E-value=3.6e-07  Score=69.64  Aligned_cols=112  Identities=22%  Similarity=0.170  Sum_probs=58.6

Q ss_pred             EEEEEeCCCCcccHHHHHHhh--------hcCCEEEEEEeCCCcccHHHH-HHHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           57 KLVFWDLGGQPGLRSIWEKYY--------EEAHAVVFVIDAACPSRFEDS-KTALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        57 ~~~i~D~~G~~~~~~~~~~~~--------~~~d~ii~v~D~~~~~s~~~~-~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      .+.++|||||.++...+...-        ...-++++++|+....+.... ..++....... ..+.|.+.|+||+|+..
T Consensus        92 ~y~l~DtPGQiElf~~~~~~~~i~~~L~~~~~~~~v~LvD~~~~~~~~~f~s~~L~s~s~~~-~~~lP~vnvlsK~Dl~~  170 (238)
T PF03029_consen   92 DYLLFDTPGQIELFTHSDSGRKIVERLQKNGRLVVVFLVDSSFCSDPSKFVSSLLLSLSIML-RLELPHVNVLSKIDLLS  170 (238)
T ss_dssp             SEEEEE--SSHHHHHHSHHHHHHHHTSSS----EEEEEE-GGG-SSHHHHHHHHHHHHHHHH-HHTSEEEEEE--GGGS-
T ss_pred             cEEEEeCCCCEEEEEechhHHHHHHHHhhhcceEEEEEEecccccChhhHHHHHHHHHHHHh-hCCCCEEEeeeccCccc
Confidence            789999999987655544332        335578999998644332221 12222211110 03799999999999975


Q ss_pred             CC------------------------CHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517          128 AV------------------------SADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus       128 ~~------------------------~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                      ..                        -.+++.+.+..   .....+++++|++++.|+.+++..+.+.+
T Consensus       171 ~~~~~~l~~~~d~~~l~~~~~~~~~~l~~~i~~~l~~---~~~~~~f~pls~~~~~~~~~L~~~id~a~  236 (238)
T PF03029_consen  171 KYLEFILEWFEDPDSLEDLLESDYKKLNEEIAELLDD---FGLVIRFIPLSSKDGEGMEELLAAIDKAN  236 (238)
T ss_dssp             HHHHHHHHHHHSHHHHHHHHHT-HHHHHHHHHHHCCC---CSSS---EE-BTTTTTTHHHHHHHHHHHH
T ss_pred             chhHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHhh---cCCCceEEEEECCChHHHHHHHHHHHHHh
Confidence            11                        01122222220   11223899999999999999999987764

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>KOG1486 consensus GTP-binding protein DRG2 (ODN superfamily) [Signal transduction mechanisms]

Probab=98.44  E-value=2.5e-06  Score=64.49  Aligned_cols=143  Identities=21%  Similarity=0.166  Sum_probs=92.1

Q ss_pred             HHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcc------c-HHHHHHhhhcCCEEEEEEeCCC
Q 029517           19 HTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPG------L-RSIWEKYYEEAHAVVFVIDAAC   91 (192)
Q Consensus        19 ~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~------~-~~~~~~~~~~~d~ii~v~D~~~   91 (192)
                      .||+..++..-++.+++.+++.....    +.+.+++..+++.|.||.-.      - ....-...+.+|.+++|.|++.
T Consensus        76 StlLs~iT~T~SeaA~yeFTTLtcIp----Gvi~y~ga~IQllDLPGIieGAsqgkGRGRQviavArtaDlilMvLDatk  151 (364)
T KOG1486|consen   76 STLLSKITSTHSEAASYEFTTLTCIP----GVIHYNGANIQLLDLPGIIEGASQGKGRGRQVIAVARTADLILMVLDATK  151 (364)
T ss_pred             HHHHHHhhcchhhhhceeeeEEEeec----ceEEecCceEEEecCcccccccccCCCCCceEEEEeecccEEEEEecCCc
Confidence            36666666665666666655443333    34778889999999999321      1 1122334577999999999986


Q ss_pred             cccHHHH-HHHHHHH----------------------------------------HhC----------------------
Q 029517           92 PSRFEDS-KTALEKV----------------------------------------LRN----------------------  108 (192)
Q Consensus        92 ~~s~~~~-~~~~~~i----------------------------------------~~~----------------------  108 (192)
                      .+.-.++ ...++.+                                        +..                      
T Consensus       152 ~e~qr~~le~ELe~vGiRLNk~~Pniy~k~kk~gGi~f~~T~~lT~~~ek~i~~ILheykI~Naevl~ReD~t~DdfIDv  231 (364)
T KOG1486|consen  152 SEDQREILEKELEAVGIRLNKRKPNIYFKKKKTGGISFNTTVPLTHCDEKLIYTILHEYKIHNAEVLFREDCTVDDFIDV  231 (364)
T ss_pred             chhHHHHHHHHHHHhceeccCCCCCeEEEeeccCCeEEeeeeccccccHHHHHHHHHHHeeccceEEEecCCChHHHHHH
Confidence            5433321 1111111                                        100                      


Q ss_pred             --CCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          109 --EDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       109 --~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                        ....-++.+-|-||+|   +++.|++.+.+.       ...-+.+|+..+-|++.+.+.+++.+.-.
T Consensus       232 i~gnr~Y~~ClYvYnKID---~vs~eevdrlAr-------~PnsvViSC~m~lnld~lle~iWe~l~L~  290 (364)
T KOG1486|consen  232 IEGNRVYIKCLYVYNKID---QVSIEEVDRLAR-------QPNSVVISCNMKLNLDRLLERIWEELNLV  290 (364)
T ss_pred             HhccceEEEEEEEeeccc---eecHHHHHHHhc-------CCCcEEEEeccccCHHHHHHHHHHHhceE
Confidence              0001256788899998   568889988887       23455689999999999999999987643

>TIGR00101 ureG urease accessory protein UreG

Probab=98.43  E-value=1e-06  Score=65.44  Aligned_cols=103  Identities=18%  Similarity=0.208  Sum_probs=64.6

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCC--CCHH
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDA--VSAD  132 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~--~~~~  132 (192)
                      +....+.++.|..-..... ..+  ++.+|.|+|+.+.++...  ....++       ...=++++||+|+.+.  ...+
T Consensus        91 ~~D~iiIEt~G~~l~~~~~-~~l--~~~~i~vvD~~~~~~~~~--~~~~qi-------~~ad~~~~~k~d~~~~~~~~~~  158 (199)
T TIGR00101        91 PLEMVFIESGGDNLSATFS-PEL--ADLTIFVIDVAAGDKIPR--KGGPGI-------TRSDLLVINKIDLAPMVGADLG  158 (199)
T ss_pred             CCCEEEEECCCCCcccccc-hhh--hCcEEEEEEcchhhhhhh--hhHhHh-------hhccEEEEEhhhccccccccHH
Confidence            4567788999932111111 222  688999999987554321  111111       1223789999999853  2233


Q ss_pred             HHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517          133 ELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                      .+.+.+...   ..+.+++++||++|.|++++|++|.+.+
T Consensus       159 ~~~~~~~~~---~~~~~i~~~Sa~~g~gi~el~~~i~~~~  195 (199)
T TIGR00101       159 VMERDAKKM---RGEKPFIFTNLKTKEGLDTVIDWIEHYA  195 (199)
T ss_pred             HHHHHHHHh---CCCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            434444311   2368899999999999999999998754

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.

>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.43  E-value=2.8e-06  Score=66.90  Aligned_cols=118  Identities=18%  Similarity=0.161  Sum_probs=71.1

Q ss_pred             cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHH-HHHHHhCCCCCCCcEEEEEeCCCCCCCCCH-
Q 029517           54 SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTA-LEKVLRNEDLQGAPLLILANKQDLPDAVSA-  131 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~-~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~-  131 (192)
                      ....+.++|+|||....+....-.+-.|..++|+|+...-.-+.+.-+ +-++      .-...++|+||+|...+... 
T Consensus        68 e~lq~tlvDCPGHasLIRtiiggaqiiDlm~lviDv~kG~QtQtAEcLiig~~------~c~klvvvinkid~lpE~qr~  141 (522)
T KOG0461|consen   68 EQLQFTLVDCPGHASLIRTIIGGAQIIDLMILVIDVQKGKQTQTAECLIIGEL------LCKKLVVVINKIDVLPENQRA  141 (522)
T ss_pred             ccceeEEEeCCCcHHHHHHHHhhhheeeeeeEEEehhcccccccchhhhhhhh------hccceEEEEeccccccchhhh
Confidence            356789999999986655554444557899999999754322222221 1111      23457888899987543211 


Q ss_pred             HHHHhHcC-----ccccC-CcceEEEEeeecCC----CCHHHHHHHHHHHHHhcch
Q 029517          132 DELARYLD-----LKKLD-ERVCMFEAVSGYDG----FGIKESVEWLVEVMERSKR  177 (192)
Q Consensus       132 ~~~~~~~~-----~~~~~-~~~~~~~~~Sa~~~----~gi~e~~~~i~~~i~~~~~  177 (192)
                      ..+.+..+     ++... ..+.+++++||+.|    ++|.|+.+.|..++...++
T Consensus       142 ski~k~~kk~~KtLe~t~f~g~~PI~~vsa~~G~~~~~~i~eL~e~l~s~if~P~R  197 (522)
T KOG0461|consen  142 SKIEKSAKKVRKTLESTGFDGNSPIVEVSAADGYFKEEMIQELKEALESRIFEPKR  197 (522)
T ss_pred             hHHHHHHHHHHHHHHhcCcCCCCceeEEecCCCccchhHHHHHHHHHHHhhcCCCc
Confidence            11111111     11111 23589999999999    7777777777776665443

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=98.40  E-value=1.9e-06  Score=66.45  Aligned_cols=112  Identities=13%  Similarity=0.051  Sum_probs=73.4

Q ss_pred             CCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCC-cEEEE
Q 029517           41 VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGA-PLLIL  119 (192)
Q Consensus        41 ~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~-piiiv  119 (192)
                      .-||...+..+.-...++..+|+|||.+|-.....-..+.|+.|+|+.+++..-.+..... ....+    -+. -++++
T Consensus        60 GITIntahveyet~~rhyahVDcPGHaDYvKNMItgAaqmDgAILVVsA~dGpmPqTrEHi-Llarq----vGvp~ivvf  134 (394)
T COG0050          60 GITINTAHVEYETANRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHI-LLARQ----VGVPYIVVF  134 (394)
T ss_pred             CceeccceeEEecCCceEEeccCCChHHHHHHHhhhHHhcCccEEEEEcCCCCCCcchhhh-hhhhh----cCCcEEEEE
Confidence            3455555555666788999999999999977665556678999999999876544332221 11112    245 56778


Q ss_pred             EeCCCCCCC-----CCHHHHHhHcCccccCCcceEEEEeeecC
Q 029517          120 ANKQDLPDA-----VSADELARYLDLKKLDERVCMFEAVSGYD  157 (192)
Q Consensus       120 ~nK~Dl~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  157 (192)
                      +||+|+.+.     .-..++++++....+..-..+++.-||..
T Consensus       135 lnK~Dmvdd~ellelVemEvreLLs~y~f~gd~~Pii~gSal~  177 (394)
T COG0050         135 LNKVDMVDDEELLELVEMEVRELLSEYGFPGDDTPIIRGSALK  177 (394)
T ss_pred             EecccccCcHHHHHHHHHHHHHHHHHcCCCCCCcceeechhhh
Confidence            899998751     11234555555444544567888888855

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=98.37  E-value=3.1e-06  Score=67.40  Aligned_cols=110  Identities=15%  Similarity=0.093  Sum_probs=70.5

Q ss_pred             cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCH--
Q 029517           54 SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSA--  131 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~--  131 (192)
                      .++.+.|.||+|...-...   ....+|.+++|.++...+.+..+.   ..+++.      .-++|+||+|+......  
T Consensus       147 ~g~d~viieT~Gv~qs~~~---i~~~aD~vlvv~~p~~gd~iq~~k---~gi~E~------aDIiVVNKaDl~~~~~a~~  214 (332)
T PRK09435        147 AGYDVILVETVGVGQSETA---VAGMVDFFLLLQLPGAGDELQGIK---KGIMEL------ADLIVINKADGDNKTAARR  214 (332)
T ss_pred             cCCCEEEEECCCCccchhH---HHHhCCEEEEEecCCchHHHHHHH---hhhhhh------hheEEeehhcccchhHHHH
Confidence            4678999999996532222   466799999998755454444433   223222      23799999998753222  


Q ss_pred             --HHHHhHcCcccc--CCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          132 --DELARYLDLKKL--DERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       132 --~~~~~~~~~~~~--~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                        .++...+.+..-  .....+++.+||++|.||+++.++|.+.+...
T Consensus       215 ~~~el~~~L~l~~~~~~~w~~pVi~vSA~~g~GIdeL~~~I~~~~~~l  262 (332)
T PRK09435        215 AAAEYRSALRLLRPKDPGWQPPVLTCSALEGEGIDEIWQAIEDHRAAL  262 (332)
T ss_pred             HHHHHHHHHhcccccccCCCCCEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence              233333331100  01125799999999999999999999876543

>PRK13796 GTPase YqeH; Provisional

Probab=98.32  E-value=3.1e-06  Score=68.57  Aligned_cols=95  Identities=21%  Similarity=0.248  Sum_probs=58.8

Q ss_pred             ccHHHHHHhhhcCC-EEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC-CCCHHHHHhHcCccccCC
Q 029517           68 GLRSIWEKYYEEAH-AVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD-AVSADELARYLDLKKLDE  145 (192)
Q Consensus        68 ~~~~~~~~~~~~~d-~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~  145 (192)
                      .|...... +...+ .+++|+|+.+..  .   .|...+.+..  .+.|+++|+||+|+.. ....+.+.+++.. ....
T Consensus        58 ~~~~~l~~-i~~~~~lIv~VVD~~D~~--~---s~~~~L~~~~--~~kpviLViNK~DLl~~~~~~~~i~~~l~~-~~k~  128 (365)
T PRK13796         58 DFLKLLNG-IGDSDALVVNVVDIFDFN--G---SWIPGLHRFV--GNNPVLLVGNKADLLPKSVKKNKVKNWLRQ-EAKE  128 (365)
T ss_pred             HHHHHHHh-hcccCcEEEEEEECccCC--C---chhHHHHHHh--CCCCEEEEEEchhhCCCccCHHHHHHHHHH-HHHh
Confidence            45554443 44455 899999997743  1   1222232221  3679999999999964 2333444444220 0012


Q ss_pred             cce---EEEEeeecCCCCHHHHHHHHHHH
Q 029517          146 RVC---MFEAVSGYDGFGIKESVEWLVEV  171 (192)
Q Consensus       146 ~~~---~~~~~Sa~~~~gi~e~~~~i~~~  171 (192)
                      .++   .++.+||++|.|++++++.|.+.
T Consensus       129 ~g~~~~~v~~vSAk~g~gI~eL~~~I~~~  157 (365)
T PRK13796        129 LGLRPVDVVLISAQKGHGIDELLEAIEKY  157 (365)
T ss_pred             cCCCcCcEEEEECCCCCCHHHHHHHHHHh
Confidence            222   68899999999999999999664

>TIGR00750 lao LAO/AO transport system ATPase

Probab=98.31  E-value=7.3e-06  Score=64.70  Aligned_cols=108  Identities=16%  Similarity=0.091  Sum_probs=67.9

Q ss_pred             cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHH
Q 029517           54 SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADE  133 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~  133 (192)
                      .++.+.|.||+|.....   ...+..+|.++++.+....   +++......+      .++|.++++||+|+........
T Consensus       125 ~g~D~viidT~G~~~~e---~~i~~~aD~i~vv~~~~~~---~el~~~~~~l------~~~~~ivv~NK~Dl~~~~~~~~  192 (300)
T TIGR00750       125 AGYDVIIVETVGVGQSE---VDIANMADTFVVVTIPGTG---DDLQGIKAGL------MEIADIYVVNKADGEGATNVTI  192 (300)
T ss_pred             CCCCEEEEeCCCCchhh---hHHHHhhceEEEEecCCcc---HHHHHHHHHH------hhhccEEEEEcccccchhHHHH
Confidence            46889999999954221   2356778999888654433   3333333333      3577899999999976433221


Q ss_pred             HHhHc-----Cc-cccCCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517          134 LARYL-----DL-KKLDERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus       134 ~~~~~-----~~-~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      ....+     .+ ........+++++||+++.|+++++++|.+...
T Consensus       193 ~~~~~~~~l~~l~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~~~  238 (300)
T TIGR00750       193 ARLMLALALEEIRRREDGWRPPVLTTSAVEGRGIDELWDAIEEHKT  238 (300)
T ss_pred             HHHHHHHHHhhccccccCCCCCEEEEEccCCCCHHHHHHHHHHHHH
Confidence            11111     00 000111246899999999999999999988644

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.

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=98.31  E-value=5.3e-06  Score=71.89  Aligned_cols=80  Identities=16%  Similarity=0.157  Sum_probs=60.2

Q ss_pred             CcceEEEEEEec-CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEe
Q 029517           43 TVGLNIGRIEVS-NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILAN  121 (192)
Q Consensus        43 T~g~~~~~~~~~-~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~n  121 (192)
                      |+...-.++... +..++++|||||-+|.......++-+|+++.|+|+...-..+.-.-| ++..+    .++|.++++|
T Consensus        62 TI~saa~s~~~~~~~~iNlIDTPGHVDFt~EV~rslrvlDgavvVvdaveGV~~QTEtv~-rqa~~----~~vp~i~fiN  136 (697)
T COG0480          62 TITSAATTLFWKGDYRINLIDTPGHVDFTIEVERSLRVLDGAVVVVDAVEGVEPQTETVW-RQADK----YGVPRILFVN  136 (697)
T ss_pred             EEeeeeeEEEEcCceEEEEeCCCCccccHHHHHHHHHhhcceEEEEECCCCeeecHHHHH-HHHhh----cCCCeEEEEE
Confidence            333333345666 49999999999999999999999999999999999866444432233 22222    3699999999


Q ss_pred             CCCCCC
Q 029517          122 KQDLPD  127 (192)
Q Consensus       122 K~Dl~~  127 (192)
                      |+|...
T Consensus       137 KmDR~~  142 (697)
T COG0480         137 KMDRLG  142 (697)
T ss_pred             Cccccc
Confidence            999865

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=98.29  E-value=9.1e-06  Score=65.33  Aligned_cols=74  Identities=23%  Similarity=0.228  Sum_probs=45.6

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEE--------e-----cCEEEEEEeCCCCcc-------cHHH
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIE--------V-----SNSKLVFWDLGGQPG-------LRSI   72 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~--------~-----~~~~~~i~D~~G~~~-------~~~~   72 (192)
                      =|||+||+|.+.-    +.+.+++.++..|..|.-...-.        .     -..++++.|+||...       ....
T Consensus        14 GKSTLfnaLt~~~----~~v~nypftTi~p~~G~~~v~d~r~~~l~~~~~p~~~~~a~i~lvD~pGL~~~a~~g~glg~~   89 (364)
T PRK09601         14 GKSTLFNALTKAG----AEAANYPFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIVPATIEFVDIAGLVKGASKGEGLGNQ   89 (364)
T ss_pred             CHHHHHHHHhCCC----CeecccccccccceEEEEEeccccchhhHHhcCCccccCceEEEEECCCCCCCCChHHHHHHH
Confidence            3888888886643    34556666665665554322110        0     013699999999431       1223


Q ss_pred             HHHhhhcCCEEEEEEeCC
Q 029517           73 WEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        73 ~~~~~~~~d~ii~v~D~~   90 (192)
                      ....++.||++++|+|+.
T Consensus        90 fL~~i~~aD~li~VVd~f  107 (364)
T PRK09601         90 FLANIREVDAIVHVVRCF  107 (364)
T ss_pred             HHHHHHhCCEEEEEEeCC
Confidence            344578999999999984

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=98.26  E-value=1.5e-05  Score=62.70  Aligned_cols=106  Identities=8%  Similarity=0.039  Sum_probs=57.2

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHH---HHhhh------cCCEE
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIW---EKYYE------EAHAV   83 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~---~~~~~------~~d~i   83 (192)
                      =|||++|+|+++.....+.   .....+.++.    ......+.++.++||||..+.....   ...++      ..|++
T Consensus        50 GKSSliNsIlG~~v~~vs~---f~s~t~~~~~----~~~~~~G~~l~VIDTPGL~d~~~~~e~~~~~ik~~l~~~g~DvV  122 (313)
T TIGR00991        50 GKSSTVNSIIGERIATVSA---FQSEGLRPMM----VSRTRAGFTLNIIDTPGLIEGGYINDQAVNIIKRFLLGKTIDVL  122 (313)
T ss_pred             CHHHHHHHHhCCCcccccC---CCCcceeEEE----EEEEECCeEEEEEECCCCCchHHHHHHHHHHHHHHhhcCCCCEE
Confidence            3899999999875432221   1112222221    1223467899999999976432211   11222      58999


Q ss_pred             EEEEeCCCcccHHHH-HHHHHHHHhCC-CCCCCcEEEEEeCCCCC
Q 029517           84 VFVIDAACPSRFEDS-KTALEKVLRNE-DLQGAPLLILANKQDLP  126 (192)
Q Consensus        84 i~v~D~~~~~s~~~~-~~~~~~i~~~~-~~~~~piiiv~nK~Dl~  126 (192)
                      ++|...... .+... ...++.+.... ...-.+.+++.|+.|..
T Consensus       123 LyV~rLD~~-R~~~~DkqlLk~Iqe~FG~~iw~~~IVVfTh~d~~  166 (313)
T TIGR00991       123 LYVDRLDAY-RVDTLDGQVIRAITDSFGKDIWRKSLVVLTHAQFS  166 (313)
T ss_pred             EEEeccCcc-cCCHHHHHHHHHHHHHhhhhhhccEEEEEECCccC
Confidence            999654322 12111 12333333321 11235799999999965

>PRK01889 GTPase RsgA; Reviewed

Probab=98.26  E-value=8.5e-06  Score=65.80  Aligned_cols=84  Identities=23%  Similarity=0.264  Sum_probs=59.1

Q ss_pred             hhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeec
Q 029517           77 YEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGY  156 (192)
Q Consensus        77 ~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  156 (192)
                      ..++|.+++|+++..+-....+..++..+...    ++|.++|+||+||.+.. .+....+...    ..+++++.+|++
T Consensus       110 aANvD~vliV~s~~p~~~~~~ldr~L~~a~~~----~i~piIVLNK~DL~~~~-~~~~~~~~~~----~~g~~Vi~vSa~  180 (356)
T PRK01889        110 AANVDTVFIVCSLNHDFNLRRIERYLALAWES----GAEPVIVLTKADLCEDA-EEKIAEVEAL----APGVPVLAVSAL  180 (356)
T ss_pred             EEeCCEEEEEEecCCCCChhHHHHHHHHHHHc----CCCEEEEEEChhcCCCH-HHHHHHHHHh----CCCCcEEEEECC
Confidence            47899999999997555555555665554443    67778999999997531 1122222221    336889999999


Q ss_pred             CCCCHHHHHHHHH
Q 029517          157 DGFGIKESVEWLV  169 (192)
Q Consensus       157 ~~~gi~e~~~~i~  169 (192)
                      ++.|++++..++.
T Consensus       181 ~g~gl~~L~~~L~  193 (356)
T PRK01889        181 DGEGLDVLAAWLS  193 (356)
T ss_pred             CCccHHHHHHHhh
Confidence            9999999988874

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

Probab=98.17  E-value=2.1e-05  Score=65.68  Aligned_cols=144  Identities=19%  Similarity=0.201  Sum_probs=88.9

Q ss_pred             hhccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCC
Q 029517           12 IFTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAAC   91 (192)
Q Consensus        12 ~~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~   91 (192)
                      --||.+++++++|...-    ++  ..+..+...++.....+..-.+.+.|.+-. ........- ..||++.++||+++
T Consensus       436 ~GKs~lL~sflgr~~~~----~~--~~~~~~~~avn~v~~~g~~k~LiL~ei~~~-~~~~l~~ke-~~cDv~~~~YDsS~  507 (625)
T KOG1707|consen  436 CGKSALLQSFLGRSMSD----NN--TGTTKPRYAVNSVEVKGQQKYLILREIGED-DQDFLTSKE-AACDVACLVYDSSN  507 (625)
T ss_pred             CchHHHHHHHhcccccc----cc--ccCCCCceeeeeeeeccccceEEEeecCcc-ccccccCcc-ceeeeEEEecccCC
Confidence            34788888998886651    11  111122222222233455556777777764 222222111 67999999999999


Q ss_pred             cccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC-----CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHH
Q 029517           92 PSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD-----AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVE  166 (192)
Q Consensus        92 ~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~  166 (192)
                      +.+|+-+....+.-...   ...|+++|+.|+|+.+     .+..++.....++       -+-+.+|.+.... .++|.
T Consensus       508 p~sf~~~a~v~~~~~~~---~~~Pc~~va~K~dlDe~~Q~~~iqpde~~~~~~i-------~~P~~~S~~~~~s-~~lf~  576 (625)
T KOG1707|consen  508 PRSFEYLAEVYNKYFDL---YKIPCLMVATKADLDEVPQRYSIQPDEFCRQLGL-------PPPIHISSKTLSS-NELFI  576 (625)
T ss_pred             chHHHHHHHHHHHhhhc---cCCceEEEeeccccchhhhccCCChHHHHHhcCC-------CCCeeeccCCCCC-chHHH
Confidence            99998877765554433   5799999999999976     2344555555542       1223456664333 89999


Q ss_pred             HHHHHHHh
Q 029517          167 WLVEVMER  174 (192)
Q Consensus       167 ~i~~~i~~  174 (192)
                      +|......
T Consensus       577 kL~~~A~~  584 (625)
T KOG1707|consen  577 KLATMAQY  584 (625)
T ss_pred             HHHHhhhC
Confidence            99886653

>KOG0410 consensus Predicted GTP binding protein [General function prediction only]

Probab=98.14  E-value=5.2e-06  Score=64.86  Aligned_cols=141  Identities=18%  Similarity=0.270  Sum_probs=83.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEec-CEEEEEEeCCCC---------cccHHHHHHhhhcCCEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVS-NSKLVFWDLGGQ---------PGLRSIWEKYYEEAHAV   83 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~-~~~~~i~D~~G~---------~~~~~~~~~~~~~~d~i   83 (192)
                      |||++++|.    .+.    -++.++...|....-.....+ +..+.+-||.|.         ..|+...+ .+..+|.+
T Consensus       191 KsTLikaLT----~Aa----l~p~drLFATLDpT~h~a~Lpsg~~vlltDTvGFisdLP~~LvaAF~ATLe-eVaeadll  261 (410)
T KOG0410|consen  191 KSTLIKALT----KAA----LYPNDRLFATLDPTLHSAHLPSGNFVLLTDTVGFISDLPIQLVAAFQATLE-EVAEADLL  261 (410)
T ss_pred             HHHHHHHHH----hhh----cCccchhheeccchhhhccCCCCcEEEEeechhhhhhCcHHHHHHHHHHHH-HHhhcceE
Confidence            566666555    221    233445555554443333322 457888999993         23444443 46789999


Q ss_pred             EEEEeCCCcccHHHHHHHHHHHHhCCCCCCCc----EEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCC
Q 029517           84 VFVIDAACPSRFEDSKTALEKVLRNEDLQGAP----LLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGF  159 (192)
Q Consensus        84 i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~p----iiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  159 (192)
                      +.|+|++.|+ .+.-..-+...+.....++.|    ++=|-||+|.......++           ..  ..+.+||++|+
T Consensus       262 lHvvDiShP~-ae~q~e~Vl~vL~~igv~~~pkl~~mieVdnkiD~e~~~~e~E-----------~n--~~v~isaltgd  327 (410)
T KOG0410|consen  262 LHVVDISHPN-AEEQRETVLHVLNQIGVPSEPKLQNMIEVDNKIDYEEDEVEEE-----------KN--LDVGISALTGD  327 (410)
T ss_pred             EEEeecCCcc-HHHHHHHHHHHHHhcCCCcHHHHhHHHhhccccccccccCccc-----------cC--CccccccccCc
Confidence            9999999886 333334444444432223334    455677777654221111           11  15569999999


Q ss_pred             CHHHHHHHHHHHHHhcch
Q 029517          160 GIKESVEWLVEVMERSKR  177 (192)
Q Consensus       160 gi~e~~~~i~~~i~~~~~  177 (192)
                      |++++.+.+-..+.....
T Consensus       328 gl~el~~a~~~kv~~~t~  345 (410)
T KOG0410|consen  328 GLEELLKAEETKVASETT  345 (410)
T ss_pred             cHHHHHHHHHHHhhhhhe
Confidence            999999999888776643

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=98.12  E-value=4.7e-05  Score=58.50  Aligned_cols=106  Identities=12%  Similarity=0.068  Sum_probs=58.5

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccH--H--------HHHHhhh--cCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLR--S--------IWEKYYE--EAH   81 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~--~--------~~~~~~~--~~d   81 (192)
                      |||++|+|++.-.....   .    ....|...........+.++.+|||||.....  .        ....++.  ..+
T Consensus        44 KSSliNaLlg~~~~~v~---~----~~~~T~~~~~~~~~~~g~~i~vIDTPGl~~~~~~~~~~~~~~~~I~~~l~~~~id  116 (249)
T cd01853          44 KSSTINSIFGERKAATS---A----FQSETLRVREVSGTVDGFKLNIIDTPGLLESVMDQRVNRKILSSIKRYLKKKTPD  116 (249)
T ss_pred             HHHHHHHHhCCCCcccC---C----CCCceEEEEEEEEEECCeEEEEEECCCcCcchhhHHHHHHHHHHHHHHHhccCCC
Confidence            89999999876432111   1    11233333344444567889999999965431  1        1223443  468


Q ss_pred             EEEEEEeCCCcc-cHHHHHHHHHHHHhCCC-CCCCcEEEEEeCCCCCC
Q 029517           82 AVVFVIDAACPS-RFEDSKTALEKVLRNED-LQGAPLLILANKQDLPD  127 (192)
Q Consensus        82 ~ii~v~D~~~~~-s~~~~~~~~~~i~~~~~-~~~~piiiv~nK~Dl~~  127 (192)
                      ++++|..++... +... ...++.+.+... ..-.++++|.||+|...
T Consensus       117 vIL~V~rlD~~r~~~~d-~~llk~I~e~fG~~i~~~~ivV~T~~d~~~  163 (249)
T cd01853         117 VVLYVDRLDMYRRDYLD-LPLLRAITDSFGPSIWRNAIVVLTHAASSP  163 (249)
T ss_pred             EEEEEEcCCCCCCCHHH-HHHHHHHHHHhChhhHhCEEEEEeCCccCC
Confidence            888887554321 1221 133333333211 11257999999999854

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.

>KOG3886 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=98.11  E-value=1.4e-05  Score=59.76  Aligned_cols=118  Identities=22%  Similarity=0.366  Sum_probs=77.1

Q ss_pred             CCCCCCcceEEEEEEec-CEEEEEEeCCCCcccHH-----HHHHhhhcCCEEEEEEeCCCccc---HHHHHHHHHHHHhC
Q 029517           38 DRIVPTVGLNIGRIEVS-NSKLVFWDLGGQPGLRS-----IWEKYYEEAHAVVFVIDAACPSR---FEDSKTALEKVLRN  108 (192)
Q Consensus        38 ~~~~~T~g~~~~~~~~~-~~~~~i~D~~G~~~~~~-----~~~~~~~~~d~ii~v~D~~~~~s---~~~~~~~~~~i~~~  108 (192)
                      ....+||.+.+.++.+- ...+.+||.+|++.+..     .....+++.+++++|+|++..+-   +...+.-++.+++.
T Consensus        34 ~rlg~tidveHsh~RflGnl~LnlwDcGgqe~fmen~~~~q~d~iF~nV~vli~vFDves~e~~~D~~~yqk~Le~ll~~  113 (295)
T KOG3886|consen   34 RRLGATIDVEHSHVRFLGNLVLNLWDCGGQEEFMENYLSSQEDNIFRNVQVLIYVFDVESREMEKDFHYYQKCLEALLQN  113 (295)
T ss_pred             hccCCcceeeehhhhhhhhheeehhccCCcHHHHHHHHhhcchhhheeheeeeeeeeccchhhhhhHHHHHHHHHHHHhc
Confidence            45578888888887654 58999999999985433     34557889999999999985532   22333334455555


Q ss_pred             CCCCCCcEEEEEeCCCCCCCCCHHHHHhHcC--cccc-CCcceEEEEeeecC
Q 029517          109 EDLQGAPLLILANKQDLPDAVSADELARYLD--LKKL-DERVCMFEAVSGYD  157 (192)
Q Consensus       109 ~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~--~~~~-~~~~~~~~~~Sa~~  157 (192)
                      .  +...+.+..+|.|+......+++-+.-+  +..+ ...++.++++|..+
T Consensus       114 S--P~AkiF~l~hKmDLv~~d~r~~if~~r~~~l~~~s~~~~~~~f~TsiwD  163 (295)
T KOG3886|consen  114 S--PEAKIFCLLHKMDLVQEDARELIFQRRKEDLRRLSRPLECKCFPTSIWD  163 (295)
T ss_pred             C--CcceEEEEEeechhcccchHHHHHHHHHHHHHHhcccccccccccchhh
Confidence            3  5778999999999976433333222111  1111 13457778887755

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

Probab=98.11  E-value=1.1e-05  Score=54.55  Aligned_cols=75  Identities=17%  Similarity=0.163  Sum_probs=53.0

Q ss_pred             HHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCC--CCHHHHHhHcCccccCCcceE
Q 029517           72 IWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDA--VSADELARYLDLKKLDERVCM  149 (192)
Q Consensus        72 ~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~  149 (192)
                      ....+.+.++++++||+.++..+++.+  |...+..... .+.|.++++||.|+.+.  ...++             ..+
T Consensus        39 ~~~~~~~s~~~~~~v~~~~~~~s~~~~--~~~~i~~~~k-~dl~~~~~~nk~dl~~~~~~~~~~-------------~~~  102 (124)
T smart00010       39 YDPTSYESFDVVLQCWRVDDRDSADNK--NVPEVLVGNK-SDLPILVGGNRDVLEEERQVATEE-------------GLE  102 (124)
T ss_pred             ccccccCCCCEEEEEEEccCHHHHHHH--hHHHHHhcCC-CCCcEEEEeechhhHhhCcCCHHH-------------HHH
Confidence            334567889999999999998888765  6666655432 57899999999997432  11111             234


Q ss_pred             EEEeeecCCCCHH
Q 029517          150 FEAVSGYDGFGIK  162 (192)
Q Consensus       150 ~~~~Sa~~~~gi~  162 (192)
                      ++++|+++|.|+.
T Consensus       103 ~~~~s~~~~~~~~  115 (124)
T smart00010      103 FAETSAKTPEEGE  115 (124)
T ss_pred             HHHHhCCCcchhh
Confidence            5678999999984

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.

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=98.10  E-value=1e-05  Score=60.36  Aligned_cols=102  Identities=19%  Similarity=0.158  Sum_probs=60.2

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCC--CHH
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAV--SAD  132 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~--~~~  132 (192)
                      +..+.+++|.|.-....   .+-...+..+.|+|+.+.+....  ... .      ....|.++++||+|+.+..  ..+
T Consensus       102 ~~d~IiIEt~G~l~~~~---~~~~~~~~~i~Vvd~~~~d~~~~--~~~-~------~~~~a~iiv~NK~Dl~~~~~~~~~  169 (207)
T TIGR00073       102 DIDLLFIENVGNLVCPA---DFDLGEHMRVVLLSVTEGDDKPL--KYP-G------MFKEADLIVINKADLAEAVGFDVE  169 (207)
T ss_pred             CCCEEEEecCCCcCCCc---ccccccCeEEEEEecCcccchhh--hhH-h------HHhhCCEEEEEHHHccccchhhHH
Confidence            34677777777211000   11123455566777765432111  110 1      1246789999999997532  233


Q ss_pred             HHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHH
Q 029517          133 ELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEV  171 (192)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~  171 (192)
                      +..+.+..  . ....+++++||++|.|++++++++.+.
T Consensus       170 ~~~~~l~~--~-~~~~~i~~~Sa~~g~gv~~l~~~i~~~  205 (207)
T TIGR00073       170 KMKADAKK--I-NPEAEIILMSLKTGEGLDEWLEFLEGQ  205 (207)
T ss_pred             HHHHHHHH--h-CCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            44444331  1 235789999999999999999999774

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=98.07  E-value=4.7e-05  Score=58.40  Aligned_cols=116  Identities=22%  Similarity=0.262  Sum_probs=71.3

Q ss_pred             CEEEEEEeCCCCc-cc-----HHHHHHhh--hcCCEEEEEEeCC---CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCC
Q 029517           55 NSKLVFWDLGGQP-GL-----RSIWEKYY--EEAHAVVFVIDAA---CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQ  123 (192)
Q Consensus        55 ~~~~~i~D~~G~~-~~-----~~~~~~~~--~~~d~ii~v~D~~---~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~  123 (192)
                      .....++|||||- .|     .......+  ....++++|+|..   ++.+|-.--.+--.++..   ...|++++.||.
T Consensus       115 ~~~~~liDTPGQIE~FtWSAsGsIIte~lass~ptvv~YvvDt~rs~~p~tFMSNMlYAcSilyk---tklp~ivvfNK~  191 (366)
T KOG1532|consen  115 EFDYVLIDTPGQIEAFTWSASGSIITETLASSFPTVVVYVVDTPRSTSPTTFMSNMLYACSILYK---TKLPFIVVFNKT  191 (366)
T ss_pred             ccCEEEEcCCCceEEEEecCCccchHhhHhhcCCeEEEEEecCCcCCCchhHHHHHHHHHHHHHh---ccCCeEEEEecc
Confidence            4678999999963 22     11111222  2357789999974   444554433333334333   578999999999


Q ss_pred             CCCCCC-------CHHHHHhHcCc-c---------------ccCCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517          124 DLPDAV-------SADELARYLDL-K---------------KLDERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus       124 Dl~~~~-------~~~~~~~~~~~-~---------------~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      |+.+..       +.|.+++.++. .               .-...+...+-+||.+|.|.+++|.++.+.+.
T Consensus       192 Dv~d~~fa~eWm~DfE~FqeAl~~~~~~y~s~l~~SmSL~leeFY~~lrtv~VSs~tG~G~ddf~~av~~~vd  264 (366)
T KOG1532|consen  192 DVSDSEFALEWMTDFEAFQEALNEAESSYMSNLTRSMSLMLEEFYRSLRTVGVSSVTGEGFDDFFTAVDESVD  264 (366)
T ss_pred             cccccHHHHHHHHHHHHHHHHHHhhccchhHHhhhhHHHHHHHHHhhCceEEEecccCCcHHHHHHHHHHHHH
Confidence            997621       12222222220 0               00134678899999999999999999877654

>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=98.06  E-value=2e-05  Score=59.13  Aligned_cols=150  Identities=13%  Similarity=0.071  Sum_probs=80.0

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCccc-------HHHHHH----hhhcCCE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGL-------RSIWEK----YYEEAHA   82 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~-------~~~~~~----~~~~~d~   82 (192)
                      |||+.|+|+++-..      .........|..+........+..+.|+||||..+.       ......    ...+.++
T Consensus        13 KSs~~N~ilg~~~f------~~~~~~~~~t~~~~~~~~~~~g~~v~VIDTPGl~d~~~~~~~~~~~i~~~l~~~~~g~ha   86 (212)
T PF04548_consen   13 KSSLGNSILGKEVF------KSGSSAKSVTQECQKYSGEVDGRQVTVIDTPGLFDSDGSDEEIIREIKRCLSLCSPGPHA   86 (212)
T ss_dssp             HHHHHHHHHTSS-S------S--TTTSS--SS-EEEEEEETTEEEEEEE--SSEETTEEHHHHHHHHHHHHHHTTT-ESE
T ss_pred             HHHHHHHHhcccce------eeccccCCcccccceeeeeecceEEEEEeCCCCCCCcccHHHHHHHHHHHHHhccCCCeE
Confidence            78999999876442      111112234555555566777899999999994321       111222    2345899


Q ss_pred             EEEEEeCCCcc-cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHH---------HHhHcCccccCCcceEEEE
Q 029517           83 VVFVIDAACPS-RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADE---------LARYLDLKKLDERVCMFEA  152 (192)
Q Consensus        83 ii~v~D~~~~~-s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~---------~~~~~~~~~~~~~~~~~~~  152 (192)
                      +++|+...... .-..+.+++..+....  .-..++++.+..|.......++         +.+.++     ..+-.++.
T Consensus        87 ~llVi~~~r~t~~~~~~l~~l~~~FG~~--~~k~~ivvfT~~d~~~~~~~~~~l~~~~~~~l~~li~-----~c~~R~~~  159 (212)
T PF04548_consen   87 FLLVIPLGRFTEEDREVLELLQEIFGEE--IWKHTIVVFTHADELEDDSLEDYLKKESNEALQELIE-----KCGGRYHV  159 (212)
T ss_dssp             EEEEEETTB-SHHHHHHHHHHHHHHCGG--GGGGEEEEEEEGGGGTTTTHHHHHHHHHHHHHHHHHH-----HTTTCEEE
T ss_pred             EEEEEecCcchHHHHHHHHHHHHHccHH--HHhHhhHHhhhccccccccHHHHHhccCchhHhHHhh-----hcCCEEEE
Confidence            99999987321 1123333444443321  1246888888888665433222         222222     33445555


Q ss_pred             eeec------CCCCHHHHHHHHHHHHHhcc
Q 029517          153 VSGY------DGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       153 ~Sa~------~~~gi~e~~~~i~~~i~~~~  176 (192)
                      .+.+      ....+.++++.+.+.+.++.
T Consensus       160 f~n~~~~~~~~~~qv~~Ll~~ie~mv~~n~  189 (212)
T PF04548_consen  160 FNNKTKDKEKDESQVSELLEKIEEMVQENG  189 (212)
T ss_dssp             CCTTHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             EeccccchhhhHHHHHHHHHHHHHHHHHcC
Confidence            5555      33458888888877776653

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 ....

>KOG0466 consensus Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.04  E-value=4.3e-06  Score=64.84  Aligned_cols=115  Identities=16%  Similarity=0.150  Sum_probs=72.7

Q ss_pred             EEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCC----CCH
Q 029517           56 SKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDA----VSA  131 (192)
Q Consensus        56 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~----~~~  131 (192)
                      .++.|+|+|||+-.......-..-.|++++++....+..-....+-+..+.-.   .-..++++-||+|+..+    ...
T Consensus       125 RHVSfVDCPGHDiLMaTMLnGaAvmDaalLlIA~NEsCPQPQTsEHLaaveiM---~LkhiiilQNKiDli~e~~A~eq~  201 (466)
T KOG0466|consen  125 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIAGNESCPQPQTSEHLAAVEIM---KLKHIIILQNKIDLIKESQALEQH  201 (466)
T ss_pred             EEEEeccCCchHHHHHHHhcchHHhhhhhhhhhcCCCCCCCchhhHHHHHHHh---hhceEEEEechhhhhhHHHHHHHH
Confidence            47999999999854433222222357777777654221111111222222211   23679999999999762    334


Q ss_pred             HHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          132 DELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                      +++..+.+..  ...+.+++++||.-++||+-+.+.|++.+.--
T Consensus       202 e~I~kFi~~t--~ae~aPiiPisAQlkyNId~v~eyivkkIPvP  243 (466)
T KOG0466|consen  202 EQIQKFIQGT--VAEGAPIIPISAQLKYNIDVVCEYIVKKIPVP  243 (466)
T ss_pred             HHHHHHHhcc--ccCCCceeeehhhhccChHHHHHHHHhcCCCC
Confidence            5566666521  12377999999999999999999999987643

>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]

Probab=98.02  E-value=1.3e-05  Score=68.01  Aligned_cols=70  Identities=16%  Similarity=0.226  Sum_probs=54.9

Q ss_pred             EecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCC
Q 029517           52 EVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLP  126 (192)
Q Consensus        52 ~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~  126 (192)
                      +++.+-+++.|||||-.|.......++.+|++++|+|+...-.+..-+ .++...+    .+.|+++|+||+|+.
T Consensus       193 ~~KS~l~nilDTPGHVnF~DE~ta~l~~sDgvVlvvDv~EGVmlntEr-~ikhaiq----~~~~i~vviNKiDRL  262 (971)
T KOG0468|consen  193 KGKSYLMNILDTPGHVNFSDETTASLRLSDGVVLVVDVAEGVMLNTER-IIKHAIQ----NRLPIVVVINKVDRL  262 (971)
T ss_pred             cCceeeeeeecCCCcccchHHHHHHhhhcceEEEEEEcccCceeeHHH-HHHHHHh----ccCcEEEEEehhHHH
Confidence            345678999999999999998888999999999999998776665422 2222222    368999999999963

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=97.98  E-value=5.9e-05  Score=60.83  Aligned_cols=118  Identities=20%  Similarity=0.292  Sum_probs=62.7

Q ss_pred             EEEEEeCCCCcccHHHHHHh-----hhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCC------
Q 029517           57 KLVFWDLGGQPGLRSIWEKY-----YEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDL------  125 (192)
Q Consensus        57 ~~~i~D~~G~~~~~~~~~~~-----~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl------  125 (192)
                      ++.+||.||.....-....|     +...|.+|++.+-.    |....-++..-.+.   .++|+.+|-+|+|.      
T Consensus        87 nv~lWDlPG~gt~~f~~~~Yl~~~~~~~yD~fiii~s~r----f~~ndv~La~~i~~---~gK~fyfVRTKvD~Dl~~~~  159 (376)
T PF05049_consen   87 NVTLWDLPGIGTPNFPPEEYLKEVKFYRYDFFIIISSER----FTENDVQLAKEIQR---MGKKFYFVRTKVDSDLYNER  159 (376)
T ss_dssp             TEEEEEE--GGGSS--HHHHHHHTTGGG-SEEEEEESSS------HHHHHHHHHHHH---TT-EEEEEE--HHHHHHHHH
T ss_pred             CCeEEeCCCCCCCCCCHHHHHHHccccccCEEEEEeCCC----CchhhHHHHHHHHH---cCCcEEEEEecccccHhhhh
Confidence            69999999954222222333     45689988887643    55555555554444   47999999999995      


Q ss_pred             ---CCCCCH----HHHHhHcC--ccccCCcceEEEEeeecC--CCCHHHHHHHHHHHHHhcchhhhh
Q 029517          126 ---PDAVSA----DELARYLD--LKKLDERVCMFEAVSGYD--GFGIKESVEWLVEVMERSKRTEML  181 (192)
Q Consensus       126 ---~~~~~~----~~~~~~~~--~~~~~~~~~~~~~~Sa~~--~~gi~e~~~~i~~~i~~~~~~~~~  181 (192)
                         +...+.    +++++.+.  +....-...++|.+|+.+  ......+.+.|.+.+..+++...+
T Consensus       160 ~~~p~~f~~e~~L~~IR~~c~~~L~k~gv~~P~VFLVS~~dl~~yDFp~L~~tL~~dLp~~Kr~~fl  226 (376)
T PF05049_consen  160 RRKPRTFNEEKLLQEIRENCLENLQKAGVSEPQVFLVSSFDLSKYDFPKLEETLEKDLPAHKRHAFL  226 (376)
T ss_dssp             CC-STT--HHTHHHHHHHHHHHHHHCTT-SS--EEEB-TTTTTSTTHHHHHHHHHHHS-GGGHHHHH
T ss_pred             ccCCcccCHHHHHHHHHHHHHHHHHHcCCCcCceEEEeCCCcccCChHHHHHHHHHHhHHHHHHHHH
Confidence               112222    23333332  111122356899999977  456888889998888877765543

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.

>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1)

Probab=97.97  E-value=3.6e-05  Score=44.78  Aligned_cols=43  Identities=26%  Similarity=0.519  Sum_probs=30.3

Q ss_pred             CCEEEEEEeCC--CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCC
Q 029517           80 AHAVVFVIDAA--CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQD  124 (192)
Q Consensus        80 ~d~ii~v~D~~--~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D  124 (192)
                      .++++|++|++  ++.+.++-..+++.+....  .++|+++|.||+|
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            68899999997  4567787777888887763  4899999999998

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.

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=97.93  E-value=0.00016  Score=60.35  Aligned_cols=143  Identities=15%  Similarity=0.224  Sum_probs=93.1

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEec------CEEEEEEeCCCCcccHHHHHHhhhc----CCEEEEEEeC
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVS------NSKLVFWDLGGQPGLRSIWEKYYEE----AHAVVFVIDA   89 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~------~~~~~i~D~~G~~~~~~~~~~~~~~----~d~ii~v~D~   89 (192)
                      +|+.++..         .+.+.++.|.+|..++..      ..++.+|-..|...+..+....+..    --++|+|+|.
T Consensus        40 tli~~L~~---------~e~~~~~~aLeYty~~v~d~~~dd~~rl~vw~L~g~~~~~~LLk~~lt~~~l~~t~vvIvlDl  110 (472)
T PF05783_consen   40 TLIARLQG---------IEDPKKGLALEYTYLDVKDEDRDDLARLNVWELDGDPSHSDLLKFALTPENLPNTLVVIVLDL  110 (472)
T ss_pred             HHHHHhhc---------cCCCCCCcccceEEEeeccCcCCcCceeeEEEcCCCcchHhHhcccCCcccccceEEEEEecC
Confidence            77777765         234567888888765431      2478999998877777777655543    3568999999


Q ss_pred             CCcccHH-HHHHHHHHHHh-------------------------C------C-----------------C----------
Q 029517           90 ACPSRFE-DSKTALEKVLR-------------------------N------E-----------------D----------  110 (192)
Q Consensus        90 ~~~~s~~-~~~~~~~~i~~-------------------------~------~-----------------~----------  110 (192)
                      +.|..+- .+..|+.-+.+                         +      .                 .          
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            9876553 33333221110                         0      0                 0          


Q ss_pred             ---CCCCcEEEEEeCCCCCCCCCH-----H----H----HHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          111 ---LQGAPLLILANKQDLPDAVSA-----D----E----LARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       111 ---~~~~piiiv~nK~Dl~~~~~~-----~----~----~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                         .-++|++||++|+|.....+.     +    -    ++.++-     .+|...+.||++...+++-++..|...+..
T Consensus       191 l~~nlGipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~~cL-----~yGAsL~yts~~~~~n~~~L~~yi~h~l~~  265 (472)
T PF05783_consen  191 LTENLGIPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRTFCL-----KYGASLIYTSVKEEKNLDLLYKYILHRLYG  265 (472)
T ss_pred             cccccCcceEEEEecccHHHHHhhhcccchhhHHHHHHHHHHHHH-----hcCCeEEEeeccccccHHHHHHHHHHHhcc
Confidence               014899999999997431111     1    1    223332     568889999999999999999998888765


Q ss_pred             cc
Q 029517          175 SK  176 (192)
Q Consensus       175 ~~  176 (192)
                      ..
T Consensus       266 ~~  267 (472)
T PF05783_consen  266 FP  267 (472)
T ss_pred             CC
Confidence            43

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 [].

>KOG3905 consensus Dynein light intermediate chain [Cell motility]

Probab=97.85  E-value=0.00033  Score=55.10  Aligned_cols=142  Identities=15%  Similarity=0.165  Sum_probs=94.0

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEec------CEEEEEEeCCCCcccHHHHHHhhhc---C-CEEEEEEeC
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVS------NSKLVFWDLGGQPGLRSIWEKYYEE---A-HAVVFVIDA   89 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~------~~~~~i~D~~G~~~~~~~~~~~~~~---~-d~ii~v~D~   89 (192)
                      +|+.++++         .+.+.+-.|.+|..++..      ..++.+|=.-|...+..+....+..   + ..+|++.|.
T Consensus        67 sLi~klqg---------~e~~KkgsgLeY~yl~V~de~RDd~tr~~VWiLDGd~~h~~LLk~al~ats~aetlviltasm  137 (473)
T KOG3905|consen   67 SLISKLQG---------SETVKKGSGLEYLYLHVHDEDRDDLTRCNVWILDGDLYHKGLLKFALPATSLAETLVILTASM  137 (473)
T ss_pred             HHHHHhhc---------ccccCCCCCcceEEEecccccchhhhhcceEEecCchhhhhHHhhcccccCccceEEEEEEec
Confidence            77777776         335566667777665432      3578999888977666666555443   2 457888999


Q ss_pred             CCccc-HHHHHHHHHHHHhC-------------------------CC---------------------------------
Q 029517           90 ACPSR-FEDSKTALEKVLRN-------------------------ED---------------------------------  110 (192)
Q Consensus        90 ~~~~s-~~~~~~~~~~i~~~-------------------------~~---------------------------------  110 (192)
                      +++.. ++.++.|..-+.+.                         .+                                 
T Consensus       138 s~Pw~~lesLqkWa~Vl~ehidkl~i~~ee~ka~rqk~~k~wQeYvep~e~~pgsp~~r~t~~~~~~de~~llPL~~dtL  217 (473)
T KOG3905|consen  138 SNPWTLLESLQKWASVLREHIDKLKIPPEEMKAGRQKLEKDWQEYVEPGEDQPGSPQRRTTVVGSSADEHVLLPLGQDTL  217 (473)
T ss_pred             CCcHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhcCccccCCCCcccccccccCccccccccccCCcch
Confidence            98843 35555554333211                         00                                 


Q ss_pred             --CCCCcEEEEEeCCCCCCC----CCH---------HHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          111 --LQGAPLLILANKQDLPDA----VSA---------DELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       111 --~~~~piiiv~nK~Dl~~~----~~~---------~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                        .-++|+++|++|+|....    .+.         ..++++|-     ..+...+.+|+|...|++-+...|+..+...
T Consensus       218 t~NlGi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lRkFCL-----r~GaaLiyTSvKE~KNidllyKYivhr~yG~  292 (473)
T KOG3905|consen  218 THNLGIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLRKFCL-----RYGAALIYTSVKETKNIDLLYKYIVHRSYGF  292 (473)
T ss_pred             hhcCCCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHHHHHH-----HcCceeEEeecccccchHHHHHHHHHHhcCc
Confidence              125889999999998431    111         12334443     5688899999999999999999999887643

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=97.74  E-value=0.00039  Score=55.86  Aligned_cols=107  Identities=15%  Similarity=0.071  Sum_probs=69.9

Q ss_pred             CEEEEEEeCCCCcccHHHHH--HhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCC----
Q 029517           55 NSKLVFWDLGGQPGLRSIWE--KYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDA----  128 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~--~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~----  128 (192)
                      +.-+.++||.||++|.....  ..-++.|-.++++.+.+..+.-.  ....-+.-.   .+.|++++.+|+|+...    
T Consensus       200 DklVsfVDtvGHEpwLrTtirGL~gqk~dYglLvVaAddG~~~~t--kEHLgi~~a---~~lPviVvvTK~D~~~ddr~~  274 (527)
T COG5258         200 DKLVSFVDTVGHEPWLRTTIRGLLGQKVDYGLLVVAADDGVTKMT--KEHLGIALA---MELPVIVVVTKIDMVPDDRFQ  274 (527)
T ss_pred             ccEEEEEecCCccHHHHHHHHHHhccccceEEEEEEccCCcchhh--hHhhhhhhh---hcCCEEEEEEecccCcHHHHH
Confidence            34588999999999876432  23467899999999887754433  333333333   47999999999998652    


Q ss_pred             CCHHHHHhHcCc--------------------cccCCcceEEEEeeecCCCCHHHHHH
Q 029517          129 VSADELARYLDL--------------------KKLDERVCMFEAVSGYDGFGIKESVE  166 (192)
Q Consensus       129 ~~~~~~~~~~~~--------------------~~~~~~~~~~~~~Sa~~~~gi~e~~~  166 (192)
                      -..+++...++.                    ...+..-.|++.+|+.+|+|++-+.+
T Consensus       275 ~v~~ei~~~Lk~v~Rip~~vk~~~d~v~aa~a~k~~~~vvPi~~tSsVTg~GldlL~e  332 (527)
T COG5258         275 GVVEEISALLKRVGRIPLIVKDTDDVVLAAKAMKAGRGVVPIFYTSSVTGEGLDLLDE  332 (527)
T ss_pred             HHHHHHHHHHHHhcccceeeeccchhHHhhhhhhcCCceEEEEEEecccCccHHHHHH
Confidence            112233333320                    01123368999999999999865443

>KOG1487 consensus GTP-binding protein DRG1 (ODN superfamily) [Signal transduction mechanisms]

Probab=97.70  E-value=6.1e-05  Score=57.35  Aligned_cols=147  Identities=20%  Similarity=0.216  Sum_probs=93.4

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcc-------cHHHHHHhhhcCCEEEE
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPG-------LRSIWEKYYEEAHAVVF   85 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~~d~ii~   85 (192)
                      |-|+.-.||+..+.+..+.++.++.++.....|+    +.++.-++++.|.||.-+       -........+.|+++++
T Consensus        67 FPSvGksTl~~~l~g~~s~vasyefttl~~vpG~----~~y~gaKiqlldlpgiiegakdgkgrg~qviavartcnli~~  142 (358)
T KOG1487|consen   67 FPSVGKSTLLSKLTGTFSEVAAYEFTTLTTVPGV----IRYKGAKIQLLDLPGIIEGAKDGKGRGKQVIAVARTCNLIFI  142 (358)
T ss_pred             cCccchhhhhhhhcCCCCccccccceeEEEecce----EeccccceeeecCcchhcccccCCCCccEEEEEeecccEEEE
Confidence            4455556777788888888888887775544444    556678899999999321       11223334577999999


Q ss_pred             EEeCCCcccHHHHHH-------------------------------------HHHHHHh-C----------CC-------
Q 029517           86 VIDAACPSRFEDSKT-------------------------------------ALEKVLR-N----------ED-------  110 (192)
Q Consensus        86 v~D~~~~~s~~~~~~-------------------------------------~~~~i~~-~----------~~-------  110 (192)
                      |.|+..+-+-..+.+                                     ....++. +          .+       
T Consensus       143 vld~~kp~~hk~~ie~eleg~girlnk~pp~i~~kkKdkgGInlt~~~LdlD~~rsil~eyR~hsAdi~Lr~DaT~DdLI  222 (358)
T KOG1487|consen  143 VLDVLKPLSHKKIIEKELEGFGIRLNKQPPNIGTKKKDKGGINLTGTHLDLDLQRSILSEYRIHSADIALRFDATADDLI  222 (358)
T ss_pred             EeeccCcccHHHHHHHhhhcceeeccCCCCCccccccccCceeeecchhhHHHHHHHHHHhhhcchheeeecCcchhhhh
Confidence            999865433222111                                     1111111 0          00       


Q ss_pred             ------CCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517          111 ------LQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus       111 ------~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                            ..-+|.+.++||+|..   +.|+..-..       ......++||-++-|++++++.+.+.+.
T Consensus       223 dvVegnr~yVp~iyvLNkIdsI---SiEELdii~-------~iphavpISA~~~wn~d~lL~~mweyL~  281 (358)
T KOG1487|consen  223 DVVEGNRIYVPCIYVLNKIDSI---SIEELDIIY-------TIPHAVPISAHTGWNFDKLLEKMWEYLK  281 (358)
T ss_pred             hhhccCceeeeeeeeeccccee---eeeccceee-------eccceeecccccccchHHHHHHHhhcch
Confidence                  0146888999999854   444443223       2567788999999999999999988654

>KOG0460 consensus Mitochondrial translation elongation factor Tu [Translation, ribosomal structure and biogenesis]

Probab=97.70  E-value=0.00011  Score=58.06  Aligned_cols=102  Identities=15%  Similarity=0.062  Sum_probs=66.4

Q ss_pred             EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC
Q 029517           51 IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVS  130 (192)
Q Consensus        51 ~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~  130 (192)
                      +.-...++-=.|+|||.+|-.....--..-|+.|+|+.++|..-.+. ++-+....+.   .-..+++++||.|+.+..+
T Consensus       112 YeTa~RhYaH~DCPGHADYIKNMItGaaqMDGaILVVaatDG~MPQT-rEHlLLArQV---GV~~ivvfiNKvD~V~d~e  187 (449)
T KOG0460|consen  112 YETAKRHYAHTDCPGHADYIKNMITGAAQMDGAILVVAATDGPMPQT-REHLLLARQV---GVKHIVVFINKVDLVDDPE  187 (449)
T ss_pred             eeccccccccCCCCchHHHHHHhhcCccccCceEEEEEcCCCCCcch-HHHHHHHHHc---CCceEEEEEecccccCCHH
Confidence            33446788889999999988766555567899999999998764433 3333333333   2357888999999874111


Q ss_pred             -----HHHHHhHcCccccCCcceEEEEeeec
Q 029517          131 -----ADELARYLDLKKLDERVCMFEAVSGY  156 (192)
Q Consensus       131 -----~~~~~~~~~~~~~~~~~~~~~~~Sa~  156 (192)
                           .-++++++..-.+..-..+++.-||.
T Consensus       188 ~leLVEmE~RElLse~gf~Gd~~PvI~GSAL  218 (449)
T KOG0460|consen  188 MLELVEMEIRELLSEFGFDGDNTPVIRGSAL  218 (449)
T ss_pred             HHHHHHHHHHHHHHHcCCCCCCCCeeecchh
Confidence                 12344444433344456778877774

>COG1162 Predicted GTPases [General function prediction only]

Probab=97.66  E-value=0.00047  Score=53.87  Aligned_cols=87  Identities=24%  Similarity=0.190  Sum_probs=58.5

Q ss_pred             hhhcCCEEEEEEeCCCcc-cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHH--HHHhHcCccccCCcceEEEE
Q 029517           76 YYEEAHAVVFVIDAACPS-RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSAD--ELARYLDLKKLDERVCMFEA  152 (192)
Q Consensus        76 ~~~~~d~ii~v~D~~~~~-s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~~~~~~~  152 (192)
                      .+.+.|-+++|+.+.+|+ +...+..++-.+..    .++.-++++||+||.+.....  +......     ..+++.+.
T Consensus        76 ~v~n~d~~iiIvs~~~P~~~~~~ldR~Lv~ae~----~gi~pvIvlnK~DL~~~~~~~~~~~~~~y~-----~~gy~v~~  146 (301)
T COG1162          76 PVANNDQAIIVVSLVDPDFNTNLLDRYLVLAEA----GGIEPVIVLNKIDLLDDEEAAVKELLREYE-----DIGYPVLF  146 (301)
T ss_pred             cccccceEEEEEeccCCCCCHHHHHHHHHHHHH----cCCcEEEEEEccccCcchHHHHHHHHHHHH-----hCCeeEEE
Confidence            344566667777666554 55555555544433    467667779999998744333  2222332     56899999


Q ss_pred             eeecCCCCHHHHHHHHHHH
Q 029517          153 VSGYDGFGIKESVEWLVEV  171 (192)
Q Consensus       153 ~Sa~~~~gi~e~~~~i~~~  171 (192)
                      +|++++.|++++.+.+...
T Consensus       147 ~s~~~~~~~~~l~~~l~~~  165 (301)
T COG1162         147 VSAKNGDGLEELAELLAGK  165 (301)
T ss_pred             ecCcCcccHHHHHHHhcCC
Confidence            9999999999998887654

>cd01900 YchF YchF subfamily

Probab=97.65  E-value=0.00011  Score=57.05  Aligned_cols=73  Identities=22%  Similarity=0.237  Sum_probs=44.2

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEE----------e---cCEEEEEEeCCCCcc-------cHHHH
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIE----------V---SNSKLVFWDLGGQPG-------LRSIW   73 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~----------~---~~~~~~i~D~~G~~~-------~~~~~   73 (192)
                      |||+||+|.+.-    ..+.+++.++..|..|.-...-.          .   -...++++|+||..+       .....
T Consensus        11 KSTLfn~Lt~~~----~~~~n~pftTi~p~~g~v~v~d~r~~~l~~~~~~~k~~~~~i~lvD~pGl~~~a~~~~glg~~f   86 (274)
T cd01900          11 KSTLFNALTKAG----AEAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASKGEGLGNKF   86 (274)
T ss_pred             HHHHHHHHhCCC----CccccccccchhceeeeEEeccchhhhHHHHhCCceeeeeEEEEEECCCcCCCCchhhHHHHHH
Confidence            888888886643    24455555555555554322110          0   012599999999421       22233


Q ss_pred             HHhhhcCCEEEEEEeCC
Q 029517           74 EKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        74 ~~~~~~~d~ii~v~D~~   90 (192)
                      ...++.+|++++|+|+.
T Consensus        87 L~~i~~~D~li~VV~~f  103 (274)
T cd01900          87 LSHIREVDAIAHVVRCF  103 (274)
T ss_pred             HHHHHhCCEEEEEEeCc
Confidence            44578899999999874

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.

>KOG0464 consensus Elongation factor G [Translation, ribosomal structure and biogenesis]

Probab=97.62  E-value=1.9e-05  Score=63.75  Aligned_cols=85  Identities=18%  Similarity=0.157  Sum_probs=65.3

Q ss_pred             EEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--
Q 029517           50 RIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--  127 (192)
Q Consensus        50 ~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--  127 (192)
                      .++.++.++.++||||+-+|+...+.+++-.||++.|+|.+..-.-+.+-.|-+     .+..++|-++++||+|...  
T Consensus        96 ~fdwkg~rinlidtpghvdf~leverclrvldgavav~dasagve~qtltvwrq-----adk~~ip~~~finkmdk~~an  170 (753)
T KOG0464|consen   96 NFDWKGHRINLIDTPGHVDFRLEVERCLRVLDGAVAVFDASAGVEAQTLTVWRQ-----ADKFKIPAHCFINKMDKLAAN  170 (753)
T ss_pred             ecccccceEeeecCCCcceEEEEHHHHHHHhcCeEEEEeccCCcccceeeeehh-----ccccCCchhhhhhhhhhhhhh
Confidence            467788999999999999999999999999999999999987654444444422     1225789999999999876  


Q ss_pred             -CCCHHHHHhHcC
Q 029517          128 -AVSADELARYLD  139 (192)
Q Consensus       128 -~~~~~~~~~~~~  139 (192)
                       ....+.+.+.++
T Consensus       171 fe~avdsi~ekl~  183 (753)
T KOG0464|consen  171 FENAVDSIEEKLG  183 (753)
T ss_pred             hhhHHHHHHHHhC
Confidence             334455555554

>KOG0465 consensus Mitochondrial elongation factor [Translation, ribosomal structure and biogenesis]

Probab=97.57  E-value=0.00034  Score=59.05  Aligned_cols=81  Identities=17%  Similarity=0.173  Sum_probs=59.2

Q ss_pred             EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC
Q 029517           51 IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVS  130 (192)
Q Consensus        51 ~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~  130 (192)
                      +.....++++.|||||-+|.-..+..++-.|+.|+|+|+...-.-+..--| ++..++    ++|.+.++||+|...+..
T Consensus        99 ~~w~~~~iNiIDTPGHvDFT~EVeRALrVlDGaVlvl~aV~GVqsQt~tV~-rQ~~ry----~vP~i~FiNKmDRmGa~~  173 (721)
T KOG0465|consen   99 FTWRDYRINIIDTPGHVDFTFEVERALRVLDGAVLVLDAVAGVESQTETVW-RQMKRY----NVPRICFINKMDRMGASP  173 (721)
T ss_pred             eeeccceeEEecCCCceeEEEEehhhhhhccCeEEEEEcccceehhhHHHH-HHHHhc----CCCeEEEEehhhhcCCCh
Confidence            445678999999999999988899999999999999998755322222222 223333    799999999999877544


Q ss_pred             HHHHHh
Q 029517          131 ADELAR  136 (192)
Q Consensus       131 ~~~~~~  136 (192)
                      ...+.+
T Consensus       174 ~~~l~~  179 (721)
T KOG0465|consen  174 FRTLNQ  179 (721)
T ss_pred             HHHHHH
Confidence            443333

>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=97.56  E-value=0.00064  Score=54.40  Aligned_cols=73  Identities=16%  Similarity=0.257  Sum_probs=49.6

Q ss_pred             EEEEEeCCCC-----------cccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCC
Q 029517           57 KLVFWDLGGQ-----------PGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDL  125 (192)
Q Consensus        57 ~~~i~D~~G~-----------~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl  125 (192)
                      ++.|+||||.           .+|......+..+||.|+++||+-..+--++....+..+...    .-.+-+|+||+|.
T Consensus       148 ~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~aLkG~----EdkiRVVLNKADq  223 (532)
T KOG1954|consen  148 SVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEFKRVIDALKGH----EDKIRVVLNKADQ  223 (532)
T ss_pred             heeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHHHHHHHHhhCC----cceeEEEeccccc
Confidence            6789999991           246667788899999999999986443334444444444333    3457788999995


Q ss_pred             CCCCCHHHHHh
Q 029517          126 PDAVSADELAR  136 (192)
Q Consensus       126 ~~~~~~~~~~~  136 (192)
                      .   +.+++.+
T Consensus       224 V---dtqqLmR  231 (532)
T KOG1954|consen  224 V---DTQQLMR  231 (532)
T ss_pred             c---CHHHHHH
Confidence            5   4455443

>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another

Probab=97.55  E-value=0.00018  Score=51.52  Aligned_cols=64  Identities=23%  Similarity=0.257  Sum_probs=44.4

Q ss_pred             EEEEEEeCCCCc----ccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCC
Q 029517           56 SKLVFWDLGGQP----GLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQ  123 (192)
Q Consensus        56 ~~~~i~D~~G~~----~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~  123 (192)
                      ..+.|+||||..    .....+..++..+|++|+|.+++...+-.....+.+.....    ...+++|.||+
T Consensus       101 ~~~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~~----~~~~i~V~nk~  168 (168)
T PF00350_consen  101 RNLTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDANQDLTESDMEFLKQMLDPD----KSRTIFVLNKA  168 (168)
T ss_dssp             CSEEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETTSTGGGHHHHHHHHHHTTT----CSSEEEEEE-G
T ss_pred             cceEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccCcccchHHHHHHHHHhcCC----CCeEEEEEcCC
Confidence            358999999953    23366788899999999999998765544444444433333    34489999985

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 ....

>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=97.53  E-value=6e-05  Score=57.53  Aligned_cols=106  Identities=22%  Similarity=0.251  Sum_probs=64.9

Q ss_pred             cCEEEEEEeCCC--CcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCC-CC
Q 029517           54 SNSKLVFWDLGG--QPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDA-VS  130 (192)
Q Consensus        54 ~~~~~~i~D~~G--~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~-~~  130 (192)
                      -++.+.|++|.|  |.+.     ....-+|.+++|.-+.-.+..+.++.-+.++         .=++|+||+|++.+ ..
T Consensus       120 aG~D~IiiETVGvGQsE~-----~I~~~aD~~v~v~~Pg~GD~iQ~~KaGimEi---------aDi~vVNKaD~~gA~~~  185 (266)
T PF03308_consen  120 AGFDVIIIETVGVGQSEV-----DIADMADTVVLVLVPGLGDEIQAIKAGIMEI---------ADIFVVNKADRPGADRT  185 (266)
T ss_dssp             TT-SEEEEEEESSSTHHH-----HHHTTSSEEEEEEESSTCCCCCTB-TTHHHH----------SEEEEE--SHHHHHHH
T ss_pred             cCCCEEEEeCCCCCccHH-----HHHHhcCeEEEEecCCCccHHHHHhhhhhhh---------ccEEEEeCCChHHHHHH
Confidence            367888888888  3322     2456799999999887666666544433332         44689999997552 12


Q ss_pred             HHHHHhHcCcccc--CCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517          131 ADELARYLDLKKL--DERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus       131 ~~~~~~~~~~~~~--~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      ..++...+.+..-  ..-..+++.+||.++.||+++.++|.+.-.
T Consensus       186 ~~~l~~~l~l~~~~~~~W~ppV~~tsA~~~~Gi~eL~~~i~~~~~  230 (266)
T PF03308_consen  186 VRDLRSMLHLLREREDGWRPPVLKTSALEGEGIDELWEAIDEHRD  230 (266)
T ss_dssp             HHHHHHHHHHCSTSCTSB--EEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhccccccCCCCCEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            2333333332111  112468999999999999999999987443

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=97.46  E-value=0.00078  Score=52.47  Aligned_cols=109  Identities=18%  Similarity=0.163  Sum_probs=69.5

Q ss_pred             cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCC-CCHH
Q 029517           54 SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDA-VSAD  132 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~-~~~~  132 (192)
                      -++.+.|++|.|--.-..   ....-+|.+++|.=+.-.+..+.++.-   +++.      -=++|+||.|+..+ ....
T Consensus       142 aG~DvIIVETVGvGQsev---~I~~~aDt~~~v~~pg~GD~~Q~iK~G---imEi------aDi~vINKaD~~~A~~a~r  209 (323)
T COG1703         142 AGYDVIIVETVGVGQSEV---DIANMADTFLVVMIPGAGDDLQGIKAG---IMEI------ADIIVINKADRKGAEKAAR  209 (323)
T ss_pred             cCCCEEEEEecCCCcchh---HHhhhcceEEEEecCCCCcHHHHHHhh---hhhh------hheeeEeccChhhHHHHHH
Confidence            467788888888432211   234569999999977766666655543   3332      23588999997652 1122


Q ss_pred             HHHhHcCccc--cC--CcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          133 ELARYLDLKK--LD--ERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       133 ~~~~~~~~~~--~~--~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      ++...+.+..  ..  .=..+++.+||.+|+|++++++.+.+...-
T Consensus       210 ~l~~al~~~~~~~~~~~W~ppv~~t~A~~g~Gi~~L~~ai~~h~~~  255 (323)
T COG1703         210 ELRSALDLLREVWRENGWRPPVVTTSALEGEGIDELWDAIEDHRKF  255 (323)
T ss_pred             HHHHHHHhhcccccccCCCCceeEeeeccCCCHHHHHHHHHHHHHH
Confidence            2222222211  11  125679999999999999999999886653

>KOG0467 consensus Translation elongation factor 2/ribosome biogenesis protein RIA1 and related proteins [Translation, ribosomal structure and biogenesis]

Probab=97.45  E-value=0.00049  Score=59.47  Aligned_cols=68  Identities=13%  Similarity=0.109  Sum_probs=50.0

Q ss_pred             ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCC
Q 029517           53 VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDL  125 (192)
Q Consensus        53 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl  125 (192)
                      .+++.+++.|+|||-+|........+-||+++.++|+...-.-+.. ..+++...    .+...++|+||+|.
T Consensus        69 ~~~~~~nlidspghvdf~sevssas~l~d~alvlvdvvegv~~qt~-~vlrq~~~----~~~~~~lvinkidr  136 (887)
T KOG0467|consen   69 HKDYLINLIDSPGHVDFSSEVSSASRLSDGALVLVDVVEGVCSQTY-AVLRQAWI----EGLKPILVINKIDR  136 (887)
T ss_pred             cCceEEEEecCCCccchhhhhhhhhhhcCCcEEEEeeccccchhHH-HHHHHHHH----ccCceEEEEehhhh
Confidence            3688999999999999999999999999999999998644222221 11222211    35667889999994

>KOG2486 consensus Predicted GTPase [General function prediction only]

Probab=97.44  E-value=0.00026  Score=54.43  Aligned_cols=145  Identities=14%  Similarity=0.104  Sum_probs=81.1

Q ss_pred             hhccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCC----------CcccHHHHHHhhhcC-
Q 029517           12 IFTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGG----------QPGLRSIWEKYYEEA-   80 (192)
Q Consensus        12 ~~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G----------~~~~~~~~~~~~~~~-   80 (192)
                      +-||+++|.++.+.-....     ......-|..+++..+   +-++.+.|.||          -.++......|+.+- 
T Consensus       147 VGKSSLln~~~r~k~~~~t-----~k~K~g~Tq~in~f~v---~~~~~~vDlPG~~~a~y~~~~~~d~~~~t~~Y~leR~  218 (320)
T KOG2486|consen  147 VGKSSLLNDLVRVKNIADT-----SKSKNGKTQAINHFHV---GKSWYEVDLPGYGRAGYGFELPADWDKFTKSYLLERE  218 (320)
T ss_pred             ccHHHHHhhhhhhhhhhhh-----cCCCCccceeeeeeec---cceEEEEecCCcccccCCccCcchHhHhHHHHHHhhh
Confidence            6789999988865443211     1112334444444443   34889999999          224555666666543 


Q ss_pred             --CEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCC------CCHHHHHhHcC-c-cccCCcceEE
Q 029517           81 --HAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDA------VSADELARYLD-L-KKLDERVCMF  150 (192)
Q Consensus        81 --d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~------~~~~~~~~~~~-~-~~~~~~~~~~  150 (192)
                        -.+.+.+|++.+  ++........++..   .+.|+.+|.||+|....      .....+...+. + ...-....+|
T Consensus       219 nLv~~FLLvd~sv~--i~~~D~~~i~~~ge---~~VP~t~vfTK~DK~k~~~~~~kKp~~~i~~~f~~l~~~~f~~~~Pw  293 (320)
T KOG2486|consen  219 NLVRVFLLVDASVP--IQPTDNPEIAWLGE---NNVPMTSVFTKCDKQKKVKRTGKKPGLNIKINFQGLIRGVFLVDLPW  293 (320)
T ss_pred             hhheeeeeeeccCC--CCCCChHHHHHHhh---cCCCeEEeeehhhhhhhccccccCccccceeehhhccccceeccCCc
Confidence              334455566533  11111222223333   47999999999997541      11122222111 1 1112335678


Q ss_pred             EEeeecCCCCHHHHHHHHH
Q 029517          151 EAVSGYDGFGIKESVEWLV  169 (192)
Q Consensus       151 ~~~Sa~~~~gi~e~~~~i~  169 (192)
                      +.+|+.++.|++++.-.+.
T Consensus       294 ~~~Ssvt~~Grd~Ll~~i~  312 (320)
T KOG2486|consen  294 IYVSSVTSLGRDLLLLHIA  312 (320)
T ss_pred             eeeecccccCceeeeeehh
Confidence            8899999999998876554

>KOG0705 consensus GTPase-activating protein Centaurin gamma (contains Ras-like GTPase, PH and ankyrin repeat domains) [Signal transduction mechanisms]

Probab=97.43  E-value=0.001  Score=55.70  Aligned_cols=123  Identities=15%  Similarity=0.354  Sum_probs=89.3

Q ss_pred             EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCC----C
Q 029517           51 IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDL----P  126 (192)
Q Consensus        51 ~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl----~  126 (192)
                      ..+...-+.+.|.+|...     ..|....|++|||+...+..+|+.+..+...+..+.....+|+++++++.-.    +
T Consensus        72 v~gqs~lLlirdeg~~~~-----aQft~wvdavIfvf~~~d~~s~q~v~~l~~~l~~~r~r~~i~l~lvgtqd~iS~~~~  146 (749)
T KOG0705|consen   72 VDGQSHLLLIRDEGGHPD-----AQFCQWVDAVVFVFSVEDEQSFQAVQALAHEMSSYRNISDLPLILVGTQDHISAKRP  146 (749)
T ss_pred             eeccceEeeeecccCCch-----hhhhhhccceEEEEEeccccCHHHHHHHHhhcccccccccchHHhhcCcchhhcccc
Confidence            334556678888888443     2467889999999999999999999888877776554567899999988643    2


Q ss_pred             CCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhcchhhhhh
Q 029517          127 DAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSKRTEMLR  182 (192)
Q Consensus       127 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~~~~~~~~  182 (192)
                      +........+.+.    ....+.+|+++|..|.++...|..+...+....+.+...
T Consensus       147 rv~~da~~r~l~~----~~krcsy~et~atyGlnv~rvf~~~~~k~i~~~~~qq~~  198 (749)
T KOG0705|consen  147 RVITDDRARQLSA----QMKRCSYYETCATYGLNVERVFQEVAQKIVQLRKYQQLP  198 (749)
T ss_pred             cccchHHHHHHHH----hcCccceeecchhhhhhHHHHHHHHHHHHHHHHhhhhcc
Confidence            2333334443333    255788999999999999999999988776554444433

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=97.42  E-value=0.00027  Score=51.24  Aligned_cols=43  Identities=26%  Similarity=0.252  Sum_probs=27.6

Q ss_pred             CEEEEEEeCCCcccHHHHHHHHHHH-HhCCCCCCCcEEEEEeCCCCCC
Q 029517           81 HAVVFVIDAACPSRFEDSKTALEKV-LRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        81 d~ii~v~D~~~~~s~~~~~~~~~~i-~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      |++++|+|+.++.+-.. ..+.+.+ ...   .+.|+++|+||+|+.+
T Consensus         1 DvVl~VvDar~p~~~~~-~~i~~~~~l~~---~~kp~IlVlNK~DL~~   44 (172)
T cd04178           1 DVILEVLDARDPLGCRC-PQVEEAVLQAG---GNKKLVLVLNKIDLVP   44 (172)
T ss_pred             CEEEEEEECCCCCCCCC-HHHHHHHHhcc---CCCCEEEEEehhhcCC
Confidence            78999999987632211 1222221 222   3689999999999964

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

>COG1161 Predicted GTPases [General function prediction only]

Probab=97.42  E-value=0.00041  Score=55.33  Aligned_cols=97  Identities=23%  Similarity=0.235  Sum_probs=67.6

Q ss_pred             eCCCCc-ccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCc
Q 029517           62 DLGGQP-GLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDL  140 (192)
Q Consensus        62 D~~G~~-~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~  140 (192)
                      +.||+. ++.......+..+|+++-|+|+.++.+-..  ..+..+..     +.|.++|+||+|+......+++.+++. 
T Consensus        16 ~~~g~~~k~~~~~~~~~~~~d~vvevvDar~P~~s~~--~~l~~~v~-----~k~~i~vlNK~DL~~~~~~~~W~~~~~-   87 (322)
T COG1161          16 WFPGHMKKAKRQLKEVLKSVDVVVEVVDARDPLGTRN--PELERIVK-----EKPKLLVLNKADLAPKEVTKKWKKYFK-   87 (322)
T ss_pred             CCCCchHHHHHHHHHhcccCCEEEEEEeccccccccC--ccHHHHHc-----cCCcEEEEehhhcCCHHHHHHHHHHHH-
Confidence            347764 677788888999999999999998853322  33333332     355599999999987555666777766 


Q ss_pred             cccCCcceEEEEeeecCCCCHHHHHHHHH
Q 029517          141 KKLDERVCMFEAVSGYDGFGIKESVEWLV  169 (192)
Q Consensus       141 ~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~  169 (192)
                         ...+...+.++++.+.+...+..++.
T Consensus        88 ---~~~~~~~~~v~~~~~~~~~~i~~~~~  113 (322)
T COG1161          88 ---KEEGIKPIFVSAKSRQGGKKIRKALE  113 (322)
T ss_pred             ---hcCCCccEEEEeecccCccchHHHHH
Confidence               12256677888888887777765433

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=97.39  E-value=0.00046  Score=53.99  Aligned_cols=109  Identities=15%  Similarity=0.167  Sum_probs=52.2

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEec--CEEEEEEeCCCCcc-------cHH-------HHH
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEVS--NSKLVFWDLGGQPG-------LRS-------IWE   74 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~~--~~~~~i~D~~G~~~-------~~~-------~~~   74 (192)
                      =|||++|+|++............+.....+|..+....  +...  .+.+.|+||||-.+       +..       ...
T Consensus        16 GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~l~LtiiDTpGfGd~i~n~~~~~~I~~yI~~qf~   95 (281)
T PF00735_consen   16 GKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEERTVELEENGVKLNLTIIDTPGFGDNIDNSDCWEPIVDYIESQFD   95 (281)
T ss_dssp             SHHHHHHHHHTSS---------S------SCEEEEEEEEEEEETCEEEEEEEEEEC-CSSSSTHCHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHhcccccccccccccccccccccceeeEEEEeccCCcceEEEEEeCCCccccccchhhhHHHHHHHHHHHH
Confidence            38999999987543321111111112333444444332  3322  46899999999221       111       111


Q ss_pred             Hhh-------------hcCCEEEEEEeCCCcccHHHHH-HHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           75 KYY-------------EEAHAVVFVIDAACPSRFEDSK-TALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        75 ~~~-------------~~~d~ii~v~D~~~~~s~~~~~-~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      .++             ...++++++++++... +..+. +.++.+.     ...++|-|+.|+|...
T Consensus        96 ~~l~eE~~~~R~~~~D~RVH~cLYfI~pt~~~-L~~~Di~~mk~Ls-----~~vNvIPvIaKaD~lt  156 (281)
T PF00735_consen   96 SYLEEESKINRPRIEDTRVHACLYFIPPTGHG-LKPLDIEFMKRLS-----KRVNVIPVIAKADTLT  156 (281)
T ss_dssp             HHHHHHTSSS-TTS----EEEEEEEE-TTSSS-S-HHHHHHHHHHT-----TTSEEEEEESTGGGS-
T ss_pred             HHHHHhhcccccCcCCCCcceEEEEEcCCCcc-chHHHHHHHHHhc-----ccccEEeEEecccccC
Confidence            122             1358999999987532 22211 2333332     3478999999999754

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.

>smart00053 DYNc Dynamin, GTPase

Probab=97.38  E-value=0.0014  Score=50.04  Aligned_cols=78  Identities=19%  Similarity=0.224  Sum_probs=49.4

Q ss_pred             EEEEEEeCCCCcc-------------cHHHHHHhhhc-CCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEe
Q 029517           56 SKLVFWDLGGQPG-------------LRSIWEKYYEE-AHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILAN  121 (192)
Q Consensus        56 ~~~~i~D~~G~~~-------------~~~~~~~~~~~-~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~n  121 (192)
                      .++.++|+||-..             ...+...|+++ .+.+++|+|+...-.-.......+.+..    ...|+++|+|
T Consensus       125 ~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia~~ld~----~~~rti~ViT  200 (240)
T smart00053      125 LNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDALKLAKEVDP----QGERTIGVIT  200 (240)
T ss_pred             CceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHHHHHHH----cCCcEEEEEE
Confidence            5899999999531             22356678885 4588999988643222222233333322    4689999999


Q ss_pred             CCCCCCCCCHHHHHhHcC
Q 029517          122 KQDLPDAVSADELARYLD  139 (192)
Q Consensus       122 K~Dl~~~~~~~~~~~~~~  139 (192)
                      |.|..+..  .++.+.++
T Consensus       201 K~D~~~~~--~~~~~~~~  216 (240)
T smart00053      201 KLDLMDEG--TDARDILE  216 (240)
T ss_pred             CCCCCCcc--HHHHHHHh
Confidence            99987532  22566555

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=97.36  E-value=0.003  Score=54.57  Aligned_cols=108  Identities=10%  Similarity=0.003  Sum_probs=58.9

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccH------H----HHHHhhh--cC
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLR------S----IWEKYYE--EA   80 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~------~----~~~~~~~--~~   80 (192)
                      =|||++|+|+++-......       ....|...........+..+.|+||||.....      .    ....++.  .+
T Consensus       130 GKSSLINSILGekvf~vss-------~~~~TTr~~ei~~~idG~~L~VIDTPGL~dt~~dq~~neeILk~Ik~~Lsk~gp  202 (763)
T TIGR00993       130 GKSATINSIFGEVKFSTDA-------FGMGTTSVQEIEGLVQGVKIRVIDTPGLKSSASDQSKNEKILSSVKKFIKKNPP  202 (763)
T ss_pred             CHHHHHHHHhccccccccC-------CCCCceEEEEEEEEECCceEEEEECCCCCccccchHHHHHHHHHHHHHHhcCCC
Confidence            3899999999874332111       11223322222223356789999999955321      1    1222444  47


Q ss_pred             CEEEEEEeCCCcccHHHHHHHHHHHHhCCCC-CCCcEEEEEeCCCCCC
Q 029517           81 HAVVFVIDAACPSRFEDSKTALEKVLRNEDL-QGAPLLILANKQDLPD  127 (192)
Q Consensus        81 d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~-~~~piiiv~nK~Dl~~  127 (192)
                      |++|+|..+.....-.+-..+++.+...... .-..+||+.|+.|...
T Consensus       203 DVVLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~tIVVFThgD~lp  250 (763)
T TIGR00993       203 DIVLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFNAIVTLTHAASAP  250 (763)
T ss_pred             CEEEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcCEEEEEeCCccCC
Confidence            8999998765332211222344444433211 1257889999999764

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.

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=97.35  E-value=0.0015  Score=52.25  Aligned_cols=109  Identities=17%  Similarity=0.282  Sum_probs=62.3

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEec--CEEEEEEeCCCCccc---HHH-----------HH
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEVS--NSKLVFWDLGGQPGL---RSI-----------WE   74 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~~--~~~~~i~D~~G~~~~---~~~-----------~~   74 (192)
                      =|||++|+|+++.........+.......||+.+....  +..+  .+.+.+.||||--++   ...           ..
T Consensus        35 GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~~~l~vIDtpGfGD~idNs~~we~I~~yI~~q~d  114 (373)
T COG5019          35 GKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTPGFGDFIDNSKCWEPIVDYIDDQFD  114 (373)
T ss_pred             chhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecCCeEEEEEEeccCCccccccccccHHHHHHHHHHHHH
Confidence            48999999998833211111122223356777777665  3333  457999999993211   111           22


Q ss_pred             Hhhh--------------cCCEEEEEEeCCCcccHHHHH-HHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           75 KYYE--------------EAHAVVFVIDAACPSRFEDSK-TALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        75 ~~~~--------------~~d~ii~v~D~~~~~s~~~~~-~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      .|+.              ..+|+++.+.++... +..+. +.++.+.+     ..-+|-|+-|+|...
T Consensus       115 ~yl~~E~~~~R~~~~~D~RVH~cLYFI~Ptgh~-l~~~DIe~Mk~ls~-----~vNlIPVI~KaD~lT  176 (373)
T COG5019         115 QYLDEEQKIKRNPKFKDTRVHACLYFIRPTGHG-LKPLDIEAMKRLSK-----RVNLIPVIAKADTLT  176 (373)
T ss_pred             HHHHHhhccccccccccCceEEEEEEecCCCCC-CCHHHHHHHHHHhc-----ccCeeeeeeccccCC
Confidence            2321              368999999887432 33321 33344432     356788889999754

>KOG0459 consensus Polypeptide release factor 3 [Translation, ribosomal structure and biogenesis]

Probab=97.35  E-value=0.00039  Score=56.12  Aligned_cols=122  Identities=23%  Similarity=0.214  Sum_probs=79.0

Q ss_pred             CCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHH-------HHHHHHHHHhCCCCCC
Q 029517           41 VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFED-------SKTALEKVLRNEDLQG  113 (192)
Q Consensus        41 ~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~-------~~~~~~~i~~~~~~~~  113 (192)
                      ..|++.....+.-...++.|.|.|||..|-...-.-..++|..++|+.+...+ |+.       .++-.......   .-
T Consensus       142 gKtvEvGrA~FEte~~~ftiLDApGHk~fv~nmI~GasqAD~~vLvisar~ge-fetgFerGgQTREha~Lakt~---gv  217 (501)
T KOG0459|consen  142 GKTVEVGRAYFETENKRFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGE-FETGFEKGGQTREHAMLAKTA---GV  217 (501)
T ss_pred             cceeeeeeEEEEecceeEEeeccCcccccchhhccccchhhhhhhhhhhhhch-hhcccccccchhHHHHHHHhh---cc
Confidence            56777777778878889999999999988765555567789999999874322 221       11111111111   34


Q ss_pred             CcEEEEEeCCCCCCCC----CHHHHHhHcC-----ccccCCcceEEEEeeecCCCCHHHHHH
Q 029517          114 APLLILANKQDLPDAV----SADELARYLD-----LKKLDERVCMFEAVSGYDGFGIKESVE  166 (192)
Q Consensus       114 ~piiiv~nK~Dl~~~~----~~~~~~~~~~-----~~~~~~~~~~~~~~Sa~~~~gi~e~~~  166 (192)
                      ...++++||+|-+...    -.++..+.+.     +.........++++|..+|.++.+..+
T Consensus       218 ~~lVv~vNKMddPtvnWs~eRy~E~~~k~~~fLr~~g~n~~~d~~f~p~sg~tG~~~k~~~~  279 (501)
T KOG0459|consen  218 KHLIVLINKMDDPTVNWSNERYEECKEKLQPFLRKLGFNPKPDKHFVPVSGLTGANVKDRTD  279 (501)
T ss_pred             ceEEEEEEeccCCccCcchhhHHHHHHHHHHHHHHhcccCCCCceeeecccccccchhhccc
Confidence            6899999999987622    2223222222     111123467799999999999998764

>KOG2484 consensus GTPase [General function prediction only]

Probab=97.14  E-value=0.0006  Score=54.87  Aligned_cols=75  Identities=23%  Similarity=0.269  Sum_probs=50.5

Q ss_pred             EEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHH--HHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhH
Q 029517           60 FWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE--DSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARY  137 (192)
Q Consensus        60 i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~--~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~  137 (192)
                      .|+-.....|.......+..+|+||.|.|+.||.+=.  ++.++   +++..  .+...|+|+||+|+......+++..+
T Consensus       127 ~~~~~s~kaY~ke~rkvve~sDVVleVlDARDPlgtR~~~vE~~---V~~~~--gnKkLILVLNK~DLVPrEv~e~Wl~Y  201 (435)
T KOG2484|consen  127 LDNEESKKAYDKEFRKVVEASDVVLEVLDARDPLGTRCPEVEEA---VLQAH--GNKKLILVLNKIDLVPREVVEKWLVY  201 (435)
T ss_pred             ccchhhHHHHHHHHHHHHhhhheEEEeeeccCCCCCCChhHHHH---HHhcc--CCceEEEEeehhccCCHHHHHHHHHH
Confidence            3333334456667777788999999999999885432  23333   22221  34899999999999865555666666


Q ss_pred             cC
Q 029517          138 LD  139 (192)
Q Consensus       138 ~~  139 (192)
                      +.
T Consensus       202 Lr  203 (435)
T KOG2484|consen  202 LR  203 (435)
T ss_pred             HH
Confidence            65

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=97.10  E-value=0.00047  Score=50.40  Aligned_cols=101  Identities=19%  Similarity=0.115  Sum_probs=60.9

Q ss_pred             EEEEEEeCCCCcccHHHHHHhhhcCC-EEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCH--H
Q 029517           56 SKLVFWDLGGQPGLRSIWEKYYEEAH-AVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSA--D  132 (192)
Q Consensus        56 ~~~~i~D~~G~~~~~~~~~~~~~~~d-~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~--~  132 (192)
                      ..+.|.+.+|.-.  ....  +.-.| .-|+|+|.+..+..-+         +....--..=++|+||.|+...+..  +
T Consensus        97 ~Dll~iEs~GNL~--~~~s--p~L~d~~~v~VidvteGe~~P~---------K~gP~i~~aDllVInK~DLa~~v~~dle  163 (202)
T COG0378          97 LDLLFIESVGNLV--CPFS--PDLGDHLRVVVIDVTEGEDIPR---------KGGPGIFKADLLVINKTDLAPYVGADLE  163 (202)
T ss_pred             CCEEEEecCccee--cccC--cchhhceEEEEEECCCCCCCcc---------cCCCceeEeeEEEEehHHhHHHhCccHH
Confidence            4666777777210  0001  11134 6788888886642221         1000001245789999999874333  5


Q ss_pred             HHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517          133 ELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                      ...+.++.   -....+++++|+++|+|++++++|+....
T Consensus       164 vm~~da~~---~np~~~ii~~n~ktg~G~~~~~~~i~~~~  200 (202)
T COG0378         164 VMARDAKE---VNPEAPIIFTNLKTGEGLDEWLRFIEPQA  200 (202)
T ss_pred             HHHHHHHH---hCCCCCEEEEeCCCCcCHHHHHHHHHhhc
Confidence            55444441   14578999999999999999999987643

>KOG1424 consensus Predicted GTP-binding protein MMR1 [General function prediction only]

Probab=97.09  E-value=0.0012  Score=54.79  Aligned_cols=77  Identities=25%  Similarity=0.333  Sum_probs=55.8

Q ss_pred             HHHHHHhhhcCCEEEEEEeCCCcccHH--HHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcc
Q 029517           70 RSIWEKYYEEAHAVVFVIDAACPSRFE--DSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERV  147 (192)
Q Consensus        70 ~~~~~~~~~~~d~ii~v~D~~~~~s~~--~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~  147 (192)
                      +.+|. .+..+|.||.++|+.++--|.  .+..++..+.     ..+..+++.||+||........+.+++.     .++
T Consensus       166 RQLWR-VlErSDivvqIVDARnPllfr~~dLe~Yvke~d-----~~K~~~LLvNKaDLl~~~qr~aWa~YF~-----~~n  234 (562)
T KOG1424|consen  166 RQLWR-VLERSDIVVQIVDARNPLLFRSPDLEDYVKEVD-----PSKANVLLVNKADLLPPEQRVAWAEYFR-----QNN  234 (562)
T ss_pred             HHHHH-HHhhcceEEEEeecCCccccCChhHHHHHhccc-----cccceEEEEehhhcCCHHHHHHHHHHHH-----hcC
Confidence            44453 578999999999999885442  3334433332     3477899999999987655667777776     667


Q ss_pred             eEEEEeeecC
Q 029517          148 CMFEAVSGYD  157 (192)
Q Consensus       148 ~~~~~~Sa~~  157 (192)
                      ++++.-||..
T Consensus       235 i~~vf~SA~~  244 (562)
T KOG1424|consen  235 IPVVFFSALA  244 (562)
T ss_pred             ceEEEEeccc
Confidence            8999899877

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=97.04  E-value=0.00076  Score=52.74  Aligned_cols=56  Identities=21%  Similarity=0.238  Sum_probs=40.6

Q ss_pred             CCcEEEEEeCCCCCCCC--CHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHH
Q 029517          113 GAPLLILANKQDLPDAV--SADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEV  171 (192)
Q Consensus       113 ~~piiiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~  171 (192)
                      ..+-++++||+|+....  +.+.+.+.+..   -....+++++||++|+|++++.+||.++
T Consensus       230 ~~ADIVVLNKiDLl~~~~~dle~~~~~lr~---lnp~a~I~~vSA~tGeGld~L~~~L~~~  287 (290)
T PRK10463        230 AAASLMLLNKVDLLPYLNFDVEKCIACARE---VNPEIEIILISATSGEGMDQWLNWLETQ  287 (290)
T ss_pred             hcCcEEEEEhHHcCcccHHHHHHHHHHHHh---hCCCCcEEEEECCCCCCHHHHHHHHHHh
Confidence            35678999999997532  23344444331   1346789999999999999999999763

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=96.99  E-value=0.0099  Score=43.06  Aligned_cols=78  Identities=28%  Similarity=0.354  Sum_probs=54.6

Q ss_pred             cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHH
Q 029517           54 SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADE  133 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~  133 (192)
                      ..+.+.|+|+|+....  .....+..+|.+++++.++ ..+...+...++.+.+.    +.|+.+|+||.|.... ..++
T Consensus        91 ~~~d~viiDtpp~~~~--~~~~~l~~aD~vliv~~~~-~~~~~~~~~~~~~l~~~----~~~~~vV~N~~~~~~~-~~~~  162 (179)
T cd03110          91 EGAELIIIDGPPGIGC--PVIASLTGADAALLVTEPT-PSGLHDLERAVELVRHF----GIPVGVVINKYDLNDE-IAEE  162 (179)
T ss_pred             cCCCEEEEECcCCCcH--HHHHHHHcCCEEEEEecCC-cccHHHHHHHHHHHHHc----CCCEEEEEeCCCCCcc-hHHH
Confidence            4678999999976432  3345678899999999987 44667777776655443    4678899999997543 3345


Q ss_pred             HHhHcC
Q 029517          134 LARYLD  139 (192)
Q Consensus       134 ~~~~~~  139 (192)
                      +.++++
T Consensus       163 ~~~~~~  168 (179)
T cd03110         163 IEDYCE  168 (179)
T ss_pred             HHHHHH
Confidence            555554

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>KOG1547 consensus Septin CDC10 and related P-loop GTPases [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms; Cytoskeleton]

Probab=96.89  E-value=0.014  Score=44.30  Aligned_cols=137  Identities=17%  Similarity=0.192  Sum_probs=72.0

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEecC--EEEEEEeCCCCccc---HHHH-----------H
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEVSN--SKLVFWDLGGQPGL---RSIW-----------E   74 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~~~--~~~~i~D~~G~~~~---~~~~-----------~   74 (192)
                      =|||+.|||+.....-. ..++..-..++.|+.+....  +..++  .++.+.||||-.+.   ...|           .
T Consensus        58 gkstlinTlf~s~v~~~-s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTPGfGDqInN~ncWePI~kyIneQye  136 (336)
T KOG1547|consen   58 GKSTLINTLFKSHVSDS-SSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTPGFGDQINNDNCWEPIEKYINEQYE  136 (336)
T ss_pred             CchhhHHHHHHHHHhhc-cCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCCCcccccCccchhHHHHHHHHHHHH
Confidence            37889999885443311 11122223445565554432  44444  47889999993211   1112           2


Q ss_pred             Hhhh--------------cCCEEEEEEeCCCcccHHHHH-HHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcC
Q 029517           75 KYYE--------------EAHAVVFVIDAACPSRFEDSK-TALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLD  139 (192)
Q Consensus        75 ~~~~--------------~~d~ii~v~D~~~~~s~~~~~-~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~  139 (192)
                      .|++              ..+|+++.+.++. .++..+. +.++.+.+.     .-++-|+-|+|-....+..++.+...
T Consensus       137 ~yL~eElni~R~kripDTRVHcclyFi~ptG-hsLrplDieflkrLt~v-----vNvvPVIakaDtlTleEr~~FkqrI~  210 (336)
T KOG1547|consen  137 QYLREELNIAREKRIPDTRVHCCLYFIPPTG-HSLRPLDIEFLKRLTEV-----VNVVPVIAKADTLTLEERSAFKQRIR  210 (336)
T ss_pred             HHHHHHHhHHhhhcCCCceEEEEEEEeCCCC-CccCcccHHHHHHHhhh-----heeeeeEeecccccHHHHHHHHHHHH
Confidence            2222              3688999998873 3343332 233333332     45777888999665444444444443


Q ss_pred             ccccCCcceEEEEeeecC
Q 029517          140 LKKLDERVCMFEAVSGYD  157 (192)
Q Consensus       140 ~~~~~~~~~~~~~~Sa~~  157 (192)
                       +++..+++.+|+-.+.+
T Consensus       211 -~el~~~~i~vYPq~~fd  227 (336)
T KOG1547|consen  211 -KELEKHGIDVYPQDSFD  227 (336)
T ss_pred             -HHHHhcCcccccccccc
Confidence             12225566666665544

>KOG2655 consensus Septin family protein (P-loop GTPase) [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton; Intracellular trafficking, secretion, and vesicular transport]

Probab=96.89  E-value=0.017  Score=46.44  Aligned_cols=109  Identities=18%  Similarity=0.224  Sum_probs=60.8

Q ss_pred             hhccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEE--Eec--CEEEEEEeCCCCcc-------c-------HHHH
Q 029517           12 IFTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRI--EVS--NSKLVFWDLGGQPG-------L-------RSIW   73 (192)
Q Consensus        12 ~~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~--~~~--~~~~~i~D~~G~~~-------~-------~~~~   73 (192)
                      +-|||++|+|+.+-......++ ........|..+.....  ..+  .+++.+.||||--+       +       ....
T Consensus        32 lGKsTfiNsLf~~~l~~~~~~~-~~~~~~~~t~~i~~~~~~iee~g~~l~LtvidtPGfGD~vdns~~w~pi~~yi~~q~  110 (366)
T KOG2655|consen   32 LGKSTFINSLFLTDLSGNREVP-GASERIKETVEIESTKVEIEENGVKLNLTVIDTPGFGDAVDNSNCWRPIVNYIDSQF  110 (366)
T ss_pred             ccHHHHHHHHHhhhccCCcccC-CcccCccccceeeeeeeeecCCCeEEeeEEeccCCCcccccccccchhhhHHHHHHH
Confidence            4589999999877333222221 12223333566655543  223  46799999999221       1       1122


Q ss_pred             HHhhh-------------cCCEEEEEEeCCCcccHHHHH-HHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           74 EKYYE-------------EAHAVVFVIDAACPSRFEDSK-TALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        74 ~~~~~-------------~~d~ii~v~D~~~~~s~~~~~-~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      ..|+.             ..+|+++.+.++... +..+. +.++.+.     ....+|-|+-|+|...
T Consensus       111 ~~yl~~E~~~~R~~~~D~RVH~cLYFI~P~ghg-L~p~Di~~Mk~l~-----~~vNiIPVI~KaD~lT  172 (366)
T KOG2655|consen  111 DQYLDEESRLNRSKIKDNRVHCCLYFISPTGHG-LKPLDIEFMKKLS-----KKVNLIPVIAKADTLT  172 (366)
T ss_pred             HHHHhhhccCCcccccCCceEEEEEEeCCCCCC-CcHhhHHHHHHHh-----ccccccceeeccccCC
Confidence            23331             468999999887432 22221 2333332     3567888899999764

>TIGR00092 GTP-binding protein YchF

Probab=96.84  E-value=0.0039  Score=50.46  Aligned_cols=75  Identities=20%  Similarity=0.210  Sum_probs=50.3

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEE----------E---ecCEEEEEEeCCCCc-------ccHHH
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRI----------E---VSNSKLVFWDLGGQP-------GLRSI   72 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~----------~---~~~~~~~i~D~~G~~-------~~~~~   72 (192)
                      =|||+||+|.+...+   ..++++.++..|..|+-...-          .   .....+++.|+||.-       .....
T Consensus        14 GKSTlfnaLT~~~~~---~~a~ypftTi~p~~g~v~v~d~r~d~L~~~~~~~~~~~a~i~~~DiaGlv~gAs~g~Glgn~   90 (368)
T TIGR00092        14 GKSTLFAATTNLLGN---EAANPPFTTIEPNAGVVNPSDPRLDLLAIYIKPEKVPPTTTEFVDIAGLVGGASKGEGLGNQ   90 (368)
T ss_pred             ChHHHHHHHhCCCcc---ccCCCCCCCCCCceeEEEechhHHHHHHHHhCCcCcCCceEEEEeccccccchhcccCcchH
Confidence            378888888655321   455777777777777643321          1   123478999999943       23445


Q ss_pred             HHHhhhcCCEEEEEEeCC
Q 029517           73 WEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        73 ~~~~~~~~d~ii~v~D~~   90 (192)
                      ....++.+|++++|+|+.
T Consensus        91 fL~~ir~~d~l~hVvr~f  108 (368)
T TIGR00092        91 FLANIREVDIIQHVVRCF  108 (368)
T ss_pred             HHHHHHhCCEEEEEEeCC
Confidence            666789999999999985

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.

>KOG0447 consensus Dynamin-like GTP binding protein [General function prediction only]

Probab=96.83  E-value=0.044  Score=46.43  Aligned_cols=100  Identities=18%  Similarity=0.329  Sum_probs=65.6

Q ss_pred             EEecCE-EEEEEeCCCC-------------cccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcE
Q 029517           51 IEVSNS-KLVFWDLGGQ-------------PGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL  116 (192)
Q Consensus        51 ~~~~~~-~~~i~D~~G~-------------~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~pi  116 (192)
                      +.+.+. ++.++|.||-             +....+...|+.+.++||+|+--   .|.+.=+..+..+...++..+...
T Consensus       406 VKGPgLqRMVLVDLPGvIsTvT~dMA~dTKd~I~~msKayM~NPNAIILCIQD---GSVDAERSnVTDLVsq~DP~GrRT  482 (980)
T KOG0447|consen  406 VKGPGLQRMVLVDLPGVINTVTSGMAPDTKETIFSISKAYMQNPNAIILCIQD---GSVDAERSIVTDLVSQMDPHGRRT  482 (980)
T ss_pred             ecCCCcceeEEecCCchhhhhcccccccchHHHHHHHHHHhcCCCeEEEEecc---CCcchhhhhHHHHHHhcCCCCCee
Confidence            444454 7899999991             23345678899999999999942   223332344455555566678899


Q ss_pred             EEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEe
Q 029517          117 LILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAV  153 (192)
Q Consensus       117 iiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~  153 (192)
                      |+|++|.|+.+  .-++..+.+.+.-+.+.-....||.+
T Consensus       483 IfVLTKVDlAEknlA~PdRI~kIleGKLFPMKALGYfaV  521 (980)
T KOG0447|consen  483 IFVLTKVDLAEKNVASPSRIQQIIEGKLFPMKALGYFAV  521 (980)
T ss_pred             EEEEeecchhhhccCCHHHHHHHHhcCccchhhcceeEE
Confidence            99999999987  34667788777633333333444444

>KOG1143 consensus Predicted translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=96.66  E-value=0.012  Score=47.52  Aligned_cols=108  Identities=20%  Similarity=0.282  Sum_probs=66.0

Q ss_pred             EEEEEEeCCCCcccHHHHHHhhh--cCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHH-
Q 029517           56 SKLVFWDLGGQPGLRSIWEKYYE--EAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSAD-  132 (192)
Q Consensus        56 ~~~~i~D~~G~~~~~~~~~~~~~--~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~-  132 (192)
                      --+.+.|.+|+.+|......-+.  ..+++.+|+.+...-.+.. ++-+- +...   -++|+.++.+|+|+.+.-..+ 
T Consensus       249 KlvTfiDLAGh~kY~~TTi~gLtgY~Ph~A~LvVsA~~Gi~~tT-rEHLg-l~~A---L~iPfFvlvtK~Dl~~~~~~~~  323 (591)
T KOG1143|consen  249 KLVTFIDLAGHAKYQKTTIHGLTGYTPHFACLVVSADRGITWTT-REHLG-LIAA---LNIPFFVLVTKMDLVDRQGLKK  323 (591)
T ss_pred             ceEEEeecccchhhheeeeeecccCCCceEEEEEEcCCCCcccc-HHHHH-HHHH---hCCCeEEEEEeeccccchhHHH
Confidence            35889999999988765433332  2678888888765544432 12222 2222   379999999999996521111 


Q ss_pred             ---HHHhHcCc---------------------cccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517          133 ---ELARYLDL---------------------KKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus       133 ---~~~~~~~~---------------------~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                         ++.+.+..                     +....+-.++|.+|+..|+|++-+...+
T Consensus       324 tv~~l~nll~~~Gc~kvp~~Vt~~ddAv~Aaq~~~s~nivPif~vSsVsGegl~ll~~fL  383 (591)
T KOG1143|consen  324 TVKDLSNLLAKAGCTKVPKRVTTKDDAVKAAQELCSGNIVPIFAVSSVSGEGLRLLRTFL  383 (591)
T ss_pred             HHHHHHHHHhhcCccccceEeechHHHHHHHHHhccCCceeEEEEeecCccchhHHHHHH
Confidence               11111110                     0112456889999999999987665443

>KOG0469 consensus Elongation factor 2 [Translation, ribosomal structure and biogenesis]

Probab=96.54  E-value=0.0048  Score=51.47  Aligned_cols=81  Identities=17%  Similarity=0.220  Sum_probs=56.8

Q ss_pred             cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC---CCC
Q 029517           54 SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD---AVS  130 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~---~~~  130 (192)
                      .++-++++|.|||-+|++.....++-.||.+.|+|.-+.--.+. ...+.+....   .-+| +++.||.|..-   +.+
T Consensus        96 ~~FLiNLIDSPGHVDFSSEVTAALRVTDGALVVVDcv~GvCVQT-ETVLrQA~~E---RIkP-vlv~NK~DRAlLELq~~  170 (842)
T KOG0469|consen   96 NGFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVSGVCVQT-ETVLRQAIAE---RIKP-VLVMNKMDRALLELQLS  170 (842)
T ss_pred             cceeEEeccCCCcccchhhhhheeEeccCcEEEEEccCceEech-HHHHHHHHHh---hccc-eEEeehhhHHHHhhcCC
Confidence            46789999999999999999999999999999999875532222 1122222222   2245 46799999643   667


Q ss_pred             HHHHHhHcC
Q 029517          131 ADELARYLD  139 (192)
Q Consensus       131 ~~~~~~~~~  139 (192)
                      .|++.+.+.
T Consensus       171 ~EeLyqtf~  179 (842)
T KOG0469|consen  171 QEELYQTFQ  179 (842)
T ss_pred             HHHHHHHHH
Confidence            777666554

>KOG1491 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=95.99  E-value=0.011  Score=46.93  Aligned_cols=76  Identities=20%  Similarity=0.194  Sum_probs=49.3

Q ss_pred             hhhccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE---E-------EE---ecCEEEEEEeCCCC-------cccH
Q 029517           11 YIFTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG---R-------IE---VSNSKLVFWDLGGQ-------PGLR   70 (192)
Q Consensus        11 ~~~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~---~-------~~---~~~~~~~i~D~~G~-------~~~~   70 (192)
                      ++=|||+||+|.+.-.+    ..++++.+..|..+.---   +       +.   .....++++|++|.       +...
T Consensus        30 NvGKST~fnalT~~~a~----~~NfPF~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DIAGLvkGAs~G~GLG  105 (391)
T KOG1491|consen   30 NVGKSTFFNALTKSKAG----AANFPFCTIDPNEARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDIAGLVKGASAGEGLG  105 (391)
T ss_pred             CCchHHHHHHHhcCCCC----ccCCCcceeccccceeecCchHHHHHHHhcCCcceeeeeEEEEeecccccCcccCcCch
Confidence            34589999998765443    446666665555442111   0       11   12457999999993       2345


Q ss_pred             HHHHHhhhcCCEEEEEEeCC
Q 029517           71 SIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        71 ~~~~~~~~~~d~ii~v~D~~   90 (192)
                      ......++.+|+++.|+++.
T Consensus       106 N~FLs~iR~vDaifhVVr~f  125 (391)
T KOG1491|consen  106 NKFLSHIRHVDAIFHVVRAF  125 (391)
T ss_pred             HHHHHhhhhccceeEEEEec
Confidence            55667789999999999764

>KOG2423 consensus Nucleolar GTPase [General function prediction only]

Probab=95.68  E-value=0.092  Score=42.86  Aligned_cols=63  Identities=27%  Similarity=0.266  Sum_probs=39.2

Q ss_pred             HHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHc
Q 029517           73 WEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYL  138 (192)
Q Consensus        73 ~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~  138 (192)
                      ....+..+|++|-|+|+.|+--=..  ..+...++.. .++.+++.|+||+||...--...+...+
T Consensus       207 LyKViDSSDVvvqVlDARDPmGTrc--~~ve~ylkke-~phKHli~vLNKvDLVPtwvt~~Wv~~l  269 (572)
T KOG2423|consen  207 LYKVIDSSDVVVQVLDARDPMGTRC--KHVEEYLKKE-KPHKHLIYVLNKVDLVPTWVTAKWVRHL  269 (572)
T ss_pred             HHHhhcccceeEEeeeccCCccccc--HHHHHHHhhc-CCcceeEEEeeccccccHHHHHHHHHHH
Confidence            3445678999999999988731111  2333333322 2678999999999997643333333333

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=95.67  E-value=0.13  Score=40.04  Aligned_cols=96  Identities=16%  Similarity=0.070  Sum_probs=55.2

Q ss_pred             cCEEEEEEeCCCCcccHHHH----HH---hhh-----cCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEe
Q 029517           54 SNSKLVFWDLGGQPGLRSIW----EK---YYE-----EAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILAN  121 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~----~~---~~~-----~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~n  121 (192)
                      .++.+.++||||........    ..   ...     .++..++|+|++..  .+.+. ....+.+..    -+.-++.|
T Consensus       153 ~~~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~--~~~~~-~~~~f~~~~----~~~g~IlT  225 (272)
T TIGR00064       153 RNIDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTG--QNALE-QAKVFNEAV----GLTGIILT  225 (272)
T ss_pred             CCCCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCC--HHHHH-HHHHHHhhC----CCCEEEEE
Confidence            45789999999976433221    11   111     38999999999743  22222 223332221    24678899


Q ss_pred             CCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHH
Q 029517          122 KQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus       122 K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      |.|.....  -.+.....     ..+.|+..++  +|++++++-
T Consensus       226 KlDe~~~~--G~~l~~~~-----~~~~Pi~~~~--~Gq~~~dl~  260 (272)
T TIGR00064       226 KLDGTAKG--GIILSIAY-----ELKLPIKFIG--VGEKIDDLA  260 (272)
T ss_pred             ccCCCCCc--cHHHHHHH-----HHCcCEEEEe--CCCChHhCc
Confidence            99976532  22233332     2245666666  788887764

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.

>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily

Probab=95.36  E-value=0.1  Score=36.29  Aligned_cols=66  Identities=15%  Similarity=0.292  Sum_probs=46.4

Q ss_pred             EEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCC
Q 029517           56 SKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLP  126 (192)
Q Consensus        56 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~  126 (192)
                      +.+.++|+|+...  ......+..+|.++++++++ ..++..+...++.+.+..  ...++.++.|+.+..
T Consensus        45 yd~VIiD~p~~~~--~~~~~~l~~aD~vviv~~~~-~~s~~~~~~~l~~l~~~~--~~~~~~lVvN~~~~~  110 (139)
T cd02038          45 YDYIIIDTGAGIS--DNVLDFFLAADEVIVVTTPE-PTSITDAYALIKKLAKQL--RVLNFRVVVNRAESP  110 (139)
T ss_pred             CCEEEEECCCCCC--HHHHHHHHhCCeEEEEcCCC-hhHHHHHHHHHHHHHHhc--CCCCEEEEEeCCCCH
Confidence            6789999998643  23346788999999999986 444555555555554432  346788999999743

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.

>KOG0463 consensus GTP-binding protein GP-1 [General function prediction only]

Probab=95.33  E-value=0.06  Score=43.60  Aligned_cols=114  Identities=22%  Similarity=0.203  Sum_probs=66.9

Q ss_pred             EEEEecCE-EEEEEeCCCCcccHHHHHHhh--hcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCC
Q 029517           49 GRIEVSNS-KLVFWDLGGQPGLRSIWEKYY--EEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDL  125 (192)
Q Consensus        49 ~~~~~~~~-~~~i~D~~G~~~~~~~~~~~~--~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl  125 (192)
                      ..+..+.. -+.|+|.+|+++|....-.-+  .-.|.-.+|+.+.-. -..-.++-+-..+.    ...|+.+|.+|+|+
T Consensus       211 vkIce~saKviTFIDLAGHEkYLKTTvFGMTGH~PDf~MLMiGaNaG-IiGmTKEHLgLALa----L~VPVfvVVTKIDM  285 (641)
T KOG0463|consen  211 VKICEDSAKVITFIDLAGHEKYLKTTVFGMTGHMPDFTMLMIGANAG-IIGMTKEHLGLALA----LHVPVFVVVTKIDM  285 (641)
T ss_pred             eeeccccceeEEEEeccchhhhhheeeeccccCCCCceEEEeccccc-ceeccHHhhhhhhh----hcCcEEEEEEeecc
Confidence            33443333 478999999998876433222  236777888876422 11111122221222    36899999999998


Q ss_pred             CCCCCHHH----HHhHcCcc---------------------ccCCcceEEEEeeecCCCCHHHHHHH
Q 029517          126 PDAVSADE----LARYLDLK---------------------KLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus       126 ~~~~~~~~----~~~~~~~~---------------------~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      -.++-.++    +..+++..                     -.+.+-+++|.+|-.+|.|+.-+...
T Consensus       286 CPANiLqEtmKll~rllkS~gcrK~PvlVrs~DDVv~~A~NF~Ser~CPIFQvSNVtG~NL~LLkmF  352 (641)
T KOG0463|consen  286 CPANILQETMKLLTRLLKSPGCRKLPVLVRSMDDVVHAAVNFPSERVCPIFQVSNVTGTNLPLLKMF  352 (641)
T ss_pred             CcHHHHHHHHHHHHHHhcCCCcccCcEEEecccceEEeeccCccccccceEEeccccCCChHHHHHH
Confidence            66433332    33333310                     11345688999999999998766544

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=95.31  E-value=0.1  Score=41.69  Aligned_cols=96  Identities=17%  Similarity=0.115  Sum_probs=54.9

Q ss_pred             cCEEEEEEeCCCCcccHH----HHHHhh--------hcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEe
Q 029517           54 SNSKLVFWDLGGQPGLRS----IWEKYY--------EEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILAN  121 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~----~~~~~~--------~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~n  121 (192)
                      .++.+.++||||......    ....+.        ...+..++|+|++..  .+.+.. ...+.+.    --+--+|.|
T Consensus       195 ~~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g--~~~~~~-a~~f~~~----~~~~giIlT  267 (318)
T PRK10416        195 RGIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTG--QNALSQ-AKAFHEA----VGLTGIILT  267 (318)
T ss_pred             CCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCC--hHHHHH-HHHHHhh----CCCCEEEEE
Confidence            457899999999653211    122222        246788999999854  222222 1222211    134568899


Q ss_pred             CCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHH
Q 029517          122 KQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus       122 K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      |.|.....  -.+.+.+.     ..+.|+..++  +|++++++-
T Consensus       268 KlD~t~~~--G~~l~~~~-----~~~~Pi~~v~--~Gq~~~Dl~  302 (318)
T PRK10416        268 KLDGTAKG--GVVFAIAD-----ELGIPIKFIG--VGEGIDDLQ  302 (318)
T ss_pred             CCCCCCCc--cHHHHHHH-----HHCCCEEEEe--CCCChhhCc
Confidence            99965422  23333333     3356777777  889887763

>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell

Probab=95.02  E-value=0.25  Score=35.39  Aligned_cols=65  Identities=9%  Similarity=-0.026  Sum_probs=46.0

Q ss_pred             EEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           57 KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        57 ~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      .+.|+|+|+....  .....+..+|.+|++++++ ..++..+..+++.+...   ....+.++.|+.|...
T Consensus        64 d~viiD~p~~~~~--~~~~~l~~ad~viiv~~~~-~~s~~~~~~~~~~~~~~---~~~~~~iv~N~~~~~~  128 (179)
T cd02036          64 DYILIDSPAGIER--GFITAIAPADEALLVTTPE-ISSLRDADRVKGLLEAL---GIKVVGVIVNRVRPDM  128 (179)
T ss_pred             CEEEEECCCCCcH--HHHHHHHhCCcEEEEeCCC-cchHHHHHHHHHHHHHc---CCceEEEEEeCCcccc
Confidence            7999999986533  2344578899999999886 44566666666655543   2346778999998654

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.

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=94.83  E-value=0.34  Score=41.53  Aligned_cols=126  Identities=16%  Similarity=0.169  Sum_probs=75.0

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCc
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACP   92 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~   92 (192)
                      =|||++++|..|.+..      +-.+...|     +..+.++..++.++.+|.  +...+. ...+-+|.+++++|....
T Consensus        81 GKsTLirSlVrr~tk~------ti~~i~GP-----iTvvsgK~RRiTflEcp~--Dl~~mi-DvaKIaDLVlLlIdgnfG  146 (1077)
T COG5192          81 GKSTLIRSLVRRFTKQ------TIDEIRGP-----ITVVSGKTRRITFLECPS--DLHQMI-DVAKIADLVLLLIDGNFG  146 (1077)
T ss_pred             ChhHHHHHHHHHHHHh------hhhccCCc-----eEEeecceeEEEEEeChH--HHHHHH-hHHHhhheeEEEeccccC
Confidence            3899999999998851      11111222     455777888999999993  333333 345679999999998765


Q ss_pred             ccHHHHHHHHHHHHhCCCCCCC-cEEEEEeCCCCCC-CCCHHHHHhHcCcccc--CCcceEEEEeeecC
Q 029517           93 SRFEDSKTALEKVLRNEDLQGA-PLLILANKQDLPD-AVSADELARYLDLKKL--DERVCMFEAVSGYD  157 (192)
Q Consensus        93 ~s~~~~~~~~~~i~~~~~~~~~-piiiv~nK~Dl~~-~~~~~~~~~~~~~~~~--~~~~~~~~~~Sa~~  157 (192)
                      -..+. .++++ ++..   .+. .++.|++..|+-. +.....+...++-.-+  -..+..+|..|...
T Consensus       147 fEMET-mEFLn-il~~---HGmPrvlgV~ThlDlfk~~stLr~~KKrlkhRfWtEiyqGaKlFylsgV~  210 (1077)
T COG5192         147 FEMET-MEFLN-ILIS---HGMPRVLGVVTHLDLFKNPSTLRSIKKRLKHRFWTEIYQGAKLFYLSGVE  210 (1077)
T ss_pred             ceehH-HHHHH-HHhh---cCCCceEEEEeecccccChHHHHHHHHHHhhhHHHHHcCCceEEEecccc
Confidence            33333 22333 3333   234 5777999999965 3333344433320000  03367777777654

>KOG2485 consensus Conserved ATP/GTP binding protein [General function prediction only]

Probab=94.74  E-value=0.058  Score=42.49  Aligned_cols=103  Identities=17%  Similarity=0.195  Sum_probs=61.0

Q ss_pred             EEeCCCCc-ccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHc
Q 029517           60 FWDLGGQP-GLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYL  138 (192)
Q Consensus        60 i~D~~G~~-~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~  138 (192)
                      .-+.|||. .--...+.-+...|++|=|-|+.-|-|=+.  +.+.++.     ...|=|+|.||+||.+......+.+++
T Consensus        26 ~~wfpgHmakalr~i~~~l~~~D~iiEvrDaRiPLssrn--~~~~~~~-----~~k~riiVlNK~DLad~~~~k~~iq~~   98 (335)
T KOG2485|consen   26 RRWFPGHMAKALRAIQNRLPLVDCIIEVRDARIPLSSRN--ELFQDFL-----PPKPRIIVLNKMDLADPKEQKKIIQYL   98 (335)
T ss_pred             cccCchHHHHHHHHHHhhcccccEEEEeeccccCCcccc--HHHHHhc-----CCCceEEEEecccccCchhhhHHHHHH
Confidence            34467765 333345556778999999999987743322  4444443     368899999999999855555666666


Q ss_pred             CccccCCcceEEEEeeecC--CCCHHHHHHHHHHHHH
Q 029517          139 DLKKLDERVCMFEAVSGYD--GFGIKESVEWLVEVME  173 (192)
Q Consensus       139 ~~~~~~~~~~~~~~~Sa~~--~~gi~e~~~~i~~~i~  173 (192)
                      +-    .....++..++..  ..++..++.-+.....
T Consensus        99 ~~----~~~~~~~~~~c~~~~~~~v~~l~~il~~~~~  131 (335)
T KOG2485|consen   99 EW----QNLESYIKLDCNKDCNKQVSPLLKILTILSE  131 (335)
T ss_pred             Hh----hcccchhhhhhhhhhhhccccHHHHHHHHHH
Confidence            51    1222333333333  3335555554444333

>PRK12288 GTPase RsgA; Reviewed

Probab=94.74  E-value=0.028  Score=45.42  Aligned_cols=55  Identities=11%  Similarity=0.008  Sum_probs=35.3

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccH
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLR   70 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~   70 (192)
                      =|||++|+|+++....+..++.....---.|....+..+..+.   .++||||...+.
T Consensus       217 GKSTLiN~Ll~~~~~~t~~is~~~~rGrHTT~~~~l~~l~~~~---~liDTPGir~~~  271 (347)
T PRK12288        217 GKSSLINALLPEAEILVGDVSDNSGLGQHTTTAARLYHFPHGG---DLIDSPGVREFG  271 (347)
T ss_pred             CHHHHHHHhccccceeeccccCcCCCCcCceeeEEEEEecCCC---EEEECCCCCccc
Confidence            3899999999887776666655433222234455555554333   599999986553

>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=94.70  E-value=0.26  Score=32.54  Aligned_cols=63  Identities=19%  Similarity=0.168  Sum_probs=44.6

Q ss_pred             EEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeC
Q 029517           57 KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANK  122 (192)
Q Consensus        57 ~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK  122 (192)
                      .+.+.|+|+....  .....+..+|.++++++++ ..++..+..+++.+.+........+.+|+|+
T Consensus        44 D~IIiDtpp~~~~--~~~~~l~~aD~vlvvv~~~-~~s~~~~~~~~~~l~~~~~~~~~~~~lVvNr  106 (106)
T cd03111          44 DYVVVDLGRSLDE--VSLAALDQADRVFLVTQQD-LPSIRNAKRLLELLRVLDYSLPAKIELVLNR  106 (106)
T ss_pred             CEEEEeCCCCcCH--HHHHHHHHcCeEEEEecCC-hHHHHHHHHHHHHHHHcCCCCcCceEEEecC
Confidence            7899999997543  2345678899999999876 5567777777777665432113467777775

The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.

>PRK14974 cell division protein FtsY; Provisional

Probab=94.70  E-value=0.32  Score=39.13  Aligned_cols=96  Identities=14%  Similarity=0.023  Sum_probs=54.2

Q ss_pred             CEEEEEEeCCCCcccHH----HHHHhh--hcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCC
Q 029517           55 NSKLVFWDLGGQPGLRS----IWEKYY--EEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDA  128 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~----~~~~~~--~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~  128 (192)
                      +..+.++||+|......    ......  .+.|.+++|+|++....-   ......+...   . .+--+++||.|....
T Consensus       222 ~~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~d~---~~~a~~f~~~---~-~~~giIlTKlD~~~~  294 (336)
T PRK14974        222 GIDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAGNDA---VEQAREFNEA---V-GIDGVILTKVDADAK  294 (336)
T ss_pred             CCCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccchhH---HHHHHHHHhc---C-CCCEEEEeeecCCCC
Confidence            46799999999753221    222222  257889999999754321   1222222221   1 235578999998653


Q ss_pred             CCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHH
Q 029517          129 VSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVE  166 (192)
Q Consensus       129 ~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~  166 (192)
                      ..  .+.....     ..+.|+..++  +|++++++..
T Consensus       295 ~G--~~ls~~~-----~~~~Pi~~i~--~Gq~v~Dl~~  323 (336)
T PRK14974        295 GG--AALSIAY-----VIGKPILFLG--VGQGYDDLIP  323 (336)
T ss_pred             cc--HHHHHHH-----HHCcCEEEEe--CCCChhhccc
Confidence            22  2222222     2245666665  7999987743

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=94.67  E-value=0.018  Score=40.10  Aligned_cols=44  Identities=20%  Similarity=0.178  Sum_probs=23.9

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCC
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQ   66 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~   66 (192)
                      =|||++|+|+++.....+..++       .|...  ..+.... .+.+|||||.
T Consensus        95 GKstlin~l~~~~~~~~~~~~~-------~~~~~--~~~~~~~-~~~i~DtpG~  138 (141)
T cd01857          95 GKSSLINALVGKKKVSVSATPG-------KTKHF--QTIFLTP-TITLCDCPGL  138 (141)
T ss_pred             CHHHHHHHHhCCCceeeCCCCC-------cccce--EEEEeCC-CEEEEECCCc
Confidence            3788889888654332222222       12222  2222222 6899999995

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.

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=94.63  E-value=0.085  Score=39.99  Aligned_cols=64  Identities=16%  Similarity=0.235  Sum_probs=39.6

Q ss_pred             CEEEEEEeCCC-CcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCC-CcEEEEEeCCCCC
Q 029517           55 NSKLVFWDLGG-QPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQG-APLLILANKQDLP  126 (192)
Q Consensus        55 ~~~~~i~D~~G-~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~-~piiiv~nK~Dl~  126 (192)
                      ...+.+.||-- -+.|.   ....+++|.+|.|+|++- .++..+.... ++.+.   .+ .++.+|+||.|-.
T Consensus       133 ~~e~VivDtEAGiEHfg---Rg~~~~vD~vivVvDpS~-~sl~taeri~-~L~~e---lg~k~i~~V~NKv~e~  198 (255)
T COG3640         133 RYEVVIVDTEAGIEHFG---RGTIEGVDLVIVVVDPSY-KSLRTAERIK-ELAEE---LGIKRIFVVLNKVDEE  198 (255)
T ss_pred             cCcEEEEecccchhhhc---cccccCCCEEEEEeCCcH-HHHHHHHHHH-HHHHH---hCCceEEEEEeeccch
Confidence            34567777743 34333   234578999999999973 3344333322 22222   24 7999999999854

>cd01858 NGP_1 NGP-1

Probab=94.60  E-value=0.014  Score=41.44  Aligned_cols=42  Identities=17%  Similarity=0.118  Sum_probs=25.6

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGG   65 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G   65 (192)
                      |||++|+|+++.....+.+++.       |....+...   .-.+.++||||
T Consensus       115 KStliN~l~~~~~~~~~~~~g~-------T~~~~~~~~---~~~~~liDtPG  156 (157)
T cd01858         115 KSSIINTLRSKKVCKVAPIPGE-------TKVWQYITL---MKRIYLIDCPG  156 (157)
T ss_pred             hHHHHHHHhcCCceeeCCCCCe-------eEeEEEEEc---CCCEEEEECcC
Confidence            8999999987665544444432       222222222   22478999999

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.

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=94.47  E-value=0.057  Score=41.41  Aligned_cols=53  Identities=9%  Similarity=-0.028  Sum_probs=34.0

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCccc
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGL   69 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~   69 (192)
                      =|||++|+|+++....+.+++.......-+|.......+. +   ..++||||...+
T Consensus       132 GKStLiN~L~~~~~~~t~~i~~~~~~G~hTT~~~~l~~l~-~---~~liDtPG~~~~  184 (245)
T TIGR00157       132 GKSSLINALDPSVKQQVNDISSKLGLGKHTTTHVELFHFH-G---GLIADTPGFNEF  184 (245)
T ss_pred             CHHHHHHHHhhhhhccccceeccCCCCCCcCCceEEEEcC-C---cEEEeCCCcccc
Confidence            4899999999887776666654333222344455555552 2   379999996543

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

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=94.32  E-value=0.16  Score=38.42  Aligned_cols=75  Identities=11%  Similarity=0.113  Sum_probs=44.2

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEe---cCEEEEEEeCCCCccc------HHHHHHhhhc--CCE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEV---SNSKLVFWDLGGQPGL------RSIWEKYYEE--AHA   82 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~---~~~~~~i~D~~G~~~~------~~~~~~~~~~--~d~   82 (192)
                      ||+++|.|++.... +. +   -......|.|+-......   .+..+.++||+|....      .......+..  +++
T Consensus        20 KS~llN~l~~~~~~-f~-~---~~~~~~~T~gi~~~~~~~~~~~~~~v~~lDteG~~~~~~~~~~~~~~~~~l~~llss~   94 (224)
T cd01851          20 KSFLLNHLFGTLSG-FD-V---MDTSQQTTKGIWMWSVPFKLGKEHAVLLLDTEGTDGRERGEFEDDARLFALATLLSSV   94 (224)
T ss_pred             HHHHHHHHhCCCCC-eE-e---cCCCCCCccceEEEeccccCCCcceEEEEecCCcCccccCchhhhhHHHHHHHHHhCE
Confidence            78888888776311 00 0   011235667776554333   3578999999996432      1222333444  899


Q ss_pred             EEEEEeCCCcc
Q 029517           83 VVFVIDAACPS   93 (192)
Q Consensus        83 ii~v~D~~~~~   93 (192)
                      +|+..+.....
T Consensus        95 ~i~n~~~~~~~  105 (224)
T cd01851          95 LIYNSWETILG  105 (224)
T ss_pred             EEEeccCcccH
Confidence            99999876543

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

>COG4963 CpaE Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]

Probab=94.21  E-value=0.39  Score=38.85  Aligned_cols=83  Identities=14%  Similarity=0.250  Sum_probs=63.3

Q ss_pred             cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHH
Q 029517           54 SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADE  133 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~  133 (192)
                      ..+.+.++|.| + ....-...++..+|.+++|++.+ -.++...++.+..+.+... .+.+..+++||.+.....+.++
T Consensus       216 ~~~~~vV~Dlp-~-~~~~~t~~vL~~Sd~iviv~e~s-l~slR~ak~lld~l~~~r~-~~~~p~lv~n~~~~~~~~~~~d  291 (366)
T COG4963         216 GSFDFVVVDLP-N-IWTDWTRQVLSGSDEIVIVAEPS-LASLRNAKELLDELKRLRP-NDPKPILVLNRVGVPKRPEPSD  291 (366)
T ss_pred             ccCCeEEEcCC-C-ccchHHHHHHhcCCeEEEEeccc-HHHHHHHHHHHHHHHHhCC-CCCCceEEeeecCCCCCCCHHH
Confidence            35689999999 3 23445567889999999999986 4567888888888877654 4677888999998877666677


Q ss_pred             HHhHcCc
Q 029517          134 LARYLDL  140 (192)
Q Consensus       134 ~~~~~~~  140 (192)
                      +.+.+++
T Consensus       292 l~~~~~i  298 (366)
T COG4963         292 LEEILGI  298 (366)
T ss_pred             HHHHhCC
Confidence            7777764

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=94.08  E-value=0.43  Score=44.83  Aligned_cols=70  Identities=17%  Similarity=0.222  Sum_probs=45.1

Q ss_pred             EEEEEeCCCCc--------ccHHHHHHhhh---------cCCEEEEEEeCCCcc--cH-------HHHHHHHHHHHhCCC
Q 029517           57 KLVFWDLGGQP--------GLRSIWEKYYE---------EAHAVVFVIDAACPS--RF-------EDSKTALEKVLRNED  110 (192)
Q Consensus        57 ~~~i~D~~G~~--------~~~~~~~~~~~---------~~d~ii~v~D~~~~~--s~-------~~~~~~~~~i~~~~~  110 (192)
                      +..++||+|..        .....|..+++         ..+|+|+++|+.+.-  +-       ..++..+.++.+...
T Consensus       162 ~avliDtaG~y~~~~~~~~~~~~~W~~fL~~L~k~R~r~plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg  241 (1169)
T TIGR03348       162 EAVLIDTAGRYTTQDSDPEEDAAAWLGFLGLLRKHRRRQPLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQLG  241 (1169)
T ss_pred             CEEEEcCCCccccCCCcccccHHHHHHHHHHHHHhCCCCCCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhC
Confidence            45699999932        23445655542         479999999986431  11       234444455544322


Q ss_pred             CCCCcEEEEEeCCCCCC
Q 029517          111 LQGAPLLILANKQDLPD  127 (192)
Q Consensus       111 ~~~~piiiv~nK~Dl~~  127 (192)
                       ...|+.++.||+|+..
T Consensus       242 -~~~PVYvv~Tk~Dll~  257 (1169)
T TIGR03348       242 -ARFPVYLVLTKADLLA  257 (1169)
T ss_pred             -CCCCEEEEEecchhhc
Confidence             4789999999999874

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>KOG3859 consensus Septins (P-loop GTPases) [Cell cycle control, cell division, chromosome partitioning]

Probab=93.83  E-value=0.11  Score=40.39  Aligned_cols=103  Identities=20%  Similarity=0.254  Sum_probs=60.5

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEe--c--CEEEEEEeCCCC-------cccHH-------HHH
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEV--S--NSKLVFWDLGGQ-------PGLRS-------IWE   74 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~--~--~~~~~i~D~~G~-------~~~~~-------~~~   74 (192)
                      =|||+++||+|..-.      ..+.....|+++..-.+++.  .  .+++.|+||.|-       +.|..       ..+
T Consensus        54 GKsTLmdtLFNt~f~------~~p~~H~~~~V~L~~~TyelqEsnvrlKLtiv~tvGfGDQinK~~Syk~iVdyidaQFE  127 (406)
T KOG3859|consen   54 GKSTLMDTLFNTKFE------SEPSTHTLPNVKLQANTYELQESNVRLKLTIVDTVGFGDQINKEDSYKPIVDYIDAQFE  127 (406)
T ss_pred             cHHHHHHHHhccccC------CCCCccCCCCceeecchhhhhhcCeeEEEEEEeecccccccCcccccchHHHHHHHHHH
Confidence            478999999887655      55666667777766554432  2  467999999991       12221       122


Q ss_pred             Hhh---------------hcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCC
Q 029517           75 KYY---------------EEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLP  126 (192)
Q Consensus        75 ~~~---------------~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~  126 (192)
                      .|+               ....+.++.+.++ ..++..+...-.+-+.    ....||-++-|+|-.
T Consensus       128 aYLQEELKi~Rsl~~~hDsRiH~CLYFI~PT-GH~LKslDLvtmk~Ld----skVNIIPvIAKaDti  189 (406)
T KOG3859|consen  128 AYLQEELKIRRSLFTYHDSRIHVCLYFISPT-GHSLKSLDLVTMKKLD----SKVNIIPVIAKADTI  189 (406)
T ss_pred             HHHHHHHHHHHHHHHhccCceEEEEEEecCC-CcchhHHHHHHHHHHh----hhhhhHHHHHHhhhh
Confidence            222               1356778888877 4456554443222111    235566667788853

>KOG0448 consensus Mitofusin 1 GTPase, involved in mitochondrila biogenesis [Posttranslational modification, protein turnover, chaperones]

Probab=93.45  E-value=0.44  Score=41.48  Aligned_cols=66  Identities=24%  Similarity=0.340  Sum_probs=42.7

Q ss_pred             EEEEEeCCCCc---ccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           57 KLVFWDLGGQP---GLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        57 ~~~i~D~~G~~---~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      .+.+.|.||.+   ....-...++..+|++|+|..+.+.-+..+- .++....+    .+..+.++-||.|...
T Consensus       207 DivliDsPGld~~se~tswid~~cldaDVfVlV~NaEntlt~sek-~Ff~~vs~----~KpniFIlnnkwDasa  275 (749)
T KOG0448|consen  207 DIVLIDSPGLDVDSELTSWIDSFCLDADVFVLVVNAENTLTLSEK-QFFHKVSE----EKPNIFILNNKWDASA  275 (749)
T ss_pred             cceeccCCCCCCchhhhHHHHHHhhcCCeEEEEecCccHhHHHHH-HHHHHhhc----cCCcEEEEechhhhhc
Confidence            47889999954   3344557778899999999998765444332 22222211    2345666778889865

>COG1161 Predicted GTPases [General function prediction only]

Probab=93.44  E-value=0.047  Score=43.66  Aligned_cols=46  Identities=22%  Similarity=0.224  Sum_probs=30.2

Q ss_pred             hhhccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCC
Q 029517           11 YIFTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQ   66 (192)
Q Consensus        11 ~~~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~   66 (192)
                      ++=|||++|+|+++....++..|+.+       .+..+..+.   -.+.++||||-
T Consensus       142 NVGKSslIN~L~~k~~~~~s~~PG~T-------k~~q~i~~~---~~i~LlDtPGi  187 (322)
T COG1161         142 NVGKSTLINRLLGKKVAKTSNRPGTT-------KGIQWIKLD---DGIYLLDTPGI  187 (322)
T ss_pred             CCcHHHHHHHHhcccceeeCCCCcee-------cceEEEEcC---CCeEEecCCCc
Confidence            34589999999988886665555433       333333332   24899999993

>cd01855 YqeH YqeH

Probab=93.40  E-value=0.099  Score=38.23  Aligned_cols=49  Identities=18%  Similarity=0.051  Sum_probs=24.1

Q ss_pred             ccccHHHHHHHHhhhhccCCC-CCCCCCCCCcceEEEEEEecCEEEEEEeCCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEG-LPPDRIVPTVGLNIGRIEVSNSKLVFWDLGG   65 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~-~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G   65 (192)
                      |||++|+|++.......+... ........|.+.....+  .. .+.++||||
T Consensus       140 KStliN~l~~~~~~~~~~~~~~~~~~~~gtT~~~~~~~~--~~-~~~~~DtPG  189 (190)
T cd01855         140 KSTLINALLKKDNGKKKLKDLLTTSPIPGTTLDLIKIPL--GN-GKKLYDTPG  189 (190)
T ss_pred             HHHHHHHHHHhcccccccccccccCCCCCeeeeeEEEec--CC-CCEEEeCcC
Confidence            899999999765431100000 00111122333322222  22 579999999

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.

>PHA02518 ParA-like protein; Provisional

Probab=93.33  E-value=0.46  Score=35.07  Aligned_cols=68  Identities=12%  Similarity=0.060  Sum_probs=42.9

Q ss_pred             cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHH---HHHHHHhCCCCCCCc-EEEEEeCCCCC
Q 029517           54 SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT---ALEKVLRNEDLQGAP-LLILANKQDLP  126 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~---~~~~i~~~~~~~~~p-iiiv~nK~Dl~  126 (192)
                      ..+.+.|+|+||..  .......+..+|.+|+++.++. .++..+..   ++..+....  ...| ..++.|+.+..
T Consensus        75 ~~~d~viiD~p~~~--~~~~~~~l~~aD~viip~~ps~-~~~~~~~~~~~~~~~~~~~~--~~~~~~~iv~n~~~~~  146 (211)
T PHA02518         75 SGYDYVVVDGAPQD--SELARAALRIADMVLIPVQPSP-FDIWAAPDLVELIKARQEVT--DGLPKFAFIISRAIKN  146 (211)
T ss_pred             ccCCEEEEeCCCCc--cHHHHHHHHHCCEEEEEeCCCh-hhHHHHHHHHHHHHHHHhhC--CCCceEEEEEeccCCc
Confidence            35789999999974  3455667889999999998863 33443333   333332221  2344 45677877643

>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A

Probab=93.32  E-value=1.2  Score=36.99  Aligned_cols=40  Identities=25%  Similarity=0.277  Sum_probs=24.4

Q ss_pred             CCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecC
Q 029517          113 GAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYD  157 (192)
Q Consensus       113 ~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  157 (192)
                      ++|+++++|-.+--. ....++.+.+.    ...+.+++++++..
T Consensus       180 gKPFvillNs~~P~s-~et~~L~~eL~----ekY~vpVlpvnc~~  219 (492)
T PF09547_consen  180 GKPFVILLNSTKPYS-EETQELAEELE----EKYDVPVLPVNCEQ  219 (492)
T ss_pred             CCCEEEEEeCCCCCC-HHHHHHHHHHH----HHhCCcEEEeehHH
Confidence            799999999887432 22233333333    24567777777644

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.

>PF14331 ImcF-related_N: ImcF-related N-terminal domain

Probab=93.31  E-value=0.4  Score=37.26  Aligned_cols=89  Identities=20%  Similarity=0.251  Sum_probs=49.3

Q ss_pred             cCCEEEEEEeCCC-----cc--cHH----HHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC-------CCCHHHHHhHcCc
Q 029517           79 EAHAVVFVIDAAC-----PS--RFE----DSKTALEKVLRNEDLQGAPLLILANKQDLPD-------AVSADELARYLDL  140 (192)
Q Consensus        79 ~~d~ii~v~D~~~-----~~--s~~----~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~-------~~~~~~~~~~~~~  140 (192)
                      ..+|+|+++|+.+     ..  .+.    .++.-+..+.+... ...|+.+++||+|+..       ..+.++..+.+  
T Consensus        25 PlnGvil~vs~~~Ll~~~~~~r~l~~~a~~lR~rL~el~~~lg-~~~PVYvv~Tk~D~l~GF~ef~~~L~~~~r~q~l--  101 (266)
T PF14331_consen   25 PLNGVILTVSVDDLLNADEAERELEALARALRQRLEELQRTLG-VRLPVYVVFTKCDLLPGFDEFFSDLSEEEREQVL--  101 (266)
T ss_pred             CCCEEEEEEEHHHHhcCChhhhHHHHHHHHHHHHHHHHHHHhC-CCCCeEeeeECCCcccCHHHHHHhCCHHHHhCCc--
Confidence            3699999998742     11  122    12233333333221 4789999999999875       23333333333  


Q ss_pred             cccCCcceEEEEeeecCCCC---HHHHHHHHHHHHHhcc
Q 029517          141 KKLDERVCMFEAVSGYDGFG---IKESVEWLVEVMERSK  176 (192)
Q Consensus       141 ~~~~~~~~~~~~~Sa~~~~g---i~e~~~~i~~~i~~~~  176 (192)
                            |+.+-.-....+..   +++.|+.+.+.+....
T Consensus       102 ------G~t~~~~~~~~~~~~~~~~~~~~~l~~~L~~~~  134 (266)
T PF14331_consen  102 ------GFTFPYDEDADGDAWAWFDEEFDELVARLNARV  134 (266)
T ss_pred             ------ccccCCccccccchHHHHHHHHHHHHHHHHHHH
Confidence                  33333333334444   7777888777666543

>cd01859 MJ1464 MJ1464

Probab=93.22  E-value=0.042  Score=38.78  Aligned_cols=41  Identities=20%  Similarity=0.303  Sum_probs=22.2

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE-EEEecCEEEEEEeCCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG-RIEVSNSKLVFWDLGG   65 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~-~~~~~~~~~~i~D~~G   65 (192)
                      |||++|+|.++.           ...+.|+.|.... .+...+..+.+|||||
T Consensus       114 kssl~~~l~~~~-----------~~~~~~~~~~t~~~~~~~~~~~~~~~DtpG  155 (156)
T cd01859         114 KSSIINALKGRH-----------SASTSPSPGYTKGEQLVKITSKIYLLDTPG  155 (156)
T ss_pred             HHHHHHHHhCCC-----------ccccCCCCCeeeeeEEEEcCCCEEEEECcC
Confidence            666666665322           2233455554332 1111233799999999

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.

>PRK12289 GTPase RsgA; Reviewed

Probab=93.02  E-value=0.086  Score=42.67  Aligned_cols=53  Identities=11%  Similarity=0.003  Sum_probs=31.6

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcc
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPG   68 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~   68 (192)
                      =|||++|+|++.....+..+++....---.|.......+..+   ..++||||...
T Consensus       184 GKSSLIN~L~~~~~~~t~~vs~~~~rGrHTT~~~~l~~l~~g---~~liDTPG~~~  236 (352)
T PRK12289        184 GKSSLINRLIPDVELRVGKVSGKLGRGRHTTRHVELFELPNG---GLLADTPGFNQ  236 (352)
T ss_pred             CHHHHHHHHcCccccccccccCCCCCCCCcCceeEEEECCCC---cEEEeCCCccc
Confidence            389999999987766666665543222112333333344322   27999999654

>cd03114 ArgK-like The function of this protein family is unkown

Probab=93.02  E-value=0.28  Score=34.56  Aligned_cols=58  Identities=14%  Similarity=0.156  Sum_probs=39.1

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCC
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQD  124 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D  124 (192)
                      ++.+.|+||+|....   ...++..+|-+++|..++-.+.+.-++..   +.      ..-=++++||+|
T Consensus        91 ~~D~iiIDtaG~~~~---~~~~~~~Ad~~ivv~tpe~~D~y~~~k~~---~~------~~~~~~~~~k~~  148 (148)
T cd03114          91 GFDVIIVETVGVGQS---EVDIASMADTTVVVMAPGAGDDIQAIKAG---IM------EIADIVVVNKAD  148 (148)
T ss_pred             CCCEEEEECCccChh---hhhHHHhCCEEEEEECCCchhHHHHhhhh---Hh------hhcCEEEEeCCC
Confidence            578999999996522   23478899999999988744444443332   11      223468899997

The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.

>COG1149 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]

Probab=92.89  E-value=0.78  Score=35.61  Aligned_cols=73  Identities=27%  Similarity=0.373  Sum_probs=48.5

Q ss_pred             EEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHH
Q 029517           56 SKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELA  135 (192)
Q Consensus        56 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~  135 (192)
                      ..+.|+|+|..-.  -..-..+.++|.+|+|-.+| +..+..++..++-...    .++|..+|+||.++...    ++.
T Consensus       164 ~~~~IIDsaaG~g--CpVi~sl~~aD~ai~VTEPT-p~glhD~kr~~el~~~----f~ip~~iViNr~~~g~s----~ie  232 (284)
T COG1149         164 ADLLIIDSAAGTG--CPVIASLKGADLAILVTEPT-PFGLHDLKRALELVEH----FGIPTGIVINRYNLGDS----EIE  232 (284)
T ss_pred             cceeEEecCCCCC--ChHHHhhccCCEEEEEecCC-ccchhHHHHHHHHHHH----hCCceEEEEecCCCCch----HHH
Confidence            4788888887532  12334678999999999998 4445555444443332    37999999999965432    555


Q ss_pred             hHcC
Q 029517          136 RYLD  139 (192)
Q Consensus       136 ~~~~  139 (192)
                      +++.
T Consensus       233 ~~~~  236 (284)
T COG1149         233 EYCE  236 (284)
T ss_pred             HHHH
Confidence            5555

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=92.69  E-value=0.048  Score=42.83  Aligned_cols=44  Identities=23%  Similarity=0.150  Sum_probs=25.4

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQP   67 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~   67 (192)
                      |||++|+|.++....++..++       .|.+...  +.. +-.+.++||||..
T Consensus       134 KSsliN~l~~~~~~~~~~~~g-------~T~~~~~--~~~-~~~~~l~DtPGi~  177 (287)
T PRK09563        134 KSTLINRLAGKKIAKTGNRPG-------VTKAQQW--IKL-GKGLELLDTPGIL  177 (287)
T ss_pred             HHHHHHHHhcCCccccCCCCC-------eEEEEEE--EEe-CCcEEEEECCCcC
Confidence            788888888765443333322       2333322  222 2368899999953

>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=92.61  E-value=1.2  Score=32.20  Aligned_cols=89  Identities=13%  Similarity=0.108  Sum_probs=66.6

Q ss_pred             cCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeec
Q 029517           79 EAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGY  156 (192)
Q Consensus        79 ~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  156 (192)
                      ..|.|+|++|.....+++.+..-+..+....-  --.++++.+-+...+  .+..+++.+++.     .+..+++.+.-.
T Consensus        64 rIDlIVFvinl~sk~SL~~ve~SL~~vd~~ff--lGKVCfl~t~a~~~~~~sv~~~~V~kla~-----~y~~plL~~~le  136 (176)
T PF11111_consen   64 RIDLIVFVINLHSKYSLQSVEASLSHVDPSFF--LGKVCFLATNAGRESHCSVHPNEVRKLAA-----TYNSPLLFADLE  136 (176)
T ss_pred             eeEEEEEEEecCCcccHHHHHHHHhhCChhhh--ccceEEEEcCCCcccccccCHHHHHHHHH-----HhCCCEEEeecc
Confidence            47999999999999999998887777654321  234555555554433  678888988887     778888888888


Q ss_pred             CCCCHHHHHHHHHHHHHh
Q 029517          157 DGFGIKESVEWLVEVMER  174 (192)
Q Consensus       157 ~~~gi~e~~~~i~~~i~~  174 (192)
                      +.++...+=+.|.+.++-
T Consensus       137 ~~~~~~~lAqRLL~~lqi  154 (176)
T PF11111_consen  137 NEEGRTSLAQRLLRMLQI  154 (176)
T ss_pred             cchHHHHHHHHHHHHHHH
Confidence            888888888888776653

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 [].

>COG1162 Predicted GTPases [General function prediction only]

Probab=92.57  E-value=0.13  Score=40.48  Aligned_cols=54  Identities=15%  Similarity=0.065  Sum_probs=34.4

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccH
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLR   70 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~   70 (192)
                      |||++|+|.......+.++...-.----.|.......+..++   .|.||||...+.
T Consensus       177 KSSLiN~L~p~~~~~t~eIS~~~~rGkHTTt~~~l~~l~~gG---~iiDTPGf~~~~  230 (301)
T COG1162         177 KSTLINALLPELNQKTGEISEKLGRGRHTTTHVELFPLPGGG---WIIDTPGFRSLG  230 (301)
T ss_pred             HHHHHHhhCchhhhhhhhhcccCCCCCCccceEEEEEcCCCC---EEEeCCCCCccC
Confidence            899999999877776666665542222233344444554334   789999976553

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=92.57  E-value=0.093  Score=37.07  Aligned_cols=42  Identities=29%  Similarity=0.382  Sum_probs=23.2

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGG   65 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G   65 (192)
                      |||++|+|++......+..++.       |.......+   ...+.++||||
T Consensus       113 Kstlin~l~~~~~~~~~~~~~~-------t~~~~~~~~---~~~~~liDtPG  154 (155)
T cd01849         113 KSSVINALLNKLKLKVGNVPGT-------TTSQQEVKL---DNKIKLLDTPG  154 (155)
T ss_pred             HHHHHHHHHccccccccCCCCc-------ccceEEEEe---cCCEEEEECCC
Confidence            7888888887654322222222       222222222   24689999999

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.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=92.50  E-value=0.066  Score=41.78  Aligned_cols=43  Identities=26%  Similarity=0.198  Sum_probs=24.8

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQ   66 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~   66 (192)
                      |||++|+|.++....++..++       .|.......+  . -.+.++||||.
T Consensus       131 KSslin~l~~~~~~~~~~~~g-------~T~~~~~~~~--~-~~~~l~DtPG~  173 (276)
T TIGR03596       131 KSTLINRLAGKKVAKVGNRPG-------VTKGQQWIKL--S-DGLELLDTPGI  173 (276)
T ss_pred             HHHHHHHHhCCCccccCCCCC-------eecceEEEEe--C-CCEEEEECCCc
Confidence            788888888654433333332       2333222222  1 25799999996

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.

>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily

Probab=91.98  E-value=1.4  Score=31.49  Aligned_cols=66  Identities=12%  Similarity=0.106  Sum_probs=45.8

Q ss_pred             cCEEEEEEeCCCCcccHHHHHHhh--hcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCC
Q 029517           54 SNSKLVFWDLGGQPGLRSIWEKYY--EEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDL  125 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~~~~--~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl  125 (192)
                      ..+.+.|+|+|+...  .......  ..+|.+++|..++ ..++..+..++..+.+..   ....-++.|+.+.
T Consensus        66 ~~yD~VIiD~pp~~~--~~~~~~~~~~~ad~viiV~~p~-~~s~~~~~~~~~~l~~~~---~~~~gvv~N~~~~  133 (169)
T cd02037          66 GELDYLVIDMPPGTG--DEHLTLAQSLPIDGAVIVTTPQ-EVALDDVRKAIDMFKKVN---IPILGVVENMSYF  133 (169)
T ss_pred             CCCCEEEEeCCCCCc--HHHHHHHhccCCCeEEEEECCc-hhhHHHHHHHHHHHHhcC---CCeEEEEEcCCcc
Confidence            467899999999742  2222233  5799999999876 456777777777776652   2345578999875

Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.

>TIGR01007 eps_fam capsular exopolysaccharide family

Probab=91.94  E-value=1.3  Score=32.65  Aligned_cols=67  Identities=18%  Similarity=0.116  Sum_probs=44.2

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCC
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLP  126 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~  126 (192)
                      .+.+.|+|+|...... ......+.+|.+|+|+++. ..+...+...++.+...   ....+-+|+||.|..
T Consensus       127 ~yD~ViiD~pp~~~~~-~~~~~~~~~D~vilV~~~~-~~~~~~~~~~~~~l~~~---~~~~~gvVlN~~~~~  193 (204)
T TIGR01007       127 YFDYIIIDTPPIGTVT-DAAIIARACDASILVTDAG-EIKKRDVQKAKEQLEQT---GSNFLGVVLNKVDIS  193 (204)
T ss_pred             cCCEEEEeCCCccccc-hHHHHHHhCCeEEEEEECC-CCCHHHHHHHHHHHHhC---CCCEEEEEEeCcccc
Confidence            5678999999743211 1223456799999999985 44566666666655443   223566789999864

This model describes the capsular exopolysaccharide proteins in bacteria. The exopolysaccharide gene cluster consists of several genes which encode a number of proteins which regulate the exoploysaccharide biosynthesis(EPS). Atleast 13 genes espA to espM in streptococcus species seem to direct the EPS proteins and all of which share high homology. Functional roles were characterized by gene disruption experiments which resulted in exopolysaccharide-deficient phenotypes.

>cd03112 CobW_like The function of this protein family is unkown

Probab=91.93  E-value=0.6  Score=33.18  Aligned_cols=64  Identities=17%  Similarity=0.163  Sum_probs=36.9

Q ss_pred             CEEEEEEeCCCCcccHHHHHHh--------hhcCCEEEEEEeCCCcccHH-HHHHHHHHHHhCCCCCCCcEEEEEeCCCC
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKY--------YEEAHAVVFVIDAACPSRFE-DSKTALEKVLRNEDLQGAPLLILANKQDL  125 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~--------~~~~d~ii~v~D~~~~~s~~-~~~~~~~~i~~~~~~~~~piiiv~nK~Dl  125 (192)
                      .....+.|++|...-.......        .-..+++++++|+....... ....+..++...       =++++||+|+
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            4577899999975433333221        22479999999986432221 112223333222       2468999996

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.

>PRK13849 putative crown gall tumor protein VirC1; Provisional

Probab=91.92  E-value=0.86  Score=34.65  Aligned_cols=68  Identities=10%  Similarity=0.151  Sum_probs=46.1

Q ss_pred             cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhC--CCCCCCcEEEEEeCCC
Q 029517           54 SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRN--EDLQGAPLLILANKQD  124 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~--~~~~~~piiiv~nK~D  124 (192)
                      +.+.+.|+|+||...  ......+..+|.+|+.+.++ +.++..+...+..+.+.  ....+.|..++.|.++
T Consensus        82 ~~yD~iiID~pp~~~--~~~~~al~~aD~vliP~~ps-~~d~~~~~~~~~~v~~~~~~~~~~l~~~iv~~~~~  151 (231)
T PRK13849         82 QGFDYALADTHGGSS--ELNNTIIASSNLLLIPTMLT-PLDIDEALSTYRYVIELLLSENLAIPTAILRQRVP  151 (231)
T ss_pred             CCCCEEEEeCCCCcc--HHHHHHHHHCCEEEEeccCc-HHHHHHHHHHHHHHHHHHHHhCCCCCeEEEEEecc
Confidence            457999999999764  34455678899999998875 33455544544443321  1124678889999986

>cd01854 YjeQ_engC YjeQ/EngC

Probab=91.77  E-value=0.22  Score=39.16  Aligned_cols=53  Identities=13%  Similarity=0.022  Sum_probs=29.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCccc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGL   69 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~   69 (192)
                      |||++|+|++........+.........+|.......+...   ..++||||...+
T Consensus       174 KSTlin~l~~~~~~~~g~v~~~~~~g~~tT~~~~~~~~~~~---~~liDtPG~~~~  226 (287)
T cd01854         174 KSTLINALLPDLDLATGEISEKLGRGRHTTTHRELFPLPGG---GLLIDTPGFREF  226 (287)
T ss_pred             HHHHHHHHhchhhccccceeccCCCCCcccceEEEEEcCCC---CEEEECCCCCcc
Confidence            79999999987765444443221111123333333333222   369999998655

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.

>TIGR03371 cellulose_yhjQ cellulose synthase operon protein YhjQ

Probab=91.47  E-value=1.6  Score=33.01  Aligned_cols=67  Identities=16%  Similarity=0.157  Sum_probs=45.2

Q ss_pred             EEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           57 KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        57 ~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      .+.|+|+|+..  .......+..+|.+++++.++ ..++..+...+..+.... ....++-++.|+.|...
T Consensus       116 D~viiD~pp~~--~~~~~~~l~~ad~vii~~~~~-~~s~~~~~~~~~~l~~~~-~~~~~~~iv~n~~~~~~  182 (246)
T TIGR03371       116 DWVLIDVPRGP--SPITRQALAAADLVLVVVNAD-AACYATLHQQALALFAGS-GPRIGPHFLINQFDPAR  182 (246)
T ss_pred             CEEEEECCCCc--hHHHHHHHHhCCeEEEEeCCC-HHHHHHHHHHHHHHhhcc-cccccceEEeeccCcch
Confidence            79999999953  345566778999999999875 444555553333333311 12456778999998653

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.

>cd01856 YlqF YlqF

Probab=90.18  E-value=0.19  Score=36.16  Aligned_cols=11  Identities=18%  Similarity=0.268  Sum_probs=9.2

Q ss_pred             EEEEEEeCCCC
Q 029517           56 SKLVFWDLGGQ   66 (192)
Q Consensus        56 ~~~~i~D~~G~   66 (192)
                      ..+.+|||||.
T Consensus       160 ~~~~~iDtpG~  170 (171)
T cd01856         160 PGIYLLDTPGI  170 (171)
T ss_pred             CCEEEEECCCC
Confidence            46899999994

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.

>TIGR01968 minD_bact septum site-determining protein MinD

Probab=90.11  E-value=1.5  Score=33.47  Aligned_cols=65  Identities=11%  Similarity=0.059  Sum_probs=45.4

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCC
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDL  125 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl  125 (192)
                      .+.+.|+|+|+....  .....+..+|.+|+++.++ ..++..+...+..+....   ..++.++.|+.+.
T Consensus       111 ~~D~viiD~p~~~~~--~~~~~l~~aD~viiv~~~~-~~s~~~~~~~~~~l~~~~---~~~~~iviN~~~~  175 (261)
T TIGR01968       111 EFDYVIIDCPAGIES--GFRNAVAPADEAIVVTTPE-VSAVRDADRVIGLLEAKG---IEKIHLIVNRLRP  175 (261)
T ss_pred             hCCEEEEeCCCCcCH--HHHHHHHhCCeEEEEcCCC-cHHHHHHHHHHHHHHHcC---CCceEEEEeCcCc
Confidence            478999999997532  2334567899999999885 455666666655555442   2367788999875

This model describes the bacterial and chloroplast form of MinD, a multifunctional cell division protein that guides correct placement of the septum. The homologous archaeal MinD proteins, with many archaeal genomes having two or more forms, are described by a separate model.

>TIGR01969 minD_arch cell division ATPase MinD, archaeal

Probab=90.09  E-value=1.9  Score=32.65  Aligned_cols=77  Identities=13%  Similarity=0.141  Sum_probs=47.1

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCc-EEEEEeCCCCCC-CCCHH
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAP-LLILANKQDLPD-AVSAD  132 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~p-iiiv~nK~Dl~~-~~~~~  132 (192)
                      .+.+.|+|+|+....  .....+..+|.++++++++ ..++..+........ .   .+.+ +.++.|+.+... ....+
T Consensus       108 ~yD~VIiD~p~~~~~--~~~~~l~~ad~vliv~~~~-~~s~~~~~~~~~~~~-~---~~~~~~~vv~N~~~~~~~~~~~~  180 (251)
T TIGR01969       108 DTDFLLIDAPAGLER--DAVTALAAADELLLVVNPE-ISSITDALKTKIVAE-K---LGTAILGVVLNRVTRDKTELGRE  180 (251)
T ss_pred             hCCEEEEeCCCccCH--HHHHHHHhCCeEEEEECCC-CchHHHHHHHHHHHH-h---cCCceEEEEEECCCchhhhhHHH
Confidence            578999999997543  3334567899999999986 444555444333222 2   2344 568999998642 22234


Q ss_pred             HHHhHc
Q 029517          133 ELARYL  138 (192)
Q Consensus       133 ~~~~~~  138 (192)
                      ++.+.+
T Consensus       181 ~l~~~~  186 (251)
T TIGR01969       181 EIETIL  186 (251)
T ss_pred             HHHHhh
Confidence            444443

This model represents the archaeal branch of the MinD family. MinD, a weak ATPase, works in bacteria with MinC as a generalized cell division inhibitor and, through interaction with MinE, prevents septum placement inappropriate sites. Often several members of this family are found in archaeal genomes, and the function is uncharacterized. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. The exact roles of the various archaeal MinD homologs are unknown.

>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=90.02  E-value=0.051  Score=38.89  Aligned_cols=53  Identities=11%  Similarity=0.019  Sum_probs=22.1

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCccc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGL   69 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~   69 (192)
                      |||++|+|++.....+..+......---.|.......+   +-...+.||||...+
T Consensus        48 KSSLiN~L~~~~~~~t~~is~~~~rGkHTTt~~~l~~l---~~g~~iIDTPGf~~~  100 (161)
T PF03193_consen   48 KSSLINALLPEAKQKTGEISEKTGRGKHTTTHRELFPL---PDGGYIIDTPGFRSF  100 (161)
T ss_dssp             HHHHHHHHHTSS----S--------------SEEEEEE---TTSEEEECSHHHHT-
T ss_pred             HHHHHHHHHhhcchhhhhhhcccCCCcccCCCeeEEec---CCCcEEEECCCCCcc
Confidence            78888888876554444444332211122222323333   224589999996543

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.

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=89.99  E-value=2.1  Score=27.64  Aligned_cols=45  Identities=18%  Similarity=0.223  Sum_probs=33.2

Q ss_pred             EEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHH
Q 029517           56 SKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALE  103 (192)
Q Consensus        56 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~  103 (192)
                      +.+.++|+|+.....  ....+..+|.++++++.+ ..++..+..+++
T Consensus        40 ~d~viiD~p~~~~~~--~~~~l~~ad~viv~~~~~-~~s~~~~~~~~~   84 (104)
T cd02042          40 YDYIIIDTPPSLGLL--TRNALAAADLVLIPVQPS-PLDLDGLEKLLE   84 (104)
T ss_pred             CCEEEEeCcCCCCHH--HHHHHHHCCEEEEeccCC-HHHHHHHHHHHH
Confidence            678999999975332  336778899999999885 455666666655

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.

>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=89.77  E-value=2.4  Score=30.30  Aligned_cols=66  Identities=20%  Similarity=0.182  Sum_probs=39.7

Q ss_pred             CEEEEEEeCCCCcccHHH----HHHhh--hcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           55 NSKLVFWDLGGQPGLRSI----WEKYY--EEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~----~~~~~--~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      +..+.|.|++|...+...    .....  ...+.+++|+|+....   ...+....+.+..   + ..-++.||.|...
T Consensus        82 ~~d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~~~~---~~~~~~~~~~~~~---~-~~~viltk~D~~~  153 (173)
T cd03115          82 NFDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTGQ---DAVNQAKAFNEAL---G-ITGVILTKLDGDA  153 (173)
T ss_pred             CCCEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECCCCh---HHHHHHHHHHhhC---C-CCEEEEECCcCCC
Confidence            567889999997532221    11111  3489999999986432   2334444444332   2 3567779999765

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.

>CHL00175 minD septum-site determining protein; Validated

Probab=89.75  E-value=1.7  Score=33.84  Aligned_cols=65  Identities=11%  Similarity=0.045  Sum_probs=44.5

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCC
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDL  125 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl  125 (192)
                      .+.+.|+|+|+.-.  ......+..+|.+++|++++ ..++..+...+..+.+..   ...+-+++|+.+.
T Consensus       126 ~yD~VIiDtpp~~~--~~~~~~l~~aD~viiV~~p~-~~si~~~~~~~~~l~~~~---~~~~~lvvN~~~~  190 (281)
T CHL00175        126 GYDYILIDCPAGID--VGFINAIAPAQEAIVVTTPE-ITAIRDADRVAGLLEANG---IYNVKLLVNRVRP  190 (281)
T ss_pred             CCCEEEEeCCCCCC--HHHHHHHHhcCeeEEEcCCC-hHHHHHHHHHHHHHHHcC---CCceEEEEeccCh
Confidence            57899999999753  23344567899999999876 445666666665555432   2345678899974

>PRK00098 GTPase RsgA; Reviewed

Probab=89.70  E-value=0.28  Score=38.78  Aligned_cols=53  Identities=11%  Similarity=-0.006  Sum_probs=30.0

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcc
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPG   68 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~   68 (192)
                      =|||++|+|++........++.......-.|.......+..   ...++||||...
T Consensus       176 GKStlin~l~~~~~~~~g~v~~~~~~G~htT~~~~~~~~~~---~~~~~DtpG~~~  228 (298)
T PRK00098        176 GKSTLLNALAPDLELKTGEISEALGRGKHTTTHVELYDLPG---GGLLIDTPGFSS  228 (298)
T ss_pred             CHHHHHHHHhCCcCCCCcceeccCCCCCcccccEEEEEcCC---CcEEEECCCcCc
Confidence            37899999987766555555442222212333333333332   248999999754

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=89.64  E-value=2.1  Score=35.71  Aligned_cols=66  Identities=14%  Similarity=0.119  Sum_probs=39.4

Q ss_pred             CEEEEEEeCCCCcccHHH----HHHh--hhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           55 NSKLVFWDLGGQPGLRSI----WEKY--YEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~----~~~~--~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      .+.+.|+||+|.......    ...+  ....+-+++|+|++....-.   .....+.+.    -.+--+|+||.|...
T Consensus       182 ~~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~Gq~a~---~~a~~F~~~----~~~~g~IlTKlD~~a  253 (429)
T TIGR01425       182 NFDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAAE---AQAKAFKDS----VDVGSVIITKLDGHA  253 (429)
T ss_pred             CCCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccChhHH---HHHHHHHhc----cCCcEEEEECccCCC
Confidence            578999999996543222    1222  12467899999987553222   222222221    235667899999754

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.

>TIGR00959 ffh signal recognition particle protein

Probab=89.09  E-value=2  Score=35.83  Aligned_cols=67  Identities=15%  Similarity=0.156  Sum_probs=39.1

Q ss_pred             cCEEEEEEeCCCCcccHH----HHHHh--hhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           54 SNSKLVFWDLGGQPGLRS----IWEKY--YEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~----~~~~~--~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      ..+.+.|+||+|......    ....+  .-..+.+++|+|+...   +.+......+....   + ..=+|.||.|...
T Consensus       181 ~~~DvVIIDTaGr~~~d~~l~~eL~~i~~~~~p~e~lLVvda~tg---q~~~~~a~~f~~~v---~-i~giIlTKlD~~~  253 (428)
T TIGR00959       181 NGFDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMTG---QDAVNTAKTFNERL---G-LTGVVLTKLDGDA  253 (428)
T ss_pred             cCCCEEEEeCCCccccCHHHHHHHHHHHHhhCCceEEEEEeccch---HHHHHHHHHHHhhC---C-CCEEEEeCccCcc
Confidence            356899999999643211    11111  2357889999998754   33333434443221   2 3456799999654

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>PRK13505 formate--tetrahydrofolate ligase; Provisional

Probab=88.77  E-value=1.8  Score=37.10  Aligned_cols=57  Identities=23%  Similarity=0.180  Sum_probs=42.6

Q ss_pred             CCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeee--cCCCCHHHHHHHHHHHHH
Q 029517          112 QGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSG--YDGFGIKESVEWLVEVME  173 (192)
Q Consensus       112 ~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa--~~~~gi~e~~~~i~~~i~  173 (192)
                      .++|+++++||.|.....+.+.+.+++.     ..++++..+..  +-|.|-.++-+.+.+.+.
T Consensus       371 FGvPvVVAINKFd~DTe~Ei~~I~~~c~-----e~Gv~va~~~~~~~Gg~Gai~LA~aVveA~~  429 (557)
T PRK13505        371 FGVPVVVAINKFVTDTDAEIAALKELCE-----ELGVEVALSEVWAKGGEGGVELAEKVVELIE  429 (557)
T ss_pred             cCCCEEEEEeCCCCCCHHHHHHHHHHHH-----HcCCCEEEecccccCCcchHHHHHHHHHHHh
Confidence            4799999999999876556677888887     55667665554  447788888777777666

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=88.75  E-value=4.9  Score=33.68  Aligned_cols=65  Identities=18%  Similarity=0.171  Sum_probs=38.0

Q ss_pred             EEEEEEeCCCCcccHHHH----HH--hhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           56 SKLVFWDLGGQPGLRSIW----EK--YYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        56 ~~~~i~D~~G~~~~~~~~----~~--~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      ..+.|+||+|........    ..  ....+|.+++|+|++...   .+......+...   . ...-+|.||.|...
T Consensus       176 ~DvVIIDTAGr~~~d~~lm~El~~l~~~~~pdevlLVvda~~gq---~av~~a~~F~~~---l-~i~gvIlTKlD~~a  246 (437)
T PRK00771        176 ADVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIGQ---QAKNQAKAFHEA---V-GIGGIIITKLDGTA  246 (437)
T ss_pred             CCEEEEECCCcccchHHHHHHHHHHHHHhcccceeEEEeccccH---HHHHHHHHHHhc---C-CCCEEEEecccCCC
Confidence            478999999976433221    11  133688999999987642   222222332221   1 12356789999754

>cd02032 Bchl_like This family of proteins contains bchL and chlL

Probab=88.66  E-value=1.8  Score=33.46  Aligned_cols=69  Identities=14%  Similarity=0.139  Sum_probs=42.0

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcE-EEEEeCCCC
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL-LILANKQDL  125 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~pi-iiv~nK~Dl  125 (192)
                      ++.+.|.||+|...... ....+..+|.+|+++.++ ..++..+...+..+.......+.++ .++.|+.|.
T Consensus       115 ~yD~vIIDt~g~~~~~~-~~~al~~aD~vlip~~p~-~~~l~~~~~~~~~i~~~~~~~~l~~~giV~Nr~~~  184 (267)
T cd02032         115 EYDVILFDVLGDVVCGG-FAAPLNYADYALIVTDND-FDSIFAANRIAAAVREKAKTYKVRLAGLIANRTDK  184 (267)
T ss_pred             cCCEEEEeCCCCccccc-chhhhhhcCEEEEEecCC-cccHHHHHHHHHHHHHHhhccCCceEEEEEeCCCH
Confidence            57899999988643211 122367899999999875 4445555554444432211134553 467899984

Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are involved in light-independent protochlorophyllide reduction in bacteriochlorophyll biosynthesis. In cyanobacteria, algae, and gymnosperms, three similar genes, chlL, chlN and chlB are involved in protochlorophyllide reduction during chlorophylls biosynthesis. BchL/chlL, bchN/chlN and bchB/chlB exhibit significant sequence similarity to the nifH, nifD and nifK subunits of nitrogenase, respectively. Nitrogenase catalyzes the reductive formation of ammonia from dinitrogen.

>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.28  E-value=2.6  Score=34.63  Aligned_cols=47  Identities=21%  Similarity=0.345  Sum_probs=29.9

Q ss_pred             EEecCEEEEEEeCCCCccc-HHHHHHh-----hhcCCEEEEEEeCCCcccHHH
Q 029517           51 IEVSNSKLVFWDLGGQPGL-RSIWEKY-----YEEAHAVVFVIDAACPSRFED   97 (192)
Q Consensus        51 ~~~~~~~~~i~D~~G~~~~-~~~~~~~-----~~~~d~ii~v~D~~~~~s~~~   97 (192)
                      +...++.+.|+||+|.-.- ..+.+..     .-+.|-+|+|+|++-..+-+.
T Consensus       179 fKke~fdvIIvDTSGRh~qe~sLfeEM~~v~~ai~Pd~vi~VmDasiGQaae~  231 (483)
T KOG0780|consen  179 FKKENFDVIIVDTSGRHKQEASLFEEMKQVSKAIKPDEIIFVMDASIGQAAEA  231 (483)
T ss_pred             HHhcCCcEEEEeCCCchhhhHHHHHHHHHHHhhcCCCeEEEEEeccccHhHHH
Confidence            4456789999999994321 1111111     124799999999987654443

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=88.20  E-value=3.7  Score=32.95  Aligned_cols=100  Identities=21%  Similarity=0.133  Sum_probs=57.8

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhh--------cCCEEEEEEeCCCcccHHH-HHHHHHHHHhCCCCCCCcEEEEEeCCCC
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYE--------EAHAVVFVIDAACPSRFED-SKTALEKVLRNEDLQGAPLLILANKQDL  125 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~--------~~d~ii~v~D~~~~~s~~~-~~~~~~~i~~~~~~~~~piiiv~nK~Dl  125 (192)
                      .+...++.+.|-..-.+....+..        ..|++|-|+|+..-..... +.+.........      =++++||.|+
T Consensus        84 ~~D~ivIEtTGlA~P~pv~~t~~~~~~l~~~~~ld~vvtvVDa~~~~~~~~~~~~~~~~Qia~A------D~ivlNK~Dl  157 (323)
T COG0523          84 RPDRLVIETTGLADPAPVIQTFLTDPELADGVRLDGVVTVVDAAHFLEGLDAIAELAEDQLAFA------DVIVLNKTDL  157 (323)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHhccccccccceeeceEEEEEeHHHhhhhHHHHHHHHHHHHHhC------cEEEEecccC
Confidence            366788999997655454444333        2588999999976433222 333333333332      3588999999


Q ss_pred             CCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHH
Q 029517          126 PDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKES  164 (192)
Q Consensus       126 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~  164 (192)
                      .+....+.+.+.+..   -+...+++.+|. .+....++
T Consensus       158 v~~~~l~~l~~~l~~---lnp~A~i~~~~~-~~~~~~~l  192 (323)
T COG0523         158 VDAEELEALEARLRK---LNPRARIIETSY-GDVDLAEL  192 (323)
T ss_pred             CCHHHHHHHHHHHHH---hCCCCeEEEccc-cCCCHHHh
Confidence            874444444444431   134567777776 33344333

>PRK13185 chlL protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional

Probab=87.37  E-value=1.9  Score=33.29  Aligned_cols=69  Identities=10%  Similarity=0.081  Sum_probs=43.0

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcE-EEEEeCCCC
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL-LILANKQDL  125 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~pi-iiv~nK~Dl  125 (192)
                      ++.+.|+||+|...... ....+..+|.+|+++.++ ..++..+...+..+.......+.++ -++.|+.+.
T Consensus       117 ~yD~viIDt~g~~~~~~-~~~~l~~AD~viip~~~~-~~sl~~~~~~~~~i~~~~~~~~l~i~giv~N~~~~  186 (270)
T PRK13185        117 DYDVILFDVLGDVVCGG-FAAPLQYADYALIVTAND-FDSIFAANRIAAAIQAKAKNYKVRLAGVIANRSAG  186 (270)
T ss_pred             cCCEEEEecCCCcccCc-ccchhhhCcEEEEEecCc-hhhHHHHHHHHHHHHhhhhccCCCceEEEEeccCh
Confidence            57899999988642221 223367799999999764 4556665555554443221245664 478899773

>PRK13796 GTPase YqeH; Provisional

Probab=87.29  E-value=0.57  Score=38.20  Aligned_cols=50  Identities=8%  Similarity=-0.073  Sum_probs=25.3

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCc
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQP   67 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~   67 (192)
                      =|||++|+|+++..+....  .........|.+.....+..   ...++||||-.
T Consensus       172 GKSTLiN~L~~~~~~~~~~--~~~s~~pGTT~~~~~~~l~~---~~~l~DTPGi~  221 (365)
T PRK13796        172 GKSTLINRIIKEITGEKDV--ITTSRFPGTTLDKIEIPLDD---GSFLYDTPGII  221 (365)
T ss_pred             cHHHHHHHHHhhccCccce--EEecCCCCccceeEEEEcCC---CcEEEECCCcc
Confidence            4899999999765331100  00111112333332223322   24799999963

>KOG1424 consensus Predicted GTP-binding protein MMR1 [General function prediction only]

Probab=85.80  E-value=0.25  Score=41.62  Aligned_cols=45  Identities=16%  Similarity=0.211  Sum_probs=32.7

Q ss_pred             hhhccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCC
Q 029517           11 YIFTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGG   65 (192)
Q Consensus        11 ~~~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G   65 (192)
                      ++=|||.+|+|.++..-.++.+|+++  .+..       ++.. .-.+.++|+||
T Consensus       324 NVGKSSTINaLvG~KkVsVS~TPGkT--KHFQ-------Ti~l-s~~v~LCDCPG  368 (562)
T KOG1424|consen  324 NVGKSSTINALVGRKKVSVSSTPGKT--KHFQ-------TIFL-SPSVCLCDCPG  368 (562)
T ss_pred             CCchhHHHHHHhcCceeeeecCCCCc--ceeE-------EEEc-CCCceecCCCC
Confidence            46699999999999888777877765  2222       2222 33688999999

>KOG4273 consensus Uncharacterized conserved protein [Function unknown]

Probab=85.80  E-value=1.5  Score=33.80  Aligned_cols=45  Identities=29%  Similarity=0.230  Sum_probs=32.8

Q ss_pred             hcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCC-cEEEEEeCCCCC
Q 029517           78 EEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGA-PLLILANKQDLP  126 (192)
Q Consensus        78 ~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~-piiiv~nK~Dl~  126 (192)
                      ....++++|||.+....+..++.|+....-.    .. .++.++||.|..
T Consensus        77 ~pl~a~vmvfdlse~s~l~alqdwl~htdin----sfdillcignkvdrv  122 (418)
T KOG4273|consen   77 EPLQAFVMVFDLSEKSGLDALQDWLPHTDIN----SFDILLCIGNKVDRV  122 (418)
T ss_pred             cceeeEEEEEeccchhhhHHHHhhccccccc----cchhheecccccccc
Confidence            4467899999999998999999986533221    22 355689999974

>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase

Probab=85.66  E-value=3.7  Score=30.52  Aligned_cols=72  Identities=10%  Similarity=0.067  Sum_probs=41.8

Q ss_pred             cCEEEEEEeCCCCcccHHHHH-HhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCC-cEEEEEeCCCCC
Q 029517           54 SNSKLVFWDLGGQPGLRSIWE-KYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGA-PLLILANKQDLP  126 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~-~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~-piiiv~nK~Dl~  126 (192)
                      .++.+.++|++|......... ...+.+|.++++++++ ..++..+...++.+.......+. ...++.|+.+..
T Consensus       115 ~~yD~ilID~~g~~~~~~~~~~l~~~~ad~vliv~~p~-~~sl~~~~~l~~~i~~~~~~~~~~~~gvv~N~~~~~  188 (212)
T cd02117         115 DDLDVVLYDVLGDVVCGGFAMPIREGKADEIYIVTSGE-FMALYAANNICKGIRKYAKSGGVRLGGLICNSRNTD  188 (212)
T ss_pred             cCCCEEEEecCCCceecccccccccccCcEEEEEeccc-HHHHHHHHHHHHHHHHhCcccCCcEEEEEEeCCCCc
Confidence            357899999987542111110 0124799999999875 44454444444444433221233 355899999854

Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.

>PRK10818 cell division inhibitor MinD; Provisional

Probab=85.51  E-value=4.2  Score=31.36  Aligned_cols=115  Identities=10%  Similarity=-0.005  Sum_probs=64.9

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCC-----CCCCCcEEEEEeCCCCCC--
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNE-----DLQGAPLLILANKQDLPD--  127 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~-----~~~~~piiiv~nK~Dl~~--  127 (192)
                      .+.+.|.|+|+.....  ....+..+|.++++++++ ..++..+...+..+....     ...+.+..++.|+.|...  
T Consensus       113 ~yd~viiD~p~~~~~~--~~~~l~~ad~vivv~~p~-~~sl~~~~~~l~~i~~~~~~~~~~~~~~~~~vv~n~~~~~~~~  189 (270)
T PRK10818        113 DFEFIVCDSPAGIETG--ALMALYFADEAIITTNPE-VSSVRDSDRILGILASKSRRAENGEEPIKEHLLLTRYNPGRVS  189 (270)
T ss_pred             CCCEEEEeCCCCccHH--HHHHHHhCCeEEEEcCCC-chHHHhHHHHHHHHHHhhccccccccccceEEEEeccCHhhhh
Confidence            5789999999876432  334568899999999986 445666655555554211     111234577889887532  


Q ss_pred             ---CCCHHHHHhHcCcc------------ccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          128 ---AVSADELARYLDLK------------KLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       128 ---~~~~~~~~~~~~~~------------~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                         ....+++.+.....            .....+.++. .  ..+.-....+..|.+.+...
T Consensus       190 ~~~~~~~~~~~~~~g~~~~~~Ip~~~~v~~a~~~G~~v~-~--~~~~~~~~~~~~la~~l~~~  249 (270)
T PRK10818        190 RGDMLSMEDVLEILRIKLVGVIPEDQSVLRASNQGEPVI-L--DIEADAGKAYADTVDRLLGE  249 (270)
T ss_pred             hcccccHHHHHHHhCCcEEEEecCCHHHHHHHHcCCeeE-e--CCCCHHHHHHHHHHHHHhCC
Confidence               11234444433311            0112234433 1  22334566688887777643

>TIGR03815 CpaE_hom_Actino helicase/secretion neighborhood CpaE-like protein

Probab=85.00  E-value=8.1  Score=30.77  Aligned_cols=77  Identities=19%  Similarity=0.190  Sum_probs=50.8

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHH
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADEL  134 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~  134 (192)
                      .+.+.|+|+|+....  .....+..+|.+++|++.+ ..++..+..++..+....    ..+-++.|.... .....+++
T Consensus       204 ~~D~VIID~p~~~~~--~~~~~L~~AD~vliV~~~~-~~sl~~a~r~l~~l~~~~----~~~~lVv~~~~~-~~~~~~~i  275 (322)
T TIGR03815       204 GGDLVVVDLPRRLTP--AAETALESADLVLVVVPAD-VRAVAAAARVCPELGRRN----PDLRLVVRGPAP-AGLDPEEI  275 (322)
T ss_pred             cCCEEEEeCCCCCCH--HHHHHHHHCCEEEEEcCCc-HHHHHHHHHHHHHHhhhC----CCeEEEEeCCCC-CCCCHHHH
Confidence            578999999997542  3556788999999999875 445666666666554432    234455676432 34456777


Q ss_pred             HhHcC
Q 029517          135 ARYLD  139 (192)
Q Consensus       135 ~~~~~  139 (192)
                      .+.+.
T Consensus       276 ~~~lg  280 (322)
T TIGR03815       276 AESLG  280 (322)
T ss_pred             HHHhC
Confidence            77665

Members of this protein family belong to the MinD/ParA family of P-loop NTPases, and in particular show homology to the CpaE family of pilus assembly proteins (see PubMed:12370432). Nearly all members are found, not only in a gene context consistent with pilus biogenesis or a pilus-like secretion apparatus, but also near a DEAD/DEAH-box helicase, suggesting an involvement in DNA transfer activity. The model describes a clade restricted to the Actinobacteria.

>PRK10867 signal recognition particle protein; Provisional

Probab=84.89  E-value=4.3  Score=34.00  Aligned_cols=67  Identities=15%  Similarity=0.167  Sum_probs=37.8

Q ss_pred             cCEEEEEEeCCCCcccHH----HHHHh--hhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           54 SNSKLVFWDLGGQPGLRS----IWEKY--YEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~----~~~~~--~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      ..+.+.|+||+|......    .....  .-..+.+++|+|+...   +.+......+.+.   .+ ..-+|.||.|...
T Consensus       182 ~~~DvVIIDTaGrl~~d~~lm~eL~~i~~~v~p~evllVlda~~g---q~av~~a~~F~~~---~~-i~giIlTKlD~~~  254 (433)
T PRK10867        182 NGYDVVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMTG---QDAVNTAKAFNEA---LG-LTGVILTKLDGDA  254 (433)
T ss_pred             cCCCEEEEeCCCCcccCHHHHHHHHHHHHhhCCCeEEEEEecccH---HHHHHHHHHHHhh---CC-CCEEEEeCccCcc
Confidence            357899999999643211    11111  1256788999998643   3333333333322   11 2346679999654

>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases

Probab=83.56  E-value=3.1  Score=30.03  Aligned_cols=68  Identities=15%  Similarity=0.082  Sum_probs=49.2

Q ss_pred             EEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           56 SKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        56 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      +.+.|.|+|+.....  ....+..+|.+|++++++. .+...+..++..+..... ....+.+|.||.+..+
T Consensus        95 yD~iiiD~~~~~~~~--~~~~l~~ad~viv~~~~~~-~~i~~~~~~~~~l~~~~~-~~~~~~vv~N~v~~~~  162 (195)
T PF01656_consen   95 YDYIIIDTPPGLSDP--VRNALAAADYVIVPIEPDP-SSIEGAERLIELLKRLGK-KLKIIGVVINRVDPGN  162 (195)
T ss_dssp             SSEEEEEECSSSSHH--HHHHHHTSSEEEEEEESSH-HHHHHHHHHHHHHHHHTH-TEEEEEEEEEEETSCC
T ss_pred             ccceeecccccccHH--HHHHHHhCceeeeecCCcH-HHHHHHHHHHHHHHHhcc-ccceEEEEEeeeCCCc
Confidence            788999999975433  5557789999999999874 457777777776665421 1235678999998653

These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=83.14  E-value=1.2  Score=36.28  Aligned_cols=48  Identities=15%  Similarity=0.072  Sum_probs=25.2

Q ss_pred             hccccHHHHHHHHhhh--hccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCc
Q 029517           13 FTKTEFHTLLEKLKSV--YSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQP   67 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~--~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~   67 (192)
                      =|||++|+|+++....  ...++    .....|.+..  .+.. .-.+.++||||-.
T Consensus       166 GKStliN~l~~~~~~~~~~~~~s----~~pgtT~~~~--~~~~-~~~~~l~DtPG~~  215 (360)
T TIGR03597       166 GKSSLINKLLKQNNGDKDVITTS----PFPGTTLDLI--EIPL-DDGHSLYDTPGII  215 (360)
T ss_pred             CHHHHHHHHHhhccCCcceeeec----CCCCeEeeEE--EEEe-CCCCEEEECCCCC
Confidence            4899999999865421  01111    1122333333  2222 1235799999954

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.

>TIGR03029 EpsG chain length determinant protein tyrosine kinase EpsG

Probab=83.07  E-value=8.5  Score=29.75  Aligned_cols=62  Identities=13%  Similarity=0.082  Sum_probs=41.6

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCc-EEEEEeC
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAP-LLILANK  122 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~p-iiiv~nK  122 (192)
                      .+.+.|+|+|...... ........+|++|+|+... ..+...+...++.+...    +.+ +=+|+|+
T Consensus       212 ~yD~ViiD~pp~~~~~-d~~~~~~~~d~vilV~~~~-~t~~~~~~~~~~~l~~~----~~~~~G~VlN~  274 (274)
T TIGR03029       212 DYDVVIVDTPSAEHSS-DAQIVATRARGTLIVSRVN-ETRLHELTSLKEHLSGV----GVRVVGAVLNQ  274 (274)
T ss_pred             cCCEEEEeCCCccccc-HHHHHHHhCCeEEEEEECC-CCCHHHHHHHHHHHHhC----CCCEEEEEeCC
Confidence            5789999999864322 2334567899999999875 45677777777776654    333 4455564

The proteins in this family are homologs of the EpsG protein found in Methylobacillus strain 12S and are generally found in operons with other Eps homologs. The protein is believed to function as the protein tyrosine kinase component of the chain length regulator (along with the transmembrane component EpsF).

>CHL00072 chlL photochlorophyllide reductase subunit L

Probab=82.89  E-value=5.1  Score=31.55  Aligned_cols=116  Identities=7%  Similarity=0.023  Sum_probs=62.3

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCc-EEEEEeCCCCCCCCCHHH
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAP-LLILANKQDLPDAVSADE  133 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~p-iiiv~nK~Dl~~~~~~~~  133 (192)
                      ++.+.++||+|...... ....+..||.+|++++++ ..++..+...++.+.......+.+ .-++.|+.+...  ..++
T Consensus       115 ~yD~IiIDt~~~l~~~a-~~aal~~AD~viIp~~p~-~~sl~~~~~l~~~i~~~~~~~~l~~~gvv~n~~~~~~--~~~~  190 (290)
T CHL00072        115 EYDIILFDVLGDVVCGG-FAAPLNYADYCIIITDNG-FDALFAANRIAASVREKARTHPLRLAGLVGNRTSKRD--LIDK  190 (290)
T ss_pred             cCCEEEEecCCcceech-hhhhhhcCCEEEEEecCC-HHHHHHHHHHHHHHHHHhccCCCceEEEEEeCCCchh--HHHH
Confidence            56899999988632221 223457899999999875 445555555544443322113443 447889997422  1222


Q ss_pred             HHhHcCcc------------ccCCcceEEEEeeecCCCC---HHHHHHHHHHHHHhc
Q 029517          134 LARYLDLK------------KLDERVCMFEAVSGYDGFG---IKESVEWLVEVMERS  175 (192)
Q Consensus       134 ~~~~~~~~------------~~~~~~~~~~~~Sa~~~~g---i~e~~~~i~~~i~~~  175 (192)
                      ..+.+...            .....+.++++.+. ...+   .-..+..+.+.+...
T Consensus       191 ~~~~~~~~vl~~Ip~~~~v~~A~~~g~pv~~~~p-~s~~~~~~a~~y~~La~ell~~  246 (290)
T CHL00072        191 YVEACPMPVLEVLPLIEDIRVSRVKGKTLFEMVE-SEPSLNYVCDYYLNIADQLLSQ  246 (290)
T ss_pred             HHHHcCCceEEECCCChHHHHHHhCCCceEEeCC-CCcchhHHHHHHHHHHHHHHhC
Confidence            22222210            11123455555533 3333   456677777777654

>PF07015 VirC1: VirC1 protein; InterPro: IPR009744 This family consists of several bacterial VirC1 proteins

Probab=82.83  E-value=4.3  Score=30.90  Aligned_cols=101  Identities=9%  Similarity=0.077  Sum_probs=59.3

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHH---HHHHHHHHhCCCCCCCcEEEEEeCCCCCCC-CC
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDS---KTALEKVLRNEDLQGAPLLILANKQDLPDA-VS  130 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~---~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~-~~  130 (192)
                      .+.+.|+|+.|....  .....+..+|.+|+=.-.+..+ .++.   ..|+.+..+.. ..++|.-++.|++.-... ..
T Consensus        83 ~~d~VlvDleG~as~--~~~~aia~sDlVlIP~~~s~lD-~~eA~~t~~~v~~~~~~~-~~~ip~~Vl~Tr~~~~~~~~~  158 (231)
T PF07015_consen   83 GFDFVLVDLEGGASE--LNDYAIARSDLVLIPMQPSQLD-ADEAAKTFKWVRRLEKAE-RRDIPAAVLFTRVPAARLTRA  158 (231)
T ss_pred             CCCEEEEeCCCCCch--hHHHHHHHCCEEEECCCCChHH-HHHHHHHHHHHHHHHHhh-CCCCCeeEEEecCCcchhhHH
Confidence            468999999997632  3445667899999888666332 3333   33444443321 257899999999973321 11


Q ss_pred             HHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHH
Q 029517          131 ADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVE  166 (192)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~  166 (192)
                      ...+.+.++       .++++.+.-.......++|.
T Consensus       159 ~~~~~e~~~-------~lpvl~t~l~eR~Af~~m~~  187 (231)
T PF07015_consen  159 QRIISEQLE-------SLPVLDTELHERDAFRAMFS  187 (231)
T ss_pred             HHHHHHHHh-------cCCccccccccHHHHHHHHH
Confidence            122333333       36677776666544444444

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 [].

>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein

Probab=81.21  E-value=4.5  Score=31.20  Aligned_cols=70  Identities=11%  Similarity=0.092  Sum_probs=42.1

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCc-EEEEEeCCCCC
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAP-LLILANKQDLP  126 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~p-iiiv~nK~Dl~  126 (192)
                      .+.+.|+||+|....... ...+..+|.+|+++.++ ..++..+...++.+.+.....+.+ ..+|.|+.+..
T Consensus       115 ~yD~ViID~~~~~~~~~~-~~~l~aAD~vlip~~~~-~~sl~~~~~l~~~i~~~~~~~~l~~~gIV~N~~~~~  185 (268)
T TIGR01281       115 DYDVILFDVLGDVVCGGF-ATPLQYADYALVVAAND-FDALFAANRIAASVQEKAKNYDVRLAGIIGNRSDAT  185 (268)
T ss_pred             cCCEEEEecCCccccCcc-ccchhhcCEEEEEecCc-hhHHHHHHHHHHHHHHHhhcCCCceEEEEEeCCChH
Confidence            578999999885321111 12467899999998664 445555555554444321113454 45788999754

The BchL peptide (ChlL in chloroplast and cyanobacteria) is an ATP-binding iron-sulfur protein of the dark form protochlorophyllide reductase, an enzyme similar to nitrogenase. This subunit resembles the nitrogenase NifH subunit.

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=80.53  E-value=7.5  Score=28.73  Aligned_cols=67  Identities=22%  Similarity=0.202  Sum_probs=37.9

Q ss_pred             cCEEEEEEeCCCCcccHHH----HHHhhh--cCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           54 SNSKLVFWDLGGQPGLRSI----WEKYYE--EAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~----~~~~~~--~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      +++.+.++||+|.......    ...+++  ..+-+++|++++...  +.+... ....+.   .+ +-=++.+|.|...
T Consensus        82 ~~~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~--~~~~~~-~~~~~~---~~-~~~lIlTKlDet~  154 (196)
T PF00448_consen   82 KGYDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMGQ--EDLEQA-LAFYEA---FG-IDGLILTKLDETA  154 (196)
T ss_dssp             TTSSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGG--HHHHHH-HHHHHH---SS-TCEEEEESTTSSS
T ss_pred             cCCCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccCh--HHHHHH-HHHhhc---cc-CceEEEEeecCCC
Confidence            3578999999997654332    222222  467899999987553  232222 222222   11 2346699999754

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=80.30  E-value=11  Score=23.19  Aligned_cols=64  Identities=19%  Similarity=0.089  Sum_probs=37.7

Q ss_pred             EEEEEeCCCCcccHHH-HHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEe
Q 029517           57 KLVFWDLGGQPGLRSI-WEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILAN  121 (192)
Q Consensus        57 ~~~i~D~~G~~~~~~~-~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~n  121 (192)
                      .+.++|+++....... .......+|.++++++... .+....................+..++.|
T Consensus        35 d~iivD~~~~~~~~~~~~~~~~~~~~~vi~v~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~vv~N   99 (99)
T cd01983          35 DYVLIDTPPGLGLLVLLCLLALLAADLVIIVTTPEA-LAVLGARRLTEVVLELAIEGLRPVGVVVN   99 (99)
T ss_pred             CEEEEeCCCCccchhhhhhhhhhhCCEEEEecCCch-hhHHHHHHHHHHHHHhhccCCceEEEEeC
Confidence            7899999997643321 1345678999999998863 33444444433233322223456666554

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	192
1moz_A	183	Adp-Ribosylation Factor-Like 1 (Arl1) From Saccharo		3e-25
2k5u_A	181	Solution Structure Of Myirstoylated Yeast Arf1 Prot		2e-24
3tjz_A	164	Crystal Structure Of Arf1 Bound To The GammaZETA-Co		2e-24
2h18_A	193	Structure Of Human Adp-Ribosylation Factor-Like 10b		6e-24
3lrp_A	181	Crystal Structure Of Plasmodium Falciparum Adp-Ribo		6e-24
1zd9_A	188	Structure Of Human Adp-Ribosylation Factor-Like 10b		7e-24
1mr3_F	181	Saccharomyces Cerevisiae Adp-Ribosylation Factor 2		8e-24
2ksq_A	181	The Myristoylated Yeast Arf1 In A Gtp And Bicelle B		1e-23
2al7_A	186	Structure Of Human Adp-Ribosylation Factor-Like 10c		1e-23
1rrg_A	181	Non-Myristoylated Rat Adp-Ribosylation Factor-1 Com		2e-23
2b6h_A	192	Structure Of Human Adp-Ribosylation Factor 5 Length		5e-23
1hur_A	180	Human Adp-Ribosylation Factor 1 Complexed With Gdp,		5e-23
3doe_A	192	Complex Of Arl2 And Bart, Crystal Form 1 Length = 1		9e-23
1r4a_A	165	Crystal Structure Of Gtp-Bound Adp-Ribosylation Fac		1e-22
1ksg_A	186	Complex Of Arl2 And Pde Delta, Crystal Form 1 Lengt		2e-22
1re0_A	164	Structure Of Arf1-Gdp Bound To Sec7 Domain Complexe		2e-22
1ksh_A	186	Complex Of Arl2 And Pde Delta, Crystal Form 2 (Nati		2e-22
1z6x_A	180	Structure Of Human Adp-Ribosylation Factor 4 Length		3e-22
3aq4_A	184	Molecular Insights Into Plant Cell Proliferation Di		4e-22
3o47_A	329	Crystal Structure Of Arfgap1-Arf1 Fusion Protein Le		4e-22
1z6y_A	179	Structure Of Human Adp-Ribosylation Factor-Like 5 L		4e-22
1zj6_A	187	Crystal Structure Of Human Arl5 Length = 187		5e-22
1ksj_A	186	Complex Of Arl2 And Pde Delta, Crystal Form 2 (Seme		5e-22
4dcn_A	166	Crystal Structure Analysis Of The Arfaptin2 Bar Dom		5e-22
3rd1_A	178	Structure Of An Adp Ribosylation Factor From Entamo		5e-22
2h16_A	183	Structure Of Human Adp-Ribosylation Factor-Like 5 (		6e-22
2h17_A	181	Structure Of Human Adp-Ribosylation Factor-Like 5 (		6e-22
2a5d_A	175	Structural Basis For The Activation Of Cholera Toxi		9e-22
1e0s_A	174	Small G Protein Arf6-Gdp Length = 174		1e-21
1yzg_A	179	Structure Of Human Adp-ribosylation Factor-like 8 L		1e-21
3n5c_A	162	Crystal Structure Of Arf6delta13 Complexed With Gdp		1e-21
4fme_C	160	Espg-Rab1-Arf6 Complex Length = 160		1e-21
4gok_B	169	The Crystal Structure Of Arl2gppnhp In Complex With		2e-21
1j2j_A	166	Crystal Structure Of Gga1 Gat N-terminal Region In		2e-21
3lvr_E	497	The Crystal Structure Of Asap3 In Complex With Arf6		3e-21
3pcr_B	162	Structure Of Espg-Arf6 Complex Length = 162		5e-21
2a5g_A	175	Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length		9e-21
3vhx_A	172	The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesi		9e-21
2w83_A	165	Crystal Structure Of The Arf6 Gtpase In Complex Wit		9e-21
1fzq_A	181	Crystal Structure Of Murine Arl3-Gdp Length = 181		4e-20
4goj_A	189	The Crystal Structure Of Full Length Arl3gppnhp In		4e-20
3bh7_A	164	Crystal Structure Of The Rp2-Arl3 Complex Bound To		1e-19
3bh6_A	164	Crystal Structure Of The Rp2-Arl3 Complex Bound To		9e-19
2h57_A	190	Crystal Structure Of Human Adp-Ribosylation Factor-		1e-18
1upt_A	171	Structure Of A Complex Of The Golgin-245 Grip Domai		3e-18
2x77_A	189	Crystal Structure Of Leishmania Major Adp Ribosylat		4e-18
4bas_A	199	Structure Of The Arl6 Bbs3 Small Gtpase From Trypan		1e-16
2qtv_B	167	Structure Of Sec23-Sar1 Complexed With The Active F		6e-14
1m2o_B	190	Crystal Structure Of The Sec23-Sar1 Complex Length		8e-14
2gao_A	208	Crystal Structure Of Human Sar1a In Complex With Gd		1e-11
2fmx_A	195	An Open Conformation Of Switch I Revealed By Sar1-g		3e-11
1f6b_A	198	Crystal Structure Of Sar1-Gdp Complex Length = 198		3e-11
2fa9_A	189	The Crystal Structure Of Sar1[h79g]-gdp Provides In		6e-11
1z06_A	189	Gppnhp-Bound Rab33 Gtpase Length = 189		2e-06
2g77_B	198	Crystal Structure Of Gyp1 Tbc Domain In Complex Wit		2e-06
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		3e-06
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		7e-06
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		2e-05
4fmc_B	171	Espg-Rab1 Complex Length = 171		2e-05
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		2e-05
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		2e-05
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		2e-05
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		2e-05
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		3e-05
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		3e-05
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		3e-05
4fmc_F	117	Espg-Rab1 Complex Length = 117		4e-05
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		7e-05
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		7e-05
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		7e-05
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		8e-05
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		9e-05
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		9e-05
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		1e-04
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		1e-04
2efc_B	181	Ara7-GdpATVPS9A Length = 181		2e-04
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		2e-04
2f7s_A	217	The Crystal Structure Of Human Rab27b Bound To Gdp		2e-04
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		2e-04
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		2e-04
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		3e-04
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		3e-04
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		4e-04
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		5e-04
3bfk_A	181	Crystal Structure Of Plasmodium Falciparum Rab11a I		5e-04
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		6e-04
2if0_A	200	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		6e-04
2fh5_B	214	The Structure Of The Mammalian Srp Receptor Length		7e-04
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		7e-04
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		8e-04
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		8e-04

>pdb|1MOZ|A Chain A, Adp-Ribosylation Factor-Like 1 (Arl1) From Saccharomyces Cerevisiae Length = 183

Iteration: 1
 Score =  111 bits (277), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 54/135 (40%), Positives = 81/135 (60%)
Query: 42  PTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTA 101
           PT+G N+  +   N KL  WDLGGQ  +R  W  YY +  AV+FV+D+    R   +   
Sbjct: 48  PTIGFNVETLSYKNLKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKE 107
Query: 102 LEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGI 161
           L  +L+ E+LQ A LL+ ANKQD P A+SA E+++ L+L +L +R     A S   G GI
Sbjct: 108 LHLMLQEEELQDAALLVFANKQDQPGALSASEVSKELNLVELKDRSWSIVASSAIKGEGI 167
Query: 162 KESVEWLVEVMERSK 176
            E ++WL++V++  +
Sbjct: 168 TEGLDWLIDVIKEEQ 182

>pdb|2K5U|A Chain A, Solution Structure Of Myirstoylated Yeast Arf1 Protein, Gdp- Bound Length = 181

Iteration: 1
 Score =  108 bits (270), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 47/135 (34%), Positives = 78/135 (57%)
Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PT+G N+  ++  N     WD+GGQ  +RS+W  YY     V+FV+D+   SR  +++ 
Sbjct: 46  IPTIGFNVETVQYKNISFTVWDVGGQDRIRSLWRHYYRNTEGVIFVVDSNDRSRIGEARE 105
Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            ++++L  ++L+ A  L+ ANKQDLP+A+SA E+   L L  +  R    +A     G G
Sbjct: 106 VMQRMLNEDELRNAAWLVFANKQDLPEAMSAAEITEKLGLHSIRNRPWFIQATCATSGEG 165
Query: 161 IKESVEWLVEVMERS 175
           + E +EWL   ++ S
Sbjct: 166 LYEGLEWLSNSLKNS 180

>pdb|3TJZ|A Chain A, Crystal Structure Of Arf1 Bound To The GammaZETA-Cop Core Complex Length = 164

Iteration: 1
 Score =  108 bits (270), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 47/135 (34%), Positives = 78/135 (57%)
Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PT+G N+  ++  N     WD+GGQ  +RS+W  YY     V+FV+D+   SR  +++ 
Sbjct: 29  IPTIGFNVETVQYKNISFTVWDVGGQDRIRSLWRHYYRNTEGVIFVVDSNDRSRIGEARE 88
Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            ++++L  ++L+ A  L+ ANKQDLP+A+SA E+   L L  +  R    +A     G G
Sbjct: 89  VMQRMLNEDELRNAAWLVFANKQDLPEAMSAAEITEKLGLHSIRNRPWFIQATCATSGEG 148
Query: 161 IKESVEWLVEVMERS 175
           + E +EWL   ++ S
Sbjct: 149 LYEGLEWLSNSLKNS 163

>pdb|2H18|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b (Arl10b) Length = 193

Iteration: 1
 Score =  107 bits (266), Expect = 6e-24,   Method: Compositional matrix adjust.
 Identities = 58/167 (34%), Positives = 92/167 (55%), Gaps = 6/167 (3%)
Query: 10  KYIFTKTEFHTLLEKL----KSVYSNV--EGLPPDRIVPTVGLNIGRIEVSNSKLVFWDL 63
           K +F K E    L  L    K+ + NV   G   + ++PTVG N+ +I   N  +  WD+
Sbjct: 24  KALFWKEEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRKITKGNVTIKLWDI 83
Query: 64  GGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQ 123
           GGQP  RS+WE+Y     A+V+++DAA   + E SK  L  +L    LQG P+L+L NK+
Sbjct: 84  GGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKR 143
Query: 124 DLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE 170
           DLP A+   EL   ++L  + +R     ++S  +   I  +++WL++
Sbjct: 144 DLPGALDEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQ 190

>pdb|3LRP|A Chain A, Crystal Structure Of Plasmodium Falciparum Adp-Ribosylation Factor 1 Length = 181

Iteration: 1
 Score =  107 bits (266), Expect = 6e-24,   Method: Compositional matrix adjust.
 Identities = 46/136 (33%), Positives = 77/136 (56%)
Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PT+G N+  +E  N     WD+GGQ  +R +W  YY     ++FV+D+    R +D++ 
Sbjct: 46  IPTIGFNVETVEFRNISFTVWDVGGQDKIRPLWRHYYSNTDGLIFVVDSNDRERIDDARE 105
Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            L +++  E+L+ A +L+ ANKQDLP+A+SA E+   L L  + ER    ++     G G
Sbjct: 106 ELHRMINEEELKDAIILVFANKQDLPNAMSAAEVTEKLHLNTIRERNWFIQSTCATRGDG 165
Query: 161 IKESVEWLVEVMERSK 176
           + E  +WL   +  +K
Sbjct: 166 LYEGFDWLTTHLNNAK 181

>pdb|1ZD9|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b Length = 188

Iteration: 1
 Score =  106 bits (265), Expect = 7e-24,   Method: Compositional matrix adjust.
 Identities = 55/156 (35%), Positives = 93/156 (59%), Gaps = 5/156 (3%)
Query: 26  KSVYSNV--EGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAV 83
           K+ + NV   G   + ++PTVG N+ +I   N  +  WD+GGQP  RS+WE+Y     A+
Sbjct: 35  KTTFVNVIASGQFNEDMIPTVGFNMRKITKGNVTIKLWDIGGQPRFRSMWERYCRGVSAI 94
Query: 84  VFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKL 143
           V+++DAA   + E SK  L  +L    LQG P+L+L NK+DLP A+   EL   ++L  +
Sbjct: 95  VYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALDEKELIEKMNLSAI 154
Query: 144 DER-VCMFEAVSGYDGFGIKESVEWLVEVMERSKRT 178
            +R +C + ++S  +   I  +++WL++   +S+R+
Sbjct: 155 QDREICCY-SISCKEKDNIDITLQWLIQ-HSKSRRS 188

>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 =  106 bits (264), Expect = 8e-24,   Method: Compositional matrix adjust.
 Identities = 46/128 (35%), Positives = 75/128 (58%)
Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PT+G N+  ++  N     WD+GGQ  +RS+W  YY     V+FVID+   SR  +++ 
Sbjct: 46  IPTIGFNVETVQYKNISFTVWDVGGQDRIRSLWRHYYRNTEGVIFVIDSNDRSRIGEARE 105
Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            ++++L  ++L+ A  L+ ANKQDLP+A+SA E+   L L  +  R    ++     G G
Sbjct: 106 VMQRMLNEDELRNAVWLVFANKQDLPEAMSAAEITEKLGLHSIRNRPWFIQSTCATSGEG 165
Query: 161 IKESVEWL 168
           + E +EWL
Sbjct: 166 LYEGLEWL 173

>pdb|2KSQ|A Chain A, The Myristoylated Yeast Arf1 In A Gtp And Bicelle Bound Conformation Length = 181

Iteration: 1
 Score =  105 bits (263), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 47/135 (34%), Positives = 77/135 (57%)
Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PT+G N+  ++  N     WD+GGQ  +RS+W  YY     V+FV+D+   SR  +++ 
Sbjct: 46  IPTIGFNVECVQYCNISFTVWDVGGQDRIRSLWRHYYCNTEGVIFVVDSNDRSRIGEARE 105
Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            ++++L  ++L  A  L+ ANKQDLP+A+SA E+   L L  +  R    +A     G G
Sbjct: 106 VMQRMLNEDELCNAAWLVFANKQDLPEAMSAAEITEKLGLHSIRNRPWFIQATCATSGEG 165
Query: 161 IKESVEWLVEVMERS 175
           + E +EWL   ++ S
Sbjct: 166 LYEGLEWLSNCLKNS 180

>pdb|2AL7|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10c Length = 186

Iteration: 1
 Score =  105 bits (263), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 51/148 (34%), Positives = 90/148 (60%), Gaps = 4/148 (2%)
Query: 26  KSVYSNV--EGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAV 83
           K+ + NV   G   + ++PTVG N+ ++   N  +  WD+GGQP  RS+WE+Y    +A+
Sbjct: 35  KTTFVNVIASGQFSEDMIPTVGFNMRKVTKGNVTIKIWDIGGQPRFRSMWERYCRGVNAI 94
Query: 84  VFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKL 143
           V++IDAA   + E S+  L  +L    LQG P+L+L NK+DLP+A+   +L   ++L  +
Sbjct: 95  VYMIDAADREKIEASRNELHNLLDKPQLQGIPVLVLGNKRDLPNALDEKQLIEKMNLSAI 154
Query: 144 DER-VCMFEAVSGYDGFGIKESVEWLVE 170
            +R +C + ++S  +   I  +++WL++
Sbjct: 155 QDREICCY-SISCKEKDNIDITLQWLIQ 181

>pdb|1RRG|A Chain A, Non-Myristoylated Rat Adp-Ribosylation Factor-1 Complexed With Gdp, Dimeric Crystal Form Length = 181

Iteration: 1
 Score =  105 bits (261), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 57/181 (31%), Positives = 94/181 (51%), Gaps = 5/181 (2%)
Query: 1   MFSLFYGLWKYIFTKTEFHTLLEKLKSVYSN--VEGLPPDRIV---PTVGLNIGRIEVSN 55
           M ++F  L+K +F K E   L+  L +      +  L    IV   PT+G N+  +E  N
Sbjct: 1   MGNIFANLFKGLFGKKEMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKN 60
Query: 56  SKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAP 115
                WD+GGQ  +R +W  Y++    ++FV+D+    R  +++  L ++L  ++L+ A 
Sbjct: 61  ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAV 120
Query: 116 LLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS 175
           LL+ ANKQDLP+A++A E+   L L  L  R    +A     G G+ E ++WL   +   
Sbjct: 121 LLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLRNQ 180
Query: 176 K 176
           K
Sbjct: 181 K 181

>pdb|2B6H|A Chain A, Structure Of Human Adp-Ribosylation Factor 5 Length = 192

Iteration: 1
 Score =  103 bits (258), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 48/137 (35%), Positives = 79/137 (57%), Gaps = 2/137 (1%)
Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PT+G N+  +E  N     WD+GGQ  +R +W  Y++    ++FV+D+    R ++S  
Sbjct: 58  IPTIGFNVETVEYKNICFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVQESAD 117
Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            L+K+L+ ++L+ A LL+ ANKQD+P+A+   EL   L L+ L  R    +A     G G
Sbjct: 118 ELQKMLQEDELRDAVLLVFANKQDMPNAMPVSELTDKLGLQHLRSRTWYVQATCATQGTG 177
Query: 161 IKESVEWLVEVMERSKR 177
           + + ++WL    E SKR
Sbjct: 178 LYDGLDWLSH--ELSKR 192

>pdb|1HUR|A Chain A, Human Adp-Ribosylation Factor 1 Complexed With Gdp, Full Length = 180

Iteration: 1
 Score =  103 bits (258), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 56/179 (31%), Positives = 93/179 (51%), Gaps = 5/179 (2%)
Query: 3   SLFYGLWKYIFTKTEFHTLLEKLKSVYSN--VEGLPPDRIV---PTVGLNIGRIEVSNSK 57
           ++F  L+K +F K E   L+  L +      +  L    IV   PT+G N+  +E  N  
Sbjct: 2   NIFANLFKGLFGKKEMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKNIS 61
Query: 58  LVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLL 117
              WD+GGQ  +R +W  Y++    ++FV+D+    R  +++  L ++L  ++L+ A LL
Sbjct: 62  FTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLL 121
Query: 118 ILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSK 176
           + ANKQDLP+A++A E+   L L  L  R    +A     G G+ E ++WL   +   K
Sbjct: 122 VFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLRNQK 180

>pdb|3DOE|A Chain A, Complex Of Arl2 And Bart, Crystal Form 1 Length = 192

Iteration: 1
 Score =  102 bits (255), Expect = 9e-23,   Method: Compositional matrix adjust.
 Identities = 51/144 (35%), Positives = 78/144 (54%)
Query: 27  SVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFV 86
           ++     G   D I PT+G NI  +E    KL  WD+GGQ  LRS W  Y+E    +++V
Sbjct: 31  TILKKFNGEDIDTISPTLGFNIKTLEHRGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWV 90
Query: 87  IDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDER 146
           +D+A   R +D +  L+ +L  E L GA LLI ANKQDLP A+S++ +   L+L  +   
Sbjct: 91  VDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSSNAIREVLELDSIRSH 150
Query: 147 VCMFEAVSGYDGFGIKESVEWLVE 170
               +  S   G  +   ++WL++
Sbjct: 151 HWCIQGCSAVTGENLLPGIDWLLD 174

>pdb|1R4A|A Chain A, Crystal Structure Of Gtp-Bound Adp-Ribosylation Factor Like Protein 1 (Arl1) And Grip Domain Of Golgin245 Complex Length = 165

Iteration: 1
 Score =  102 bits (255), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 50/133 (37%), Positives = 75/133 (56%)
Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PT+G N+  +   N K   WDLGGQ  +R  W  YY    AV++V+D+    R   SK+
Sbjct: 31  IPTIGFNVETVTYKNLKFQVWDLGGQTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKS 90
Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            L  +L  E+L+ A L++ ANKQD+  A++  E+A  L L  L +R       S   G G
Sbjct: 91  ELVAMLEEEELRKAILVVFANKQDMEQAMTPSEMANALGLPALKDRKWQIFKTSATKGTG 150
Query: 161 IKESVEWLVEVME 173
           + E++EWLVE ++
Sbjct: 151 LDEAMEWLVETLK 163

>pdb|1KSG|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 1 Length = 186

Iteration: 1
 Score =  102 bits (253), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 51/144 (35%), Positives = 77/144 (53%)
Query: 27  SVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFV 86
           ++     G   D I PT+G NI  +E    KL  WD+GGQ  LRS W  Y+E    +++V
Sbjct: 33  TILKKFNGEDVDTISPTLGFNIKTLEHRGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWV 92
Query: 87  IDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDER 146
           +D+A   R +D +  L+ +L  E L GA LLI ANKQDLP A+S + +   L+L  +   
Sbjct: 93  VDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSCNAIQEALELDSIRSH 152
Query: 147 VCMFEAVSGYDGFGIKESVEWLVE 170
               +  S   G  +   ++WL++
Sbjct: 153 HWRIQGCSAVTGEDLLPGIDWLLD 176

>pdb|1RE0|A Chain A, Structure Of Arf1-Gdp Bound To Sec7 Domain Complexed With Brefeldin A Length = 164

Iteration: 1
 Score =  101 bits (252), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 45/136 (33%), Positives = 76/136 (55%)
Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PT+G N+  +E  N     WD+GGQ  +R +W  Y++    ++FV+D+    R  +++ 
Sbjct: 29  IPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEARE 88
Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            L ++L  ++L+ A LL+ ANKQDLP+A++A E+   L L  L  R    +A     G G
Sbjct: 89  ELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDG 148
Query: 161 IKESVEWLVEVMERSK 176
           + E ++WL   +   K
Sbjct: 149 LYEGLDWLSNQLRNQK 164

>pdb|1KSH|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 2 (Native) Length = 186

Iteration: 1
 Score =  101 bits (252), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 51/144 (35%), Positives = 77/144 (53%)
Query: 27  SVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFV 86
           ++     G   D I PT+G NI  +E    KL  WD+GGQ  LRS W  Y+E    +++V
Sbjct: 33  TILKKFNGEDVDTISPTLGFNIKTLEHRGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWV 92
Query: 87  IDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDER 146
           +D+A   R +D +  L+ +L  E L GA LLI ANKQDLP A+S + +   L+L  +   
Sbjct: 93  VDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSXNAIQEALELDSIRSH 152
Query: 147 VCMFEAVSGYDGFGIKESVEWLVE 170
               +  S   G  +   ++WL++
Sbjct: 153 HWRIQGCSAVTGEDLLPGIDWLLD 176

>pdb|1Z6X|A Chain A, Structure Of Human Adp-Ribosylation Factor 4 Length = 180

Iteration: 1
 Score =  101 bits (251), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 48/137 (35%), Positives = 79/137 (57%), Gaps = 2/137 (1%)
Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PT+G N+  +E  N     WD+GGQ  +R +W+ Y++    ++FV+D+    R ++   
Sbjct: 46  IPTIGFNVETVEYKNICFTVWDVGGQDRIRPLWKHYFQNTQGLIFVVDSNDRERIQEVAD 105
Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            L+K+L  ++L+ A LL+ ANKQDLP+A++  E+   L L+ L  R    +A     G G
Sbjct: 106 ELQKMLLVDELRDAVLLLFANKQDLPNAMAISEMTDKLGLQSLRNRTWYVQATCATQGTG 165
Query: 161 IKESVEWLVEVMERSKR 177
           + E ++WL    E SKR
Sbjct: 166 LYEGLDWLSN--ELSKR 180

>pdb|3AQ4|A Chain A, Molecular Insights Into Plant Cell Proliferation Disturbance By Agrobacterium Protein 6b Length = 184

Iteration: 1
 Score =  100 bits (250), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 43/128 (33%), Positives = 75/128 (58%)
Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PT+G N+  +E  N     WD+GGQ  +R +W  Y++    ++FV+D+    R  +++ 
Sbjct: 49  IPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRVVEARD 108
Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            L ++L  ++L+ A LL+ ANKQDLP+A++A E+   L L  L +R    ++     G G
Sbjct: 109 ELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGEG 168
Query: 161 IKESVEWL 168
           + E ++WL
Sbjct: 169 LYEGLDWL 176

>pdb|3O47|A Chain A, Crystal Structure Of Arfgap1-Arf1 Fusion Protein Length = 329

Iteration: 1
 Score =  100 bits (250), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 45/136 (33%), Positives = 76/136 (55%)
Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PT+G N+  +E  N     WD+GGQ  +R +W  Y++    ++FV+D+    R  +++ 
Sbjct: 194 IPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEARE 253
Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            L ++L  ++L+ A LL+ ANKQDLP+A++A E+   L L  L  R    +A     G G
Sbjct: 254 ELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDG 313
Query: 161 IKESVEWLVEVMERSK 176
           + E ++WL   +   K
Sbjct: 314 LYEGLDWLSNQLRNQK 329

>pdb|1Z6Y|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 Length = 179

Iteration: 1
 Score =  100 bits (250), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 44/128 (34%), Positives = 76/128 (59%)
Query: 42  PTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTA 101
           PT+G N+  I ++N++ + WD+GGQ  LRS W  YY     V+ V+D+    R   ++  
Sbjct: 46  PTIGSNVEEIVINNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREE 105
Query: 102 LEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGI 161
           L K+L +EDL+ A LLI ANKQD+ + ++  E++++L L  + +     +A     G G+
Sbjct: 106 LYKMLAHEDLRKAGLLIFANKQDVKECMTVAEISQFLKLTSIKDHQWHIQACCALTGEGL 165
Query: 162 KESVEWLV 169
            + +EW++
Sbjct: 166 CQGLEWMM 173

>pdb|1ZJ6|A Chain A, Crystal Structure Of Human Arl5 Length = 187

Iteration: 1
 Score =  100 bits (249), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 44/128 (34%), Positives = 76/128 (59%)
Query: 42  PTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTA 101
           PT+G N+  I ++N++ + WD+GGQ  LRS W  YY     V+ V+D+    R   ++  
Sbjct: 46  PTIGSNVEEIVINNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREE 105
Query: 102 LEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGI 161
           L K+L +EDL+ A LLI ANKQD+ + ++  E++++L L  + +     +A     G G+
Sbjct: 106 LYKMLAHEDLRKAGLLIFANKQDVKECMTVAEISQFLKLTSIKDHQWHIQACCALTGEGL 165
Query: 162 KESVEWLV 169
            + +EW++
Sbjct: 166 CQGLEWMM 173

>pdb|1KSJ|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 2 (Semet) Length = 186

Iteration: 1
 Score =  100 bits (249), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 51/144 (35%), Positives = 77/144 (53%)
Query: 27  SVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFV 86
           ++     G   D I PT+G NI  +E    KL  WD+GGQ  LRS W  Y+E    +++V
Sbjct: 33  TILKKFNGEDVDTISPTLGFNIKTLEHRGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWV 92
Query: 87  IDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDER 146
           +D+A   R +D +  L+ +L  E L GA LLI ANKQDLP A+S + +   L+L  +   
Sbjct: 93  VDSADRQRXQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSXNAIQEALELDSIRSH 152
Query: 147 VCMFEAVSGYDGFGIKESVEWLVE 170
               +  S   G  +   ++WL++
Sbjct: 153 HWRIQGCSAVTGEDLLPGIDWLLD 176

>pdb|4DCN|A Chain A, Crystal Structure Analysis Of The Arfaptin2 Bar Domain In Complex With Arl1 Length = 166

Iteration: 1
 Score =  100 bits (249), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 49/133 (36%), Positives = 75/133 (56%)
Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PT+G N+  +   N K   WDLGG   +R  W  YY    AV++V+D+    R   SK+
Sbjct: 33  IPTIGFNVETVTYKNLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKS 92
Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            L  +L  E+L+ A L++ ANKQD+  A+++ E+A  L L  L +R       S   G G
Sbjct: 93  ELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGTG 152
Query: 161 IKESVEWLVEVME 173
           + E++EWLVE ++
Sbjct: 153 LDEAMEWLVETLK 165

>pdb|3RD1|A Chain A, Structure Of An Adp Ribosylation Factor From Entamoeba Histolytica Hm- 1:imss Bound To Mg-Gdp Length = 178

Iteration: 1
 Score =  100 bits (249), Expect = 5e-22,   Method: Compositional matrix adjust.
 Identities = 43/130 (33%), Positives = 74/130 (56%)
Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PT+G N+  +E  N     WD+GGQ  +R +W  YY+   A++FV+D+    R  +++ 
Sbjct: 46  IPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYYQNTQAIIFVVDSNDRDRIGEARE 105
Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            L K+L  ++++ A LL+ ANK DLP A+S  E+   L L+ +  R    +     +G G
Sbjct: 106 ELMKMLNEDEMRNAILLVFANKHDLPQAMSISEVTEKLGLQTIKNRKWYCQTSCATNGDG 165
Query: 161 IKESVEWLVE 170
           + E ++WL +
Sbjct: 166 LYEGLDWLAD 175

>pdb|2H16|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 (Arl5) Length = 183

Iteration: 1
 Score =  100 bits (248), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 44/128 (34%), Positives = 76/128 (59%)
Query: 42  PTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTA 101
           PT+G N+  I ++N++ + WD+GGQ  LRS W  YY     V+ V+D+    R   ++  
Sbjct: 52  PTIGSNVEEIVINNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREE 111
Query: 102 LEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGI 161
           L K+L +EDL+ A LLI ANKQD+ + ++  E++++L L  + +     +A     G G+
Sbjct: 112 LYKMLAHEDLRKAGLLIFANKQDVKECMTVAEISQFLKLTSIKDHQWHIQACCALTGEGL 171
Query: 162 KESVEWLV 169
            + +EW++
Sbjct: 172 CQGLEWMM 179

>pdb|2H17|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 (Arl5) (Casp Target) Length = 181

Iteration: 1
 Score =  100 bits (248), Expect = 6e-22,   Method: Compositional matrix adjust.
 Identities = 44/128 (34%), Positives = 76/128 (59%)
Query: 42  PTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTA 101
           PT+G N+  I ++N++ + WD+GGQ  LRS W  YY     V+ V+D+    R   ++  
Sbjct: 51  PTIGSNVEEIVINNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREE 110
Query: 102 LEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGI 161
           L K+L +EDL+ A LLI ANKQD+ + ++  E++++L L  + +     +A     G G+
Sbjct: 111 LYKMLAHEDLRKAGLLIFANKQDVKECMTVAEISQFLKLTSIKDHQWHIQACCALTGEGL 170
Query: 162 KESVEWLV 169
            + +EW++
Sbjct: 171 CQGLEWMM 178

>pdb|2A5D|A Chain A, Structural Basis For The Activation Of Cholera Toxin By Human Arf6-Gtp Length = 175

Iteration: 1
 Score = 99.8 bits (247), Expect = 9e-22,   Method: Compositional matrix adjust.
 Identities = 43/129 (33%), Positives = 72/129 (55%)
Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PTVG N+  +   N K   WD+GGQ  +R +W  YY     ++FV+D A   R ++++ 
Sbjct: 42  IPTVGFNVETVTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQ 101
Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            L +++ + +++ A +LI ANKQDLPDA+   E+   L L ++ +R    +      G G
Sbjct: 102 ELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDG 161
Query: 161 IKESVEWLV 169
           + E + WL 
Sbjct: 162 LYEGLTWLT 170

>pdb|1E0S|A Chain A, Small G Protein Arf6-Gdp Length = 174

Iteration: 1
 Score = 99.4 bits (246), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 43/129 (33%), Positives = 72/129 (55%)
Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PTVG N+  +   N K   WD+GGQ  +R +W  YY     ++FV+D A   R ++++ 
Sbjct: 41  IPTVGFNVETVTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQ 100
Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            L +++ + +++ A +LI ANKQDLPDA+   E+   L L ++ +R    +      G G
Sbjct: 101 ELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDG 160
Query: 161 IKESVEWLV 169
           + E + WL 
Sbjct: 161 LYEGLTWLT 169

>pdb|1YZG|A Chain A, Structure Of Human Adp-ribosylation Factor-like 8 Length = 179

Iteration: 1
 Score = 99.4 bits (246), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 44/127 (34%), Positives = 73/127 (57%)
Query: 42  PTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTA 101
           PT+G N+  I V N+  + WD+GGQ  LRS W  YY     ++ V+D+    R   +K  
Sbjct: 46  PTIGSNVEEIVVKNTHFLMWDIGGQESLRSSWNTYYSNTEFIILVVDSIDRERLAITKEE 105
Query: 102 LEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGI 161
           L ++L +EDL+ A +LI ANKQD+   ++A E+++YL L  + +     ++     G G+
Sbjct: 106 LYRMLAHEDLRKAAVLIFANKQDMKGCMTAAEISKYLTLSSIKDHPWHIQSCCALTGEGL 165
Query: 162 KESVEWL 168
            + +EW+
Sbjct: 166 CQGLEWM 172

>pdb|3N5C|A Chain A, Crystal Structure Of Arf6delta13 Complexed With Gdp Length = 162

Iteration: 1
 Score = 99.4 bits (246), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 43/129 (33%), Positives = 72/129 (55%)
Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PTVG N+  +   N K   WD+GGQ  +R +W  YY     ++FV+D A   R ++++ 
Sbjct: 29  IPTVGFNVETVTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQ 88
Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            L +++ + +++ A +LI ANKQDLPDA+   E+   L L ++ +R    +      G G
Sbjct: 89  ELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDG 148
Query: 161 IKESVEWLV 169
           + E + WL 
Sbjct: 149 LYEGLTWLT 157

>pdb|4FME|C Chain C, Espg-Rab1-Arf6 Complex Length = 160

Iteration: 1
 Score = 99.4 bits (246), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 43/129 (33%), Positives = 72/129 (55%)
Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PTVG N+  +   N K   WD+GGQ  +R +W  YY     ++FV+D A   R ++++ 
Sbjct: 29  IPTVGFNVETVTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQ 88
Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            L +++ + +++ A +LI ANKQDLPDA+   E+   L L ++ +R    +      G G
Sbjct: 89  ELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDG 148
Query: 161 IKESVEWLV 169
           + E + WL 
Sbjct: 149 LYEGLTWLT 157

>pdb|4GOK|B Chain B, The Crystal Structure Of Arl2gppnhp In Complex With Unc119a Length = 169

Iteration: 1
 Score = 98.6 bits (244), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 50/144 (34%), Positives = 76/144 (52%)
Query: 27  SVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFV 86
           ++     G   D I PT+G NI  +E    KL  WD+GG   LRS W  Y+E    +++V
Sbjct: 16  TILKKFNGEDVDTISPTLGFNIKTLEHRGFKLNIWDVGGLKSLRSYWRNYFESTDGLIWV 75
Query: 87  IDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDER 146
           +D+A   R +D +  L+ +L  E L GA LLI ANKQDLP A+S + +   L+L  +   
Sbjct: 76  VDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSCNAIQEALELDSIRSH 135
Query: 147 VCMFEAVSGYDGFGIKESVEWLVE 170
               +  S   G  +   ++WL++
Sbjct: 136 HWRIQGCSAVTGEDLLPGIDWLLD 159

>pdb|1J2J|A Chain A, Crystal Structure Of Gga1 Gat N-terminal Region In Complex With Arf1 Gtp Form Length = 166

Iteration: 1
 Score = 98.6 bits (244), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 44/136 (32%), Positives = 75/136 (55%)
Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PT+G N+  +E  N     WD+GG   +R +W  Y++    ++FV+D+    R  +++ 
Sbjct: 31  IPTIGFNVETVEYKNISFTVWDVGGLDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEARE 90
Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            L ++L  ++L+ A LL+ ANKQDLP+A++A E+   L L  L  R    +A     G G
Sbjct: 91  ELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDG 150
Query: 161 IKESVEWLVEVMERSK 176
           + E ++WL   +   K
Sbjct: 151 LYEGLDWLSNQLRNQK 166

>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 = 98.2 bits (243), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 43/129 (33%), Positives = 72/129 (55%)
Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PTVG N+  +   N K   WD+GGQ  +R +W  YY     ++FV+D A   R ++++ 
Sbjct: 351 IPTVGFNVETVTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQ 410
Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            L +++ + +++ A +LI ANKQDLPDA+   E+   L L ++ +R    +      G G
Sbjct: 411 ELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDG 470
Query: 161 IKESVEWLV 169
           + E + WL 
Sbjct: 471 LYEGLTWLT 479

>pdb|3PCR|B Chain B, Structure Of Espg-Arf6 Complex Length = 162

Iteration: 1
 Score = 97.4 bits (241), Expect = 5e-21,   Method: Compositional matrix adjust.
 Identities = 43/129 (33%), Positives = 70/129 (54%)
Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PTVG N+  +   N K   WD+GGQ  +R +W  YY     ++FV+D A   R ++++ 
Sbjct: 29  IPTVGFNVETVTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQ 88
Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            L +++ + + + A +LI ANKQDLPDA    E+   L L ++ +R    +      G G
Sbjct: 89  ELHRIINDREXRDAIILIFANKQDLPDAXKPHEIQEKLGLTRIRDRNWYVQPSCATSGDG 148
Query: 161 IKESVEWLV 169
           + E + WL 
Sbjct: 149 LYEGLTWLT 157

>pdb|2A5G|A Chain A, Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length = 175

Iteration: 1
 Score = 96.3 bits (238), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 42/129 (32%), Positives = 71/129 (55%)
Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PTVG N+  +   N K   WD+GG   +R +W  YY     ++FV+D A   R ++++ 
Sbjct: 42  IPTVGFNVETVTYKNVKFNVWDVGGLDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQ 101
Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            L +++ + +++ A +LI ANKQDLPDA+   E+   L L ++ +R    +      G G
Sbjct: 102 ELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDG 161
Query: 161 IKESVEWLV 169
           + E + WL 
Sbjct: 162 LYEGLTWLT 170

>pdb|3VHX|A Chain A, The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesin-Like Protein 1) Complex Length = 172

Iteration: 1
 Score = 96.3 bits (238), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 42/129 (32%), Positives = 71/129 (55%)
Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PTVG N+  +   N K   WD+GG   +R +W  YY     ++FV+D A   R ++++ 
Sbjct: 31  IPTVGFNVETVTYKNVKFNVWDVGGLDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQ 90
Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            L +++ + +++ A +LI ANKQDLPDA+   E+   L L ++ +R    +      G G
Sbjct: 91  ELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDG 150
Query: 161 IKESVEWLV 169
           + E + WL 
Sbjct: 151 LYEGLTWLT 159

>pdb|2W83|A Chain A, Crystal Structure Of The Arf6 Gtpase In Complex With A Specific Effector, Jip4 Length = 165

Iteration: 1
 Score = 96.3 bits (238), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 42/129 (32%), Positives = 71/129 (55%)
Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PTVG N+  +   N K   WD+GG   +R +W  YY     ++FV+D A   R ++++ 
Sbjct: 32  IPTVGFNVETVTYKNVKFNVWDVGGLDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQ 91
Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            L +++ + +++ A +LI ANKQDLPDA+   E+   L L ++ +R    +      G G
Sbjct: 92  ELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDG 151
Query: 161 IKESVEWLV 169
           + E + WL 
Sbjct: 152 LYEGLTWLT 160

>pdb|1FZQ|A Chain A, Crystal Structure Of Murine Arl3-Gdp Length = 181

Iteration: 1
 Score = 94.4 bits (233), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 50/139 (35%), Positives = 78/139 (56%)
Query: 39  RIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDS 98
            I PT G NI  ++    KL  WD+GGQ  +R  W  Y+E    +++VID+A   RFE++
Sbjct: 43  HITPTQGFNIKSVQSQGFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEET 102
Query: 99  KTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDG 158
              L ++L  E L   P+LI ANKQDL  A  A E+A  L+L  + +RV   ++ S   G
Sbjct: 103 GQELTELLEEEKLSCVPVLIFANKQDLLTAAPASEIAEGLNLHTIRDRVWQIQSCSALTG 162
Query: 159 FGIKESVEWLVEVMERSKR 177
            G+++ + W+ + +   K+
Sbjct: 163 EGVQDGMNWVCKNVNAKKK 181

>pdb|4GOJ|A Chain A, The Crystal Structure Of Full Length Arl3gppnhp In Complex With Unc119a Length = 189

Iteration: 1
 Score = 94.0 bits (232), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 50/139 (35%), Positives = 78/139 (56%)
Query: 39  RIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDS 98
            I PT G NI  ++    KL  WD+GGQ  +R  W  Y+E    +++VID+A   RFE++
Sbjct: 44  HITPTQGFNIKSVQSQGFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEET 103
Query: 99  KTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDG 158
              L ++L  E L   P+LI ANKQDL  A  A E+A  L+L  + +RV   ++ S   G
Sbjct: 104 GQELTELLEEEKLSCVPVLIFANKQDLLTAAPASEIAEGLNLHTIRDRVWQIQSCSALTG 163
Query: 159 FGIKESVEWLVEVMERSKR 177
            G+++ + W+ + +   K+
Sbjct: 164 EGVQDGMNWVCKNVNAKKK 182

>pdb|3BH7|A Chain A, Crystal Structure Of The Rp2-Arl3 Complex Bound To Gdp-Alf4 Length = 164

Iteration: 1
 Score = 92.8 bits (229), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 49/132 (37%), Positives = 75/132 (56%)
Query: 39  RIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDS 98
            I PT G NI  ++    KL  WD+GGQ  +R  W  Y+E    +++VID+A   RFE++
Sbjct: 31  HITPTQGFNIKSVQSQGFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEET 90
Query: 99  KTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDG 158
              L ++L  E L   P+LI ANKQDL  A  A E+A  L+L  + +RV   ++ S   G
Sbjct: 91  GQELTELLEEEKLSCVPVLIFANKQDLLTAAPASEIAEGLNLHTIRDRVWQIQSCSALTG 150
Query: 159 FGIKESVEWLVE 170
            G+++ + W+ +
Sbjct: 151 EGVQDGMNWVCK 162

>pdb|3BH6|A Chain A, Crystal Structure Of The Rp2-Arl3 Complex Bound To Gppnhp Length = 164

Iteration: 1
 Score = 89.7 bits (221), Expect = 9e-19,   Method: Compositional matrix adjust.
 Identities = 48/132 (36%), Positives = 74/132 (56%)
Query: 39  RIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDS 98
            I PT G NI  ++    KL  WD+GG   +R  W  Y+E    +++VID+A   RFE++
Sbjct: 31  HITPTQGFNIKSVQSQGFKLNVWDIGGLRKIRPYWRSYFENTDILIYVIDSADRKRFEET 90
Query: 99  KTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDG 158
              L ++L  E L   P+LI ANKQDL  A  A E+A  L+L  + +RV   ++ S   G
Sbjct: 91  GQELTELLEEEKLSCVPVLIFANKQDLLTAAPASEIAEGLNLHTIRDRVWQIQSCSALTG 150
Query: 159 FGIKESVEWLVE 170
            G+++ + W+ +
Sbjct: 151 EGVQDGMNWVCK 162

>pdb|2H57|A Chain A, Crystal Structure Of Human Adp-Ribosylation Factor-Like 6 Length = 190

Iteration: 1
 Score = 89.4 bits (220), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 52/162 (32%), Positives = 96/162 (59%), Gaps = 13/162 (8%)
Query: 20  TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEE 79
           T++ KLK   SN +      I+PT+G +I + + S+     +D+ GQ   R++WE YY+E
Sbjct: 36  TIINKLKP--SNAQS---QNILPTIGFSIEKFKSSSLSFTVFDMSGQGRYRNLWEHYYKE 90
Query: 80  AHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQG--APLLILANKQDLPDAVSADELARY 137
             A++FVID++   R   +K  L+ +L + D++    P+L  ANK DL DAV++ ++++ 
Sbjct: 91  GQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRDAVTSVKVSQL 150
Query: 138 LDLKKLDER---VCMFEAVSGYDGFGIKESVEWLVEVMERSK 176
           L L+ + ++   +C  +A+ G    G++E V+WL + ++  K
Sbjct: 151 LCLENIKDKPWHICASDAIKGE---GLQEGVDWLQDQIQTVK 189

>pdb|1UPT|A Chain A, Structure Of A Complex Of The Golgin-245 Grip Domain With Arl1 Length = 171

Iteration: 1
 Score = 87.8 bits (216), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 49/133 (36%), Positives = 70/133 (52%)
Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +PT+G N+  +   N K   WDLGG   +R  W  YY    AV++V+D+    R   SK+
Sbjct: 36  IPTIGFNVETVTYKNLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKS 95
Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFG 160
            L   L  E+L+ A L++ ANKQD   A ++ E A  L L  L +R       S   G G
Sbjct: 96  ELVAXLEEEELRKAILVVFANKQDXEQAXTSSEXANSLGLPALKDRKWQIFKTSATKGTG 155
Query: 161 IKESVEWLVEVME 173
           + E+ EWLVE ++
Sbjct: 156 LDEAXEWLVETLK 168

>pdb|2X77|A Chain A, Crystal Structure Of Leishmania Major Adp Ribosylation Factor-Like 1. Length = 189

Iteration: 1
 Score = 87.4 bits (215), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 46/124 (37%), Positives = 68/124 (54%)
Query: 47  NIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVL 106
           N+  ++  N     WDLGGQ G+R  W  Y+ +  AV++V+D+    R   +K  L  +L
Sbjct: 57  NLETLQYKNISFEVWDLGGQTGVRPYWRCYFSDTDAVIYVVDSTDRDRMGVAKHELYALL 116
Query: 107 RNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVE 166
             ++L+ + LLI ANKQDLPDA S  E+A  L +  +  R       S   G G+ E ++
Sbjct: 117 DEDELRKSLLLIFANKQDLPDAASEAEIAEQLGVSSIMNRTWTIVKSSSKTGDGLVEGMD 176
Query: 167 WLVE 170
           WLVE
Sbjct: 177 WLVE 180

>pdb|4BAS|A Chain A, Structure Of The Arl6 Bbs3 Small Gtpase From Trypanosoma Brucei With Bound Nucleotide Analogue Gppnp Length = 199

Iteration: 1
 Score = 82.4 bits (202), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 52/164 (31%), Positives = 79/164 (48%), Gaps = 15/164 (9%)
Query: 20  TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEE 79
           T++ ++K   S+ +      I  TVG N+   E        +D+GG    R +WE YY+ 
Sbjct: 32  TIINQVKPAQSSSK-----HITATVGYNVETFEKGRVAFTVFDMGGAKKFRGLWETYYDN 86
Query: 80  AHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQ-------GAPLLILANKQDLPDAVSAD 132
             AV+FV+D++   R    K+ ++ +L++ED++         P L  ANK D   A +A 
Sbjct: 87  IDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGAKTAA 146
Query: 133 ELARYLDLKKL--DERVCMFEAVSGYDGFGIKESVEWLVEVMER 174
           EL   LDL  L  D    +F A +G  G G+ E   WL E   R
Sbjct: 147 ELVEILDLTTLMGDHPFVIF-ASNGLKGTGVHEGFSWLQETASR 189

>pdb|2QTV|B Chain B, Structure Of Sec23-Sar1 Complexed With The Active Fragment Of Sec31 Length = 167

Iteration: 1
 Score = 73.6 bits (179), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 34/90 (37%), Positives = 54/90 (60%)
Query: 51  IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNED 110
           + + N K   +DLGG    R +W+ Y+ E + +VF++DAA P RF++++  L+ +    +
Sbjct: 40  LAIGNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAE 99
Query: 111 LQGAPLLILANKQDLPDAVSADELARYLDL 140
           L+  P +IL NK D P+AVS  EL   L L
Sbjct: 100 LKDVPFVILGNKIDAPNAVSEAELRSALGL 129

>pdb|1M2O|B Chain B, Crystal Structure Of The Sec23-Sar1 Complex Length = 190

Iteration: 1
 Score = 73.2 bits (178), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 34/90 (37%), Positives = 54/90 (60%)
Query: 51  IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNED 110
           + + N K   +DLGG    R +W+ Y+ E + +VF++DAA P RF++++  L+ +    +
Sbjct: 62  LAIGNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAE 121
Query: 111 LQGAPLLILANKQDLPDAVSADELARYLDL 140
           L+  P +IL NK D P+AVS  EL   L L
Sbjct: 122 LKDVPFVILGNKIDAPNAVSEAELRSALGL 151

>pdb|2GAO|A Chain A, Crystal Structure Of Human Sar1a In Complex With Gdp Length = 208

Iteration: 1
 Score = 65.9 bits (159), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 35/109 (32%), Positives = 56/109 (51%), Gaps = 3/109 (2%)
Query: 35  LPPDRI---VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAAC 91
           L  DR+   VPT+      + ++      +DLGG    R +W+ Y    + +VF++D A 
Sbjct: 55  LKDDRLGQHVPTLHPTSEELTIAGMTFTTFDLGGHEQARRVWKNYLPAINGIVFLVDCAD 114
Query: 92  PSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDL 140
            SR  +SK  L  ++ +E +   P+LIL NK D  DA+S ++L     L
Sbjct: 115 HSRLVESKVELNALMTDETISNVPILILGNKIDRTDAISEEKLREIFGL 163

>pdb|2FMX|A Chain A, An Open Conformation Of Switch I Revealed By Sar1-gdp Crystal Structure At Low Mg(2+) Length = 195

Iteration: 1
 Score = 64.7 bits (156), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 34/109 (31%), Positives = 56/109 (51%), Gaps = 3/109 (2%)
Query: 35  LPPDRI---VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAAC 91
           L  DR+   VPT+      + ++      +DLGG    R +W+ Y    + +VF++D A 
Sbjct: 42  LKDDRLGQHVPTLHPTSEELTIAGMTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCAD 101
Query: 92  PSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDL 140
             R  +SK  L+ ++ +E +   P+LIL NK D P+A+S + L     L
Sbjct: 102 HERLLESKEELDSLMTDETIANVPILILGNKIDRPEAISEERLREMFGL 150

>pdb|1F6B|A Chain A, Crystal Structure Of Sar1-Gdp Complex Length = 198

Iteration: 1
 Score = 64.7 bits (156), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 34/109 (31%), Positives = 56/109 (51%), Gaps = 3/109 (2%)
Query: 35  LPPDRI---VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAAC 91
           L  DR+   VPT+      + ++      +DLGG    R +W+ Y    + +VF++D A 
Sbjct: 45  LKDDRLGQHVPTLHPTSEELTIAGMTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCAD 104
Query: 92  PSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDL 140
             R  +SK  L+ ++ +E +   P+LIL NK D P+A+S + L     L
Sbjct: 105 HERLLESKEELDSLMTDETIANVPILILGNKIDRPEAISEERLREMFGL 153

>pdb|2FA9|A Chain A, The Crystal Structure Of Sar1[h79g]-gdp Provides Insight Into The Coat-controlled Gtp Hydrolysis In The Disassembly Of Cop Ii Length = 189

Iteration: 1
 Score = 63.9 bits (154), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 34/109 (31%), Positives = 56/109 (51%), Gaps = 3/109 (2%)
Query: 35  LPPDRI---VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAAC 91
           L  DR+   VPT+      + ++      +DLGG    R +W+ Y    + +VF++D A 
Sbjct: 36  LKDDRLGQHVPTLHPTSEELTIAGMTFTTFDLGGGIQARRVWKNYLPAINGIVFLVDCAD 95
Query: 92  PSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDL 140
             R  +SK  L+ ++ +E +   P+LIL NK D P+A+S + L     L
Sbjct: 96  HERLLESKEELDSLMTDETIANVPILILGNKIDRPEAISEERLREMFGL 144

>pdb|1Z06|A Chain A, Gppnhp-Bound Rab33 Gtpase Length = 189

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 32/107 (29%), Positives = 48/107 (44%), Gaps = 5/107 (4%)
Query: 28  VYSNVEGLPPDRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLR-SIWEKYYEEAHA 82
            Y    G  PDR   T+G++       I+    K+  WD  GQ   R S+ + YY   HA
Sbjct: 37  TYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHA 96
Query: 83  VVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAV 129
           VVFV D    + F      +E+  ++      P +++ NK DL  A+
Sbjct: 97  VVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAI 143

>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 = 48.5 bits (114), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 32/107 (29%), Positives = 48/107 (44%), Gaps = 5/107 (4%)
Query: 28  VYSNVEGLPPDRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLR-SIWEKYYEEAHA 82
            Y    G  PDR   T+G++       I+    K+  WD  GQ   R S+ + YY   HA
Sbjct: 46  TYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHA 105
Query: 83  VVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAV 129
           VVFV D    + F      +E+  ++      P +++ NK DL  A+
Sbjct: 106 VVFVYDXTNXASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAI 152

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score = 48.1 bits (113), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 31/103 (30%), Positives = 51/103 (49%), Gaps = 7/103 (6%)
Query: 37  PDRIVPTVGLN--IGRIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACP 92
            D  + T+G++  I  I + N   KL  WD  GQ   R+I   YY  AH ++ V D    
Sbjct: 35  TDSYISTIGVDFKIRTISLENKTVKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTDR 94
Query: 93  SRFEDSKTALEKVLRNEDLQGAPLLILANKQDL--PDAVSADE 133
             F++ K  ++++ R   ++    L++ NK DL     V++DE
Sbjct: 95  DSFDNVKQWIQEIDRYA-MENVNKLLVGNKCDLVSKRVVTSDE 136

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score = 47.0 bits (110), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 34/148 (22%), Positives = 68/148 (45%), Gaps = 9/148 (6%)
Query: 41  VPTVGLN--IGRIEVSNSK--LVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE 96
           + T+G++  I  +E++  K  L  WD  GQ   R+I   YY   H V+ V D      F 
Sbjct: 39  ITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTSAESFV 98
Query: 97  DSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGY 156
           + K  L ++  N++      +++ NK D P+    +    Y    ++   + +FE  S  
Sbjct: 99  NVKRWLHEI--NQNCDDVCRILVGNKNDDPERKVVETEDAYKFAGQMG--IQLFET-SAK 153
Query: 157 DGFGIKESVEWLVEVMERSKRTEMLRAR 184
           +   ++E    + E++ R+K+  + + +
Sbjct: 154 ENVNVEEMFNCITELVLRAKKDNLAKQQ 181

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 33/109 (30%), Positives = 50/109 (45%), Gaps = 10/109 (9%)
Query: 41  VPTVGLN--IGRIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE 96
           + T+G++  I  IE+     KL  WD  GQ   R+I   YY  AH ++ V D      F 
Sbjct: 29  ISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFN 88
Query: 97  DSKTALEKVLRNEDLQGAPLLILANKQDLP-----DAVSADELARYLDL 140
           + K  L+++ R    +    L++ NK DL      D  +A E A  L +
Sbjct: 89  NVKQWLQEIDRYAS-ENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGI 136

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 33/107 (30%), Positives = 49/107 (45%), Gaps = 10/107 (9%)
Query: 41  VPTVGLN--IGRIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE 96
           + T+G++  I  IE+     KL  WD  GQ   R+I   YY  AH ++ V D      F 
Sbjct: 36  ISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFN 95
Query: 97  DSKTALEKVLRNEDLQGAPLLILANKQDLP-----DAVSADELARYL 138
           + K  L+++ R    +    L++ NK DL      D  +A E A  L
Sbjct: 96  NVKQWLQEIDRYAS-ENVNKLLVGNKCDLTTKKVVDYTTAKEFADSL 141

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 33/109 (30%), Positives = 50/109 (45%), Gaps = 10/109 (9%)
Query: 41  VPTVGLN--IGRIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE 96
           + T+G++  I  IE+     KL  WD  GQ   R+I   YY  AH ++ V D      F 
Sbjct: 36  ISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFN 95
Query: 97  DSKTALEKVLRNEDLQGAPLLILANKQDLP-----DAVSADELARYLDL 140
           + K  L+++ R    +    L++ NK DL      D  +A E A  L +
Sbjct: 96  NVKQWLQEIDRYAS-ENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGI 143

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 33/109 (30%), Positives = 50/109 (45%), Gaps = 10/109 (9%)
Query: 41  VPTVGLN--IGRIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE 96
           + T+G++  I  IE+     KL  WD  GQ   R+I   YY  AH ++ V D      F 
Sbjct: 55  ISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFN 114
Query: 97  DSKTALEKVLRNEDLQGAPLLILANKQDLP-----DAVSADELARYLDL 140
           + K  L+++ R    +    L++ NK DL      D  +A E A  L +
Sbjct: 115 NVKQWLQEIDRYAS-ENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGI 162

>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 = 45.4 bits (106), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 33/109 (30%), Positives = 50/109 (45%), Gaps = 10/109 (9%)
Query: 41  VPTVGLN--IGRIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE 96
           + T+G++  I  IE+     KL  WD  GQ   R+I   YY  AH ++ V D      F 
Sbjct: 46  ISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFN 105
Query: 97  DSKTALEKVLRNEDLQGAPLLILANKQDLP-----DAVSADELARYLDL 140
           + K  L+++ R    +    L++ NK DL      D  +A E A  L +
Sbjct: 106 NVKQWLQEIDRYAS-ENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGI 153

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score = 45.1 bits (105), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 33/109 (30%), Positives = 50/109 (45%), Gaps = 10/109 (9%)
Query: 41  VPTVGLN--IGRIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE 96
           + T+G++  I  IE+     KL  WD  GQ   R+I   YY  AH ++ V D      F 
Sbjct: 63  ISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFN 122
Query: 97  DSKTALEKVLRNEDLQGAPLLILANKQDLP-----DAVSADELARYLDL 140
           + K  L+++ R    +    L++ NK DL      D  +A E A  L +
Sbjct: 123 NVKQWLQEIDRYAS-ENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGI 170

>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 = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 32/109 (29%), Positives = 50/109 (45%), Gaps = 10/109 (9%)
Query: 41  VPTVGLN--IGRIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE 96
           + T+G++  I  IE+     KL  WD  GQ   R+I   YY  AH ++ V D      + 
Sbjct: 39  ISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESYA 98
Query: 97  DSKTALEKVLRNEDLQGAPLLILANKQDLP-----DAVSADELARYLDL 140
           + K  L+++ R    +    L++ NK DL      D  +A E A  L +
Sbjct: 99  NVKQWLQEIDRYAS-ENVNKLLVGNKSDLTTKKVVDNTTAKEFADSLGI 146

>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 = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 33/109 (30%), Positives = 50/109 (45%), Gaps = 10/109 (9%)
Query: 41  VPTVGLN--IGRIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE 96
           + T+G++  I  IE+     KL  WD  GQ   R+I   YY  AH ++ V D      F 
Sbjct: 46  ISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFN 105
Query: 97  DSKTALEKVLRNEDLQGAPLLILANKQDLP-----DAVSADELARYLDL 140
           + K  L+++ R    +    L++ NK DL      D  +A E A  L +
Sbjct: 106 NVKQWLQEIDRYAS-ENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGI 153

>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 = 44.7 bits (104), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 32/109 (29%), Positives = 50/109 (45%), Gaps = 10/109 (9%)
Query: 41  VPTVGLN--IGRIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE 96
           + T+G++  I  IE+     KL  WD  GQ   R+I   YY  AH ++ V D      + 
Sbjct: 39  ISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESYA 98
Query: 97  DSKTALEKVLRNEDLQGAPLLILANKQDLP-----DAVSADELARYLDL 140
           + K  L+++ R    +    L++ NK DL      D  +A E A  L +
Sbjct: 99  NVKQWLQEIDRYAS-ENVNKLLVGNKSDLTTKKVVDNTTAKEFADSLGI 146

>pdb|4FMC|F Chain F, Espg-Rab1 Complex Length = 117

Iteration: 1
 Score = 44.7 bits (104), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 28/90 (31%), Positives = 43/90 (47%), Gaps = 5/90 (5%)
Query: 41  VPTVGLN--IGRIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE 96
           + T+G++  I  IE+     KL  WD  GQ   R+I   YY  AH ++ V D      F 
Sbjct: 28  ISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFN 87
Query: 97  DSKTALEKVLRNEDLQGAPLLILANKQDLP 126
           + K  L+++ R    +    L++ NK DL 
Sbjct: 88  NVKQWLQEIDRYAS-ENVNKLLVGNKCDLT 116

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score = 43.5 bits (101), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 32/109 (29%), Positives = 48/109 (44%), Gaps = 7/109 (6%)
Query: 41  VPTVGLN--IGRIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE 96
           + T+G++  I  +E+     KL  WD  GQ   R+I   YY  +H ++ V D      F 
Sbjct: 51  ISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFN 110
Query: 97  DSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKL 143
             K  L+++ R        LL+  NK DL D   V  D    + D  K+
Sbjct: 111 GVKMWLQEIDRYATSTVLKLLV-GNKCDLKDKRVVEYDVAKEFADANKM 158

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score = 43.5 bits (101), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 33/126 (26%), Positives = 57/126 (45%), Gaps = 10/126 (7%)
Query: 58  LVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLL 117
           L  WD  GQ   RSI + Y+ +A  V+ + D  C   F + +  ++ ++ +   +  P++
Sbjct: 79  LQLWDTAGQERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVD-MIEDAAHETVPIM 137
Query: 118 ILANKQDLPDAVSADELARYLDLKKLDERVCM-----FEAVSGYDGFGIKESVEWLVEVM 172
           ++ NK D+ D  + +   +        E++ M     F   S  DG  I E+V  L    
Sbjct: 138 LVGNKADIRDTAATE--GQKCVPGHFGEKLAMTYGALFCETSAKDGSNIVEAVLHLAR-- 193
Query: 173 ERSKRT 178
           E  KRT
Sbjct: 194 EVKKRT 199

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score = 43.5 bits (101), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 32/109 (29%), Positives = 49/109 (44%), Gaps = 8/109 (7%)
Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           +L  WD  GQ   RS+   Y  ++ A V V D    + F+ +   ++ V R E      +
Sbjct: 56  RLQLWDTAGQERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDV-RTERGSDVII 114
Query: 117 LILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKE 163
           +++ NK DL D   VS +E  R     K  E   MF   S   G+ +K+
Sbjct: 115 MLVGNKTDLADKRQVSIEEGER-----KAKELNVMFIETSAKAGYNVKQ 158

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score = 43.5 bits (101), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 32/109 (29%), Positives = 48/109 (44%), Gaps = 7/109 (6%)
Query: 41  VPTVGLN--IGRIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE 96
           + T+G++  I  +E+     KL  WD  GQ   R+I   YY  +H ++ V D      F 
Sbjct: 38  ISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFN 97
Query: 97  DSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKL 143
             K  L+++ R        LL+  NK DL D   V  D    + D  K+
Sbjct: 98  GVKMWLQEIDRYATSTVLKLLV-GNKCDLKDKRVVEYDVAKEFADANKM 145

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score = 43.1 bits (100), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 32/109 (29%), Positives = 48/109 (44%), Gaps = 7/109 (6%)
Query: 41  VPTVGLN--IGRIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE 96
           + T+G++  I  +E+     KL  WD  GQ   R+I   YY  +H ++ V D      F 
Sbjct: 38  ISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFN 97
Query: 97  DSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKL 143
             K  L+++ R        LL+  NK DL D   V  D    + D  K+
Sbjct: 98  GVKMWLQEIDRYATSTVLKLLV-GNKCDLKDKRVVEYDVAKEFADANKM 145

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score = 43.1 bits (100), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 23/68 (33%), Positives = 34/68 (50%), Gaps = 4/68 (5%)
Query: 32  VEGLPPDRIVPTVGLN--IGRIEVSNSK--LVFWDLGGQPGLRSIWEKYYEEAHAVVFVI 87
            +GL P     T+G++  I  +E++  K  L  WD  GQ   RSI + YY  A+A++   
Sbjct: 47  TQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTY 106
Query: 88  DAACPSRF 95
           D  C   F
Sbjct: 107 DITCEESF 114

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 42.7 bits (99), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 24/89 (26%), Positives = 42/89 (47%), Gaps = 5/89 (5%)
Query: 40  IVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRF 95
            + TVG++       ++    KL  WD  GQ   RS+   YY +AHA++ + D    + F
Sbjct: 40  FISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASF 99
Query: 96  EDSKTALEKVLRNEDLQGAPLLILANKQD 124
           ++ +  L ++          L++L NK D
Sbjct: 100 DNIQAWLTEIHEYAQ-HDVALMLLGNKVD 127

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score = 42.7 bits (99), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 31/109 (28%), Positives = 47/109 (43%), Gaps = 8/109 (7%)
Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           +L  WD  GQ   RS+   Y  ++   V V D    + F  +   ++ V R E      +
Sbjct: 64  RLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDV-RTERGSDVII 122
Query: 117 LILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKE 163
           +++ NK DL D   VS +E  R     K  E   MF   S   G+ +K+
Sbjct: 123 MLVGNKTDLSDKRQVSTEEGER-----KAKELNVMFIETSAKAGYNVKQ 166

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 36/128 (28%), Positives = 54/128 (42%), Gaps = 14/128 (10%)
Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           K   WD  GQ    S+   YY  A A + V D    + FE +K  ++++      QG P 
Sbjct: 62  KFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQEL----QAQGNPN 117
Query: 117 LILA---NKQDLPDA--VSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEV 171
           +++A   NK DL DA  V+A++   Y       E    F   S      +KE    +   
Sbjct: 118 MVMALAGNKSDLLDARKVTAEDAQTY-----AQENGLFFMETSAKTATNVKEIFYEIARR 172
Query: 172 MERSKRTE 179
           + R + TE
Sbjct: 173 LPRVQPTE 180

>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 = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 31/109 (28%), Positives = 48/109 (44%), Gaps = 8/109 (7%)
Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           +L  WD  GQ   RS+   Y  ++   V V D    + F+ +   ++ V R E      +
Sbjct: 51  RLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDV-RTERGSDVII 109
Query: 117 LILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKE 163
           +++ NK DL D   VS +E  R     K  E   MF   S   G+ +K+
Sbjct: 110 MLVGNKTDLADKRQVSIEEGER-----KAKELNVMFIETSAKAGYNVKQ 153

>pdb|2F7S|A Chain A, The Crystal Structure Of Human Rab27b Bound To Gdp Length = 217

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 29/119 (24%), Positives = 56/119 (47%), Gaps = 6/119 (5%)
Query: 58  LVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLL 117
           L  WD  GQ   RS+   ++ +A   + + D      F + +  + ++  N   +   ++
Sbjct: 86  LQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIV 145
Query: 118 ILANKQDLPDAVSADE-LARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE-VMER 174
           ++ NK DLPD    +E  AR L     D+    +   S   G  ++++VE L++ +M+R
Sbjct: 146 LIGNKADLPDQREVNERQAREL----ADKYGIPYFETSAATGQNVEKAVETLLDLIMKR 200

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 41/146 (28%), Positives = 64/146 (43%), Gaps = 19/146 (13%)
Query: 32  VEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAAC 91
           V  +  D  V T+  N  RI     KL  WD  GQ   R+I   YY  A   + + D   
Sbjct: 35  VSTVGIDFKVKTIYRNDKRI-----KLQIWDTAGQERYRTITTAYYRGAMGFILMYDITN 89
Query: 92  PSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSAD---ELARYLDLKKLDER 146
              F ++       ++      A +L++ NK D+ D   VS++   +LA +L  +     
Sbjct: 90  EESF-NAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFE----- 143
Query: 147 VCMFEAVSGYDGFGIKESVEWLVEVM 172
              FEA S  D   +K++ E LV+V+
Sbjct: 144 --FFEA-SAKDNINVKQTFERLVDVI 166

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 28/98 (28%), Positives = 49/98 (50%), Gaps = 6/98 (6%)
Query: 41  VPTVGLN--IGRIEVSNSK--LVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE 96
           + T+G++  I  ++++  K  L  WD  GQ   R+I   YY  A  ++ V D      F 
Sbjct: 50  ITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTDERTFT 109
Query: 97  DSKTALEKVLRNEDLQGAPLLILANKQDLPD-AVSADE 133
           + K   + V  + + + A LL++ NK D+    V+AD+
Sbjct: 110 NIKQWFKTVNEHANDE-AQLLLVGNKSDMETRVVTADQ 146

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 28/98 (28%), Positives = 49/98 (50%), Gaps = 6/98 (6%)
Query: 41  VPTVGLN--IGRIEVSNSK--LVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE 96
           + T+G++  I  ++++  K  L  WD  GQ   R+I   YY  A  ++ V D      F 
Sbjct: 37  ITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTDERTFT 96
Query: 97  DSKTALEKVLRNEDLQGAPLLILANKQDLPD-AVSADE 133
           + K   + V  + + + A LL++ NK D+    V+AD+
Sbjct: 97  NIKQWFKTVNEHANDE-AQLLLVGNKSDMETRVVTADQ 133

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 32/109 (29%), Positives = 49/109 (44%), Gaps = 10/109 (9%)
Query: 41  VPTVGLN--IGRIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE 96
           + T+G++  I  IE+     KL  WD  GQ   R+I   YY  AH ++ V D      F 
Sbjct: 38  ISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFN 97
Query: 97  DSKTALEKVLRNEDLQGAPLLILANKQDLP-----DAVSADELARYLDL 140
           + K  L+++ R    +    L++  K DL      D  +A E A  L +
Sbjct: 98  NVKQWLQEIDRYAS-ENVNKLLVGIKCDLTTKKVVDYTTAKEFADSLGI 145

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score = 41.2 bits (95), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 28/98 (28%), Positives = 49/98 (50%), Gaps = 6/98 (6%)
Query: 41  VPTVGLN--IGRIEVSNSK--LVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE 96
           + T+G++  I  ++++  K  L  WD  GQ   R+I   YY  A  ++ V D      F 
Sbjct: 33  ITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTFT 92
Query: 97  DSKTALEKVLRNEDLQGAPLLILANKQDLPD-AVSADE 133
           + K   + V  + + + A LL++ NK D+    V+AD+
Sbjct: 93  NIKQWFKTVNEHANDE-AQLLLVGNKSDMETRVVTADQ 129

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score = 40.8 bits (94), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 27/87 (31%), Positives = 35/87 (40%), Gaps = 5/87 (5%)
Query: 43  TVGLNIG----RIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDS 98
           T+G+  G     I+    KL  WD  GQ   RSI   YY  A   + V D      F   
Sbjct: 42  TIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRDTFNHL 101
Query: 99  KTALEKVLRNEDLQGAPLLILANKQDL 125
            T LE   R        ++++ NK DL
Sbjct: 102 TTWLEDA-RQHSNSNMVIMLIGNKSDL 127

>pdb|3BFK|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab11a In Complex With Gdp Length = 181

Iteration: 1
 Score = 40.8 bits (94), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 29/109 (26%), Positives = 53/109 (48%), Gaps = 8/109 (7%)
Query: 42  PTVGLNIG--RIEVSNSKLV---FWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE 96
            T+G+      I++ N+K++    WD  GQ   R+I   YY  A   + V D    + FE
Sbjct: 38  STIGVEFATKSIQLKNNKIIKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKKNSFE 97
Query: 97  DSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKL 143
           + +  L+++  N D     +L++ NK DL     ++ ++  +Y   +KL
Sbjct: 98  NIEKWLKELRDNAD-SNIVILLVGNKSDLKHLRVINDNDATQYAKKEKL 145

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score = 40.4 bits (93), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 30/108 (27%), Positives = 47/108 (43%), Gaps = 8/108 (7%)
Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           +L  WD  GQ   RS+   Y  ++ A + V D      FE++   ++ +L NE  +   +
Sbjct: 51  RLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDIL-NERGKDVII 109
Query: 117 LILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIK 162
            ++ NK DL D   V+ +E       +K  E    F   S   G  IK
Sbjct: 110 ALVGNKTDLGDLRKVTYEE-----GXQKAQEYNTXFHETSAKAGHNIK 152

>pdb|2IF0|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 200

Iteration: 1
 Score = 40.4 bits (93), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 29/123 (23%), Positives = 59/123 (47%), Gaps = 8/123 (6%)
Query: 58  LVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLL 117
           L  WD  G    RS+   ++ +A   + + D      F + +  + ++  N   +   ++
Sbjct: 72  LQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIV 131
Query: 118 ILANKQDLPDAVSADELARYLDLKKLDER--VCMFEAVSGYDGFGIKESVEWLVE-VMER 174
           ++ NK DLPD    +E       ++L E+  +  FE  S   G  +++SVE L++ +M+R
Sbjct: 132 LIGNKADLPDQREVNERQ----ARELAEKYGIPYFE-TSAATGQNVEKSVETLLDLIMKR 186
Query: 175 SKR 177
            ++
Sbjct: 187 MEK 189

>pdb|2FH5|B Chain B, The Structure Of The Mammalian Srp Receptor Length = 214

Iteration: 1
 Score = 40.4 bits (93), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 39/113 (34%), Positives = 59/113 (52%), Gaps = 7/113 (6%)
Query: 52  EVSNSK---LVFWDLGGQPGLR-SIWEKYYEEAHAVVFVIDAACPSR-FEDSKTALEKVL 106
           +V+N++   L   DL G   LR  + +++   A AVVFV+D+A   R  +D    L +VL
Sbjct: 47  KVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVL 106
Query: 107 RNE-DLQGAP-LLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYD 157
            +   L+ +P LLI  NKQD+  A SA  + + L+ +    RV    A S  D
Sbjct: 107 IDSMALKNSPSLLIACNKQDIAMAKSAKLIQQQLEKELNTLRVTRSAAPSTLD 159

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score = 40.0 bits (92), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 28/98 (28%), Positives = 48/98 (48%), Gaps = 6/98 (6%)
Query: 41  VPTVGLN--IGRIEVSNSK--LVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE 96
           + T+G++  I  ++++  K  L  WD  GQ   R+I   YY  A  ++ V D      F 
Sbjct: 33  ITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAXGIILVYDVTDERTFT 92
Query: 97  DSKTALEKVLRNEDLQGAPLLILANKQDLPD-AVSADE 133
           + K   + V  + + + A LL++ NK D     V+AD+
Sbjct: 93  NIKQWFKTVNEHANDE-AQLLLVGNKSDXETRVVTADQ 129

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score = 40.0 bits (92), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 27/111 (24%), Positives = 49/111 (44%), Gaps = 12/111 (10%)
Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           +L  WD  GQ   RS+   Y  ++   V V D    + F+ +   ++ V R E      +
Sbjct: 52  RLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNLNSFQQTSKWIDDV-RTERGSDVII 110
Query: 117 LILANKQDLPDAVSADELARYLDLKKLDERV----CMFEAVSGYDGFGIKE 163
           +++ NK DL D        R + +++ ++R      MF   S   G+ +K+
Sbjct: 111 MLVGNKTDLAD-------KRQITIEEGEQRAKELSVMFIETSAKTGYNVKQ 154

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score = 40.0 bits (92), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 26/87 (29%), Positives = 35/87 (40%), Gaps = 5/87 (5%)
Query: 43  TVGLNIG----RIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDS 98
           T+G+  G     I+    KL  WD  GQ   RSI   YY  A   + V D      F   
Sbjct: 53  TIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHL 112
Query: 99  KTALEKVLRNEDLQGAPLLILANKQDL 125
            + LE   R        ++++ NK DL
Sbjct: 113 TSWLEDA-RQHSSSNMVIMLIGNKSDL 138

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	192
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	2e-66
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	8e-66
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	3e-65
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	1e-64
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	9e-64
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	4e-63
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	2e-62
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	3e-62
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	5e-62
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	1e-61
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	6e-61
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	9e-57
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	3e-55
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	3e-53
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	3e-49
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	2e-40
2fh5_B	214	SR-beta, signal recognition particle receptor beta	3e-34
2ged_A	193	SR-beta, signal recognition particle receptor beta	8e-30
1nrj_B	218	SR-beta, signal recognition particle receptor beta	6e-29
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	1e-21
3llu_A	196	RAS-related GTP-binding protein C; structural geno	2e-18
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	9e-18
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	2e-14
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	9e-10
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	5e-09
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	8e-09
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	3e-08
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	6e-08
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	7e-08
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	9e-08
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	1e-07
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	1e-07
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	1e-07
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	1e-07
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	1e-07
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	1e-07
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	2e-07
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	2e-07
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	2e-07
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	3e-07
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	4e-07
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	5e-07
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	7e-07
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	8e-07
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	9e-07
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	1e-06
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	1e-06
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	2e-06
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	2e-06
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	2e-06
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	2e-06
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	3e-06
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	3e-06
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	4e-06
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	4e-06
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	4e-06
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	5e-06
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	6e-06
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	6e-06
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	6e-06
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	7e-06
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	7e-06
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	7e-06
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	7e-06
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	8e-06
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	8e-06
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	9e-06
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	1e-05
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	1e-05
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	1e-05
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	1e-05
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	1e-05
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	1e-05
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	1e-05
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	2e-05
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	2e-05
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	2e-05
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	2e-05
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	2e-05
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	2e-05
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	2e-05
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	3e-05
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	3e-05
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	3e-05
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	3e-05
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	3e-05
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	3e-05
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	4e-05
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	5e-05
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	5e-05
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	6e-05
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	7e-05
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	8e-05
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	8e-05
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	9e-05
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	1e-04
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	1e-04
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	2e-04
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	2e-04
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	2e-04
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	2e-04
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	4e-04
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	5e-04
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	6e-04
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	7e-04
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	8e-04
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	8e-04
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	8e-04

>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 =  200 bits (511), Expect = 2e-66
 Identities = 57/189 (30%), Positives = 89/189 (47%), Gaps = 21/189 (11%)

Query: 1   MFSLFYGLWKYIFTKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNI 48
           + S+   L        E              TLL++L              I PT G NI
Sbjct: 2   LLSILRKLKS--APDQEVRILLLGLDNAGKTTLLKQLA-------SEDISHITPTQGFNI 52

Query: 49  GRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRN 108
             ++    KL  WD+GGQ  +R  W  Y+E    +++VID+A   RFE++   L ++L  
Sbjct: 53  KSVQSQGFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEE 112

Query: 109 EDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL 168
           E L   P+LI ANKQDL  A  A E+A  L+L  + +RV   ++ S   G G+++ + W+
Sbjct: 113 EKLSCVPVLIFANKQDLLTAAPASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWV 172

Query: 169 VEVMERSKR 177
            + +   K+
Sbjct: 173 CKNVNAKKK 181

>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 =  199 bits (508), Expect = 8e-66
 Identities = 52/190 (27%), Positives = 91/190 (47%), Gaps = 20/190 (10%)

Query: 1   MFSLFYGLWKYIFTKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNI 48
           M  LF  +W+ +F   E              T+L +                 PT+G N+
Sbjct: 1   MGILFTRIWR-LFNHQEHKVIIVGLDNAGKTTILYQFS-------MNEVVHTSPTIGSNV 52

Query: 49  GRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRN 108
             I ++N++ + WD+GGQ  LRS W  YY     V+ V+D+    R   ++  L K+L +
Sbjct: 53  EEIVINNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAH 112

Query: 109 EDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL 168
           EDL+ A LLI ANKQD+ + ++  E++++L L  + +     +A     G G+ + +EW+
Sbjct: 113 EDLRKAGLLIFANKQDVKECMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWM 172

Query: 169 VEVMERSKRT 178
           +  ++     
Sbjct: 173 MSRLKIRLEH 182

>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 =  197 bits (504), Expect = 3e-65
 Identities = 58/181 (32%), Positives = 86/181 (47%), Gaps = 19/181 (10%)

Query: 4   LFYGLWKYIFTKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRI 51
           L   L K    + E              T+L+K         G   D I PT+G NI  +
Sbjct: 5   LLTILKKMKQKERELRLLMLGLDNAGKTTILKKFN-------GEDVDTISPTLGFNIKTL 57

Query: 52  EVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDL 111
           E    KL  WD+GGQ  LRS W  Y+E    +++V+D+A   R +D +  L+ +L  E L
Sbjct: 58  EHRGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERL 117

Query: 112 QGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEV 171
            GA LLI ANKQDLP A+S + +   L+L  +       +  S   G  +   ++WL++ 
Sbjct: 118 AGATLLIFANKQDLPGALSCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDD 177

Query: 172 M 172
           +
Sbjct: 178 I 178

>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 =  195 bits (499), Expect = 1e-64
 Identities = 60/189 (31%), Positives = 97/189 (51%), Gaps = 20/189 (10%)

Query: 1   MFSLFYGLWKYIF-TKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLN 47
           M ++F  ++  ++ +  E              T+L +L+               PT+G N
Sbjct: 1   MGNIFSSMFDKLWGSNKELRILILGLDGAGKTTILYRLQIGE-------VVTTKPTIGFN 53

Query: 48  IGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLR 107
           +  +   N KL  WDLGGQ  +R  W  YY +  AV+FV+D+    R   +   L  +L+
Sbjct: 54  VETLSYKNLKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQ 113

Query: 108 NEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW 167
            E+LQ A LL+ ANKQD P A+SA E+++ L+L +L +R     A S   G GI E ++W
Sbjct: 114 EEELQDAALLVFANKQDQPGALSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDW 173

Query: 168 LVEVMERSK 176
           L++V++  +
Sbjct: 174 LIDVIKEEQ 182

>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 =  193 bits (494), Expect = 9e-64
 Identities = 55/164 (33%), Positives = 91/164 (55%), Gaps = 10/164 (6%)

Query: 15  KTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWE 74
           KT   T +  + S      G   + ++PTVG N+ +I   N  +  WD+GGQP  RS+WE
Sbjct: 35  KT---TFVNVIAS------GQFNEDMIPTVGFNMRKITKGNVTIKLWDIGGQPRFRSMWE 85

Query: 75  KYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADEL 134
           +Y     A+V+++DAA   + E SK  L  +L    LQG P+L+L NK+DLP A+   EL
Sbjct: 86  RYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALDEKEL 145

Query: 135 ARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSKRT 178
              ++L  + +R     ++S  +   I  +++WL++   +S+R+
Sbjct: 146 IEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQHS-KSRRS 188

>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 =  192 bits (490), Expect = 4e-63
 Identities = 51/164 (31%), Positives = 91/164 (55%), Gaps = 10/164 (6%)

Query: 15  KTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWE 74
           KT   T++ KLK             I+PT+G +I + + S+     +D+ GQ   R++WE
Sbjct: 34  KT---TIINKLKP-----SNAQSQNILPTIGFSIEKFKSSSLSFTVFDMSGQGRYRNLWE 85

Query: 75  KYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQG--APLLILANKQDLPDAVSAD 132
            YY+E  A++FVID++   R   +K  L+ +L + D++    P+L  ANK DL DAV++ 
Sbjct: 86  HYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRDAVTSV 145

Query: 133 ELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSK 176
           ++++ L L+ + ++     A     G G++E V+WL + ++  K
Sbjct: 146 KVSQLLCLENIKDKPWHICASDAIKGEGLQEGVDWLQDQIQTVK 189

>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 =  190 bits (484), Expect = 2e-62
 Identities = 52/162 (32%), Positives = 84/162 (51%), Gaps = 10/162 (6%)

Query: 15  KTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWE 74
           KT   T+L KLK              +PT+G N+  +E  N     WD+GGQ  +R +W 
Sbjct: 13  KT---TILYKLK-------LGEIVTTIPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWR 62

Query: 75  KYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADEL 134
            Y++    ++FV+D+    R  +++  L ++L  ++L+ A LL+ ANKQDLP+A++A E+
Sbjct: 63  HYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEI 122

Query: 135 ARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSK 176
              L L  L  R    +A     G G+ E ++WL   +   K
Sbjct: 123 TDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLRNQK 164

>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 =  190 bits (484), Expect = 3e-62
 Identities = 48/158 (30%), Positives = 83/158 (52%), Gaps = 10/158 (6%)

Query: 15  KTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWE 74
           KT   T+L +                 PT+G N+  I ++N++ + WD+GGQ  LRS W 
Sbjct: 34  KT---TILYQFS-------MNEVVHTSPTIGSNVEEIVINNTRFLMWDIGGQESLRSSWN 83

Query: 75  KYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADEL 134
            YY     V+ V+D+    R   ++  L K+L +EDL+ A LLI ANKQD+ + ++  E+
Sbjct: 84  TYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTVAEI 143

Query: 135 ARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVM 172
           +++L L  + +     +A     G G+ + +EW++  +
Sbjct: 144 SQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRL 181

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major} Length = 189

 Score =  189 bits (483), Expect = 5e-62
 Identities = 55/187 (29%), Positives = 86/187 (45%), Gaps = 22/187 (11%)

Query: 1   MFSLFYGLWKYI---FTKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVG 45
           M +    L + +       +              ++L +L               VPTVG
Sbjct: 3   MGAWLASLKQTLGLLPADRKIRVLMLGLDNAGKTSILYRLH-------LGDVVTTVPTVG 55

Query: 46  LNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKV 105
           +N+  ++  N     WDLGGQ G+R  W  Y+ +  AV++V+D+    R   +K  L  +
Sbjct: 56  VNLETLQYKNISFEVWDLGGQTGVRPYWRCYFSDTDAVIYVVDSTDRDRMGVAKHELYAL 115

Query: 106 LRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESV 165
           L  ++L+ + LLI ANKQDLPDA S  E+A  L +  +  R       S   G G+ E +
Sbjct: 116 LDEDELRKSLLLIFANKQDLPDAASEAEIAEQLGVSSIMNRTWTIVKSSSKTGDGLVEGM 175

Query: 166 EWLVEVM 172
           +WLVE +
Sbjct: 176 DWLVERL 182

>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 =  189 bits (481), Expect = 1e-61
 Identities = 53/179 (29%), Positives = 89/179 (49%), Gaps = 19/179 (10%)

Query: 8   LWKYIFTKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSN 55
           L+  IF K +              T+L KLK              +PT+G N+  +E  N
Sbjct: 20  LFSRIFGKKQMRILMVGLDAAGKTTILYKLKLGE-------IVTTIPTIGFNVETVEYKN 72

Query: 56  SKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAP 115
                WD+GGQ  +R +W  Y++    ++FV+D+    R ++S   L+K+L+ ++L+ A 
Sbjct: 73  ICFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAV 132

Query: 116 LLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMER 174
           LL+ ANKQD+P+A+   EL   L L+ L  R    +A     G G+ + ++WL   + +
Sbjct: 133 LLVFANKQDMPNAMPVSELTDKLGLQHLRSRTWYVQATCATQGTGLYDGLDWLSHELSK 191

>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 =  186 bits (474), Expect = 6e-61
 Identities = 54/162 (33%), Positives = 84/162 (51%), Gaps = 10/162 (6%)

Query: 15  KTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWE 74
           KT   T+L +L+              +PT+G N+  +   N K   WDLGG   +R  W 
Sbjct: 20  KT---TILYRLQ-------VGEVVTTIPTIGFNVETVTYKNLKFQVWDLGGLTSIRPYWR 69

Query: 75  KYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADEL 134
            YY    AV++V+D+    R   SK+ L  +L  E+L+ A L++ ANKQD+  A+++ E+
Sbjct: 70  CYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEM 129

Query: 135 ARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSK 176
           A  L L  L +R       S   G G+ E++EWLVE ++  +
Sbjct: 130 ANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLKSRQ 171

>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 =  180 bits (459), Expect = 9e-57
 Identities = 45/137 (32%), Positives = 76/137 (55%)

Query: 40  IVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSK 99
            +PT+G N+  +E  N     WD+GGQ  +R +W  Y++    ++FV+D+    R  +++
Sbjct: 193 TIPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAR 252

Query: 100 TALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGF 159
             L ++L  ++L+ A LL+ ANKQDLP+A++A E+   L L  L  R    +A     G 
Sbjct: 253 EELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGD 312

Query: 160 GIKESVEWLVEVMERSK 176
           G+ E ++WL   +   K
Sbjct: 313 GLYEGLDWLSNQLRNQK 329

>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 =  172 bits (439), Expect = 3e-55
 Identities = 49/190 (25%), Positives = 77/190 (40%), Gaps = 27/190 (14%)

Query: 1   MFSLFYGLWKYI-FTKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLN 47
           +F  F  +   +                    TLL  LK             + PT    
Sbjct: 6   IFGWFRDVLASLGLWNKHGKLLFLGLDNAGKTTLLHMLK-------NDRLATLQPTWHPT 58

Query: 48  IGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLR 107
              + + N K   +DLGG    R +W+ Y+ E + +VF++DAA P RF++++  L+ +  
Sbjct: 59  SEELAIGNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFN 118

Query: 108 NEDLQGAPLLILANKQDLPDAVSADELARYLDLKKL-------DERVCMFEAVSGYDGFG 160
             +L+  P +IL NK D P+AVS  EL   L L           +R       S     G
Sbjct: 119 IAELKDVPFVILGNKIDAPNAVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNG 178

Query: 161 IKESVEWLVE 170
             E+ +WL +
Sbjct: 179 YLEAFQWLSQ 188

>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 =  167 bits (426), Expect = 3e-53
 Identities = 46/198 (23%), Positives = 79/198 (39%), Gaps = 32/198 (16%)

Query: 1   MFSLFYGLWKYI-FTKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLN 47
           ++S F  + +++   K                TLL  LK              VPT+   
Sbjct: 8   IYSGFSSVLQFLGLYKKTGKLVFLGLDNAGKTTLLHMLKDDRLGQ-------HVPTLHPT 60

Query: 48  IGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLR 107
              + ++      +DLGG    R +W+ Y    + +VF++D A   R  +SK  L+ ++ 
Sbjct: 61  SEELTIAGMTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMT 120

Query: 108 NEDLQGAPLLILANKQDLPDAVSADELARYL------------DLKKLDERVCMFEAVSG 155
           +E +   P+LIL NK D P+A+S + L                 LK+L+ R       S 
Sbjct: 121 DETIANVPILILGNKIDRPEAISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSV 180

Query: 156 YDGFGIKESVEWLVEVME 173
               G  E   W+ + ++
Sbjct: 181 LKRQGYGEGFRWMAQYID 198

>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 =  134 bits (340), Expect = 2e-40
 Identities = 34/178 (19%), Positives = 71/178 (39%), Gaps = 23/178 (12%)

Query: 15  KTEFHTLLEKLKSVYSNVEGLP----PDRIVPTVGLNIGRIEVS-----NSKLVFWDLGG 65
           KT   T L+ + S                   T+  +   +++       ++   + + G
Sbjct: 27  KT---TNLKWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRFHLYTVPG 83

Query: 66  QPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRN-----EDLQGAPLLILA 120
           Q    +  +        +VFV D+A P+R   +  ++  +  N       L   P++I  
Sbjct: 84  QVFYNASRKLILRGVDGIVFVADSA-PNRLRANAESMRNMRENLAEYGLTLDDVPIVIQV 142

Query: 121 NKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE-VMERSKR 177
           NK+DLPDA+  + +   +D    + +  + EA    +G G+ E+++ +   V+ R   
Sbjct: 143 NKRDLPDALPVEMVRAVVD---PEGKFPVLEA-VATEGKGVFETLKEVSRLVLARVAG 196

>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 =  119 bits (301), Expect = 3e-34
 Identities = 42/161 (26%), Positives = 65/161 (40%), Gaps = 19/161 (11%)

Query: 15  KTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSK---LVFWDLGGQPGLR- 70
           KT    L  +L +               ++  +    +V+N++   L   DL G   LR 
Sbjct: 20  KT---LLFVRLLTG-------QYRDTQTSITDSSAIYKVNNNRGNSLTLIDLPGHESLRF 69

Query: 71  SIWEKYYEEAHAVVFVIDAACPSRF-EDSKTALEKVLRNEDL--QGAPLLILANKQDLPD 127
            + +++   A AVVFV+D+A   R  +D    L +VL +         LLI  NKQD+  
Sbjct: 70  QLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAM 129

Query: 128 AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL 168
           A SA  + + L+ +    RV    A S  D          L
Sbjct: 130 AKSAKLIQQQLEKELNTLRVTRSAAPSTLDSSSTAP--AQL 168

>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 =  107 bits (269), Expect = 8e-30
 Identities = 26/134 (19%), Positives = 49/134 (36%), Gaps = 19/134 (14%)

Query: 15  KTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWE 74
           KT   +LL  L +     + + P   V +    +   +   S +   D  G   LR    
Sbjct: 61  KT---SLLTLLTT-----DSVRP--TVVSQE-PLSAADYDGSGVTLVDFPGHVKLRYKLS 109

Query: 75  KYYEE----AHAVVFVIDAAC-PSRFEDSKTALEKVLRNEDL---QGAPLLILANKQDLP 126
            Y +        ++F++D+   P +   +   L  +L   +     G  +LI  NK +L 
Sbjct: 110 DYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELF 169

Query: 127 DAVSADELARYLDL 140
            A    ++   L+ 
Sbjct: 170 TARPPSKIKDALES 183

>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 =  105 bits (265), Expect = 6e-29
 Identities = 28/134 (20%), Positives = 48/134 (35%), Gaps = 23/134 (17%)

Query: 15  KTEFHTLLEKLKSVYSNVEGLPPDRIVPTVG--LNIGRIEVSNSKLVFWDLGGQPGLRSI 72
           KT   +LL  L +          D + PTV     +   +   S +   D  G   LR  
Sbjct: 25  KT---SLLTLLTT----------DSVRPTVVSQEPLSAADYDGSGVTLVDFPGHVKLRYK 71

Query: 73  WEKYYEEA----HAVVFVIDAAC-PSRFEDSKTALEKVLRNEDL---QGAPLLILANKQD 124
              Y +        ++F++D+   P +   +   L  +L   +     G  +LI  NK +
Sbjct: 72  LSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSE 131

Query: 125 LPDAVSADELARYL 138
           L  A    ++   L
Sbjct: 132 LFTARPPSKIKDAL 145

>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} Length = 227

 Score = 87.4 bits (216), Expect = 1e-21
 Identities = 24/122 (19%), Positives = 42/122 (34%), Gaps = 7/122 (5%)

Query: 61  WDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDL----QGAPL 116
              G +  +    +K  E     ++V +A    R E        ++   D      G PL
Sbjct: 107 DQQGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQD-EFSHIMAMTDPAFGSSGRPL 165

Query: 117 LIL-ANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS 175
           L+L    Q     +    LA  L L  L+    + +        G    +EW++E +E  
Sbjct: 166 LVLSCISQGDVKRMPCFYLAHELHLNLLN-HPWLVQDTEAETLTGFLNGIEWILEEVESK 224

Query: 176 KR 177
           + 
Sbjct: 225 RA 226

>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 = 78.1 bits (192), Expect = 2e-18
 Identities = 24/145 (16%), Positives = 41/145 (28%), Gaps = 12/145 (8%)

Query: 25  LKSVYSNVEGLPPDRIVPTVGLNIGRIEV-SNSKLVFWDLGGQPGLRSIW---EKYYEEA 80
            K V+  +       +  T  +    I   S      WD  GQ          E  +   
Sbjct: 37  QKVVFHKMSPNETLFLESTNKIYKDDISNSSFVNFQIWDFPGQMDFFDPTFDYEMIFRGT 96

Query: 81  HAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDL 140
            A+++VIDA        ++  +      +        +  +K D        E  R +  
Sbjct: 97  GALIYVIDAQDDYMEALTRLHITVSKAYKVNPDMNFEVFIHKVDGLSDDHKIETQRDIHQ 156

Query: 141 KKLDE--------RVCMFEAVSGYD 157
           +  D+            F   S YD
Sbjct: 157 RANDDLADAGLEKLHLSFYLTSIYD 181

>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} Length = 312

 Score = 78.2 bits (192), Expect = 9e-18
 Identities = 24/121 (19%), Positives = 43/121 (35%), Gaps = 7/121 (5%)

Query: 62  DLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDL----QGAPLL 117
             G +  +    +K  E     ++V +A    R E        ++   D      G PLL
Sbjct: 193 QQGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQD-EFSHIMAMTDPAFGSSGRPLL 251

Query: 118 ILA-NKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSK 176
           +L+   Q     +    LA  L L  L+    + +        G    +EW++E +E  +
Sbjct: 252 VLSCISQGDVKRMPCFYLAHELHLNLLN-HPWLVQDTEAETLTGFLNGIEWILEEVESKR 310

Query: 177 R 177
            
Sbjct: 311 A 311

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 307

 Score = 69.3 bits (169), Expect = 2e-14
 Identities = 24/158 (15%), Positives = 54/158 (34%), Gaps = 14/158 (8%)

Query: 25  LKSVYSNVEGLPPDRIVPTVGLNIGRIE-VSNSKLVFWDLGGQ-----PGLRSIWEKYYE 78
              ++SN       R+  T+ +    +  + N  L  WD GGQ            +  ++
Sbjct: 20  RSIIFSNYSAFDTRRLGATIDVEHSHLRFLGNMTLNLWDCGGQDVFMENYFTKQKDHIFQ 79

Query: 79  EAHAVVFVIDAACPSRFEDSKTALEKVLRNEDL-QGAPLLILANKQDLPDAVSADELARY 137
               ++ V D       +D +   + + +       A + +L +K DL      +EL + 
Sbjct: 80  MVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLHKMDLVQLDKREELFQI 139

Query: 138 L------DLKKLDERVCMFEAVSGYDGFGIKESVEWLV 169
           +         +      +    S +D   + ++   +V
Sbjct: 140 MMKNLSETSSEFGFPNLIGFPTSIWDE-SLYKAWSQIV 176

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 331

 Score = 55.8 bits (134), Expect = 9e-10
 Identities = 25/146 (17%), Positives = 53/146 (36%), Gaps = 16/146 (10%)

Query: 25  LKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIW---EKYYEEAH 81
            K V+ N++ L    +  T   ++     +   L   +L GQ          E+ ++   
Sbjct: 16  CKVVFHNMQPLDTLYLESTSNPSLEHFS-TLIDLAVMELPGQLNYFEPSYDSERLFKSVG 74

Query: 82  AVVFVIDAACPSRFEDSKTALEKVLRN--EDLQGAPLLILANKQDLPDAVSADELARYLD 139
           A+V+VID+     + ++ T L  ++    +      + +L +K D        +  R + 
Sbjct: 75  ALVYVIDSQ--DEYINAITNLAMIIEYAYKVNPSINIEVLIHKVDGLSEDFKVDAQRDIM 132

Query: 140 LKKLDE--------RVCMFEAVSGYD 157
            +  +E            F   S +D
Sbjct: 133 QRTGEELLELGLDGVQVSFYLTSIFD 158

>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* Length = 402

 Score = 53.7 bits (128), Expect = 5e-09
 Identities = 21/95 (22%), Positives = 44/95 (46%), Gaps = 10/95 (10%)

Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAAC--------- 91
           V T G+   + +V       +D+GGQ   R  W + + +  A++FV+ ++          
Sbjct: 202 VLTSGIFETKFQVDKVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDN 261

Query: 92  -PSRFEDSKTALEKVLRNEDLQGAPLLILANKQDL 125
             +R +++    + +  N  L+   +++  NKQDL
Sbjct: 262 QTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDL 296

>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 = 51.8 bits (125), Expect = 8e-09
 Identities = 29/144 (20%), Positives = 52/144 (36%), Gaps = 22/144 (15%)

Query: 51  IEVSNSKLVF----------WDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           IE S  K V            D  GQ    ++ ++Y       + V        F D   
Sbjct: 54  IEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNSKSFADINL 113

Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPD-AVSADE---LARYLDLKKLDERVCMFEAVSGY 156
             E++ R +D    P++++ NK DLP   V   +   LA+             F   S  
Sbjct: 114 YREQIKRVKDSDDVPMVLVGNKCDLPTRTVDTKQAHELAKSYG--------IPFIETSAK 165

Query: 157 DGFGIKESVEWLVEVMERSKRTEM 180
              G++++   LV  + + +  ++
Sbjct: 166 TRQGVEDAFYTLVREIRQYRMKKL 189

>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* Length = 362

 Score = 51.3 bits (122), Expect = 3e-08
 Identities = 20/95 (21%), Positives = 41/95 (43%), Gaps = 10/95 (10%)

Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA---------- 90
            PT G++    E+ N      D+GGQ   R  W + ++   +++F++ ++          
Sbjct: 186 RPTKGIHEYDFEIKNVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDR 245

Query: 91  CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDL 125
             +R  +S    E ++ N       +++  NK DL
Sbjct: 246 QTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDL 280

>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* Length = 327

 Score = 50.4 bits (120), Expect = 6e-08
 Identities = 21/95 (22%), Positives = 42/95 (44%), Gaps = 10/95 (10%)

Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA---------- 90
           VPT G+     ++ +      D+GGQ   R  W   +E   +++F++  +          
Sbjct: 152 VPTTGIIEYPFDLQSVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESD 211

Query: 91  CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDL 125
             +R E+SK     ++     Q + +++  NK+DL
Sbjct: 212 NENRMEESKALFRTIITYPWFQNSSVILFLNKKDL 246

>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 = 49.0 bits (118), Expect = 7e-08
 Identities = 21/81 (25%), Positives = 36/81 (44%), Gaps = 5/81 (6%)

Query: 61  WDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILA 120
            D  G     ++ + Y +       V      S F D +   E++LR +D +  P++++ 
Sbjct: 56  LDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVG 115

Query: 121 NKQDLPD--AVSADE---LAR 136
           NK DL D   V  ++   LAR
Sbjct: 116 NKCDLEDERVVGKEQGQNLAR 136

>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 = 49.1 bits (118), Expect = 9e-08
 Identities = 20/81 (24%), Positives = 36/81 (44%), Gaps = 5/81 (6%)

Query: 61  WDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILA 120
            D  GQ    ++ E+Y       + V      + FE      + +LR +D +  P++++A
Sbjct: 71  LDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVA 130

Query: 121 NKQDLPD--AVSADE---LAR 136
           NK DL     V+ D+   +A 
Sbjct: 131 NKVDLMHLRKVTRDQGKEMAT 151

>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 = 48.3 bits (116), Expect = 1e-07
 Identities = 21/84 (25%), Positives = 35/84 (41%), Gaps = 4/84 (4%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
            L   D  GQ    ++ ++Y       + V        FED     E++ R +D    P+
Sbjct: 52  LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPM 111

Query: 117 LILANKQDLPD-AVSADE---LAR 136
           +++ NK DL    V + +   LAR
Sbjct: 112 VLVGNKSDLAARTVESRQAQDLAR 135

>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 = 48.7 bits (117), Expect = 1e-07
 Identities = 21/80 (26%), Positives = 35/80 (43%), Gaps = 4/80 (5%)

Query: 61  WDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILA 120
            D  GQ    ++ ++Y       + V        FED     E++ R +D +  P++++ 
Sbjct: 57  LDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVG 116

Query: 121 NKQDLPD-AVSADE---LAR 136
           NK DLP   V   +   LAR
Sbjct: 117 NKCDLPSRTVDTKQAQDLAR 136

>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* ... Length = 353

 Score = 49.7 bits (118), Expect = 1e-07
 Identities = 19/95 (20%), Positives = 37/95 (38%), Gaps = 10/95 (10%)

Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA---------- 90
           V T G+        +     +D+GGQ   R  W   +E   A++F +  +          
Sbjct: 178 VKTTGIVETHFTFKDLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDE 237

Query: 91  CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDL 125
             +R  +S    + +  N+      +++  NK+DL
Sbjct: 238 EMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDL 272

>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 = 48.2 bits (116), Expect = 1e-07
 Identities = 25/120 (20%), Positives = 44/120 (36%), Gaps = 13/120 (10%)

Query: 61  WDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILA 120
            D  G     S+ + Y +     + V        F+D K   ++++R +  +  P++++ 
Sbjct: 56  LDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVG 115

Query: 121 NKQDLPD--AVSADE---LARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS 175
           NK DL     VS+ E   LA            C F   S      + E    +V  M  +
Sbjct: 116 NKVDLESEREVSSSEGRALAEEWG--------CPFMETSAKSKTMVDELFAEIVRQMNYA 167

>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 = 48.3 bits (116), Expect = 1e-07
 Identities = 25/129 (19%), Positives = 45/129 (34%), Gaps = 13/129 (10%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           +L   D  GQ    ++ E+Y    H  + V        F +      ++LR +D    P+
Sbjct: 58  RLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPV 117

Query: 117 LILANKQDLPD--AVSADE---LARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEV 171
           +++ NK DL     V   E                   +   S      + E+ E LV  
Sbjct: 118 VLVGNKADLESQRQVPRSEASAFGASHH--------VAYFEASAKLRLNVDEAFEQLVRA 169

Query: 172 MERSKRTEM 180
           + + +  E+
Sbjct: 170 VRKYQEQEL 178

>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 = 48.2 bits (116), Expect = 1e-07
 Identities = 21/81 (25%), Positives = 34/81 (41%), Gaps = 5/81 (6%)

Query: 61  WDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILA 120
            D  GQ    +I + Y+      + V        F  +    E++LR ++ +  P L++ 
Sbjct: 57  LDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVG 116

Query: 121 NKQDLPD--AVSADE---LAR 136
           NK DL D   VS +E    A 
Sbjct: 117 NKSDLEDKRQVSVEEAKNRAD 137

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens} Length = 206

 Score = 48.4 bits (116), Expect = 2e-07
 Identities = 21/90 (23%), Positives = 38/90 (42%), Gaps = 5/90 (5%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           ++   D  GQ    +I + Y+      + V        F  +    E++LR ++ +  P 
Sbjct: 63  QIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPF 122

Query: 117 LILANKQDLPD--AVSADE---LARYLDLK 141
           L++ NK DL D   VS +E    A   ++ 
Sbjct: 123 LLVGNKSDLEDKRQVSVEEAKNRAEQWNVN 152

>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 = 47.9 bits (115), Expect = 2e-07
 Identities = 24/128 (18%), Positives = 46/128 (35%), Gaps = 13/128 (10%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           ++   D  GQ    +I + Y+      + V        F  +    E++LR ++ +  P 
Sbjct: 67  QIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPF 126

Query: 117 LILANKQDLPD--AVSADE---LARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEV 171
           L++ NK DL D   VS +E    A   +          +   S      + +    L+  
Sbjct: 127 LLVGNKSDLEDKRQVSVEEAKNRAEQWN--------VNYVETSAKTRANVDKVFFDLMRE 178

Query: 172 MERSKRTE 179
           +   K  +
Sbjct: 179 IRARKMED 186

>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 = 47.9 bits (115), Expect = 2e-07
 Identities = 24/92 (26%), Positives = 33/92 (35%), Gaps = 7/92 (7%)

Query: 57  KLVFWDLGGQPGLRSIW--EKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGA 114
            LV  D      L   W  E   +   A V V   A    FE +     ++ R       
Sbjct: 53  TLVVVDTWEAEKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHV 112

Query: 115 PLLILANKQDLPD--AVSADE---LARYLDLK 141
           P++++ NK DL     VS +E    A   D K
Sbjct: 113 PIILVGNKADLARCREVSVEEGRACAVVFDCK 144

>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 = 47.5 bits (114), Expect = 3e-07
 Identities = 22/122 (18%), Positives = 40/122 (32%), Gaps = 13/122 (10%)

Query: 61  WDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILA 120
            D  GQ       + Y  + +  + V        FE  K    K+L        P++++ 
Sbjct: 59  VDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVG 118

Query: 121 NKQDLPD--AVSADE---LARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS 175
           NK+DL     +S +E   LA   +          F   S  +     +    ++   E+ 
Sbjct: 119 NKKDLHMERVISYEEGKALAESWN--------AAFLESSAKENQTAVDVFRRIILEAEKM 170

Query: 176 KR 177
             
Sbjct: 171 DG 172

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A* Length = 217

 Score = 47.7 bits (114), Expect = 4e-07
 Identities = 30/140 (21%), Positives = 58/140 (41%), Gaps = 14/140 (10%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
            L  WD  GQ   RS+   ++ +A   + + D      F + +  + ++  N   +   +
Sbjct: 85  HLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDI 144

Query: 117 LILANKQDLPD--AVSADE---LARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLV-E 170
           +++ NK DLPD   V+  +   LA    +         FE  S   G  ++++VE L+  
Sbjct: 145 VLIGNKADLPDQREVNERQARELADKYGIP-------YFET-SAATGQNVEKAVETLLDL 196

Query: 171 VMERSKRTEMLRARAGASTG 190
           +M+R ++            G
Sbjct: 197 IMKRMEQCVEKTQIPDTVNG 216

>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 = 46.9 bits (112), Expect = 5e-07
 Identities = 33/139 (23%), Positives = 53/139 (38%), Gaps = 13/139 (9%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           KL  WD  GQ   R++   YY  A  V+ V D      F      L ++           
Sbjct: 65  KLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVN 124

Query: 117 LILANKQDLPD-AVSADE---LARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLV-EV 171
           +++ NK D  +  V  +E    AR   +          EA S     G++ + E LV ++
Sbjct: 125 MLVGNKIDKENREVDRNEGLKFARKHSML-------FIEA-SAKTCDGVQCAFEELVEKI 176

Query: 172 MERSKRTEMLRARAGASTG 190
           ++     E     +G S+G
Sbjct: 177 IQTPGLWESENQNSGPSSG 195

>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 = 45.9 bits (110), Expect = 7e-07
 Identities = 23/90 (25%), Positives = 34/90 (37%), Gaps = 5/90 (5%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
            L+ +D+  Q G R +         A V V        FE +     ++ R       P+
Sbjct: 50  SLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPI 109

Query: 117 LILANKQDLPD--AVSADE---LARYLDLK 141
           +++ NK DL     VS DE    A   D K
Sbjct: 110 ILVGNKSDLVRSREVSVDEGRACAVVFDCK 139

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score = 47.3 bits (112), Expect = 8e-07
 Identities = 18/125 (14%), Positives = 45/125 (36%), Gaps = 12/125 (9%)

Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
            P +       E+      FWD GGQ  + +  + +   +   + ++D        +   
Sbjct: 83  APNIKGLENDDELKECLFHFWDFGGQEIMHASHQFFMTRSSVYMLLLD---SRTDSNKHY 139

Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDG 158
            L  + +      +P++++ NK D      +   ++      ++       F  +S  +G
Sbjct: 140 WLRHIEKYGG--KSPVIVVMNKIDENPSYNIEQKKIN-----ERFPAIENRFHRISCKNG 192

Query: 159 FGIKE 163
            G++ 
Sbjct: 193 DGVES 197

>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 = 46.1 bits (110), Expect = 9e-07
 Identities = 33/131 (25%), Positives = 53/131 (40%), Gaps = 21/131 (16%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
            L  WD  GQ   RSI + Y+ +A  V+ + D  C   F + +  ++ +      +  P+
Sbjct: 78  VLQLWDTAGQERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAH-ETVPI 136

Query: 117 LILANKQDLPD--------AVSADE---LARYLDLKKLDERVCMFEAVSGYDGFGIKESV 165
           +++ NK D+ D         V       LA             +F   S  DG  I E+V
Sbjct: 137 MLVGNKADIRDTAATEGQKCVPGHFGEKLAMTYGA--------LFCETSAKDGSNIVEAV 188

Query: 166 EWLV-EVMERS 175
             L  EV +R+
Sbjct: 189 LHLAREVKKRT 199

>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 = 46.2 bits (110), Expect = 1e-06
 Identities = 34/140 (24%), Positives = 57/140 (40%), Gaps = 13/140 (9%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           KL  WD  GQ   R+I   YY  A  ++ V D      F + K   + V  + +   A L
Sbjct: 70  KLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHAN-DEAQL 128

Query: 117 LILANKQDLPD-AVSADE---LARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVM 172
           L++ NK D+    V+AD+   LA+ L +         F   S  +   + E    L +++
Sbjct: 129 LLVGNKSDMETRVVTADQGEALAKELGIP--------FIESSAKNDDNVNEIFFTLAKLI 180

Query: 173 ERSKRTEMLRARAGASTGSV 192
           +    +  L        G++
Sbjct: 181 QEKIDSNKLVGVGNGKEGNI 200

>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 = 45.2 bits (107), Expect = 1e-06
 Identities = 24/107 (22%), Positives = 43/107 (40%), Gaps = 1/107 (0%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           K   WD  GQ    S+   YY  A A + V D   P  F  ++  ++++      +   +
Sbjct: 53  KFEIWDTAGQERFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQAS-KDIII 111

Query: 117 LILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKE 163
            ++ NK D        ++AR    K  +E+  +F   S   G  + +
Sbjct: 112 ALVGNKIDXLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVND 158

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score = 45.7 bits (109), Expect = 2e-06
 Identities = 25/144 (17%), Positives = 47/144 (32%), Gaps = 23/144 (15%)

Query: 51  IEVSNSKLVF----------WDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKT 100
           +E + SK+V            D  GQ     +   +    H  V V        F+  ++
Sbjct: 57  VENTYSKIVTLGKDEFHLHLVDTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIES 116

Query: 101 ALEKVLRNEDLQGAPLLILANKQDLPD--AVSADE---LARYLDLKKLDERVCMFEAVSG 155
             +K+         P++++ NK DL     V A E   LA              F   S 
Sbjct: 117 LYQKLHEGHGKTRVPVVLVGNKADLSPEREVQAVEGKKLAESWG--------ATFMESSA 168

Query: 156 YDGFGIKESVEWLVEVMERSKRTE 179
            +    +     +++ + R + + 
Sbjct: 169 RENQLTQGIFTKVIQEIARVENSY 192

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score = 45.2 bits (108), Expect = 2e-06
 Identities = 19/91 (20%), Positives = 33/91 (36%), Gaps = 6/91 (6%)

Query: 57  KLVFWDLGGQPGLRS-IWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAP 115
            L+ +D+  Q      + +   +   A + V        F      L ++         P
Sbjct: 52  TLIVYDIWEQGDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLP 111

Query: 116 LLILANKQDLPD--AVSADE---LARYLDLK 141
           ++++ NK DL     VS +E   LA  L  K
Sbjct: 112 VILVGNKSDLARSREVSLEEGRHLAGTLSCK 142

>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 = 45.3 bits (108), Expect = 2e-06
 Identities = 29/128 (22%), Positives = 55/128 (42%), Gaps = 14/128 (10%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
            L  WD  G    RS+   ++ +A   + + D      F + +  + ++  +   +   +
Sbjct: 71  HLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDI 130

Query: 117 LILANKQDLPD--AVSADE---LARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLV-E 170
           ++  NK DL D  AV  +E   LA    +         FE  S  +G  I  ++E L+  
Sbjct: 131 VLCGNKSDLEDQRAVKEEEARELAEKYGIP-------YFET-SAANGTNISHAIEMLLDL 182

Query: 171 VMERSKRT 178
           +M+R +R+
Sbjct: 183 IMKRMERS 190

>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 = 45.3 bits (108), Expect = 2e-06
 Identities = 20/91 (21%), Positives = 33/91 (36%), Gaps = 6/91 (6%)

Query: 57  KLVFWDLGGQPGLRS-IWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAP 115
            LV +D+  Q      + +   +   A + V        F      L ++         P
Sbjct: 73  TLVVYDIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLP 132

Query: 116 LLILANKQDLPD--AVSADE---LARYLDLK 141
           ++++ NK DL     VS +E   LA  L  K
Sbjct: 133 VILVGNKSDLARSREVSLEEGRHLAGTLSCK 163

>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 = 44.9 bits (107), Expect = 3e-06
 Identities = 29/114 (25%), Positives = 49/114 (42%), Gaps = 10/114 (8%)

Query: 37  PDRIVPTVGL--NIGRIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACP 92
               + TVG+      ++V     KL  WD  GQ   RS+   YY +AHA++ + D    
Sbjct: 37  AGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNK 96

Query: 93  SRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADE---LARYLDLK 141
           + F++ +  L ++          L++L NK D      V  ++   LA+   L 
Sbjct: 97  ASFDNIQAWLTEIHEYAQ-HDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLP 149

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii} Length = 357

 Score = 45.2 bits (107), Expect = 3e-06
 Identities = 34/156 (21%), Positives = 65/156 (41%), Gaps = 28/156 (17%)

Query: 43  TVGLNIGRIEVSNSKLVFWDLGGQPGL-------RSIWEKYYEEAH-----AVVFVIDAA 90
           T G+N+G+ E    +    D    PGL       R+  EK    A       ++++ D +
Sbjct: 201 TRGINVGQFEDGYFRYQIIDT---PGLLDRPISERNEIEKQAILALRYLGNLIIYIFDPS 257

Query: 91  --CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVC 148
             C    E+     E+V  + + +  P L++ NK D+ D  +   L +++  K L+    
Sbjct: 258 EHCGFPLEEQIHLFEEV--HGEFKDLPFLVVINKIDVADEENIKRLEKFVKEKGLN---- 311

Query: 149 MFEAVSGYDGFGIKE----SVEWLVEVMERSKRTEM 180
             + +S   G GI       ++ L  + E+  R ++
Sbjct: 312 PIK-ISALKGTGIDLVKEEIIKTLRPLAEKVAREKI 346

>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 = 44.1 bits (105), Expect = 4e-06
 Identities = 28/89 (31%), Positives = 42/89 (47%), Gaps = 5/89 (5%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           KL  WD  GQ   R+I   YY  A  ++ V D      F + K   + V  + +   A L
Sbjct: 53  KLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHAN-DEAQL 111

Query: 117 LILANKQDLPD-AVSADE---LARYLDLK 141
           L++ NK D+    V+AD+   LA+ L + 
Sbjct: 112 LLVGNKSDMETRVVTADQGEALAKELGIP 140

>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 = 44.6 bits (106), Expect = 4e-06
 Identities = 39/160 (24%), Positives = 64/160 (40%), Gaps = 18/160 (11%)

Query: 41  VPTVGL--NIGRIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE 96
           V TVG+   +  I  ++   KL  WD  G    R+I   YY  A   + + D      F 
Sbjct: 38  VSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTITTAYYRGAMGFILMYDITNEESFN 97

Query: 97  DSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADE---LARYLDLKKLDERVCMFE 151
             +    ++        A +L++ NK D+ D   VS++    LA +L  +        FE
Sbjct: 98  AVQDWSTQIKTYSW-DNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFE-------FFE 149

Query: 152 AVSGYDGFGIKESVEWLVEVMERSKRTEMLRARAGASTGS 191
           A S  D   +K++ E LV+V+       +  A    +   
Sbjct: 150 A-SAKDNINVKQTFERLVDVICEKMSESLDTADPAVTGAK 188

>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 = 44.5 bits (106), Expect = 4e-06
 Identities = 14/85 (16%), Positives = 31/85 (36%), Gaps = 5/85 (5%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLR-NEDLQGAP 115
            L   D  G     ++      + HA + V         E+     + +++    ++  P
Sbjct: 57  TLQITDTTGSHQFPAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIP 116

Query: 116 LLILANKQDLPD-AVSADE---LAR 136
           ++++ NK D     V   E   +A+
Sbjct: 117 VMLVGNKCDETQREVDTREAQAVAQ 141

>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 = 44.2 bits (105), Expect = 5e-06
 Identities = 28/124 (22%), Positives = 50/124 (40%), Gaps = 15/124 (12%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           KL  WD  GQ   R+I   YY  A   + + D      F   +    ++        A +
Sbjct: 73  KLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSW-DNAQV 131

Query: 117 LILANKQDLPD--AVSADE---LARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLV-E 170
           +++ NK D+ +   V  ++   LA  L           FEA S  +   ++++ E LV  
Sbjct: 132 ILVGNKCDMEEERVVPTEKGQLLAEQLGFD-------FFEA-SAKENISVRQAFERLVDA 183

Query: 171 VMER 174
           + ++
Sbjct: 184 ICDK 187

>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 = 44.2 bits (105), Expect = 6e-06
 Identities = 21/86 (24%), Positives = 36/86 (41%), Gaps = 4/86 (4%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRN---EDLQG 113
            +  WD  GQ   +S+   +Y  A   V V D   P+ F+   +  ++ L      D + 
Sbjct: 58  TMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPEN 117

Query: 114 APLLILANKQDLPD-AVSADELARYL 138
            P ++L NK DL +  V+      + 
Sbjct: 118 FPFVVLGNKIDLENRQVATKRAQAWC 143

>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 = 43.8 bits (104), Expect = 6e-06
 Identities = 24/90 (26%), Positives = 37/90 (41%), Gaps = 6/90 (6%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           KL  WD  GQ   RSI + YY  A+A++   D  C   F      L ++ +         
Sbjct: 76  KLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYAS-NKVIT 134

Query: 117 LILANKQDLPD--AVSADE---LARYLDLK 141
           +++ NK DL +   VS       +   D+ 
Sbjct: 135 VLVGNKIDLAERREVSQQRAEEFSEAQDMY 164

>2xtz_A Guanine nucleotide-binding protein alpha-1 subuni; hydrolase, G-protein signaling, SELF-activation, RAS-like DO; HET: GSP; 2.34A {Arabidopsis thaliana} Length = 354

 Score = 44.7 bits (105), Expect = 6e-06
 Identities = 17/76 (22%), Positives = 31/76 (40%), Gaps = 10/76 (13%)

Query: 60  FWDLGGQPGLRSIWEKYYEEAHAVVFVIDAAC----------PSRFEDSKTALEKVLRNE 109
            +D+GGQ   R  W   +E   AV+F    +            +R  ++K   + VL+  
Sbjct: 187 LFDVGGQRNERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDWVLKQP 246

Query: 110 DLQGAPLLILANKQDL 125
             +    ++  NK D+
Sbjct: 247 CFEKTSFMLFLNKFDI 262

>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 = 43.7 bits (104), Expect = 7e-06
 Identities = 36/144 (25%), Positives = 58/144 (40%), Gaps = 19/144 (13%)

Query: 41  VPTVGL--NIGRIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE 96
           V TVG+   +  +   +   KL  WD  GQ   R+I   YY  A   + + D A    F 
Sbjct: 52  VSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIANQESFA 111

Query: 97  DSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADE---LARYLDLKKLDERVCMFE 151
             +    ++        A ++++ NK DL D   V A++   LA  L  +        F 
Sbjct: 112 AVQDWATQIKTYSW-DNAQVILVGNKCDLEDERVVPAEDGRRLADDLGFE--------FF 162

Query: 152 AVSGYDGFGIKESVEWLV-EVMER 174
             S  +   +K+  E LV  + E+
Sbjct: 163 EASAKENINVKQVFERLVDVICEK 186

>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 = 43.7 bits (104), Expect = 7e-06
 Identities = 25/92 (27%), Positives = 38/92 (41%), Gaps = 9/92 (9%)

Query: 51  IEVSNSKLV---FWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLR 107
           + V   K+     WD  GQ   +S+   +Y  A   V V D    S FE+ K+  ++ L 
Sbjct: 50  VTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLV 109

Query: 108 N---EDLQGAPLLILANKQDLPD---AVSADE 133
           +      +  P +IL NK D  +    VS   
Sbjct: 110 HANVNSPETFPFVILGNKIDAEESKKIVSEKS 141

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score = 43.8 bits (104), Expect = 7e-06
 Identities = 26/90 (28%), Positives = 37/90 (41%), Gaps = 6/90 (6%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           KL  WD  GQ   R+I   YY  AH ++ V D      F + K  L+++ R    +    
Sbjct: 66  KLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYAS-ENVNK 124

Query: 117 LILANKQDLPD--AVSADE---LARYLDLK 141
           L++ NK DL     V        A  L + 
Sbjct: 125 LLVGNKCDLTTKKVVDYTTAKEFADSLGIP 154

>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 = 43.3 bits (103), Expect = 7e-06
 Identities = 25/122 (20%), Positives = 44/122 (36%), Gaps = 14/122 (11%)

Query: 61  WDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRN-EDLQGAPLLIL 119
            D  G     ++      + HA + V         E+ K   E++     D++  P++++
Sbjct: 56  TDTTGSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLV 115

Query: 120 ANKQDLPD--AVSADE---LARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMER 174
            NK D      V + E   LAR           C F   S      +KE  + L+ + +R
Sbjct: 116 GNKCDESPSREVQSSEAEALARTWK--------CAFMETSAKLNHNVKELFQELLNLEKR 167

Query: 175 SK 176
             
Sbjct: 168 RT 169

>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 = 43.9 bits (104), Expect = 8e-06
 Identities = 27/112 (24%), Positives = 47/112 (41%), Gaps = 14/112 (12%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           +L  WD  G    RS+   Y  ++   V V D    + F+ +   ++ V          +
Sbjct: 66  RLQLWDTAGLERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERG-SDVII 124

Query: 117 LILANKQDLPD--AVSADE---LARYLDLKKLDERVCMFEAVSGYDGFGIKE 163
           +++ NK DL D   VS +E    A+ L++        MF   S   G+ +K+
Sbjct: 125 MLVGNKTDLADKRQVSIEEGERKAKELNV--------MFIETSAKAGYNVKQ 168

>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 = 43.5 bits (103), Expect = 8e-06
 Identities = 19/151 (12%), Positives = 50/151 (33%), Gaps = 15/151 (9%)

Query: 42  PTVGLNIG--RIEVSNS-----KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACP-S 93
            TVG+++    I++ +       L  WD  G+    S    +  +    + V D +   +
Sbjct: 35  ATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGREEFYSTHPHFMTQRALYLAVYDLSKGQA 94

Query: 94  RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD-----AVSADELARYLDLKKLDERVC 148
             +  K  L  +        +P++++    D+ D     A  +      L+ +       
Sbjct: 95  EVDAMKPWLFNIKARAS--SSPVILVGTHLDVSDEKQRKACMSKITKELLNKRGFPAIRD 152

Query: 149 MFEAVSGYDGFGIKESVEWLVEVMERSKRTE 179
                +  +   + +  + ++      K  +
Sbjct: 153 YHFVNATEESDALAKLRKTIINESLNFKIRD 183

>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 = 42.9 bits (102), Expect = 9e-06
 Identities = 28/90 (31%), Positives = 40/90 (44%), Gaps = 7/90 (7%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           +L+ WD  GQ    +I + YY  A A V V        FE   +  EKV+        P 
Sbjct: 55  RLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVG--DIPT 112

Query: 117 LILANKQDLPD--AVSADE---LARYLDLK 141
            ++ NK DL D   +  +E   LA+ L L+
Sbjct: 113 ALVQNKIDLLDDSCIKNEEAEGLAKRLKLR 142

>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 = 43.4 bits (103), Expect = 1e-05
 Identities = 20/107 (18%), Positives = 32/107 (29%), Gaps = 18/107 (16%)

Query: 51  IEVSNSKLVFWDLGGQPGLRSIW-----------EKYYEEAHAVVFVIDAACPSRFEDSK 99
           +E +       D   +     I            E +       V V D      FE+  
Sbjct: 61  LESTYRHQATID--DEVVSMEILDTAGQEDTIQREGHMRWGEGFVLVYDITDRGSFEEVL 118

Query: 100 TALEKVLRNEDLQGAPLLILANKQDLPD--AVSADE---LARYLDLK 141
                +   +  +   L+++ NK DL     VS +E   LA  L   
Sbjct: 119 PLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACA 165

>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 = 43.0 bits (102), Expect = 1e-05
 Identities = 35/155 (22%), Positives = 57/155 (36%), Gaps = 18/155 (11%)

Query: 41  VPTVGL--NIGRIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE 96
           + T+G+   I  IE+     KL  WD  GQ   R+I   YY  A  ++ V D      F+
Sbjct: 38  ISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFD 97

Query: 97  DSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADE---LARYLDLKKLDERVCMFE 151
           + +  +  +  +        +IL NK D+ D   VS +    LA    +K        F 
Sbjct: 98  NIRNWIRNIEEHAS-ADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIK--------FM 148

Query: 152 AVSGYDGFGIKESVEWLVEVMERSKRTEMLRARAG 186
             S      ++ +   L   ++           AG
Sbjct: 149 ETSAKANINVENAFFTLARDIKAKMDKNWKATAAG 183

>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 = 42.9 bits (102), Expect = 1e-05
 Identities = 20/92 (21%), Positives = 34/92 (36%), Gaps = 7/92 (7%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKV--LRNEDLQGA 114
            L  WD+GGQ     + +KY   A  V+ V D      FE+ +     V  +  E     
Sbjct: 57  TLQIWDIGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQP 116

Query: 115 PLLILANKQDLPD--AVSADE---LARYLDLK 141
            + ++ NK DL     +  ++     +     
Sbjct: 117 LVALVGNKIDLEHMRTIKPEKHLRFCQENGFS 148

>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 = 42.9 bits (102), Expect = 1e-05
 Identities = 17/81 (20%), Positives = 34/81 (41%), Gaps = 4/81 (4%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRN---EDLQG 113
            +  WD  GQ   RS+   +Y  +   +          F++     ++ +     ++ + 
Sbjct: 57  TMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPES 116

Query: 114 APLLILANKQDLPD-AVSADE 133
            P +IL NK D+ +  VS +E
Sbjct: 117 FPFVILGNKIDISERQVSTEE 137

>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 = 43.0 bits (102), Expect = 1e-05
 Identities = 26/90 (28%), Positives = 37/90 (41%), Gaps = 6/90 (6%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           KL  WD  GQ   R+I   YY  AH ++ V D      F + K  L+++ R    +    
Sbjct: 83  KLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYAS-ENVNK 141

Query: 117 LILANKQDLPD--AVSADE---LARYLDLK 141
           L++ NK DL     V        A  L + 
Sbjct: 142 LLVGNKCDLTTKKVVDYTTAKEFADSLGIP 171

>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 = 43.0 bits (102), Expect = 1e-05
 Identities = 26/91 (28%), Positives = 38/91 (41%), Gaps = 6/91 (6%)

Query: 57  KLVFWDLGGQPGLR-SIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAP 115
           K+  WD  GQ   R S+ + YY   HAVVFV D    + F      +E+  ++      P
Sbjct: 70  KIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIP 129

Query: 116 LLILANKQDLPD--AVSADE---LARYLDLK 141
            +++ NK DL     V  D     A    + 
Sbjct: 130 RILVGNKCDLRSAIQVPTDLAQKFADTHSMP 160

>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 = 43.1 bits (102), Expect = 1e-05
 Identities = 26/90 (28%), Positives = 36/90 (40%), Gaps = 6/90 (6%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           KL  WD  GQ   R+I   YY  +H ++ V D      F   K  L+++ R         
Sbjct: 58  KLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYAT-STVLK 116

Query: 117 LILANKQDLPD--AVSADE---LARYLDLK 141
           L++ NK DL D   V  D     A    + 
Sbjct: 117 LLVGNKCDLKDKRVVEYDVAKEFADANKMP 146

>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 = 42.7 bits (101), Expect = 2e-05
 Identities = 18/91 (19%), Positives = 34/91 (37%), Gaps = 7/91 (7%)

Query: 43  TVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTAL 102
               N G I     K   WD  GQ     + + YY +A   + + D      +++     
Sbjct: 56  VFHTNRGPI-----KFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWH 110

Query: 103 EKVLRNEDLQGAPLLILANKQDLPDAVSADE 133
             ++R  +    P+++  NK D+ D     +
Sbjct: 111 RDLVRVCE--NIPIVLCGNKVDIKDRKVKAK 139

>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 = 42.7 bits (101), Expect = 2e-05
 Identities = 26/89 (29%), Positives = 39/89 (43%), Gaps = 6/89 (6%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           K   WD  GQ   R I   YY  A   + V D A    +E+ +  L+++  + D     +
Sbjct: 55  KAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHAD-SNIVI 113

Query: 117 LILANKQDLPD--AVSADE---LARYLDL 140
           +++ NK DL    AV  DE    A   +L
Sbjct: 114 MLVGNKSDLRHLRAVPTDEARAFAEKNNL 142

>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 = 42.7 bits (101), Expect = 2e-05
 Identities = 19/95 (20%), Positives = 35/95 (36%), Gaps = 7/95 (7%)

Query: 52  EVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDL 111
             +   L  W+  G+     + +   +   A + V      + FE +     ++ R    
Sbjct: 86  SATIILLDMWENKGEN--EWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQT 143

Query: 112 QGAPLLILANKQDLPD--AVSADE---LARYLDLK 141
           +  P++++ NK DL     VS  E    A   D K
Sbjct: 144 EDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCK 178

>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 = 42.6 bits (101), Expect = 2e-05
 Identities = 20/79 (25%), Positives = 34/79 (43%), Gaps = 3/79 (3%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           +L  WD  GQ    SI   YY  A  ++ V D      F+D    ++ + +    + A L
Sbjct: 76  RLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYAS-EDAEL 134

Query: 117 LILANKQDLPD--AVSADE 133
           L++ NK D      ++  +
Sbjct: 135 LLVGNKLDCETDREITRQQ 153

>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 = 42.8 bits (101), Expect = 2e-05
 Identities = 31/141 (21%), Positives = 54/141 (38%), Gaps = 14/141 (9%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           K   WD  GQ   R+I   YY  A   + V D +  S +E+    L ++  N D     +
Sbjct: 63  KAQIWDTAGQERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENAD-DNVAV 121

Query: 117 LILANKQDLPD--AVSADE---LARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEV 171
            ++ NK DL    AV  +E    A+   L          E  S  +   + ++ E L+  
Sbjct: 122 GLIGNKSDLAHLRAVPTEESKTFAQENQLL-------FTET-SALNSENVDKAFEELINT 173

Query: 172 MERSKRTEMLRARAGASTGSV 192
           + +      +     ++ G+ 
Sbjct: 174 IYQKVSKHQMDLGDSSANGNA 194

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score = 42.2 bits (100), Expect = 2e-05
 Identities = 29/130 (22%), Positives = 49/130 (37%), Gaps = 16/130 (12%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           KL  WD  GQ   R+I   YY   H V+ V D      F + K  L ++ +N D      
Sbjct: 59  KLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNCD--DVCR 116

Query: 117 LILANKQDLPD--AVSADE---LARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLV-E 170
           +++ NK D P+   V  ++    A  + ++            S  +   ++E    +   
Sbjct: 117 ILVGNKNDDPERKVVETEDAYKFAGQMGIQ--------LFETSAKENVNVEEMFNCITEL 168

Query: 171 VMERSKRTEM 180
           V+   K    
Sbjct: 169 VLRAKKDNLA 178

>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 = 41.8 bits (99), Expect = 2e-05
 Identities = 23/83 (27%), Positives = 37/83 (44%), Gaps = 3/83 (3%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           +L  WD  GQ   RS+   Y  ++   V V D    + F  +   ++  +R E      +
Sbjct: 64  RLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDD-VRTERGSDVII 122

Query: 117 LILANKQDLPD--AVSADELARY 137
           +++ NK DL D   VS +E  R 
Sbjct: 123 MLVGNKTDLSDKRQVSTEEGERK 145

>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 = 42.2 bits (100), Expect = 3e-05
 Identities = 27/90 (30%), Positives = 38/90 (42%), Gaps = 6/90 (6%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           KL  WD  GQ   R+I + YY  A+  +   D    S F      +E V +         
Sbjct: 79  KLQIWDTAGQERFRTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAG-SNIVQ 137

Query: 117 LILANKQDLPD--AVSADE---LARYLDLK 141
           L++ NK DL +   VS  E   LA + D+ 
Sbjct: 138 LLIGNKSDLSELREVSLAEAQSLAEHYDIL 167

>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 = 42.2 bits (100), Expect = 3e-05
 Identities = 22/89 (24%), Positives = 32/89 (35%), Gaps = 6/89 (6%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           KL  WD  GQ   RS+   YY  A   + V D      +      L             +
Sbjct: 75  KLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLAS-PNIVV 133

Query: 117 LILANKQDLPD--AVSADE---LARYLDL 140
           ++  NK+DL     V+  E    A+  +L
Sbjct: 134 ILCGNKKDLDPEREVTFLEASRFAQENEL 162

>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 = 41.8 bits (99), Expect = 3e-05
 Identities = 23/89 (25%), Positives = 33/89 (37%), Gaps = 6/89 (6%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           KL  WD  GQ   RS+   YY  A   + V D      +      L         Q   +
Sbjct: 60  KLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLAS-QNIVI 118

Query: 117 LILANKQDLPD--AVSADE---LARYLDL 140
           ++  NK+DL     V+  E    A+  +L
Sbjct: 119 ILCGNKKDLDADREVTFLEASRFAQENEL 147

>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 = 41.8 bits (99), Expect = 3e-05
 Identities = 20/90 (22%), Positives = 34/90 (37%), Gaps = 6/90 (6%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           K   WD  G    R+I   YY  A   + V D      +   +  L+++  + +     +
Sbjct: 75  KAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAE-ATIVV 133

Query: 117 LILANKQDLPD--AVSADE---LARYLDLK 141
           +++ NK DL     V  +E    A    L 
Sbjct: 134 MLVGNKSDLSQAREVPTEEARMFAENNGLL 163

>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 = 41.8 bits (99), Expect = 3e-05
 Identities = 13/81 (16%), Positives = 27/81 (33%), Gaps = 9/81 (11%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
            L+  D GG P L+     +     AVVFV        F+       ++    +    P+
Sbjct: 68  LLLIRDEGGPPELQ-----FAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPM 122

Query: 117 LILANKQDLPD----AVSADE 133
           +++  +  +       +    
Sbjct: 123 VLVGTQDAISAANPRVIDDSR 143

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score = 41.7 bits (98), Expect = 3e-05
 Identities = 24/103 (23%), Positives = 44/103 (42%), Gaps = 4/103 (3%)

Query: 36  PPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRF 95
             + ++ T   N     + N K   WD  GQ    SI   YY  A   + V D +  +  
Sbjct: 73  DDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTL 132

Query: 96  EDSKTALEKVLRNEDLQGAPLLILANKQDLPD-AVSADELARY 137
           + +KT + ++  + +     ++++ANK D     V   E+ +Y
Sbjct: 133 DRAKTWVNQLKISSNYI---IILVANKIDKNKFQVDILEVQKY 172

>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 = 41.4 bits (98), Expect = 4e-05
 Identities = 26/90 (28%), Positives = 35/90 (38%), Gaps = 6/90 (6%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           KL  WD  GQ   RSI   YY  A   + V D      F    + LE   ++       +
Sbjct: 71  KLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSS-SNMVI 129

Query: 117 LILANKQDLPD--AVSADE---LARYLDLK 141
           +++ NK DL     V  +E    AR   L 
Sbjct: 130 MLIGNKSDLESRRDVKREEGEAFAREHGLI 159

>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 = 41.0 bits (97), Expect = 5e-05
 Identities = 22/89 (24%), Positives = 34/89 (38%), Gaps = 6/89 (6%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           KL  WD  GQ   R++   YY  A   + V D    S +    + L       +     +
Sbjct: 65  KLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTN-PNTVI 123

Query: 117 LILANKQDLPD--AVSADE---LARYLDL 140
           +++ NK DL     V+ +E    A    L
Sbjct: 124 ILIGNKADLEAQRDVTYEEAKQFAEENGL 152

>1xzp_A Probable tRNA modification GTPase TRME; GTP-binding, THF-binding, hydrolase; 2.30A {Thermotoga maritima} SCOP: a.24.25.1 c.37.1.8 d.250.1.2 PDB: 1xzq_A* 1xzp_B 1xzq_B* Length = 482

 Score = 42.2 bits (100), Expect = 5e-05
 Identities = 18/62 (29%), Positives = 32/62 (51%), Gaps = 7/62 (11%)

Query: 78  EEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARY 137
           E+A  V+FV+DA+ P   ED K         E ++    L++ NK D+ + ++ +E+   
Sbjct: 322 EKADIVLFVLDASSPLDEEDRKIL-------ERIKNKRYLVVINKVDVVEKINEEEIKNK 374

Query: 138 LD 139
           L 
Sbjct: 375 LG 376

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP} Length = 462

 Score = 41.7 bits (99), Expect = 6e-05
 Identities = 18/95 (18%), Positives = 35/95 (36%), Gaps = 14/95 (14%)

Query: 78  EEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARY 137
             A  V+  IDAA      D +         E ++  PL+++ NK DL +      L   
Sbjct: 302 NTADLVLLTIDAATGWTTGDQEIY-------EQVKHRPLILVMNKIDLVEKQLITSLEYP 354

Query: 138 LDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVM 172
            ++ ++          +     GI      ++E++
Sbjct: 355 ENITQI-------VHTAAAQKQGIDSLETAILEIV 382

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum} Length = 228

 Score = 40.9 bits (96), Expect = 7e-05
 Identities = 27/156 (17%), Positives = 54/156 (34%), Gaps = 21/156 (13%)

Query: 43  TVGLNIGRIEVSNSKLVFWDLGGQPGL-------RSIWEKYYEEA-----HAVVFVIDAA 90
           T  L +G  +   +K    D    PGL       R+  E     A       ++F+ID +
Sbjct: 63  TKNLYVGHFDHKLNKYQIIDT---PGLLDRAFENRNTIEMTTITALAHINGVILFIIDIS 119

Query: 91  --CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYL--DLKKLDER 146
             C    ++       +          ++I  NK D  +  S     + L   +    + 
Sbjct: 120 EQCGLTIKEQINLFYSI--KSVFSNKSIVIGFNKIDKCNMDSLSIDNKLLIKQILDNVKN 177

Query: 147 VCMFEAVSGYDGFGIKESVEWLVEVMERSKRTEMLR 182
              F + S   G G++++     E+++  +   +L 
Sbjct: 178 PIKFSSFSTLTGVGVEQAKITACELLKNDQAESILL 213

>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 = 40.9 bits (96), Expect = 8e-05
 Identities = 22/105 (20%), Positives = 38/105 (36%), Gaps = 5/105 (4%)

Query: 37  PDRIVPTVGLN-IGRIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS 93
           P   +PTV  N    + V      L  WD  GQ     +    Y +    +       P+
Sbjct: 56  PGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPA 115

Query: 94  RFEDSKTALEKVLRNEDLQGAPLLILANKQDLP-DAVSADELARY 137
            FE+ +      +R       P++++  K DL  D  + ++L   
Sbjct: 116 SFENVRAKWYPEVR-HHCPNTPIILVGTKLDLRDDKDTIEKLKEK 159

>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 = 40.7 bits (96), Expect = 8e-05
 Identities = 25/89 (28%), Positives = 38/89 (42%), Gaps = 6/89 (6%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           K   WD  G    R+I   YY  A   + V D A    +E+ +  L+++  + D     +
Sbjct: 79  KAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHAD-SNIVI 137

Query: 117 LILANKQDLPD--AVSADE---LARYLDL 140
           +++ NK DL    AV  DE    A    L
Sbjct: 138 MLVGNKSDLRHLRAVPTDEARAFAEKNGL 166

>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 = 40.3 bits (95), Expect = 9e-05
 Identities = 22/89 (24%), Positives = 34/89 (38%), Gaps = 6/89 (6%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           K + WD  GQ    S+   YY  + A V V D      F   K  ++++  +   +   +
Sbjct: 73  KFLIWDTAGQERFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGP-ENIVM 131

Query: 117 LILANKQDLPD--AVSADE---LARYLDL 140
            I  NK DL D   V   +    A  +  
Sbjct: 132 AIAGNKCDLSDIREVPLKDAKEYAESIGA 160

>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 = 40.2 bits (95), Expect = 1e-04
 Identities = 22/90 (24%), Positives = 36/90 (40%), Gaps = 6/90 (6%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
            L  WD  GQ    ++   YY +++  + V D      F+  K  ++++ +        L
Sbjct: 56  NLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLG-NEICL 114

Query: 117 LILANKQDLPD--AVSADE---LARYLDLK 141
            I+ NK DL     VS  E    A  +  K
Sbjct: 115 CIVGNKIDLEKERHVSIQEAESYAESVGAK 144

>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 = 39.8 bits (94), Expect = 1e-04
 Identities = 23/83 (27%), Positives = 33/83 (39%), Gaps = 3/83 (3%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           K   WD  GQ    S+   YY  A A + V D      F  +K  ++++ R        +
Sbjct: 56  KFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQAS-PNIVI 114

Query: 117 LILANKQDLPD--AVSADELARY 137
            +  NK DL +  AV   E   Y
Sbjct: 115 ALSGNKADLANKRAVDFQEAQSY 137

>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 = 40.0 bits (94), Expect = 2e-04
 Identities = 18/89 (20%), Positives = 33/89 (37%), Gaps = 3/89 (3%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           K   WD  GQ     + + YY  A   +   D       ++    +++         AP+
Sbjct: 62  KFNVWDTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVG-NEAPI 120

Query: 117 LILANKQDLPD--AVSADELARYLDLKKL 143
           ++ ANK D+ +   +S   +   L  K  
Sbjct: 121 VVCANKIDIKNRQKISKKLVMEVLKGKNY 149

>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 = 40.2 bits (95), Expect = 2e-04
 Identities = 19/95 (20%), Positives = 36/95 (37%), Gaps = 9/95 (9%)

Query: 78  EEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARY 137
            EA  +++++D       ++     E          A  L +ANK D      AD L R 
Sbjct: 311 AEADLILYLLDLGTERLDDELTEIRELK---AAHPAAKFLTVANKLDRAAN--ADALIRA 365

Query: 138 LDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVM 172
           +      E +     +S  +G GI    + + +++
Sbjct: 366 IADGTGTEVI----GISALNGDGIDTLKQHMGDLV 396

>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 = 39.4 bits (93), Expect = 2e-04
 Identities = 20/83 (24%), Positives = 32/83 (38%), Gaps = 3/83 (3%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           K + WD  G    R++   YY  + A + V D      F   K  + ++ ++       +
Sbjct: 56  KFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGP-PSIVV 114

Query: 117 LILANKQDLPD--AVSADELARY 137
            I  NK DL D   V   +   Y
Sbjct: 115 AIAGNKCDLTDVREVMERDAKDY 137

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A Length = 172

 Score = 39.5 bits (93), Expect = 2e-04
 Identities = 9/51 (17%), Positives = 21/51 (41%), Gaps = 2/51 (3%)

Query: 78  EEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDA 128
           E+A  V+F++D       + ++  +            P+ ++ NK D+   
Sbjct: 82  EQADRVLFMVDGTTTDAVDPAE--IWPEFIARLPAKLPITVVRNKADITGE 130

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens} Length = 214

 Score = 38.6 bits (90), Expect = 4e-04
 Identities = 23/107 (21%), Positives = 42/107 (39%), Gaps = 9/107 (8%)

Query: 37  PDRIVPTVGLN-IGRIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS 93
           P+   PTV    +  ++V      L  WD  GQ     +   +Y +A  ++   D   P+
Sbjct: 60  PESYTPTVFERYMVNLQVKGKPVHLHIWDTAGQDDYDRLRPLFYPDASVLLLCFDVTSPN 119

Query: 94  RFEDSKTALEKVLR--NEDLQGAPLLILANKQDL-PDAVSADELARY 137
            F+       +     N   +  P++++  K DL  D    ++L R 
Sbjct: 120 SFD---NIFNRWYPEVNHFCKKVPIIVVGCKTDLRKDKSLVNKLRRN 163

>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 = 38.3 bits (90), Expect = 5e-04
 Identities = 23/83 (27%), Positives = 37/83 (44%), Gaps = 3/83 (3%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           K   WD  GQ    S+   YY  A A + V D    + FE +K  ++++    +     +
Sbjct: 62  KFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGN-PNMVM 120

Query: 117 LILANKQDLPD--AVSADELARY 137
            +  NK DL D   V+A++   Y
Sbjct: 121 ALAGNKSDLLDARKVTAEDAQTY 143

>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 = 38.0 bits (89), Expect = 6e-04
 Identities = 16/84 (19%), Positives = 32/84 (38%), Gaps = 4/84 (4%)

Query: 52  EVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDL 111
             +   L  W+  G+     + +   +   A + V      + FE +     ++ R    
Sbjct: 55  SATIILLDMWENKGEN--EWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQT 112

Query: 112 QGAPLLILANKQDLPD--AVSADE 133
           +  P++++ NK DL     VS  E
Sbjct: 113 EDIPIILVGNKSDLVRXREVSVSE 136

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A Length = 364

 Score = 38.4 bits (90), Expect = 7e-04
 Identities = 15/99 (15%), Positives = 42/99 (42%), Gaps = 4/99 (4%)

Query: 79  EAHAVVFVIDAACPSR-FEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARY 137
            + A++ VID+        ++  +  ++LR   + G P+L+  NK D  +     +L   
Sbjct: 257 YSDALILVIDSTFSENLLIETLQSSFEILREIGVSGKPILVTLNKIDKINGDLYKKL-DL 315

Query: 138 LDLKKLDERVCMFEAV--SGYDGFGIKESVEWLVEVMER 174
           ++    +    +F+ +  S      ++   + + ++  +
Sbjct: 316 VEKLSKELYSPIFDVIPISALKRTNLELLRDKIYQLATQ 354

>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 = 37.6 bits (88), Expect = 8e-04
 Identities = 23/83 (27%), Positives = 34/83 (40%), Gaps = 8/83 (9%)

Query: 61  WDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRN--EDLQGAPLLI 118
            D       R+  E+Y   AHA + V        F+ S + LE +  +  E  +  P L+
Sbjct: 74  MDTADLDTPRNC-ERYLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALL 132

Query: 119 LANKQDLPD--AVSADE---LAR 136
           L NK D+     V+  E   LA 
Sbjct: 133 LGNKLDMAQYRQVTKAEGVALAG 155

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 207

 Score = 37.8 bits (88), Expect = 8e-04
 Identities = 29/106 (27%), Positives = 44/106 (41%), Gaps = 7/106 (6%)

Query: 37  PDRIVPTVGLN-IGRIEVSNS--KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS 93
           P+  VPTV  N +  IEV     +L  WD  GQ     +    Y +   ++       P 
Sbjct: 51  PEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSVDSPD 110

Query: 94  RFEDSKTA-LEKVLRNEDLQGAPLLILANKQDL-PDAVSADELARY 137
             E+     + +V         P++++ANK+DL  D     ELAR 
Sbjct: 111 SLENIPEKWVPEV--KHFCPNVPIILVANKKDLRSDEHVRTELARM 154

>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 = 38.1 bits (88), Expect = 8e-04
 Identities = 11/138 (7%), Positives = 35/138 (25%), Gaps = 8/138 (5%)

Query: 39  RIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDS 98
           +      L      +                +    K   +   +   +       F+D 
Sbjct: 124 KRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFLLGIDVSRGMNRNFDDQ 183

Query: 99  KTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGY 156
              +  +         P++++  K D      +               + + + E  S  
Sbjct: 184 LKFVSNLYNQLAKTKKPIVVVLTKCDEGVERYIRDAH-----TFALSKKNLQVVET-SAR 237

Query: 157 DGFGIKESVEWLVEVMER 174
               +  +   LV+++++
Sbjct: 238 SNVNVDLAFSTLVQLIDK 255

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	192
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	99.96
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.96
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.96
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.95
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.95
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.95
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.95
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.95
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.95
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.95
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.94
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.94
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.94
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.94
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.94
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.93
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.93
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.93
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.93
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.93
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.93
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.93
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.93
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.93
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.92
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.92
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.92
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.92
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.92
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.92
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.92
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.92
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.92
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.92
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.92
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.92
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.92
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.92
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.92
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.92
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.92
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.92
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.92
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.91
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.91
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.91
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.91
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.91
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.91
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.91
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.91
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.91
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.91
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.91
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.91
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.91
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.91
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.91
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.91
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.91
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.91
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.91
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.91
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.91
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.91
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.91
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.91
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.91
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.9
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.9
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.9
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.9
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.9
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.9
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.9
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.9
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.9
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.9
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.9
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.9
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.9
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.9
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.9
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.9
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.9
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.9
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.89
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.89
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.89
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.89
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.89
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.89
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.89
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.88
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.88
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.88
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.87
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.87
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.87
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.78
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.86
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.86
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.85
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	99.85
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.84
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.84
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.84
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.83
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.83
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.83
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.82
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.82
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.82
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.81
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.81
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.81
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.81
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.8
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.79
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.78
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.78
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.78
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.77
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.77
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.77
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.77
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.77
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.76
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.76
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.76
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.75
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.75
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.75
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.75
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	99.73
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.73
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.73
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.73
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.73
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.72
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.72
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.72
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.72
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.72
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.72
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.71
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.71
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.71
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.7
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.7
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.69
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.69
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.67
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.67
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.67
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.66
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	99.66
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.65
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.65
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.65
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.64
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.64
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.63
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.61
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.61
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.61
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.58
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.58
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.57
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.57
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.55
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.55
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.55
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.54
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.53
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.52
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.52
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.52
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.5
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.49
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.49
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.48
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.47
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.41
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	99.4
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	99.38
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.38
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.35
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.29
1wxq_A	397	GTP-binding protein; structural genomics, riken st	99.29
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	99.26
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.25
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	99.25
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.23
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.18
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.16
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	99.14
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	99.14
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	99.1
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	99.08
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	99.07
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	99.07
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	99.05
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	99.04
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	99.01
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	99.01
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	99.0
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	98.97
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.92
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	98.9
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	98.69
2hf9_A	226	Probable hydrogenase nickel incorporation protein	98.6
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.53
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	98.23
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	98.17
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	98.17
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	98.14
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	98.08
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	97.81
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	97.4
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	97.3
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	96.8
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	95.91
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	95.6
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	95.45
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	95.36
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	95.21
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	95.21
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	94.69
3cwq_A	209	Para family chromosome partitioning protein; alpha	94.39
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	93.79
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	93.66
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	93.51
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	92.85
3end_A	307	Light-independent protochlorophyllide reductase ir	92.74
1g3q_A	237	MIND ATPase, cell division inhibitor; alpha-beta-a	92.5
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	92.36
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	90.78
1hyq_A	263	MIND, cell division inhibitor (MIND-1); MINC, FTSZ	90.73
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	90.69
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	89.12
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	88.89
3la6_A	286	Tyrosine-protein kinase WZC; P-loop protein, nucle	88.78
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	86.64
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	86.07
2xxa_A	433	Signal recognition particle protein; protein trans	83.27
3pg5_A	361	Uncharacterized protein; structural genomics, PSI-	80.21

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=99.96  E-value=8.3e-30  Score=190.47  Aligned_cols=144  Identities=22%  Similarity=0.368  Sum_probs=113.6

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEE----EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRF   95 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~   95 (192)
                      +|++|+..      +.|...|.||+|.++..    +....++++||||+|+++|..++..|+++++++++|||+++.++|
T Consensus        28 sLi~r~~~------~~f~~~~~~Tig~d~~~k~~~~~~~~v~l~iwDtaGqe~~~~l~~~~~~~a~~~ilv~di~~~~Sf  101 (216)
T 4dkx_A           28 SLITRFMY------DSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLERFRSLIPSYIRDSAAAVVVYDITNVNSF  101 (216)
T ss_dssp             HHHHHHHH------SCCC----------CEEEEEECSSCEEEEEEECCSCTTTCGGGHHHHHTTCSEEEEEEETTCHHHH
T ss_pred             HHHHHHHh------CCCCCCcCCccceEEEEEEEEecceEEEEEEEECCCchhhhhHHHHHhccccEEEEEeecchhHHH
Confidence            45555555      77888999999988764    223468999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517           96 EDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus        96 ~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      +.+..|+..+..... .++|+++||||+|+.+  .++.+++.++++     ..++.|++|||++|.||+++|++|++.+.
T Consensus       102 ~~i~~~~~~i~~~~~-~~~piilVgNK~Dl~~~r~V~~~e~~~~a~-----~~~~~~~e~SAktg~nV~e~F~~i~~~i~  175 (216)
T 4dkx_A          102 QQTTKWIDDVRTERG-SDVIIMLVGNKTDLADKRQVSIEEGERKAK-----ELNVMFIETSAKAGYNVKQLFRRVAAALP  175 (216)
T ss_dssp             HTHHHHHHHHHHHHT-TSSEEEEEEECTTCGGGCCSCHHHHHHHHH-----HHTCEEEEEBTTTTBSHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHhcC-CCCeEEEEeeccchHhcCcccHHHHhhHHH-----HhCCeeEEEeCCCCcCHHHHHHHHHHHHH
Confidence            999999999887543 5799999999999965  688899988887     56789999999999999999999998876


Q ss_pred             hc
Q 029517          174 RS  175 (192)
Q Consensus       174 ~~  175 (192)
                      ..
T Consensus       176 ~~  177 (216)
T 4dkx_A          176 GM  177 (216)
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=99.96  E-value=1.6e-28  Score=179.07  Aligned_cols=168  Identities=31%  Similarity=0.619  Sum_probs=135.8

Q ss_pred             ChhhhHHHHhhhhccccHH------------HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcc
Q 029517            1 MFSLFYGLWKYIFTKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPG   68 (192)
Q Consensus         1 ~~~~~~~~~~~~~kst~~~------------~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~   68 (192)
                      |.++++++++ +++..-++            +|++++..      +.+. .+.||+|.....+..+++.+.+|||||+++
T Consensus         1 m~~~~~~~~~-~~~~~~~~i~v~G~~~~GKssl~~~l~~------~~~~-~~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~   72 (187)
T 1zj6_A            1 MGILFTRIWR-LFNHQEHKVIIVGLDNAGKTTILYQFSM------NEVV-HTSPTIGSNVEEIVINNTRFLMWDIGGQES   72 (187)
T ss_dssp             -CHHHHHHHH-HHTTSCEEEEEEESTTSSHHHHHHHHHT------TSCE-EEECCSCSSCEEEEETTEEEEEEECCC---
T ss_pred             CchHHHHHHH-hcCCCccEEEEECCCCCCHHHHHHHHhc------CCCC-cCcCCCccceEEEEECCEEEEEEECCCCHh
Confidence            8889999998 76655554            88888875      4444 678899988888888889999999999999


Q ss_pred             cHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcce
Q 029517           69 LRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVC  148 (192)
Q Consensus        69 ~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  148 (192)
                      +...+..+++++|++++|+|++++++++.+..|+..+.......+.|+++|+||+|+.+....+++.+.+....+...++
T Consensus        73 ~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~  152 (187)
T 1zj6_A           73 LRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTVAEISQFLKLTSIKDHQW  152 (187)
T ss_dssp             -CGGGHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCCSSCE
T ss_pred             HHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCCcCCCCHHHHHHHhChhhhcCCCc
Confidence            98899999999999999999999999999999999988764335799999999999988777778777766433445678


Q ss_pred             EEEEeeecCCCCHHHHHHHHHHHHHhcc
Q 029517          149 MFEAVSGYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       149 ~~~~~Sa~~~~gi~e~~~~i~~~i~~~~  176 (192)
                      +++++||++|.||+++|++|.+.+....
T Consensus       153 ~~~~~Sa~~g~gi~~l~~~l~~~~~~~~  180 (187)
T 1zj6_A          153 HIQACCALTGEGLCQGLEWMMSRLKIRL  180 (187)
T ss_dssp             EEEECBTTTTBTHHHHHHHHHHHHCC--
T ss_pred             EEEEccCCCCcCHHHHHHHHHHHHHHHh
Confidence            9999999999999999999999875543

>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=3.7e-28  Score=176.15  Aligned_cols=168  Identities=36%  Similarity=0.663  Sum_probs=137.3

Q ss_pred             ChhhhHHHHhhhhc-cccHH------------HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCc
Q 029517            1 MFSLFYGLWKYIFT-KTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQP   67 (192)
Q Consensus         1 ~~~~~~~~~~~~~k-st~~~------------~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~   67 (192)
                      |.++++++++.++. ..-++            +|++++..      +.+ ..+.||+|.....+...+..+.+|||||++
T Consensus         1 mg~~~~~~~~~~~~~~~~~~i~v~G~~~~GKssli~~l~~------~~~-~~~~~t~~~~~~~~~~~~~~~~i~Dt~G~~   73 (183)
T 1moz_A            1 MGNIFSSMFDKLWGSNKELRILILGLDGAGKTTILYRLQI------GEV-VTTKPTIGFNVETLSYKNLKLNVWDLGGQT   73 (183)
T ss_dssp             -CHHHHHHHGGGTTCSSCEEEEEEEETTSSHHHHHHHTCC------SEE-EEECSSTTCCEEEEEETTEEEEEEEEC---
T ss_pred             CchHHHHHHHHhcCCCCccEEEEECCCCCCHHHHHHHHhc------CCc-CccCCcCccceEEEEECCEEEEEEECCCCH
Confidence            88999999998876 44443            88888775      333 567889998888888888999999999999


Q ss_pred             ccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcc
Q 029517           68 GLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERV  147 (192)
Q Consensus        68 ~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~  147 (192)
                      ++...+..+++++|++++|+|++++.+++.+..|+..+.......+.|+++|+||+|+.+....+++.+.+........+
T Consensus        74 ~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~  153 (183)
T 1moz_A           74 SIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGALSASEVSKELNLVELKDRS  153 (183)
T ss_dssp             -CCTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTCCCHHHHHHHTTTTTCCSSC
T ss_pred             hHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhCCCeEEEEEECCCCCCCCCHHHHHHHhCcccccCCc
Confidence            98888889999999999999999999999999999998876444689999999999998877778888877654444567


Q ss_pred             eEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          148 CMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       148 ~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                      ++++++||++|.||+++|++|.+.+.+.
T Consensus       154 ~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  181 (183)
T 1moz_A          154 WSIVASSAIKGEGITEGLDWLIDVIKEE  181 (183)
T ss_dssp             EEEEEEBGGGTBTHHHHHHHHHHHHHHH
T ss_pred             eEEEEccCCCCcCHHHHHHHHHHHHHhc
Confidence            8999999999999999999999987653

>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=99.95  E-value=5.2e-27  Score=167.11  Aligned_cols=151  Identities=30%  Similarity=0.597  Sum_probs=125.8

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCc
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACP   92 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~   92 (192)
                      =|||++|+|++..          +. .+.||+|.....+....+.+.+|||||++++...+..+++++|++++|+|++++
T Consensus        12 GKssl~~~l~~~~----------~~-~~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~   80 (164)
T 1r8s_A           12 GKTTILYKLKLGE----------IV-TTIPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDR   80 (164)
T ss_dssp             SHHHHHHHHHHHC----------SS-CCCCCSSCCEEEEECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTCG
T ss_pred             CHHHHHHHHHcCC----------cC-cccCcCceeEEEEEECCEEEEEEEcCCChhhHHHHHHHhccCCEEEEEEECCCH
Confidence            3788888887542          22 357899987778888889999999999999999999999999999999999999


Q ss_pred             ccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517           93 SRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus        93 ~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                      ++++.+..|+..+.......+.|+++|+||+|+.+....+++.+..........+++++++||++|.||+++|++|.+.+
T Consensus        81 ~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i  160 (164)
T 1r8s_A           81 ERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQL  160 (164)
T ss_dssp             GGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHhchhhcCCeEEEEEECcCCcCCCCHHHHHHHhCcccccCccEEEEEcccCCCcCHHHHHHHHHHHH
Confidence            99999999999887754445799999999999987766677777666444445678899999999999999999999876


Q ss_pred             Hh
Q 029517          173 ER  174 (192)
Q Consensus       173 ~~  174 (192)
                      .+
T Consensus       161 ~~  162 (164)
T 1r8s_A          161 RN  162 (164)
T ss_dssp             --
T ss_pred             hh
Confidence            54

>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=99.95  E-value=5e-27  Score=170.79  Aligned_cols=149  Identities=36%  Similarity=0.652  Sum_probs=127.8

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSK   99 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~   99 (192)
                      +|++++.+      +. ...+.||+|.....+..+.+.+.+|||||++++...+..+++++|++++|+|++++.+++.+.
T Consensus        33 sl~~~l~~------~~-~~~~~~t~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~  105 (186)
T 1ksh_A           33 TILKKFNG------ED-VDTISPTLGFNIKTLEHRGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQ  105 (186)
T ss_dssp             HHHHHHTT------CC-CSSCCCCSSEEEEEEEETTEEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTCGGGHHHHH
T ss_pred             HHHHHHhc------CC-CCcccccCccceEEEEECCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEECcCHHHHHHHH
Confidence            77777775      33 567789999888888888999999999999999988999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          100 TALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       100 ~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                      .|+..+.......+.|+++|+||+|+.+....+++.+.+.+......+++++++||++|.|++++|++|.+.+.+.
T Consensus       106 ~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  181 (186)
T 1ksh_A          106 RELQSLLVEERLAGATLLIFANKQDLPGALSCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISSR  181 (186)
T ss_dssp             HHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHhChhcCCCcEEEEEeCccCCCCCCHHHHHHHhChhhccCCceEEEEeeCCCCCCHHHHHHHHHHHHHhc
Confidence            9999887764345799999999999988777777777776444445678999999999999999999999988654

>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=99.95  E-value=1.2e-27  Score=175.52  Aligned_cols=165  Identities=33%  Similarity=0.641  Sum_probs=130.4

Q ss_pred             hhhhHHHHhhhhccccHH------------HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCccc
Q 029517            2 FSLFYGLWKYIFTKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGL   69 (192)
Q Consensus         2 ~~~~~~~~~~~~kst~~~------------~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~   69 (192)
                      |+++.++++.+++..-++            +|++++..      +.+. .+.||+|.....+....+.+.+|||||++++
T Consensus        14 ~~~~~~~~~~~~~~~~~ki~v~G~~~vGKSsLi~~l~~------~~~~-~~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~   86 (192)
T 2b6h_A           14 LVPRGSLFSRIFGKKQMRILMVGLDAAGKTTILYKLKL------GEIV-TTIPTIGFNVETVEYKNICFTVWDVGGQDKI   86 (192)
T ss_dssp             ---CCCGGGGTTTTSCEEEEEEESTTSSHHHHHHHHCS------SCCE-EEEEETTEEEEEEEETTEEEEEEECC-----
T ss_pred             cchHHHHHHHhccCCccEEEEECCCCCCHHHHHHHHHh------CCcc-ccCCcCceeEEEEEECCEEEEEEECCCCHhH
Confidence            466777777777655554            77787765      3333 4688999888888888999999999999999


Q ss_pred             HHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceE
Q 029517           70 RSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCM  149 (192)
Q Consensus        70 ~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  149 (192)
                      ...+..+++++|++++|+|++++++++.+..|+..+.......+.|+++|+||+|+.+....+++.+..........+++
T Consensus        87 ~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~  166 (192)
T 2b6h_A           87 RPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPNAMPVSELTDKLGLQHLRSRTWY  166 (192)
T ss_dssp             CTTHHHHHHTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCSSCCEE
T ss_pred             HHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHhcccccCCCeEEEEEECCCCCCCCCHHHHHHHhCcccccCCceE
Confidence            88999999999999999999999999999999999887544457999999999999877677777777664444456789


Q ss_pred             EEEeeecCCCCHHHHHHHHHHHHH
Q 029517          150 FEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus       150 ~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      ++++||++|.||+++|++|.+.+.
T Consensus       167 ~~~~SA~~g~gi~~l~~~l~~~i~  190 (192)
T 2b6h_A          167 VQATCATQGTGLYDGLDWLSHELS  190 (192)
T ss_dssp             EEECBTTTTBTHHHHHHHHHHHTT
T ss_pred             EEECcCCCcCCHHHHHHHHHHHHh
Confidence            999999999999999999998764

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.95  E-value=1.2e-27  Score=174.59  Aligned_cols=169  Identities=33%  Similarity=0.568  Sum_probs=135.4

Q ss_pred             ChhhhHHHHh--hhhc-cccHH------------HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCC
Q 029517            1 MFSLFYGLWK--YIFT-KTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGG   65 (192)
Q Consensus         1 ~~~~~~~~~~--~~~k-st~~~------------~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G   65 (192)
                      |+++++++++  .+|+ ..-++            +|++++..      +.+ ..+.||+|.....+....+.+.+|||||
T Consensus         3 m~~~~~~~~~~l~~f~~~~~~~i~v~G~~~~GKssli~~l~~------~~~-~~~~~t~~~~~~~~~~~~~~~~~~Dt~G   75 (189)
T 2x77_A            3 MGAWLASLKQTLGLLPADRKIRVLMLGLDNAGKTSILYRLHL------GDV-VTTVPTVGVNLETLQYKNISFEVWDLGG   75 (189)
T ss_dssp             ---CCSCHHHHHHTSCTTSCEEEEEEEETTSSHHHHHHHTCC------SCC-EEECSSTTCCEEEEEETTEEEEEEEECC
T ss_pred             hHHHHHHHHHHhhhccCCCceEEEEECCCCCCHHHHHHHHHc------CCC-CCcCCCCceEEEEEEECCEEEEEEECCC
Confidence            7777777777  4554 33333            77777754      333 3468899988888888899999999999


Q ss_pred             CcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCC
Q 029517           66 QPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDE  145 (192)
Q Consensus        66 ~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~  145 (192)
                      ++++...+..+++++|++++|+|++++++++.+..|+..+.......+.|+++|+||+|+.+....+++.+.........
T Consensus        76 ~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~  155 (189)
T 2x77_A           76 QTGVRPYWRCYFSDTDAVIYVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPDAASEAEIAEQLGVSSIMN  155 (189)
T ss_dssp             SSSSCCCCSSSSTTCCEEEEEEETTCCTTHHHHHHHHHHHHTCSTTTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCS
T ss_pred             CHhHHHHHHHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHhhhhcCCCeEEEEEECCCCcCCCCHHHHHHHhChhhccC
Confidence            99988888889999999999999999999999999999888765446899999999999987766677777665444445


Q ss_pred             cceEEEEeeecCCCCHHHHHHHHHHHHHhcc
Q 029517          146 RVCMFEAVSGYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       146 ~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~~  176 (192)
                      .+++++++||++|.||+++|++|.+.+.+.+
T Consensus       156 ~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  186 (189)
T 2x77_A          156 RTWTIVKSSSKTGDGLVEGMDWLVERLREQG  186 (189)
T ss_dssp             SCEEEEECCTTTCTTHHHHHHHHHHHHHHTC
T ss_pred             CceEEEEccCCCccCHHHHHHHHHHHHHhcc
Confidence            6789999999999999999999999886553

>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=99.95  E-value=2.4e-26  Score=164.61  Aligned_cols=151  Identities=34%  Similarity=0.580  Sum_probs=126.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS   93 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~   93 (192)
                      |||++|+|.+.          .+ ..+.||+|.....+....+.+.+|||||++.+...+..+++++|++++|+|++++.
T Consensus        20 Kssl~~~l~~~----------~~-~~~~~t~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~   88 (171)
T 1upt_A           20 KTTILYRLQVG----------EV-VTTIPTIGFNVETVTYKNLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRD   88 (171)
T ss_dssp             HHHHHHHHHHS----------SC-CCCCCCSSEEEEEEEETTEEEEEEEECCCGGGGGGGGGGCTTCSEEEEEEETTCCT
T ss_pred             HHHHHHHHhcC----------CC-CCcCCcCccceEEEEECCEEEEEEECCCChhhhHHHHHHhccCCEEEEEEECCCHH
Confidence            67777777542          22 34688999888888888999999999999999999999999999999999999999


Q ss_pred             cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517           94 RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus        94 s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      +++.+..|+..+.......+.|+++|+||+|+.+..+.+++.+..........+++++++||++|.|++++|++|.+.+.
T Consensus        89 s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~  168 (171)
T 1upt_A           89 RIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLK  168 (171)
T ss_dssp             THHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhchhhCCCEEEEEEECCCCcCCCCHHHHHHHhCchhccCCceEEEECcCCCCcCHHHHHHHHHHHHh
Confidence            99999999988877643457999999999999877666777766654444456789999999999999999999999886


Q ss_pred             hc
Q 029517          174 RS  175 (192)
Q Consensus       174 ~~  175 (192)
                      +.
T Consensus       169 ~~  170 (171)
T 1upt_A          169 SR  170 (171)
T ss_dssp             TC
T ss_pred             hc
Confidence            53

>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=99.95  E-value=3.5e-26  Score=166.93  Aligned_cols=151  Identities=33%  Similarity=0.640  Sum_probs=126.6

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS   93 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~   93 (192)
                      |||++|+|++          +.+...+.||+|.++..+....+.+.+|||||++++...+..+++++|++++|+|+++++
T Consensus        35 KSsli~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~  104 (188)
T 1zd9_A           35 KTTFVNVIAS----------GQFNEDMIPTVGFNMRKITKGNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQE  104 (188)
T ss_dssp             HHHHHHHHHH----------SCCCCSCCCCCSEEEEEEEETTEEEEEEEECCSHHHHTTHHHHHTTCSEEEEEEETTCGG
T ss_pred             HHHHHHHHHc----------CCCCCccCCCCceeEEEEEeCCEEEEEEECCCCHhHHHHHHHHHccCCEEEEEEECCCHH
Confidence            6666666653          345567789999999988888999999999999999999999999999999999999999


Q ss_pred             cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517           94 RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus        94 s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      +++.+..|+..+.......+.|+++|+||+|+....+.+++.+..........+++++++||++|.||+++|++|.+.+.
T Consensus       105 s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~  184 (188)
T 1zd9_A          105 KIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALDEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQHSK  184 (188)
T ss_dssp             GHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHHhCcccCCCCEEEEEECCCCccCCCHHHHHHHhChhhhccCCeeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            99999999998877533357999999999999877667777776664434456789999999999999999999988664


Q ss_pred             h
Q 029517          174 R  174 (192)
Q Consensus       174 ~  174 (192)
                      +
T Consensus       185 ~  185 (188)
T 1zd9_A          185 S  185 (188)
T ss_dssp             -
T ss_pred             h
Confidence            4

>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=99.95  E-value=2.8e-26  Score=166.64  Aligned_cols=148  Identities=36%  Similarity=0.672  Sum_probs=122.6

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSK   99 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~   99 (192)
                      +|++++.+      + +...+.||+|.....+...++.+.+|||||++.++..+..+++++|++++|+|++++++++.+.
T Consensus        31 sL~~~l~~------~-~~~~~~~t~g~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~  103 (181)
T 1fzq_A           31 TLLKQLAS------E-DISHITPTQGFNIKSVQSQGFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETG  103 (181)
T ss_dssp             HHHHHHCC------S-CCEEEEEETTEEEEEEEETTEEEEEEECSSCGGGHHHHHHHHTTCSEEEEEEETTCGGGHHHHH
T ss_pred             HHHHHHhc------C-CCCcccCcCCeEEEEEEECCEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECcCHHHHHHHH
Confidence            55555554      2 3356789999888788888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          100 TALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       100 ~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      .|+..+.......+.|+++|+||+|+.+....+++.+.+.+......+++++++||++|.||+++|++|.+.+.+
T Consensus       104 ~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~  178 (181)
T 1fzq_A          104 QELTELLEEEKLSCVPVLIFANKQDLLTAAPASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNVNA  178 (181)
T ss_dssp             HHHHHHTTCGGGTTCCEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHTC--
T ss_pred             HHHHHHHhChhhcCCCEEEEEECcCcccCCCHHHHHHHhCchhccCCceEEEEccCCCCCCHHHHHHHHHHHHHh
Confidence            999888765333679999999999998876777777776544444567899999999999999999999887654

>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=99.94  E-value=8.2e-27  Score=170.37  Aligned_cols=153  Identities=30%  Similarity=0.575  Sum_probs=126.1

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS   93 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~   93 (192)
                      |||++|+|++...         +...+.||+|.....+..+++.+.+|||||++++...+..+++++|++++|+|++++.
T Consensus        34 KSsli~~l~~~~~---------~~~~~~~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~  104 (190)
T 2h57_A           34 KTTIINKLKPSNA---------QSQNILPTIGFSIEKFKSSSLSFTVFDMSGQGRYRNLWEHYYKEGQAIIFVIDSSDRL  104 (190)
T ss_dssp             HHHHHHHTSCGGG---------CCSSCCCCSSEEEEEEECSSCEEEEEEECCSTTTGGGGGGGGGGCSEEEEEEETTCHH
T ss_pred             HHHHHHHHhcCCC---------CCCCcCCccceeEEEEEECCEEEEEEECCCCHHHHHHHHHHHhcCCEEEEEEECCCHH
Confidence            5666666543321         3455789999888888888899999999999999999999999999999999999999


Q ss_pred             cHHHHHHHHHHHHhCCCC--CCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHH
Q 029517           94 RFEDSKTALEKVLRNEDL--QGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEV  171 (192)
Q Consensus        94 s~~~~~~~~~~i~~~~~~--~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~  171 (192)
                      +++.+..|+..+......  .++|+++|+||+|+.+....+++.+.+.+..+...+++++++||++|.||+++|++|.+.
T Consensus       105 s~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~  184 (190)
T 2h57_A          105 RMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRDAVTSVKVSQLLCLENIKDKPWHICASDAIKGEGLQEGVDWLQDQ  184 (190)
T ss_dssp             HHHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTSTTCCCHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhChhhccCCCeEEEEEeCcCcccCCCHHHHHHHhChhhccCCceEEEEccCCCCcCHHHHHHHHHHH
Confidence            999999999998876543  579999999999998877788888877644444557899999999999999999999987


Q ss_pred             HHhc
Q 029517          172 MERS  175 (192)
Q Consensus       172 i~~~  175 (192)
                      +.+.
T Consensus       185 i~~~  188 (190)
T 2h57_A          185 IQTV  188 (190)
T ss_dssp             C---
T ss_pred             HHHh
Confidence            7543

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.94  E-value=1.4e-26  Score=169.97  Aligned_cols=155  Identities=32%  Similarity=0.568  Sum_probs=126.0

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCC-CCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPD-RIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACP   92 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~-~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~   92 (192)
                      |||++|+|    ..      +.+.. .|.||+|.....+....+.+.+|||||++++...+..+++++|++|+|+|++++
T Consensus        30 KSsl~~~l----~~------~~~~~~~~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~   99 (199)
T 4bas_A           30 KTTIINQV----KP------AQSSSKHITATVGYNVETFEKGRVAFTVFDMGGAKKFRGLWETYYDNIDAVIFVVDSSDH   99 (199)
T ss_dssp             HHHHHHHH----SC------CC----CCCCCSSEEEEEEEETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEETTCG
T ss_pred             HHHHHHHH----hc------CCCcccccccccceeEEEEEeCCEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECCcH
Confidence            55555555    43      44455 679999998888988899999999999999999999999999999999999999


Q ss_pred             ccHHHHHHHHHHHHhCCCC-------CCCcEEEEEeCCCCCCCCCHHHHHhHcCcccc-CCcceEEEEeeecCCCCHHHH
Q 029517           93 SRFEDSKTALEKVLRNEDL-------QGAPLLILANKQDLPDAVSADELARYLDLKKL-DERVCMFEAVSGYDGFGIKES  164 (192)
Q Consensus        93 ~s~~~~~~~~~~i~~~~~~-------~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~~~Sa~~~~gi~e~  164 (192)
                      ++++.+..|+..+......       .++|+++|+||+|+......+++.+.+.+... ...+++++++||++|.||+++
T Consensus       100 ~s~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l  179 (199)
T 4bas_A          100 LRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGAKTAAELVEILDLTTLMGDHPFVIFASNGLKGTGVHEG  179 (199)
T ss_dssp             GGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTCCCHHHHHHHHTHHHHHTTSCEEEEECBTTTTBTHHHH
T ss_pred             HHHHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCCCCCHHHHHHHhcchhhccCCeeEEEEeeCCCccCHHHH
Confidence            9999999999988765211       27899999999999887777777776653332 356789999999999999999


Q ss_pred             HHHHHHHHHhcchh
Q 029517          165 VEWLVEVMERSKRT  178 (192)
Q Consensus       165 ~~~i~~~i~~~~~~  178 (192)
                      |++|.+.+.+..++
T Consensus       180 ~~~l~~~~~~~~~~  193 (199)
T 4bas_A          180 FSWLQETASRQSGK  193 (199)
T ss_dssp             HHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHhcc
Confidence            99999988766543

>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=99.94  E-value=2.7e-26  Score=167.97  Aligned_cols=145  Identities=32%  Similarity=0.532  Sum_probs=121.5

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSK   99 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~   99 (192)
                      +|++++..      +.+ ..+.||++.....+..+++.+.+|||||++.++..+..+++++|++++|+|++++++++.+.
T Consensus        38 sli~~l~~------~~~-~~~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~  110 (190)
T 1m2o_B           38 TLLHMLKN------DRL-ATLQPTWHPTSEELAIGNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERFDEAR  110 (190)
T ss_dssp             HHHHHHHH------SCC-CCCCCCCSCEEEEEEETTEEEEEEECCCSGGGTTSGGGGCTTCCEEEEEEETTCGGGHHHHH
T ss_pred             HHHHHHhc------CCC-CccccCCCCCeEEEEECCEEEEEEECCCCHHHHHHHHHHHhcCCEEEEEEECCChHHHHHHH
Confidence            66666654      333 35688999988888888899999999999999888888999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccc-------cCCcceEEEEeeecCCCCHHHHHHHHHHH
Q 029517          100 TALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKK-------LDERVCMFEAVSGYDGFGIKESVEWLVEV  171 (192)
Q Consensus       100 ~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~  171 (192)
                      .|+..+.+.....+.|+++|+||+|+.+..+.+++.+.+....       ....+++++++||++|.||+++|++|.+.
T Consensus       111 ~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~  189 (190)
T 1m2o_B          111 VELDALFNIAELKDVPFVILGNKIDAPNAVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWLSQY  189 (190)
T ss_dssp             HHHHHHHTCGGGTTCCEEEEEECTTSTTCCCHHHHHHHTTCSSCCC---CCSSCCEEEEECBTTTTBSHHHHHHHHHTT
T ss_pred             HHHHHHHcchhhcCCCEEEEEECCCCcCCCCHHHHHHHhCCccccccccccccceEEEEEeECCcCCCHHHHHHHHHhh
Confidence            9999988754346799999999999988788888888876321       12356889999999999999999999753

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=99.94  E-value=1.3e-26  Score=169.57  Aligned_cols=157  Identities=16%  Similarity=0.180  Sum_probs=121.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE-----EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEe
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR-----IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVID   88 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~-----~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D   88 (192)
                      |||++|.+.++...............+.||+|.++..     ++...+.+++|||||++++...+..+++++|++|+|+|
T Consensus        27 KssL~~~l~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D  106 (198)
T 3t1o_A           27 KTTNLKWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRFHLYTVPGQVFYNASRKLILRGVDGIVFVAD  106 (198)
T ss_dssp             HHHHHHHHHHTSCGGGBCCCEEEECSSCEEEEEEECCSSCCCSSSCEEEEEEEECCSCCSCSHHHHHHTTTCCEEEEEEE
T ss_pred             HHHHHHHHHhhccccccccccccccccccceeeeecccccccccCCceEEEEEeCCChHHHHHHHHHHHhcCCEEEEEEE
Confidence            7777766655433311110001123367788887664     23346789999999999999999999999999999999


Q ss_pred             CC------CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcce-EEEEeeecCCCCH
Q 029517           89 AA------CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVC-MFEAVSGYDGFGI  161 (192)
Q Consensus        89 ~~------~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi  161 (192)
                      ++      +.++++.+..|+..+...  ..+.|+++|+||+|+.+....+++.+++.     ..++ +++++||++|.||
T Consensus       107 ~~~~~~~~~~~s~~~l~~~l~~~~~~--~~~~piilv~NK~Dl~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~gv  179 (198)
T 3t1o_A          107 SAPNRLRANAESMRNMRENLAEYGLT--LDDVPIVIQVNKRDLPDALPVEMVRAVVD-----PEGKFPVLEAVATEGKGV  179 (198)
T ss_dssp             CCGGGHHHHHHHHHHHHHHHHHTTCC--TTSSCEEEEEECTTSTTCCCHHHHHHHHC-----TTCCSCEEECBGGGTBTH
T ss_pred             CCcchhhHhHHHHHHHHHHHHhhccc--cCCCCEEEEEEchhcccccCHHHHHHHHH-----hcCCceEEEEecCCCcCH
Confidence            99      556777888888877432  26799999999999998888999999987     5566 9999999999999


Q ss_pred             HHHHHHHHHHHHhcch
Q 029517          162 KESVEWLVEVMERSKR  177 (192)
Q Consensus       162 ~e~~~~i~~~i~~~~~  177 (192)
                      +++|++|.+.+.+..+
T Consensus       180 ~~l~~~l~~~i~~~~~  195 (198)
T 3t1o_A          180 FETLKEVSRLVLARVA  195 (198)
T ss_dssp             HHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHhh
Confidence            9999999998876543

>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=99.94  E-value=5.5e-26  Score=167.43  Aligned_cols=145  Identities=29%  Similarity=0.501  Sum_probs=114.1

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSK   99 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~   99 (192)
                      +|++++.+      +.+ ..+.||++.....+..+++++.+|||||++.++..+..+++++|++++|+|++++++++.+.
T Consensus        40 sLi~~l~~------~~~-~~~~~t~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~  112 (198)
T 1f6b_A           40 TLLHMLKD------DRL-GQHVPTLHPTSEELTIAGMTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCADHERLLESK  112 (198)
T ss_dssp             HHHHHHSC------C-------CCCCCSCEEEEETTEEEEEEEECC----CCGGGGGGGGCSEEEEEEETTCGGGHHHHH
T ss_pred             HHHHHHhc------CCC-CccCCCCCceeEEEEECCEEEEEEECCCcHhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHH
Confidence            66666654      332 35678888888888888899999999999999888889999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccc---------c---CCcceEEEEeeecCCCCHHHHHHH
Q 029517          100 TALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKK---------L---DERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus       100 ~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~---------~---~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      .|+..+.+.....++|+++|+||+|+.+.++.+++.+.+....         +   ...+.++++|||++|.||+++|++
T Consensus       113 ~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~  192 (198)
T 1f6b_A          113 EELDSLMTDETIANVPILILGNKIDRPEAISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRW  192 (198)
T ss_dssp             HHHHHHHTCGGGTTSCEEEEEECTTSTTCCCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEEEECBTTTTBSHHHHHHH
T ss_pred             HHHHHHHhCcccCCCcEEEEEECCCccccCCHHHHHHHhCcccccccccccccccccCceEEEEEEECCCCCCHHHHHHH
Confidence            9999988754346799999999999988778888888776321         1   124678999999999999999999


Q ss_pred             HHHH
Q 029517          168 LVEV  171 (192)
Q Consensus       168 i~~~  171 (192)
                      |.+.
T Consensus       193 l~~~  196 (198)
T 1f6b_A          193 MAQY  196 (198)
T ss_dssp             HHTT
T ss_pred             HHHh
Confidence            9764

>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=99.93  E-value=1.1e-25  Score=163.16  Aligned_cols=147  Identities=31%  Similarity=0.591  Sum_probs=124.1

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS   93 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~   93 (192)
                      |||++|+|++.          .+ ..+.||+|.....+..+++.+.+|||||++++...+..+++++|++++|+|+++..
T Consensus        34 KSsli~~l~~~----------~~-~~~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~  102 (181)
T 2h17_A           34 KTTILYQFSMN----------EV-VHTSPTIGSNVEEIVINNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRE  102 (181)
T ss_dssp             HHHHHHHHHTT----------SC-EEEECCSSSSCEEEEETTEEEEEEEESSSGGGTCGGGGGGTTCCEEEEEEETTCTT
T ss_pred             HHHHHHHHhcC----------CC-CccCCcCceeeEEEEECCEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHH
Confidence            67777666543          22 56688888888888888899999999999999989999999999999999999999


Q ss_pred             cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHH
Q 029517           94 RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEV  171 (192)
Q Consensus        94 s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~  171 (192)
                      +++.+..|+..+.......++|+++|+||+|+.+....+++.+.+.+......+++++++||++|.||+++|++|.+.
T Consensus       103 s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~  180 (181)
T 2h17_A          103 RISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSR  180 (181)
T ss_dssp             THHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHhChhhCCCeEEEEEECCCcccCCCHHHHHHHhCcccccCCceEEEEccCCCCcCHHHHHHHHHhh
Confidence            999999999988875333679999999999998877778888877654444567899999999999999999999764

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=99.93  E-value=3.8e-26  Score=165.61  Aligned_cols=151  Identities=20%  Similarity=0.310  Sum_probs=100.0

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEec--CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEVS--NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++.          .+...+.||+|.++..  +...  .+.+.+|||||++.+...+..+++++|++++|+|+
T Consensus        21 Kssl~~~l~~~----------~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~   90 (183)
T 2fu5_C           21 KTCVLFRFSED----------AFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDI   90 (183)
T ss_dssp             -------------------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEEEEEEET
T ss_pred             HHHHHHHHHhC----------CCCCCCCCcccceeEEEEEEECCEEEEEEEEcCCCChhhhhhHHHHHhcCCEEEEEEEC
Confidence            78888877643          3345678888877653  4433  48999999999999998888999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+..... .+.|+++|+||+|+.+  .+..+++.+++.     ..+++++++||++|.||+++|++
T Consensus        91 ~~~~s~~~~~~~~~~i~~~~~-~~~piilv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~~~~i~~l~~~  164 (183)
T 2fu5_C           91 TNEKSFDNIRNWIRNIEEHAS-ADVEKMILGNKCDVNDKRQVSKERGEKLAL-----DYGIKFMETSAKANINVENAFFT  164 (183)
T ss_dssp             TCHHHHHHHHHHHHHHHHHSC-TTCEEEEEEEC--CCSCCCSCHHHHHHHHH-----HHTCEEEECCC---CCHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHHhcC-CCCCEEEEEECccCCccCcCCHHHHHHHHH-----HcCCeEEEEeCCCCCCHHHHHHH
Confidence            999999999999998877532 4789999999999975  456677777765     45679999999999999999999


Q ss_pred             HHHHHHhcchhhh
Q 029517          168 LVEVMERSKRTEM  180 (192)
Q Consensus       168 i~~~i~~~~~~~~  180 (192)
                      |.+.+.+..+++.
T Consensus       165 l~~~i~~~~~~~~  177 (183)
T 2fu5_C          165 LARDIKAKMDKNW  177 (183)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHhhccc
Confidence            9998877654433

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.93  E-value=9.4e-26  Score=166.72  Aligned_cols=149  Identities=21%  Similarity=0.337  Sum_probs=120.2

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++          +.+...+.||+|.++..  +..  ..+.+++|||||++++...+..+++.+|++|+|+|+
T Consensus        39 KSsLi~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~  108 (201)
T 2ew1_A           39 KTCLVRRFTQ----------GLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDI  108 (201)
T ss_dssp             HHHHHHHHHH----------SSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEEEEEEET
T ss_pred             HHHHHHHHHh----------CCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHHhcCCEEEEEEEC
Confidence            6666666654          34556778999887653  333  347899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+..... .+.|+++|+||+|+.+  .+..+++.+++.     ..+++++++||++|.||+++|++
T Consensus       109 ~~~~s~~~~~~~~~~i~~~~~-~~~piilv~NK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~g~gv~~l~~~  182 (201)
T 2ew1_A          109 TCEESFRCLPEWLREIEQYAS-NKVITVLVGNKIDLAERREVSQQRAEEFSE-----AQDMYYLETSAKESDNVEKLFLD  182 (201)
T ss_dssp             TCHHHHHTHHHHHHHHHHHSC-TTCEEEEEEECGGGGGGCSSCHHHHHHHHH-----HHTCCEEECCTTTCTTHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhcC-CCCCEEEEEECCCCccccccCHHHHHHHHH-----HcCCEEEEEeCCCCCCHHHHHHH
Confidence            999999999999988876532 5789999999999964  556667766665     44678999999999999999999


Q ss_pred             HHHHHHhcchh
Q 029517          168 LVEVMERSKRT  178 (192)
Q Consensus       168 i~~~i~~~~~~  178 (192)
                      |.+.+.+..++
T Consensus       183 l~~~i~~~~~~  193 (201)
T 2ew1_A          183 LACRLISEARQ  193 (201)
T ss_dssp             HHHHHHHHHC-
T ss_pred             HHHHHHHHHhh
Confidence            99988765433

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=99.93  E-value=2.7e-25  Score=161.12  Aligned_cols=146  Identities=19%  Similarity=0.243  Sum_probs=120.0

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|+    .      +.+...+.||++..+..   ++...+.+.+|||||++.+...+..+++++|++++|+|++
T Consensus        31 KSsl~~~l~----~------~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~  100 (183)
T 3kkq_A           31 KSALTIQFF----Q------KIFVDDYDPTIEDSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVT  100 (183)
T ss_dssp             HHHHHHHHH----H------SCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEEEEETT
T ss_pred             HHHHHHHHH----h------CCCCCCCCCCccceeEEEEEeCCcEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECC
Confidence            667766665    3      44566778888877643   2233567889999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeec-CCCCHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGY-DGFGIKESVEW  167 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~-~~~gi~e~~~~  167 (192)
                      ++.+++.+..|+..+.......++|+++|+||+|+.+  .+..+++.+++.     ..+++++++||+ +|.||+++|++
T Consensus       101 ~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~~~~~v~~l~~~  175 (183)
T 3kkq_A          101 DKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMAT-----KYNIPYIETSAKDPPLNVDKTFHD  175 (183)
T ss_dssp             CHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHH-----HHTCCEEEEBCSSSCBSHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCCchhccCcCHHHHHHHHH-----HhCCeEEEeccCCCCCCHHHHHHH
Confidence            9999999999999887644346899999999999975  667777777776     456889999999 99999999999


Q ss_pred             HHHHHHh
Q 029517          168 LVEVMER  174 (192)
Q Consensus       168 i~~~i~~  174 (192)
                      |.+.+.+
T Consensus       176 l~~~i~~  182 (183)
T 3kkq_A          176 LVRVIRQ  182 (183)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhh
Confidence            9998764

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=99.93  E-value=1.5e-25  Score=161.73  Aligned_cols=149  Identities=18%  Similarity=0.286  Sum_probs=121.0

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE-EEec--CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR-IEVS--NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~-~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|++.          .+...+.||++..+.. +...  .+.+.+|||||++++...+..+++.+|++++|+|++
T Consensus        22 Kssli~~l~~~----------~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~   91 (181)
T 2fn4_A           22 KSALTIQFIQS----------YFVSDYDPTIEDSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAIN   91 (181)
T ss_dssp             HHHHHHHHHHS----------SCCSSCCTTCCEEEEEEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSEEEEEEETT
T ss_pred             HHHHHHHHHhC----------cCccccCCCcCceEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhhCCEEEEEEeCC
Confidence            67777777653          3456678888887653 3333  478999999999999888999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      +..+++.+..|+..+.......+.|+++|+||+|+.+  .+..+++.++..     ..+++++++||++|.|++++|++|
T Consensus        92 ~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~~~gv~~l~~~l  166 (181)
T 2fn4_A           92 DRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGA-----SHHVAYFEASAKLRLNVDEAFEQL  166 (181)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHH-----HTTCEEEECBTTTTBSHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHH-----HcCCeEEEecCCCCCCHHHHHHHH
Confidence            9999999999999886543335799999999999965  455666766665     456899999999999999999999


Q ss_pred             HHHHHhcch
Q 029517          169 VEVMERSKR  177 (192)
Q Consensus       169 ~~~i~~~~~  177 (192)
                      .+.+.+..+
T Consensus       167 ~~~~~~~~~  175 (181)
T 2fn4_A          167 VRAVRKYQE  175 (181)
T ss_dssp             HHHHHHHTT
T ss_pred             HHHHHHhhc
Confidence            998876543

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.93  E-value=2.7e-25  Score=160.42  Aligned_cols=148  Identities=20%  Similarity=0.378  Sum_probs=110.8

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++.         ......+.||++.++..  +.  +..+.+.+|||||++++...+..+++++|++++|+|+
T Consensus        23 Kssli~~l~~~---------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~   93 (180)
T 2g6b_A           23 KTCLLVRFKDG---------AFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDV   93 (180)
T ss_dssp             HHHHHHHHHHS---------CCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCSEEEEEEET
T ss_pred             HHHHHHHHHhC---------CCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHccCCCEEEEEEEC
Confidence            67777777543         11234678888887764  23  3356899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+..... .+.|+++|+||+|+..  .+..+++.+++.     ..+++++++||++|.|++++|++
T Consensus        94 ~~~~s~~~~~~~~~~i~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l~~~  167 (180)
T 2g6b_A           94 TNKASFDNIQAWLTEIHEYAQ-HDVALMLLGNKVDSAHERVVKREDGEKLAK-----EYGLPFMETSAKTGLNVDLAFTA  167 (180)
T ss_dssp             TCHHHHHTHHHHHHHHHHHSC-TTCEEEEEEECCSTTSCCCSCHHHHHHHHH-----HHTCCEEECCTTTCTTHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhCC-CCCcEEEEEECcccCcccccCHHHHHHHHH-----HcCCeEEEEeCCCCCCHHHHHHH
Confidence            999999999999988877543 5789999999999975  455666666665     44678999999999999999999


Q ss_pred             HHHHHHhcc
Q 029517          168 LVEVMERSK  176 (192)
Q Consensus       168 i~~~i~~~~  176 (192)
                      |.+.+.+..
T Consensus       168 l~~~~~~~~  176 (180)
T 2g6b_A          168 IAKELKRRS  176 (180)
T ss_dssp             HHHHHHC--
T ss_pred             HHHHHHHHh
Confidence            999887543

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=99.93  E-value=4.9e-25  Score=162.65  Aligned_cols=147  Identities=22%  Similarity=0.310  Sum_probs=112.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE--EEEec--CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG--RIEVS--NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~--~~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++          +.+...+.||+|.++.  .+...  .+.+.+|||||++++...+..+++++|++|+|+|+
T Consensus        42 KSsli~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~  111 (201)
T 2hup_A           42 KTCVVQRFKT----------GAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSANGAILAYDI  111 (201)
T ss_dssp             HHHHHHHHHH----------SCC----------CEEEEEEEETTEEEEEEEECCTTCGGGHHHHHHHHTTCSEEEEEEET
T ss_pred             HHHHHHHHhh----------CCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHHhhCCEEEEEEEC
Confidence            5666666543          3455667889887654  34433  47999999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcce-EEEEeeecCCCCHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVC-MFEAVSGYDGFGIKESVE  166 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~e~~~  166 (192)
                      +++.+++.+..|+..+..... .++|+++|+||+|+.+  .+..+++.+++.     ..++ +++++||++|.||+++|+
T Consensus       112 ~~~~s~~~~~~~~~~i~~~~~-~~~piilv~NK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~~SA~~g~gi~~l~~  185 (201)
T 2hup_A          112 TKRSSFLSVPHWIEDVRKYAG-SNIVQLLIGNKSDLSELREVSLAEAQSLAE-----HYDILCAIETSAKDSSNVEEAFL  185 (201)
T ss_dssp             TBHHHHHTHHHHHHHHHHHSC-TTCEEEEEEECTTCGGGCCSCHHHHHHHHH-----HTTCSEEEECBTTTTBSHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhcC-CCCCEEEEEECCccccccccCHHHHHHHHH-----HcCCCEEEEEeCCCCCCHHHHHH
Confidence            999999999999998877542 5799999999999975  566777777775     4456 899999999999999999


Q ss_pred             HHHHHHHhcc
Q 029517          167 WLVEVMERSK  176 (192)
Q Consensus       167 ~i~~~i~~~~  176 (192)
                      +|.+.+.+..
T Consensus       186 ~l~~~i~~~~  195 (201)
T 2hup_A          186 RVATELIMRH  195 (201)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHhc
Confidence            9999887654

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=99.93  E-value=5.7e-25  Score=159.79  Aligned_cols=150  Identities=20%  Similarity=0.273  Sum_probs=118.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|++          +.+...+.+|.+..+..   +++..+.+.+|||||++.+...+..+++.+|++++|+|++
T Consensus        17 KSsli~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~   86 (189)
T 4dsu_A           17 KSALTIQLIQ----------NHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAIN   86 (189)
T ss_dssp             HHHHHHHHHH----------SSCCCCCCTTCCEEEEEEEEETTEEEEEEEEECCCC---CTTHHHHHHHCSEEEEEEETT
T ss_pred             HHHHHHHHHh----------CCCCCCCCCCchheEEEEEEECCcEEEEEEEECCCcHHHHHHHHHHHhcCCEEEEEEECC
Confidence            7777777764          33455566777655443   3334567999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC-CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD-AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLV  169 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~  169 (192)
                      ++.+++.+..|+..+.......+.|+++|+||+|+.. ....+++.++..     ..+++++++||++|.|++++|++|.
T Consensus        87 ~~~s~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~g~gi~~l~~~l~  161 (189)
T 4dsu_A           87 NTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPSRTVDTKQAQDLAR-----SYGIPFIETSAKTRQGVDDAFYTLV  161 (189)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTSSSCSSCHHHHHHHHH-----HHTCCEEECCTTTCTTHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccCcccccCHHHHHHHHH-----HcCCeEEEEeCCCCCCHHHHHHHHH
Confidence            9999999999999988765546899999999999976 456666666665     4467899999999999999999999


Q ss_pred             HHHHhcchh
Q 029517          170 EVMERSKRT  178 (192)
Q Consensus       170 ~~i~~~~~~  178 (192)
                      +.+......
T Consensus       162 ~~~~~~~~~  170 (189)
T 4dsu_A          162 REIRKHKEK  170 (189)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHhhhh
Confidence            988766543

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.93  E-value=7.5e-25  Score=160.27  Aligned_cols=158  Identities=21%  Similarity=0.321  Sum_probs=120.8

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEec--CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEVS--NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++          +.+...+.||++.++..  +...  .+.+.+|||||++.+...+..+++.+|++++|+|+
T Consensus        29 KSsli~~l~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~   98 (196)
T 3tkl_A           29 KSCLLLRFAD----------DTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDV   98 (196)
T ss_dssp             HHHHHHHHHH----------SCCCSCCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGCTTHHHHHTTCSEEEEEEET
T ss_pred             HHHHHHHHHc----------CCCCCCCCCcccceEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHHhhCCEEEEEEEC
Confidence            6666666653          44556678888876653  4433  47899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+..... .+.|+++|+||+|+..  .+..++..+++.     ..+++++++||++|.||+++|++
T Consensus        99 ~~~~s~~~~~~~~~~i~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~g~gv~~l~~~  172 (196)
T 3tkl_A           99 TDQESFNNVKQWLQEIDRYAS-ENVNKLLVGNKCDLTTKKVVDYTTAKEFAD-----SLGIPFLETSAKNATNVEQSFMT  172 (196)
T ss_dssp             TCHHHHHTHHHHHHHHHHHSC-TTCEEEEEEECTTCTTTCCSCHHHHHHHHH-----HTTCCEEEECTTTCTTHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHHhcC-CCCCEEEEEECcccccccccCHHHHHHHHH-----HcCCcEEEEeCCCCCCHHHHHHH
Confidence            999999999999988877543 4789999999999975  455566666665     44678999999999999999999


Q ss_pred             HHHHHHhcchhhhhhhhccc
Q 029517          168 LVEVMERSKRTEMLRARAGA  187 (192)
Q Consensus       168 i~~~i~~~~~~~~~~~~~~~  187 (192)
                      |.+.+.+...........+.
T Consensus       173 l~~~i~~~~~~~~~~~~~~~  192 (196)
T 3tkl_A          173 MAAEIKKRMGPGATAGGAEK  192 (196)
T ss_dssp             HHHHHHHHC-----------
T ss_pred             HHHHHHHHhccccccCCCcc
Confidence            99999877655444444333

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=99.92  E-value=1.2e-25  Score=162.60  Aligned_cols=149  Identities=19%  Similarity=0.198  Sum_probs=119.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE-EEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR-IEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~-~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|++          +.+...+.||.+..+.. +..  ..+.+.+|||||++.+...+..+++.+|++++|+|++
T Consensus        19 KSsli~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~   88 (181)
T 3t5g_A           19 KSSLTIQFVE----------GQFVDSYDPTIENTFTKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVT   88 (181)
T ss_dssp             HHHHHHHHHH----------SSCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCCCTTCCCCGGGTTTCSEEEEEEETT
T ss_pred             HHHHHHHHHc----------CCCCCCCCCCccccEEEEEEECCEEEEEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECC
Confidence            6777777652          44566778888877643 233  3478999999999999888888999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      ++++++.+..|+..+.......++|+++|+||+|+.+  .+..+++.+++.     ..+.+++++||++|.|++++|++|
T Consensus        89 ~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~l~~~l  163 (181)
T 3t5g_A           89 SIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAE-----SWNAAFLESSAKENQTAVDVFRRI  163 (181)
T ss_dssp             CHHHHHHHHHHHHHHHHHC----CCEEEEEECTTCTTTCCSCHHHHHHHHH-----HTTCEEEECCTTSHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcceecHHHHHHHHH-----HhCCcEEEEecCCCCCHHHHHHHH
Confidence            9999999999999987765446799999999999964  567777777776     557799999999999999999999


Q ss_pred             HHHHHhcch
Q 029517          169 VEVMERSKR  177 (192)
Q Consensus       169 ~~~i~~~~~  177 (192)
                      .+.+.+...
T Consensus       164 ~~~~~~~~~  172 (181)
T 3t5g_A          164 ILEAEKMDG  172 (181)
T ss_dssp             HHHHHTC--
T ss_pred             HHHHHHhcC
Confidence            998887653

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=99.92  E-value=5.2e-25  Score=157.19  Aligned_cols=144  Identities=21%  Similarity=0.312  Sum_probs=117.2

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++          +.+...+.||+|..+..  +.  ...+.+.+||+||++++...+..+++.+|++++|+|+
T Consensus        19 Kssli~~l~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~   88 (170)
T 1r2q_A           19 KSSLVLRFVK----------GQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDI   88 (170)
T ss_dssp             HHHHHHHHHH----------SCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEET
T ss_pred             HHHHHHHHHc----------CCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHhhhhhHHhccCCCEEEEEEEC
Confidence            6777776654          34455667888877643  32  2367899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+..... .+.|+++|+||+|+.+  ....+++.+++.     ..+++++++||++|.|++++|++
T Consensus        89 ~~~~s~~~~~~~~~~~~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~g~gi~~l~~~  162 (170)
T 1r2q_A           89 TNEESFARAKNWVKELQRQAS-PNIVIALSGNKADLANKRAVDFQEAQSYAD-----DNSLLFMETSAKTSMNVNEIFMA  162 (170)
T ss_dssp             TCHHHHHHHHHHHHHHHHHSC-TTCEEEEEEECGGGGGGCCSCHHHHHHHHH-----HTTCEEEECCTTTCTTHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhcC-CCCcEEEEEECccCccccccCHHHHHHHHH-----HcCCeEEEEeCCCCCCHHHHHHH
Confidence            999999999999988877532 5789999999999864  456677777665     45689999999999999999999


Q ss_pred             HHHHHH
Q 029517          168 LVEVME  173 (192)
Q Consensus       168 i~~~i~  173 (192)
                      |.+.+.
T Consensus       163 i~~~~~  168 (170)
T 1r2q_A          163 IAKKLP  168 (170)
T ss_dssp             HHHTSC
T ss_pred             HHHHHh
Confidence            987653

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=99.92  E-value=1e-24  Score=155.40  Aligned_cols=146  Identities=18%  Similarity=0.160  Sum_probs=96.6

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE---EEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG---RIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~---~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|.+..           .....++.|..+.   .++...+.+.+||+||++.+...+..+++.+|++++|+|++
T Consensus        15 KSsli~~l~~~~-----------~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~   83 (166)
T 3q72_A           15 KSALARIFGGVE-----------DGPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVT   83 (166)
T ss_dssp             HHHHHHHHCCC---------------------CEEEEEEEETTEEEEEEEEECC---------------CCEEEEEEETT
T ss_pred             HHHHHHHHcCcc-----------ccCCCCccccceEEEEEECCEEEEEEEEECCCCccchhhhhhhhhhCCEEEEEEECC
Confidence            677777664321           2223444554443   23345678999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      ++.+++.+..|+..+.......++|+++|+||+|+.+  .+..++..++..     ..+.+++++||++|.|++++|++|
T Consensus        84 ~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l~~~l  158 (166)
T 3q72_A           84 DKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAV-----VFDCKFIETSAALHHNVQALFEGV  158 (166)
T ss_dssp             CHHHHHHHHHHHHHHHHCC---CCCEEEEEECTTCCSSCCSCHHHHHHHHH-----HTTCEEEECBGGGTBSHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccccccccccCHHHHHHHHH-----HhCCcEEEeccCCCCCHHHHHHHH
Confidence            9999999999999998765556899999999999975  556666666665     456899999999999999999999


Q ss_pred             HHHHHhc
Q 029517          169 VEVMERS  175 (192)
Q Consensus       169 ~~~i~~~  175 (192)
                      .+.+...
T Consensus       159 ~~~~~~~  165 (166)
T 3q72_A          159 VRQIRLR  165 (166)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhc
Confidence            9987653

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.92  E-value=2.6e-25  Score=163.93  Aligned_cols=150  Identities=17%  Similarity=0.204  Sum_probs=117.6

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|++          +.+...+.||.+..+..   +....+.+.+|||||++.+...+..+++.+|++++|+|++
T Consensus        37 KSsli~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~  106 (201)
T 3oes_A           37 KTSLAHQFVE----------GEFSEGYDPTVENTYSKIVTLGKDEFHLHLVDTAGQDEYSILPYSFIIGVHGYVLVYSVT  106 (201)
T ss_dssp             HHHHHHHHHH----------SCCCSCCCCCSEEEEEEEEC----CEEEEEEEECCCCTTCCCCGGGTTTCCEEEEEEETT
T ss_pred             HHHHHHHHHh----------CCCCCCCCCccceEEEEEEEECCEEEEEEEEECCCccchHHHHHHHHhcCCEEEEEEeCC
Confidence            6666666654          44556778888877643   3345789999999999999888889999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      ++.+++.+..|+..+.......++|+++|+||+|+..  .+..++..++..     ..+.+++++||++|.||+++|++|
T Consensus       107 ~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~l~~~l  181 (201)
T 3oes_A          107 SLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPEREVQAVEGKKLAE-----SWGATFMESSARENQLTQGIFTKV  181 (201)
T ss_dssp             CHHHHHHHHHHHHHHHC-----CCCEEEEEECTTCGGGCCSCHHHHHHHHH-----HHTCEEEECCTTCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCccccccCHHHHHHHHH-----HhCCeEEEEeCCCCCCHHHHHHHH
Confidence            9999999999999998765446799999999999864  556667766665     456799999999999999999999


Q ss_pred             HHHHHhcchh
Q 029517          169 VEVMERSKRT  178 (192)
Q Consensus       169 ~~~i~~~~~~  178 (192)
                      .+.+.+....
T Consensus       182 ~~~i~~~~~~  191 (201)
T 3oes_A          182 IQEIARVENS  191 (201)
T ss_dssp             HHHHHHC---
T ss_pred             HHHHHhhhhh
Confidence            9998876543

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=99.92  E-value=3.5e-24  Score=156.13  Aligned_cols=148  Identities=18%  Similarity=0.337  Sum_probs=121.6

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE---EEEec-----------CEEEEEEeCCCCcccHHHHHHhhhc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG---RIEVS-----------NSKLVFWDLGGQPGLRSIWEKYYEE   79 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~---~~~~~-----------~~~~~i~D~~G~~~~~~~~~~~~~~   79 (192)
                      |||++|+|++          +.+...+.||+|.++.   .+...           .+.+.+|||||++.+...+..++++
T Consensus        24 KSsli~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~   93 (195)
T 3bc1_A           24 KTSVLYQYTD----------GKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGLERFRSLTTAFFRD   93 (195)
T ss_dssp             HHHHHHHHHH----------SCCCCSCCCCCSEEEEEEEEEECTTSCCCSSCCCEEEEEEEEEECCSGGGHHHHHHTTTT
T ss_pred             HHHHHHHHhc----------CCCCcCcccccceeeeeEEEEEecCCcccccccCcEEEEEEEeCCCcHHHHHHHHHHHcC
Confidence            6666666654          3445667899998776   23322           4799999999999999999999999


Q ss_pred             CCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecC
Q 029517           80 AHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYD  157 (192)
Q Consensus        80 ~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  157 (192)
                      +|++|+|+|++++.+++.+..|+..+.......++|+++|+||+|+.+  .+..+++.+++.     ..+++++++||++
T Consensus        94 ~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~  168 (195)
T 3bc1_A           94 AMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLEDQRAVKEEEARELAE-----KYGIPYFETSAAN  168 (195)
T ss_dssp             CSEEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCCEEEEEECTTCGGGCCSCHHHHHHHHH-----HHTCCEEECCTTT
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHH-----HcCCCEEEEECCC
Confidence            999999999999999999999999888765445799999999999975  556677777765     4467899999999


Q ss_pred             CCCHHHHHHHHHHHHHhcc
Q 029517          158 GFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       158 ~~gi~e~~~~i~~~i~~~~  176 (192)
                      |.|++++|++|.+.+.+..
T Consensus       169 ~~~v~~l~~~l~~~~~~~~  187 (195)
T 3bc1_A          169 GTNISHAIEMLLDLIMKRM  187 (195)
T ss_dssp             CTTHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHh
Confidence            9999999999999887654

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=99.92  E-value=9.6e-25  Score=155.24  Aligned_cols=146  Identities=22%  Similarity=0.292  Sum_probs=117.2

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE-EE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR-IE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~-~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|++          +.+...+.||++..+.. +.  ...+.+.+|||||++.+...+..+++++|++++|+|++
T Consensus        16 KSsli~~l~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~   85 (167)
T 1kao_A           16 KSALTVQFVT----------GTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLV   85 (167)
T ss_dssp             HHHHHHHHHH----------SCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETT
T ss_pred             HHHHHHHHHc----------CCCcccCCCCcceeEEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEeCC
Confidence            6777777664          33445667777755432 33  33567999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      ++.+++.+..|+..+.......+.|+++|+||+|+.+  ....++..+++.     ..+++++++||++|.|++++|++|
T Consensus        86 ~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l~~~l  160 (167)
T 1kao_A           86 NQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAE-----EWGCPFMETSAKSKTMVDELFAEI  160 (167)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHH-----HHTSCEEEECTTCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcccccccCCHHHHHHHHH-----HhCCCEEEecCCCCcCHHHHHHHH
Confidence            9999999999999888765446899999999999864  455666666665     446789999999999999999999


Q ss_pred             HHHHHh
Q 029517          169 VEVMER  174 (192)
Q Consensus       169 ~~~i~~  174 (192)
                      .+.+.+
T Consensus       161 ~~~~~~  166 (167)
T 1kao_A          161 VRQMNY  166 (167)
T ss_dssp             HHHHHH
T ss_pred             HHHHhh
Confidence            987753

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=99.92  E-value=7.9e-24  Score=154.13  Aligned_cols=143  Identities=15%  Similarity=0.247  Sum_probs=113.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEec--CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVS--NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAAC   91 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~   91 (192)
                      |||++|+|++          +.+...+.||.+.....+...  .+.+.+|||+|++.+.     +++.+|++++|||+++
T Consensus        33 KSsL~~~~~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~-----~~~~~~~~i~v~d~~~   97 (184)
T 3ihw_A           33 KSALVHRYLT----------GTYVQEESPEGGRFKKEIVVDGQSYLLLIRDEGGPPELQ-----FAAWVDAVVFVFSLED   97 (184)
T ss_dssp             HHHHHHHHHH----------SSCCCCCCTTCEEEEEEEEETTEEEEEEEEECSSSCCHH-----HHHHCSEEEEEEETTC
T ss_pred             HHHHHHHHhc----------CCCCCCcCCCcceEEEEEEECCEEEEEEEEECCCChhhh-----eecCCCEEEEEEECcC
Confidence            6666666553          445566777755433334433  4789999999999886     7889999999999999


Q ss_pred             cccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCC----CCCCHHHHHhHcCccccCCc-ceEEEEeeecCCCCHHHHHH
Q 029517           92 PSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLP----DAVSADELARYLDLKKLDER-VCMFEAVSGYDGFGIKESVE  166 (192)
Q Consensus        92 ~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~----~~~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~gi~e~~~  166 (192)
                      +.+++.+..|+..+.......+.|+++|+||+|+.    ..+..+++.+++.     .. ..+++++||++|.||+++|+
T Consensus        98 ~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~-----~~~~~~~~e~Sa~~~~gv~~lf~  172 (184)
T 3ihw_A           98 EISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISAANPRVIDDSRARKLST-----DLKRCTYYETCATYGLNVERVFQ  172 (184)
T ss_dssp             HHHHHHHHHHHHHHHTTSCGGGSCEEEEEECTTCBTTBCCCSCHHHHHHHHH-----HTTTCEEEEEBTTTTBTHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccccCHHHHHHHHH-----HcCCCeEEEecCCCCCCHHHHHH
Confidence            99999999999999876544579999999999994    3577777777776     33 47999999999999999999


Q ss_pred             HHHHHHHhcc
Q 029517          167 WLVEVMERSK  176 (192)
Q Consensus       167 ~i~~~i~~~~  176 (192)
                      +|.+.+.+.+
T Consensus       173 ~l~~~i~~~~  182 (184)
T 3ihw_A          173 DVAQKVVALR  182 (184)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHHh
Confidence            9999887654

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=99.92  E-value=2.5e-24  Score=153.20  Aligned_cols=146  Identities=17%  Similarity=0.236  Sum_probs=116.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE-E--EecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR-I--EVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~-~--~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|++.          .+...+.||.+..+.. +  +...+.+.+||+||++++...+..+++.+|++++|+|++
T Consensus        17 Kssl~~~l~~~----------~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   86 (168)
T 1u8z_A           17 KSALTLQFMYD----------EFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSIT   86 (168)
T ss_dssp             HHHHHHHHHHS----------CCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEEEEETT
T ss_pred             HHHHHHHHHhC----------ccCCCCCCCcceEEEEEEEECCEEEEEEEEECCCcchhHHHHHHHhhcCCEEEEEEECC
Confidence            67777776643          3455667888776653 3  233578999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      ++.+++.+..|+..+.......+.|+++|+||+|+.+  ....+++.+++.     ..+++++++||++|.|++++|++|
T Consensus        87 ~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l~~~l  161 (168)
T 1u8z_A           87 EMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAD-----QWNVNYVETSAKTRANVDKVFFDL  161 (168)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHH-----HHTCEEEECCTTTCTTHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccccccCccCHHHHHHHHH-----HcCCeEEEeCCCCCCCHHHHHHHH
Confidence            9999999999999988765445799999999999965  466677777775     456789999999999999999999


Q ss_pred             HHHHHh
Q 029517          169 VEVMER  174 (192)
Q Consensus       169 ~~~i~~  174 (192)
                      .+.+.+
T Consensus       162 ~~~i~~  167 (168)
T 1u8z_A          162 MREIRA  167 (168)
T ss_dssp             HHHHHT
T ss_pred             HHHHHh
Confidence            988754

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=99.92  E-value=4.9e-24  Score=157.07  Aligned_cols=147  Identities=16%  Similarity=0.229  Sum_probs=120.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE-EEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR-IEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~-~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|++          +.+...+.||.+..+.. +..  ..+.+.+|||||++.+...+..+++.+|++++|+|++
T Consensus        27 KSsli~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~   96 (206)
T 2bov_A           27 KSALTLQFMY----------DEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSIT   96 (206)
T ss_dssp             HHHHHHHHHH----------SCCCTTCCTTCCEEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETT
T ss_pred             HHHHHHHHHh----------CCCCCCCCCccceEEEEEEEECCEEEEEEEEcCCChhhhHHHHHHHHhhCCEEEEEEECC
Confidence            6666666653          33556678888876542 333  3468999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      +..+++.+..|+..+.......++|+++|+||+|+.+  .+..+++.+++.     ..+++++++||++|.||+++|++|
T Consensus        97 ~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~g~gi~~l~~~l  171 (206)
T 2bov_A           97 EMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAE-----QWNVNYVETSAKTRANVDKVFFDL  171 (206)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTCGGGCCSCHHHHHHHHH-----HHTCEEEEECTTTCTTHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccCccccccccHHHHHHHHH-----HhCCeEEEEeCCCCCCHHHHHHHH
Confidence            9999999999999988765445899999999999975  466777777775     456789999999999999999999


Q ss_pred             HHHHHhc
Q 029517          169 VEVMERS  175 (192)
Q Consensus       169 ~~~i~~~  175 (192)
                      .+.+...
T Consensus       172 ~~~i~~~  178 (206)
T 2bov_A          172 MREIRAR  178 (206)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHc
Confidence            9988764

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=99.92  E-value=1.1e-24  Score=157.32  Aligned_cols=146  Identities=22%  Similarity=0.310  Sum_probs=117.5

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++          +.+...+.+|+|.++..  +..  ..+.+.+|||||++++...+..+++.+|++++|+|+
T Consensus        25 KSsli~~l~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~   94 (181)
T 2efe_B           25 KSSLVLRFVK----------DQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDV   94 (181)
T ss_dssp             HHHHHHHHHH----------CCCTTTSCCCSCCSEEEEEEEETTEEEEEEEEECCCSGGGGGGTHHHHTTCSEEEEEEET
T ss_pred             HHHHHHHHHc----------CCCCCcCCCCceeEEEEEEEEECCEEEEEEEEeCCCChhhhhhhHHHhccCCEEEEEEEC
Confidence            6777666653          34455667788766543  332  357899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+..... .+.|+++|+||+|+.+  .+..+++.+++.     ..+++++++||++|.|++++|++
T Consensus        95 ~~~~s~~~~~~~~~~~~~~~~-~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~g~gi~~l~~~  168 (181)
T 2efe_B           95 TNQASFERAKKWVQELQAQGN-PNMVMALAGNKSDLLDARKVTAEDAQTYAQ-----ENGLFFMETSAKTATNVKEIFYE  168 (181)
T ss_dssp             TCHHHHHHHHHHHHHHHHHSC-TTCEEEEEEECTTCTTTCCSCHHHHHHHHH-----HTTCEEEECCSSSCTTHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhcC-CCCcEEEEEECCcccccccCCHHHHHHHHH-----HcCCEEEEEECCCCCCHHHHHHH
Confidence            999999999999998887642 4789999999999965  456677777775     45678999999999999999999


Q ss_pred             HHHHHHhc
Q 029517          168 LVEVMERS  175 (192)
Q Consensus       168 i~~~i~~~  175 (192)
                      |.+.+...
T Consensus       169 l~~~~~~~  176 (181)
T 2efe_B          169 IARRLPRV  176 (181)
T ss_dssp             HHHTCC--
T ss_pred             HHHHHHhc
Confidence            99876554

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=99.92  E-value=1.3e-24  Score=156.53  Aligned_cols=145  Identities=21%  Similarity=0.332  Sum_probs=117.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++          +.+...+.+|+|.++..  +.  ...+.+.+|||||++++...+..+++++|++++|+|+
T Consensus        28 KSsli~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~   97 (179)
T 1z0f_A           28 KSCLLHQFTE----------KKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDI   97 (179)
T ss_dssp             HHHHHHHHHH----------SCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEEEEEEET
T ss_pred             HHHHHHHHHc----------CCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCChHhhhhHHHHhccCCEEEEEEeC
Confidence            6666666654          33455667888766543  33  3457899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+..... .+.|+++|+||+|+.+  .+..+++.+++.     ..+++++++||++|.||+++|++
T Consensus        98 ~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l~~~  171 (179)
T 1z0f_A           98 TRRSTYNHLSSWLTDARNLTN-PNTVIILIGNKADLEAQRDVTYEEAKQFAE-----ENGLLFLEASAKTGENVEDAFLE  171 (179)
T ss_dssp             TCHHHHHTHHHHHHHHHHHSC-TTCEEEEEEECTTCGGGCCSCHHHHHHHHH-----HTTCEEEECCTTTCTTHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHHhcC-CCCcEEEEEECcccccccccCHHHHHHHHH-----HcCCEEEEEeCCCCCCHHHHHHH
Confidence            999999999999988877543 4789999999999964  456677777775     45689999999999999999999


Q ss_pred             HHHHHHh
Q 029517          168 LVEVMER  174 (192)
Q Consensus       168 i~~~i~~  174 (192)
                      |.+.+.+
T Consensus       172 l~~~i~~  178 (179)
T 1z0f_A          172 AAKKIYQ  178 (179)
T ss_dssp             HHHHHC-
T ss_pred             HHHHHhh
Confidence            9987753

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=99.92  E-value=1.2e-24  Score=156.26  Aligned_cols=147  Identities=19%  Similarity=0.181  Sum_probs=104.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE--EE--EecCEEEEEEeCCCCcc--cHHHHHHhhhcCCEEEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG--RI--EVSNSKLVFWDLGGQPG--LRSIWEKYYEEAHAVVFVI   87 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~--~~--~~~~~~~~i~D~~G~~~--~~~~~~~~~~~~d~ii~v~   87 (192)
                      |||++|+|++...          .. ..+|.|.+..  .+  ++..+.+.+|||||++.  +......+++.+|++++|+
T Consensus        17 KSsl~~~l~~~~~----------~~-~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~~~i~v~   85 (175)
T 2nzj_A           17 KTSLASLFAGKQE----------RD-LHEQLGEDVYERTLTVDGEDTTLVVVDTWEAEKLDKSWSQESCLQGGSAYVIVY   85 (175)
T ss_dssp             HHHHHHHHHCC----------------CCCSSSSEEEEEEEETTEEEEEEEECCC-------CHHHHHTTTSCSEEEEEE
T ss_pred             HHHHHHHHhcCCC----------cc-ccCccccceeEEEEEECCEEEEEEEEecCCCCccchhhhHHhhcccCCEEEEEE
Confidence            7777777764321          11 1233443332  23  33456899999999987  5566778899999999999


Q ss_pred             eCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHH
Q 029517           88 DAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus        88 D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      |++++.+++.+..|+..+.......++|+++|+||+|+.+  .+..++...+..     ..+++++++||++|.||+++|
T Consensus        86 d~~~~~s~~~~~~~~~~l~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~g~gi~~l~  160 (175)
T 2nzj_A           86 SIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLARCREVSVEEGRACAV-----VFDCKFIETSATLQHNVAELF  160 (175)
T ss_dssp             ETTCHHHHHHHHHHHHHHHHCC----CCEEEEEECTTCTTTCCSCHHHHHHHHH-----HHTSEEEECBTTTTBSHHHHH
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhccCCCCEEEEEEChhhccccccCHHHHHHHHH-----HcCCeEEEEecCCCCCHHHHH
Confidence            9999999999999998888764445799999999999975  455666666654     346799999999999999999


Q ss_pred             HHHHHHHHhcc
Q 029517          166 EWLVEVMERSK  176 (192)
Q Consensus       166 ~~i~~~i~~~~  176 (192)
                      ++|.+.+...+
T Consensus       161 ~~l~~~~~~~~  171 (175)
T 2nzj_A          161 EGVVRQLRLRR  171 (175)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhh
Confidence            99999886544

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=99.92  E-value=3.9e-24  Score=156.24  Aligned_cols=148  Identities=20%  Similarity=0.304  Sum_probs=121.2

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++          +.+...+.||+|.++..  +.  ...+.+.+|||||++++...+..+++.+|++|+|+|+
T Consensus        28 Kssli~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~   97 (195)
T 1x3s_A           28 KSSLLLRFTD----------DTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDV   97 (195)
T ss_dssp             HHHHHHHHHH----------SCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEEEEEET
T ss_pred             HHHHHHHHHc----------CCCCccCCCccceEEEEEEEEECCeEEEEEEEeCCCchhhhhhhHHHhccCCEEEEEEEC
Confidence            6666666643          34456678888877653  33  3457899999999999988999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC-CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD-AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      +++.+++.+..|+..+.......++|+++|+||+|+.. .+..+++.+++.     ..+++++++||++|.||+++|++|
T Consensus        98 ~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l~~~l  172 (195)
T 1x3s_A           98 TRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKENREVDRNEGLKFAR-----KHSMLFIEASAKTCDGVQCAFEEL  172 (195)
T ss_dssp             TCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSSCCSCHHHHHHHHH-----HTTCEEEECCTTTCTTHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHHhcCcCCCcEEEEEECCcCcccccCHHHHHHHHH-----HcCCEEEEecCCCCCCHHHHHHHH
Confidence            99999999999999988765446799999999999965 456677777765     456889999999999999999999


Q ss_pred             HHHHHhcc
Q 029517          169 VEVMERSK  176 (192)
Q Consensus       169 ~~~i~~~~  176 (192)
                      .+.+.+..
T Consensus       173 ~~~~~~~~  180 (195)
T 1x3s_A          173 VEKIIQTP  180 (195)
T ss_dssp             HHHHHTSG
T ss_pred             HHHHHhhh
Confidence            99887654

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=99.92  E-value=1.9e-24  Score=153.99  Aligned_cols=146  Identities=19%  Similarity=0.318  Sum_probs=118.2

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|++          +.+...+.||++..+..   ++...+.+.+|||||++++...+..+++++|++++|+|++
T Consensus        16 Kssli~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   85 (167)
T 1c1y_A           16 KSALTVQFVQ----------GIFVEKYDPTIEDSYRKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSIT   85 (167)
T ss_dssp             HHHHHHHHHH----------CCCCCSCCCCSEEEEEEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEEEETT
T ss_pred             HHHHHHHHHc----------CCCCCCCCCCccceEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEEEEECC
Confidence            6777777764          34456678888877653   2234678999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      ++.+++.+..|+..+.......+.|+++|+||+|+.+  .+..+++.+++.    ...+.+++++||++|.|++++|++|
T Consensus        86 ~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~----~~~~~~~~~~Sa~~~~gi~~l~~~l  161 (167)
T 1c1y_A           86 AQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLAR----QWCNCAFLESSAKSKINVNEIFYDL  161 (167)
T ss_dssp             CHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHH----HTTSCEEEECBTTTTBSHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHhhCcCCCcEEEEEECccccccccCCHHHHHHHHH----HccCCcEEEecCCCCCCHHHHHHHH
Confidence            9999999999988887753336899999999999965  455667776665    1226899999999999999999999


Q ss_pred             HHHHH
Q 029517          169 VEVME  173 (192)
Q Consensus       169 ~~~i~  173 (192)
                      .+.+.
T Consensus       162 ~~~i~  166 (167)
T 1c1y_A          162 VRQIN  166 (167)
T ss_dssp             HHHHT
T ss_pred             HHHHh
Confidence            98764

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=99.92  E-value=6.4e-25  Score=163.60  Aligned_cols=147  Identities=18%  Similarity=0.245  Sum_probs=119.4

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|+    .      +.+...+.||++..+..   ++...+.+.+|||+|++++...+..+++++|++|+|||++
T Consensus        40 KSsL~~~l~----~------~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~  109 (214)
T 3q3j_B           40 KTAMLQVLA----K------DCYPETYVPTVFENYTACLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDIS  109 (214)
T ss_dssp             HHHHHHHHH----H------SCCCSSCCCCSEEEEEEEEEC--CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETT
T ss_pred             HHHHHHHHh----c------CCCCCCcCCeeeeeEEEEEEECCEEEEEEEEECCCCHhHHHHHHHHcCCCeEEEEEEECc
Confidence            555555554    4      45677889999988763   3345689999999999999999999999999999999999


Q ss_pred             CcccHHH-HHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--------------CCCHHHHHhHcCccccCCcce-EEEEee
Q 029517           91 CPSRFED-SKTALEKVLRNEDLQGAPLLILANKQDLPD--------------AVSADELARYLDLKKLDERVC-MFEAVS  154 (192)
Q Consensus        91 ~~~s~~~-~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--------------~~~~~~~~~~~~~~~~~~~~~-~~~~~S  154 (192)
                      ++.+++. +..|+..+....  .+.|+++|+||+|+.+              .+..+++.+++.     ..++ +++++|
T Consensus       110 ~~~s~~~~~~~~~~~i~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~-----~~~~~~~~e~S  182 (214)
T 3q3j_B          110 RPETVDSALKKWRTEILDYC--PSTRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAK-----QLGAEIYLEGS  182 (214)
T ss_dssp             CTHHHHHHHTHHHHHHHHHC--TTSEEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHH-----HHTCSEEEECC
T ss_pred             CHHHHHHHHHHHHHHHHHhC--CCCCEEEEEEChhhccchhhhhhhcccccCccCHHHHHHHHH-----HcCCCEEEEec
Confidence            9999998 688988887764  5799999999999963              467777777776     4566 999999


Q ss_pred             ecCCCC-HHHHHHHHHHHHHhcch
Q 029517          155 GYDGFG-IKESVEWLVEVMERSKR  177 (192)
Q Consensus       155 a~~~~g-i~e~~~~i~~~i~~~~~  177 (192)
                      |++|.| |+++|++|.+.+.....
T Consensus       183 A~~g~g~v~~lf~~l~~~~~~~~~  206 (214)
T 3q3j_B          183 AFTSEKSIHSIFRTASMLCLNKPS  206 (214)
T ss_dssp             TTTCHHHHHHHHHHHHHHHHC---
T ss_pred             cCCCcccHHHHHHHHHHHHhccCc
Confidence            999998 99999999998876553

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=99.92  E-value=1.1e-24  Score=158.84  Aligned_cols=146  Identities=23%  Similarity=0.360  Sum_probs=114.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEec--CEEEEEEeCCCCcccH-HHHHHhhhcCCEEEEEEe
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEVS--NSKLVFWDLGGQPGLR-SIWEKYYEEAHAVVFVID   88 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~~--~~~~~i~D~~G~~~~~-~~~~~~~~~~d~ii~v~D   88 (192)
                      |||++|+|++          +.+...+.||++.++..  +...  .+.+.+|||||++++. ..+..+++++|++|+|+|
T Consensus        33 KSsli~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~d~iilv~D  102 (189)
T 1z06_A           33 KTCLTYRFCA----------GRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYD  102 (189)
T ss_dssp             HHHHHHHHHH----------SSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEEEEEE
T ss_pred             HHHHHHHHHc----------CCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCchhhhhhhhHHHhcCCCEEEEEEE
Confidence            6666666654          34455667888866543  3333  4789999999999998 788999999999999999


Q ss_pred             CCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCC---CCHHH
Q 029517           89 AACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDG---FGIKE  163 (192)
Q Consensus        89 ~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~---~gi~e  163 (192)
                      ++++.+++.+..|+..+.......+.|+++|+||+|+.+  .+..+++.+++.     ..+++++++||++|   .||++
T Consensus       103 ~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~~~~~~~i~~  177 (189)
T 1z06_A          103 MTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFAD-----THSMPLFETSAKNPNDNDHVEA  177 (189)
T ss_dssp             TTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHH-----HTTCCEEECCSSSGGGGSCHHH
T ss_pred             CcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceeCHHHHHHHHH-----HcCCEEEEEeCCcCCcccCHHH
Confidence            999999999999999988765446899999999999965  456667766665     44678999999999   99999


Q ss_pred             HHHHHHHHHHh
Q 029517          164 SVEWLVEVMER  174 (192)
Q Consensus       164 ~~~~i~~~i~~  174 (192)
                      +|++|.+.+.+
T Consensus       178 l~~~l~~~i~~  188 (189)
T 1z06_A          178 IFMTLAHKLKS  188 (189)
T ss_dssp             HHHHHC-----
T ss_pred             HHHHHHHHHhh
Confidence            99999887643

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=99.92  E-value=9.2e-25  Score=156.11  Aligned_cols=117  Identities=17%  Similarity=0.218  Sum_probs=96.2

Q ss_pred             cCEEEEEEeCCCCcccHH-HHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCC
Q 029517           54 SNSKLVFWDLGGQPGLRS-IWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVS  130 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~-~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~  130 (192)
                      ..+.+.+||+||++.+.. .+..+++.+|++++|+|++++++++.+..|+..+.......++|+++|+||+|+.+  .+.
T Consensus        49 ~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~  128 (169)
T 3q85_A           49 EEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVS  128 (169)
T ss_dssp             EEEEEEEECCCCC--------CHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCGGGCCSC
T ss_pred             eEEEEEEEECCCccccchhhhhhhhccCCEEEEEEECCChHHHHHHHHHHHHHHhcccCCCCCEEEEeeCcchhhcccCC
Confidence            457899999999998876 67778899999999999999999999999999998865445899999999999974  667


Q ss_pred             HHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          131 ADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                      .+++.+++.     ..+++++++||++|.|++++|+++.+.+...
T Consensus       129 ~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~l~~~l~~~i~~~  168 (169)
T 3q85_A          129 LEEGRHLAG-----TLSCKHIETSAALHHNTRELFEGAVRQIRLR  168 (169)
T ss_dssp             HHHHHHHHH-----HTTCEEEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHH-----HcCCcEEEecCccCCCHHHHHHHHHHHHHhc
Confidence            777777776     5577999999999999999999999987654

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.92  E-value=5.7e-25  Score=160.77  Aligned_cols=148  Identities=18%  Similarity=0.269  Sum_probs=120.4

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE----EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEe
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVID   88 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D   88 (192)
                      =|||++|+|++.          .+...+.||.|.++..    +....+.+.+|||||++.+...+..+++++|++++|+|
T Consensus        35 GKSsli~~l~~~----------~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d  104 (191)
T 3dz8_A           35 GKTSFLFRYADD----------TFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYD  104 (191)
T ss_dssp             SHHHHHHHHHHH----------TTCCCEEEEETTTEEEEEEEETTTTEEEEEECHHHHHHCHHHHHHHHTTCCEEEEEEE
T ss_pred             CHHHHHHHHhcC----------CCCcccCCCeeeEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHccCCEEEEEEE
Confidence            377777777654          3345566777755543    23457899999999999999999999999999999999


Q ss_pred             CCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHH
Q 029517           89 AACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVE  166 (192)
Q Consensus        89 ~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~  166 (192)
                      ++++.+++.+..|+..+..... .+.|+++|+||+|+.+  .+..+++..++.     ..+++++++||++|.||+++|+
T Consensus       105 ~~~~~s~~~~~~~~~~i~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l~~  178 (191)
T 3dz8_A          105 ITNEESFNAVQDWATQIKTYSW-DNAQVILVGNKCDMEEERVVPTEKGQLLAE-----QLGFDFFEASAKENISVRQAFE  178 (191)
T ss_dssp             TTCHHHHHTHHHHHHHHHHHSC-TTCEEEEEEECTTCGGGCCSCHHHHHHHHH-----HHTCEEEECBTTTTBSHHHHHH
T ss_pred             CcCHHHHHHHHHHHHHHHHhcC-CCCCEEEEEECCCCccccccCHHHHHHHHH-----HcCCeEEEEECCCCCCHHHHHH
Confidence            9999999999999998877532 5799999999999865  456666766665     4567999999999999999999


Q ss_pred             HHHHHHHhcc
Q 029517          167 WLVEVMERSK  176 (192)
Q Consensus       167 ~i~~~i~~~~  176 (192)
                      +|.+.+.+..
T Consensus       179 ~l~~~i~~~~  188 (191)
T 3dz8_A          179 RLVDAICDKM  188 (191)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHhc
Confidence            9999887654

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=99.91  E-value=5.6e-24  Score=154.18  Aligned_cols=148  Identities=17%  Similarity=0.235  Sum_probs=121.0

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE-EEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR-IEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~-~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|++          +.+...+.||.+..+.. +..  ..+.+.+|||||++++...+..+++.+|++++|+|++
T Consensus        31 KSsli~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~  100 (187)
T 2a9k_A           31 KSALTLQFMY----------DEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSIT  100 (187)
T ss_dssp             HHHHHHHHHH----------SCCCCSCCTTCCEEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETT
T ss_pred             HHHHHHHHhh----------CCCCCcCCCccceEEEEEEEECCEEEEEEEEECCCCcccHHHHHHHhccCCEEEEEEECc
Confidence            6666666654          33556678888877653 333  3468999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      ++.+++.+..|+..+.......++|+++|+||+|+.+  .+..+++.+++.     ..+++++++||++|.||+++|++|
T Consensus       101 ~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l~~~l  175 (187)
T 2a9k_A          101 EMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAE-----QWNVNYVETSAKTRANVDKVFFDL  175 (187)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCCTTCCEEEEEECGGGGGGCCSCHHHHHHHHH-----HTTCEEEECCTTTCTTHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHH-----HcCCeEEEeCCCCCCCHHHHHHHH
Confidence            9999999999999888765445799999999999865  466677777775     456799999999999999999999


Q ss_pred             HHHHHhcc
Q 029517          169 VEVMERSK  176 (192)
Q Consensus       169 ~~~i~~~~  176 (192)
                      .+.+.+.+
T Consensus       176 ~~~i~~~~  183 (187)
T 2a9k_A          176 MREIRARK  183 (187)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHhh
Confidence            99886543

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=99.91  E-value=7.3e-24  Score=153.76  Aligned_cols=148  Identities=24%  Similarity=0.344  Sum_probs=120.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEec--CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEVS--NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++          +.+...+.||++.++..  +...  .+.+.+|||||++.+...+..+++++|++|+|+|+
T Consensus        23 KSsli~~l~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~   92 (186)
T 2bme_A           23 KSCLLHQFIE----------KKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDI   92 (186)
T ss_dssp             HHHHHHHHHH----------SSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEEEEEEET
T ss_pred             HHHHHHHHHc----------CCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHHhcCCEEEEEEEC
Confidence            6777666653          34455678888876643  3333  37899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+..... .+.|+++|+||+|+..  .+..+++.+++.     ..+++++++||++|.||+++|++
T Consensus        93 ~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l~~~  166 (186)
T 2bme_A           93 TSRETYNALTNWLTDARMLAS-QNIVIILCGNKKDLDADREVTFLEASRFAQ-----ENELMFLETSALTGENVEEAFVQ  166 (186)
T ss_dssp             TCHHHHHTHHHHHHHHHHHSC-TTCEEEEEEECGGGGGGCCSCHHHHHHHHH-----HTTCEEEECCTTTCTTHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHHhcC-CCCcEEEEEECcccccccccCHHHHHHHHH-----HcCCEEEEecCCCCCCHHHHHHH
Confidence            999999999999988776533 5789999999999964  566677777665     45689999999999999999999


Q ss_pred             HHHHHHhcch
Q 029517          168 LVEVMERSKR  177 (192)
Q Consensus       168 i~~~i~~~~~  177 (192)
                      +.+.+.+...
T Consensus       167 l~~~~~~~~~  176 (186)
T 2bme_A          167 CARKILNKIE  176 (186)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhh
Confidence            9998876543

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.91  E-value=1.3e-24  Score=160.23  Aligned_cols=152  Identities=17%  Similarity=0.182  Sum_probs=96.2

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE--EEEec----CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEE
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG--RIEVS----NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFV   86 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~--~~~~~----~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   86 (192)
                      =|||++|+|++.-.        .+...+.||+|.++.  .+...    .+.+.+|||||++.+...+..+++++|++|+|
T Consensus        32 GKssli~~l~~~~~--------~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v  103 (208)
T 2yc2_C           32 GKSALISMFTSKGS--------KFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDLYKEQISQYWNGVYYAILV  103 (208)
T ss_dssp             -------------------------------------CEEEECTTSSEEEEEEEEETTTTHHHHHHHSTTCCCCCEEEEE
T ss_pred             CHHHHHHHHHhCCC--------cccCCCCCccceEEEEEEEEECCcccEEEEEEEECCCcHHHHHHHHHHHhhCcEEEEE
Confidence            47888888875411        234566788885443  34443    57899999999999999999999999999999


Q ss_pred             EeCCCcccHHHHHHHHHHHHhCCC--CCCCcEEEEEeCCCCCC---CCCHHHHHhHcCccccCCcceEEEEeeecC-CCC
Q 029517           87 IDAACPSRFEDSKTALEKVLRNED--LQGAPLLILANKQDLPD---AVSADELARYLDLKKLDERVCMFEAVSGYD-GFG  160 (192)
Q Consensus        87 ~D~~~~~s~~~~~~~~~~i~~~~~--~~~~piiiv~nK~Dl~~---~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~-~~g  160 (192)
                      +|++++.+++.+..|+..+.....  ..++|+++|+||+|+..   .+..+++.+++.     ..+++++++||++ |.|
T Consensus       104 ~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~~~~g  178 (208)
T 2yc2_C          104 FDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQRHQVRLDMAQDWAT-----TNTLDFFDVSANPPGKD  178 (208)
T ss_dssp             EETTCHHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC-------CCCHHHHHHHHH-----HTTCEEEECCC------
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhcccccCCcEEEEEECcccchhhccCCHHHHHHHHH-----HcCCEEEEeccCCCCcC
Confidence            999999999999999999887643  24789999999999975   566677777776     4568999999999 999


Q ss_pred             HHHHHHHHHHHHHhcch
Q 029517          161 IKESVEWLVEVMERSKR  177 (192)
Q Consensus       161 i~e~~~~i~~~i~~~~~  177 (192)
                      |+++|++|.+.+.+...
T Consensus       179 i~~l~~~i~~~~~~~~~  195 (208)
T 2yc2_C          179 ADAPFLSIATTFYRNYE  195 (208)
T ss_dssp             -CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            99999999998876543

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=99.91  E-value=7.3e-24  Score=156.09  Aligned_cols=147  Identities=23%  Similarity=0.314  Sum_probs=119.0

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|+    .      +.+...+.||+|.++..  +.  ...+.+.+|||||++++...+..+++++|++|+|+|+
T Consensus        21 KSsli~~l~----~------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~   90 (203)
T 1zbd_A           21 KTSFLFRYA----D------DSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTITTAYYRGAMGFILMYDI   90 (203)
T ss_dssp             HHHHHHHHH----T------CCCCSCCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTGGGCSEEEEEEET
T ss_pred             HHHHHHHHh----c------CCCCCCcCCccceeEEEEEEEECCeEEEEEEEECCCchhhcchHHHhhcCCCEEEEEEEC
Confidence            566666554    3      44556678888877653  32  2357899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+.... ..+.|+++|+||+|+.+  .+..+++.+++.     ..+++++++||++|.||+++|++
T Consensus        91 ~~~~s~~~~~~~~~~i~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l~~~  164 (203)
T 1zbd_A           91 TNEESFNAVQDWSTQIKTYS-WDNAQVLLVGNKCDMEDERVVSSERGRQLAD-----HLGFEFFEASAKDNINVKQTFER  164 (203)
T ss_dssp             TCHHHHHHHHHHHHHHHHHS-CSSCEEEEEEECTTCTTSCCSCHHHHHHHHH-----HHTCEEEECBTTTTBSSHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHHhc-CCCCCEEEEEECcccCcccccCHHHHHHHHH-----HCCCeEEEEECCCCCCHHHHHHH
Confidence            99999999999998887653 24789999999999976  455666766665     44679999999999999999999


Q ss_pred             HHHHHHhcc
Q 029517          168 LVEVMERSK  176 (192)
Q Consensus       168 i~~~i~~~~  176 (192)
                      |.+.+.+..
T Consensus       165 l~~~i~~~~  173 (203)
T 1zbd_A          165 LVDVICEKM  173 (203)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999876543

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.91  E-value=4.9e-24  Score=168.59  Aligned_cols=136  Identities=32%  Similarity=0.698  Sum_probs=115.3

Q ss_pred             CCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEE
Q 029517           40 IVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLIL  119 (192)
Q Consensus        40 ~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv  119 (192)
                      ..||++..+..+....+.+.||||||++.+...+..+++.+|++|+|||+++..+++.+..|+..+.......++|+++|
T Consensus       193 ~~pT~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~vilV~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilV  272 (329)
T 3o47_A          193 TIPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVF  272 (329)
T ss_dssp             EEEETTEEEEEEEETTEEEEEEECC-----CCSHHHHHTTEEEEEEEEETTCSSSHHHHHHHHHHHHTCGGGTTCEEEEE
T ss_pred             cccccceEEEEEecCcEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCchHHHHHHHHHHHHHHhhhccCCCeEEEE
Confidence            35899999999999999999999999999999999999999999999999999999999999988877654468999999


Q ss_pred             EeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          120 ANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       120 ~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                      +||+|+.+....+++...+........+++++++||++|.||+++|++|.+.+.+.
T Consensus       273 ~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~vSAk~g~gi~el~~~l~~~l~~~  328 (329)
T 3o47_A          273 ANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLRNQ  328 (329)
T ss_dssp             EECTTSTTCCCHHHHHHHHTCTTCCSSCEEEEECBTTTTBTHHHHHHHHHHHHTC-
T ss_pred             EECccCCcccCHHHHHHHhchhhhhcCCCEEEEEECCCCcCHHHHHHHHHHHHHhc
Confidence            99999998777788877777555556788999999999999999999999987643

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=99.91  E-value=4.3e-24  Score=157.76  Aligned_cols=151  Identities=22%  Similarity=0.354  Sum_probs=121.6

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++          +.+...+.||++.++..  +..  ..+.+.+|||||++++...+..+++.+|++|+|+|+
T Consensus        21 KSsli~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~vilv~d~   90 (206)
T 2bcg_Y           21 KSCLLLRFSD----------DTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDV   90 (206)
T ss_dssp             HHHHHHHHHH----------CCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSEEEEEEET
T ss_pred             HHHHHHHHhc----------CCCCCCCCCcccceeEEEEEEECCEEEEEEEEeCCChHHHHHHHHHhccCCCEEEEEEEC
Confidence            6666666644          34556678888877653  333  347899999999999988888999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+..... .+.|+++|+||+|+.+  .+..+++.+++.     ..+++++++||++|.||+++|++
T Consensus        91 ~~~~s~~~~~~~~~~i~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~g~gi~~l~~~  164 (206)
T 2bcg_Y           91 TDQESFNGVKMWLQEIDRYAT-STVLKLLVGNKCDLKDKRVVEYDVAKEFAD-----ANKMPFLETSALDSTNVEDAFLT  164 (206)
T ss_dssp             TCHHHHHHHHHHHHHHHHHSC-TTCEEEEEEECTTCTTTCCSCHHHHHHHHH-----HTTCCEEECCTTTCTTHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHHhcC-CCCCEEEEEECCCCccccccCHHHHHHHHH-----HcCCeEEEEeCCCCCCHHHHHHH
Confidence            999999999999988876542 4789999999999976  456667776665     44678999999999999999999


Q ss_pred             HHHHHHhcchhhh
Q 029517          168 LVEVMERSKRTEM  180 (192)
Q Consensus       168 i~~~i~~~~~~~~  180 (192)
                      |.+.+.+....+.
T Consensus       165 l~~~i~~~~~~~~  177 (206)
T 2bcg_Y          165 MARQIKESMSQQN  177 (206)
T ss_dssp             HHHHHHHHCCHHH
T ss_pred             HHHHHHHHHhhcc
Confidence            9998887654443

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=99.91  E-value=2.6e-24  Score=160.14  Aligned_cols=149  Identities=19%  Similarity=0.353  Sum_probs=119.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEe--c----------CEEEEEEeCCCCcccHHHHHHhhhc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEV--S----------NSKLVFWDLGGQPGLRSIWEKYYEE   79 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~--~----------~~~~~i~D~~G~~~~~~~~~~~~~~   79 (192)
                      |||++|+|+    .      +.+...+.||++.++..  +..  .          .+.+.+|||||++++...+..+++.
T Consensus        38 KSsLi~~l~----~------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~  107 (217)
T 2f7s_A           38 KTTFLYRYT----D------NKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTTAFFRD  107 (217)
T ss_dssp             HHHHHHHHH----C------SCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHh----c------CCCCcCCCCceeEEEEEEEEEECCccccccccCceeEEEEEEECCCcHhHHhHHHHHhcC
Confidence            566665554    3      44556778898877653  222  2          5789999999999999999999999


Q ss_pred             CCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecC
Q 029517           80 AHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYD  157 (192)
Q Consensus        80 ~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  157 (192)
                      +|++|+|+|++++.+++.+..|+..+.......++|+++|+||+|+..  .+..+++.+++.     ..+++++++||++
T Consensus       108 ~d~iilV~D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~  182 (217)
T 2f7s_A          108 AMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELAD-----KYGIPYFETSAAT  182 (217)
T ss_dssp             CCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHH-----HTTCCEEEEBTTT
T ss_pred             CCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEECCccccccccCHHHHHHHHH-----HCCCcEEEEECCC
Confidence            999999999999999999999988877654435799999999999975  455677777765     4467899999999


Q ss_pred             CCCHHHHHHHHHHHHHhcch
Q 029517          158 GFGIKESVEWLVEVMERSKR  177 (192)
Q Consensus       158 ~~gi~e~~~~i~~~i~~~~~  177 (192)
                      |.||+++|++|.+.+.+...
T Consensus       183 g~gi~~l~~~l~~~i~~~~~  202 (217)
T 2f7s_A          183 GQNVEKAVETLLDLIMKRME  202 (217)
T ss_dssp             TBTHHHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHhh
Confidence            99999999999998876543

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=99.91  E-value=1.9e-24  Score=158.01  Aligned_cols=147  Identities=21%  Similarity=0.312  Sum_probs=115.1

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE--EEEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG--RIEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~--~~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++          +.+...+.||+|.++.  .+..  ..+.+.+|||||++++...+..+++++|++|+|+|+
T Consensus        34 KSsli~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~  103 (191)
T 2a5j_A           34 KSCLLLQFTD----------KRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDI  103 (191)
T ss_dssp             HHHHHHHHHH----------SCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSEEEEEEET
T ss_pred             HHHHHHHHhc----------CCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCchhhhhhHHHHhccCCEEEEEEEC
Confidence            6777666654          3444556777776554  3333  347899999999999988889999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+..... .+.|+++|+||+|+.+  .+..+++.+++.     ..+++++++||++|.||+++|++
T Consensus       104 ~~~~s~~~~~~~l~~i~~~~~-~~~piilv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l~~~  177 (191)
T 2a5j_A          104 TRRETFNHLTSWLEDARQHSS-SNMVIMLIGNKSDLESRRDVKREEGEAFAR-----EHGLIFMETSAKTACNVEEAFIN  177 (191)
T ss_dssp             TCHHHHHTHHHHHHHHHHHSC-TTCEEEEEEECTTCGGGCCSCHHHHHHHHH-----HHTCEEEEECTTTCTTHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhcC-CCCCEEEEEECcccCCccccCHHHHHHHHH-----HcCCEEEEEeCCCCCCHHHHHHH
Confidence            999999999999988876532 5799999999999965  556677777765     45679999999999999999999


Q ss_pred             HHHHHHhcc
Q 029517          168 LVEVMERSK  176 (192)
Q Consensus       168 i~~~i~~~~  176 (192)
                      |.+.+.+..
T Consensus       178 l~~~i~~~~  186 (191)
T 2a5j_A          178 TAKEIYRKI  186 (191)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999887654

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=99.91  E-value=6.2e-24  Score=154.86  Aligned_cols=148  Identities=18%  Similarity=0.262  Sum_probs=108.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE-EEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR-IEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~-~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|++.          .+...+.+|.+..+.. +..  ..+.+.+|||||++++...+..+++.+|++++|+|++
T Consensus        34 KSsli~~l~~~----------~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~  103 (190)
T 3con_A           34 KSALTIQLIQN----------HFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAIN  103 (190)
T ss_dssp             HHHHHHHHHHS----------SCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCC-----------CTTCSEEEEEEETT
T ss_pred             HHHHHHHHHcC----------CCccccCCccceEEEEEEEECCEEEEEEEEECCChHHHHHHHHHhhCcCCEEEEEEECc
Confidence            77777777643          3344567777766542 332  3477999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC-CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD-AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLV  169 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~  169 (192)
                      +..+++.+..|+..+.......+.|+++|+||+|+.. ....+++.++++     ..+++++++||++|.|++++|++|.
T Consensus       104 ~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l~~~l~  178 (190)
T 3con_A          104 NSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPTRTVDTKQAHELAK-----SYGIPFIETSAKTRQGVEDAFYTLV  178 (190)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSCCCSCHHHHHHHHH-----HHTCCEEECCTTTCTTHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCcCCcccCCHHHHHHHHH-----HcCCeEEEEeCCCCCCHHHHHHHHH
Confidence            9999999999988887654335799999999999976 456677777765     4467899999999999999999999


Q ss_pred             HHHHhcc
Q 029517          170 EVMERSK  176 (192)
Q Consensus       170 ~~i~~~~  176 (192)
                      +.+.+.+
T Consensus       179 ~~~~~~~  185 (190)
T 3con_A          179 REIRQYR  185 (190)
T ss_dssp             HHHHHHC
T ss_pred             HHHHHHH
Confidence            9887654

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=99.91  E-value=3.6e-24  Score=154.44  Aligned_cols=150  Identities=21%  Similarity=0.397  Sum_probs=119.2

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE--EEEecC--EEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG--RIEVSN--SKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|+    +      +.+...+.||++.++.  .+...+  +.+.+|||||++.+...+..+++.+|++++|+|+
T Consensus        22 Kssl~~~l~----~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~   91 (181)
T 3tw8_B           22 KSSLLLRFA----D------NTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDV   91 (181)
T ss_dssp             HHHHHHHHC----S------CC---CCTTTBSEEEEEEEEEETTEEEEEEEEEETTGGGCSSCCGGGGTTCSEEEEEEET
T ss_pred             HHHHHHHHh----c------CCCCCccCCCceeEEEEEEEEECCEEEEEEEEcCCCchhhhhhHHHHhccCCEEEEEEEC
Confidence            566665554    3      4445667888887665  344444  7899999999999988888999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+....  .+.|+++|+||+|+.+  ....++..+++.     ..+++++++||++|.|++++|++
T Consensus        92 ~~~~s~~~~~~~~~~~~~~~--~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l~~~  164 (181)
T 3tw8_B           92 TSAESFVNVKRWLHEINQNC--DDVCRILVGNKNDDPERKVVETEDAYKFAG-----QMGIQLFETSAKENVNVEEMFNC  164 (181)
T ss_dssp             TCHHHHHHHHHHHHHHHHHC--TTSEEEEEEECTTCGGGCCSCHHHHHHHHH-----HHTCCEEECBTTTTBSHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhC--CCCCEEEEEECCCCchhcccCHHHHHHHHH-----HcCCeEEEEECCCCCCHHHHHHH
Confidence            99999999999999987754  4799999999999875  455666666665     45678999999999999999999


Q ss_pred             HHHHHHhcchhhh
Q 029517          168 LVEVMERSKRTEM  180 (192)
Q Consensus       168 i~~~i~~~~~~~~  180 (192)
                      |.+.+.+.++.+.
T Consensus       165 l~~~~~~~~~~~~  177 (181)
T 3tw8_B          165 ITELVLRAKKDNL  177 (181)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHhhhhh
Confidence            9998887665443

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=99.91  E-value=2.6e-24  Score=157.50  Aligned_cols=137  Identities=20%  Similarity=0.274  Sum_probs=113.1

Q ss_pred             CCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHH-HHHHHHHHhCC
Q 029517           34 GLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDS-KTALEKVLRNE  109 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~-~~~~~~i~~~~  109 (192)
                      +.+...+.||++..+..   +++..+.+.+|||||++++...+..+++++|++++|+|++++.+++.+ ..|+..+....
T Consensus        46 ~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~  125 (194)
T 3reg_A           46 GEIPTAYVPTVFENFSHVMKYKNEEFILHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYI  125 (194)
T ss_dssp             SCCCSSCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHC
T ss_pred             CCCCCccCCeeeeeeEEEEEECCEEEEEEEEECCCcHHHHHHhHhhccCCcEEEEEEECCCHHHHHHHHHHHHHHHHHhC
Confidence            44667788999988764   223457889999999999999999999999999999999999999997 67777776553


Q ss_pred             CCCCCcEEEEEeCCCCCC----CCCHHHHHhHcCccccCCcceE-EEEeeecCCCCHHHHHHHHHHHHHhcch
Q 029517          110 DLQGAPLLILANKQDLPD----AVSADELARYLDLKKLDERVCM-FEAVSGYDGFGIKESVEWLVEVMERSKR  177 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~----~~~~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~gi~e~~~~i~~~i~~~~~  177 (192)
                        .+.|+++|+||+|+.+    .+..+++.+++.     ..++. ++++||++|.||+++|++|.+.+.+.+.
T Consensus       126 --~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~~  191 (194)
T 3reg_A          126 --DTAKTVLVGLKVDLRKDGSDDVTKQEGDDLCQ-----KLGCVAYIEASSVAKIGLNEVFEKSVDCIFSNKP  191 (194)
T ss_dssp             --TTSEEEEEEECGGGCCTTTTCCCHHHHHHHHH-----HHTCSCEEECBTTTTBSHHHHHHHHHHHHHCSCC
T ss_pred             --CCCCEEEEEEChhhccCCCCcccHHHHHHHHH-----hcCCCEEEEeecCCCCCHHHHHHHHHHHHHhcCC
Confidence              5799999999999864    466777777776     44555 9999999999999999999998876653

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=99.91  E-value=6.9e-24  Score=155.06  Aligned_cols=147  Identities=16%  Similarity=0.275  Sum_probs=119.5

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++          +.+...+.+|+|.++..  +.  ...+.+.+|||||++++...+..+++++|++|+|+|+
T Consensus        38 KSsLi~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vi~v~D~  107 (193)
T 2oil_A           38 KTNLLSRFTR----------NEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAYYRGAVGALLVFDL  107 (193)
T ss_dssp             HHHHHHHHHH----------SCCCSSCCCCSSEEEEEEEEEETTEEEEEEEEEESCCCTTCTTHHHHHTTCCEEEEEEET
T ss_pred             HHHHHHHHhc----------CCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhccCCEEEEEEEC
Confidence            6666666654          33455678888877653  22  2467899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+..... .+.|+++|+||+|+..  .+..+++.+++.     ..+++++++||++|.||+++|++
T Consensus       108 ~~~~s~~~~~~~l~~i~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l~~~  181 (193)
T 2oil_A          108 TKHQTYAVVERWLKELYDHAE-ATIVVMLVGNKSDLSQAREVPTEEARMFAE-----NNGLLFLETSALDSTNVELAFET  181 (193)
T ss_dssp             TCHHHHHTHHHHHHHHHTTSC-TTCEEEEEEECGGGGGGCCSCHHHHHHHHH-----HTTCEEEEECTTTCTTHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhcC-CCCeEEEEEECCCcccccccCHHHHHHHHH-----HcCCEEEEEeCCCCCCHHHHHHH
Confidence            999999999999988876532 5789999999999965  456677777765     45679999999999999999999


Q ss_pred             HHHHHHhcc
Q 029517          168 LVEVMERSK  176 (192)
Q Consensus       168 i~~~i~~~~  176 (192)
                      |.+.+.+..
T Consensus       182 l~~~i~~~~  190 (193)
T 2oil_A          182 VLKEIFAKV  190 (193)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            999887643

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=99.91  E-value=1.6e-23  Score=151.04  Aligned_cols=145  Identities=13%  Similarity=0.204  Sum_probs=110.2

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE-EE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR-IE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~-~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|++          +.+.. +.||++..+.. +.  +..+.+++|||||+++     ..+++++|++++|||++
T Consensus        20 KTsli~~l~~----------~~~~~-~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~-----~~~~~~~d~~ilv~D~~   83 (178)
T 2iwr_A           20 KSSLIHRFLT----------GSYQV-LEKTESEQYKKEMLVDGQTHLVLIREEAGAPD-----AKFSGWADAVIFVFSLE   83 (178)
T ss_dssp             HHHHHHHHHH----------SCCCC-CSSCSSSEEEEEEEETTEEEEEEEEECSSSCC-----HHHHHHCSEEEEEEETT
T ss_pred             HHHHHHHHHh----------CCCCC-cCCCcceeEEEEEEECCEEEEEEEEECCCCch-----hHHHHhCCEEEEEEECc
Confidence            6777666654          23333 67888876543 33  3357899999999987     35788999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCC--CCCCCcEEEEEeCCCCC----CCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNE--DLQGAPLLILANKQDLP----DAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKES  164 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~--~~~~~piiiv~nK~Dl~----~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~  164 (192)
                      ++.+++.+..|+..+....  ...++|+++|+||+|+.    ..+..+++.+++.    ...+++++++||++|.||+++
T Consensus        84 ~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~----~~~~~~~~~~Sa~~~~~i~~l  159 (178)
T 2iwr_A           84 DENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALXA----DMKRCSYYETXATYGLNVDRV  159 (178)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCSSSCCCEEEEEEECTTCBTTBCCCSCHHHHHHHHH----HHSSEEEEEEBTTTTBTHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccccCcCCHHHHHHHHH----hhcCCeEEEEeccccCCHHHH
Confidence            9999999999765554431  12478999999999993    2566777777665    123689999999999999999


Q ss_pred             HHHHHHHHHhcchh
Q 029517          165 VEWLVEVMERSKRT  178 (192)
Q Consensus       165 ~~~i~~~i~~~~~~  178 (192)
                      |++|.+.+.+..+.
T Consensus       160 f~~l~~~~~~~~~~  173 (178)
T 2iwr_A          160 FQEVAQKVVTLRKQ  173 (178)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999988776543

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=99.91  E-value=9.7e-25  Score=155.90  Aligned_cols=147  Identities=22%  Similarity=0.342  Sum_probs=113.1

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++          +.+...+.||++.++..  +..  ..+.+.+||+||++.+...+..+++++|++++|+|+
T Consensus        16 Kssli~~l~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~   85 (170)
T 1g16_A           16 KSCLLVRFVE----------DKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDI   85 (170)
T ss_dssp             HHHHHHHHHH----------CCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEEEET
T ss_pred             HHHHHHHHHh----------CCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCChhhhhhHHHHhccCCEEEEEEEC
Confidence            6777777764          33445677888866543  333  357899999999999888888999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC-CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD-AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      +++.+++.+..|+..+..... .+.|+++|+||+|+.. ....+++.+++.     ..+++++++||++|.|++++|++|
T Consensus        86 ~~~~s~~~~~~~~~~i~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gv~~l~~~l  159 (170)
T 1g16_A           86 TDERTFTNIKQWFKTVNEHAN-DEAQLLLVGNKSDMETRVVTADQGEALAK-----ELGIPFIESSAKNDDNVNEIFFTL  159 (170)
T ss_dssp             TCHHHHHTHHHHHHHHHHHSC-TTCEEEEEEECTTCTTCCSCHHHHHHHHH-----HHTCCEEECBTTTTBSHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhcC-CCCcEEEEEECccCCcCccCHHHHHHHHH-----HcCCeEEEEECCCCCCHHHHHHHH
Confidence            999999999999988877542 4789999999999955 456666666665     446789999999999999999999


Q ss_pred             HHHHHhcc
Q 029517          169 VEVMERSK  176 (192)
Q Consensus       169 ~~~i~~~~  176 (192)
                      .+.+.+..
T Consensus       160 ~~~~~~~~  167 (170)
T 1g16_A          160 AKLIQEKI  167 (170)
T ss_dssp             HHHHHHTC
T ss_pred             HHHHHHHh
Confidence            99887643

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=99.91  E-value=1.6e-23  Score=150.76  Aligned_cols=148  Identities=18%  Similarity=0.309  Sum_probs=115.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEec--CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEVS--NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++          +.+...+.||+|.++..  +...  .+.+.+|||||++.+...+..+++.+|++++|+|+
T Consensus        20 KSsli~~l~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~   89 (177)
T 1wms_A           20 KSSLMNRYVT----------NKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSV   89 (177)
T ss_dssp             HHHHHHHHHH----------SCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEEEEEEET
T ss_pred             HHHHHHHHHc----------CCCCCCCCCceeeeEEEEEEEECCEEEEEEEEeCCCchhhhhhHHHHHhcCCEEEEEEEC
Confidence            6777776653          34456778899887653  3333  47999999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCC---CCCCcEEEEEeCCCCCC-CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNED---LQGAPLLILANKQDLPD-AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~---~~~~piiiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      +++.+++.+..|+..+.....   ..+.|+++|+||+|+.. ....+++.+++.    ...+.+++++||++|.|++++|
T Consensus        90 ~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~----~~~~~~~~~~Sa~~~~gi~~l~  165 (177)
T 1wms_A           90 DDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISERQVSTEEAQAWCR----DNGDYPYFETSAKDATNVAAAF  165 (177)
T ss_dssp             TCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSSCSSCHHHHHHHHH----HTTCCCEEECCTTTCTTHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHHHccccccCCCcEEEEEECCcccccccCHHHHHHHHH----hcCCceEEEEeCCCCCCHHHHH
Confidence            999999999989888875422   25789999999999964 566777777764    1346789999999999999999


Q ss_pred             HHHHHHHHhc
Q 029517          166 EWLVEVMERS  175 (192)
Q Consensus       166 ~~i~~~i~~~  175 (192)
                      ++|.+.+.+.
T Consensus       166 ~~l~~~~~~~  175 (177)
T 1wms_A          166 EEAVRRVLAT  175 (177)
T ss_dssp             HHHHHHHHTC
T ss_pred             HHHHHHHHhh
Confidence            9999988654

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.91  E-value=3e-24  Score=157.41  Aligned_cols=148  Identities=18%  Similarity=0.280  Sum_probs=116.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEE---EecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRI---EVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~---~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|++          +.+...+.||++..+...   +...+.+.+|||||++++...+..+++.+|++++|+|++
T Consensus        21 KSsli~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~   90 (199)
T 2gf0_A           21 KSSLVLRFVK----------GTFRDTYIPTIEDTYRQVISCDKSVCTLQITDTTGSHQFPAMQRLSISKGHAFILVFSVT   90 (199)
T ss_dssp             HHHHHHHHHH----------SCCCCTTSCCCCEEEEEEEEETTEEEEEEEEECCGGGSCHHHHHHHHHHCSEEEEEEETT
T ss_pred             HHHHHHHHHc----------CCCCCcccCccccceeEEEEECCEEEEEEEEeCCChHHhHHHHHHhhccCCEEEEEEECc
Confidence            6777777654          344566778888766542   233568999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCC-CCCCcEEEEEeCCCCCC-CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNED-LQGAPLLILANKQDLPD-AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~-~~~~piiiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      ++.+++.+..|+..+..... ..+.|+++|+||+|+.. .+..+++.+++.     ..+++++++||++|.||+++|++|
T Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l~~~l  165 (199)
T 2gf0_A           91 SKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQREVDTREAQAVAQ-----EWKCAFMETSAKMNYNVKELFQEL  165 (199)
T ss_dssp             CHHHHHTTHHHHHHHHHHHSCGGGSCEEEEEECTTCSSCSSCHHHHHHHHH-----HHTCEEEECBTTTTBSHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCCccccCHHHHHHHHH-----HhCCeEEEEecCCCCCHHHHHHHH
Confidence            99999988888777665321 24689999999999976 455666666654     446789999999999999999999


Q ss_pred             HHHHHhcc
Q 029517          169 VEVMERSK  176 (192)
Q Consensus       169 ~~~i~~~~  176 (192)
                      .+.+....
T Consensus       166 ~~~~~~~~  173 (199)
T 2gf0_A          166 LTLETRRN  173 (199)
T ss_dssp             HHHCSSSC
T ss_pred             HHHHhhhh
Confidence            99776543

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.91  E-value=1.1e-23  Score=154.27  Aligned_cols=146  Identities=21%  Similarity=0.345  Sum_probs=112.5

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++          +.+...+.||+|.++..  +..  ..+.+.+|||||++++...+..+++++|++|+|+|+
T Consensus        39 KSsLi~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~iilV~D~  108 (192)
T 2il1_A           39 KTSLMERFTD----------DTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDI  108 (192)
T ss_dssp             HHHHHHHHCC------------------CCTTEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHHHHHHCSEEEEEEET
T ss_pred             HHHHHHHHhc----------CCCCcCCCCccceeEEEEEEEECCeEEEEEEEeCCCcHHHHHHHHHHhcCCCEEEEEEEC
Confidence            6666666643          33445567888876553  333  347899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+..... .++|+++|+||+|+..  .+..+++.+++.    ...+.+++++||++|.||+++|++
T Consensus       109 ~~~~s~~~~~~~~~~i~~~~~-~~~piilV~NK~Dl~~~~~v~~~~~~~~~~----~~~~~~~~~~SA~~g~gi~~l~~~  183 (192)
T 2il1_A          109 TKKETFDDLPKWMKMIDKYAS-EDAELLLVGNKLDCETDREITRQQGEKFAQ----QITGMRFCEASAKDNFNVDEIFLK  183 (192)
T ss_dssp             TCHHHHHTHHHHHHHHHHHSC-TTCEEEEEEECGGGGGGCCSCHHHHHHHHH----TSTTCEEEECBTTTTBSHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHHhcC-CCCcEEEEEECcccccccccCHHHHHHHHH----hcCCCeEEEEeCCCCCCHHHHHHH
Confidence            999999999999887766532 4799999999999965  456667766665    123689999999999999999999


Q ss_pred             HHHHHHh
Q 029517          168 LVEVMER  174 (192)
Q Consensus       168 i~~~i~~  174 (192)
                      |.+.+.+
T Consensus       184 l~~~i~~  190 (192)
T 2il1_A          184 LVDDILK  190 (192)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9988764

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=99.91  E-value=2e-24  Score=155.45  Aligned_cols=144  Identities=21%  Similarity=0.365  Sum_probs=116.0

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|+    .      +.+...+.||++.++..  +..  ..+.+.+|||||++++...+..+++++|++++|+|+
T Consensus        27 Kssli~~l~----~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~   96 (179)
T 2y8e_A           27 KTSLITRFM----Y------DSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDI   96 (179)
T ss_dssp             HHHHHHHHH----H------SCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGSHHHHHTCSEEEEEEET
T ss_pred             HHHHHHHHH----c------CCCCCCCCCceeeEEEEEEEEECCeEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEEC
Confidence            566666665    3      44556678888876653  333  347899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+..... .+.|+++|+||+|+.+  .+..++..+++.     ..+++++++||++|.|++++|++
T Consensus        97 ~~~~s~~~~~~~~~~i~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~i~~l~~~  170 (179)
T 2y8e_A           97 TNTNSFHQTSKWIDDVRTERG-SDVIIMLVGNKTDLSDKRQVSTEEGERKAK-----ELNVMFIETSAKAGYNVKQLFRR  170 (179)
T ss_dssp             TCHHHHHTHHHHHHHHHHHHT-TSSEEEEEEECGGGGGGCCSCHHHHHHHHH-----HHTCEEEEEBTTTTBSHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhcC-CCCcEEEEEECCcccccCcCCHHHHHHHHH-----HcCCeEEEEeCCCCCCHHHHHHH
Confidence            999999999999988876432 4789999999999864  455666666665     44679999999999999999999


Q ss_pred             HHHHHH
Q 029517          168 LVEVME  173 (192)
Q Consensus       168 i~~~i~  173 (192)
                      |.+.+.
T Consensus       171 l~~~~~  176 (179)
T 2y8e_A          171 VAAALP  176 (179)
T ss_dssp             HHHTCC
T ss_pred             HHHHHh
Confidence            987654

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=99.91  E-value=1.7e-23  Score=153.12  Aligned_cols=145  Identities=20%  Similarity=0.293  Sum_probs=119.0

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++          +.+...+.||+|..+..  +.  ...+.+.+|||||++++...+..+++.+|++++|+|+
T Consensus        36 KSsli~~l~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~iilV~d~  105 (192)
T 2fg5_A           36 KSSIVCRFVQ----------DHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMYYRGSAAAVIVYDI  105 (192)
T ss_dssp             HHHHHHHHHH----------CCCCTTCCCCSSEEEEEEEEECSSSEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEET
T ss_pred             HHHHHHHHhc----------CCCCCCcCCCcceeEEEEEEEeCCEEEEEEEEcCCCchhhHhhhHHhhccCCEEEEEEeC
Confidence            5666666653          44556778899887654  22  3467899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+..... .++|+++|+||+|+.+  .+..+++.+++.     ..+++++++||++|.||+++|++
T Consensus       106 ~~~~s~~~~~~~~~~i~~~~~-~~~piiiv~NK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l~~~  179 (192)
T 2fg5_A          106 TKQDSFYTLKKWVKELKEHGP-ENIVMAIAGNKCDLSDIREVPLKDAKEYAE-----SIGAIVVETSAKNAINIEELFQG  179 (192)
T ss_dssp             TCTHHHHHHHHHHHHHHHHSC-TTCEEEEEEECGGGGGGCCSCHHHHHHHHH-----TTTCEEEECBTTTTBSHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhCC-CCCcEEEEEECcccccccccCHHHHHHHHH-----HcCCEEEEEeCCCCcCHHHHHHH
Confidence            999999999999998877542 4789999999999974  566778887776     55689999999999999999999


Q ss_pred             HHHHHHh
Q 029517          168 LVEVMER  174 (192)
Q Consensus       168 i~~~i~~  174 (192)
                      |.+.+.+
T Consensus       180 l~~~i~~  186 (192)
T 2fg5_A          180 ISRQIPP  186 (192)
T ss_dssp             HHHTCC-
T ss_pred             HHHHHHh
Confidence            9886644

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=99.91  E-value=6.1e-24  Score=156.31  Aligned_cols=135  Identities=22%  Similarity=0.386  Sum_probs=101.1

Q ss_pred             CCCCCCCCCCcceEEE--EEE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCC
Q 029517           34 GLPPDRIVPTVGLNIG--RIE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNE  109 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~--~~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~  109 (192)
                      +.+...+.||+|.++.  .+.  ...+.+.+|||||++++...+..+++.+|++|+|+|++++.+++.+..|+..+....
T Consensus        51 ~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~  130 (199)
T 2p5s_A           51 NEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAA  130 (199)
T ss_dssp             CCCC----------CEEEEEEETTEEEEEEEEECTTCTTCHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHC
T ss_pred             CCCCccCCCCccceeEEEEEEECCEEEEEEEEECCCCcchhhhHHHHHhhCCEEEEEEECCChHHHHHHHHHHHHHHHhc
Confidence            4455667788886654  233  345789999999999999999999999999999999999999999999988877653


Q ss_pred             CCCCCcEEEEEeCCCCC--------CCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          110 DLQGAPLLILANKQDLP--------DAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      . .++|+++|+||+|+.        ..+..++..+++.     ..+++++++||++|.||+++|++|.+.+.+
T Consensus       131 ~-~~~piilv~NK~Dl~~~~~~~~~~~v~~~~~~~~~~-----~~~~~~~~~SA~~g~gv~el~~~l~~~i~~  197 (199)
T 2p5s_A          131 H-ETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAM-----TYGALFCETSAKDGSNIVEAVLHLAREVKK  197 (199)
T ss_dssp             ----CCEEEEEECGGGHHHHHHTTCCCCCHHHHHHHHH-----HHTCEEEECCTTTCTTHHHHHHHHHHHHTC
T ss_pred             C-CCCCEEEEEECcccccccccccccccCHHHHHHHHH-----HcCCeEEEeeCCCCCCHHHHHHHHHHHHHh
Confidence            2 478999999999985        2455666666665     446799999999999999999999988753

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.91  E-value=8.4e-24  Score=155.14  Aligned_cols=136  Identities=21%  Similarity=0.168  Sum_probs=112.1

Q ss_pred             CCCCCCCCCCcceEEEE-EE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCC
Q 029517           34 GLPPDRIVPTVGLNIGR-IE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNED  110 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~-~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~  110 (192)
                      +.+...+.||++..+.. +.  ...+.+.+|||||++. ...+..+++.+|++++|+|++++++++.+..|+..+.....
T Consensus        51 ~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~-~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~  129 (196)
T 2atv_A           51 KRFIWEYDPTLESTYRHQATIDDEVVSMEILDTAGQED-TIQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKK  129 (196)
T ss_dssp             SCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCCCC-CHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHT
T ss_pred             CCCCcccCCCCCceEEEEEEECCEEEEEEEEECCCCCc-ccchhhhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhhC
Confidence            44566778888877653 33  3357899999999988 67788899999999999999999999999999888877543


Q ss_pred             CCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCC-CHHHHHHHHHHHHHhc
Q 029517          111 LQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGF-GIKESVEWLVEVMERS  175 (192)
Q Consensus       111 ~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~-gi~e~~~~i~~~i~~~  175 (192)
                      ..++|+++|+||+|+..  .+..+++.+++.     ..+++++++||++|. ||+++|++|.+.+.+.
T Consensus       130 ~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~g~~gi~~l~~~l~~~i~~~  192 (196)
T 2atv_A          130 PKNVTLILVGNKADLDHSRQVSTEEGEKLAT-----ELACAFYECSACTGEGNITEIFYELCREVRRR  192 (196)
T ss_dssp             TSCCCEEEEEECGGGGGGCCSCHHHHHHHHH-----HHTSEEEECCTTTCTTCHHHHHHHHHHHHHHH
T ss_pred             CCCCcEEEEEECcccccccccCHHHHHHHHH-----HhCCeEEEECCCcCCcCHHHHHHHHHHHHHhh
Confidence            35899999999999965  566677777665     446799999999999 9999999999988654

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=99.91  E-value=3.7e-24  Score=153.02  Aligned_cols=145  Identities=21%  Similarity=0.265  Sum_probs=111.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++          +.+...+.||++.++..  +.  +..+.+.+|||||++++...+..+++.+|++++|+|+
T Consensus        19 Kssli~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~   88 (170)
T 1z08_A           19 KTSLVLRYCE----------NKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDI   88 (170)
T ss_dssp             HHHHHHHHHH----------CCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEEEEEET
T ss_pred             HHHHHHHHHc----------CCCCcCCCCccceEEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHhccCCEEEEEEEC
Confidence            6777766653          34456678888877653  33  3457899999999999999998899999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+..... .+.|+++|+||+|+.+  .+..+++.+++.     ..+.+++++||++|.|++++|++
T Consensus        89 ~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l~~~  162 (170)
T 1z08_A           89 TDEDSFQKVKNWVKELRKMLG-NEICLCIVGNKIDLEKERHVSIQEAESYAE-----SVGAKHYHTSAKQNKGIEELFLD  162 (170)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHG-GGSEEEEEEECGGGGGGCCSCHHHHHHHHH-----HTTCEEEEEBTTTTBSHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHHhcC-CCCeEEEEEECcccccccccCHHHHHHHHH-----HcCCeEEEecCCCCCCHHHHHHH
Confidence            999999999999888766422 4689999999999965  566677777775     45689999999999999999999


Q ss_pred             HHHHHHh
Q 029517          168 LVEVMER  174 (192)
Q Consensus       168 i~~~i~~  174 (192)
                      |.+.+.+
T Consensus       163 l~~~~~~  169 (170)
T 1z08_A          163 LCKRMIE  169 (170)
T ss_dssp             HHHHHHC
T ss_pred             HHHHHhh
Confidence            9987753

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.91  E-value=7.6e-24  Score=151.10  Aligned_cols=143  Identities=19%  Similarity=0.292  Sum_probs=115.5

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++          +.+...+.||+|..+..  +.  ...+.+.+|||||++.+...+..+++++|++++|+|+
T Consensus        16 Kssli~~l~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~   85 (170)
T 1ek0_A           16 KSSIVLRFVS----------NDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPXYYRNAQAALVVYDV   85 (170)
T ss_dssp             HHHHHHHHHH----------SCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEET
T ss_pred             HHHHHHHHhc----------CCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCChhhhhhhhhhhccCcEEEEEEec
Confidence            6777777654          34455678888876642  33  3457899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC-----CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD-----AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKES  164 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~  164 (192)
                      +++.+++.+..|+..+..... .+.|+++|+||+|+..     .+..++..+++.     ..+++++++||++|.|++++
T Consensus        86 ~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l  159 (170)
T 1ek0_A           86 TKPQSFIKARHWVKELHEQAS-KDIIIALVGNKIDXLQEGGERKVAREEGEKLAE-----EKGLLFFETSAKTGENVNDV  159 (170)
T ss_dssp             TCHHHHHHHHHHHHHHHHHSC-TTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHH-----HHTCEEEECCTTTCTTHHHH
T ss_pred             CChHHHHHHHHHHHHHHHhcC-CCCcEEEEEECCCccccccccCCCHHHHHHHHH-----HcCCEEEEEeCCCCCCHHHH
Confidence            999999999999988877542 5799999999999864     355566666654     44679999999999999999


Q ss_pred             HHHHHHHH
Q 029517          165 VEWLVEVM  172 (192)
Q Consensus       165 ~~~i~~~i  172 (192)
                      |++|.+.+
T Consensus       160 ~~~l~~~i  167 (170)
T 1ek0_A          160 FLGIGEKI  167 (170)
T ss_dssp             HHHHHTTS
T ss_pred             HHHHHHHH
Confidence            99998755

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=99.91  E-value=1.4e-24  Score=160.08  Aligned_cols=149  Identities=22%  Similarity=0.335  Sum_probs=111.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEec--CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEVS--NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++          +.+...+.||++.++..  +...  .+.+.+|||||++.+...+..+++.+|++|+|+|+
T Consensus        38 KSsLi~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~  107 (200)
T 2o52_A           38 KSCLLHQFIE----------NKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDI  107 (200)
T ss_dssp             HHHHHHHHHC----------------------CCEEEEEEEETTEEEEEEEECCTTHHHHSCCCHHHHTTCSEEEEEEET
T ss_pred             HHHHHHHHHh----------CCCCccCCCcccceeEEEEEEECCeeeEEEEEcCCCcHhHHHHHHHHhccCCEEEEEEEC
Confidence            6666666653          23344567777765543  3333  47999999999998888888999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+..... .+.|+++|+||+|+..  .+..+++.+++.     ..+++++++||++|.||+++|++
T Consensus       108 ~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~SA~~g~gi~~l~~~  181 (200)
T 2o52_A          108 TSRETYNSLAAWLTDARTLAS-PNIVVILCGNKKDLDPEREVTFLEASRFAQ-----ENELMFLETSALTGENVEEAFLK  181 (200)
T ss_dssp             TCHHHHHTHHHHHHHHHHHTC-TTCEEEEEEECGGGGGGCCSCHHHHHHHHH-----HTTCEEEEECTTTCTTHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHHhcC-CCCcEEEEEECCCcccccccCHHHHHHHHH-----HcCCEEEEEeCCCCCCHHHHHHH
Confidence            999999999999988876533 5799999999999964  456677777765     45689999999999999999999


Q ss_pred             HHHHHHhcchh
Q 029517          168 LVEVMERSKRT  178 (192)
Q Consensus       168 i~~~i~~~~~~  178 (192)
                      |.+.+.+..+.
T Consensus       182 l~~~i~~~~~~  192 (200)
T 2o52_A          182 CARTILNKIDS  192 (200)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhc
Confidence            99988765433

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=99.91  E-value=4.3e-23  Score=151.34  Aligned_cols=112  Identities=25%  Similarity=0.362  Sum_probs=99.0

Q ss_pred             EEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC-CCCHHHH
Q 029517           56 SKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD-AVSADEL  134 (192)
Q Consensus        56 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~-~~~~~~~  134 (192)
                      +.+.+|||||++.+...+..+++.+|++++|+|++++.+++.+..|+..+....   +.|+++|+||+|+.. ....+++
T Consensus        93 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~---~~piilv~NK~D~~~~~~~~~~~  169 (208)
T 3clv_A           93 IKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISS---NYIIILVANKIDKNKFQVDILEV  169 (208)
T ss_dssp             EEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHS---CCEEEEEEECTTCC-CCSCHHHH
T ss_pred             eEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhC---CCcEEEEEECCCcccccCCHHHH
Confidence            889999999999999999999999999999999999999999999999988763   499999999999433 5677888


Q ss_pred             HhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          135 ARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                      .+++.     ..+++++++||++|.|++++|++|.+.+.+.
T Consensus       170 ~~~~~-----~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  205 (208)
T 3clv_A          170 QKYAQ-----DNNLLFIQTSAKTGTNIKNIFYMLAEEIYKN  205 (208)
T ss_dssp             HHHHH-----HTTCEEEEECTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHH-----HcCCcEEEEecCCCCCHHHHHHHHHHHHHHh
Confidence            88876     4577999999999999999999999887653

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=99.90  E-value=1.2e-23  Score=154.58  Aligned_cols=119  Identities=18%  Similarity=0.221  Sum_probs=100.9

Q ss_pred             ecCEEEEEEeCCCCcccHH-HHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CC
Q 029517           53 VSNSKLVFWDLGGQPGLRS-IWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AV  129 (192)
Q Consensus        53 ~~~~~~~i~D~~G~~~~~~-~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~  129 (192)
                      +..+.+.+|||+|++.+.. .+..+++.+|++|+|||++++.+++.+..|+..+.......+.|+++|+||+|+..  .+
T Consensus        69 ~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v  148 (195)
T 3cbq_A           69 KEEVTLVVYDIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREV  148 (195)
T ss_dssp             TEEEEEEEECCCCCSGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCTTTCCS
T ss_pred             CEEEEEEEEecCCCccchhhhHHHhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeechhccccCCc
Confidence            3457899999999988765 77888999999999999999999999999999888754335799999999999975  46


Q ss_pred             CHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhcc
Q 029517          130 SADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       130 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~~  176 (192)
                      +.+++.+++.     ..+++++++||++|.||+++|++|.+.+...+
T Consensus       149 ~~~~~~~~a~-----~~~~~~~e~Sa~~~~~v~~lf~~l~~~i~~~~  190 (195)
T 3cbq_A          149 SLEEGRHLAG-----TLSCKHIETSAALHHNTRELFEGAVRQIRLRR  190 (195)
T ss_dssp             CHHHHHHHHH-----HTTCEEEEEBTTTTBSHHHHHHHHHHHHHTTC
T ss_pred             CHHHHHHHHH-----HhCCEEEEEcCCCCCCHHHHHHHHHHHHHHhc
Confidence            6777777765     34578999999999999999999999886544

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=99.90  E-value=1.7e-23  Score=149.45  Aligned_cols=144  Identities=21%  Similarity=0.310  Sum_probs=116.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++          +.+...+.||.|..+..  +..  ..+.+.+|||||++++...+..+++++|++++|+|+
T Consensus        19 KSsli~~l~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~   88 (170)
T 1z0j_A           19 KSSIMWRFVE----------DSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDI   88 (170)
T ss_dssp             HHHHHHHHHH----------SCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEET
T ss_pred             HHHHHHHHHc----------CCCCCCCCCceeEEEEEEEEEECCeEEEEEEEcCCCchhhhcccHhhCcCCCEEEEEEEC
Confidence            6777777654          33455678888877653  333  357899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+..... ...|+++|+||+|+.+  .+..++..+++.     ..+.+++++||++|.|++++|++
T Consensus        89 ~~~~s~~~~~~~~~~l~~~~~-~~~~iilv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~~~~i~~l~~~  162 (170)
T 1z0j_A           89 TKEETFSTLKNWVRELRQHGP-PSIVVAIAGNKCDLTDVREVMERDAKDYAD-----SIHAIFVETSAKNAININELFIE  162 (170)
T ss_dssp             TCHHHHHHHHHHHHHHHHHSC-TTSEEEEEEECTTCGGGCCSCHHHHHHHHH-----HTTCEEEECBTTTTBSHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHHhCC-CCCcEEEEEECCccccccccCHHHHHHHHH-----HcCCEEEEEeCCCCcCHHHHHHH
Confidence            999999999999988877532 5789999999999965  455666766665     44689999999999999999999


Q ss_pred             HHHHHH
Q 029517          168 LVEVME  173 (192)
Q Consensus       168 i~~~i~  173 (192)
                      |.+.+.
T Consensus       163 i~~~i~  168 (170)
T 1z0j_A          163 ISRRIP  168 (170)
T ss_dssp             HHHHCC
T ss_pred             HHHHHh
Confidence            988653

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=99.90  E-value=8.2e-24  Score=154.25  Aligned_cols=146  Identities=24%  Similarity=0.341  Sum_probs=117.6

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++          +.+...+.||+|.++..  +.  ...+.+.+|||||++++...+..+++.+|++++|+|+
T Consensus        35 KSsli~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~  104 (189)
T 2gf9_A           35 KTSFLFRYAD----------DSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAYYRGAMGFLLMYDI  104 (189)
T ss_dssp             HHHHHHHHHH----------SCCCCSCCCCCCCEEEEEEEEETTEEEEEEEEECCSCCSSCCSGGGGGTTCSEEEEEEET
T ss_pred             HHHHHHHHHc----------CCCCCCcCCceeEEEEEEEEEECCeEEEEEEEeCCCcHHHhhhHHHhccCCCEEEEEEEC
Confidence            6666666653          34455677888877653  33  2357899999999999988889999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+.... ..+.|+++|+||+|+.+  .+..+++.+++.     ..+++++++||++|.|++++|++
T Consensus       105 ~~~~s~~~~~~~~~~i~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~g~gi~~l~~~  178 (189)
T 2gf9_A          105 ANQESFAAVQDWATQIKTYS-WDNAQVILVGNKCDLEDERVVPAEDGRRLAD-----DLGFEFFEASAKENINVKQVFER  178 (189)
T ss_dssp             TCHHHHHTHHHHHHHHHHHS-CTTCEEEEEEECTTCGGGCCSCHHHHHHHHH-----HHTCEEEECBTTTTBSHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhc-CCCCCEEEEEECcccccccCCCHHHHHHHHH-----HcCCeEEEEECCCCCCHHHHHHH
Confidence            99999999999998887753 24789999999999965  455666766665     44679999999999999999999


Q ss_pred             HHHHHHhc
Q 029517          168 LVEVMERS  175 (192)
Q Consensus       168 i~~~i~~~  175 (192)
                      |.+.+.+.
T Consensus       179 l~~~i~~~  186 (189)
T 2gf9_A          179 LVDVICEK  186 (189)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99987653

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.90  E-value=6.2e-24  Score=151.84  Aligned_cols=146  Identities=19%  Similarity=0.280  Sum_probs=113.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEE---EecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRI---EVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~---~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|++          +.+...+.||++..+...   ....+.+.+|||||++++...+..+++.+|++++|+|++
T Consensus        16 Kssli~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~   85 (172)
T 2erx_A           16 KSSLVLRFVK----------GTFRESYIPTVEDTYRQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSIT   85 (172)
T ss_dssp             HHHHHHHHHT----------CCCCSSCCCCSCEEEEEEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEEEETT
T ss_pred             HHHHHHHHHc----------CCCCCCCCCCccccEEEEEEECCEEEEEEEEECCCchhhHHHHHHhcccCCEEEEEEECc
Confidence            6777766653          445556778888766542   223568999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCC-CCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNE-DLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~-~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      ++.+++.+..|+..+.+.. ...+.|+++|+||+|+..  .+..++...+..     ..+++++++||++|.|++++|++
T Consensus        86 ~~~~~~~~~~~~~~i~~~~~~~~~~pii~v~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l~~~  160 (172)
T 2erx_A           86 SRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALAR-----TWKCAFMETSAKLNHNVKELFQE  160 (172)
T ss_dssp             CHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHH-----HHTCEEEECBTTTTBSHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHhCCCCCCCEEEEEEccccccccccCHHHHHHHHH-----HhCCeEEEecCCCCcCHHHHHHH
Confidence            9999998888887776642 224789999999999864  455556655554     34678999999999999999999


Q ss_pred             HHHHHHh
Q 029517          168 LVEVMER  174 (192)
Q Consensus       168 i~~~i~~  174 (192)
                      |.+.+.+
T Consensus       161 l~~~~~~  167 (172)
T 2erx_A          161 LLNLEKR  167 (172)
T ss_dssp             HHHTCCS
T ss_pred             HHHHHhh
Confidence            9886543

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.90  E-value=8.9e-24  Score=154.58  Aligned_cols=144  Identities=16%  Similarity=0.246  Sum_probs=114.0

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE-EEEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG-RIEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~-~~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|++          +.+...+.||++..+. .+..  ..+.+.+|||||++++...+..+++++|++++|+|++
T Consensus        31 Kssli~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~  100 (194)
T 2atx_A           31 KTCLLMSYAN----------DAFPEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVV  100 (194)
T ss_dssp             HHHHHHHHHH----------SSCCCSCCCSSCCCEEEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSEEEEEEETT
T ss_pred             HHHHHHHHhc----------CCCCCCCCCcccceeEEEEEECCEEEEEEEEECCCCcchhHHHHHhcCCCCEEEEEEECC
Confidence            6666666654          3455677888887664 2333  3478999999999999988999999999999999999


Q ss_pred             CcccHHHHH-HHHHHHHhCCCCCCCcEEEEEeCCCCCC--------------CCCHHHHHhHcCccccCCcce-EEEEee
Q 029517           91 CPSRFEDSK-TALEKVLRNEDLQGAPLLILANKQDLPD--------------AVSADELARYLDLKKLDERVC-MFEAVS  154 (192)
Q Consensus        91 ~~~s~~~~~-~~~~~i~~~~~~~~~piiiv~nK~Dl~~--------------~~~~~~~~~~~~~~~~~~~~~-~~~~~S  154 (192)
                      ++.+++.+. .|+..+....  .+.|+++|+||+|+..              .+..+++.+++.     ..+. +++++|
T Consensus       101 ~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~-----~~~~~~~~~~S  173 (194)
T 2atx_A          101 NPASFQNVKEEWVPELKEYA--PNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAK-----EIGACCYVECS  173 (194)
T ss_dssp             CHHHHHHHHHTHHHHHHHHS--TTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHH-----HHTCSCEEECC
T ss_pred             CHHHHHHHHHHHHHHHHHhC--CCCCEEEEEEChhhcccccchhhcccccCcccCHHHHHHHHH-----HcCCcEEEEee
Confidence            999999987 7888877653  4799999999999965              345556665554     3344 899999


Q ss_pred             ecCCCCHHHHHHHHHHHHHh
Q 029517          155 GYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       155 a~~~~gi~e~~~~i~~~i~~  174 (192)
                      |++|.||+++|++|.+.+..
T Consensus       174 a~~g~gi~~l~~~l~~~i~~  193 (194)
T 2atx_A          174 ALTQKGLKTVFDEAIIAILT  193 (194)
T ss_dssp             TTTCTTHHHHHHHHHHHHHC
T ss_pred             CCCCCCHHHHHHHHHHHHhc
Confidence            99999999999999987753

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.90  E-value=8.4e-24  Score=152.33  Aligned_cols=148  Identities=22%  Similarity=0.278  Sum_probs=115.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE--EEEec---CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEe
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG--RIEVS---NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVID   88 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~--~~~~~---~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D   88 (192)
                      |||++|+|++.          .+...+.||+|.++.  .+...   .+.+.+|||||++.+...+..+++++|++++|+|
T Consensus        19 Kssl~~~l~~~----------~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d   88 (178)
T 2hxs_A           19 KTSLTTCFAQE----------TFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGGKMLDKYIYGAQGVLLVYD   88 (178)
T ss_dssp             HHHHHHHHHGG----------GTTHHHHHTTTSSEEEEEEEETTTEEEEEEEEECTTCCTTCTTHHHHHTTCSEEEEEEE
T ss_pred             HHHHHHHHHhC----------cCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCCccccchhhHHHhhCCEEEEEEE
Confidence            67777777643          233456778875543  44443   3899999999999999999999999999999999


Q ss_pred             CCCcccHHHHHHHHHHHHhCCC-CCCCc-EEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHH
Q 029517           89 AACPSRFEDSKTALEKVLRNED-LQGAP-LLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKES  164 (192)
Q Consensus        89 ~~~~~s~~~~~~~~~~i~~~~~-~~~~p-iiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~  164 (192)
                      ++++.+++.+..|+..+..... ..+.| +++|+||+|+.+  .+..+++.+++.     ..+++++++||++|.||+++
T Consensus        89 ~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l  163 (178)
T 2hxs_A           89 ITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMRTIKPEKHLRFCQ-----ENGFSSHFVSAKTGDSVFLC  163 (178)
T ss_dssp             TTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGGGGGCSSCHHHHHHHHH-----HHTCEEEEECTTTCTTHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEccccccccccCHHHHHHHHH-----HcCCcEEEEeCCCCCCHHHH
Confidence            9999999999899888766311 01345 899999999975  456677777665     44679999999999999999


Q ss_pred             HHHHHHHHHhcc
Q 029517          165 VEWLVEVMERSK  176 (192)
Q Consensus       165 ~~~i~~~i~~~~  176 (192)
                      |++|.+.+.+..
T Consensus       164 ~~~l~~~~~~~~  175 (178)
T 2hxs_A          164 FQKVAAEILGIK  175 (178)
T ss_dssp             HHHHHHHHTTCC
T ss_pred             HHHHHHHHHhhh
Confidence            999999887654

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=99.90  E-value=4.6e-24  Score=155.66  Aligned_cols=145  Identities=21%  Similarity=0.213  Sum_probs=113.1

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|++          +.+...+.||++..+..   ++...+.+++|||||++++... ..+++.+|++++|||++
T Consensus        34 KTsLi~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~-~~~~~~~~~~ilv~d~~  102 (187)
T 3c5c_A           34 KSALTVKFLT----------KRFISEYDPNLEDTYSSEETVDHQPVHLRVMDTADLDTPRNC-ERYLNWAHAFLVVYSVD  102 (187)
T ss_dssp             HHHHHHHHHH----------SSCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCC---CCCT-HHHHTTCSEEEEEEETT
T ss_pred             HHHHHHHHHh----------CCCCcccCCCccceeeEEEEECCEEEEEEEEECCCCCcchhH-HHHHhhCCEEEEEEECC
Confidence            6666666654          34566788999877643   2334678999999999887664 56899999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCC--CCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeee-cCCCCHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNED--LQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSG-YDGFGIKESV  165 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~--~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa-~~~~gi~e~~  165 (192)
                      ++.+++.+..|+..+.....  ..+.|+++|+||+|+..  .+..+++.+++.     ..+++++++|| ++|.||+++|
T Consensus       103 ~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~e~Sa~~~g~gv~~lf  177 (187)
T 3c5c_A          103 SRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYRQVTKAEGVALAG-----RFGCLFFEVSACLDFEHVQHVF  177 (187)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECGGGGGGCSSCHHHHHHHHH-----HHTCEEEECCSSSCSHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHhhccCCCCCEEEEEECcchhhcCccCHHHHHHHHH-----HcCCcEEEEeecCccccHHHHH
Confidence            99999999999988876421  14789999999999964  566777777776     45679999999 8999999999


Q ss_pred             HHHHHHHHh
Q 029517          166 EWLVEVMER  174 (192)
Q Consensus       166 ~~i~~~i~~  174 (192)
                      ++|.+.+.+
T Consensus       178 ~~l~~~i~~  186 (187)
T 3c5c_A          178 HEAVREARR  186 (187)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHhh
Confidence            999987753

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=99.90  E-value=5.7e-23  Score=145.74  Aligned_cols=146  Identities=18%  Similarity=0.239  Sum_probs=117.1

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE-EE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR-IE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~-~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|++.          .+...+.+|.+..+.. +.  ...+.+.+||+||++++...+..+++.+|++++|+|++
T Consensus        16 Kssl~~~l~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~   85 (166)
T 2ce2_X           16 KSALTIQLIQN----------HFVDECDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAIN   85 (166)
T ss_dssp             HHHHHHHHHHS----------SCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCCSSCCHHHHHHHHHCSEEEEEEETT
T ss_pred             HHHHHHHHHhC----------cCccccCCccceEEEEEEEECCEEEEEEEEECCCchhhhHHHHHhhccCCEEEEEEECC
Confidence            77777777643          3344566777765542 32  33578999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC-CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD-AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLV  169 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~  169 (192)
                      +..+++.+..|+..+.......+.|+++|+||+|+.. ....+++.+++.     ..+++++++||++|.|+++++++|.
T Consensus        86 ~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l~~~l~  160 (166)
T 2ce2_X           86 NTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAARTVESRQAQDLAR-----SYGIPYIETSAKTRQGVEDAFYTLV  160 (166)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSCCCSCHHHHHHHHH-----HHTCCEEEECTTTCTTHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEchhhhhcccCHHHHHHHHH-----HcCCeEEEecCCCCCCHHHHHHHHH
Confidence            9999999999998887754335799999999999876 455666666665     4467899999999999999999999


Q ss_pred             HHHHh
Q 029517          170 EVMER  174 (192)
Q Consensus       170 ~~i~~  174 (192)
                      +.+.+
T Consensus       161 ~~~~~  165 (166)
T 2ce2_X          161 REIRQ  165 (166)
T ss_dssp             HHHHT
T ss_pred             HHHHh
Confidence            88754

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.90  E-value=9.4e-24  Score=158.06  Aligned_cols=152  Identities=21%  Similarity=0.349  Sum_probs=111.8

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEec--CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEVS--NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++          +.+...+.||+|.++..  +...  .+.+.+|||||++++...+..+++.+|++|+|+|+
T Consensus        26 KSsli~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vilV~D~   95 (223)
T 3cpj_B           26 KSNLLSRFTK----------NEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQERYRAITSAYYRGAVGALIVYDI   95 (223)
T ss_dssp             HHHHHHHHHH----------CCCCC------CCSEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGTTTCCEEEEEEC-
T ss_pred             HHHHHHHHhc----------CCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCccchhhhHHHHhccCCEEEEEEeC
Confidence            5666666543          34555667888866553  4443  47999999999999988889999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+..... .++|+++|+||+|+..  .+..+++.+++.     ..+++++++||++|.||+++|++
T Consensus        96 ~~~~s~~~~~~~l~~i~~~~~-~~~piilv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l~~~  169 (223)
T 3cpj_B           96 SKSSSYENCNHWLSELRENAD-DNVAVGLIGNKSDLAHLRAVPTEESKTFAQ-----ENQLLFTETSALNSENVDKAFEE  169 (223)
T ss_dssp             CCHHHHHHHHHHHHHHHHHCC---CEEEEEECCGGGGGGCCSCHHHHHHHHH-----HTTCEEEECCCC-CCCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhCC-CCCeEEEEEECcccccccccCHHHHHHHHH-----HcCCEEEEEeCCCCCCHHHHHHH
Confidence            999999999999988876532 5789999999999965  456677777765     45689999999999999999999


Q ss_pred             HHHHHHhcchhhhh
Q 029517          168 LVEVMERSKRTEML  181 (192)
Q Consensus       168 i~~~i~~~~~~~~~  181 (192)
                      |.+.+.+.......
T Consensus       170 l~~~i~~~~~~~~~  183 (223)
T 3cpj_B          170 LINTIYQKVSKHQM  183 (223)
T ss_dssp             HHHHHTTCC-----
T ss_pred             HHHHHHHHhhhccc
Confidence            99998876544443

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.90  E-value=5.9e-24  Score=156.37  Aligned_cols=147  Identities=15%  Similarity=0.220  Sum_probs=111.1

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE-EEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR-IEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~-~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|++.          .+...+.||++..+.. +..  ..+.+.+|||||++++...+..+++++|++++|+|++
T Consensus        33 Kssl~~~l~~~----------~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~  102 (201)
T 2q3h_A           33 KTSLVVSYTTN----------GYPTEYIPTAFDNFSAVVSVDGRPVRLQLCDTAGQDEFDKLRPLCYTNTDIFLLCFSVV  102 (201)
T ss_dssp             HHHHHHHHHC------------------CCSSEEEEEEEEETTEEEEEEEEECCCSTTCSSSGGGGGTTCSEEEEEEETT
T ss_pred             HHHHHHHHHhC----------CCCCCCCCcccceeEEEEEECCEEEEEEEEECCCCHHHHHHhHhhcCCCcEEEEEEECC
Confidence            66766666532          3456678888876653 333  3468899999999999888888999999999999999


Q ss_pred             CcccHHHHH-HHHHHHHhCCCCCCCcEEEEEeCCCCCC--------------CCCHHHHHhHcCccccCCcce-EEEEee
Q 029517           91 CPSRFEDSK-TALEKVLRNEDLQGAPLLILANKQDLPD--------------AVSADELARYLDLKKLDERVC-MFEAVS  154 (192)
Q Consensus        91 ~~~s~~~~~-~~~~~i~~~~~~~~~piiiv~nK~Dl~~--------------~~~~~~~~~~~~~~~~~~~~~-~~~~~S  154 (192)
                      ++.+++.+. .|+..+....  .+.|+++|+||+|+..              .+..+++..++.     ..+. +++++|
T Consensus       103 ~~~s~~~~~~~~~~~~~~~~--~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~-----~~~~~~~~~~S  175 (201)
T 2q3h_A          103 SPSSFQNVSEKWVPEIRCHC--PKAPIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAE-----EIKAASYIECS  175 (201)
T ss_dssp             CHHHHHHHHHTHHHHHHHHC--SSSCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHH-----HHTCSEEEECC
T ss_pred             CHHHHHHHHHHHHHHHHHhC--CCCCEEEEEECHhhhhchhhhhhhcccccccCCHHHHHHHHH-----hcCCcEEEEEe
Confidence            999999987 7888877653  4799999999999863              345556665554     3344 899999


Q ss_pred             ecCCCCHHHHHHHHHHHHHhcch
Q 029517          155 GYDGFGIKESVEWLVEVMERSKR  177 (192)
Q Consensus       155 a~~~~gi~e~~~~i~~~i~~~~~  177 (192)
                      |++|.||+++|++|.+.+.+.+.
T Consensus       176 a~~g~gi~~l~~~l~~~~~~~~~  198 (201)
T 2q3h_A          176 ALTQKNLKEVFDAAIVAGIQYSD  198 (201)
T ss_dssp             TTTCTTHHHHHHHHHHHHHHHHC
T ss_pred             cCCCCCHHHHHHHHHHHHhcccc
Confidence            99999999999999998876543

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=99.90  E-value=7.3e-24  Score=157.71  Aligned_cols=118  Identities=19%  Similarity=0.224  Sum_probs=95.8

Q ss_pred             ecCEEEEEEeCCCCcc-cHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CC
Q 029517           53 VSNSKLVFWDLGGQPG-LRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AV  129 (192)
Q Consensus        53 ~~~~~~~i~D~~G~~~-~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~  129 (192)
                      +..+.+.+|||+|++. +......+++.++++|+|||+++..+|+.+..|...+.......++|+++|+||+|+.+  .+
T Consensus        84 ~~~~~l~~~Dt~g~~~~~~~l~~~~~~~a~~~ilVydvt~~~sf~~~~~~~~~l~~~~~~~~~piilVgNK~DL~~~r~v  163 (211)
T 2g3y_A           84 GESATIILLDMWENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREV  163 (211)
T ss_dssp             TEEEEEEEECCTTTTHHHHHHHHCCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCS
T ss_pred             CeeeEEEEeecCCCcchhhhHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCcEEEEEEChHHhcCceE
Confidence            3456789999999887 45566677889999999999999999999999988877643335799999999999964  45


Q ss_pred             CHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          130 SADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       130 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                      ..++...++.     ..++++++|||++|.||+++|++|.+.+...
T Consensus       164 ~~~e~~~~a~-----~~~~~~~e~SAk~g~~v~elf~~l~~~i~~~  204 (211)
T 2g3y_A          164 SVSEGRACAV-----VFDCKFIETSAAVQHNVKELFEGIVRQVRLR  204 (211)
T ss_dssp             CHHHHHHHHH-----HHTCEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             eHHHHHHHHH-----HcCCEEEEEeCCCCCCHHHHHHHHHHHHHHh
Confidence            6666555554     3457899999999999999999999987543

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.90  E-value=5.4e-24  Score=157.92  Aligned_cols=148  Identities=17%  Similarity=0.239  Sum_probs=114.0

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE-E--EecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR-I--EVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~-~--~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++++|+    .      +.+...+.||++..+.. +  +...+.+.+|||||+++|...+..+++++|++|+|+|++
T Consensus        22 KTsli~~l~----~------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~   91 (212)
T 2j0v_A           22 KTCMLICYT----S------NKFPTDYIPTVFDNFSANVAVDGQIVNLGLWDTAGQEDYSRLRPLSYRGADIFVLAFSLI   91 (212)
T ss_dssp             HHHHHHHHH----H------SCCCSSCCCSSCCCEEEEEECSSCEEEEEEECCCCCCCCCC--CGGGTTCSEEEEEEETT
T ss_pred             HHHHHHHHh----c------CCCCccCCCccceeEEEEEEECCEEEEEEEEECCCcHHHHHHHHhhccCCCEEEEEEECC
Confidence            666666665    3      34566778888876652 2  234579999999999999988989999999999999999


Q ss_pred             CcccHHHHH-HHHHHHHhCCCCCCCcEEEEEeCCCCCCC----------CCHHHHHhHcCccccCCcc-eEEEEeeecCC
Q 029517           91 CPSRFEDSK-TALEKVLRNEDLQGAPLLILANKQDLPDA----------VSADELARYLDLKKLDERV-CMFEAVSGYDG  158 (192)
Q Consensus        91 ~~~s~~~~~-~~~~~i~~~~~~~~~piiiv~nK~Dl~~~----------~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~  158 (192)
                      ++.+++.+. .|+..+....  .+.|+++|+||+|+.+.          +..+++.+++.     ..+ .+++++||++|
T Consensus        92 ~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~v~~~~~~~~~~-----~~~~~~~~~~Sa~~g  164 (212)
T 2j0v_A           92 SKASYENVLKKWMPELRRFA--PNVPIVLVGTKLDLRDDKGYLADHTNVITSTQGEELRK-----QIGAAAYIECSSKTQ  164 (212)
T ss_dssp             CHHHHHHHHHTHHHHHHHHC--TTCCEEEEEECHHHHTCHHHHHTCSSCCCHHHHHHHHH-----HHTCSEEEECCTTTC
T ss_pred             CHHHHHHHHHHHHHHHHHhC--CCCCEEEEEeCHHhhhCccccccccCCCCHHHHHHHHH-----HcCCceEEEccCCCC
Confidence            999999986 7888877653  47999999999998652          24556666554     334 48999999999


Q ss_pred             CCHHHHHHHHHHHHHhcchh
Q 029517          159 FGIKESVEWLVEVMERSKRT  178 (192)
Q Consensus       159 ~gi~e~~~~i~~~i~~~~~~  178 (192)
                      .||+++|++|.+.+.+..++
T Consensus       165 ~gi~~l~~~l~~~~~~~~~~  184 (212)
T 2j0v_A          165 QNVKAVFDTAIKVVLQPPRR  184 (212)
T ss_dssp             TTHHHHHHHHHHHHHCC---
T ss_pred             CCHHHHHHHHHHHHhhhhhh
Confidence            99999999999998876543

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.90  E-value=2.4e-23  Score=154.19  Aligned_cols=148  Identities=22%  Similarity=0.349  Sum_probs=117.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE--EEEecC--EEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG--RIEVSN--SKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++          +.+...+.||++.++.  .+...+  +.+.+|||||++.+...+..+++.+|++++|+|+
T Consensus        33 KSsli~~l~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~  102 (213)
T 3cph_A           33 KSCLLVRFVE----------DKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDV  102 (213)
T ss_dssp             HHHHHHHHHH----------CCCCCSSSCCCSCCEEEEEEEETTEEEEEEEECCTTGGGGTCCCHHHHTTCSEEEEEEET
T ss_pred             HHHHHHHHHh----------CCCCcccCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEEC
Confidence            6666666653          3445567888886655  344443  7899999999999988889999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC-CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD-AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      +++.+++.+..|+..+..... .+.|+++|+||+|+.. ....+++.+++.     ..+++++++||++|.||+++|++|
T Consensus       103 ~~~~s~~~~~~~~~~i~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l~~~l  176 (213)
T 3cph_A          103 TDERTFTNIKQWFKTVNEHAN-DEAQLLLVGNKSDMETRVVTADQGEALAK-----ELGIPFIESSAKNDDNVNEIFFTL  176 (213)
T ss_dssp             TCHHHHHTHHHHHHHHHHHTT-TCSEEEEEEECTTCSSCCSCHHHHHHHHH-----HHTCCEEECBTTTTBSSHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhcC-CCCCEEEEEECCCCcccccCHHHHHHHHH-----HcCCEEEEEeCCCCCCHHHHHHHH
Confidence            999999999999988877542 4789999999999954 455566666654     345789999999999999999999


Q ss_pred             HHHHHhcch
Q 029517          169 VEVMERSKR  177 (192)
Q Consensus       169 ~~~i~~~~~  177 (192)
                      .+.+.+...
T Consensus       177 ~~~~~~~~~  185 (213)
T 3cph_A          177 AKLIQEKID  185 (213)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            998876543

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=99.90  E-value=1.4e-23  Score=149.57  Aligned_cols=144  Identities=24%  Similarity=0.363  Sum_probs=117.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++          +.+...+.||+|.++..  +..  ..+.+.+|||||++.+...+..+++.+|++++|+|+
T Consensus        18 Kssl~~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~   87 (168)
T 1z2a_A           18 KSSMIQRYCK----------GIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFST   87 (168)
T ss_dssp             HHHHHHHHHH----------CCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEEEET
T ss_pred             HHHHHHHHHc----------CCCCCCCCCceEEEEEEEEEEECCEEEEEEEEcCCCcHhHHHHHHHHhcCCCEEEEEEEC
Confidence            6777777764          33456678888876653  332  357899999999999888889999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+....  .+.|+++|+||+|+.+  .+..+++.+++.     ..+++++++||++|.|++++|++
T Consensus        88 ~~~~s~~~~~~~~~~i~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~i~~l~~~  160 (168)
T 1z2a_A           88 TDRESFEAISSWREKVVAEV--GDIPTALVQNKIDLLDDSCIKNEEAEGLAK-----RLKLRFYRTSVKEDLNVSEVFKY  160 (168)
T ss_dssp             TCHHHHHTHHHHHHHHHHHH--CSCCEEEEEECGGGGGGCSSCHHHHHHHHH-----HHTCEEEECBTTTTBSSHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHHhC--CCCCEEEEEECcccCcccccCHHHHHHHHH-----HcCCeEEEEecCCCCCHHHHHHH
Confidence            99999999999998887653  5789999999999865  456677777665     45679999999999999999999


Q ss_pred             HHHHHHh
Q 029517          168 LVEVMER  174 (192)
Q Consensus       168 i~~~i~~  174 (192)
                      |.+.+.+
T Consensus       161 l~~~~~~  167 (168)
T 1z2a_A          161 LAEKHLQ  167 (168)
T ss_dssp             HHHHHHC
T ss_pred             HHHHHhh
Confidence            9987753

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=99.90  E-value=1.8e-23  Score=155.67  Aligned_cols=147  Identities=17%  Similarity=0.220  Sum_probs=95.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE-E--EecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR-I--EVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~-~--~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|+    .      +.+...+.||++..+.. +  ++..+.+.+|||||++++...+..+++++|++++|+|++
T Consensus        47 KSsli~~l~----~------~~~~~~~~~t~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~  116 (214)
T 2j1l_A           47 KTSLLMVFA----D------GAFPESYTPTVFERYMVNLQVKGKPVHLHIWDTAGQDDYDRLRPLFYPDASVLLLCFDVT  116 (214)
T ss_dssp             HHHHHHHHH----C-------------CCCCCEEEEEEEEETTEEEEEEEEEC---------------CEEEEEEEEETT
T ss_pred             HHHHHHHHH----c------CCCCCCCCCccceeEEEEEEECCEEEEEEEEECCCchhhhHHHHHHhccCCEEEEEEECc
Confidence            566666655    3      33445667788766542 2  334578999999999999999999999999999999999


Q ss_pred             CcccHHHHH-HHHHHHHhCCCCCCCcEEEEEeCCCCCCC--------------CCHHHHHhHcCccccCCcce-EEEEee
Q 029517           91 CPSRFEDSK-TALEKVLRNEDLQGAPLLILANKQDLPDA--------------VSADELARYLDLKKLDERVC-MFEAVS  154 (192)
Q Consensus        91 ~~~s~~~~~-~~~~~i~~~~~~~~~piiiv~nK~Dl~~~--------------~~~~~~~~~~~~~~~~~~~~-~~~~~S  154 (192)
                      ++.+++.+. .|+..+....  .++|+++|+||+|+...              +..+++.+++.     ..+. +++++|
T Consensus       117 ~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~-----~~~~~~~~~~S  189 (214)
T 2j1l_A          117 SPNSFDNIFNRWYPEVNHFC--KKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMAR-----SVGAVAYLECS  189 (214)
T ss_dssp             CHHHHHHHHHTHHHHHHHHC--SSCCEEEEEECGGGGSCHHHHHHHHHTTCCCCCHHHHHHHHH-----HTTCSEEEECB
T ss_pred             CHHHHHHHHHHHHHHHHHhC--CCCCEEEEEEChhhhccchhhhhhcccccCcccHHHHHHHHH-----hcCCCEEEEec
Confidence            999999986 6888776653  47899999999999652              34445555554     3344 899999


Q ss_pred             ecCCCCHHHHHHHHHHHHHhcch
Q 029517          155 GYDGFGIKESVEWLVEVMERSKR  177 (192)
Q Consensus       155 a~~~~gi~e~~~~i~~~i~~~~~  177 (192)
                      |++|.||+++|++|.+.+.+.+.
T Consensus       190 A~~g~gi~el~~~l~~~~~~~~~  212 (214)
T 2j1l_A          190 ARLHDNVHAVFQEAAEVALSSRG  212 (214)
T ss_dssp             TTTTBSHHHHHHHHHHHHHHC--
T ss_pred             CCCCCCHHHHHHHHHHHHHHhhc
Confidence            99999999999999998876653

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.90  E-value=1.5e-23  Score=155.26  Aligned_cols=146  Identities=21%  Similarity=0.282  Sum_probs=106.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE-EEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR-IEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~-~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|++          +.+...+.||++..+.. +..  ..+.+.+|||||++++...+..+++++|++++|+|++
T Consensus        38 KSsli~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~  107 (207)
T 2fv8_A           38 KTCLLIVFSK----------DEFPEVYVPTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSVD  107 (207)
T ss_dssp             HHHHHHHHHH----------SSCC-------CCEEEEEEEETTEEEEEEEEECTTCTTCTTTGGGGCTTCCEEEEEEETT
T ss_pred             HHHHHHHHhc----------CCCCCcCCCcccceEEEEEEECCEEEEEEEEECCCcHHHHHHHHhhcCCCCEEEEEEECC
Confidence            5666666654          34455677888877643 333  3478999999999999888888999999999999999


Q ss_pred             CcccHHHH-HHHHHHHHhCCCCCCCcEEEEEeCCCCCCC--------------CCHHHHHhHcCccccCCcce-EEEEee
Q 029517           91 CPSRFEDS-KTALEKVLRNEDLQGAPLLILANKQDLPDA--------------VSADELARYLDLKKLDERVC-MFEAVS  154 (192)
Q Consensus        91 ~~~s~~~~-~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~--------------~~~~~~~~~~~~~~~~~~~~-~~~~~S  154 (192)
                      ++.+++.+ ..|+..+....  .+.|+++|+||+|+...              +..++..+++.     ..+. +++++|
T Consensus       108 ~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~-----~~~~~~~~~~S  180 (207)
T 2fv8_A          108 SPDSLENIPEKWVPEVKHFC--PNVPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAV-----RIQAYDYLECS  180 (207)
T ss_dssp             CHHHHHHHHHTHHHHHHHHS--TTCCEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHH-----HTTCSEEEECC
T ss_pred             CHHHHHHHHHHHHHHHHHhC--CCCCEEEEEEchhhhccccchhhhhhcccCCCCHHHHHHHHH-----hcCCCEEEEee
Confidence            99999988 67777776643  47999999999998643              33333443333     2233 899999


Q ss_pred             ecCCCCHHHHHHHHHHHHHhcc
Q 029517          155 GYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       155 a~~~~gi~e~~~~i~~~i~~~~  176 (192)
                      |++|.||+++|++|.+.+.+.+
T Consensus       181 A~~g~gi~el~~~l~~~i~~~~  202 (207)
T 2fv8_A          181 AKTKEGVREVFETATRAALQKR  202 (207)
T ss_dssp             TTTCTTHHHHHHHHHHHHHSCC
T ss_pred             CCCCCCHHHHHHHHHHHHHHHh
Confidence            9999999999999999887553

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=99.90  E-value=4.8e-23  Score=148.60  Aligned_cols=148  Identities=20%  Similarity=0.280  Sum_probs=104.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEe---cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEe
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEV---SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVID   88 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~---~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D   88 (192)
                      |||++|+|++          +.+...+.||+|.++..  +..   ..+.+.+|||||++.+...+..+++.+|++++|+|
T Consensus        21 KSsli~~l~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d   90 (182)
T 1ky3_A           21 KTSLMHRYVN----------DKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYD   90 (182)
T ss_dssp             HHHHHHHHHH----------SCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCEEEEEEE
T ss_pred             HHHHHHHHHh----------CcCCcccCCccceEEEEEEEEEcCCcEEEEEEEECCCChHhhhhhHHHhhcCCEEEEEEE
Confidence            6666666654          33445667887765543  332   35789999999999999999999999999999999


Q ss_pred             CCCcccHHHHHHHHHHHHhCC---CCCCCcEEEEEeCCCCCC---CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHH
Q 029517           89 AACPSRFEDSKTALEKVLRNE---DLQGAPLLILANKQDLPD---AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIK  162 (192)
Q Consensus        89 ~~~~~s~~~~~~~~~~i~~~~---~~~~~piiiv~nK~Dl~~---~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  162 (192)
                      ++++.+++.+..|+..+....   ...++|+++|+||+|+..   .+..+++.++..    ...+.+++++||++|.||+
T Consensus        91 ~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~v~~~~~~~~~~----~~~~~~~~~~Sa~~~~gi~  166 (182)
T 1ky3_A           91 VTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAK----SLGDIPLFLTSAKNAINVD  166 (182)
T ss_dssp             TTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHH----HTTSCCEEEEBTTTTBSHH
T ss_pred             CCChHHHHHHHHHHHHHHHHhcccCcCCCcEEEEEECCccccccccCCHHHHHHHHH----hcCCCeEEEEecCCCCCHH
Confidence            999999999999988887642   125789999999999954   345666666654    1346789999999999999


Q ss_pred             HHHHHHHHHHHhc
Q 029517          163 ESVEWLVEVMERS  175 (192)
Q Consensus       163 e~~~~i~~~i~~~  175 (192)
                      ++|++|.+.+.+.
T Consensus       167 ~l~~~l~~~~~~~  179 (182)
T 1ky3_A          167 TAFEEIARSALQQ  179 (182)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988654

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=99.90  E-value=1.2e-23  Score=152.80  Aligned_cols=144  Identities=19%  Similarity=0.262  Sum_probs=114.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE-E--EecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR-I--EVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~-~--~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|++          +.+...+.||++..+.. +  +...+.+.+|||||++.|...+..+++++|++++|+|++
T Consensus        20 KSsli~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~   89 (184)
T 1m7b_A           20 KTALLHVFAK----------DCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDIS   89 (184)
T ss_dssp             HHHHHHHHHH----------SCCCSSCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETT
T ss_pred             HHHHHHHHhc----------CCCCCCCCCccceeEEEEEEECCEEEEEEEEECCCChhhhhhHHhhcCCCcEEEEEEECC
Confidence            6777666654          34556778898877652 2  234578999999999999888888999999999999999


Q ss_pred             CcccHHHH-HHHHHHHHhCCCCCCCcEEEEEeCCCCCC--------------CCCHHHHHhHcCccccCCcc-eEEEEee
Q 029517           91 CPSRFEDS-KTALEKVLRNEDLQGAPLLILANKQDLPD--------------AVSADELARYLDLKKLDERV-CMFEAVS  154 (192)
Q Consensus        91 ~~~s~~~~-~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--------------~~~~~~~~~~~~~~~~~~~~-~~~~~~S  154 (192)
                      ++.+++.+ ..|+..+....  .+.|+++|+||+|+.+              .++.+++.+++.     ..+ .+++++|
T Consensus        90 ~~~s~~~~~~~~~~~i~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~-----~~~~~~~~e~S  162 (184)
T 1m7b_A           90 RPETLDSVLKKWKGEIQEFC--PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAK-----QIGAATYIECS  162 (184)
T ss_dssp             CHHHHHHHHHTHHHHHHHHC--TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHH-----HHTCSEEEECB
T ss_pred             CHHHHHHHHHHHHHHHHHHC--CCCCEEEEEEcchhhcchhhHhhhhhcccCCCCHHHHHHHHH-----HcCCcEEEEee
Confidence            99999998 67887776653  4799999999999963              356666666665     223 6899999


Q ss_pred             ec-CCCCHHHHHHHHHHHHHh
Q 029517          155 GY-DGFGIKESVEWLVEVMER  174 (192)
Q Consensus       155 a~-~~~gi~e~~~~i~~~i~~  174 (192)
                      |+ +|.||+++|+++.+.+.+
T Consensus       163 a~~~~~gi~~l~~~i~~~~l~  183 (184)
T 1m7b_A          163 ALQSENSVRDIFHVATLACVN  183 (184)
T ss_dssp             TTTBHHHHHHHHHHHHHHHHT
T ss_pred             ecCCCcCHHHHHHHHHHHHhc
Confidence            99 689999999999987754

>1cip_A Protein (guanine nucleotide-binding protein alpha-1 subunit); GTPase, hydrolase; HET: GNP; 1.50A {Rattus norvegicus} SCOP: a.66.1.1 c.37.1.8 PDB: 1agr_A* 1bof_A* 1gdd_A* 1gfi_A* 1gia_A* 1gp2_A* 3ffa_A* 3ffb_A* 1gg2_A* 1git_A* 1svs_A* 1svk_A* 2zjz_A* 2zjy_A* 3ums_A* 2pz2_A* 2pz3_A* 1as0_A* 1as2_A* 1as3_A* ...

Probab=99.89  E-value=1.8e-23  Score=166.31  Aligned_cols=172  Identities=19%  Similarity=0.340  Sum_probs=131.7

Q ss_pred             hhhhHHHHhh------hhccccH------HHHHHHHhhhhccCCCCCCC------CCCCCcceEEEEEEecCEEEEEEeC
Q 029517            2 FSLFYGLWKY------IFTKTEF------HTLLEKLKSVYSNVEGLPPD------RIVPTVGLNIGRIEVSNSKLVFWDL   63 (192)
Q Consensus         2 ~~~~~~~~~~------~~kst~~------~~l~~~~~~~~~~~~~~~~~------~~~~T~g~~~~~~~~~~~~~~i~D~   63 (192)
                      ++.+..+|++      +.++.-+      ..+++.+..+...  ++.++      .+.||+|++...+..+.+.+++|||
T Consensus       123 ~~~i~~lw~d~~iq~~~~~~~e~~l~dsa~yfl~~~~ri~~~--~Y~PT~~Dil~~~~~T~Gi~~~~~~~~~~~l~iwDt  200 (353)
T 1cip_A          123 AGVIKRLWKDSGVQACFNRSREYQLNDSAAYYLNDLDRIAQP--NYIPTQQDVLRTRVKTTGIVETHFTFKDLHFKMFDV  200 (353)
T ss_dssp             HHHHHHHHHCHHHHHHHTTGGGSCCCTTHHHHHTTHHHHTST--TCCCCHHHHHTCCCCCCSEEEEEEEETTEEEEEEEE
T ss_pred             HHHHHHHHCCHHHHHHHHhhhhcccCccHHHHHHHHHHHhcC--CCCCCccccccccCceeceEEEEEeeCCeeEEEEeC
Confidence            4567777777      3333322      2455544443321  33222      4578999999889988999999999


Q ss_pred             CCCcccHHHHHHhhhcCCEEEEEEeCCC----------cccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC------
Q 029517           64 GGQPGLRSIWEKYYEEAHAVVFVIDAAC----------PSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD------  127 (192)
Q Consensus        64 ~G~~~~~~~~~~~~~~~d~ii~v~D~~~----------~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~------  127 (192)
                      +|+++++..|..|+++++++|+|+|+++          ..+++++..|+..+.......+.|+++++||+|+.+      
T Consensus       201 ~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~~~~~~~~~piiLv~NK~DL~~~ki~~~  280 (353)
T 1cip_A          201 GGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKS  280 (353)
T ss_dssp             CCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHHTTS
T ss_pred             CCchhhhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHHHcCccccCCcEEEEEECcCchhhhcccc
Confidence            9999999999999999999999999998          567999999999998865556899999999999842      


Q ss_pred             -----------CCCHHHHHhHcCc-----ccc-CCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          128 -----------AVSADELARYLDL-----KKL-DERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       128 -----------~~~~~~~~~~~~~-----~~~-~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                                 .++.+++.+++..     ... ...++.+++|||++|.||+++|+++.+.+.+.
T Consensus       281 ~l~~~fp~~~g~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~etSA~~~~nV~~vF~~v~~~i~~~  345 (353)
T 1cip_A          281 PLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVIIKN  345 (353)
T ss_dssp             CGGGTCTTCCSCSCHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             chhhcccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEECcCchhHHHHHHHHHHHHHHH
Confidence                       3566777776641     100 13578999999999999999999999988653

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=99.89  E-value=2.2e-23  Score=151.04  Aligned_cols=146  Identities=16%  Similarity=0.246  Sum_probs=113.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++++|++          +.+...+.||++..+..   +++..+.+.+|||||++++...+..+++.+|++++|+|++
T Consensus        18 Kssl~~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~   87 (186)
T 1mh1_A           18 KTCLLISYTT----------NAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLV   87 (186)
T ss_dssp             HHHHHHHHHH----------SSCCSSCCCCSCCEEEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETT
T ss_pred             HHHHHHHHHc----------CCCCCCcCCcccceeEEEEEECCEEEEEEEEECCCCHhHHHHHHHhccCCcEEEEEEECC
Confidence            6777766653          34456677888766542   3334578899999999999888888999999999999999


Q ss_pred             CcccHHHHH-HHHHHHHhCCCCCCCcEEEEEeCCCCCC--------------CCCHHHHHhHcCccccCCcce-EEEEee
Q 029517           91 CPSRFEDSK-TALEKVLRNEDLQGAPLLILANKQDLPD--------------AVSADELARYLDLKKLDERVC-MFEAVS  154 (192)
Q Consensus        91 ~~~s~~~~~-~~~~~i~~~~~~~~~piiiv~nK~Dl~~--------------~~~~~~~~~~~~~~~~~~~~~-~~~~~S  154 (192)
                      ++.+++.+. .|+..+....  .+.|+++|+||+|+..              .+..++..++..     ..+. +++++|
T Consensus        88 ~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~-----~~~~~~~~~~S  160 (186)
T 1mh1_A           88 SPASFENVRAKWYPEVRHHC--PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAK-----EIGAVKYLECS  160 (186)
T ss_dssp             CHHHHHHHHHTHHHHHHHHS--TTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHH-----HTTCSEEEECC
T ss_pred             ChhhHHHHHHHHHHHHHHhC--CCCCEEEEeEcccccccchhhhhhcccccccCCHHHHHHHHH-----hcCCcEEEEec
Confidence            999999987 6877777653  3799999999999864              234445555544     3344 899999


Q ss_pred             ecCCCCHHHHHHHHHHHHHhcc
Q 029517          155 GYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       155 a~~~~gi~e~~~~i~~~i~~~~  176 (192)
                      |++|.|++++|++|.+.+.+..
T Consensus       161 a~~g~gi~~l~~~l~~~~~~~~  182 (186)
T 1mh1_A          161 ALTQRGLKTVFDEAIRAVLCPP  182 (186)
T ss_dssp             TTTCTTHHHHHHHHHHHHSCCC
T ss_pred             CCCccCHHHHHHHHHHHHhccc
Confidence            9999999999999999887554

>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=99.89  E-value=3e-24  Score=160.42  Aligned_cols=147  Identities=16%  Similarity=0.307  Sum_probs=116.5

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEE----ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIE----VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~----~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|+...          +...+.||.|.+.....    ...+.+.+|||||++.+...+..+++++|++++|+|+
T Consensus        28 KSsli~~~~~~~----------~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~   97 (221)
T 3gj0_A           28 KTTFVKRHLTGE----------FEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDV   97 (221)
T ss_dssp             HHHHHTTBHHHH----------HTCEEETTTTEEEEEEEEEETTEEEEEEEEEECSGGGTSCCCHHHHTTCCEEEEEEET
T ss_pred             HHHHHHHHHcCC----------CCCCCCCccceeEEEEEEEECCEEEEEEEEeCCChHHHhHHHHHHHhcCCEEEEEEEC
Confidence            778887754322          23456778877766432    3467899999999999988889999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLV  169 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~  169 (192)
                      ++..+++.+..|+..+....  .++|+++|+||+|+.+....++..+++.     ..+++++++||++|.||+++|++|.
T Consensus        98 ~~~~s~~~~~~~~~~~~~~~--~~~p~ilv~nK~Dl~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l~~~l~  170 (221)
T 3gj0_A           98 TSRVTYKNVPNWHRDLVRVC--ENIPIVLCGNKVDIKDRKVKAKSIVFHR-----KKNLQYYDISAKSNYNFEKPFLWLA  170 (221)
T ss_dssp             TCHHHHHTHHHHHHHHHHHS--TTCCEEEEEECTTSSSCSSCGGGCCHHH-----HHTCEEEECBGGGTBTTTHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhC--CCCCEEEEEECCccccccccHHHHHHHH-----HcCCEEEEEeCCCCCCHHHHHHHHH
Confidence            99999999999999998764  4799999999999976433333333332     3467999999999999999999999


Q ss_pred             HHHHhcch
Q 029517          170 EVMERSKR  177 (192)
Q Consensus       170 ~~i~~~~~  177 (192)
                      +.+.....
T Consensus       171 ~~l~~~~~  178 (221)
T 3gj0_A          171 RKLIGDPN  178 (221)
T ss_dssp             HHHHTCTT
T ss_pred             HHHHhCcc
Confidence            99876643

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=99.89  E-value=3.4e-23  Score=152.76  Aligned_cols=150  Identities=16%  Similarity=0.299  Sum_probs=118.0

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++          +.+...+.||+|.++..  +..  ..+.+.+|||||++.+...+..+++++|++|+|+|+
T Consensus        21 KSsli~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~   90 (207)
T 1vg8_A           21 KTSLMNQYVN----------KKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDV   90 (207)
T ss_dssp             HHHHHHHHHH----------SCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEEEET
T ss_pred             HHHHHHHHHc----------CCCCCCCCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHhHHHHHhCCcEEEEEEEC
Confidence            6666666654          33456678888877654  322  347899999999999888888899999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCC---CCCCcEEEEEeCCCCCC-CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNED---LQGAPLLILANKQDLPD-AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~---~~~~piiiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      +++.+++.+..|+..+.....   ..+.|+++|+||+|+.. ....+++.+++.    ...+.+++++||++|.||+++|
T Consensus        91 ~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~----~~~~~~~~~~Sa~~g~gi~~l~  166 (207)
T 1vg8_A           91 TAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVATKRAQAWCY----SKNNIPYFETSAKEAINVEQAF  166 (207)
T ss_dssp             TCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCCCSCHHHHHHHHH----HTTSCCEEECBTTTTBSHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhcccccCCCCcEEEEEECCCCcccccCHHHHHHHHH----hcCCceEEEEeCCCCCCHHHHH
Confidence            999999999999888765421   13689999999999975 455666666654    1346789999999999999999


Q ss_pred             HHHHHHHHhcch
Q 029517          166 EWLVEVMERSKR  177 (192)
Q Consensus       166 ~~i~~~i~~~~~  177 (192)
                      ++|.+.+.+...
T Consensus       167 ~~l~~~~~~~~~  178 (207)
T 1vg8_A          167 QTIARNALKQET  178 (207)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcc
Confidence            999998876554

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=99.89  E-value=5.5e-23  Score=151.46  Aligned_cols=144  Identities=19%  Similarity=0.262  Sum_probs=111.0

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE-EEE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG-RIE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~-~~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|.+          +.+...+.||++.++. .+.  +..+.+.+|||||++++...+..+++++|++++|+|++
T Consensus        38 KSsli~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~  107 (201)
T 2gco_A           38 KTCLLIVFSK----------DQFPEVYVPTVFENYIADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSID  107 (201)
T ss_dssp             HHHHHHHHHH----------SSCCSSCCCSSCCCCEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETT
T ss_pred             HHHHHHHHHh----------CcCCcccCCcccceEEEEEEECCEEEEEEEEECCCchhHHHHHHHhcCCCCEEEEEEECC
Confidence            6666666653          3445567788877664 233  33578999999999999888888999999999999999


Q ss_pred             CcccHHHH-HHHHHHHHhCCCCCCCcEEEEEeCCCCCCC--------------CCHHHHHhHcCccccCCcce-EEEEee
Q 029517           91 CPSRFEDS-KTALEKVLRNEDLQGAPLLILANKQDLPDA--------------VSADELARYLDLKKLDERVC-MFEAVS  154 (192)
Q Consensus        91 ~~~s~~~~-~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~--------------~~~~~~~~~~~~~~~~~~~~-~~~~~S  154 (192)
                      ++.+++.+ ..|+..+....  .+.|+++|+||+|+...              +..++..+++.     ..+. +++++|
T Consensus       108 ~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~-----~~~~~~~~~~S  180 (201)
T 2gco_A          108 SPDSLENIPEKWTPEVKHFC--PNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMAN-----RISAFGYLECS  180 (201)
T ss_dssp             CHHHHHHHHHTHHHHHHHHS--TTCCEEEEEECGGGTTCHHHHHHHHTTTCCCCCHHHHHHHHH-----HTTCSEEEECC
T ss_pred             CHHHHHHHHHHHHHHHHHhC--CCCCEEEEEecHHhhcCccchhhhcccccCcCCHHHHHHHHH-----hCCCcEEEEee
Confidence            99999988 57777766543  47999999999999753              34444444443     2234 899999


Q ss_pred             ecCCCCHHHHHHHHHHHHHh
Q 029517          155 GYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       155 a~~~~gi~e~~~~i~~~i~~  174 (192)
                      |++|.||+++|++|.+.+.+
T Consensus       181 A~~g~gi~~l~~~i~~~~l~  200 (201)
T 2gco_A          181 AKTKEGVREVFEMATRAGLQ  200 (201)
T ss_dssp             TTTCTTHHHHHHHHHHHHHC
T ss_pred             CCCCCCHHHHHHHHHHHHhc
Confidence            99999999999999987754

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi}

Probab=99.89  E-value=5.8e-23  Score=152.94  Aligned_cols=138  Identities=17%  Similarity=0.218  Sum_probs=113.8

Q ss_pred             CCCCCCCCCCcceEEEEEEe----c-CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhC
Q 029517           34 GLPPDRIVPTVGLNIGRIEV----S-NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRN  108 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~~~~----~-~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~  108 (192)
                      +.+...+.+|.+........    . .+.+.+|||||++.+...+..+++++|++|+|+|+++..+++.+..|+..+...
T Consensus        34 ~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~  113 (218)
T 4djt_A           34 GRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAV  113 (218)
T ss_dssp             CSTTCEEETTTTEEEEEEEEEBTTSCEEEEEEEEECSGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHH
T ss_pred             CCCCCCCCCccceeeEEEEEEeCCCcEEEEEEEecCCchhhchHHHHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHh
Confidence            44556778888877765432    1 278999999999998888889999999999999999999999999998888765


Q ss_pred             CCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhcch
Q 029517          109 EDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSKR  177 (192)
Q Consensus       109 ~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~~~  177 (192)
                      .. .+.|+++|+||+|+.+  .+..+++.+++.     ..+++++++||++|.||+++|++|.+.+.+..+
T Consensus       114 ~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~~~~  178 (218)
T 4djt_A          114 VG-NEAPIVVCANKIDIKNRQKISKKLVMEVLK-----GKNYEYFEISAKTAHNFGLPFLHLARIFTGRPD  178 (218)
T ss_dssp             HC-SSSCEEEEEECTTCC----CCHHHHHHHTT-----TCCCEEEEEBTTTTBTTTHHHHHHHHHHHCCTT
T ss_pred             cC-CCCCEEEEEECCCCccccccCHHHHHHHHH-----HcCCcEEEEecCCCCCHHHHHHHHHHHHhcccc
Confidence            32 4689999999999976  456667777776     667899999999999999999999999876543

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=99.89  E-value=2.8e-23  Score=153.78  Aligned_cols=144  Identities=19%  Similarity=0.261  Sum_probs=113.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE-EE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR-IE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~-~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|.    .      +.+...+.||++..+.. +.  ...+.+.+|||||++.|...+..+++++|++|+|||++
T Consensus        41 KSsLi~~l~----~------~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~  110 (205)
T 1gwn_A           41 KTALLHVFA----K------DCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDIS  110 (205)
T ss_dssp             HHHHHHHHH----H------SCCCSSCCCCSEEEEEEEEESSSSEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETT
T ss_pred             HHHHHHHHh----c------CCCCCCcCCccceeEEEEEEECCEEEEEEEEeCCCcHhhhHHHHhhccCCCEEEEEEECC
Confidence            566655554    3      44556778999887642 32  34578999999999999888888999999999999999


Q ss_pred             CcccHHHH-HHHHHHHHhCCCCCCCcEEEEEeCCCCCC--------------CCCHHHHHhHcCccccCCcc-eEEEEee
Q 029517           91 CPSRFEDS-KTALEKVLRNEDLQGAPLLILANKQDLPD--------------AVSADELARYLDLKKLDERV-CMFEAVS  154 (192)
Q Consensus        91 ~~~s~~~~-~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--------------~~~~~~~~~~~~~~~~~~~~-~~~~~~S  154 (192)
                      ++.+++.+ ..|+..+....  .+.|+++|+||+|+..              .++.+++.+++.     ..+ .+++++|
T Consensus       111 ~~~s~~~~~~~~~~~i~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~-----~~~~~~~~e~S  183 (205)
T 1gwn_A          111 RPETLDSVLKKWKGEIQEFC--PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAK-----QIGAATYIECS  183 (205)
T ss_dssp             CHHHHHHHHHTHHHHHHHHC--TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHH-----HHTCSEEEECC
T ss_pred             CHHHHHHHHHHHHHHHHHHC--CCCCEEEEEechhhccchhhhhhhcccccCCCCHHHHHHHHH-----HcCCCEEEEee
Confidence            99999998 68888777653  4799999999999963              355666666664     223 6899999


Q ss_pred             ec-CCCCHHHHHHHHHHHHHh
Q 029517          155 GY-DGFGIKESVEWLVEVMER  174 (192)
Q Consensus       155 a~-~~~gi~e~~~~i~~~i~~  174 (192)
                      |+ +|.||+++|++|.+.+.+
T Consensus       184 Ak~~~~gv~~lf~~l~~~~l~  204 (205)
T 1gwn_A          184 ALQSENSVRDIFHVATLACVN  204 (205)
T ss_dssp             TTTCHHHHHHHHHHHHHHHHH
T ss_pred             eccCCcCHHHHHHHHHHHHhh
Confidence            99 689999999999987764

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=99.88  E-value=7.4e-23  Score=149.99  Aligned_cols=149  Identities=15%  Similarity=0.135  Sum_probs=105.8

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE--EE--EecCEEEEEEeCCCCcc-cHHHHHHhhhcCCEEEEEE
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG--RI--EVSNSKLVFWDLGGQPG-LRSIWEKYYEEAHAVVFVI   87 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~--~~--~~~~~~~~i~D~~G~~~-~~~~~~~~~~~~d~ii~v~   87 (192)
                      =|||++|+|++...        .+...+ +++|.++.  .+  ++..+.+.+|||+|++. +......+++.+|++++||
T Consensus        18 GKSsL~~~~~~~~~--------~~~~~~-~~~~~~~~~~~~~~~~~~~~l~~~Dt~~~~~~~~~~~~~~~~~~~~~i~v~   88 (192)
T 2cjw_A           18 GKSTLANIFAGVHD--------SMDSDX-EVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGDAYLIVY   88 (192)
T ss_dssp             SHHHHHHHHHHHSC--------CC-----GGGCTTEEEEEEEETTEEEEEEEECCCCC----CTTGGGHHHHCSEEEEEE
T ss_pred             CHHHHHHHHhcCcC--------CcCccc-cccceeEEEEEEEECCeEEEEEEEEeccCcchhhhHHHhhcccCCEEEEEE
Confidence            37888888775421        122222 33444332  23  33456889999999875 3345566788999999999


Q ss_pred             eCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHH
Q 029517           88 DAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus        88 D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      |+++..+|+.+..|+..+.......+.|+++|+||+|+..  .+..++...++.     ..+++++++||++|.||+++|
T Consensus        89 dv~~~~s~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~r~v~~~~~~~~a~-----~~~~~~~e~SA~~g~~v~~lf  163 (192)
T 2cjw_A           89 SITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAXAV-----VFDXKFIETSAAVQHNVKELF  163 (192)
T ss_dssp             ETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECTTCGGGCCSCHHHHHHHHH-----HTTCEEEECBTTTTBSHHHHH
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhCCCCCeEEEEEechhhhccccccHHHHHHHHH-----HhCCceEEeccccCCCHHHHH
Confidence            9999999999999988777643335799999999999864  455555555443     335789999999999999999


Q ss_pred             HHHHHHHHhc
Q 029517          166 EWLVEVMERS  175 (192)
Q Consensus       166 ~~i~~~i~~~  175 (192)
                      +++.+.+...
T Consensus       164 ~~l~~~~~~~  173 (192)
T 2cjw_A          164 EGIVRQVRLR  173 (192)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhh
Confidence            9999988544

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=99.88  E-value=1.7e-23  Score=151.17  Aligned_cols=143  Identities=16%  Similarity=0.233  Sum_probs=99.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|++          +.+...+.||++..+..   +++..+.+++|||||++++...+..+++++|++++|+|++
T Consensus        21 Kssl~~~~~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~   90 (182)
T 3bwd_D           21 KTCLLISYTS----------NTFPTDYVPTVFDNFSANVVVNGATVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLI   90 (182)
T ss_dssp             HHHHHHHHHH----------SCCC----------CBCCCC-------CEEECCCC-CTTTTTGGGGGTTCSEEEEEEETT
T ss_pred             HHHHHHHHhc----------CCCCCCCCCeeeeeEEEEEEECCEEEEEEEEECCCChhhhhhHHhhccCCCEEEEEEECC
Confidence            6666666653          33455667777755432   3445678899999999999988999999999999999999


Q ss_pred             CcccHHHHH-HHHHHHHhCCCCCCCcEEEEEeCCCCCCC------------CCHHHHHhHcCccccCCcce-EEEEeeec
Q 029517           91 CPSRFEDSK-TALEKVLRNEDLQGAPLLILANKQDLPDA------------VSADELARYLDLKKLDERVC-MFEAVSGY  156 (192)
Q Consensus        91 ~~~s~~~~~-~~~~~i~~~~~~~~~piiiv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~  156 (192)
                      ++.+++.+. .|+..+....  .+.|+++|+||+|+.+.            +..+++.++..     ..+. +++++||+
T Consensus        91 ~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~v~~~~~~~~~~-----~~~~~~~~~~Sa~  163 (182)
T 3bwd_D           91 SKASYENVSKKWIPELKHYA--PGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKK-----LIGAPAYIECSSK  163 (182)
T ss_dssp             CHHHHHHHHHTHHHHHHHHC--TTCCEEEEEECHHHHTCHHHHHHC--CCCCCHHHHHHHHH-----HHTCSEEEECCTT
T ss_pred             CHHHHHHHHHHHHHHHHHhC--CCCCEEEEEechhhhcCcccccccccCCCCCHHHHHHHHH-----HcCCCEEEEEECC
Confidence            999999987 6888777653  47999999999998652            24455555554     3344 89999999


Q ss_pred             CCCCHHHHHHHHHHHHH
Q 029517          157 DGFGIKESVEWLVEVME  173 (192)
Q Consensus       157 ~~~gi~e~~~~i~~~i~  173 (192)
                      +|.||+++|++|.+.+.
T Consensus       164 ~~~gi~~l~~~l~~~i~  180 (182)
T 3bwd_D          164 SQENVKGVFDAAIRVVL  180 (182)
T ss_dssp             TCTTHHHHHHHHHHHHS
T ss_pred             CCCCHHHHHHHHHHHHh
Confidence            99999999999998764

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.88  E-value=2.1e-23  Score=163.32  Aligned_cols=132  Identities=19%  Similarity=0.212  Sum_probs=97.6

Q ss_pred             CCCCCcceEEEEEEecCEEEEEEeCCCCcccHH---HHHHhhhcCCEEEEEEeCCCc--ccHHHHHHHHHHHHhCCCCCC
Q 029517           39 RIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRS---IWEKYYEEAHAVVFVIDAACP--SRFEDSKTALEKVLRNEDLQG  113 (192)
Q Consensus        39 ~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~---~~~~~~~~~d~ii~v~D~~~~--~s~~~~~~~~~~i~~~~~~~~  113 (192)
                      .+.||+|.++..++ ..++++||||+|+++|+.   .+..|+++++++|+|||+++.  ++++.+..|+..+....  ++
T Consensus        30 ~~~~Tig~~~~~v~-~~v~LqIWDTAGQErf~~~~l~~~~yyr~a~~~IlV~Ditd~~~~~~~~l~~~l~~~~~~~--~~  106 (331)
T 3r7w_B           30 YLESTSNPSLEHFS-TLIDLAVMELPGQLNYFEPSYDSERLFKSVGALVYVIDSQDEYINAITNLAMIIEYAYKVN--PS  106 (331)
T ss_dssp             TCCCCCSCCCEEEC-SSSCEEEEECCSCSSSCCCSHHHHHHHTTCSEEEEECCCSSCTTHHHHHHHHHHHHHHHHC--TT
T ss_pred             eecCeeeeeeEEEc-cEEEEEEEECCCchhccchhhhhhhhccCCCEEEEEEECCchHHHHHHHHHHHHHHHhhcC--CC
Confidence            57899999988773 468999999999999963   468899999999999999987  33333444444444332  57


Q ss_pred             CcEEEEEeCCCCCCC---------CCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          114 APLLILANKQDLPDA---------VSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       114 ~piiiv~nK~Dl~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                      +|+++++||+|+...         +..++..++++. .....++.|++|||++ .||.++|..+++.+...
T Consensus       107 ipillvgNK~DL~~~~~R~~~~R~V~~~~~~~la~~-~~~~~~i~f~eTSAkd-~nV~eAFs~iv~~li~~  175 (331)
T 3r7w_B          107 INIEVLIHKVDGLSEDFKVDAQRDIMQRTGEELLEL-GLDGVQVSFYLTSIFD-HSIYEAFSRIVQKLIPE  175 (331)
T ss_dssp             CEEEEECCCCCSSCSHHHHHHHHHHHHHHHHTTSSS-SCSCCCEEEECCCSSS-SHHHHHHHHHHTTSSTT
T ss_pred             CcEEEEEECcccCchhhhhhHHHHhhHHHHHHHHhh-cccccCceEEEeccCC-CcHHHHHHHHHHHHHhh
Confidence            999999999999753         222333444441 0112579999999998 69999999999876644

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=99.87  E-value=1.7e-22  Score=149.24  Aligned_cols=133  Identities=17%  Similarity=0.283  Sum_probs=103.8

Q ss_pred             CCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHH-HHHHHHHhCC
Q 029517           34 GLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSK-TALEKVLRNE  109 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~-~~~~~i~~~~  109 (192)
                      +.+...+.||.+..+..   ++...+.+.+|||||++++...+..+++++|++++|+|++++.+++.+. .|+..+....
T Consensus        53 ~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~  132 (204)
T 4gzl_A           53 NAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC  132 (204)
T ss_dssp             SCCCC-CCCCSEEEEEEEEECC-CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHC
T ss_pred             CCCCCCcCCeecceeEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC
Confidence            55566678888766553   3344678889999999999999989999999999999999999999987 7877776654


Q ss_pred             CCCCCcEEEEEeCCCCCCC--------------CCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517          110 DLQGAPLLILANKQDLPDA--------------VSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~~--------------~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                        .+.|+++|+||+|+...              +..++..+++.    .....+++++||++|.||+++|++|.+.+
T Consensus       133 --~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~----~~~~~~~~~~SA~~g~gi~~l~~~l~~~~  203 (204)
T 4gzl_A          133 --PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAK----EIGAVKYLECSALTQRGLKTVFDEAIRAV  203 (204)
T ss_dssp             --SSCCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHH----HTTCSEEEECCTTTCTTHHHHHHHHHHTT
T ss_pred             --CCCCEEEEEechhhccchhhhhhhhccccccccHHHHHHHHH----hcCCcEEEEeeCCCCCCHHHHHHHHHHHh
Confidence              57999999999998653              44445555544    11234699999999999999999998753

>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=99.87  E-value=5.2e-23  Score=149.60  Aligned_cols=149  Identities=14%  Similarity=0.189  Sum_probs=104.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEE-------ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIE-------VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFV   86 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~-------~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v   86 (192)
                      |||++|+|.+..        ..+...+.||+|.++....       ...+.+.+|||+|+++|...+..++++++++++|
T Consensus        15 KStLl~~l~~~~--------~~~~~~~~~t~g~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v   86 (184)
T 2zej_A           15 KTTLLQQLMKTK--------KSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGREEFYSTHPHFMTQRALYLAV   86 (184)
T ss_dssp             HHHHHHHHTCC-------------------CSEEEEEEEC---------CEEEEEEECSHHHHHTTSHHHHHHSEEEEEE
T ss_pred             HHHHHHHHhcCC--------CccCCCcceeccEEeEEeeeccccCCCCceEEEEEecCCCHHHHHhhHHHccCCcEEEEE
Confidence            677777765421        1234557889998876543       2467899999999999988888999999999999


Q ss_pred             EeCCCc-ccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCH-----HHHHhHcCccccCCcce----EEEEeeec
Q 029517           87 IDAACP-SRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSA-----DELARYLDLKKLDERVC----MFEAVSGY  156 (192)
Q Consensus        87 ~D~~~~-~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~-----~~~~~~~~~~~~~~~~~----~~~~~Sa~  156 (192)
                      +|++++ .+++.+..|+..+....  .+.|+++|+||+|+.+....     +...+++.     ..++    .++++||+
T Consensus        87 ~d~~~~~~s~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~Sa~  159 (184)
T 2zej_A           87 YDLSKGQAEVDAMKPWLFNIKARA--SSSPVILVGTHLDVSDEKQRKACMSKITKELLN-----KRGFPAIRDYHFVNAT  159 (184)
T ss_dssp             EEGGGCHHHHHTHHHHHHHHHHHC--TTCEEEEEEECGGGCCHHHHHHHHHHHHHHTTT-----CTTSCEEEEEEECCTT
T ss_pred             EeCCcchhHHHHHHHHHHHHHhhC--CCCcEEEEEECCCcccchhhHHHHHHHHHHHHH-----hcCCcchhheEEEecc
Confidence            999987 57899999999887653  47899999999998752111     22233333     3344    39999999


Q ss_pred             CCC-CHHHHHHHHHHHHHhcch
Q 029517          157 DGF-GIKESVEWLVEVMERSKR  177 (192)
Q Consensus       157 ~~~-gi~e~~~~i~~~i~~~~~  177 (192)
                      +|. |++++++.|.+.+.+.+.
T Consensus       160 ~~~~~~~~l~~~i~~~~~~~~~  181 (184)
T 2zej_A          160 EESDALAKLRKTIINESLNFKI  181 (184)
T ss_dssp             SCCHHHHHHHHHHHHHHHCC--
T ss_pred             cCchhHHHHHHHHHHHHhcccc
Confidence            997 999999999988876553

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.87  E-value=2.5e-24  Score=158.35  Aligned_cols=145  Identities=22%  Similarity=0.367  Sum_probs=105.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE--EEEec--CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG--RIEVS--NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~--~~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++          +.+...+.||++.++.  .+...  .+.+.+|||||++.+...+..+++++|++++|+|+
T Consensus        46 KSsli~~l~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~  115 (199)
T 3l0i_B           46 KSCLLLRFAD----------DTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDV  115 (199)
T ss_dssp             CTTTTTSSBC----------CCCCCHHHHHHCCSEEEEEEEETTEEEEEEEECCTTCTTCCCCSCC--CCCSEEEECC-C
T ss_pred             HHHHHHHHhc----------CCCCCCcCCcccceEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhhcCCEEEEEEEC
Confidence            7777777642          4455566777775554  34443  47899999999999988888899999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      ++..+++.+..|+..+..... .+.|+++|+||+|+.+  .+..+++.+++.     ..+++++++||++|.||+++|++
T Consensus       116 ~~~~s~~~~~~~~~~i~~~~~-~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~vSA~~g~gv~~l~~~  189 (199)
T 3l0i_B          116 TDQESFNNVKQWLQEIDRYAS-ENVNKLLVGNKCDLTTKKVVDYTTAKEFAD-----SLGIPFLETSAKNATNVEQSFMT  189 (199)
T ss_dssp             CCSHHHHHHHHHHHHHHSCC--CCSEEEEC-CCSSCC--CCCCSCC-CHHHH-----TTTCCBCCCCC---HHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhcc-CCCCEEEEEECccCCccccCCHHHHHHHHH-----HcCCeEEEEECCCCCCHHHHHHH
Confidence            999999999999998876543 4799999999999965  233334444443     44678999999999999999999


Q ss_pred             HHHHHHh
Q 029517          168 LVEVMER  174 (192)
Q Consensus       168 i~~~i~~  174 (192)
                      |.+.+.+
T Consensus       190 l~~~l~~  196 (199)
T 3l0i_B          190 MAAEIKK  196 (199)
T ss_dssp             HTTTTTT
T ss_pred             HHHHHHH
Confidence            9876654

>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=99.78  E-value=1.1e-23  Score=155.38  Aligned_cols=142  Identities=17%  Similarity=0.263  Sum_probs=106.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE---EEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG---RIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~---~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++++|++          +.+...+.||++..+.   .+++..+.+++|||||++++...+..+++++|++++|+|++
T Consensus        43 KSsli~~l~~----------~~~~~~~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~  112 (204)
T 3th5_A           43 KTCLLISYTT----------NAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLV  112 (204)
Confidence            6666666653          2334455666665443   23445678899999999999999999999999999999999


Q ss_pred             CcccHHHHH-HHHHHHHhCCCCCCCcEEEEEeCCCCCCC--------------CCHHHHHhHcCccccCCcce-EEEEee
Q 029517           91 CPSRFEDSK-TALEKVLRNEDLQGAPLLILANKQDLPDA--------------VSADELARYLDLKKLDERVC-MFEAVS  154 (192)
Q Consensus        91 ~~~s~~~~~-~~~~~i~~~~~~~~~piiiv~nK~Dl~~~--------------~~~~~~~~~~~~~~~~~~~~-~~~~~S  154 (192)
                      ++.+++.+. .|+..+....  .++|+++|+||+|+.+.              +..+++.+++.     ..+. +++++|
T Consensus       113 ~~~s~~~~~~~~~~~l~~~~--~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~-----~~~~~~~~~vS  185 (204)
T 3th5_A          113 SPASFENVRAKWYPEVRHHC--PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAK-----EIGAVKYLECS  185 (204)
Confidence            999999887 6776665543  37899999999999652              22233333333     3345 899999


Q ss_pred             ecCCCCHHHHHHHHHHHH
Q 029517          155 GYDGFGIKESVEWLVEVM  172 (192)
Q Consensus       155 a~~~~gi~e~~~~i~~~i  172 (192)
                      |++|.||+++|++|.+.+
T Consensus       186 A~~g~gi~~l~~~l~~~i  203 (204)
T 3th5_A          186 ALTQRGLKTVFDEAIRAV  203 (204)
Confidence            999999999999998764

>3ohm_A Guanine nucleotide-binding protein G(Q) subunit A; PH domain, EF hand, TIM barrel, C2 domain, GTPase, lipase, C binding, GTP binding; HET: GDP; 2.70A {Mus musculus} PDB: 2bcj_Q* 2rgn_A* 3ah8_A*

Probab=99.86  E-value=1.4e-21  Score=153.55  Aligned_cols=136  Identities=18%  Similarity=0.312  Sum_probs=115.0

Q ss_pred             CCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC----------CCcccHHHHHHHHHHHHhCC
Q 029517           40 IVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA----------ACPSRFEDSKTALEKVLRNE  109 (192)
Q Consensus        40 ~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~----------~~~~s~~~~~~~~~~i~~~~  109 (192)
                      ..||+|+....+..+++++++|||+|+++++..|..|+++++++|+|+|+          ++.+++.+...|+..+....
T Consensus       151 r~~TiGi~~~~~~~~~v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i~~~~  230 (327)
T 3ohm_A          151 RVPTTGIIEYPFDLQSVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYP  230 (327)
T ss_dssp             CCCCCSEEEEEEEETTEEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTSG
T ss_pred             cCceeeEEEEEEEeeceeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHHHHHHHhhhh
Confidence            68899999999999999999999999999999999999999999999955          47788999999999998776


Q ss_pred             CCCCCcEEEEEeCCCCCC------------------CCCHHHHHhHcC-----ccccCCcceEEEEeeecCCCCHHHHHH
Q 029517          110 DLQGAPLLILANKQDLPD------------------AVSADELARYLD-----LKKLDERVCMFEAVSGYDGFGIKESVE  166 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~------------------~~~~~~~~~~~~-----~~~~~~~~~~~~~~Sa~~~~gi~e~~~  166 (192)
                      ...+.|+++++||+|+.+                  .++.+++.+++.     +.....+++.+++|||+++.||+++|+
T Consensus       231 ~~~~~~iiL~~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~e~a~~fi~~~F~~~~~~~~~~i~~~~TsA~d~~nV~~vF~  310 (327)
T 3ohm_A          231 WFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFA  310 (327)
T ss_dssp             GGTTCEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSCHHHHHHHHHHHHHSSCTTTTSCEEEEECCTTCHHHHHHHHH
T ss_pred             ccCCceEEEEEECchhhhhhhccchHhhhchhccCCCCCHHHHHHHHHHHHHhhcccccCCcEEEEEEeecCHHHHHHHH
Confidence            557899999999999843                  356677776642     111224678899999999999999999


Q ss_pred             HHHHHHHhc
Q 029517          167 WLVEVMERS  175 (192)
Q Consensus       167 ~i~~~i~~~  175 (192)
                      .+.+.+.+.
T Consensus       311 ~v~~~Il~~  319 (327)
T 3ohm_A          311 AVKDTILQL  319 (327)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHH
Confidence            999988764

>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=99.86  E-value=4.1e-22  Score=146.25  Aligned_cols=116  Identities=20%  Similarity=0.237  Sum_probs=88.4

Q ss_pred             ecCEEEEEEeCCCCcccHHHH---HHhhhcCCEEEEEEeCCCc--ccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           53 VSNSKLVFWDLGGQPGLRSIW---EKYYEEAHAVVFVIDAACP--SRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        53 ~~~~~~~i~D~~G~~~~~~~~---~~~~~~~d~ii~v~D~~~~--~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      +..+.+++|||||+++|....   ..+++++|++|+|||+++.  +++..+..|+..+....  .+.|+++|+||+|+..
T Consensus        66 ~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~~~--~~~piilv~nK~Dl~~  143 (196)
T 3llu_A           66 SSFVNFQIWDFPGQMDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVN--PDMNFEVFIHKVDGLS  143 (196)
T ss_dssp             TTSCCEEEEECCSSCCTTCTTCCHHHHHHTCSEEEEEEETTSCCHHHHHHHHHHHHHHHHHC--TTCEEEEEEECGGGSC
T ss_pred             CCeeEEEEEECCCCHHHHhhhhhcccccccCCEEEEEEECCCchHHHHHHHHHHHHHHHhcC--CCCcEEEEEeccccCc
Confidence            456899999999999987765   8899999999999999987  66777777777765432  5799999999999864


Q ss_pred             C---------CCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517          128 A---------VSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus       128 ~---------~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                      .         +..++..+++. ......+++++++||++ .||+++|+++++.+
T Consensus       144 ~~~~~~~~~~v~~~~~~~~~~-~~~~~~~~~~~e~Sa~~-~~v~~~f~~l~~~l  195 (196)
T 3llu_A          144 DDHKIETQRDIHQRANDDLAD-AGLEKLHLSFYLTSIYD-HSIFEAFSKVVQKL  195 (196)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH-TTCTTSCEEEEEECTTS-THHHHHHHHHHHHT
T ss_pred             hhhhhHHHhHHHHHHHHHHHH-hhhhcCCcceEEEEech-hhHHHHHHHHHHHh
Confidence            1         11122222222 11114578999999999 99999999998864

>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=99.85  E-value=2.9e-20  Score=137.89  Aligned_cols=147  Identities=28%  Similarity=0.356  Sum_probs=100.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEec---CEEEEEEeCCCCcccHH-HHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVS---NSKLVFWDLGGQPGLRS-IWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~---~~~~~i~D~~G~~~~~~-~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++++|++.          .+...+. |++.++..+...   .+.+++|||||++++.. .+..+++.+|++++|+|+
T Consensus        20 KTsli~~l~~~----------~~~~~~~-~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~i~v~d~   88 (214)
T 2fh5_B           20 KTLLFVRLLTG----------QYRDTQT-SITDSSAIYKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDS   88 (214)
T ss_dssp             HHHHHHHHHHS----------CCCCBCC-CCSCEEEEEECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEET
T ss_pred             HHHHHHHHhCC----------CcccccC-CcceeeEEEEecCCCccEEEEEECCCChhHHHHHHHHHHhhCCEEEEEEEC
Confidence            56666666543          3445544 444555556554   68999999999999988 788899999999999999


Q ss_pred             CCcc-cHHHHHHHHHHHHhC--CCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCc-----------------------ccc
Q 029517           90 ACPS-RFEDSKTALEKVLRN--EDLQGAPLLILANKQDLPDAVSADELARYLDL-----------------------KKL  143 (192)
Q Consensus        90 ~~~~-s~~~~~~~~~~i~~~--~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~-----------------------~~~  143 (192)
                      ++.. ++..+..++..+...  ....++|+++|+||+|+......+++.+.+..                       ...
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~~s~~~~~~~~~~~~  168 (214)
T 2fh5_B           89 AAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAKLIQQQLEKELNTLRVTRSAAPSTLDSSSTAPAQL  168 (214)
T ss_dssp             TTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHHCC------------CCCS
T ss_pred             CCcCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCCCcccHHHHHHHHHHHHHHHhccchhccccccCCccccccc
Confidence            8743 455555555554332  11247899999999999875444433322210                       000


Q ss_pred             C---------C--cceEEEEeeecCC------CCHHHHHHHHHHH
Q 029517          144 D---------E--RVCMFEAVSGYDG------FGIKESVEWLVEV  171 (192)
Q Consensus       144 ~---------~--~~~~~~~~Sa~~~------~gi~e~~~~i~~~  171 (192)
                      .         .  .+++|++|||++|      .||+++|++|.+.
T Consensus       169 ~~~~~~~~~~~~~~~~~~~e~SAk~g~~~~~~~gv~~lf~~l~~~  213 (214)
T 2fh5_B          169 GKKGKEFEFSQLPLKVEFLECSAKGGRGDTGSADIQDLEKWLAKI  213 (214)
T ss_dssp             SCTTSCCCGGGSSSCEEEEECBCC-------CCBCHHHHHHHHHH
T ss_pred             cCCCCCcccccCCCcEEEEEeeccCCCccccccChHHHHHHHHHh
Confidence            0         1  1788999999999      9999999999875

>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=99.85  E-value=2.5e-21  Score=154.50  Aligned_cols=136  Identities=17%  Similarity=0.345  Sum_probs=107.1

Q ss_pred             CCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCC----------cccHHHHHHHHHHHHhCC
Q 029517           40 IVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAAC----------PSRFEDSKTALEKVLRNE  109 (192)
Q Consensus        40 ~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~----------~~s~~~~~~~~~~i~~~~  109 (192)
                      +.||+|+....+..+++++.+|||+|++.++..|..|+++++++|+|+|+++          ..++.++..|+..+....
T Consensus       185 r~~T~Gi~~~~~~~~~~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~dls~~dq~l~ed~~~n~~~es~~~~~~i~~~~  264 (362)
T 1zcb_A          185 RRPTKGIHEYDFEIKNVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNR  264 (362)
T ss_dssp             CCCCSSEEEEEEEETTEEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCG
T ss_pred             cCCccceEEEEeeeCCeEEEEEeccchhhhhhhHHHHhCCCCEEEEEEECccccccccccccccHHHHHHHHHHHHhcch
Confidence            4678999988898889999999999999999999999999999999999998          789999999999998765


Q ss_pred             CCCCCcEEEEEeCCCCCC------------------CCCHHHHHhHc-----CccccC-CcceEEEEeeecCCCCHHHHH
Q 029517          110 DLQGAPLLILANKQDLPD------------------AVSADELARYL-----DLKKLD-ERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~------------------~~~~~~~~~~~-----~~~~~~-~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      ...+.|+++++||+|+.+                  .++.+++.+++     .+.... ..++.+++|||+++.||+++|
T Consensus       265 ~~~~~piILv~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~~tSA~d~~nV~~vF  344 (362)
T 1zcb_A          265 VFSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHFTTAINTENIRLVF  344 (362)
T ss_dssp             GGTTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHH
T ss_pred             hhCCCCEEEEEEChhhhhhhccccchhhcCccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEecCCchhHHHHH
Confidence            556899999999999852                  25677777765     221111 346789999999999999999


Q ss_pred             HHHHHHHHhc
Q 029517          166 EWLVEVMERS  175 (192)
Q Consensus       166 ~~i~~~i~~~  175 (192)
                      +++.+.+.+.
T Consensus       345 ~~v~~~i~~~  354 (362)
T 1zcb_A          345 RDVKDTILHD  354 (362)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999987643

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.84  E-value=2.8e-21  Score=151.39  Aligned_cols=148  Identities=15%  Similarity=0.194  Sum_probs=111.5

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEe-cCEEEEEEeCCCCccc-----HHHHHHhhhcCCEEEEE
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEV-SNSKLVFWDLGGQPGL-----RSIWEKYYEEAHAVVFV   86 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~-~~~~~~i~D~~G~~~~-----~~~~~~~~~~~d~ii~v   86 (192)
                      =|||++|+|++....       .....+.+|++..+..+.. +.+.+.+|||||++++     ...+..+++++|++|+|
T Consensus        15 GKSSLi~~l~~~~~~-------~~~~~~~~Ti~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~ad~vi~V   87 (307)
T 3r7w_A           15 GKSSMRSIIFSNYSA-------FDTRRLGATIDVEHSHLRFLGNMTLNLWDCGGQDVFMENYFTKQKDHIFQMVQVLIHV   87 (307)
T ss_dssp             SHHHHHHHHHSCCCT-------GGGGGCCCCCSEEEEEEEETTTEEEEEEEECCSHHHHHHHHTTTHHHHHTTCSEEEEE
T ss_pred             CHHHHHHHHHhCCCC-------ccccCcCCccceEEEEEEeCCceEEEEEECCCcHHHhhhhhhhHHHHHhccCCEEEEE
Confidence            377777777654211       1123678999999988774 5789999999999988     56778889999999999


Q ss_pred             EeCCCcccHHHHHHHHHHHHhCC-CCCCCcEEEEEeCCCCCCC--------CCHHHHHhHcCccccCCc---ceEEEEee
Q 029517           87 IDAACPSRFEDSKTALEKVLRNE-DLQGAPLLILANKQDLPDA--------VSADELARYLDLKKLDER---VCMFEAVS  154 (192)
Q Consensus        87 ~D~~~~~s~~~~~~~~~~i~~~~-~~~~~piiiv~nK~Dl~~~--------~~~~~~~~~~~~~~~~~~---~~~~~~~S  154 (192)
                      +|++++.+++.+..|...+.... ...++|+++|+||+|+.+.        ...+++.+++.     ..   ..+++++|
T Consensus        88 ~D~t~~~s~~~l~~~~~~l~~l~~~~~~~piilv~NK~Dl~~~~~r~~~~~v~~~~~~~~~~-----~~g~~~~~~~~tS  162 (307)
T 3r7w_A           88 FDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLHKMDLVQLDKREELFQIMMKNLSETSS-----EFGFPNLIGFPTS  162 (307)
T ss_dssp             EETTCSCHHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHH-----TTTCCSCEEEECC
T ss_pred             EECCChhhHHHHHHHHHHHHHHHHhCCCCeEEEEEecccccchhhhhHHHHHHHHHHHHHHH-----HcCCCCeEEEEee
Confidence            99999999998877654443321 0157999999999999751        22345555554     33   37999999


Q ss_pred             ecCCCCHHHHHHHHHHHHH
Q 029517          155 GYDGFGIKESVEWLVEVME  173 (192)
Q Consensus       155 a~~~~gi~e~~~~i~~~i~  173 (192)
                      |++ .|+.++|.++++.+.
T Consensus       163 a~~-~~i~e~~~~iv~~li  180 (307)
T 3r7w_A          163 IWD-ESLYKAWSQIVCSLI  180 (307)
T ss_dssp             TTS-SHHHHHHHHHHHTTC
T ss_pred             ecC-ChHHHHHHHHHHHHc
Confidence            999 899999999987554

>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=99.84  E-value=8.2e-21  Score=149.52  Aligned_cols=142  Identities=17%  Similarity=0.245  Sum_probs=111.0

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEE-EE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR-IE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE   96 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~-~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~   96 (192)
                      +|++++..      +.+...+.||++..+.. +.  +..+.+.+|||||++.+...+..+++++|++++|+|++++.+++
T Consensus       170 sli~~~~~------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~  243 (332)
T 2wkq_A          170 CLLISYTT------NAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFH  243 (332)
T ss_dssp             HHHHHHHH------SCCCCSCCCCSEEEEEEEEEETTEEEEEEEEEECCCGGGTTTGGGGCTTCSEEEEEEETTCHHHHH
T ss_pred             HHHHHHHh------CCCCcccCCcccceeEEEEEECCEEEEEEEEeCCCchhhhHHHHHhccCCCEEEEEEeCCCHHHHH
Confidence            44555554      45566778888876653 33  33567889999999999888888999999999999999999999


Q ss_pred             HHH-HHHHHHHhCCCCCCCcEEEEEeCCCCCC--------------CCCHHHHHhHcCccccCCcce-EEEEeeecCCCC
Q 029517           97 DSK-TALEKVLRNEDLQGAPLLILANKQDLPD--------------AVSADELARYLDLKKLDERVC-MFEAVSGYDGFG  160 (192)
Q Consensus        97 ~~~-~~~~~i~~~~~~~~~piiiv~nK~Dl~~--------------~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~g  160 (192)
                      .+. .|+..+....  .++|+++|+||+|+..              .+..+++.+++.     ..+. +++++||++|.|
T Consensus       244 ~~~~~~~~~~~~~~--~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~-----~~~~~~~~~~Sa~~~~g  316 (332)
T 2wkq_A          244 HVRAKWYPEVRHHC--PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAK-----EIGAVKYLECSALTQRG  316 (332)
T ss_dssp             HHHHTHHHHHHHHC--TTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHH-----HTTCSEEEECCTTTCTT
T ss_pred             HHHHHHHHHHHhhC--CCCcEEEEEEchhcccccchhhhccccccccccHHHHHHHHH-----HcCCcEEEEecCCCCcC
Confidence            887 6777776653  3799999999999853              344555555554     3344 899999999999


Q ss_pred             HHHHHHHHHHHHHh
Q 029517          161 IKESVEWLVEVMER  174 (192)
Q Consensus       161 i~e~~~~i~~~i~~  174 (192)
                      |+++|++|.+.+.+
T Consensus       317 i~~l~~~l~~~~~~  330 (332)
T 2wkq_A          317 LKTVFDEAIRAVLC  330 (332)
T ss_dssp             HHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999999988764

>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=99.84  E-value=4.2e-20  Score=138.62  Aligned_cols=154  Identities=16%  Similarity=0.174  Sum_probs=102.1

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCC------ccc---HHHHHHhhhcCCEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQ------PGL---RSIWEKYYEEAHAVV   84 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~------~~~---~~~~~~~~~~~d~ii   84 (192)
                      |||++|+|++....    ..+    ....|.......+......+.+|||||+      +..   ...+..++..+|++|
T Consensus        42 KSsLin~l~~~~~~----~~~----~~~~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~d~~i  113 (228)
T 2qu8_A           42 KSSFMNIVSRANVD----VQS----YSFTTKNLYVGHFDHKLNKYQIIDTPGLLDRAFENRNTIEMTTITALAHINGVIL  113 (228)
T ss_dssp             HHHHHHHHTTTCEE----EEC----C-----CEEEEEEEETTEEEEEEECTTTTTSCGGGCCHHHHHHHHHHHTSSEEEE
T ss_pred             HHHHHHHHhCCCCc----cCC----CCCcceeeeeeeeecCCCeEEEEECCCCcCcccchhhhHHHHHHHHhhccccEEE
Confidence            67777777643211    111    1123455555566667889999999998      442   123345678899999


Q ss_pred             EEEeCCCcccHH--HHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHH---HHHhHcCccccCCcc--eEEEEeee
Q 029517           85 FVIDAACPSRFE--DSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSAD---ELARYLDLKKLDERV--CMFEAVSG  155 (192)
Q Consensus        85 ~v~D~~~~~s~~--~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~---~~~~~~~~~~~~~~~--~~~~~~Sa  155 (192)
                      +|+|++++.+++  ....|+..+....  .+.|+++|+||+|+..  .+..+   .+.+++.     ..+  .+++++||
T Consensus       114 ~v~d~~~~~s~~~~~~~~~~~~l~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~SA  186 (228)
T 2qu8_A          114 FIIDISEQCGLTIKEQINLFYSIKSVF--SNKSIVIGFNKIDKCNMDSLSIDNKLLIKQILD-----NVKNPIKFSSFST  186 (228)
T ss_dssp             EEEETTCTTSSCHHHHHHHHHHHHTCC---CCCEEEEEECGGGCC--CCCHHHHHHHHHHHH-----HCCSCEEEEECCT
T ss_pred             EEEecccccCcchHHHHHHHHHHHHhh--cCCcEEEEEeCcccCCchhhHHHHHHHHHHHHH-----hcCCCceEEEEec
Confidence            999999887764  3345666665442  4799999999999975  33332   2333333     233  79999999


Q ss_pred             cCCCCHHHHHHHHHHHHHhcchhhhhh
Q 029517          156 YDGFGIKESVEWLVEVMERSKRTEMLR  182 (192)
Q Consensus       156 ~~~~gi~e~~~~i~~~i~~~~~~~~~~  182 (192)
                      ++|.||+++|++|.+.+.+.+.....+
T Consensus       187 ~~g~gi~~l~~~l~~~i~~~~~~~~~~  213 (228)
T 2qu8_A          187 LTGVGVEQAKITACELLKNDQAESILL  213 (228)
T ss_dssp             TTCTTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence            999999999999999887765444333

>4fid_A G protein alpha subunit; RAS-like domain, all-helical domain, GTP binding, nucleotide signaling protein, transducer, lipoprotein; HET: MLY MSE GDP; 2.62A {Entamoeba histolytica}

Probab=99.83  E-value=1.4e-20  Score=148.41  Aligned_cols=135  Identities=26%  Similarity=0.359  Sum_probs=112.8

Q ss_pred             CCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC----------CcccHHHHHHHHHHHHhCC
Q 029517           40 IVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA----------CPSRFEDSKTALEKVLRNE  109 (192)
Q Consensus        40 ~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~----------~~~s~~~~~~~~~~i~~~~  109 (192)
                      +.||+|+....+..+++++++|||+|+++++..|..|+++++++|+|+|++          +.+++.+...|+..+....
T Consensus       145 ~~~TiGi~~~~~~~~~v~l~iwDtaGQe~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e~~~~nr~~es~~~~~~i~~~~  224 (340)
T 4fid_A          145 RTKTTGIHEYDFVVKDIPFHLIDVGGQRSERKXWVSFFSDVDCAIFVTSLAEYDMKLYEDGNTSRLTESIAVFKDIMTNE  224 (340)
T ss_dssp             CCCCCSCEEEEEESSSCEEEEEECCSCHHHHHHHHTTSCSCSEEEEEEEGGGTTCBCC--CCSBHHHHHHHHHHHHHHCG
T ss_pred             ccceeeeEEEEEEeeeeeeccccCCCcccccccHHHHhccCCEEEEEEECCccccccccccccchHHHHHHHHHHHhhhh
Confidence            688999999999999999999999999999999999999999999999998          7889999999999998876


Q ss_pred             CCCCCcEEEEEeCCCCCC-----------------CCCHHHHHhHcCccc-----------cCC-----------cceEE
Q 029517          110 DLQGAPLLILANKQDLPD-----------------AVSADELARYLDLKK-----------LDE-----------RVCMF  150 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~-----------------~~~~~~~~~~~~~~~-----------~~~-----------~~~~~  150 (192)
                      ...+.|+++++||+|+.+                 ..+.+++.+++....           ...           +.+.+
T Consensus       225 ~~~~~piiLv~NK~DL~~eki~~~~l~~~fp~y~g~~~~e~a~~~i~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~iy~  304 (340)
T 4fid_A          225 FLKGAVKLIFLNKMDLFEEKLTKVPLNTIFPEYTGGDNAVMGAQYIQQLFTGKLQTEEMNISGADGTANIEGAVNEKVYT  304 (340)
T ss_dssp             GGTTSEEEEEEECHHHHHHHHHHSCGGGTCTTCCCTTCHHHHHHHHHHHHHTTSEEEESCC--------------CEEEE
T ss_pred             ccCCCeEEEEEECchhhhhhcCcchHHHhhhhhcCCCCHHHHHHHHHHhcccccchhhhhccccccccccccccCcceEE
Confidence            557899999999999843                 123455544332110           111           46889


Q ss_pred             EEeeecCCCCHHHHHHHHHHHHHh
Q 029517          151 EAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       151 ~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      ++|||+++.||+++|+.+.+.+..
T Consensus       305 h~TsA~dt~nv~~vF~~v~~~Il~  328 (340)
T 4fid_A          305 NPTNATDGSNIKRVFMLAVDVIMK  328 (340)
T ss_dssp             EEECTTCHHHHHHHHHHHHHHHHH
T ss_pred             EEEEeeCcHHHHHHHHHHHHHHHH
Confidence            999999999999999999998876

>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=99.83  E-value=2.8e-22  Score=153.23  Aligned_cols=118  Identities=12%  Similarity=0.137  Sum_probs=87.1

Q ss_pred             EecCEEEEEEe-----------------------CCCCcccHHHHHHhhh---------------------cCCEEEEEE
Q 029517           52 EVSNSKLVFWD-----------------------LGGQPGLRSIWEKYYE---------------------EAHAVVFVI   87 (192)
Q Consensus        52 ~~~~~~~~i~D-----------------------~~G~~~~~~~~~~~~~---------------------~~d~ii~v~   87 (192)
                      +...+.++|||                       ++|+++|...+..+++                     ++|++|+||
T Consensus        91 ~~~~~~l~i~D~~~~~D~~~~~~~~~~~~~~~~~~~g~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ad~vilV~  170 (255)
T 3c5h_A           91 DCVECKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFLLGI  170 (255)
T ss_dssp             -----CEEEEEECCCEETTTCSBTTGGGCCCHHHHHTCSEEECTTCBCCCCGGGTTCGGGSCCCBCGGGEEECCEEEEEE
T ss_pred             CCcEEEEEEEEccccccccccccccccccccccccchhhhhhhhhhhhhhccccccccccccccccccccccCCEEEEEE
Confidence            44568899999                       6666666666666666                     799999999


Q ss_pred             eCCCc--ccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHH
Q 029517           88 DAACP--SRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus        88 D~~~~--~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      |++++  .+++.+..|+..+.......++|+++|+||+|+......+++.+++.    ...+++++++||++|.||+++|
T Consensus       171 D~t~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~----~~~~~~~~e~SAk~g~gv~elf  246 (255)
T 3c5h_A          171 DVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVERYIRDAHTFAL----SKKNLQVVETSARSNVNVDLAF  246 (255)
T ss_dssp             ECBC----CHHHHHHHHHHHHHHHHHTTCCEEEEEECGGGBCHHHHHHHHHHHH----TSSSCCEEECBTTTTBSHHHHH
T ss_pred             ECCCCchhhHHHHHHHHHHHHHHhccCCCCEEEEEEcccccccHHHHHHHHHHH----hcCCCeEEEEECCCCCCHHHHH
Confidence            99998  89999999998887642124799999999999865322345555543    1236789999999999999999


Q ss_pred             HHHHHHHH
Q 029517          166 EWLVEVME  173 (192)
Q Consensus       166 ~~i~~~i~  173 (192)
                      ++|.+.+.
T Consensus       247 ~~l~~~l~  254 (255)
T 3c5h_A          247 STLVQLID  254 (255)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHhc
Confidence            99998764

>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=99.83  E-value=6.1e-21  Score=153.57  Aligned_cols=135  Identities=19%  Similarity=0.368  Sum_probs=109.2

Q ss_pred             CCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCC----------cccHHHHHHHHHHHHhCCC
Q 029517           41 VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAAC----------PSRFEDSKTALEKVLRNED  110 (192)
Q Consensus        41 ~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~----------~~s~~~~~~~~~~i~~~~~  110 (192)
                      .||+|++...+..+++++++|||+|+++++..|..|+++++++|+|||+++          ..+++++..|+..+.....
T Consensus       202 ~~TiGi~~~~~~~~~v~l~iwDtaGQe~~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~~~~  281 (402)
T 1azs_C          202 VLTSGIFETKFQVDKVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRW  281 (402)
T ss_dssp             CCCCSEEEEEEEETTEEEEEEEECCSGGGGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCTT
T ss_pred             cceeeeEEEEeecCCccceecccchhhhhhhhhHhhccCCCEEEEEEECcccccccccccccchHHHHHHHHHHHHhccc
Confidence            457888888888889999999999999999999999999999999999999          8999999999999988755


Q ss_pred             CCCCcEEEEEeCCCCCCC-----C---------------------------CHHHHHhHcC-----ccc---cCCcceEE
Q 029517          111 LQGAPLLILANKQDLPDA-----V---------------------------SADELARYLD-----LKK---LDERVCMF  150 (192)
Q Consensus       111 ~~~~piiiv~nK~Dl~~~-----~---------------------------~~~~~~~~~~-----~~~---~~~~~~~~  150 (192)
                      ..+.|+++|+||+|+...     +                           +.+++..++.     +..   -..+.+.+
T Consensus       282 ~~~~piiLvgNK~DL~~~ki~~~~~~l~~~fp~y~~~~~~~~~~~~~g~~~~~~~a~~fi~~kF~~~~~~~~~~~~~~~~  361 (402)
T 1azs_C          282 LRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYP  361 (402)
T ss_dssp             CSSCCEEEEEECHHHHHHHHHHCSSCGGGTCGGGGTCCCCSSCCCCTTCCHHHHHHHHHHHHHHHHHHHTSCTTSSCEEE
T ss_pred             CCCCeEEEEEEChhhhhhhhcccccchhhccccccccccccccccccCCcccHHHHHHHHHHHHHHhhccccccCcccEE
Confidence            578999999999998431     1                           0234444421     000   01235778


Q ss_pred             EEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          151 EAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       151 ~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                      ++|||+++.||+++|.++.+.+...
T Consensus       362 ~~TSA~d~~nV~~vF~~v~~~I~~~  386 (402)
T 1azs_C          362 HFTCAVDTENIRRVFNDCRDIIQRM  386 (402)
T ss_dssp             EECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             EEEEeecCcCHHHHHHHHHHHHHHH
Confidence            8999999999999999998877644

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.82  E-value=2.7e-20  Score=131.66  Aligned_cols=139  Identities=24%  Similarity=0.293  Sum_probs=93.0

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcc-------cHHHHHHhhhcCCEEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPG-------LRSIWEKYYEEAHAVVFV   86 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~~d~ii~v   86 (192)
                      |||++|+|.+.....       .......|.......+...+..+.+|||||++.       +...+..+++.+|++++|
T Consensus        14 KSsli~~l~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~i~v   86 (161)
T 2dyk_A           14 KSSLFNRLLKKRSAV-------VADVPGVTRDLKEGVVETDRGRFLLVDTGGLWSGDKWEKKIQEKVDRALEDAEVVLFA   86 (161)
T ss_dssp             HHHHHHHHHHCCC------------------CCEEEEEEETTEEEEEEECGGGCSSSSCCHHHHHHHHHHTTTCSEEEEE
T ss_pred             HHHHHHHHhCCCeee-------ccCCCCceecceEEEEEeCCceEEEEECCCCCCccchHHHHHHHHHHHHHhCCEEEEE
Confidence            788888877543210       011112233344455666778999999999876       455677789999999999


Q ss_pred             EeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcce-EEEEeeecCCCCHHHHH
Q 029517           87 IDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVC-MFEAVSGYDGFGIKESV  165 (192)
Q Consensus        87 ~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~e~~  165 (192)
                      +|+++..+...  .++..+...   .+.|+++|+||+|+.+.  .+++.++.      ..+. +++++||++|.|++++|
T Consensus        87 ~d~~~~~~~~~--~~~~~~~~~---~~~p~ilv~nK~Dl~~~--~~~~~~~~------~~~~~~~~~~Sa~~~~gv~~l~  153 (161)
T 2dyk_A           87 VDGRAELTQAD--YEVAEYLRR---KGKPVILVATKVDDPKH--ELYLGPLY------GLGFGDPIPTSSEHARGLEELL  153 (161)
T ss_dssp             EESSSCCCHHH--HHHHHHHHH---HTCCEEEEEECCCSGGG--GGGCGGGG------GGSSCSCEECBTTTTBSHHHHH
T ss_pred             EECCCcccHhH--HHHHHHHHh---cCCCEEEEEECcccccc--hHhHHHHH------hCCCCCeEEEecccCCChHHHH
Confidence            99988644432  344344333   46899999999998753  22333332      2234 78999999999999999


Q ss_pred             HHHHHHH
Q 029517          166 EWLVEVM  172 (192)
Q Consensus       166 ~~i~~~i  172 (192)
                      ++|.+.+
T Consensus       154 ~~l~~~l  160 (161)
T 2dyk_A          154 EAIWERL  160 (161)
T ss_dssp             HHHHHHC
T ss_pred             HHHHHhC
Confidence            9998764

>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=99.82  E-value=6.8e-20  Score=134.63  Aligned_cols=146  Identities=23%  Similarity=0.337  Sum_probs=112.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE--EEEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG--RIEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~--~~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++++|.+          ..+...+.||+|..+.  .+..  ..+.+.+||++|++.+...+..+++.++++++|+|+
T Consensus        18 KSTLl~~l~~----------~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~   87 (199)
T 2f9l_A           18 KSNLLSRFTR----------NEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDI   87 (199)
T ss_dssp             HHHHHHHHHH----------SCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEEEEEET
T ss_pred             HHHHHHHHhc----------CCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHHhcCCEEEEEEEC
Confidence            6666666654          3344566788886654  3333  347889999999998888888889999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      ++..+++.+..|+..+..... .+.|+++++||+|+.+  ....+++..++.     ..++.++++||+++.|++++|++
T Consensus        88 ~~~~s~~~~~~~~~~~~~~~~-~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~-----~~~~~~~d~Sal~~~~i~~l~~~  161 (199)
T 2f9l_A           88 AKHLTYENVERWLKELRDHAD-SNIVIMLVGNKSDLRHLRAVPTDEARAFAE-----KNNLSFIETSALDSTNVEEAFKN  161 (199)
T ss_dssp             TCHHHHHTHHHHHHHHHHHSC-TTCEEEEEEECTTCGGGCCSCHHHHHHHHH-----HTTCEEEECCTTTCTTHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHHhcC-CCCeEEEEEECcccccccCcCHHHHHHHHH-----HcCCeEEEEeCCCCCCHHHHHHH
Confidence            999899888888877765321 4689999999999965  455666766665     45678999999999999999999


Q ss_pred             HHHHHHhc
Q 029517          168 LVEVMERS  175 (192)
Q Consensus       168 i~~~i~~~  175 (192)
                      |.+.+.+.
T Consensus       162 l~~~~~~~  169 (199)
T 2f9l_A          162 ILTEIYRI  169 (199)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99988654

>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=99.82  E-value=2.4e-20  Score=134.22  Aligned_cols=141  Identities=15%  Similarity=0.156  Sum_probs=95.0

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCccc----HH----HHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGL----RS----IWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~----~~----~~~~~~~~~d~ii~   85 (192)
                      |||++|+|.+......       ......|.+.....+...+..+.+|||||++++    ..    ....+++.+|++++
T Consensus        17 KStLl~~l~~~~~~~~-------~~~~~~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~ad~~i~   89 (172)
T 2gj8_A           17 KSSLLNALAGREAAIV-------TDIAGTTRDVLREHIHIDGMPLHIIDTAGLREASDEVERIGIERAWQEIEQADRVLF   89 (172)
T ss_dssp             HHHHHHHHHTSCCSCC-------CSSTTCCCSCEEEEEEETTEEEEEEECCCCSCCSSHHHHHHHHHHHHHHHTCSEEEE
T ss_pred             HHHHHHHHhCCCccee-------eCCCCceeceeeEEEEECCeEEEEEECCCcccchhHHHHHHHHHHHHHHHhCCEEEE
Confidence            7888888865422111       111122333334456666778999999998643    11    12246899999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHH
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      |+|+++..+++. ..|+..+..... .++|+++|+||+|+.+..     .++..     ..+.+++++||++|.||+++|
T Consensus        90 v~D~~~~~s~~~-~~~~~~~~~~~~-~~~p~ilv~NK~Dl~~~~-----~~~~~-----~~~~~~~~~SA~~g~gv~~l~  157 (172)
T 2gj8_A           90 MVDGTTTDAVDP-AEIWPEFIARLP-AKLPITVVRNKADITGET-----LGMSE-----VNGHALIRLSARTGEGVDVLR  157 (172)
T ss_dssp             EEETTTCCCCSH-HHHCHHHHHHSC-TTCCEEEEEECHHHHCCC-----CEEEE-----ETTEEEEECCTTTCTTHHHHH
T ss_pred             EEECCCCCCHHH-HHHHHHHHHhcc-cCCCEEEEEECccCCcch-----hhhhh-----ccCCceEEEeCCCCCCHHHHH
Confidence            999998887753 466666655432 479999999999985421     01111     236789999999999999999


Q ss_pred             HHHHHHHH
Q 029517          166 EWLVEVME  173 (192)
Q Consensus       166 ~~i~~~i~  173 (192)
                      ++|.+.+.
T Consensus       158 ~~l~~~~~  165 (172)
T 2gj8_A          158 NHLKQSMG  165 (172)
T ss_dssp             HHHHHHC-
T ss_pred             HHHHHHhh
Confidence            99987653

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.81  E-value=1.8e-19  Score=129.48  Aligned_cols=148  Identities=17%  Similarity=0.242  Sum_probs=101.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcc--eEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVG--LNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAAC   91 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g--~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~   91 (192)
                      |||++|+|++.          .+...+.|+++  .....+...+..+.+|||||++++...+..+++.+|++++|+|+++
T Consensus        21 Kssl~~~l~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   90 (178)
T 2lkc_A           21 KTTLLDAIRHS----------KVTEQEAGGITQHIGAYQVTVNDKKITFLDTPGHEAFTTMRARGAQVTDIVILVVAADD   90 (178)
T ss_dssp             HHHHHHHHHTT----------CSSCSSCCSSSTTCCCCEEEETTEEEEESCCCSSSSSSCSCCSSCCCCCEEEEEEETTC
T ss_pred             HHHHHHHHhCC----------ccccCCCCceeEeeeEEEEEeCCceEEEEECCCCHHHHHHHHHHHhhCCEEEEEEECCC
Confidence            67777776542          23333334333  2233466677889999999999988888888899999999999987


Q ss_pred             cccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccc-c-CCc--ceEEEEeeecCCCCHHHHHHH
Q 029517           92 PSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKK-L-DER--VCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        92 ~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~-~-~~~--~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +...... +.+..+..    .++|+++|+||+|+... ..+++.+.+.... . ...  .++++++||++|.||+++|++
T Consensus        91 ~~~~~~~-~~l~~~~~----~~~p~ilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~  164 (178)
T 2lkc_A           91 GVMPQTV-EAINHAKA----ANVPIIVAINKMDKPEA-NPDRVMQELMEYNLVPEEWGGDTIFCKLSAKTKEGLDHLLEM  164 (178)
T ss_dssp             CCCHHHH-HHHHHHGG----GSCCEEEEEETTTSSCS-CHHHHHHHHTTTTCCBTTTTSSEEEEECCSSSSHHHHHHHHH
T ss_pred             CCcHHHH-HHHHHHHh----CCCCEEEEEECccCCcC-CHHHHHHHHHhcCcChhHcCCcccEEEEecCCCCCHHHHHHH
Confidence            5433322 23333322    36899999999999764 3444444443111 1 111  278999999999999999999


Q ss_pred             HHHHHHhcch
Q 029517          168 LVEVMERSKR  177 (192)
Q Consensus       168 i~~~i~~~~~  177 (192)
                      |.+.+...+.
T Consensus       165 l~~~~~~~~~  174 (178)
T 2lkc_A          165 ILLVSEMEEL  174 (178)
T ss_dssp             HHHHHHHTTT
T ss_pred             HHHhhhhhcc
Confidence            9998776543

>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=99.81  E-value=7.7e-20  Score=133.50  Aligned_cols=108  Identities=19%  Similarity=0.236  Sum_probs=81.9

Q ss_pred             EEEEEeCCC----------CcccHHHHHHhhhcC---CEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCC
Q 029517           57 KLVFWDLGG----------QPGLRSIWEKYYEEA---HAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQ  123 (192)
Q Consensus        57 ~~~i~D~~G----------~~~~~~~~~~~~~~~---d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~  123 (192)
                      ++.+|||||          ++.+...+..+++.+   |++++|+|+++..++.... ++ .....   .+.|+++|+||+
T Consensus        70 ~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~-~~-~~~~~---~~~p~i~v~nK~  144 (195)
T 1svi_A           70 ELHFVDVPGYGFAKVSKSEREAWGRMIETYITTREELKAVVQIVDLRHAPSNDDVQ-MY-EFLKY---YGIPVIVIATKA  144 (195)
T ss_dssp             TEEEEECCCBCCCSSCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHH-HH-HHHHH---TTCCEEEEEECG
T ss_pred             cEEEEECCCCCccccCHHHHHHHHHHHHHHHhhhhcCCEEEEEEECCCCCCHHHHH-HH-HHHHH---cCCCEEEEEECc
Confidence            699999999          777888888888887   9999999999887776632 12 22222   468999999999


Q ss_pred             CCCCCCCH----HHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517          124 DLPDAVSA----DELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus       124 Dl~~~~~~----~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      |+......    +++.+.+.    ...+.+++++||++|.||+++|++|.+.+.
T Consensus       145 Dl~~~~~~~~~~~~~~~~~~----~~~~~~~~~~Sa~~~~gv~~l~~~l~~~l~  194 (195)
T 1svi_A          145 DKIPKGKWDKHAKVVRQTLN----IDPEDELILFSSETKKGKDEAWGAIKKMIN  194 (195)
T ss_dssp             GGSCGGGHHHHHHHHHHHHT----CCTTSEEEECCTTTCTTHHHHHHHHHHHHT
T ss_pred             ccCChHHHHHHHHHHHHHHc----ccCCCceEEEEccCCCCHHHHHHHHHHHhc
Confidence            99763322    23333232    134689999999999999999999988764

>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=99.81  E-value=1e-20  Score=150.50  Aligned_cols=135  Identities=21%  Similarity=0.338  Sum_probs=102.8

Q ss_pred             CCCcceEEEEEEe------cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC----------CcccHHHHHHHHHH
Q 029517           41 VPTVGLNIGRIEV------SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA----------CPSRFEDSKTALEK  104 (192)
Q Consensus        41 ~~T~g~~~~~~~~------~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~----------~~~s~~~~~~~~~~  104 (192)
                      .+|.|+....+..      +.+++++|||+|+++++..|..|+++++++|+|+|++          +.++++++..|+..
T Consensus       162 ~~T~Gi~e~~f~~~~~~~~~~v~l~iwDtaGQe~~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~  241 (354)
T 2xtz_A          162 VRTTGVVEIQFSPVGENKKSGEVYRLFDVGGQRNERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDW  241 (354)
T ss_dssp             CCCCSEEEEEECCCCE------EEEEEEECCSTTGGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHH
T ss_pred             ccccceeeEEEEeccCccccceeeEEEECCCchhhhHHHHHHhCCCCEEEEEEECcccccccccccchhHHHHHHHHHHH
Confidence            3456666666554      4689999999999999999999999999999999998          78899999999999


Q ss_pred             HHhCCCCCCCcEEEEEeCCCCCCC----C-------------------CHHHHHhHcCcc-------c----cCCcceEE
Q 029517          105 VLRNEDLQGAPLLILANKQDLPDA----V-------------------SADELARYLDLK-------K----LDERVCMF  150 (192)
Q Consensus       105 i~~~~~~~~~piiiv~nK~Dl~~~----~-------------------~~~~~~~~~~~~-------~----~~~~~~~~  150 (192)
                      +.......+.|+++|+||+|+.+.    +                   +.+++.+++...       .    .....+.+
T Consensus       242 i~~~~~~~~~piiLvgNK~DL~~~k~~~v~l~~~~~fp~y~~~~~~~~~~~~a~~~~~~~f~~l~~~~~~~~~~~~~~~~  321 (354)
T 2xtz_A          242 VLKQPCFEKTSFMLFLNKFDIFEKKVLDVPLNVCEWFRDYQPVSSGKQEIEHAYEFVKKKFEELYYQNTAPDRVDRVFKI  321 (354)
T ss_dssp             HHTCGGGSSCEEEEEEECHHHHHHHTTTSCGGGSGGGTTCCCCSSHHHHHHHHHHHHHHHHHHHHHHTCCTTTTTSCEEE
T ss_pred             HHhccccCCCeEEEEEECcchhhhhcccccccccccccccccccCCCcCHHHHHHHHHHHHHHhhhccccccccCcceEE
Confidence            987654468999999999998431    1                   134444443210       0    00235667


Q ss_pred             EEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          151 EAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       151 ~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                      ++|||+++.||+++|+++.+.+.+.
T Consensus       322 ~eTSA~d~~nV~~vF~~v~~~I~~~  346 (354)
T 2xtz_A          322 YRTTALDQKLVKKTFKLVDETLRRR  346 (354)
T ss_dssp             EECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             EEEEeecchhHHHHHHHHHHHHHHH
Confidence            9999999999999999999887643

>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=99.81  E-value=1.5e-19  Score=141.64  Aligned_cols=148  Identities=20%  Similarity=0.200  Sum_probs=105.5

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEec-CEEEEEEeCCCCccc----------HHHHHHhhhcCC
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVS-NSKLVFWDLGGQPGL----------RSIWEKYYEEAH   81 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~-~~~~~i~D~~G~~~~----------~~~~~~~~~~~d   81 (192)
                      =|||++|+|+++.....+.       ....|.......+... +.++.+|||||+..+          ...+..+++.+|
T Consensus        22 GKSTLin~l~g~~~~i~s~-------~~~tT~~~~~~~~~~~~~~~i~lvDTPG~~~~~~~~~l~~~~~~~~~~~l~~aD   94 (308)
T 3iev_A           22 GKSTLLNNLLGTKVSIISP-------KAGTTRMRVLGVKNIPNEAQIIFLDTPGIYEPKKSDVLGHSMVEIAKQSLEEAD   94 (308)
T ss_dssp             SHHHHHHHHHTSCCSCCCS-------SSCCCCSCEEEEEEETTTEEEEEEECCCCCCCCTTCHHHHHHHHHHHHHHHHCS
T ss_pred             cHHHHHHHHhCCCccccCC-------CCCceeeEEEEEEecCCCCeEEEEECcCCCccccchhHHHHHHHHHHHHhhcCC
Confidence            3899999888654332222       2233344444556666 899999999998543          356677889999


Q ss_pred             EEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCC-CC-CCHHHHHhHcCccccCCcceEEEEeeecCCC
Q 029517           82 AVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLP-DA-VSADELARYLDLKKLDERVCMFEAVSGYDGF  159 (192)
Q Consensus        82 ~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~-~~-~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  159 (192)
                      ++++|+|+++..+......|+..+..    .+.|+++|+||+|+. .. ...+.+..+....   ....+++++||++|.
T Consensus        95 ~il~VvD~~~~~~~~~~~~~~~~l~~----~~~pvilV~NK~Dl~~~~~~~~~~~~~l~~~~---~~~~~i~~vSA~~g~  167 (308)
T 3iev_A           95 VILFMIDATEGWRPRDEEIYQNFIKP----LNKPVIVVINKIDKIGPAKNVLPLIDEIHKKH---PELTEIVPISALKGA  167 (308)
T ss_dssp             EEEEEEETTTBSCHHHHHHHHHHTGG----GCCCEEEEEECGGGSSSGGGGHHHHHHHHHHC---TTCCCEEECBTTTTB
T ss_pred             EEEEEEeCCCCCCchhHHHHHHHHHh----cCCCEEEEEECccCCCCHHHHHHHHHHHHHhc---cCCCeEEEEeCCCCC
Confidence            99999999998888887776776655    368999999999997 32 2222333332210   123679999999999


Q ss_pred             CHHHHHHHHHHHHHh
Q 029517          160 GIKESVEWLVEVMER  174 (192)
Q Consensus       160 gi~e~~~~i~~~i~~  174 (192)
                      |+++++++|.+.+..
T Consensus       168 gv~~L~~~l~~~l~~  182 (308)
T 3iev_A          168 NLDELVKTILKYLPE  182 (308)
T ss_dssp             SHHHHHHHHHHHSCB
T ss_pred             CHHHHHHHHHHhCcc
Confidence            999999999987754

>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=99.80  E-value=2.9e-19  Score=127.55  Aligned_cols=136  Identities=23%  Similarity=0.214  Sum_probs=92.5

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCC--cceEEEEEEecCEEEEEEeCCCCcccH------HHHHHhhh--cCCEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPT--VGLNIGRIEVSNSKLVFWDLGGQPGLR------SIWEKYYE--EAHAV   83 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T--~g~~~~~~~~~~~~~~i~D~~G~~~~~------~~~~~~~~--~~d~i   83 (192)
                      |||++|+|.+...          ...+.|+  .......+...+..+.+|||||++++.      .....+++  +++++
T Consensus        16 KStL~~~l~~~~~----------~~~~~~~~t~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (165)
T 2wji_A           16 KSTIFNALTGENV----------YIGNWPGVTVEKKEGEFEYNGEKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLV   85 (165)
T ss_dssp             HHHHHHHHHCCSS----------SCC-----CCCCCEEEEEETTEEEEEEECCCCSCSSSSSHHHHHHHHHHHHHCCSEE
T ss_pred             HHHHHHHHhCCCe----------eccCCCCcceeeeEEEEEECCcEEEEEECCCcccCCCcchhHHHHHHHHhcCCCCEE
Confidence            7888887764321          1112233  233344566667899999999998763      34456665  89999


Q ss_pred             EEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCH
Q 029517           84 VFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGI  161 (192)
Q Consensus        84 i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  161 (192)
                      ++|+|+++.   +....|+..+.+.    +.|+++|+||+|+..  .+.. +..++..     ..+.+++++||++|.||
T Consensus        86 i~v~D~~~~---~~~~~~~~~~~~~----~~p~ilv~nK~Dl~~~~~~~~-~~~~~~~-----~~~~~~~~~SA~~~~~v  152 (165)
T 2wji_A           86 VNIVDATAL---ERNLYLTLQLMEM----GANLLLALNKMDLAKSLGIEI-DVDKLEK-----ILGVKVVPLSAAKKMGI  152 (165)
T ss_dssp             EEEEETTCH---HHHHHHHHHHHHT----TCCEEEEEECHHHHHHTTCCC-CHHHHHH-----HHTSCEEECBGGGTBSH
T ss_pred             EEEecCCch---hHhHHHHHHHHhc----CCCEEEEEEchHhccccChhh-HHHHHHH-----HhCCCEEEEEcCCCCCH
Confidence            999999874   4455676666543    689999999999853  2211 2233332     22468999999999999


Q ss_pred             HHHHHHHHHHH
Q 029517          162 KESVEWLVEVM  172 (192)
Q Consensus       162 ~e~~~~i~~~i  172 (192)
                      +++|++|.+.+
T Consensus       153 ~~l~~~l~~~~  163 (165)
T 2wji_A          153 EELKKAISIAV  163 (165)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHh
Confidence            99999998765

>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=99.79  E-value=4.2e-18  Score=140.48  Aligned_cols=141  Identities=22%  Similarity=0.286  Sum_probs=102.5

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCc-ccH--------HHHHHhhhcCCEE
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQP-GLR--------SIWEKYYEEAHAV   83 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~-~~~--------~~~~~~~~~~d~i   83 (192)
                      =|||++|+|++.-.....+.++.       |.......+...+..+.+|||||.. .+.        .....+++.+|++
T Consensus       255 GKSSLln~L~~~~~a~vs~~~gT-------T~d~~~~~i~~~g~~~~l~DTaG~~~~~~~~ve~~gi~~~~~~~~~aD~v  327 (482)
T 1xzp_A          255 GKSTLLNRLLNEDRAIVTDIPGT-------TRDVISEEIVIRGILFRIVDTAGVRSETNDLVERLGIERTLQEIEKADIV  327 (482)
T ss_dssp             HTCHHHHHHHHHTBCCCCCSSCC-------SSCSCCEEEEETTEEEEEEESSCCCSSCCTTCCCCCHHHHHHHHHHCSEE
T ss_pred             cHHHHHHHHHCCCCCccCCCCCe-------eeeeEEEEEecCCeEEEEEECCCccccchhhHHHHHHHHHHHHhhcccEE
Confidence            38999999988744333333332       3333344566678899999999987 542        2345688999999


Q ss_pred             EEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHH
Q 029517           84 VFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKE  163 (192)
Q Consensus        84 i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e  163 (192)
                      |+|+|++++.+++... ++..+      .++|+++|+||+|+....+.+++.+++.      .+.+++++||++|.||++
T Consensus       328 l~VvD~s~~~s~~~~~-il~~l------~~~piivV~NK~DL~~~~~~~~~~~~~~------~~~~~i~iSAktg~Gi~e  394 (482)
T 1xzp_A          328 LFVLDASSPLDEEDRK-ILERI------KNKRYLVVINKVDVVEKINEEEIKNKLG------TDRHMVKISALKGEGLEK  394 (482)
T ss_dssp             EEEEETTSCCCHHHHH-HHHHH------TTSSEEEEEEECSSCCCCCHHHHHHHHT------CSTTEEEEEGGGTCCHHH
T ss_pred             EEEecCCCCCCHHHHH-HHHHh------cCCCEEEEEECcccccccCHHHHHHHhc------CCCcEEEEECCCCCCHHH
Confidence            9999999888776532 22222      3689999999999987656666665543      235789999999999999


Q ss_pred             HHHHHHHHHH
Q 029517          164 SVEWLVEVME  173 (192)
Q Consensus       164 ~~~~i~~~i~  173 (192)
                      ++++|.+.+.
T Consensus       395 L~~~l~~~~~  404 (482)
T 1xzp_A          395 LEESIYRETQ  404 (482)
T ss_dssp             HHHHHHHHTH
T ss_pred             HHHHHHHHHh
Confidence            9999998755

>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=99.78  E-value=1.1e-18  Score=127.55  Aligned_cols=143  Identities=21%  Similarity=0.327  Sum_probs=111.8

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEE--EEEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIG--RIEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~--~~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|.+          ..+...+.||+|.++.  .+..  ..+.+++||++|++++...+..+++.++++++|+|.
T Consensus        42 KSTLl~~l~~----------~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~  111 (191)
T 1oix_A           42 KSNLLSRFTR----------NEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDI  111 (191)
T ss_dssp             HHHHHHHHHH----------SCCCCSCCCCCSEEEEEEEEEETTEEEEEEEEEECSCCSSSCCCHHHHTTCCEEEEEEET
T ss_pred             HHHHHHHHhc----------CCCCCCCCCccceEEEEEEEEECCEEEEEEEEECCCCcchhhhhHHHhhcCCEEEEEEEC
Confidence            5666666544          3445667889987764  3433  346778899999998888888889999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      ++..+++.+..|+..+..... .+.|+++++||+|+.+  ....+++..++.     ..++.++++||+++.|++++|++
T Consensus       112 ~~~~s~~~~~~~~~~~~~~~~-~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~-----~~~~~~ld~Sald~~~v~~l~~~  185 (191)
T 1oix_A          112 AKHLTYENVERWLKELRDHAD-SNIVIMLVGNKSDLRHLRAVPTDEARAFAE-----KNGLSFIETSALDSTNVEAAFQT  185 (191)
T ss_dssp             TCHHHHHTHHHHHHHHHHHSC-TTCEEEEEEECGGGGGGCCSCHHHHHHHHH-----HTTCEEEECCTTTCTTHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHHhcC-CCCcEEEEEECcccccccccCHHHHHHHHH-----HcCCEEEEEeCCCCCCHHHHHHH
Confidence            999888888888877655321 4689999999999865  455666776665     45678999999999999999999


Q ss_pred             HHHHH
Q 029517          168 LVEVM  172 (192)
Q Consensus       168 i~~~i  172 (192)
                      |.+.+
T Consensus       186 l~~~i  190 (191)
T 1oix_A          186 ILTEI  190 (191)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            98765

>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=99.78  E-value=1.3e-19  Score=131.49  Aligned_cols=152  Identities=17%  Similarity=0.110  Sum_probs=97.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCC-----------CcccHHHHHHhhhc-CC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGG-----------QPGLRSIWEKYYEE-AH   81 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G-----------~~~~~~~~~~~~~~-~d   81 (192)
                      |||++|+|++.          .+...+.|+.......+...  .+.+|||||           ++.+...+..+++. ++
T Consensus        14 KSsli~~l~~~----------~~~~~~~~~~t~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (190)
T 2cxx_A           14 KSTLIYRLTGK----------KVRRGKRPGVTRKIIEIEWK--NHKIIDMPGFGFMMGLPKEVQERIKDEIVHFIEDNAK   81 (190)
T ss_dssp             HHHHHHHHHSC----------CCSSSSSTTCTTSCEEEEET--TEEEEECCCBSCCTTSCHHHHHHHHHHHHHHHHHHGG
T ss_pred             HHHHHHHHhCc----------CCccCCCCCccceeEEEecC--CEEEEECCCccccccCCHHHHHHHHHHHHHHHHhhhc
Confidence            67777777642          23344455554444444443  789999999           67788888888887 77


Q ss_pred             EEEEEEeCCCcccHHHH-HHHHHH--------HHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccC--CcceEE
Q 029517           82 AVVFVIDAACPSRFEDS-KTALEK--------VLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLD--ERVCMF  150 (192)
Q Consensus        82 ~ii~v~D~~~~~s~~~~-~~~~~~--------i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~  150 (192)
                      ++++|+++.+..++..+ ..|...        +.......++|+++|+||+|+.... .+++.++.......  ....++
T Consensus        82 ~~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~-~~~~~~~~~~~~~~~~~~~~~~  160 (190)
T 2cxx_A           82 NIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKNV-QEVINFLAEKFEVPLSEIDKVF  160 (190)
T ss_dssp             GCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSCH-HHHHHHHHHHHTCCGGGHHHHE
T ss_pred             cCCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCceEEEeehHhccCcH-HHHHHHHHHHhhhhhhccCCcE
Confidence            77777777777777765 444431        1111111479999999999997643 33344443311010  002368


Q ss_pred             EEeeecCCCCHHHHHHHHHHHHHhcchh
Q 029517          151 EAVSGYDGFGIKESVEWLVEVMERSKRT  178 (192)
Q Consensus       151 ~~~Sa~~~~gi~e~~~~i~~~i~~~~~~  178 (192)
                      +++||++|.||+++|++|.+.+.+.+.+
T Consensus       161 ~~~Sa~~~~~v~~l~~~l~~~~~~~~~~  188 (190)
T 2cxx_A          161 IPISAKFGDNIERLKNRIFEVIRERQGR  188 (190)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHHHHC---
T ss_pred             EEEecCCCCCHHHHHHHHHHhcchhhcc
Confidence            9999999999999999999988776543

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.78  E-value=3.4e-19  Score=132.86  Aligned_cols=152  Identities=14%  Similarity=0.144  Sum_probs=94.1

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEE-ecCEEEEEEeCCCC----------cccHHHHHHhhhc---
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIE-VSNSKLVFWDLGGQ----------PGLRSIWEKYYEE---   79 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~-~~~~~~~i~D~~G~----------~~~~~~~~~~~~~---   79 (192)
                      |||++|+|+++-..      .........|....+..+. ..+..+.+|||||.          +.+...+..+++.   
T Consensus        42 KSslin~l~~~~~~------~~~~~~~~~t~~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (223)
T 4dhe_A           42 KSTAINVLCNQKRL------AFASKTPGRTQHINYFSVGPAAEPVAHLVDLPGYGYAEVPGAAKAHWEQLLSSYLQTRPQ  115 (223)
T ss_dssp             HHHHHHHHTTCSSS------SCTTCCCCSCCCEEEEEESCTTSCSEEEEECCCCCSSCCCSTHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHhCCCcc------eeecCCCCcccceEEEEecCCCCCcEEEEcCCCCCcccCChhhHHHHHHHHHHHHhcCcC
Confidence            67777776654210      0111222334454455554 44678999999994          4456667777777   


Q ss_pred             CCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCH----HHHHhHcCcc-c-cCCcceEEEEe
Q 029517           80 AHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSA----DELARYLDLK-K-LDERVCMFEAV  153 (192)
Q Consensus        80 ~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~----~~~~~~~~~~-~-~~~~~~~~~~~  153 (192)
                      +|++++|+|+++..+.. -..++..+..    .++|+++|+||+|+......    +++.+.+... . ......+++++
T Consensus       116 ~d~vi~v~d~~~~~~~~-~~~~~~~l~~----~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~  190 (223)
T 4dhe_A          116 LCGMILMMDARRPLTEL-DRRMIEWFAP----TGKPIHSLLTKCDKLTRQESINALRATQKSLDAYRDAGYAGKLTVQLF  190 (223)
T ss_dssp             EEEEEEEEETTSCCCHH-HHHHHHHHGG----GCCCEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHHTCCSCEEEEEE
T ss_pred             cCEEEEEEeCCCCCCHH-HHHHHHHHHh----cCCCEEEEEeccccCChhhHHHHHHHHHHHHHhhhhcccCCCCeEEEe
Confidence            77799999998764422 2234443333    36899999999998753221    1122222100 0 00246889999


Q ss_pred             eecCCCCHHHHHHHHHHHHHhcc
Q 029517          154 SGYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       154 Sa~~~~gi~e~~~~i~~~i~~~~  176 (192)
                      ||++|.||+++|++|.+.+....
T Consensus       191 SA~~g~gv~~l~~~l~~~~~~~~  213 (223)
T 4dhe_A          191 SALKRTGLDDAHALIESWLRPAA  213 (223)
T ss_dssp             BTTTTBSHHHHHHHHHHHHC---
T ss_pred             ecCCCcCHHHHHHHHHHhcCccC
Confidence            99999999999999999876543

>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=99.77  E-value=1e-18  Score=143.06  Aligned_cols=144  Identities=21%  Similarity=0.243  Sum_probs=94.6

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcc---------cHHHHHHhhhcCCEE
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPG---------LRSIWEKYYEEAHAV   83 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~---------~~~~~~~~~~~~d~i   83 (192)
                      =|||+||+|+++....+.+.++.+.+.       .+..+...+..+.+|||||.+.         +...+..+++++|++
T Consensus        13 GKStL~nrl~~~~~~~v~~~~g~T~d~-------~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~~ad~i   85 (439)
T 1mky_A           13 GKSTLFNKLVKKKKAIVEDEEGVTRDP-------VQDTVEWYGKTFKLVDTCGVFDNPQDIISQKMKEVTLNMIREADLV   85 (439)
T ss_dssp             SHHHHHHHHHC--------------CC-------SEEEEEETTEEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTCSEE
T ss_pred             CHHHHHHHHhCCCCceecCCCCCccce-------eeEEEEECCeEEEEEECCCccccccchHHHHHHHHHHHHHHhCCEE
Confidence            489999999976544444444333333       3556666788899999999763         355677889999999


Q ss_pred             EEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHH-HhHcCccccCCcce-EEEEeeecCCCCH
Q 029517           84 VFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADEL-ARYLDLKKLDERVC-MFEAVSGYDGFGI  161 (192)
Q Consensus        84 i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~-~~~~~~~~~~~~~~-~~~~~Sa~~~~gi  161 (192)
                      ++|+|++++.+...  .++..+++.   .++|+++|+||+|+.... ..++ .++..      .++ +++++||++|.|+
T Consensus        86 l~V~D~~~~~~~~d--~~i~~~l~~---~~~p~ilv~NK~D~~~~~-~~~~~~~~~~------lg~~~~~~iSA~~g~gv  153 (439)
T 1mky_A           86 LFVVDGKRGITKED--ESLADFLRK---STVDTILVANKAENLREF-EREVKPELYS------LGFGEPIPVSAEHNINL  153 (439)
T ss_dssp             EEEEETTTCCCHHH--HHHHHHHHH---HTCCEEEEEESCCSHHHH-HHHTHHHHGG------GSSCSCEECBTTTTBSH
T ss_pred             EEEEECCCCCCHHH--HHHHHHHHH---cCCCEEEEEeCCCCcccc-HHHHHHHHHh------cCCCCEEEEeccCCCCH
Confidence            99999987655433  334344333   368999999999975321 1222 33332      233 5789999999999


Q ss_pred             HHHHHHHHHHHHhc
Q 029517          162 KESVEWLVEVMERS  175 (192)
Q Consensus       162 ~e~~~~i~~~i~~~  175 (192)
                      +++++++.+.+...
T Consensus       154 ~~L~~~i~~~l~~~  167 (439)
T 1mky_A          154 DTMLETIIKKLEEK  167 (439)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhcccc
Confidence            99999999988643

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.77  E-value=4.8e-19  Score=128.95  Aligned_cols=109  Identities=21%  Similarity=0.311  Sum_probs=79.5

Q ss_pred             CEEEEEEeCCC----------CcccHHHHHHhhhcC---CEEEEEEeCCCcccHHH--HHHHHHHHHhCCCCCCCcEEEE
Q 029517           55 NSKLVFWDLGG----------QPGLRSIWEKYYEEA---HAVVFVIDAACPSRFED--SKTALEKVLRNEDLQGAPLLIL  119 (192)
Q Consensus        55 ~~~~~i~D~~G----------~~~~~~~~~~~~~~~---d~ii~v~D~~~~~s~~~--~~~~~~~i~~~~~~~~~piiiv  119 (192)
                      +..+.+|||||          ++.+...+..+++.+   +++++|+|+++..+...  +..|+..       .+.|+++|
T Consensus        67 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~-------~~~p~i~v  139 (195)
T 3pqc_A           67 NSKYYFVDLPGYGYAKVSKKERMLWKRLVEDYFKNRWSLQMVFLLVDGRIPPQDSDLMMVEWMKS-------LNIPFTIV  139 (195)
T ss_dssp             TTTEEEEECCCBSSSCCCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHH-------TTCCEEEE
T ss_pred             CCcEEEEECCCCccccCChhhHHHHHHHHHHHHhcCcCceEEEEEecCCCCCCHHHHHHHHHHHH-------cCCCEEEE
Confidence            44688999999          667777888888876   99999999987644433  2333332       26899999


Q ss_pred             EeCCCCCCCCCHH----HHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          120 ANKQDLPDAVSAD----ELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       120 ~nK~Dl~~~~~~~----~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      +||+|+......+    ++.+.+.    ....++++++||++|.||+++|++|.+.+.+
T Consensus       140 ~nK~Dl~~~~~~~~~~~~~~~~~~----~~~~~~~~~~Sa~~~~gv~~l~~~l~~~l~~  194 (195)
T 3pqc_A          140 LTKMDKVKMSERAKKLEEHRKVFS----KYGEYTIIPTSSVTGEGISELLDLISTLLKE  194 (195)
T ss_dssp             EECGGGSCGGGHHHHHHHHHHHHH----SSCCSCEEECCTTTCTTHHHHHHHHHHHHC-
T ss_pred             EEChhcCChHHHHHHHHHHHHHHh----hcCCCceEEEecCCCCCHHHHHHHHHHHhhc
Confidence            9999997533332    3333333    1245789999999999999999999987753

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.77  E-value=4.8e-19  Score=148.31  Aligned_cols=133  Identities=16%  Similarity=0.274  Sum_probs=94.9

Q ss_pred             CCCCCCCCCCcceEEEEEE------------ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHH
Q 029517           34 GLPPDRIVPTVGLNIGRIE------------VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTA  101 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~~~------------~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~  101 (192)
                      +.+...+.||+|.++....            ...+.+.+||+||++.+...+..+++.+|++|+|+|+++.   +.+..|
T Consensus        64 ~~~~~~~~~t~g~~~~~~~~~~~~~v~~~~~~~~~~~~i~Dt~G~e~~~~~~~~~l~~~d~ii~V~D~s~~---~~~~~~  140 (535)
T 3dpu_A           64 ETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQEIMHASHQFFMTRSSVYMLLLDSRTD---SNKHYW  140 (535)
T ss_dssp             -----------CCCEEEEEGGGSGGGTTCSTTTTCEEEEECCCSCCTTTTTCHHHHHSSEEEEEEECGGGG---GGHHHH
T ss_pred             CCCCCCCCCccceEEEEeccccccceeecCCCceEEEEEEECCcHHHHHHHHHHHccCCcEEEEEEeCCCc---hhHHHH
Confidence            3445677889998877531            2368999999999999998899999999999999999865   445567


Q ss_pred             HHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhcc
Q 029517          102 LEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       102 ~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~~  176 (192)
                      +..+....  .+.|+++|+||+|+..  .+..+++.+.+.     ..+.+++++||++|.||++++++|.+.+.+..
T Consensus       141 ~~~l~~~~--~~~pvilV~NK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~vSA~~g~gi~eL~~~l~~~~~~~~  210 (535)
T 3dpu_A          141 LRHIEKYG--GKSPVIVVMNKIDENPSYNIEQKKINERFP-----AIENRFHRISCKNGDGVESIAKSLKSAVLHPD  210 (535)
T ss_dssp             HHHHHHHS--SSCCEEEEECCTTTCTTCCCCHHHHHHHCG-----GGTTCEEECCC-----CTTHHHHHHHHHTCTT
T ss_pred             HHHHHHhC--CCCCEEEEEECCCcccccccCHHHHHHHHH-----hcCCceEEEecCcccCHHHHHHHHHHHHhccc
Confidence            77777654  3689999999999975  456677777776     55678999999999999999999999887543

>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=99.77  E-value=6.3e-19  Score=145.25  Aligned_cols=144  Identities=18%  Similarity=0.155  Sum_probs=84.0

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHH--------HhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWE--------KYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~--------~~~~~~d~ii~   85 (192)
                      |||++|+|+++-....+..++       .|.......+...++.+.+|||||+..+...+.        .+++.+|++++
T Consensus       246 KSSLln~L~~~~~a~vs~~~g-------tT~d~~~~~i~~~g~~l~liDT~G~~~~~~~ve~~gi~~~~~~~~~aD~vl~  318 (476)
T 3gee_A          246 KSTLLNTLLGQERAIVSHMPG-------TTRDYIEECFIHDKTMFRLTDTAGLREAGEEIEHEGIRRSRMKMAEADLILY  318 (476)
T ss_dssp             HHHHHHHCC-------------------------CEEEEETTEEEEEEC--------------------CCCSSCSEEEE
T ss_pred             HHHHHHHHhCCCCcccCCCCC-------ceEEEEEEEEEECCeEEEEEECCCCCcchhHHHHHHHHHHHhhcccCCEEEE
Confidence            788888887664332222222       223333445667789999999999877654433        36789999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHH
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      |+|++++.+++.+..+...+...   .++|+++|+||+|+......+. .++..     ....+++++||++|.||++++
T Consensus       319 VvD~s~~~s~~~~~~~~~~l~~l---~~~piIvV~NK~Dl~~~~~~~~-~~l~~-----~~~~~~i~vSAktg~GI~eL~  389 (476)
T 3gee_A          319 LLDLGTERLDDELTEIRELKAAH---PAAKFLTVANKLDRAANADALI-RAIAD-----GTGTEVIGISALNGDGIDTLK  389 (476)
T ss_dssp             EEETTTCSSGGGHHHHHHHHHHC---TTSEEEEEEECTTSCTTTHHHH-HHHHH-----HHTSCEEECBTTTTBSHHHHH
T ss_pred             EEECCCCcchhhhHHHHHHHHhc---CCCCEEEEEECcCCCCccchhH-HHHHh-----cCCCceEEEEECCCCCHHHHH
Confidence            99999988775433333322222   3689999999999986433221 11221     112578999999999999999


Q ss_pred             HHHHHHHH
Q 029517          166 EWLVEVME  173 (192)
Q Consensus       166 ~~i~~~i~  173 (192)
                      ++|.+.+.
T Consensus       390 ~~i~~~~~  397 (476)
T 3gee_A          390 QHMGDLVK  397 (476)
T ss_dssp             HHHTHHHH
T ss_pred             HHHHHHHh
Confidence            99999887

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.77  E-value=5.4e-19  Score=128.26  Aligned_cols=140  Identities=23%  Similarity=0.224  Sum_probs=98.6

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCC--cceEEEEEEecCEEEEEEeCCCCcccH------HHHHHhhh--cCCEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPT--VGLNIGRIEVSNSKLVFWDLGGQPGLR------SIWEKYYE--EAHAV   83 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T--~g~~~~~~~~~~~~~~i~D~~G~~~~~------~~~~~~~~--~~d~i   83 (192)
                      |||++|+|.+...          ...+.|+  .......+...+..+.+|||||++.+.      ..+..+++  .++++
T Consensus        20 KStL~~~l~~~~~----------~~~~~~~~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (188)
T 2wjg_A           20 KSTIFNALTGENV----------YIGNWPGVTVEKKEGEFEYNGEKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLV   89 (188)
T ss_dssp             HHHHHHHHHTTCE----------EEEECTTSCCEEEEEEEEETTEEEEEEECCCCSCCSSSSHHHHHHHHHHHHHCCSEE
T ss_pred             HHHHHHHHhCCCc----------cccCCCCeeccceEEEEEeCCcEEEEEECCCcCccccccHHHHHHHHHHhccCCCEE
Confidence            7888888765321          1112233  333444566778999999999998763      45566665  49999


Q ss_pred             EEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCH
Q 029517           84 VFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGI  161 (192)
Q Consensus        84 i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  161 (192)
                      ++|+|.++   ++....|+..+..    .+.|+++|+||+|+..  ... ++..++.+     ..+.+++++||++|.|+
T Consensus        90 i~v~d~~~---~~~~~~~~~~~~~----~~~piilv~nK~Dl~~~~~~~-~~~~~~~~-----~~~~~~~~~Sa~~~~~v  156 (188)
T 2wjg_A           90 VNIVDATA---LERNLYLTLQLME----MGANLLLALNKMDLAKSLGIE-IDVDKLEK-----ILGVKVVPLSAAKKMGI  156 (188)
T ss_dssp             EEEEEGGG---HHHHHHHHHHHHT----TTCCEEEEEECHHHHHHTTCC-CCHHHHHH-----HHTSCEEECBGGGTBSH
T ss_pred             EEEecchh---HHHHHHHHHHHHh----cCCCEEEEEEhhhccccccch-HHHHHHHH-----HhCCCeEEEEecCCCCH
Confidence            99999875   6666777777654    3689999999999854  111 22333332     23468999999999999


Q ss_pred             HHHHHHHHHHHHhcc
Q 029517          162 KESVEWLVEVMERSK  176 (192)
Q Consensus       162 ~e~~~~i~~~i~~~~  176 (192)
                      +++|+++.+.+....
T Consensus       157 ~~l~~~i~~~~~~~~  171 (188)
T 2wjg_A          157 EELKKAISIAVKDKK  171 (188)
T ss_dssp             HHHHHHHHHHHTTC-
T ss_pred             HHHHHHHHHHHHhcc
Confidence            999999999887655

>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=99.76  E-value=3.5e-18  Score=133.43  Aligned_cols=142  Identities=20%  Similarity=0.159  Sum_probs=96.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcc--------cHHHHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPG--------LRSIWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~~~~~d~ii~   85 (192)
                      |||++|+|+++.....+..++.       |.......+...+.++.+|||||..+        +......+++.+|++++
T Consensus        20 KSTLln~l~g~~~~ivs~~~~t-------Tr~~i~~i~~~~~~~l~l~DTpG~~~~~~~l~~~~~~~~~~~l~~ad~il~   92 (301)
T 1wf3_A           20 KSTLLNNLLGVKVAPISPRPQT-------TRKRLRGILTEGRRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVW   92 (301)
T ss_dssp             HHHHHHHHHTSCCSCCCSSSCC-------CCSCEEEEEEETTEEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSEEEE
T ss_pred             HHHHHHHHhCCceeeecCCCCc-------eeEEEEEEEEeCCcEEEEecCccccchhhHHHHHHHHHHHHHHhcCCEEEE
Confidence            8999999986544322222221       22222223456688999999999865        45566778999999999


Q ss_pred             EEeCCCcccHHHHHHHHH-HHHhCCCCCCCcEEEEEeCCCCCCCCC-H-HHHHhHcCccccCCcceEEEEeeecCCCCHH
Q 029517           86 VIDAACPSRFEDSKTALE-KVLRNEDLQGAPLLILANKQDLPDAVS-A-DELARYLDLKKLDERVCMFEAVSGYDGFGIK  162 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~-~i~~~~~~~~~piiiv~nK~Dl~~~~~-~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  162 (192)
                      |+|+++..+...  .|+. .+....  .+.|+++|+||+|+..... . +.+.++       ....+++++||++|.|++
T Consensus        93 VvD~~~~~~~~~--~~i~~~l~~~~--~~~p~ilV~NK~Dl~~~~~~~~~~~~~~-------~~~~~~~~iSA~~g~gv~  161 (301)
T 1wf3_A           93 VVDLRHPPTPED--ELVARALKPLV--GKVPILLVGNKLDAAKYPEEAMKAYHEL-------LPEAEPRMLSALDERQVA  161 (301)
T ss_dssp             EEETTSCCCHHH--HHHHHHHGGGT--TTSCEEEEEECGGGCSSHHHHHHHHHHT-------STTSEEEECCTTCHHHHH
T ss_pred             EEECCCCCChHH--HHHHHHHHhhc--CCCCEEEEEECcccCCchHHHHHHHHHh-------cCcCcEEEEeCCCCCCHH
Confidence            999988755443  4543 333321  3689999999999875322 1 122222       123478999999999999


Q ss_pred             HHHHHHHHHHH
Q 029517          163 ESVEWLVEVME  173 (192)
Q Consensus       163 e~~~~i~~~i~  173 (192)
                      +++++|.+.+.
T Consensus       162 ~l~~~l~~~l~  172 (301)
T 1wf3_A          162 ELKADLLALMP  172 (301)
T ss_dssp             HHHHHHHTTCC
T ss_pred             HHHHHHHHhcc
Confidence            99999987654

>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=99.76  E-value=1.1e-18  Score=143.42  Aligned_cols=151  Identities=15%  Similarity=0.122  Sum_probs=98.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCC----------CcccHHHHH-HhhhcCCE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGG----------QPGLRSIWE-KYYEEAHA   82 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G----------~~~~~~~~~-~~~~~~d~   82 (192)
                      |||++|+|++.-.......++.+       .......+...+..+.+|||||          ++.|..... .+++.+|+
T Consensus       208 KSslin~l~~~~~~~~~~~~gtt-------~~~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~  280 (456)
T 4dcu_A          208 KSSLVNAMLGEERVIVSNVAGTT-------RDAVDTSFTYNQQEFVIVDTAGMRKKGKVYETTEKYSVLRALKAIDRSEV  280 (456)
T ss_dssp             HHHHHHHHHTSTTEEECC-------------CTTSEEEEETTEEEEETTGGGTTTBTTBCCCCSHHHHHHHHHHHHHCSE
T ss_pred             HHHHHHHHhCCCccccCCCCCeE-------EEEEEEEEEECCceEEEEECCCCCcCcccchHHHHHHHHHHHHHHhhCCE
Confidence            67777777644322222222222       2222334666777999999999          677777654 47899999


Q ss_pred             EEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCC
Q 029517           83 VVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFG  160 (192)
Q Consensus        83 ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g  160 (192)
                      +++|+|+++..+-. -..|...+..    .++|+++|+||+|+.+  ....+++.+.+..........+++++||++|.|
T Consensus       281 ~llviD~~~~~~~~-~~~~~~~~~~----~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~g  355 (456)
T 4dcu_A          281 VAVVLDGEEGIIEQ-DKRIAGYAHE----AGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPILFMSALTKKR  355 (456)
T ss_dssp             EEEEEETTTCCCHH-HHHHHHHHHH----TTCEEEEEEECGGGSCCCSSHHHHHHHHHHHHCGGGTTSCEEECCTTTCTT
T ss_pred             EEEEEeCCCCcCHH-HHHHHHHHHH----cCCCEEEEEEChhcCCCchHHHHHHHHHHHHhcccCCCCCEEEEcCCCCcC
Confidence            99999998764432 2234333333    4699999999999975  334455555544111112357899999999999


Q ss_pred             HHHHHHHHHHHHHhcc
Q 029517          161 IKESVEWLVEVMERSK  176 (192)
Q Consensus       161 i~e~~~~i~~~i~~~~  176 (192)
                      |+++|+++.+.+....
T Consensus       356 v~~l~~~i~~~~~~~~  371 (456)
T 4dcu_A          356 IHTLMPAIIKASENHS  371 (456)
T ss_dssp             GGGHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHhc
Confidence            9999999998876543

>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=99.76  E-value=3.1e-19  Score=139.45  Aligned_cols=127  Identities=16%  Similarity=0.130  Sum_probs=97.7

Q ss_pred             CCCC-CCCCCCcceEEEEE-EecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc-cHHHHHHHHHHHHhCCC
Q 029517           34 GLPP-DRIVPTVGLNIGRI-EVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS-RFEDSKTALEKVLRNED  110 (192)
Q Consensus        34 ~~~~-~~~~~T~g~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~-s~~~~~~~~~~i~~~~~  110 (192)
                      +.|. ..|.||+|..+... ..+. ++++||+  +++|+.++..+++++|++|+|+|++++. ++..+..|+..+..   
T Consensus        40 ~~f~~~~~~pTiGd~~~~~~~~~~-~~~iwD~--qer~~~l~~~~~~~ad~vilV~D~~~~~~s~~~l~~~l~~~~~---  113 (301)
T 1u0l_A           40 GKFRLQNLKIYVGDRVEYTPDETG-SGVIENV--LHRKNLLTKPHVANVDQVILVVTVKMPETSTYIIDKFLVLAEK---  113 (301)
T ss_dssp             GGGTTTTCCCCTTCEEEEECCCSS-SEEEEEE--CCCSCEETTTTEESCCEEEEEECSSTTCCCHHHHHHHHHHHHH---
T ss_pred             ccccccCCCCCCccEEEEEEcCCC-eEEEEEE--ccccceeeccccccCCEEEEEEeCCCCCCCHHHHHHHHHHHHH---
Confidence            5666 78899999765522 1223 7999999  8999989999999999999999999887 78888999887654   


Q ss_pred             CCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHH
Q 029517          111 LQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE  170 (192)
Q Consensus       111 ~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~  170 (192)
                       .++|+++|+||+|+.+....+++.+++..  .... ++++++||++|.||+++|..+..
T Consensus       114 -~~~piilv~NK~DL~~~~~v~~~~~~~~~--~~~~-~~~~~~SAktg~gv~~lf~~l~g  169 (301)
T 1u0l_A          114 -NELETVMVINKMDLYDEDDLRKVRELEEI--YSGL-YPIVKTSAKTGMGIEELKEYLKG  169 (301)
T ss_dssp             -TTCEEEEEECCGGGCCHHHHHHHHHHHHH--HTTT-SCEEECCTTTCTTHHHHHHHHSS
T ss_pred             -CCCCEEEEEeHHHcCCchhHHHHHHHHHH--Hhhh-CcEEEEECCCCcCHHHHHHHhcC
Confidence             37999999999999753221233444431  0122 78999999999999999988754

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.75  E-value=1.1e-18  Score=142.67  Aligned_cols=150  Identities=16%  Similarity=0.123  Sum_probs=99.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCC----------cccHHHHH-HhhhcCCE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQ----------PGLRSIWE-KYYEEAHA   82 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~----------~~~~~~~~-~~~~~~d~   82 (192)
                      |||++|+|++.........++       .|.......+...+..+.+|||||+          +.|..... .+++.+|+
T Consensus       188 KSSLin~l~~~~~~~~~~~~g-------tT~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~  260 (436)
T 2hjg_A          188 KSSLVNAMLGEERVIVSNVAG-------TTRDAVDTSFTYNQQEFVIVDTAGMRKKGKVYETTEKYSVLRALKAIDRSEV  260 (436)
T ss_dssp             HHHHHHHHHTSTTEEEC----------------CCEEEEETTEEEEETTHHHHTCBTTBCCCCSHHHHHHHHHHHHHCSE
T ss_pred             HHHHHHHHhCCCceeecCCCC-------ceeeeeEEEEEECCeEEEEEECCCcCcCccccchHHHHHHHHHHHHHHhCCE
Confidence            788888887653322222222       2222223456666778999999997          55655543 57899999


Q ss_pred             EEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC--HHHHHhHcCccccCCcceEEEEeeecCCCC
Q 029517           83 VVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVS--ADELARYLDLKKLDERVCMFEAVSGYDGFG  160 (192)
Q Consensus        83 ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g  160 (192)
                      +++|+|++++.+++.. .|+..+..    .++|+++|+||+|+.+...  .+++.+.+........+.+++++||++|.|
T Consensus       261 ~llv~D~~~~~s~~~~-~~~~~~~~----~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~SA~tg~~  335 (436)
T 2hjg_A          261 VAVVLDGEEGIIEQDK-RIAGYAHE----AGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPILFMSALTKKR  335 (436)
T ss_dssp             EEEEEETTTCCCHHHH-HHHHHHHH----TTCEEEEEEECGGGSCCCTTHHHHHHHHHHHHCGGGTTSCEEECCTTTCTT
T ss_pred             EEEEEcCCcCCcHHHH-HHHHHHHH----cCCcEEEEEECccCCCcchHHHHHHHHHHHHhcccCCCCCEEEEecccCCC
Confidence            9999999998887765 45555543    3699999999999976322  333332222110113367899999999999


Q ss_pred             HHHHHHHHHHHHHhc
Q 029517          161 IKESVEWLVEVMERS  175 (192)
Q Consensus       161 i~e~~~~i~~~i~~~  175 (192)
                      |+++|+++.+.+...
T Consensus       336 v~~l~~~i~~~~~~~  350 (436)
T 2hjg_A          336 IHTLMPAIIKASENH  350 (436)
T ss_dssp             GGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHh
Confidence            999999999887653

>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=99.75  E-value=3.3e-18  Score=130.80  Aligned_cols=137  Identities=23%  Similarity=0.236  Sum_probs=96.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHH------HHHHhh--hcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRS------IWEKYY--EEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~------~~~~~~--~~~d~ii~   85 (192)
                      |||++|+|++....    +.+.+    ..|.......+...+..+.+|||||+..+..      ....++  ..+|++++
T Consensus        18 KTsL~n~l~g~~~~----~~~~p----g~tv~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~ii~   89 (258)
T 3a1s_A           18 KTSLFNALTGTKQY----VANWP----GVTVEKKEGVFTYKGYTINLIDLPGTYSLGYSSIDEKIARDYLLKGDADLVIL   89 (258)
T ss_dssp             HHHHHHHHHTTCEE----EEECT----TSCCEEEEEEEEETTEEEEEEECCCCSSCCSSSHHHHHHHHHHHHSCCSEEEE
T ss_pred             HHHHHHHHHCCCCc----ccCCC----CceEEEEEEEEEECCeEEEEEECCCcCccCCCCHHHHHHHHHHhhcCCCEEEE
Confidence            78888888754321    11111    3344444556777789999999999876643      234555  58999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--C--CCHHHHHhHcCccccCCcceEEEEeeecCCCCH
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--A--VSADELARYLDLKKLDERVCMFEAVSGYDGFGI  161 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~--~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  161 (192)
                      |+|+++.++   ...|...+...    ++|+++++||+|+..  .  ...+.+.+.        .+++++++||++|.|+
T Consensus        90 V~D~t~~~~---~~~~~~~l~~~----~~pvilv~NK~Dl~~~~~i~~~~~~l~~~--------lg~~vi~~SA~~g~gi  154 (258)
T 3a1s_A           90 VADSVNPEQ---SLYLLLEILEM----EKKVILAMTAIDEAKKTGMKIDRYELQKH--------LGIPVVFTSSVTGEGL  154 (258)
T ss_dssp             EEETTSCHH---HHHHHHHHHTT----TCCEEEEEECHHHHHHTTCCBCHHHHHHH--------HCSCEEECCTTTCTTH
T ss_pred             EeCCCchhh---HHHHHHHHHhc----CCCEEEEEECcCCCCccchHHHHHHHHHH--------cCCCEEEEEeeCCcCH
Confidence            999998643   34466666543    699999999999854  1  222333333        3579999999999999


Q ss_pred             HHHHHHHHHHHH
Q 029517          162 KESVEWLVEVME  173 (192)
Q Consensus       162 ~e~~~~i~~~i~  173 (192)
                      +++|+++.+.+.
T Consensus       155 ~el~~~i~~~~~  166 (258)
T 3a1s_A          155 EELKEKIVEYAQ  166 (258)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhh
Confidence            999999998765

>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=99.75  E-value=2e-18  Score=131.93  Aligned_cols=136  Identities=21%  Similarity=0.245  Sum_probs=94.7

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHH----------HHHHhh--hcC
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRS----------IWEKYY--EEA   80 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~----------~~~~~~--~~~   80 (192)
                      =|||++|+|++...    .+.+.    ...|.......+...+..+.+|||||+..+..          ....++  +++
T Consensus        13 GKSTL~n~L~g~~~----~v~~~----pg~Tv~~~~~~~~~~~~~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~   84 (256)
T 3iby_A           13 GKTTLFNALTNANQ----RVGNW----PGVTVEKKTGEFLLGEHLIEITDLPGVYSLVANAEGISQDEQIAAQSVIDLEY   84 (256)
T ss_dssp             SHHHHHHHHHTTSE----EEEEC----TTSSSEEEEEEEEETTEEEEEEECCCCSSCC------CHHHHHHHHHHHHSCC
T ss_pred             CHHHHHHHHHCCCC----CccCC----CCceEEEEEEEEEECCeEEEEEeCCCcccccccccCCCHHHHHHHHHHhhCCC
Confidence            37888888876532    11111    13344445556777788999999999876643          455666  889


Q ss_pred             CEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCC----CCHHHHHhHcCccccCCcceEEEEeeec
Q 029517           81 HAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDA----VSADELARYLDLKKLDERVCMFEAVSGY  156 (192)
Q Consensus        81 d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~----~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  156 (192)
                      |++|+|+|+++.++..   .+...+..    .++|+++|+||+|+...    ...+.+.+.+        +++++++||+
T Consensus        85 d~vi~VvDas~~~~~~---~l~~~l~~----~~~pvilv~NK~Dl~~~~~~~~~~~~l~~~l--------g~~vi~~SA~  149 (256)
T 3iby_A           85 DCIINVIDACHLERHL---YLTSQLFE----LGKPVVVALNMMDIAEHRGISIDTEKLESLL--------GCSVIPIQAH  149 (256)
T ss_dssp             SEEEEEEEGGGHHHHH---HHHHHHTT----SCSCEEEEEECHHHHHHTTCEECHHHHHHHH--------CSCEEECBGG
T ss_pred             CEEEEEeeCCCchhHH---HHHHHHHH----cCCCEEEEEEChhcCCcCCcHHHHHHHHHHc--------CCCEEEEECC
Confidence            9999999998854333   34334433    26899999999998542    2233333333        5799999999


Q ss_pred             CCCCHHHHHHHHHHH
Q 029517          157 DGFGIKESVEWLVEV  171 (192)
Q Consensus       157 ~~~gi~e~~~~i~~~  171 (192)
                      +|.|++++|++|.+.
T Consensus       150 ~g~gi~el~~~i~~~  164 (256)
T 3iby_A          150 KNIGIPALQQSLLHC  164 (256)
T ss_dssp             GTBSHHHHHHHHHTC
T ss_pred             CCCCHHHHHHHHHhh
Confidence            999999999999875

>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=99.75  E-value=6.3e-18  Score=137.20  Aligned_cols=114  Identities=16%  Similarity=0.137  Sum_probs=77.6

Q ss_pred             EEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCC----CH
Q 029517           56 SKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAV----SA  131 (192)
Q Consensus        56 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~----~~  131 (192)
                      ..+.+||||||++|.......+..+|++|+|+|++++.......+.+..+...   ...|+++++||+|+....    ..
T Consensus        81 ~~i~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~l---~~~~iivv~NK~Dl~~~~~~~~~~  157 (408)
T 1s0u_A           81 RRVSFVDSPGHETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLMALEIL---GIDKIIIVQNKIDLVDEKQAEENY  157 (408)
T ss_dssp             EEEEEEECSSHHHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHHHHHHT---TCCCEEEEEECTTSSCTTTTTTHH
T ss_pred             cEEEEEECCCHHHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHHHHHHc---CCCeEEEEEEccCCCCHHHHHHHH
Confidence            78999999999999888777788899999999998653222222333322222   235899999999997632    34


Q ss_pred             HHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          132 DELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      +++.+++..  ......+++++||++|.||++++++|.+.+..
T Consensus       158 ~~i~~~l~~--~~~~~~~~i~vSA~~g~gi~~L~~~l~~~i~~  198 (408)
T 1s0u_A          158 EQIKEFVKG--TIAENAPIIPISAHHEANIDVLLKAIQDFIPT  198 (408)
T ss_dssp             HHHHHHHTT--STTTTCCEEEC------CHHHHHHHHHHHSCC
T ss_pred             HHHHHHHhh--cCCCCCeEEEeeCCCCCCHHHHHHHHHHhCCC
Confidence            556666651  11246789999999999999999999987654

>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=99.73  E-value=6.1e-18  Score=123.64  Aligned_cols=112  Identities=20%  Similarity=0.269  Sum_probs=85.3

Q ss_pred             eCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHH---HHHHhCC-CCCCCcEEEEEeCC-CCCCCCCHHHHHh
Q 029517           62 DLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTAL---EKVLRNE-DLQGAPLLILANKQ-DLPDAVSADELAR  136 (192)
Q Consensus        62 D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~---~~i~~~~-~~~~~piiiv~nK~-Dl~~~~~~~~~~~  136 (192)
                      |.+||+.+++.|..|++++|++|||+|++|.+.++ .+..+   ..++... ...+.|++|++||. |++.+.+..++.+
T Consensus       108 ~~GGQ~klRplWr~Yy~~TdglIfVVDSsD~~R~e-ak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp~Ams~~EI~e  186 (227)
T 3l82_B          108 QQGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKRMPCFYLAH  186 (227)
T ss_dssp             ---------CCHHHHHHHCSEEEEEEECBTTCCCC-HHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTSCBCCHHHHHH
T ss_pred             ccCcHHHHHHHHHHHhcCCCEEEEEeccccHhHHH-HHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCccCCCCHHHHHH
Confidence            34489999999999999999999999999887654 55554   3333332 23689999999995 8888999999999


Q ss_pred             HcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          137 YLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       137 ~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                      .+.+..+ .+.+.++.|||++|+|+.|.++||++.+.+.
T Consensus       187 ~L~L~~l-~R~W~Iq~csA~TGeGL~EGLdWL~~~l~~k  224 (227)
T 3l82_B          187 ELHLNLL-NHPWLVQDTEAETLTGFLNGIEWILEEVESK  224 (227)
T ss_dssp             HTTGGGG-CSCEEEEEEETTTCTTHHHHHHHHTTTTTTC
T ss_pred             HcCCcCC-CCCEEEEEeECCCCcCHHHHHHHHHHHHHhh
Confidence            9998776 4789999999999999999999998876543

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.73  E-value=2.1e-18  Score=140.10  Aligned_cols=144  Identities=14%  Similarity=0.117  Sum_probs=98.5

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCE-EEEEEeCCCCcccHH-------HHHHhhhcCCEEE
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNS-KLVFWDLGGQPGLRS-------IWEKYYEEAHAVV   84 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~-~~~i~D~~G~~~~~~-------~~~~~~~~~d~ii   84 (192)
                      =|||++|+|+++-......       ....|.......+..... .+.+|||||++++..       ....+++.+|++|
T Consensus        46 GKSTLin~L~~~~~~~~~~-------~~gtT~d~~~~~~~~~~~~~l~liDTpG~~d~~~l~~~~~~~~~~~l~~aD~vl  118 (423)
T 3qq5_A           46 GKSSFMNALVGQNVSIVSD-------YAGTTTDPVYKSMELHPIGPVTLVDTPGLDDVGELGRLRVEKARRVFYRADCGI  118 (423)
T ss_dssp             TTTTTTTSSCC--------------------CCCCEEEEEETTTEEEEEEECSSTTCCCTTCCCCHHHHHHHHTSCSEEE
T ss_pred             CHHHHHHHHHcCCCCccCC-------CCCeeeeeEEEEEEECCCCeEEEEECcCCCcccchhHHHHHHHHHHHhcCCEEE
Confidence            3889988887654321111       223344444555665544 899999999876532       2556889999999


Q ss_pred             EEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHH
Q 029517           85 FVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKES  164 (192)
Q Consensus        85 ~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~  164 (192)
                      +|+|++..   .....|+..+.+.    ++|+++|+||+|+......+...++..     ..+++++++||++|.|++++
T Consensus       119 lVvD~~~~---~~~~~~l~~l~~~----~~piIvV~NK~Dl~~~~~~~~~~~l~~-----~~g~~v~~vSAktg~gI~eL  186 (423)
T 3qq5_A          119 LVTDSAPT---PYEDDVVNLFKEM----EIPFVVVVNKIDVLGEKAEELKGLYES-----RYEAKVLLVSALQKKGFDDI  186 (423)
T ss_dssp             EECSSSCC---HHHHHHHHHHHHT----TCCEEEECCCCTTTTCCCTHHHHHSSC-----CTTCCCCCCSSCCTTSTTTH
T ss_pred             EEEeCCCh---HHHHHHHHHHHhc----CCCEEEEEeCcCCCCccHHHHHHHHHH-----HcCCCEEEEECCCCCCHHHH
Confidence            99999433   2334566666554    689999999999987554445555544     55689999999999999999


Q ss_pred             HHHHHHHHHhc
Q 029517          165 VEWLVEVMERS  175 (192)
Q Consensus       165 ~~~i~~~i~~~  175 (192)
                      |++|.+.+...
T Consensus       187 ~~~L~~~l~~~  197 (423)
T 3qq5_A          187 GKTISEILPGD  197 (423)
T ss_dssp             HHHHHHHSCCC
T ss_pred             HHHHHHhhhhh
Confidence            99999988543

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.73  E-value=8.8e-18  Score=134.10  Aligned_cols=128  Identities=19%  Similarity=0.266  Sum_probs=96.1

Q ss_pred             CCCcceEEEEEEecCEEEEEEeCCCCcccH---------HHHHHhhhcCCEEEEEEeCCCcc--cHHHHHHHHHHHHhCC
Q 029517           41 VPTVGLNIGRIEVSNSKLVFWDLGGQPGLR---------SIWEKYYEEAHAVVFVIDAACPS--RFEDSKTALEKVLRNE  109 (192)
Q Consensus        41 ~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~---------~~~~~~~~~~d~ii~v~D~~~~~--s~~~~~~~~~~i~~~~  109 (192)
                      .+|.+.....+......+.+|||||.....         .....+...+|++++|+|+++..  +++....|+..+....
T Consensus       199 ~~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~  278 (357)
T 2e87_A          199 FTTRGINVGQFEDGYFRYQIIDTPGLLDRPISERNEIEKQAILALRYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEF  278 (357)
T ss_dssp             TCSSCEEEEEEEETTEEEEEEECTTTSSSCSTTSCHHHHHHHHGGGGTCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHT
T ss_pred             CeeeceeEEEEEecCceEEEEeCCCccccchhhhhHHHHHHHHHHHhcCCEEEEEEeCCccccCCHHHHHHHHHHHHHhc
Confidence            456666666777778899999999974321         12223445699999999998876  7888888888887753


Q ss_pred             CCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          110 DLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                        .+.|+++|+||+|+......+++.+.+.     ..+.+++++||++|.||++++++|.+.+...
T Consensus       279 --~~~piilV~NK~Dl~~~~~~~~~~~~~~-----~~~~~~~~iSA~~g~gi~~l~~~i~~~l~~~  337 (357)
T 2e87_A          279 --KDLPFLVVINKIDVADEENIKRLEKFVK-----EKGLNPIKISALKGTGIDLVKEEIIKTLRPL  337 (357)
T ss_dssp             --TTSCEEEEECCTTTCCHHHHHHHHHHHH-----HTTCCCEECBTTTTBTHHHHHHHHHHHHHHH
T ss_pred             --CCCCEEEEEECcccCChHHHHHHHHHHH-----hcCCCeEEEeCCCCcCHHHHHHHHHHHHHHH
Confidence              2799999999999976333344444443     3457899999999999999999999988654

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.73  E-value=4.3e-17  Score=137.44  Aligned_cols=111  Identities=18%  Similarity=0.214  Sum_probs=88.0

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCH---
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSA---  131 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~---  131 (192)
                      .+.+++|||||+.+|...+..+++.+|++|+|+|+++..+.+....|.....     .++|+++++||+|+......   
T Consensus        70 ~~~l~liDTPGh~dF~~ev~~~l~~aD~aILVVDa~~gv~~qt~~~~~~~~~-----~~ipiIvViNKiDl~~a~~~~v~  144 (599)
T 3cb4_D           70 TYQLNFIDTPGHVDFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTAME-----MDLEVVPVLNKIDLPAADPERVA  144 (599)
T ss_dssp             EEEEEEEECCCCGGGHHHHHHHHHHCSEEEEEEETTTCCCTHHHHHHHHHHH-----TTCEEEEEEECTTSTTCCHHHHH
T ss_pred             eEEEEEEECCCchHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH-----CCCCEEEeeeccCcccccHHHHH
Confidence            4789999999999999999999999999999999998877777766655432     36899999999999865322   


Q ss_pred             HHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          132 DELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                      +++.+.+.     .....++++||++|.||++++++|.+.+...
T Consensus       145 ~ei~~~lg-----~~~~~vi~vSAktg~GI~~Ll~~I~~~lp~p  183 (599)
T 3cb4_D          145 EEIEDIVG-----IDATDAVRCSAKTGVGVQDVLERLVRDIPPP  183 (599)
T ss_dssp             HHHHHHTC-----CCCTTCEEECTTTCTTHHHHHHHHHHHSCCC
T ss_pred             HHHHHHhC-----CCcceEEEeecccCCCchhHHHHHhhcCCCc
Confidence            22333332     2223589999999999999999999877644

>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=99.73  E-value=7.8e-18  Score=133.41  Aligned_cols=150  Identities=21%  Similarity=0.284  Sum_probs=103.4

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecC-EEEEEEeCCCCcc----c---HHHHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSN-SKLVFWDLGGQPG----L---RSIWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~-~~~~i~D~~G~~~----~---~~~~~~~~~~~d~ii~   85 (192)
                      |||++|+|    ++..+.+.+++.++..|+++    .+...+ ..+.+|||||...    +   ......+++.++++|+
T Consensus       171 KSTLln~L----~~~~~~i~~~~ftTl~p~~g----~v~~~~~~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~~~d~ll~  242 (342)
T 1lnz_A          171 KSTLLSVV----SSAKPKIADYHFTTLVPNLG----MVETDDGRSFVMADLPGLIEGAHQGVGLGHQFLRHIERTRVIVH  242 (342)
T ss_dssp             HHHHHHHS----EEECCEESSTTSSCCCCCEE----EEECSSSCEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCCEEEE
T ss_pred             HHHHHHHH----HcCCCccccCCccccCceEE----EEEeCCCceEEEecCCCCcccccccchhHHHHHHHHHhccEEEE
Confidence            55555554    44444455555455555544    455554 7899999999532    2   2233334566999999


Q ss_pred             EEeCCC---cccHHHHHHHHHHHHhCCC-CCCCcEEEEEeCCCCCCCC-CHHHHHhHcCccccCCcceEEEEeeecCCCC
Q 029517           86 VIDAAC---PSRFEDSKTALEKVLRNED-LQGAPLLILANKQDLPDAV-SADELARYLDLKKLDERVCMFEAVSGYDGFG  160 (192)
Q Consensus        86 v~D~~~---~~s~~~~~~~~~~i~~~~~-~~~~piiiv~nK~Dl~~~~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g  160 (192)
                      |+|+++   .++++.+..|...+..... ..++|+++|+||+|+.... ..+++.+.+.     . ..+++++||+++.|
T Consensus       243 VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~Dl~~~~e~~~~l~~~l~-----~-~~~v~~iSA~tg~g  316 (342)
T 1lnz_A          243 VIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAAENLEAFKEKLT-----D-DYPVFPISAVTREG  316 (342)
T ss_dssp             EEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHHHHHHHHHHHCC-----S-CCCBCCCSSCCSST
T ss_pred             EEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECccCCCCHHHHHHHHHHhh-----c-CCCEEEEECCCCcC
Confidence            999998   7889988888888877532 3579999999999987521 1122333332     1 16789999999999


Q ss_pred             HHHHHHHHHHHHHhcch
Q 029517          161 IKESVEWLVEVMERSKR  177 (192)
Q Consensus       161 i~e~~~~i~~~i~~~~~  177 (192)
                      +++++++|.+.+.+...
T Consensus       317 i~eL~~~l~~~l~~~~~  333 (342)
T 1lnz_A          317 LRELLFEVANQLENTPE  333 (342)
T ss_dssp             THHHHHHHHHHHTSCCC
T ss_pred             HHHHHHHHHHHHhhCcc
Confidence            99999999998876543

>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=99.72  E-value=1e-17  Score=136.01  Aligned_cols=114  Identities=16%  Similarity=0.174  Sum_probs=82.5

Q ss_pred             EEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCC----CH
Q 029517           56 SKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAV----SA  131 (192)
Q Consensus        56 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~----~~  131 (192)
                      .++.+||||||++|.......+..+|++|+|+|+++........+.+..+...   ...|+++++||+|+.+..    ..
T Consensus        83 ~~i~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~~---~~~~iivviNK~Dl~~~~~~~~~~  159 (410)
T 1kk1_A           83 RRVSFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQII---GQKNIIIAQNKIELVDKEKALENY  159 (410)
T ss_dssp             EEEEEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHH---TCCCEEEEEECGGGSCHHHHHHHH
T ss_pred             cEEEEEECCChHHHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHHHHHHHc---CCCcEEEEEECccCCCHHHHHHHH
Confidence            78999999999999888888888999999999998653122222222222222   236899999999997622    23


Q ss_pred             HHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          132 DELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      +++.+++..  ......+++++||++|.|+++++++|.+.+..
T Consensus       160 ~~i~~~l~~--~~~~~~~~i~vSA~~g~gi~~L~~~l~~~~~~  200 (410)
T 1kk1_A          160 RQIKEFIEG--TVAENAPIIPISALHGANIDVLVKAIEDFIPT  200 (410)
T ss_dssp             HHHHHHHTT--STTTTCCEEECBTTTTBSHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHh--cCcCCCeEEEeeCCCCCCHHHHHHHHHHhCCC
Confidence            445555541  11246789999999999999999999986654

>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=99.72  E-value=5.6e-18  Score=130.45  Aligned_cols=138  Identities=20%  Similarity=0.207  Sum_probs=92.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccH------HHHHHhhh--cCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLR------SIWEKYYE--EAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~------~~~~~~~~--~~d~ii~   85 (192)
                      |||+||+|.+..    ..+.+++    ..|.......+.. +..+.+|||||++.+.      .....|+.  .+|++++
T Consensus        16 KSTL~n~L~g~~----~~v~~~p----g~tv~~~~~~~~~-~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~vi~   86 (272)
T 3b1v_A           16 KTSLFNLITGHN----QRVGNWP----GVTVERKSGLVKK-NKDLEIQDLPGIYSMSPYSPEAKVARDYLLSQRADSILN   86 (272)
T ss_dssp             HHHHHHHHHCCC----CCCCSSS----CCCCSCEEEECTT-CTTEEEEECCCCSCSSCSSHHHHHHHHHHHTTCCSEEEE
T ss_pred             HHHHHHHHHCCC----CcccCCC----CCcEEEEEEEEec-CCeEEEEECCCcCccCCCChHHHHHHHHHhcCCCCEEEE
Confidence            788888886532    1122221    2233333334444 6789999999998764      45566665  5999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHH
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKE  163 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e  163 (192)
                      |+|+++.   ++...|...+.+.    ++|+++++||+|+..  ... .+..++..     ..+++++++||++|.||++
T Consensus        87 V~D~t~~---e~~~~~~~~l~~~----~~p~ilv~NK~Dl~~~~~~~-~~~~~l~~-----~lg~~vi~~SA~~g~gi~e  153 (272)
T 3b1v_A           87 VVDATNL---ERNLYLTTQLIET----GIPVTIALNMIDVLDGQGKK-INVDKLSY-----HLGVPVVATSALKQTGVDQ  153 (272)
T ss_dssp             EEEGGGH---HHHHHHHHHHHHT----CSCEEEEEECHHHHHHTTCC-CCHHHHHH-----HHTSCEEECBTTTTBSHHH
T ss_pred             EecCCch---HhHHHHHHHHHhc----CCCEEEEEEChhhCCcCCcH-HHHHHHHH-----HcCCCEEEEEccCCCCHHH
Confidence            9999874   4444566666543    689999999999854  111 12222222     2357899999999999999


Q ss_pred             HHHHHHHHHH
Q 029517          164 SVEWLVEVME  173 (192)
Q Consensus       164 ~~~~i~~~i~  173 (192)
                      +|++|.+.+.
T Consensus       154 l~~~i~~~~~  163 (272)
T 3b1v_A          154 VVKKAAHTTT  163 (272)
T ss_dssp             HHHHHHHSCT
T ss_pred             HHHHHHHHHh
Confidence            9999988653

>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=99.72  E-value=1.9e-18  Score=133.30  Aligned_cols=139  Identities=21%  Similarity=0.223  Sum_probs=94.6

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccH----------HHHHHhh--hcC
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLR----------SIWEKYY--EEA   80 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~----------~~~~~~~--~~~   80 (192)
                      =|||++|+|+++.. ..++.+       ..|.......+...+..+.+|||||+..+.          .....|+  +.+
T Consensus        15 GKSTLin~l~g~~~-~v~~~~-------g~t~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~   86 (274)
T 3i8s_A           15 GKTTLFNQLTGSRQ-RVGNWA-------GVTVERKEGQFSTTDHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDA   86 (274)
T ss_dssp             SHHHHHHHHHTTCE-EEEECT-------TSSSEEEEEEEECSSCEEEEEECCCCSCSCC----CCHHHHHHHHHHHHTCC
T ss_pred             CHHHHHHHHhCCCc-ccCCCC-------CeeEEEEEEEEEeCCCceEEEECcCCCccccccccCCHHHHHHHHHHhhcCC
Confidence            38888888876532 111111       223444455566667889999999987654          2233343  789


Q ss_pred             CEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCC----CCHHHHHhHcCccccCCcceEEEEeeec
Q 029517           81 HAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDA----VSADELARYLDLKKLDERVCMFEAVSGY  156 (192)
Q Consensus        81 d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~----~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  156 (192)
                      |++++|+|+++.+   ....+...+.+.    ++|+++|+||+|+.+.    ...+.+.+.+        +++++++||+
T Consensus        87 d~ii~VvD~~~~~---~~~~~~~~l~~~----~~p~ivv~NK~Dl~~~~~~~~~~~~l~~~l--------g~~~i~~SA~  151 (274)
T 3i8s_A           87 DLLINVVDASNLE---RNLYLTLQLLEL----GIPCIVALNMLDIAEKQNIRIEIDALSARL--------GCPVIPLVST  151 (274)
T ss_dssp             SEEEEEEEGGGHH---HHHHHHHHHHHH----TCCEEEEEECHHHHHHTTEEECHHHHHHHH--------TSCEEECCCG
T ss_pred             CEEEEEecCCChH---HHHHHHHHHHhc----CCCEEEEEECccchhhhhHHHHHHHHHHhc--------CCCEEEEEcC
Confidence            9999999998754   334444444443    6899999999998542    1223333333        5789999999


Q ss_pred             CCCCHHHHHHHHHHHHHh
Q 029517          157 DGFGIKESVEWLVEVMER  174 (192)
Q Consensus       157 ~~~gi~e~~~~i~~~i~~  174 (192)
                      +|.|+++++++|.+.+..
T Consensus       152 ~g~gi~el~~~i~~~~~~  169 (274)
T 3i8s_A          152 RGRGIEALKLAIDRYKAN  169 (274)
T ss_dssp             GGHHHHHHHHHHHTCCCC
T ss_pred             CCCCHHHHHHHHHHHHhc
Confidence            999999999999876543

>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=99.72  E-value=5.7e-19  Score=131.26  Aligned_cols=135  Identities=18%  Similarity=0.226  Sum_probs=87.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhc----CCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEE----AHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~----~d~ii~v~D~   89 (192)
                      |||++|+|.+....       .....+.||++..+     ..+.+.+|||||++.++..+..+++.    +|++|+|+|+
T Consensus        25 KTsl~~~l~~~~~~-------~~~~~~~~~~~~~~-----~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~D~   92 (218)
T 1nrj_B           25 KTSLLTLLTTDSVR-------PTVVSQEPLSAADY-----DGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDS   92 (218)
T ss_dssp             HHHHHHHHHHSSCC-------CBCCCSSCEEETTG-----GGSSCEEEECCCCGGGTHHHHHHHHHHGGGEEEEEEEEET
T ss_pred             HHHHHHHHhcCCCC-------CeeeecCceEEEEe-----eCceEEEEECCCcHHHHHHHHHHHHhccccCCEEEEEEEC
Confidence            67777777654321       12234566665543     56789999999999999888888887    9999999999


Q ss_pred             C-CcccHHHHHHHHHHHHhCC---CCCCCcEEEEEeCCCCCCCCCHHHHHhHcCc--cc-cCCcceEEEEeeecCCCC
Q 029517           90 A-CPSRFEDSKTALEKVLRNE---DLQGAPLLILANKQDLPDAVSADELARYLDL--KK-LDERVCMFEAVSGYDGFG  160 (192)
Q Consensus        90 ~-~~~s~~~~~~~~~~i~~~~---~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~--~~-~~~~~~~~~~~Sa~~~~g  160 (192)
                      + ++.++..+..|+..+....   ...++|+++|+||+|+......+++.+.+..  .. ....+.+++++||++|.+
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~Sa~~~~~  170 (218)
T 1nrj_B           93 TVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKDALESEIQKVIERRKKSLNEVERKINEE  170 (218)
T ss_dssp             TSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHC--------
T ss_pred             CCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhcccCCHHHHHHHHHHHHHHHHHHHhccccccccccccc
Confidence            9 8889999999988887642   1257999999999999875553322221110  00 012345667777776553

>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=99.72  E-value=6e-17  Score=136.41  Aligned_cols=113  Identities=21%  Similarity=0.218  Sum_probs=88.1

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHH
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADEL  134 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~  134 (192)
                      .+.+++|||||+.+|...+..+++.+|++|+|+|+++..+.+....|.....     .++|+++++||+|+.... .++.
T Consensus        72 ~~~inliDTPGh~dF~~ev~r~l~~aD~aILVVDa~~gv~~qt~~~~~~a~~-----~~ipiIvviNKiDl~~a~-~~~v  145 (600)
T 2ywe_A           72 TYKLHLIDTPGHVDFSYEVSRALAACEGALLLIDASQGIEAQTVANFWKAVE-----QDLVIIPVINKIDLPSAD-VDRV  145 (600)
T ss_dssp             EEEEEEECCCCSGGGHHHHHHHHHTCSEEEEEEETTTBCCHHHHHHHHHHHH-----TTCEEEEEEECTTSTTCC-HHHH
T ss_pred             eEEEEEEECCCcHhHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHH-----CCCCEEEEEeccCccccC-HHHH
Confidence            4789999999999999999999999999999999999888887777655432     368999999999998653 3322


Q ss_pred             -HhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          135 -ARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       135 -~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                       .+....  +......++++||++|.||++++++|.+.+...
T Consensus       146 ~~el~~~--lg~~~~~vi~vSAktg~GI~~Lle~I~~~lp~p  185 (600)
T 2ywe_A          146 KKQIEEV--LGLDPEEAILASAKEGIGIEEILEAIVNRIPPP  185 (600)
T ss_dssp             HHHHHHT--SCCCGGGCEECBTTTTBSHHHHHHHHHHHSCCC
T ss_pred             HHHHHHh--hCCCcccEEEEEeecCCCchHHHHHHHHhcccc
Confidence             222221  011223589999999999999999999887654

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.72  E-value=1.4e-18  Score=142.19  Aligned_cols=142  Identities=19%  Similarity=0.244  Sum_probs=90.0

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCc--------ccHHHHHHhhhcCCEEE
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQP--------GLRSIWEKYYEEAHAVV   84 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~--------~~~~~~~~~~~~~d~ii   84 (192)
                      =|||++|+|+++....+...++       .|....+..+...+..+.+|||||++        .+...+..+++.+|++|
T Consensus        15 GKStL~n~l~~~~~~~v~~~~g-------~T~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~ad~il   87 (436)
T 2hjg_A           15 GKSTIFNRIAGERISIVEDTPG-------VTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVII   87 (436)
T ss_dssp             SHHHHHHHHEEEECC------------------CEEEECTTCSSCCEEEC---------CHHHHHHHHHHHHHHHCSEEE
T ss_pred             CHHHHHHHHhCCCceeecCCCC-------CccceEEEEEEECCceEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEE
Confidence            3888888887643332222222       22233344555556789999999985        56677788999999999


Q ss_pred             EEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcce-EEEEeeecCCCCHHH
Q 029517           85 FVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVC-MFEAVSGYDGFGIKE  163 (192)
Q Consensus        85 ~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi~e  163 (192)
                      +|+|++++.+...  .++..+++.   .++|+++|+||+|+....  .++.++.      ..++ +++++||++|.|+.+
T Consensus        88 ~vvD~~~~~~~~d--~~~~~~l~~---~~~pvilv~NK~D~~~~~--~~~~~~~------~lg~~~~~~iSA~~g~gv~~  154 (436)
T 2hjg_A           88 FMVNGREGVTAAD--EEVAKILYR---TKKPVVLAVNKLDNTEMR--ANIYDFY------SLGFGEPYPISGTHGLGLGD  154 (436)
T ss_dssp             EEEETTTCSCHHH--HHHHHHHTT---CCSCEEEEEECCCC-------CCCSSG------GGSSCCCEECBTTTTBTHHH
T ss_pred             EEEeCCCCCCHHH--HHHHHHHHH---cCCCEEEEEECccCccch--hhHHHHH------HcCCCCeEEEeCcCCCChHH
Confidence            9999998766554  555555554   578999999999986421  1111111      1222 688999999999999


Q ss_pred             HHHHHHHHHHh
Q 029517          164 SVEWLVEVMER  174 (192)
Q Consensus       164 ~~~~i~~~i~~  174 (192)
                      +++++.+.+.+
T Consensus       155 L~~~i~~~l~~  165 (436)
T 2hjg_A          155 LLDAVAEHFKN  165 (436)
T ss_dssp             HHHHHHHTGGG
T ss_pred             HHHHHHHhcCc
Confidence            99999987764

>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=99.71  E-value=2.7e-17  Score=133.32  Aligned_cols=116  Identities=15%  Similarity=0.115  Sum_probs=90.3

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC----
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVS----  130 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~----  130 (192)
                      ..++.+|||||+++|...+..++..+|++++|+|+++..+.....+++..+...   ...|+++++||+|+.+...    
T Consensus        74 ~~~~~iiDtPGh~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~---~~~~iivviNK~Dl~~~~~~~~~  150 (403)
T 3sjy_A           74 LRRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGII---GVKNLIIVQNKVDVVSKEEALSQ  150 (403)
T ss_dssp             EEEEEEEECCCCGGGHHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHH---TCCCEEEEEECGGGSCHHHHHHH
T ss_pred             cceEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHc---CCCCEEEEEECccccchHHHHHH
Confidence            378999999999999999999999999999999999887677777777665544   2369999999999975321    


Q ss_pred             HHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          131 ADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                      .+++.+.+.  .......+++++||++|.||++++++|.+.+...
T Consensus       151 ~~~i~~~l~--~~~~~~~~ii~vSA~~g~gi~~L~~~l~~~l~~~  193 (403)
T 3sjy_A          151 YRQIKQFTK--GTWAENVPIIPVSALHKINIDSLIEGIEEYIKTP  193 (403)
T ss_dssp             HHHHHHHHT--TSTTTTCCEEECBTTTTBSHHHHHHHHHHHSCCC
T ss_pred             HHHHHHHHH--hhCCCCCEEEEEECCCCcChHHHHHHHHHhCCCC
Confidence            123333332  1112367899999999999999999999876543

>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=99.71  E-value=8.5e-18  Score=138.05  Aligned_cols=142  Identities=19%  Similarity=0.215  Sum_probs=88.6

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHH--------hhhcCCEEE
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEK--------YYEEAHAVV   84 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~--------~~~~~d~ii   84 (192)
                      =|||++|+|+++-.....+.++       .|.......+..++..+.+|||||...+...++.        +++.+|+++
T Consensus       236 GKSSLln~L~~~~~a~v~~~~g-------tT~d~~~~~i~~~g~~v~liDT~G~~~~~~~ve~~gi~~~~~~~~~aD~vl  308 (462)
T 3geh_A          236 GKSSLLNAWSQSDRAIVTDLPG-------TTRDVVESQLVVGGIPVQVLDTAGIRETSDQVEKIGVERSRQAANTADLVL  308 (462)
T ss_dssp             SHHHHHHHHHHHHBSCCSCCTT-------CCHHHHHHEEEETTEEEEECC--------------------CCCCSCSEEE
T ss_pred             CHHHHHHHHhCCCcccccCCCC-------eeEEEEEEEEEECCEEEEEEECCccccchhHHHHHHHHHHhhhhhcCCEEE
Confidence            3788999988765432222221       2222223346667889999999998665443333        578899999


Q ss_pred             EEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHH
Q 029517           85 FVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKES  164 (192)
Q Consensus        85 ~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~  164 (192)
                      +|+|++++.+... ..++..+      ...|+++|+||+|+......+    ...  .+ ....+++++||++|.|++++
T Consensus       309 ~VvD~s~~~~~~~-~~i~~~l------~~~piivV~NK~Dl~~~~~~~----~~~--~~-~~~~~~i~iSAktg~Gi~eL  374 (462)
T 3geh_A          309 LTIDAATGWTTGD-QEIYEQV------KHRPLILVMNKIDLVEKQLIT----SLE--YP-ENITQIVHTAAAQKQGIDSL  374 (462)
T ss_dssp             EEEETTTCSCHHH-HHHHHHH------TTSCEEEEEECTTSSCGGGST----TCC--CC-TTCCCEEEEBTTTTBSHHHH
T ss_pred             EEeccCCCCCHHH-HHHHHhc------cCCcEEEEEECCCCCcchhhH----HHH--Hh-ccCCcEEEEECCCCCCHHHH
Confidence            9999998766654 3444443      247999999999997532211    111  01 13568999999999999999


Q ss_pred             HHHHHHHHHhc
Q 029517          165 VEWLVEVMERS  175 (192)
Q Consensus       165 ~~~i~~~i~~~  175 (192)
                      +++|.+.+...
T Consensus       375 ~~~i~~~~~~~  385 (462)
T 3geh_A          375 ETAILEIVQTG  385 (462)
T ss_dssp             HHHHHHHHTTS
T ss_pred             HHHHHHHHhcc
Confidence            99999987653

>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=99.71  E-value=2.6e-17  Score=126.68  Aligned_cols=140  Identities=19%  Similarity=0.219  Sum_probs=97.8

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHH------HHHHhh--hcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRS------IWEKYY--EEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~------~~~~~~--~~~d~ii~   85 (192)
                      |||++|+|++...    .+.+    ....|.......+...+..+.+|||||+..+..      ....++  .++|++++
T Consensus        16 KTTL~n~l~g~~~----~~~~----~~~~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~   87 (271)
T 3k53_A           16 KTTIFNALTGLRQ----HVGN----WPGVTVEKKEGIMEYREKEFLVVDLPGIYSLTAHSIDELIARNFILDGNADVIVD   87 (271)
T ss_dssp             HHHHHHHHHTTCE----EEEE----CTTSSCEEEEEEEEETTEEEEEEECCCCSCCCSSCHHHHHHHHHHHTTCCSEEEE
T ss_pred             HHHHHHHHhCCCc----ccCC----CCCeEEEeeEEEEEECCceEEEEeCCCccccccCCHHHHHHHHhhhccCCcEEEE
Confidence            7888888865422    1111    112233344445667788899999999876654      455566  68999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC----CCCHHHHHhHcCccccCCcceEEEEeeecCCCCH
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD----AVSADELARYLDLKKLDERVCMFEAVSGYDGFGI  161 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~----~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  161 (192)
                      |+|+++.   ++...+...+...   ...|+++++||+|+.+    ....+.+.+.+        +++++++||++|.|+
T Consensus        88 v~D~~~~---~~~~~~~~~~~~~---~~~p~ilv~NK~Dl~~~~~~~~~~~~l~~~l--------g~~~~~~Sa~~g~gi  153 (271)
T 3k53_A           88 IVDSTCL---MRNLFLTLELFEM---EVKNIILVLNKFDLLKKKGAKIDIKKMRKEL--------GVPVIPTNAKKGEGV  153 (271)
T ss_dssp             EEEGGGH---HHHHHHHHHHHHT---TCCSEEEEEECHHHHHHHTCCCCHHHHHHHH--------SSCEEECBGGGTBTH
T ss_pred             EecCCcc---hhhHHHHHHHHhc---CCCCEEEEEEChhcCcccccHHHHHHHHHHc--------CCcEEEEEeCCCCCH
Confidence            9999874   4444555566554   2399999999999753    22334444433        478999999999999


Q ss_pred             HHHHHHHHHHHHhc
Q 029517          162 KESVEWLVEVMERS  175 (192)
Q Consensus       162 ~e~~~~i~~~i~~~  175 (192)
                      +++++++.+.+...
T Consensus       154 ~~l~~~i~~~~~~~  167 (271)
T 3k53_A          154 EELKRMIALMAEGK  167 (271)
T ss_dssp             HHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhcc
Confidence            99999999887654

>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=99.70  E-value=2.2e-17  Score=136.46  Aligned_cols=151  Identities=14%  Similarity=0.170  Sum_probs=96.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCC--CCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPP--DRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAAC   91 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~--~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~   91 (192)
                      |||++++|++.......   +...  .....|++..+..+...+..+.+|||||+++|...+..++..+|++|+|+|+++
T Consensus        32 KSTLi~~L~~~~~~~~~---d~~~~e~~~GiTi~~~~~~~~~~~~~i~iiDtPGh~~~~~~~~~~~~~aD~~ilVvda~~  108 (482)
T 1wb1_A           32 KTTLSKVLTEIASTSAH---DKLPESQKRGITIDIGFSAFKLENYRITLVDAPGHADLIRAVVSAADIIDLALIVVDAKE  108 (482)
T ss_dssp             HHHHHHHHHTTC-----------------------CCCEEEETTEEEEECCCSSHHHHHHHHHHHTTSCCEEEEEEETTT
T ss_pred             HHHHHHHHHCCCccccc---ccccccccCccEEecceEEEEECCEEEEEEECCChHHHHHHHHHHHhhCCEEEEEEecCC
Confidence            78888888654311000   1111  122456666667777788999999999999999988899999999999999987


Q ss_pred             cccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCH----HHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           92 PSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSA----DELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        92 ~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~----~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      ...-+. .+.+..+..    .++|+++++||+|+.+....    +++.+++... ......+++++||++|.|+++++++
T Consensus       109 g~~~qt-~e~l~~~~~----~~ip~IvviNK~Dl~~~~~~~~~~~~l~~~l~~~-~~~~~~~ii~vSA~~g~gI~~L~~~  182 (482)
T 1wb1_A          109 GPKTQT-GEHMLILDH----FNIPIIVVITKSDNAGTEEIKRTEMIMKSILQST-HNLKNSSIIPISAKTGFGVDELKNL  182 (482)
T ss_dssp             CSCHHH-HHHHHHHHH----TTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHS-SSGGGCCEEECCTTTCTTHHHHHHH
T ss_pred             CccHHH-HHHHHHHHH----cCCCEEEEEECCCcccchhHHHHHHHHHHHHhhh-cccccceEEEEECcCCCCHHHHHHH
Confidence            432222 222222222    36888999999999752111    2233333211 0112678999999999999999999


Q ss_pred             HHHHHH
Q 029517          168 LVEVME  173 (192)
Q Consensus       168 i~~~i~  173 (192)
                      |.+.+.
T Consensus       183 L~~~i~  188 (482)
T 1wb1_A          183 IITTLN  188 (482)
T ss_dssp             HHHHHH
T ss_pred             HHHhhc
Confidence            998775

>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=99.70  E-value=9.9e-17  Score=131.13  Aligned_cols=122  Identities=11%  Similarity=0.096  Sum_probs=85.2

Q ss_pred             CCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEE
Q 029517           41 VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILA  120 (192)
Q Consensus        41 ~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~  120 (192)
                      ..|+...+..+.....++.+|||||+++|...+..+++.+|++|+|+|+++.... ...+++..+...   ...|+++++
T Consensus        89 GiTi~~~~~~~~~~~~~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~~-qt~~~l~~~~~~---~~~~iIvvi  164 (434)
T 1zun_B           89 GITIDVAYRYFSTAKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQT-QTRRHSYIASLL---GIKHIVVAI  164 (434)
T ss_dssp             -CCCCCEEEEEECSSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCH-HHHHHHHHHHHT---TCCEEEEEE
T ss_pred             CcEEEeeeeEeecCCceEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCCcH-HHHHHHHHHHHc---CCCeEEEEE
Confidence            3466666667777888999999999999999988899999999999999876533 333444433333   224799999


Q ss_pred             eCCCCCCCCC------HHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHH
Q 029517          121 NKQDLPDAVS------ADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVE  166 (192)
Q Consensus       121 nK~Dl~~~~~------~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~  166 (192)
                      ||+|+.+...      .+++.++++.........+++++||++|.|++++++
T Consensus       165 NK~Dl~~~~~~~~~~i~~~~~~~~~~~g~~~~~~~~i~vSA~~g~gi~~~~~  216 (434)
T 1zun_B          165 NKMDLNGFDERVFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVNKSE  216 (434)
T ss_dssp             ECTTTTTSCHHHHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSSCCT
T ss_pred             EcCcCCcccHHHHHHHHHHHHHHHHHhCCCccCceEEEEeccCCCCcccccc
Confidence            9999975211      123333333111002348899999999999998544

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.69  E-value=2.9e-16  Score=128.47  Aligned_cols=122  Identities=21%  Similarity=0.259  Sum_probs=83.5

Q ss_pred             CCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCccc---H---HHHHHHHHHHHhCCCCCCC
Q 029517           41 VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSR---F---EDSKTALEKVLRNEDLQGA  114 (192)
Q Consensus        41 ~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s---~---~~~~~~~~~i~~~~~~~~~  114 (192)
                      ..|+...+..+...+..+.|||||||++|...+..+++.+|++|+|+|+++...   +   ....+.+..+..    .++
T Consensus        80 GiTid~~~~~~~~~~~~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~----~~v  155 (439)
T 3j2k_7           80 GKTVEVGRAYFETEKKHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKT----AGV  155 (439)
T ss_pred             CceEEEeEEEEecCCeEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHH----cCC
Confidence            345555566677778899999999999999999999999999999999987532   1   122222222222    246


Q ss_pred             c-EEEEEeCCCCCCCC----C----HHHHHhHcCccccC-CcceEEEEeeecCCCCHHHHHH
Q 029517          115 P-LLILANKQDLPDAV----S----ADELARYLDLKKLD-ERVCMFEAVSGYDGFGIKESVE  166 (192)
Q Consensus       115 p-iiiv~nK~Dl~~~~----~----~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~e~~~  166 (192)
                      | +++++||+|+....    .    .+++.++++...+. ...++++++||++|.|++++.+
T Consensus       156 ~~iIvviNK~Dl~~~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~~i~iSA~~G~ni~~l~~  217 (439)
T 3j2k_7          156 KHLIVLINKMDDPTVNWSNERYEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQSD  217 (439)
T ss_pred             CeEEEEeecCCCcccchHHHHHHHHHHHHHHHHHHhcccccCCeeEEEeeccCCcccccccc
Confidence            6 99999999996421    1    12233333211111 1257899999999999999765

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.69  E-value=6.7e-17  Score=129.43  Aligned_cols=137  Identities=11%  Similarity=-0.015  Sum_probs=102.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS   93 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~   93 (192)
                      |||++++|+                ....|++..+..+...+.++.+|||||+++|.......++.+|++|+|+| +. .
T Consensus        34 KSTL~~~L~----------------~~giTi~~~~~~~~~~~~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVvd-~~-g   95 (370)
T 2elf_A           34 RTSLAANLG----------------KKGTSSDITMYNNDKEGRNMVFVDAHSYPKTLKSLITALNISDIAVLCIP-PQ-G   95 (370)
T ss_dssp             HHHHHHTTS----------------EEEEESSSEEEEECSSSSEEEEEECTTTTTCHHHHHHHHHTCSEEEEEEC-TT-C
T ss_pred             HHHHHHHHH----------------hCCEEEEeeEEEEecCCeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEc-CC-C
Confidence            677777665                34677777788888778899999999999998888888999999999999 53 4


Q ss_pred             cHHHHHHHHHHHHhCCCCCCCcE-EEEEe-CCCCCCCCC----HHHHHhHcCccccCCcceEEEE--eeecC---CCCHH
Q 029517           94 RFEDSKTALEKVLRNEDLQGAPL-LILAN-KQDLPDAVS----ADELARYLDLKKLDERVCMFEA--VSGYD---GFGIK  162 (192)
Q Consensus        94 s~~~~~~~~~~i~~~~~~~~~pi-iiv~n-K~Dl~~~~~----~~~~~~~~~~~~~~~~~~~~~~--~Sa~~---~~gi~  162 (192)
                      ......+++..+...    ++|. ++++| |+|+ +...    .+++.++++..  ....+++++  +||++   |.|++
T Consensus        96 ~~~qt~e~~~~~~~~----~i~~~ivvvNNK~Dl-~~~~~~~~~~~i~~~l~~~--~~~~~~ii~~~~SA~~~~~g~gi~  168 (370)
T 2elf_A           96 LDAHTGECIIALDLL----GFKHGIIALTRSDST-HMHAIDELKAKLKVITSGT--VLQDWECISLNTNKSAKNPFEGVD  168 (370)
T ss_dssp             CCHHHHHHHHHHHHT----TCCEEEEEECCGGGS-CHHHHHHHHHHHHHHTTTS--TTTTCEEEECCCCTTSSSTTTTHH
T ss_pred             CcHHHHHHHHHHHHc----CCCeEEEEEEeccCC-CHHHHHHHHHHHHHHHHhc--CCCceEEEecccccccCcCCCCHH
Confidence            455555665554433    5676 88999 9999 4211    13455555411  113579999  99999   99999


Q ss_pred             HHHHHHHHHHHhc
Q 029517          163 ESVEWLVEVMERS  175 (192)
Q Consensus       163 e~~~~i~~~i~~~  175 (192)
                      +++++|.+.+...
T Consensus       169 ~L~~~l~~~~~~~  181 (370)
T 2elf_A          169 ELKARINEVAEKI  181 (370)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcccc
Confidence            9999999887654

>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=99.67  E-value=4.5e-16  Score=128.80  Aligned_cols=121  Identities=17%  Similarity=0.134  Sum_probs=81.6

Q ss_pred             CCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHH------HHHHHHHHHHhCCCCCCC
Q 029517           41 VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE------DSKTALEKVLRNEDLQGA  114 (192)
Q Consensus        41 ~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~------~~~~~~~~i~~~~~~~~~  114 (192)
                      ..|+......+......+.||||||+++|...+..+++.+|++|+|+|+++..+..      ...+.+......   ...
T Consensus        96 GiTi~~~~~~~~~~~~~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~---~~~  172 (483)
T 3p26_A           96 GVTVSICTSHFSTHRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSL---GIH  172 (483)
T ss_dssp             CSSCCCCEEEEECSSCEEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHHT---TCC
T ss_pred             CcceEeeeEEEecCCceEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHHc---CCC
Confidence            44666666778888899999999999999999999999999999999998864321      222222222222   235


Q ss_pred             cEEEEEeCCCCCCC--CCHHHHH----hHcCccccCCcceEEEEeeecCCCCHHHH
Q 029517          115 PLLILANKQDLPDA--VSADELA----RYLDLKKLDERVCMFEAVSGYDGFGIKES  164 (192)
Q Consensus       115 piiiv~nK~Dl~~~--~~~~~~~----~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~  164 (192)
                      |+++++||+|+.+.  ...+++.    +++..........+++++||++|.||+++
T Consensus       173 ~iIvviNK~Dl~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~i~iSA~~g~gi~el  228 (483)
T 3p26_A          173 NLIIAMNKMDNVDWSQQRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKI  228 (483)
T ss_dssp             CEEEEEECGGGGTTCHHHHHHHHHHHHHHHHHHTCCGGGEEEEECCSSSCTTSSSS
T ss_pred             cEEEEEECcCcccchHHHHHHHHHHHHHHHHHcCCCcccceEEEEeeecCCCcccc
Confidence            79999999999752  1222222    22211111223689999999999999863

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.67  E-value=1.2e-16  Score=133.30  Aligned_cols=82  Identities=18%  Similarity=0.175  Sum_probs=66.8

Q ss_pred             CCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEe
Q 029517           42 PTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILAN  121 (192)
Q Consensus        42 ~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~n  121 (192)
                      .|+......+...+..+.+|||||+.+|...+..+++.+|++|+|+|+++..+.+....| ..+ ..   .++|+++|+|
T Consensus        68 iTi~~~~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~~~~-~~~-~~---~~iPiivviN  142 (528)
T 3tr5_A           68 ISVTTSVMQFPYKDYLINLLDTPGHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLM-EVC-RL---RHTPIMTFIN  142 (528)
T ss_dssp             CSSSSSEEEEEETTEEEEEECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHH-HHH-HT---TTCCEEEEEE
T ss_pred             eeEEEeEEEEEeCCEEEEEEECCCchhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHH-HHH-HH---cCCCEEEEEe
Confidence            355555667788899999999999999999999999999999999999988777665544 222 22   3689999999


Q ss_pred             CCCCCCC
Q 029517          122 KQDLPDA  128 (192)
Q Consensus       122 K~Dl~~~  128 (192)
                      |+|+...
T Consensus       143 K~Dl~~~  149 (528)
T 3tr5_A          143 KMDRDTR  149 (528)
T ss_dssp             CTTSCCS
T ss_pred             CCCCccc
Confidence            9999764

>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=99.67  E-value=1.2e-16  Score=134.87  Aligned_cols=147  Identities=16%  Similarity=0.151  Sum_probs=96.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEE----------------ecCEEEEEEeCCCCcccHHHHHHhh
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIE----------------VSNSKLVFWDLGGQPGLRSIWEKYY   77 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~----------------~~~~~~~i~D~~G~~~~~~~~~~~~   77 (192)
                      |||++++|++....      ......+.+++|..+....                .....+.||||||+++|..++..++
T Consensus        18 KTTLl~~L~~~~v~------~~e~ggiT~~ig~~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTPGhe~F~~~~~r~~   91 (594)
T 1g7s_A           18 KTTLLDHIRGSAVA------SREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAFTTLRKRGG   91 (594)
T ss_dssp             HHHHHHHHHHHHHS------CC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCCTTSBCSSS
T ss_pred             HHHHHHHHhcccCc------cccCCceecccCeEEEeechhhhhccccccccccccccCCEEEEECCCcHHHHHHHHHHH
Confidence            89999999865332      2222234556666554321                1122699999999999988888888


Q ss_pred             hcCCEEEEEEeCCCc---ccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC--------------HHH-------
Q 029517           78 EEAHAVVFVIDAACP---SRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVS--------------ADE-------  133 (192)
Q Consensus        78 ~~~d~ii~v~D~~~~---~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~--------------~~~-------  133 (192)
                      +.+|++|+|+|+++.   ++++.+.    .+..    .++|+++++||+|+.....              .+.       
T Consensus        92 ~~aD~aILVvDa~~Gv~~qT~e~l~----~l~~----~~vPiIVViNKiDl~~~~~~~~~~~~~e~sa~~~~~v~~~~~e  163 (594)
T 1g7s_A           92 ALADLAILIVDINEGFKPQTQEALN----ILRM----YRTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQVQQKLDT  163 (594)
T ss_dssp             BSCSEEEEEEETTTCCCHHHHHHHH----HHHH----TTCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHHHHHHHHH
T ss_pred             hhCCEEEEEEECCCCccHhHHHHHH----HHHH----cCCeEEEEecccccccccccccCCchHHHHHHhHHHHHHHHHH
Confidence            999999999999983   4444332    2222    4689999999999964211              011       


Q ss_pred             ----HHhHcCcccc----------CCcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          134 ----LARYLDLKKL----------DERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       134 ----~~~~~~~~~~----------~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                          +.+.+....+          .....+++++||++|.||++++++|...+..
T Consensus       164 ~i~ei~~~L~e~gl~~e~~~~l~~~~~~vpvv~vSA~tG~GI~eLl~~I~~~~~~  218 (594)
T 1g7s_A          164 KVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQ  218 (594)
T ss_dssp             HHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcchHHHHHHHhccCcceEEEEeccCCCCchhHHHHHHhhccc
Confidence                1111110001          0235689999999999999999999987764

>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=99.66  E-value=6.2e-17  Score=132.36  Aligned_cols=122  Identities=18%  Similarity=0.214  Sum_probs=81.7

Q ss_pred             CCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHH-------HHHHHhCCCCCC
Q 029517           41 VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTA-------LEKVLRNEDLQG  113 (192)
Q Consensus        41 ~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~-------~~~i~~~~~~~~  113 (192)
                      ..|++..+..+.....++.+|||||+++|...+..+++.+|++|+|+|+++ .+|+....|       +......   ..
T Consensus        69 giTi~~~~~~~~~~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~-gsfe~~~~~~~qt~~~~~~~~~~---~~  144 (435)
T 1jny_A           69 GVTINLTFMRFETKKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKK-GEYEAGMSVEGQTREHIILAKTM---GL  144 (435)
T ss_dssp             --------CEEECSSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECST-THHHHHHSTTCHHHHHHHHHHHT---TC
T ss_pred             CceeEeeEEEEecCCeEEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCC-CccccccccchHHHHHHHHHHHc---CC
Confidence            456666666788888999999999999999999999999999999999998 667643332       2222222   22


Q ss_pred             CcEEEEEeCCCCCCCC-C-------HHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHH
Q 029517          114 APLLILANKQDLPDAV-S-------ADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVE  166 (192)
Q Consensus       114 ~piiiv~nK~Dl~~~~-~-------~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~  166 (192)
                      .|+++++||+|+.+.. +       .+++.+++..........+++++||++|.|+.++++
T Consensus       145 ~~iivviNK~Dl~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~i~iSA~~g~~v~e~~~  205 (435)
T 1jny_A          145 DQLIVAVNKMDLTEPPYDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITHKSE  205 (435)
T ss_dssp             TTCEEEEECGGGSSSTTCHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTBCCS
T ss_pred             CeEEEEEEcccCCCccccHHHHHHHHHHHHHHHHHcCCCcCCceEEEeecccCcccccccc
Confidence            4699999999997621 1       233444443111112247899999999999987654

>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=99.66  E-value=1.3e-16  Score=121.91  Aligned_cols=111  Identities=21%  Similarity=0.286  Sum_probs=88.8

Q ss_pred             eCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHH---HHHhCC-CCCCCcEEEEEeC-CCCCCCCCHHHHHh
Q 029517           62 DLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALE---KVLRNE-DLQGAPLLILANK-QDLPDAVSADELAR  136 (192)
Q Consensus        62 D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~---~i~~~~-~~~~~piiiv~nK-~Dl~~~~~~~~~~~  136 (192)
                      |.+||+..+..|..|++++|++|+|+|++|.+.++ ....+.   .++... ...+.|++|++|| .|++.+.+..++.+
T Consensus       193 ~~GGQ~~lRplWr~Yy~~tdglIfVVDSsDreRle-ak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp~Ams~~EI~e  271 (312)
T 3l2o_B          193 QQGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKRMPCFYLAH  271 (312)
T ss_dssp             ----CCCCCHHHHHHHHHCSEEEECCBCBTTCCCC-HHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTSCBCCHHHHHH
T ss_pred             CCCCHHHHHHHHHHHhcCCCEEEEEecCCcHhHHH-HHHHHHHHHHHhcchhhcCCCeEEEEeCCcccccCCCCHHHHHH
Confidence            35789999999999999999999999999988665 333333   333221 1257999999996 69999999999999


Q ss_pred             HcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          137 YLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       137 ~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      .+.+..+ .+.+.+..|||.+|+|+.|.++||++.+.+
T Consensus       272 ~L~L~~l-~r~W~Iq~csA~tGeGL~EGldWL~~~l~~  308 (312)
T 3l2o_B          272 ELHLNLL-NHPWLVQDTEAETLTGFLNGIEWILEEVES  308 (312)
T ss_dssp             HTTGGGG-CSCEEEEEEETTTCTTHHHHHHHHHHHSCC
T ss_pred             HcCCccC-CCcEEEEecccCCCcCHHHHHHHHHHHHHh
Confidence            9998766 478999999999999999999999987754

>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=99.65  E-value=3.5e-16  Score=128.06  Aligned_cols=150  Identities=21%  Similarity=0.224  Sum_probs=93.5

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHH------------HHHhhhcCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSI------------WEKYYEEAH   81 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~------------~~~~~~~~d   81 (192)
                      |||++|+|++......+..++.+.+       .....+...+..+.+|||+|..+....            ...+++.+|
T Consensus       193 KSTLln~l~g~~~~~v~~~~gtT~d-------~~~~~i~~~g~~~~l~Dt~G~~~~~~~~~~~~e~~~~~~~~~~i~~ad  265 (439)
T 1mky_A          193 KSTLFNAILNKERALVSPIPGTTRD-------PVDDEVFIDGRKYVFVDTAGLRRKSRVEPRTVEKYSNYRVVDSIEKAD  265 (439)
T ss_dssp             HHHHHHHHHTSTTEEECCCC-------------CCEEEEETTEEEEESSCSCC-----------CCSCCHHHHHHHHHCS
T ss_pred             HHHHHHHHhCCcccccCCCCCCcCC-------ceEEEEEECCEEEEEEECCCCccccccchhhHHHHHHHHHHHHHhhCC
Confidence            6778887776544333333332221       122345566778999999997543221            235678899


Q ss_pred             EEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCC--CCHHHHHhHcCccccCCcceEEEEeeecCCC
Q 029517           82 AVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDA--VSADELARYLDLKKLDERVCMFEAVSGYDGF  159 (192)
Q Consensus        82 ~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  159 (192)
                      ++++|+|+++..+.+.  .++......   .++|+++++||+|+.+.  ...+++.+.+..........+++++||++|.
T Consensus       266 ~vllv~d~~~~~~~~~--~~i~~~l~~---~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~  340 (439)
T 1mky_A          266 VVVIVLDATQGITRQD--QRMAGLMER---RGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLIFTSADKGW  340 (439)
T ss_dssp             EEEEEEETTTCCCHHH--HHHHHHHHH---TTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCEEECBTTTTB
T ss_pred             EEEEEEeCCCCCCHHH--HHHHHHHHH---cCCCEEEEEECccCCCchhhHHHHHHHHHHHHhccCCCCcEEEEECCCCC
Confidence            9999999988766654  233333333   47999999999998753  2233333222100011235689999999999


Q ss_pred             CHHHHHHHHHHHHHhc
Q 029517          160 GIKESVEWLVEVMERS  175 (192)
Q Consensus       160 gi~e~~~~i~~~i~~~  175 (192)
                      ||+++|+.+.+.+...
T Consensus       341 gv~~l~~~i~~~~~~~  356 (439)
T 1mky_A          341 NIDRMIDAMNLAYASY  356 (439)
T ss_dssp             SHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhh
Confidence            9999999999877653

>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=99.65  E-value=2.3e-16  Score=127.55  Aligned_cols=156  Identities=10%  Similarity=0.012  Sum_probs=102.7

Q ss_pred             ccccHHHHHHHHhhhh-cc------CCCCCC-CCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVY-SN------VEGLPP-DRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~-~~------~~~~~~-~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   85 (192)
                      |||++++|++...... ..      ...... .....|++..+..+.....++.+|||||+++|......+++.+|++|+
T Consensus        16 KSTLi~~L~~~~~~~g~~~~~~~~~~d~~~~e~~~giTi~~~~~~~~~~~~~~~iiDtpG~~~f~~~~~~~~~~aD~~il   95 (397)
T 1d2e_A           16 KTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVKNMITGTAPLDGCIL   95 (397)
T ss_dssp             HHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSSCEEEEEECSSHHHHHHHHHHTSSCCSEEEE
T ss_pred             HHHHHHHHhChhhhcCccccchhhhhhcCHHHHhcCcEEEeeeEEeccCCeEEEEEECCChHHHHHHHHhhHhhCCEEEE
Confidence            8999999987643210 00      000000 023446666555666677899999999999998888889999999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCc-EEEEEeCCCCCCCC-----CHHHHHhHcCccccCCcceEEEEeeecCCC
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAP-LLILANKQDLPDAV-----SADELARYLDLKKLDERVCMFEAVSGYDGF  159 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~p-iiiv~nK~Dl~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  159 (192)
                      |+|+++....+.. +.+..+..    .++| +++++||+|+.+..     ..+++.++++...+.....+++++||++|.
T Consensus        96 Vvda~~g~~~qt~-e~l~~~~~----~~vp~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~SA~~g~  170 (397)
T 1d2e_A           96 VVAANDGPMPQTR-EHLLLARQ----IGVEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKGEETPIIVGSALCAL  170 (397)
T ss_dssp             EEETTTCSCHHHH-HHHHHHHH----TTCCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCTTTSCEEECCHHHHH
T ss_pred             EEECCCCCCHHHH-HHHHHHHH----cCCCeEEEEEECcccCCCHHHHHHHHHHHHHHHHHcCCCcccCcEEEeehhhcc
Confidence            9999986544433 33333332    3678 78999999997411     112344444321121224789999999976


Q ss_pred             C----------HHHHHHHHHHHHHh
Q 029517          160 G----------IKESVEWLVEVMER  174 (192)
Q Consensus       160 g----------i~e~~~~i~~~i~~  174 (192)
                      |          +.++++.|.+.+..
T Consensus       171 n~~~~~~~~g~i~~Ll~~l~~~~p~  195 (397)
T 1d2e_A          171 EQRDPELGLKSVQKLLDAVDTYIPV  195 (397)
T ss_dssp             TTCCTTTTHHHHHHHHHHHHHHSCC
T ss_pred             cccCCCccCCcHHHHHHHHHHhCCC
Confidence            4          88999988876653

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.65  E-value=2.3e-17  Score=137.36  Aligned_cols=148  Identities=16%  Similarity=0.117  Sum_probs=98.4

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEe-cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCC
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEV-SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAAC   91 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~   91 (192)
                      =|||++|+|.+...... ..+       ..|..+....+.. .+..+.|||||||+.|..++..+++.+|++|+|+|+++
T Consensus        16 GKTSLl~~L~~~~~~~~-~~~-------giT~~i~~~~v~~~~g~~i~~iDTPGhe~f~~~~~~~~~~aD~vILVVDa~d   87 (537)
T 3izy_P           16 GKTTLLDKLRKTQVAAM-EAG-------GITQHIGAFLVSLPSGEKITFLDTPGHAAFSAMRARGTQVTDIVILVVAADD   87 (537)
T ss_dssp             THHHHHHHHHHHHHHHS-SSC-------CBCCCTTSCCBCSSCSSCCBCEECSSSCCTTTSBBSSSBSBSSCEEECBSSS
T ss_pred             CHHHHHHHHhCCCcccc-cCC-------ceeEEEeEEEEEeCCCCEEEEEECCChHHHHHHHHHHHccCCEEEEEEECCC
Confidence            38999999986554321 111       1122222222322 34578999999999999988889999999999999998


Q ss_pred             cccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCC---CHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           92 PSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAV---SADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        92 ~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~---~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      ....+....+ ..+..    .++|+++++||+|+.+..   ...++.+...........++++++||++|.|+++++++|
T Consensus        88 g~~~qt~e~l-~~~~~----~~vPiIVViNKiDl~~~~~~~v~~~l~~~~~~~e~~~~~~~iv~vSAktG~GI~eLle~I  162 (537)
T 3izy_P           88 GVMKQTVESI-QHAKD----AHVPIVLAINKCDKAEADPEKVKKELLAYDVVCEDYGGDVQAVHVSALTGENMMALAEAT  162 (537)
T ss_dssp             CCCHHHHHHH-HHHHT----TTCCEEECCBSGGGTTTSCCSSSSHHHHTTSCCCCSSSSEEECCCCSSSSCSSHHHHHHH
T ss_pred             CccHHHHHHH-HHHHH----cCCcEEEEEecccccccchHHHHHHHHhhhhhHHhcCCCceEEEEECCCCCCchhHHHHH
Confidence            7665554333 32222    368999999999997521   122232221100001125789999999999999999999


Q ss_pred             HHHHH
Q 029517          169 VEVME  173 (192)
Q Consensus       169 ~~~i~  173 (192)
                      ...+.
T Consensus       163 ~~l~~  167 (537)
T 3izy_P          163 IALAE  167 (537)
T ss_dssp             HHHHT
T ss_pred             HHhhh
Confidence            88765

>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=99.64  E-value=1.6e-16  Score=124.06  Aligned_cols=142  Identities=16%  Similarity=0.159  Sum_probs=92.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCc-ccHHH--------HHHhhhcCCEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQP-GLRSI--------WEKYYEEAHAVV   84 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~-~~~~~--------~~~~~~~~d~ii   84 (192)
                      |||++|+|+++.....+..++       .|.......+......+.+|||||+. .....        ...+++.+|+++
T Consensus        21 KSTLln~L~g~~~~i~s~~~~-------tTr~~~~gi~~~~~~~i~~iDTpG~~~~~~~~l~~~~~~~~~~~l~~~D~vl   93 (301)
T 1ega_A           21 KSTLLNKLLGQKISITSRKAQ-------TTRHRIVGIHTEGAYQAIYVDTPGLHMEEKRAINRLMNKAASSSIGDVELVI   93 (301)
T ss_dssp             HHHHHHHHHTCSEEECCCCSS-------CCSSCEEEEEEETTEEEEEESSSSCCHHHHHHHHHHHTCCTTSCCCCEEEEE
T ss_pred             HHHHHHHHHCCCccccCCCCC-------cceeeEEEEEEECCeeEEEEECcCCCccchhhHHHHHHHHHHHHHhcCCEEE
Confidence            899999998764332222221       22222233456678899999999987 33222        233567799999


Q ss_pred             EEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcce-EEEEeeecCCCCH
Q 029517           85 FVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVC-MFEAVSGYDGFGI  161 (192)
Q Consensus        85 ~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~gi  161 (192)
                      +|+|+++   +.....++......   .+.|+++++||+|+..  ....+.+.++.+     ..++ .++++||++|.|+
T Consensus        94 ~Vvd~~~---~~~~~~~i~~~l~~---~~~P~ilvlNK~D~~~~~~~~~~~l~~l~~-----~~~~~~~i~iSA~~g~~v  162 (301)
T 1ega_A           94 FVVEGTR---WTPDDEMVLNKLRE---GKAPVILAVNKVDNVQEKADLLPHLQFLAS-----QMNFLDIVPISAETGLNV  162 (301)
T ss_dssp             EEEETTC---CCHHHHHHHHHHHS---SSSCEEEEEESTTTCCCHHHHHHHHHHHHT-----TSCCSEEEECCTTTTTTH
T ss_pred             EEEeCCC---CCHHHHHHHHHHHh---cCCCEEEEEECcccCccHHHHHHHHHHHHH-----hcCcCceEEEECCCCCCH
Confidence            9999976   22333454444443   4689999999999875  111122333333     2233 7899999999999


Q ss_pred             HHHHHHHHHHHH
Q 029517          162 KESVEWLVEVME  173 (192)
Q Consensus       162 ~e~~~~i~~~i~  173 (192)
                      +++++++.+.+.
T Consensus       163 ~~l~~~i~~~l~  174 (301)
T 1ega_A          163 DTIAAIVRKHLP  174 (301)
T ss_dssp             HHHHHHHHTTCC
T ss_pred             HHHHHHHHHhCC
Confidence            999999987654

>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=99.64  E-value=5.7e-17  Score=133.31  Aligned_cols=142  Identities=18%  Similarity=0.259  Sum_probs=89.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCC--------CcccHHHHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGG--------QPGLRSIWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G--------~~~~~~~~~~~~~~~d~ii~   85 (192)
                      |||++|+|+++........++       .|....+......+..+.+|||||        ++.+...+..+++.+|++|+
T Consensus        36 KSTL~n~l~~~~~~~v~~~~g-------~t~~~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~  108 (456)
T 4dcu_A           36 KSTIFNRIAGERISIVEDTPG-------VTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVIIF  108 (456)
T ss_dssp             HHHHHHHHEEEEEC------------------CEEEECTTCSSCCEEECCCC------CCHHHHHHHHHHHHHHCSEEEE
T ss_pred             HHHHHHHHhCCCCcccCCCCC-------cceeEEEEEEEECCceEEEEECCCCCCcchHHHHHHHHHHHhhHhhCCEEEE
Confidence            788888887654332222222       222233444555577899999999        66777888889999999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHH
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      |+|..+..+  ....++..++..   .++|+++|+||+|+.+..  +.+.++..     ......+++||++|.|+.+++
T Consensus       109 VvD~~~~~~--~~d~~l~~~l~~---~~~pvilV~NK~D~~~~~--~~~~e~~~-----lg~~~~~~iSA~~g~gv~~L~  176 (456)
T 4dcu_A          109 MVNGREGVT--AADEEVAKILYR---TKKPVVLAVNKLDNTEMR--ANIYDFYS-----LGFGEPYPISGTHGLGLGDLL  176 (456)
T ss_dssp             EEESSSCSC--HHHHHHHHHHTT---CCSCEEEEEECC-----------CCSGG-----GSSSSEEECCTTTCTTHHHHH
T ss_pred             EEeCCCCCC--hHHHHHHHHHHH---cCCCEEEEEECccchhhh--hhHHHHHH-----cCCCceEEeecccccchHHHH
Confidence            999876533  333566666655   579999999999986421  12222222     111245699999999999999


Q ss_pred             HHHHHHHHh
Q 029517          166 EWLVEVMER  174 (192)
Q Consensus       166 ~~i~~~i~~  174 (192)
                      +++.+.+..
T Consensus       177 ~~i~~~l~~  185 (456)
T 4dcu_A          177 DAVAEHFKN  185 (456)
T ss_dssp             HHHHTTGGG
T ss_pred             HHHHhhccc
Confidence            999886653

>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=99.63  E-value=1.5e-15  Score=123.10  Aligned_cols=153  Identities=14%  Similarity=0.046  Sum_probs=100.6

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCC-----------CCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPD-----------RIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHA   82 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~-----------~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   82 (192)
                      |||++++|++...... .. ..+..           ....|+......+......+.+|||||+++|......+++.+|+
T Consensus        24 KSTLi~~L~~~~~~~g-~~-~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~~~~iiDtpG~~~f~~~~~~~~~~aD~  101 (405)
T 2c78_A           24 KTTLTAALTYVAAAEN-PN-VEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYIKNMITGAAQMDG  101 (405)
T ss_dssp             HHHHHHHHHHHHHHSC-TT-SCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCSGGGHHHHHHHHTTCSS
T ss_pred             HHHHHHHHHhhhhhcC-cc-ccccchhhccCCHHHHHcCCCEEeeeeEeccCCeEEEEEECCChHHHHHHHHHHHHHCCE
Confidence            8999999987543210 00 00000           12335555555566677899999999999999999899999999


Q ss_pred             EEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCc-EEEEEeCCCCCCCCC-----HHHHHhHcCccccCCcceEEEEeeec
Q 029517           83 VVFVIDAACPSRFEDSKTALEKVLRNEDLQGAP-LLILANKQDLPDAVS-----ADELARYLDLKKLDERVCMFEAVSGY  156 (192)
Q Consensus        83 ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~p-iiiv~nK~Dl~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~Sa~  156 (192)
                      +|+|+|+++.... ...+++..+...    ++| +++++||+|+.....     .+++.+++..........+++++||+
T Consensus       102 ~ilVvda~~g~~~-qt~~~l~~~~~~----~ip~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~SA~  176 (405)
T 2c78_A          102 AILVVSAADGPMP-QTREHILLARQV----GVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPGDEVPVIRGSAL  176 (405)
T ss_dssp             EEEEEETTTCCCH-HHHHHHHHHHHT----TCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTTSCTTTSCEEECCHH
T ss_pred             EEEEEECCCCCcH-HHHHHHHHHHHc----CCCEEEEEEECccccCcHHHHHHHHHHHHHHHHHhcccccCCCEEEccHH
Confidence            9999999876543 344555544433    577 899999999974111     11333443311111224789999999


Q ss_pred             CCCC------------------HHHHHHHHHHHHH
Q 029517          157 DGFG------------------IKESVEWLVEVME  173 (192)
Q Consensus       157 ~~~g------------------i~e~~~~i~~~i~  173 (192)
                      +|.|                  +.+++++|.+.+.
T Consensus       177 ~g~~v~~~~~~~~~~~~~~~~~i~~Ll~~l~~~lp  211 (405)
T 2c78_A          177 LALEQMHRNPKTRRGENEWVDKIWELLDAIDEYIP  211 (405)
T ss_dssp             HHHHHHHHCTTCCTTSCHHHHHHHHHHHHHHHHSC
T ss_pred             HhhhhhccccccccCCCcccccHHHHHHHHHhhcC
Confidence            9987                  6777777766554

>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=99.61  E-value=1.3e-16  Score=131.73  Aligned_cols=141  Identities=20%  Similarity=0.224  Sum_probs=91.4

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCc
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACP   92 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~   92 (192)
                      =|||++++|.+.... ..+.       ...|+......+..++..+.|||||||+.|..++...++.+|++|+|+|+++.
T Consensus        16 GKTTLl~~L~~~~v~-~~e~-------~GIT~~i~~~~v~~~~~~i~~iDTPGhe~f~~~~~~~~~~aD~aILVVda~~g   87 (501)
T 1zo1_I           16 GKTSLLEYIRSTKVA-SGEA-------GGITQHIGAYHVETENGMITFLDTPGHAAFTSMRARGAQATDIVVLVVAADDG   87 (501)
T ss_dssp             SSHHHHHHHHHHHHS-BTTB-------CCCCCCSSCCCCCTTSSCCCEECCCTTTCCTTSBCSSSBSCSSEEEEEETTTB
T ss_pred             CHHHHHHHHHcCCCc-cccC-------CCeeEeEEEEEEEECCEEEEEEECCCcHHHHHHHHHHHhhCCEEEEEeecccC
Confidence            389999998764321 0011       11122222223444556889999999999988888888999999999999874


Q ss_pred             ---ccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCcccc--CC--cceEEEEeeecCCCCHHHHH
Q 029517           93 ---SRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKL--DE--RVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus        93 ---~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~--~~--~~~~~~~~Sa~~~~gi~e~~  165 (192)
                         ++.+.+    ..+..    .+.|+++++||+|+.+... +.+.+.+.....  ..  ..++++++||++|.|+++++
T Consensus        88 ~~~qT~e~l----~~~~~----~~vPiIVviNKiDl~~~~~-~~v~~~l~~~~~~~~~~~~~~~~v~vSAktG~gI~eLl  158 (501)
T 1zo1_I           88 VMPQTIEAI----QHAKA----AQVPVVVAVNKIDKPEADP-DRVKNELSQYGILPEEWGGESQFVHVSAKAGTGIDELL  158 (501)
T ss_dssp             SCTTTHHHH----HHHHH----TTCCEEEEEECSSSSTTCC-CCTTCCCCCCCCCTTCCSSSCEEEECCTTTCTTCTTHH
T ss_pred             ccHHHHHHH----HHHHh----cCceEEEEEEeccccccCH-HHHHHHHHHhhhhHHHhCCCccEEEEeeeeccCcchhh
Confidence               333332    22222    3689999999999975321 122222210000  11  23789999999999999999


Q ss_pred             HHHHH
Q 029517          166 EWLVE  170 (192)
Q Consensus       166 ~~i~~  170 (192)
                      ++|..
T Consensus       159 e~I~~  163 (501)
T 1zo1_I          159 DAILL  163 (501)
T ss_dssp             HHTTT
T ss_pred             hhhhh
Confidence            99875

>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=99.61  E-value=5.2e-17  Score=133.86  Aligned_cols=122  Identities=25%  Similarity=0.305  Sum_probs=69.1

Q ss_pred             CCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc---cHH---HHHHHHHHHHhCCCCCC
Q 029517           40 IVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS---RFE---DSKTALEKVLRNEDLQG  113 (192)
Q Consensus        40 ~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~---s~~---~~~~~~~~i~~~~~~~~  113 (192)
                      ..+|++..+..+...+.++.|||||||++|...+..+++.+|++|+|+|+++..   +|+   ...+.+.... .   .+
T Consensus       105 ~giTi~~~~~~~~~~~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~-~---~~  180 (467)
T 1r5b_A          105 KGKTVEVGRAYFETEHRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLAR-T---QG  180 (467)
T ss_dssp             --------CCEEECSSEEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHH-H---TT
T ss_pred             cCceEEeeeEEEecCCeEEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHH-H---cC
Confidence            456787777778778899999999999999998888899999999999998752   121   1112222222 1   35


Q ss_pred             Cc-EEEEEeCCCCCCCC-CH-------HHHHhHcCcc-ccC-CcceEEEEeeecCCCCHHHHH
Q 029517          114 AP-LLILANKQDLPDAV-SA-------DELARYLDLK-KLD-ERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus       114 ~p-iiiv~nK~Dl~~~~-~~-------~~~~~~~~~~-~~~-~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      +| +++++||+|+.... +.       +++.+++... .+. ...++++++||++|.|+.+++
T Consensus       181 vp~iivviNK~Dl~~~~~~~~~~~~i~~e~~~~l~~~~g~~~~~~~~~i~vSA~~g~~i~~l~  243 (467)
T 1r5b_A          181 INHLVVVINKMDEPSVQWSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRV  243 (467)
T ss_dssp             CSSEEEEEECTTSTTCSSCHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCC
T ss_pred             CCEEEEEEECccCCCccccHHHHHHHHHHHHHHHHHhcCCCccCCceEEeccccccccccccc
Confidence            76 99999999996421 11       1344443311 111 125789999999999999876

>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=99.61  E-value=1.1e-14  Score=116.26  Aligned_cols=150  Identities=15%  Similarity=0.194  Sum_probs=92.8

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCC---------cccHHHHHHhhhcCCEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQ---------PGLRSIWEKYYEEAHAVV   84 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~---------~~~~~~~~~~~~~~d~ii   84 (192)
                      |||++|+|.+...    .+    .+.+.+|.+.....+...+..+.+|||+|.         +.+...+. .+..+|+++
T Consensus       192 KSTLln~L~~~~~----~~----~~~~~~T~d~~~~~i~~~g~~v~l~DT~G~i~~lp~~lve~f~~tl~-~~~~aD~il  262 (364)
T 2qtf_A          192 KTSLFNSLTGLTQ----KV----DTKLFTTMSPKRYAIPINNRKIMLVDTVGFIRGIPPQIVDAFFVTLS-EAKYSDALI  262 (364)
T ss_dssp             HHHHHHHHHCC-------------------CCSCEEEEEETTEEEEEEECCCBCSSCCGGGHHHHHHHHH-GGGGSSEEE
T ss_pred             HHHHHHHHHCCCc----cc----cCCcccccCCEEEEEEECCEEEEEEeCCCchhcCCHHHHHHHHHHHH-HHHhCCEEE
Confidence            6777777765422    11    123345555555667777788999999996         22433433 578999999


Q ss_pred             EEEeCCCcc--cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHH----HHhHcCccccCCcceEEEEeeecCC
Q 029517           85 FVIDAACPS--RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADE----LARYLDLKKLDERVCMFEAVSGYDG  158 (192)
Q Consensus        85 ~v~D~~~~~--s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~----~~~~~~~~~~~~~~~~~~~~Sa~~~  158 (192)
                      +|+|++++.  ..+.+..+...+... ...+.|+++|+||+|+.... ..+    +..+..  .......+++++||++|
T Consensus       263 ~VvD~s~~~~~~~~~~~~~~~~L~~l-~~~~~p~ilV~NK~Dl~~~~-~~~~~~~~~~l~~--~l~~~~~~~~~~SA~~g  338 (364)
T 2qtf_A          263 LVIDSTFSENLLIETLQSSFEILREI-GVSGKPILVTLNKIDKINGD-LYKKLDLVEKLSK--ELYSPIFDVIPISALKR  338 (364)
T ss_dssp             EEEETTSCHHHHHHHHHHHHHHHHHH-TCCSCCEEEEEECGGGCCSC-HHHHHHHHHHHHH--HHCSCEEEEEECBTTTT
T ss_pred             EEEECCCCcchHHHHHHHHHHHHHHh-CcCCCCEEEEEECCCCCCch-HHHHHHHHHHHHH--HhcCCCCcEEEEECCCC
Confidence            999998875  444443343333322 12478999999999987532 222    111111  00012457899999999


Q ss_pred             CCHHHHHHHHHHHHHhcc
Q 029517          159 FGIKESVEWLVEVMERSK  176 (192)
Q Consensus       159 ~gi~e~~~~i~~~i~~~~  176 (192)
                      .|+++++++|.+.+....
T Consensus       339 ~gi~~L~~~I~~~l~~~~  356 (364)
T 2qtf_A          339 TNLELLRDKIYQLATQLS  356 (364)
T ss_dssp             BSHHHHHHHHHHHHHHHC
T ss_pred             cCHHHHHHHHHHHhcccC
Confidence            999999999998776543

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.58  E-value=3.1e-16  Score=114.08  Aligned_cols=113  Identities=19%  Similarity=0.254  Sum_probs=76.0

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhc----CCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEE----AHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~----~d~ii~v~D~   89 (192)
                      |||++|+|.+....       .....+.|+.+..+     ..+.+.+|||||++.+...+..+++.    +|++++|+|+
T Consensus        61 KSsll~~l~~~~~~-------~~~~~~~~~~~~~~-----~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~d~  128 (193)
T 2ged_A           61 KTSLLTLLTTDSVR-------PTVVSQEPLSAADY-----DGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDS  128 (193)
T ss_dssp             HHHHHHHHHHSSCC-------------------CC-----CCTTCSEEEETTCCBSSCCHHHHHHHHGGGEEEEEEEEET
T ss_pred             HHHHHHHHhcCCCC-------cccccCCCceeeee-----cCCeEEEEECCCCchHHHHHHHHHHhhcccCCEEEEEEEC
Confidence            56666666543211       11223445554433     46789999999999887777777766    8999999999


Q ss_pred             C-CcccHHHHHHHHHHHHhCC---CCCCCcEEEEEeCCCCCCCCCHHHHHhHc
Q 029517           90 A-CPSRFEDSKTALEKVLRNE---DLQGAPLLILANKQDLPDAVSADELARYL  138 (192)
Q Consensus        90 ~-~~~s~~~~~~~~~~i~~~~---~~~~~piiiv~nK~Dl~~~~~~~~~~~~~  138 (192)
                      + +..++..+..|+..+....   ...+.|+++|+||+|+.+....+++.+.+
T Consensus       129 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~l  181 (193)
T 2ged_A          129 TVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKDAL  181 (193)
T ss_dssp             TCCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHHHHHHHH
T ss_pred             CCCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHhcCCCCHHHHHHHH
Confidence            9 8889999888888887532   11479999999999998766555555444

>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=99.58  E-value=6.5e-15  Score=112.36  Aligned_cols=144  Identities=14%  Similarity=0.173  Sum_probs=88.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCC---CCcceEEEEEEecCEEEEEEeCCCCccc-----------HHHHHHhhhc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIV---PTVGLNIGRIEVSNSKLVFWDLGGQPGL-----------RSIWEKYYEE   79 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~---~T~g~~~~~~~~~~~~~~i~D~~G~~~~-----------~~~~~~~~~~   79 (192)
                      |||++|+|++...         +...+.   .|.......+...+..+.||||||+..+           ......+++.
T Consensus        35 KStl~n~l~~~~~---------~~~~~~~~~~t~~~~~~~~~~~~~~i~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~~~  105 (260)
T 2xtp_A           35 KSAAGNSILRKQA---------FESKLGSQTLTKTCSKSQGSWGNREIVIIDTPDMFSWKDHCEALYKEVQRCYLLSAPG  105 (260)
T ss_dssp             HHHHHHHHHTSCC---------SCCCTTSCCCCCSCEEEEEEETTEEEEEEECCGGGGSSCCCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHhCCCC---------cccCCCCCceeeeeEEEEEEeCCCEEEEEECcCCCCCCCCHHHHHHHHHHHHHhcCCC
Confidence            6777777764321         222222   3444445556667889999999997543           2223346789


Q ss_pred             CCEEEEEEeCCCcccH-HHHHHHHHHHHhCCCCCCCcEEEEEe-CCCCCCCCCHHH------------HHhHcCccccCC
Q 029517           80 AHAVVFVIDAACPSRF-EDSKTALEKVLRNEDLQGAPLLILAN-KQDLPDAVSADE------------LARYLDLKKLDE  145 (192)
Q Consensus        80 ~d~ii~v~D~~~~~s~-~~~~~~~~~i~~~~~~~~~piiiv~n-K~Dl~~~~~~~~------------~~~~~~~~~~~~  145 (192)
                      +|++|+|+|++..... ..+..++..+....  ...|.++++| |+|+... ....            +.+.+.     .
T Consensus       106 ~d~il~V~d~~~~~~~~~~~~~~l~~~~~~~--~~~~~i~vv~nK~Dl~~~-~~~~~i~~~~~~~~~~~~~~~~-----~  177 (260)
T 2xtp_A          106 PHVLLLVTQLGRYTSQDQQAAQRVKEIFGED--AMGHTIVLFTHKEDLNGG-SLMDYMHDSDNKALSKLVAACG-----G  177 (260)
T ss_dssp             CSEEEEEEETTCCCHHHHHHHHHHHHHHCGG--GGGGEEEEEECGGGGTTC-CHHHHHHHCCCHHHHHHHHHTT-----T
T ss_pred             CcEEEEEEeCCCCCHHHHHHHHHHHHHhCch--hhccEEEEEEcccccCCc-cHHHHHHhcchHHHHHHHHHhC-----C
Confidence            9999999999863322 22334444433211  1356666665 9999753 2222            222222     1


Q ss_pred             cceEE--EEeeecCCCCHHHHHHHHHHHHHh
Q 029517          146 RVCMF--EAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       146 ~~~~~--~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      ....+  +++||++|.|++++|++|.+.+..
T Consensus       178 ~~~~~~~~~~SA~~~~gv~~l~~~i~~~~~~  208 (260)
T 2xtp_A          178 RICAFNNRAEGSNQDDQVKELMDCIEDLLME  208 (260)
T ss_dssp             CEEECCTTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             eEEEecCcccccccHHHHHHHHHHHHHHHHh
Confidence            11112  789999999999999999998875

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.57  E-value=2.6e-15  Score=115.60  Aligned_cols=148  Identities=13%  Similarity=0.113  Sum_probs=77.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEe----cCEEEEEEeCCCC-------cccHHHH-------HH
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEV----SNSKLVFWDLGGQ-------PGLRSIW-------EK   75 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~----~~~~~~i~D~~G~-------~~~~~~~-------~~   75 (192)
                      |||++|+|++.-..... . +.......+|++........    ..+.+.+|||||.       +.+....       ..
T Consensus        21 KSTLin~L~~~~~~~~~-~-~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~liDTpG~~d~~~~~~~~~~i~~~i~~~~~~   98 (274)
T 3t5d_A           21 KSTLINSLFLTDLYSPE-Y-PGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCWQPVIDYIDSKFED   98 (274)
T ss_dssp             HHHHHHHHSSSCC-----------------CCCEEEEEEECC--CCEEEEEEECCCCSCCSCCTTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCccccC-C-CCcccccCCceEEEEEEEEEecCCeEEEEEEEECCCccccccchhhHHHHHHHHHHHHHH
Confidence            78888887643211100 0 01112237788877765432    2469999999997       2344444       55


Q ss_pred             hhhc-------------CCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHH----HHHhHc
Q 029517           76 YYEE-------------AHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSAD----ELARYL  138 (192)
Q Consensus        76 ~~~~-------------~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~----~~~~~~  138 (192)
                      |++.             +|+++++++.+.......-..++..+..     ++|+++|+||+|+......+    .+.+.+
T Consensus        99 ~l~~~~~~~r~~~~d~r~~~~l~~i~~~~~~~~~~d~~~l~~l~~-----~~pvi~V~nK~D~~~~~e~~~~~~~i~~~l  173 (274)
T 3t5d_A           99 YLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHE-----KVNIIPLIAKADTLTPEECQQFKKQIMKEI  173 (274)
T ss_dssp             HHHHHHSSCCCSCCCCCCCEEEEEECSCCSSCCHHHHHHHHHHTT-----TSCEEEEESSGGGSCHHHHHHHHHHHHHHH
T ss_pred             HHHhhcccccccccCCceeEEEEEecCCCCCCCHHHHHHHHHHhc-----cCCEEEEEeccCCCCHHHHHHHHHHHHHHH
Confidence            5554             7899999987653222222234444422     68999999999986422222    222233


Q ss_pred             CccccCCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517          139 DLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus       139 ~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      .     ..+++++++||+++.|+++++++|.+.+.
T Consensus       174 ~-----~~~i~v~~~sa~~~~~~~~l~~~l~~~~p  203 (274)
T 3t5d_A          174 Q-----EHKIKIYEFPETDDEEENKLVKKIKDRLP  203 (274)
T ss_dssp             H-----HTTCCCCCC-----------CHHHHHTCS
T ss_pred             H-----HcCCeEEcCCCCCChhHHHHHHHHhcCCC
Confidence            2     45678899999999999999999987553

>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=99.57  E-value=5.1e-15  Score=121.72  Aligned_cols=120  Identities=14%  Similarity=0.216  Sum_probs=82.7

Q ss_pred             CCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc---cHH---HHHHHHHHHHhCCCCCCC
Q 029517           41 VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS---RFE---DSKTALEKVLRNEDLQGA  114 (192)
Q Consensus        41 ~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~---s~~---~~~~~~~~i~~~~~~~~~  114 (192)
                      ..|++..+..+.....++.|||||||++|......+++.+|++|+|+|+++..   +|+   ...+.+.....    .++
T Consensus        70 GiTi~~~~~~~~~~~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~----~~v  145 (458)
T 1f60_A           70 GITIDIALWKFETPKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFT----LGV  145 (458)
T ss_dssp             TCCCSCSCEEEECSSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHH----TTC
T ss_pred             CcEEEEEEEEEecCCceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHH----cCC
Confidence            56777777778888899999999999999999999999999999999998652   111   22233322222    245


Q ss_pred             c-EEEEEeCCCCCCCC--C----HHHHHhHcCccccCCcceEEEEeeecCCCCHHHH
Q 029517          115 P-LLILANKQDLPDAV--S----ADELARYLDLKKLDERVCMFEAVSGYDGFGIKES  164 (192)
Q Consensus       115 p-iiiv~nK~Dl~~~~--~----~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~  164 (192)
                      | +++++||+|+.+..  .    .+++.+++....+.....+++++||++|.|+.++
T Consensus       146 ~~iivviNK~Dl~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~i~vSA~~g~nv~~~  202 (458)
T 1f60_A          146 RQLIVAVNKMDSVKWDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIEA  202 (458)
T ss_dssp             CEEEEEEECGGGGTTCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTBC
T ss_pred             CeEEEEEEccccccCCHHHHHHHHHHHHHHHHHcCCCccCceEEEeecccCcCcccc
Confidence            4 99999999997311  1    1223333321111112478999999999999765

>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=99.55  E-value=8.7e-15  Score=129.69  Aligned_cols=155  Identities=13%  Similarity=0.098  Sum_probs=96.8

Q ss_pred             ccccHHHHHHHHhhhh-c---cCCCCCCCCCCC----CcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVY-S---NVEGLPPDRIVP----TVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~-~---~~~~~~~~~~~~----T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   85 (192)
                      |||++++|++...... .   ..........++    |+......+.....++.||||||+++|......+++.+|++|+
T Consensus       309 KSTLInrLt~~~~~~G~a~f~~~a~lD~~~~ErerGITIdva~v~f~~~~~kI~IIDTPGHedF~~~mi~gas~AD~aIL  388 (1289)
T 3avx_A          309 KTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHADYVKNMITGAAQMDGAIL  388 (1289)
T ss_dssp             HHHHHHHHHHHHHHHSCC---------------------CCSCEEEECSSCEEEEEECCCHHHHHHHHHHTSCCCSEEEE
T ss_pred             HHHHHHHHHhhhccccccccccccccccccccccCceeEEEEEEEEcCCCEEEEEEECCChHHHHHHHHHHHhhCCEEEE
Confidence            7888888887532110 0   000000111123    3333334566677899999999999999888889999999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCc-EEEEEeCCCCCCCCC-----HHHHHhHcCccccCCcceEEEEeeecCC-
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAP-LLILANKQDLPDAVS-----ADELARYLDLKKLDERVCMFEAVSGYDG-  158 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~p-iiiv~nK~Dl~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~Sa~~~-  158 (192)
                      |+|+++....+ ..+++..+..    .++| +++++||+|+.+...     .+++.+++....+....++++++||++| 
T Consensus       389 VVDAtdGv~~Q-TrEhL~ll~~----lgIP~IIVVINKiDLv~d~e~le~i~eEi~elLk~~G~~~~~vp~IpvSAktG~  463 (1289)
T 3avx_A          389 VVAATDGPMPQ-TREHILLGRQ----VGVPYIIVFLNKCDMVDDEELLELVEMEVRELLSQYDFPGDDTPIVRGSALKAL  463 (1289)
T ss_dssp             EEETTTCSCTT-HHHHHHHHHH----HTCSCEEEEEECCTTCCCHHHHHHHHHHHHHHHHHTTSCTTTCCEEECCSTTTT
T ss_pred             EEcCCccCcHH-HHHHHHHHHH----cCCCeEEEEEeecccccchhhHHHHHHHHHHHHHhccccccceeEEEEEeccCC
Confidence            99998764332 3344443333    2577 889999999975211     1234444432112123578999999999 


Q ss_pred             -------CCHHHHHHHHHHHHH
Q 029517          159 -------FGIKESVEWLVEVME  173 (192)
Q Consensus       159 -------~gi~e~~~~i~~~i~  173 (192)
                             .||.+++++|.+.+.
T Consensus       464 ng~~~w~eGI~eLleaL~~~Ip  485 (1289)
T 3avx_A          464 EGDAEWEAKILELAGFLDSYIP  485 (1289)
T ss_dssp             TCCHHHHHHHHHHHHHHHHTSC
T ss_pred             CCCccccccchhhHhHHhhhcC
Confidence                   468888888877554

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.55  E-value=7.2e-15  Score=114.11  Aligned_cols=112  Identities=21%  Similarity=0.135  Sum_probs=76.1

Q ss_pred             CEEEEEEeCCCCc-------------ccHHHHHHhhhcCCEEE-EEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEE
Q 029517           55 NSKLVFWDLGGQP-------------GLRSIWEKYYEEAHAVV-FVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILA  120 (192)
Q Consensus        55 ~~~~~i~D~~G~~-------------~~~~~~~~~~~~~d~ii-~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~  120 (192)
                      ...+.+|||||..             .+...+..|++.+++++ +|+|+++..+......++..+..    .+.|+++|+
T Consensus       124 ~~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~~~~~~~~~~----~~~~~i~V~  199 (299)
T 2aka_B          124 VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDP----QGQRTIGVI  199 (299)
T ss_dssp             CCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHHCT----TCSSEEEEE
T ss_pred             CCCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHHHHHHHHhCC----CCCeEEEEE
Confidence            3689999999953             45667788999998776 69999875444433334444322    468999999


Q ss_pred             eCCCCCCCCC--HHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517          121 NKQDLPDAVS--ADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus       121 nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                      ||+|+.+...  .+.+...+.  .......+++++||++|.|+++++++|.+..
T Consensus       200 NK~Dl~~~~~~~~~~~~~~~~--~~~~~~~~v~~~SA~~~~gi~~l~~~l~~~~  251 (299)
T 2aka_B          200 TKLDLMDEGTDARDVLENKLL--PLRRGYIGVVNRSQKDIDGKKDITAALAAER  251 (299)
T ss_dssp             ECGGGSCTTCCCHHHHTTCSS--CCTTCEEECCCCCCBCTTSCBCHHHHHHHHH
T ss_pred             EccccCCCCchHHHHHhCCcC--cCCCCcEEEECCChhhccccccHHHHHHHHH
Confidence            9999975322  222221111  1111235789999999999999999998744

>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=99.55  E-value=9.5e-14  Score=119.27  Aligned_cols=110  Identities=15%  Similarity=0.098  Sum_probs=76.1

Q ss_pred             ccccHHHHHHHHhhh--hccCCC--CCCC------CCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEE
Q 029517           14 TKTEFHTLLEKLKSV--YSNVEG--LPPD------RIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAV   83 (192)
Q Consensus        14 kst~~~~l~~~~~~~--~~~~~~--~~~~------~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   83 (192)
                      |||++++|+...-..  ...+.+  ...+      .+.+|++.....+...+..+.+|||||+.+|...+..+++.+|++
T Consensus        25 KTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giTi~~~~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~~  104 (691)
T 1dar_A           25 KTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKDHRINIIDTPGHVDFTIEVERSMRVLDGA  104 (691)
T ss_dssp             HHHHHHHHHHHHCC----------------------------CCEEEEEETTEEEEEECCCSSTTCHHHHHHHHHHCSEE
T ss_pred             HHHHHHHHHHhcCCCcccceecCCceeccCchhhhhcccccccceEEEEECCeEEEEEECcCccchHHHHHHHHHHCCEE
Confidence            899999988543211  001111  0111      446788877778888899999999999999999999999999999


Q ss_pred             EEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCC
Q 029517           84 VFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDA  128 (192)
Q Consensus        84 i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~  128 (192)
                      |+|+|+++..+.+....|.. +..    .++|+++++||+|+...
T Consensus       105 ilVvDa~~g~~~~t~~~~~~-~~~----~~~p~ivviNKiD~~~~  144 (691)
T 1dar_A          105 IVVFDSSQGVEPQSETVWRQ-AEK----YKVPRIAFANKMDKTGA  144 (691)
T ss_dssp             EEEEETTTCSCHHHHHHHHH-HHH----TTCCEEEEEECTTSTTC
T ss_pred             EEEEECCCCcchhhHHHHHH-HHH----cCCCEEEEEECCCcccC
Confidence            99999998887776655543 332    36899999999999764

>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=99.54  E-value=1.4e-13  Score=117.85  Aligned_cols=108  Identities=19%  Similarity=0.191  Sum_probs=74.6

Q ss_pred             ccccHHHHHHHHhhh--hccC-CCCCCCCC-------CCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEE
Q 029517           14 TKTEFHTLLEKLKSV--YSNV-EGLPPDRI-------VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAV   83 (192)
Q Consensus        14 kst~~~~l~~~~~~~--~~~~-~~~~~~~~-------~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   83 (192)
                      |||++++|++.....  ...+ .+.+...+       ..|+......+....+.+++|||||+.+|...+..+++.+|++
T Consensus        22 KTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~e~~~giti~~~~~~~~~~~~~~nliDTpG~~~f~~~~~~~l~~ad~~  101 (665)
T 2dy1_A           22 KTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGYGDFVGEIRGALEAADAA  101 (665)
T ss_dssp             HHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETTEEEEEEECCCSGGGHHHHHHHHHHCSEE
T ss_pred             HHHHHHHHHHhcCCCCccceecCCcccccCCHHHHhcCCeEEecceEEeeCCEEEEEEeCCCccchHHHHHHHHhhcCcE
Confidence            889999888654321  0011 11111111       2344444455677789999999999999999999999999999


Q ss_pred             EEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCC
Q 029517           84 VFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLP  126 (192)
Q Consensus        84 i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~  126 (192)
                      ++|+|+++....... .++..+..    .++|+++++||+|+.
T Consensus       102 ilVvD~~~g~~~qt~-~~~~~~~~----~~ip~ilv~NKiD~~  139 (665)
T 2dy1_A          102 LVAVSAEAGVQVGTE-RAWTVAER----LGLPRMVVVTKLDKG  139 (665)
T ss_dssp             EEEEETTTCSCHHHH-HHHHHHHH----TTCCEEEEEECGGGC
T ss_pred             EEEEcCCcccchhHH-HHHHHHHH----ccCCEEEEecCCchh
Confidence            999999876554432 44444433    368999999999987

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.53  E-value=1.8e-15  Score=128.15  Aligned_cols=122  Identities=18%  Similarity=0.154  Sum_probs=81.6

Q ss_pred             CCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc---cH---HHHHHHHHHHHhCCCCCCC
Q 029517           41 VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS---RF---EDSKTALEKVLRNEDLQGA  114 (192)
Q Consensus        41 ~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~---s~---~~~~~~~~~i~~~~~~~~~  114 (192)
                      ..|+...+..+...+.++.||||||+++|...+..+++.+|++|+|+|+++..   ++   ....+.+..+...   ...
T Consensus       230 GiTid~~~~~~~~~~~~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~l---gi~  306 (611)
T 3izq_1          230 GVTVSICTSHFSTHRANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSL---GIH  306 (611)
T ss_dssp             TTCCSCSCCEEECSSCEEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHTT---TCC
T ss_pred             CeeEeeeeEEEecCCceEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHHc---CCC
Confidence            34555566677778899999999999999999988999999999999998631   00   1111222222222   235


Q ss_pred             cEEEEEeCCCCCCC--CC----HHHHHhHcCccccCCcceEEEEeeecCCCCHHHHH
Q 029517          115 PLLILANKQDLPDA--VS----ADELARYLDLKKLDERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus       115 piiiv~nK~Dl~~~--~~----~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      |+++|+||+|+.+.  ..    .+++..++..........+++++||++|.||.++.
T Consensus       307 ~iIVVvNKiDl~~~~~~~~~ei~~~l~~~l~~~g~~~~~~~~i~vSA~tG~gI~el~  363 (611)
T 3izq_1          307 NLIIAMNKMDNVDWSQQRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKIE  363 (611)
T ss_dssp             EEEEEEECTTTTTTCHHHHHHHHHHHHHHHHHHTCCGGGCEEEECCTTTCTTTSSCT
T ss_pred             eEEEEEecccccchhHHHHHHHHHHHHHHHHhhcccccCccEEeeecccCCCccccC
Confidence            69999999999752  11    12222322211111235799999999999999773

>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=99.52  E-value=3.8e-14  Score=106.87  Aligned_cols=149  Identities=12%  Similarity=0.040  Sum_probs=85.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCc-----------ccHHHHHHhhhcCCE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQP-----------GLRSIWEKYYEEAHA   82 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~-----------~~~~~~~~~~~~~d~   82 (192)
                      |||++|+|++....      .........|.......+...+..+.+|||||..           .+...+..+++++|+
T Consensus        42 KStlin~l~g~~~~------~~~~~~~~~t~~~~~~~~~~~~~~i~liDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (239)
T 3lxx_A           42 KSATGNSILGRKVF------HSGTAAKSITKKCEKRSSSWKETELVVVDTPGIFDTEVPNAETSKEIIRCILLTSPGPHA  115 (239)
T ss_dssp             HHHHHHHHHTSCCS------CC-------CCSCEEEEEEETTEEEEEEECCSCC-----CHHHHHHHHHHHHHTTTCCSE
T ss_pred             HHHHHHHHcCCCcC------ccCCCCCceeeeEEEEEEEeCCceEEEEECCCccCCCCCHHHHHHHHHHHHHhcCCCCcE
Confidence            67777777653221      0000011234444455666778899999999943           344445556677899


Q ss_pred             EEEEEeCCCcccHHHHHHHHHHHHhCCC-CCCCcEEEEEeCCCCCCCCCHH--------HHHhHcCccccCCcceEEEEe
Q 029517           83 VVFVIDAACPSRFEDSKTALEKVLRNED-LQGAPLLILANKQDLPDAVSAD--------ELARYLDLKKLDERVCMFEAV  153 (192)
Q Consensus        83 ii~v~D~~~~~s~~~~~~~~~~i~~~~~-~~~~piiiv~nK~Dl~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~  153 (192)
                      +|+|+|+++...-+  ..++..+..... ....|+++|+||+|+......+        .+.+.++     ..+..++.+
T Consensus       116 ~l~v~d~~~~~~~~--~~~l~~~~~~~~~~~~~~~iiv~nK~D~~~~~~~~~~i~~~~~~l~~l~~-----~~~~~~~~~  188 (239)
T 3lxx_A          116 LLLVVPLGRYTEEE--HKATEKILKMFGERARSFMILIFTRKDDLGDTNLHDYLREAPEDIQDLMD-----IFGDRYCAL  188 (239)
T ss_dssp             EEEEEETTCCSSHH--HHHHHHHHHHHHHHHGGGEEEEEECGGGC------------CHHHHHHHH-----HHSSSEEEC
T ss_pred             EEEEeeCCCCCHHH--HHHHHHHHHHhhhhccceEEEEEeCCccCCcccHHHHHHhchHHHHHHHH-----HcCCEEEEE
Confidence            99999987654422  233333332100 0246999999999986532222        2333332     233456666


Q ss_pred             eecC-----CCCHHHHHHHHHHHHHhc
Q 029517          154 SGYD-----GFGIKESVEWLVEVMERS  175 (192)
Q Consensus       154 Sa~~-----~~gi~e~~~~i~~~i~~~  175 (192)
                      ++..     +.|+.++++.+.+.+.+.
T Consensus       189 ~~~~~~~~~~~~v~~ll~~i~~~~~~~  215 (239)
T 3lxx_A          189 NNKATGAEQEAQRAQLLGLIQRVVREN  215 (239)
T ss_dssp             CTTCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             ECCCCccccHHHHHHHHHHHHHHHHHc
Confidence            5553     368999999988877653

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.52  E-value=1.1e-15  Score=129.14  Aligned_cols=145  Identities=15%  Similarity=0.147  Sum_probs=70.5

Q ss_pred             ccccHHHHHHHHhhhhcc---------------------CCCCCCCC--CCCCcceEEEEEEecCEEEEEEeCCCCcccH
Q 029517           14 TKTEFHTLLEKLKSVYSN---------------------VEGLPPDR--IVPTVGLNIGRIEVSNSKLVFWDLGGQPGLR   70 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~---------------------~~~~~~~~--~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~   70 (192)
                      |||++|+|++....+..+                     +.+....+  ...|+...+..+...+..+.||||||+++|.
T Consensus       190 KSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~GiTid~~~~~~~~~~~~i~iiDTPGh~~f~  269 (592)
T 3mca_A          190 KSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLLDTTEEERARGVTMDVASTTFESDKKIYEIGDAPGHRDFI  269 (592)
T ss_dssp             HHHHHHHHHHHHHCC------------------------------------------------------CCEEESSSEEE
T ss_pred             HHHHHHHHHHHcCCcchHHHHHHHHhHhhcCCcchhhhhhhccchhhhcCCeeEEeeEEEEEeCCeEEEEEECCChHHHH
Confidence            899999998765443322                     11111111  1335555555566667899999999999988


Q ss_pred             HHHHHhhhcCCEEEEEEeCCCcc---cH---HHHHHHHHHHHhCCCCCCCc-EEEEEeCCCCCCCC------CHHHHHhH
Q 029517           71 SIWEKYYEEAHAVVFVIDAACPS---RF---EDSKTALEKVLRNEDLQGAP-LLILANKQDLPDAV------SADELARY  137 (192)
Q Consensus        71 ~~~~~~~~~~d~ii~v~D~~~~~---s~---~~~~~~~~~i~~~~~~~~~p-iiiv~nK~Dl~~~~------~~~~~~~~  137 (192)
                      .....+++.+|++|+|+|+++..   .+   ....+.+..+..    .++| +++|+||+|+.+..      ..+++.++
T Consensus       270 ~~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~----lgip~iIvviNKiDl~~~~~~~~~~i~~el~~~  345 (592)
T 3mca_A          270 SGMIAGASSADFAVLVVDSSQNNFERGFLENGQTREHAYLLRA----LGISEIVVSVNKLDLMSWSEDRFQEIKNIVSDF  345 (592)
T ss_dssp             EECCC-------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHH----SSCCCEEEEEECGGGGTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhCCEEEEEEECCCCccccccccchHHHHHHHHHHH----cCCCeEEEEEeccccccccHHHHHHHHHHHHHH
Confidence            77777788999999999998532   01   111122222222    2455 99999999987521      12334444


Q ss_pred             c-CccccCCcceEEEEeeecCCCCHH
Q 029517          138 L-DLKKLDERVCMFEAVSGYDGFGIK  162 (192)
Q Consensus       138 ~-~~~~~~~~~~~~~~~Sa~~~~gi~  162 (192)
                      + ....+....++++++||++|.||.
T Consensus       346 l~~~~g~~~~~~~ii~iSA~~G~gI~  371 (592)
T 3mca_A          346 LIKMVGFKTSNVHFVPISAISGTNLI  371 (592)
T ss_dssp             HTTTSCCCGGGEEEEEECSSSCSSSC
T ss_pred             HHHhhCCCccceEEEEEecccCcccc
Confidence            4 322222335789999999999998

>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=99.50  E-value=4.3e-15  Score=118.68  Aligned_cols=124  Identities=11%  Similarity=0.159  Sum_probs=64.1

Q ss_pred             CCCcceEEEEEE--ec--CEEEEEEeCCCC-------cccHHHHH-------HhhhcCC-------------EEEEEEeC
Q 029517           41 VPTVGLNIGRIE--VS--NSKLVFWDLGGQ-------PGLRSIWE-------KYYEEAH-------------AVVFVIDA   89 (192)
Q Consensus        41 ~~T~g~~~~~~~--~~--~~~~~i~D~~G~-------~~~~~~~~-------~~~~~~d-------------~ii~v~D~   89 (192)
                      .+|++.....+.  ..  .+.+.+|||||+       +.+...+.       .|++.++             +++++++.
T Consensus        76 ~~ti~~~~~~~~~~~~~~~~~l~i~DTpG~gd~~~~~e~~~~i~~~i~~~~~~yl~~~~~~~r~~~~d~rv~~~vy~I~~  155 (361)
T 2qag_A           76 ERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDCFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISP  155 (361)
T ss_dssp             --CEEEEEEEEC----CEEEEEEEEC--------------CCTHHHHHHHHHHHHHHHTCSCCC-CCCCCCCEEEEEECS
T ss_pred             CCceeEEEEEEEeecCCcccceEEEEeccccccCccHHHHHHHHHHHHHHHHHHHHHhhhhccccccCCceEEEEEEEec
Confidence            467776654432  22  358999999998       55555554       6666544             45555554


Q ss_pred             CCcccHHHHH-HHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCH----HHHHhHcCccccCCcceEEEEeeecCCCCHHHH
Q 029517           90 ACPSRFEDSK-TALEKVLRNEDLQGAPLLILANKQDLPDAVSA----DELARYLDLKKLDERVCMFEAVSGYDGFGIKES  164 (192)
Q Consensus        90 ~~~~s~~~~~-~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~----~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~  164 (192)
                      + ..++..+. .++..+   .  .++|+++|+||+|+......    +++.+.+.     ..+++++++||++|.| ++.
T Consensus       156 ~-~~~l~~~d~~~~~~l---~--~~~piIlV~NK~Dl~~~~ev~~~k~~i~~~~~-----~~~i~~~~~Sa~~~~~-~e~  223 (361)
T 2qag_A          156 F-GHGLKPLDVAFMKAI---H--NKVNIVPVIAKADTLTLKERERLKKRILDEIE-----EHNIKIYHLPDAESDE-DED  223 (361)
T ss_dssp             S-SSSCCHHHHHHHHHT---C--S-SCEEEEEECCSSSCHHHHHHHHHHHHHHTT-----CC-CCSCCCC----------
T ss_pred             C-CCCcchhHHHHHHHh---c--cCCCEEEEEECCCCCCHHHHHHHHHHHHHHHH-----HCCCCEEeCCCcCCCc-chh
Confidence            2 34455444 333333   1  46899999999998752111    34445554     5678999999999999 999


Q ss_pred             HHHHHHHHHhcc
Q 029517          165 VEWLVEVMERSK  176 (192)
Q Consensus       165 ~~~i~~~i~~~~  176 (192)
                      |.++.+.+.+..
T Consensus       224 ~~~l~~~i~~~i  235 (361)
T 2qag_A          224 FKEQTRLLKASI  235 (361)
T ss_dssp             CHHHHHHHHHTC
T ss_pred             HHHHHHHHHhcC
Confidence            999988886543

>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=99.49  E-value=3.4e-14  Score=118.52  Aligned_cols=115  Identities=17%  Similarity=0.135  Sum_probs=77.7

Q ss_pred             CcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeC
Q 029517           43 TVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANK  122 (192)
Q Consensus        43 T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK  122 (192)
                      |+......+...+..+.+|||||+.+|...+..+++.+|++|+|+|+++...... ..++..+ ..   .++|+++++||
T Consensus        69 Ti~~~~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~~IlVvDa~~g~~~~t-~~~~~~~-~~---~~ipiivviNK  143 (529)
T 2h5e_A           69 SITTSVMQFPYHDCLVNLLDTPGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDRT-RKLMEVT-RL---RDTPILTFMNK  143 (529)
T ss_dssp             -CCTTEEEEEETTEEEEEECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHH-HHHHHHH-TT---TTCCEEEEEEC
T ss_pred             ceeeeEEEEEECCeEEEEEECCCChhHHHHHHHHHHHCCEEEEEEeCCccchHHH-HHHHHHH-HH---cCCCEEEEEcC
Confidence            4444445677788999999999999999888899999999999999987643322 2222222 22   47899999999


Q ss_pred             CCCCCCCC---HHHHHhHcCccccCCcceEEEEeeecCCCCHHHHH
Q 029517          123 QDLPDAVS---ADELARYLDLKKLDERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus       123 ~Dl~~~~~---~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      +|+.....   .+++.+.+...   .....+..+|++++.|+.+++
T Consensus       144 ~Dl~~~~~~~~~~~i~~~l~~~---~~~~~~pi~sa~~~~Gv~dl~  186 (529)
T 2h5e_A          144 LDRDIRDPMELLDEVENELKIG---CAPITWPIGCGKLFKGVYHLY  186 (529)
T ss_dssp             TTSCCSCHHHHHHHHHHHHCCE---EEESEEEESCGGGCCEEEETT
T ss_pred             cCCccccHHHHHHHHHHHhCCC---ccceecceecccCcceeeehh
Confidence            99986543   23444444311   112334456777777765554

>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=99.49  E-value=4.9e-13  Score=115.06  Aligned_cols=109  Identities=15%  Similarity=0.028  Sum_probs=75.1

Q ss_pred             ccccHHHHHHHHhhhh--ccCCC--CCCC------CCCCCcceEEEEEEecC-------EEEEEEeCCCCcccHHHHHHh
Q 029517           14 TKTEFHTLLEKLKSVY--SNVEG--LPPD------RIVPTVGLNIGRIEVSN-------SKLVFWDLGGQPGLRSIWEKY   76 (192)
Q Consensus        14 kst~~~~l~~~~~~~~--~~~~~--~~~~------~~~~T~g~~~~~~~~~~-------~~~~i~D~~G~~~~~~~~~~~   76 (192)
                      |||++++|+...-...  .++.+  .+.+      ....|+......+....       +.+.||||||+.+|...+..+
T Consensus        23 KTTL~~~Ll~~~g~~~~~g~v~~g~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~~~~i~liDTPG~~df~~~~~~~  102 (704)
T 2rdo_7           23 KTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTAFWSGMAKQYEPHRINIIDTPGHVDFTIEVERS  102 (704)
T ss_pred             HHHHHHHHHHhcCCcccccccCCCceeecChhhHHhcCceeeeceEEEEECCccccCCceeEEEEeCCCccchHHHHHHH
Confidence            8888888876421100  01111  1111      23456665555565554       899999999999999999999


Q ss_pred             hhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           77 YEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        77 ~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      ++.+|++|+|+|+++....+....| ..+..    .++|+++++||+|+..
T Consensus       103 l~~aD~aIlVvDa~~gv~~qt~~~~-~~~~~----~~ip~ilviNKiD~~~  148 (704)
T 2rdo_7          103 MRVLDGAVMVYCAVGGVQPQSETVW-RQANK----YKVPRIAFVNKMDRMG  148 (704)
T ss_pred             HHHCCEEEEEEeCCCCCcHHHHHHH-HHHHH----cCCCEEEEEeCCCccc
Confidence            9999999999999987655544333 22222    3689999999999865

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.48  E-value=4.8e-13  Score=114.96  Aligned_cols=111  Identities=15%  Similarity=0.076  Sum_probs=76.6

Q ss_pred             hccccHHHHHHHHhhhh--ccCCC--CCCC------CCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCE
Q 029517           13 FTKTEFHTLLEKLKSVY--SNVEG--LPPD------RIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHA   82 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~--~~~~~--~~~~------~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   82 (192)
                      =|||++|+|++......  ..+.+  ...+      ....|++.....+...+..+.+|||||+.+|...+..+++.+|+
T Consensus        22 GKSTL~~~Ll~~~~~~~~~g~v~~~~~~~D~~~~e~~~giTi~~~~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~  101 (693)
T 2xex_A           22 GKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGITITSAATTAAWEGHRVNIIDTPGHVDFTVEVERSLRVLDG  101 (693)
T ss_dssp             THHHHHHHHHHHHSSCC-------------------------CCSEEEEEETTEEEEEECCCCCSSCCHHHHHHHHHCSE
T ss_pred             CHHHHHHHHHHhcCCccccccccCCceecccchhhhhcCceEeeeeEEEEECCeeEEEEECcCCcchHHHHHHHHHHCCE
Confidence            38999999986532210  00101  1111      23556766667777888999999999999999999999999999


Q ss_pred             EEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCC
Q 029517           83 VVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDA  128 (192)
Q Consensus        83 ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~  128 (192)
                      +|+|+|+++..+......|. .+..    .+.|+++|+||+|+...
T Consensus       102 ~llVvDa~~g~~~~~~~~~~-~~~~----~~~p~ilviNK~Dl~~~  142 (693)
T 2xex_A          102 AVTVLDAQSGVEPQTETVWR-QATT----YGVPRIVFVNKMDKLGA  142 (693)
T ss_dssp             EEEEEETTTBSCHHHHHHHH-HHHH----TTCCEEEEEECTTSTTC
T ss_pred             EEEEECCCCCCcHHHHHHHH-HHHH----cCCCEEEEEECCCcccc
Confidence            99999999887776655543 3333    36899999999999764

>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=99.47  E-value=2.4e-13  Score=110.10  Aligned_cols=150  Identities=21%  Similarity=0.275  Sum_probs=102.4

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecC-EEEEEEeCCCCcc-------cHHHHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSN-SKLVFWDLGGQPG-------LRSIWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~-~~~~i~D~~G~~~-------~~~~~~~~~~~~d~ii~   85 (192)
                      |||++|+|.    +..+.+.+++.++..|++|.    +.... ..+.+||+||...       +.......++.++.+++
T Consensus       170 KSTLL~~Ls----g~~~~i~~~~ftTl~p~~G~----V~~~~~~~~~l~DtpGli~~a~~~~~L~~~fl~~~era~~lL~  241 (416)
T 1udx_A          170 KSSLLAAMT----RAHPKIAPYPFTTLSPNLGV----VEVSEEERFTLADIPGIIEGASEGKGLGLEFLRHIARTRVLLY  241 (416)
T ss_dssp             HHHHHHHHC----SSCCEECCCTTCSSCCEEEE----EECSSSCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSSEEEE
T ss_pred             HHHHHHHHH----cCCccccCcccceecceeeE----EEecCcceEEEEeccccccchhhhhhhhHHHHHHHHHHHhhhE
Confidence            566666554    44445556665555565443    44443 7899999999732       11222334678999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCC-CCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHH
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNED-LQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKES  164 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~-~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~  164 (192)
                      |+|++ ...+..+..+..++..... ....|.++++||+|+......+++.+.+.     ..+..++++||+++.|++++
T Consensus       242 vvDls-~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl~~~~~~~~l~~~l~-----~~g~~vi~iSA~~g~gi~eL  315 (416)
T 1udx_A          242 VLDAA-DEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEEEAVKALADALA-----REGLAVLPVSALTGAGLPAL  315 (416)
T ss_dssp             EEETT-SCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCHHHHHHHHHHHH-----TTTSCEEECCTTTCTTHHHH
T ss_pred             EeCCc-cCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCChhhHHHHHHHHHHHH-----hcCCeEEEEECCCccCHHHH
Confidence            99998 6667777777766665421 13689999999999875422233333333     34678999999999999999


Q ss_pred             HHHHHHHHHhcch
Q 029517          165 VEWLVEVMERSKR  177 (192)
Q Consensus       165 ~~~i~~~i~~~~~  177 (192)
                      +++|.+.+.....
T Consensus       316 ~~~i~~~l~~~~~  328 (416)
T 1udx_A          316 KEALHALVRSTPP  328 (416)
T ss_dssp             HHHHHHHHHTSCC
T ss_pred             HHHHHHHHHhccc
Confidence            9999999876653

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.41  E-value=9.5e-13  Score=113.16  Aligned_cols=117  Identities=19%  Similarity=0.240  Sum_probs=80.7

Q ss_pred             EEEEEEeCCCCcc---cHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCC--C
Q 029517           56 SKLVFWDLGGQPG---LRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAV--S  130 (192)
Q Consensus        56 ~~~~i~D~~G~~~---~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~--~  130 (192)
                      ..+.+|||||...   .......+++.+|++|+|+|++++.+......|...+..    .+.|+++|+||+|+....  +
T Consensus       174 ~~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~l~~~l~~----~~~~iiiVlNK~Dl~~~~~~~  249 (695)
T 2j69_A          174 KGIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERRYLENYIKG----RGLTVFFLVNAWDQVRESLID  249 (695)
T ss_dssp             TTEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHHHHHHHHTTT----SCCCEEEEEECGGGGGGGCSS
T ss_pred             CCeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHHHHHHHHHHh----hCCCEEEEEECcccccccccC
Confidence            3689999999654   445667789999999999999988777776555443322    367899999999986421  1


Q ss_pred             HH----------HHHhH----cC-ccc---cCCcceEEEEeeec--------------CCCCHHHHHHHHHHHHHhcc
Q 029517          131 AD----------ELARY----LD-LKK---LDERVCMFEAVSGY--------------DGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       131 ~~----------~~~~~----~~-~~~---~~~~~~~~~~~Sa~--------------~~~gi~e~~~~i~~~i~~~~  176 (192)
                      .+          .+.+.    +. ...   ......+++++||+              +|.|+++++++|.+.+...+
T Consensus       250 ~ee~e~l~~~~~~i~~~~~~~l~~~~~~~g~~~~~~~v~~vSAk~al~~~~~~~~~~~~~~Gi~~L~~~L~~~l~~~~  327 (695)
T 2j69_A          250 PDDVEELQASENRLRQVFNANLAEYCTVEGQNIYDERVFELSSIQALRRRLKNPQADLDGTGFPKFMDSLNTFLTRER  327 (695)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHHGGGGBSSSCBCGGGTEEECCHHHHHHHHHHCTTCCCTTSSHHHHHHHHHHHHHHTH
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHhhcccccccCCCcEEEEeChHHHHhhccCchhhhhccCHHHHHHHHHHHHHHhH
Confidence            11          12111    11 000   00123578999999              99999999999998776543

>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=99.40  E-value=1.3e-13  Score=107.54  Aligned_cols=96  Identities=18%  Similarity=0.088  Sum_probs=74.3

Q ss_pred             CcccHHHHHHhhhcCCEEEEEEeCCCcc-cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCC--C-HHHHHhHcCcc
Q 029517           66 QPGLRSIWEKYYEEAHAVVFVIDAACPS-RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAV--S-ADELARYLDLK  141 (192)
Q Consensus        66 ~~~~~~~~~~~~~~~d~ii~v~D~~~~~-s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~--~-~~~~~~~~~~~  141 (192)
                      ++++......+++++|++++|+|++++. ++..+..|+..+..    .++|+++|+||+|+.+..  + .+++.+.+.  
T Consensus        66 ~er~~~l~r~~~~naD~vliV~d~~~p~~s~~~l~~~l~~~~~----~~~~~ilV~NK~DL~~~~~v~~~~~~~~~~~--  139 (302)
T 2yv5_A           66 EERKNLLIRPKVANVDRVIIVETLKMPEFNNYLLDNMLVVYEY----FKVEPVIVFNKIDLLNEEEKKELERWISIYR--  139 (302)
T ss_dssp             CCCSCEEETTEEESCCEEEEEECSTTTTCCHHHHHHHHHHHHH----TTCEEEEEECCGGGCCHHHHHHHHHHHHHHH--
T ss_pred             CChHHHHhHHHHHhcCEEEEEEECCCCCCCHHHHHHHHHHHHh----CCCCEEEEEEcccCCCccccHHHHHHHHHHH--
Confidence            6666666667899999999999999885 89988899886654    379999999999997521  1 233344433  


Q ss_pred             ccCCcceEEEEeeecCCCCHHHHHHHHHH
Q 029517          142 KLDERVCMFEAVSGYDGFGIKESVEWLVE  170 (192)
Q Consensus       142 ~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~  170 (192)
                         ..+++++++||++|.|++++++.+..
T Consensus       140 ---~~g~~~~~~SA~~g~gi~~L~~~l~G  165 (302)
T 2yv5_A          140 ---DAGYDVLKVSAKTGEGIDELVDYLEG  165 (302)
T ss_dssp             ---HTTCEEEECCTTTCTTHHHHHHHTTT
T ss_pred             ---HCCCeEEEEECCCCCCHHHHHhhccC
Confidence               33679999999999999999987653

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=99.38  E-value=3.7e-12  Score=106.69  Aligned_cols=83  Identities=16%  Similarity=0.154  Sum_probs=66.4

Q ss_pred             CCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEE
Q 029517           41 VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILA  120 (192)
Q Consensus        41 ~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~  120 (192)
                      .-|+......+.+++..++|+|||||.+|.......++-+|++|+|+|+...-.-+....| +...+    .++|.++++
T Consensus        85 GITI~s~~~~~~~~~~~iNlIDTPGHvDF~~Ev~raL~~~DgAvlVvda~~GV~~qT~~v~-~~a~~----~~lp~i~fI  159 (548)
T 3vqt_A           85 GISVTTSVMQFPYRDRVVNLLDTPGHQDFSEDTYRVLTAVDSALVVIDAAKGVEAQTRKLM-DVCRM----RATPVMTFV  159 (548)
T ss_dssp             ---CTTTEEEEEETTEEEEEECCCCGGGCSHHHHHHHHSCSEEEEEEETTTBSCHHHHHHH-HHHHH----TTCCEEEEE
T ss_pred             CCcEeeceEEEEECCEEEEEEeCCCcHHHHHHHHHHHHhcCceEEEeecCCCcccccHHHH-HHHHH----hCCceEEEE
Confidence            3455555667888999999999999999999999999999999999999987666665555 33333    369999999


Q ss_pred             eCCCCCCC
Q 029517          121 NKQDLPDA  128 (192)
Q Consensus       121 nK~Dl~~~  128 (192)
                      ||+|....
T Consensus       160 NK~Dr~~a  167 (548)
T 3vqt_A          160 NKMDREAL  167 (548)
T ss_dssp             ECTTSCCC
T ss_pred             ecccchhc
Confidence            99998763

>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=99.38  E-value=2.1e-12  Score=100.97  Aligned_cols=115  Identities=19%  Similarity=0.172  Sum_probs=72.0

Q ss_pred             CEEEEEEeCCCCcc-------------cHHHHHHhhhcCCEEEEEEeCCCcccH-HHHHHHHHHHHhCCCCCCCcEEEEE
Q 029517           55 NSKLVFWDLGGQPG-------------LRSIWEKYYEEAHAVVFVIDAACPSRF-EDSKTALEKVLRNEDLQGAPLLILA  120 (192)
Q Consensus        55 ~~~~~i~D~~G~~~-------------~~~~~~~~~~~~d~ii~v~D~~~~~s~-~~~~~~~~~i~~~~~~~~~piiiv~  120 (192)
                      ...+.+|||||...             +......+++.+|++++|+|+++.... .....+...+ ..   .+.|+++|+
T Consensus       130 ~~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~~~~~~~~~i~~~~-~~---~~~~~i~v~  205 (315)
T 1jwy_B          130 VVNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEV-DP---EGKRTIGVI  205 (315)
T ss_dssp             SCSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHH-CS---SCSSEEEEE
T ss_pred             CCCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcchhhhHHHHHHHHh-CC---CCCcEEEEE
Confidence            46799999999753             455677889999999999997433211 1111222222 22   468999999


Q ss_pred             eCCCCCCCCC--HHHHHhHcCccccCCcceEEEEeeecC---CCCHHHHHHHHHHHHHhc
Q 029517          121 NKQDLPDAVS--ADELARYLDLKKLDERVCMFEAVSGYD---GFGIKESVEWLVEVMERS  175 (192)
Q Consensus       121 nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~---~~gi~e~~~~i~~~i~~~  175 (192)
                      ||+|+.....  .+.+...+.  ......+++..+||.+   +.|+.++++++.+.+...
T Consensus       206 NK~Dl~~~~~~~~~~~~~~~~--~~~~~~~~v~~~sa~~~~~~~gv~~l~~~~~~~~~~~  263 (315)
T 1jwy_B          206 TKLDLMDKGTDAMEVLTGRVI--PLTLGFIGVINRSQEDIIAKKSIRESLKSEILYFKNH  263 (315)
T ss_dssp             ECTTSSCSSCCCHHHHTTSSS--CCTTCEEECCCCCHHHHSSSCCHHHHHHHHHHHHHTC
T ss_pred             cCcccCCcchHHHHHHhCCCc--cCCCCeEEEecCChhhhccCCCHHHHHHHHHHHHhCC
Confidence            9999975322  222221111  0001223455556666   899999999998877654

>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=99.35  E-value=1.4e-12  Score=95.85  Aligned_cols=110  Identities=15%  Similarity=0.107  Sum_probs=72.7

Q ss_pred             EEEEEeCCCCcc----------cHHHHHHhh---hcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCC
Q 029517           57 KLVFWDLGGQPG----------LRSIWEKYY---EEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQ  123 (192)
Q Consensus        57 ~~~i~D~~G~~~----------~~~~~~~~~---~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~  123 (192)
                      .+.+|||||...          +......++   +.++++++|+|++...+...  ..+..+...   .+.|+++++||+
T Consensus        73 ~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~d~~~~~~~~~--~~~~~~~~~---~~~~~~~v~nK~  147 (210)
T 1pui_A           73 GKRLVDLPGYGYAEVPEEMKRKWQRALGEYLEKRQSLQGLVVLMDIRHPLKDLD--QQMIEWAVD---SNIAVLVLLTKA  147 (210)
T ss_dssp             TEEEEECCCCC------CCHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHH--HHHHHHHHH---TTCCEEEEEECG
T ss_pred             CEEEEECcCCcccccCHHHHHHHHHHHHHHHHhhhcccEEEEEEECCCCCchhH--HHHHHHHHH---cCCCeEEEEecc
Confidence            578999999742          333444455   46899999999988765532  111122222   468999999999


Q ss_pred             CCCCCC----CHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          124 DLPDAV----SADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       124 Dl~~~~----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      |+....    ..+.+...+..   ......++++||+++.|+++++++|.+.+.+
T Consensus       148 D~~s~~~~~~~~~~~~~~~~~---~~~~~~~~~~Sal~~~~~~~l~~~l~~~~~~  199 (210)
T 1pui_A          148 DKLASGARKAQLNMVREAVLA---FNGDVQVETFSSLKKQGVDKLRQKLDTWFSE  199 (210)
T ss_dssp             GGSCHHHHHHHHHHHHHHHGG---GCSCEEEEECBTTTTBSHHHHHHHHHHHHC-
T ss_pred             cCCCchhHHHHHHHHHHHHHh---cCCCCceEEEeecCCCCHHHHHHHHHHHHhh
Confidence            986421    12334444431   0124688999999999999999999886644

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.29  E-value=7.8e-12  Score=95.51  Aligned_cols=104  Identities=7%  Similarity=0.034  Sum_probs=63.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCC-CCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhh---------cCCEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRI-VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYE---------EAHAV   83 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~-~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~---------~~d~i   83 (192)
                      |||++|+|+++-..        +...+ ..|.......+...+..+.+|||||++++......+++         ++|++
T Consensus        49 KSSLin~l~~~~~~--------~~~~~~~~t~~~~~~~~~~~~~~l~liDTpG~~~~~~~~~~~~~~i~~~l~~~~~~~i  120 (262)
T 3def_A           49 KSSTVNSLIGEQVV--------RVSPFQAEGLRPVMVSRTMGGFTINIIDTPGLVEAGYVNHQALELIKGFLVNRTIDVL  120 (262)
T ss_dssp             HHHHHHHHHTSCCS--------CCCSSCC-CCCCEEEEEEETTEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEE
T ss_pred             HHHHHHHHhCCCCc--------ccCCCCCcceeeEEEEEEECCeeEEEEECCCCCCcccchHHHHHHHHHHHhcCCCCEE
Confidence            56677766653211        11222 22445555567778889999999998766433222222         78999


Q ss_pred             EEEEeCCCcccHHHH-HHHHHHHHhCCC-CCCCcEEEEEeCCCCC
Q 029517           84 VFVIDAACPSRFEDS-KTALEKVLRNED-LQGAPLLILANKQDLP  126 (192)
Q Consensus        84 i~v~D~~~~~s~~~~-~~~~~~i~~~~~-~~~~piiiv~nK~Dl~  126 (192)
                      ++|+|++... +... ..|+..+..... ....|+++|+||+|+.
T Consensus       121 l~V~~~d~~~-~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~  164 (262)
T 3def_A          121 LYVDRLDVYA-VDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFS  164 (262)
T ss_dssp             EEEEESSCSC-CCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCC
T ss_pred             EEEEcCCCCC-CCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccC
Confidence            9999887544 3322 355555554321 1135999999999985

>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=99.29  E-value=1.4e-13  Score=111.11  Aligned_cols=76  Identities=18%  Similarity=0.145  Sum_probs=38.5

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEE-------------------E-ecCEEEEEEeCCCCcc----
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRI-------------------E-VSNSKLVFWDLGGQPG----   68 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~-------------------~-~~~~~~~i~D~~G~~~----   68 (192)
                      =|||+||+|+++.    ..+.+++.++..|+.|......                   + ...+.+++|||||..+    
T Consensus        12 GKSTL~n~L~~~~----~~~~~~p~tT~~~~~g~~~~~~~~~~~~l~~~~~p~~~~~~~~~~~~~i~lvDtpG~~~~a~~   87 (397)
T 1wxq_A           12 GKSTFFSAATLVD----VEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAGLVPGAHE   87 (397)
T ss_dssp             SHHHHHHHHHC------------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC--------
T ss_pred             CHHHHHHHHHCCC----CcccCCCCcccCCceEEEeeccCCchHHhhhhcccccccccCCcceEEEEEEECCCcccchhh
Confidence            4899999998764    2333555556667777543221                   1 1136899999999753    


Q ss_pred             cHHHHH---HhhhcCCEEEEEEeCCCc
Q 029517           69 LRSIWE---KYYEEAHAVVFVIDAACP   92 (192)
Q Consensus        69 ~~~~~~---~~~~~~d~ii~v~D~~~~   92 (192)
                      ......   .+++.+|++++|+|+++.
T Consensus        88 ~~~l~~~~l~~i~~aD~il~VvD~~~~  114 (397)
T 1wxq_A           88 GRGLGNKFLDDLRMASALIHVVDATGK  114 (397)
T ss_dssp             -------CCCSSTTCSEEEEEEETTCC
T ss_pred             hhhHHHHHHHHHhcCCEEEEEEecccc
Confidence            222233   246899999999999875

>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=99.26  E-value=6.5e-12  Score=100.19  Aligned_cols=107  Identities=17%  Similarity=0.181  Sum_probs=72.6

Q ss_pred             CEEEEEEeCCCCccc-------------HHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEe
Q 029517           55 NSKLVFWDLGGQPGL-------------RSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILAN  121 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~-------------~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~n  121 (192)
                      ...+.+|||||..++             ......|++++|++|+|+|+.+.+....  .|+..+.... ..+.|+++|+|
T Consensus       135 ~~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~~--~~~~l~~~~~-~~~~~~i~V~n  211 (360)
T 3t34_A          135 VVNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLATS--DAIKISREVD-PSGDRTFGVLT  211 (360)
T ss_dssp             SCSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGGC--HHHHHHHHSC-TTCTTEEEEEE
T ss_pred             CCCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCCH--HHHHHHHHhc-ccCCCEEEEEe
Confidence            457999999997765             6677889999999999998765442221  2333232222 14689999999


Q ss_pred             CCCCCCC--CCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHH
Q 029517          122 KQDLPDA--VSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLV  169 (192)
Q Consensus       122 K~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~  169 (192)
                      |+|+...  ...+.+....     ...+..|+++|++.+.|+++.+..+.
T Consensus       212 K~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~v~~~s~~~i~~~~~~~~  256 (360)
T 3t34_A          212 KIDLMDKGTDAVEILEGRS-----FKLKYPWVGVVNRSQADINKNVDMIA  256 (360)
T ss_dssp             CGGGCCTTCCSHHHHTTSS-----SCCSSCCEEECCCCHHHHHTTCCHHH
T ss_pred             CCccCCCcccHHHHHcCcc-----ccccCCeEEEEECChHHhccCCCHHH
Confidence            9998752  2222222222     24467899999999988887765543

>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=99.25  E-value=1.6e-11  Score=107.58  Aligned_cols=108  Identities=13%  Similarity=0.074  Sum_probs=74.8

Q ss_pred             ccccHHHHHHHHhhhhccCCC------CCCC--CCCCCcceEEEEEEec----------------CEEEEEEeCCCCccc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEG------LPPD--RIVPTVGLNIGRIEVS----------------NSKLVFWDLGGQPGL   69 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~------~~~~--~~~~T~g~~~~~~~~~----------------~~~~~i~D~~G~~~~   69 (192)
                      |||++++|++..-.+....++      ....  ....|++.....+.+.                ++.+++|||||+.+|
T Consensus        32 KTTL~~~Ll~~~g~i~~~~~~~~~~~D~~~~E~~rgiTI~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~liDTPG~~df  111 (842)
T 1n0u_A           32 KSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNSFLINLIDSPGHVDF  111 (842)
T ss_dssp             HHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSSEEEEEEECCCCCCSS
T ss_pred             HHHHHHHHHHhcCCcccccCCCceeecCchhhhhcceeEeeceeEEEecccccccccccccccCCCceEEEEECcCchhh
Confidence            788888888763222111111      1111  1234666555444433                688999999999999


Q ss_pred             HHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCC
Q 029517           70 RSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLP  126 (192)
Q Consensus        70 ~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~  126 (192)
                      ...+..+++.+|++|+|+|+++..+++....|.. ...    .++|+++++||+|+.
T Consensus       112 ~~~~~~~l~~aD~ailVvDa~~g~~~qt~~~~~~-~~~----~~~p~ilviNK~D~~  163 (842)
T 1n0u_A          112 SSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQ-ALG----ERIKPVVVINKVDRA  163 (842)
T ss_dssp             CHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHH-HHH----TTCEEEEEEECHHHH
T ss_pred             HHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHH-HHH----cCCCeEEEEECCCcc
Confidence            9999999999999999999999888887655543 222    368999999999986

>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=99.25  E-value=2.3e-12  Score=102.53  Aligned_cols=111  Identities=20%  Similarity=0.138  Sum_probs=68.4

Q ss_pred             CEEEEEEeCCCCc-------------ccHHHHHHhhhcCCEEEE-EEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEE
Q 029517           55 NSKLVFWDLGGQP-------------GLRSIWEKYYEEAHAVVF-VIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILA  120 (192)
Q Consensus        55 ~~~~~i~D~~G~~-------------~~~~~~~~~~~~~d~ii~-v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~  120 (192)
                      ...+.+|||||..             .+..+...|+++++.+++ |+|++....-.....++..+..    .+.|+++|+
T Consensus       129 ~~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~~~~~i~~~~~~----~~~~~i~V~  204 (353)
T 2x2e_A          129 VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKVAKEVDP----QGQRTIGVI  204 (353)
T ss_dssp             CCSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGCHHHHHHHHHCT----TCTTEEEEE
T ss_pred             CCCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchhHHHHHHHHhCc----CCCceEEEe
Confidence            4689999999952             455677788877776655 5555432221222223333321    478999999


Q ss_pred             eCCCCCCCCC-HHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHH
Q 029517          121 NKQDLPDAVS-ADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE  170 (192)
Q Consensus       121 nK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~  170 (192)
                      ||+|+.+... ..+..+... .........++.+||++|.|++++++++.+
T Consensus       205 NK~Dl~~~~~~~~~~~~~~~-~~l~~~~~~v~~~SA~~~~~i~~l~~~l~~  254 (353)
T 2x2e_A          205 TKLDLMDEGTDARDVLENKL-LPLRRGYIGVVNRSQKDIDGKKDITAALAA  254 (353)
T ss_dssp             ECGGGSCTTCCCHHHHTTCS-SCCTTCEEECCCCCHHHHHTTCCHHHHHHH
T ss_pred             ccccccCcchhHHHHHhCCc-ccccCCceEEEeCCcccccccccHHHHHHH
Confidence            9999975322 122221110 001111246889999999999999999876

>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=99.23  E-value=1.5e-12  Score=103.80  Aligned_cols=109  Identities=14%  Similarity=0.060  Sum_probs=71.7

Q ss_pred             cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHH-
Q 029517           54 SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSAD-  132 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~-  132 (192)
                      .++.+.||||||....   ....++.+|++++|+|+...+....+.       .  ...+.|.++|+||+|+......+ 
T Consensus       170 ~~~~~iiiDTpGi~~~---~~~~~~~aD~vl~V~d~~~~~~~~~l~-------~--~~~~~p~ivVlNK~Dl~~~~~~~~  237 (355)
T 3p32_A          170 AGFDVILIETVGVGQS---EVAVANMVDTFVLLTLARTGDQLQGIK-------K--GVLELADIVVVNKADGEHHKEARL  237 (355)
T ss_dssp             TTCCEEEEEECSCSSH---HHHHHTTCSEEEEEEESSTTCTTTTCC-------T--TSGGGCSEEEEECCCGGGHHHHHH
T ss_pred             CCCCEEEEeCCCCCcH---HHHHHHhCCEEEEEECCCCCccHHHHH-------H--hHhhcCCEEEEECCCCcChhHHHH
Confidence            4678999999995432   223458899999999987665443221       1  11346999999999986421111 


Q ss_pred             ---HHHhHcCccccC--CcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          133 ---ELARYLDLKKLD--ERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       133 ---~~~~~~~~~~~~--~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                         ++.+.+......  ..+.+++++||++|.||++++++|.+.+..
T Consensus       238 ~~~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~Gi~~L~~~i~~~~~~  284 (355)
T 3p32_A          238 AARELSAAIRLIYPREALWRPPVLTMSAVEGRGLAELWDTVERHRQV  284 (355)
T ss_dssp             HHHHHHHHHHHHSTTCCSCCCCEEEEBGGGTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHH
Confidence               222221100000  114679999999999999999999887754

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.18  E-value=1.4e-10  Score=88.92  Aligned_cols=106  Identities=8%  Similarity=-0.011  Sum_probs=62.8

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccH-------HHHHHh--hhcCCEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLR-------SIWEKY--YEEAHAVV   84 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~-------~~~~~~--~~~~d~ii   84 (192)
                      |||++|+|++.-.....   +    ....|.......+...++.+.+|||||+.++.       ..+..+  .+.+|+++
T Consensus        52 KSSLin~l~~~~~~~~~---~----~~~~t~~~~~~~~~~~~~~l~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~~d~il  124 (270)
T 1h65_A           52 KSSTVNSIIGERVVSIS---P----FQSEGPRPVMVSRSRAGFTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTIDVLL  124 (270)
T ss_dssp             HHHHHHHHHTSCCSCCC---S----SSCCCSSCEEEEEEETTEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEE
T ss_pred             HHHHHHHHhCCCccccc---C----CCCcceeeEEEEEeeCCeEEEEEECCCCCCCccchHHHHHHHHHHhhcCCCCEEE
Confidence            67777777753221111   1    11122223334466678899999999986543       122222  24799999


Q ss_pred             EEEeCCCcccHHHH-HHHHHHHHhCCC-CCCCcEEEEEeCCCCCC
Q 029517           85 FVIDAACPSRFEDS-KTALEKVLRNED-LQGAPLLILANKQDLPD  127 (192)
Q Consensus        85 ~v~D~~~~~s~~~~-~~~~~~i~~~~~-~~~~piiiv~nK~Dl~~  127 (192)
                      +|+|++.. ++... ..|+..+..... ....|+++|+||+|+..
T Consensus       125 ~v~~~d~~-~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl~~  168 (270)
T 1h65_A          125 YVDRLDAY-RVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSP  168 (270)
T ss_dssp             EEEESSCC-CCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCC
T ss_pred             EEEeCCCC-cCCHHHHHHHHHHHHHhCcccccCEEEEEECcccCC
Confidence            99998653 34322 356655554311 01269999999999864

>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=99.16  E-value=6.1e-12  Score=98.04  Aligned_cols=110  Identities=11%  Similarity=0.166  Sum_probs=60.0

Q ss_pred             CEEEEEEeCCCC-------cccHHHHH-------HhhhcC-------------CEEEEEEeCCCcccHHHHH-HHHHHHH
Q 029517           55 NSKLVFWDLGGQ-------PGLRSIWE-------KYYEEA-------------HAVVFVIDAACPSRFEDSK-TALEKVL  106 (192)
Q Consensus        55 ~~~~~i~D~~G~-------~~~~~~~~-------~~~~~~-------------d~ii~v~D~~~~~s~~~~~-~~~~~i~  106 (192)
                      ...+.+||++|.       +.+.....       .+++..             .+++++.+++.. +++.+. +++..+ 
T Consensus        75 ~~~ltv~Dt~g~~~~~~~~e~~~~l~~~l~~~~~~~~~~~sgg~rqrv~~ara~~ll~ldePt~~-~Ld~~~~~~l~~l-  152 (301)
T 2qnr_A           75 KLRLTVVDTPGYGDAINCRDCFKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGH-GLKPLDVAFMKAI-  152 (301)
T ss_dssp             CEEEEEEEEC-----------CTTHHHHHHHHHHHHHHHHTSSCCTTCCCCCCCEEEEEECSSSS-SCCHHHHHHHHHH-
T ss_pred             ccCcchhhhhhhhhhcCcHHHHHHHHHHHHHHHHHHHHHhCHHhhhhhhhhhhhheeeeecCccc-CCCHHHHHHHHHH-
Confidence            568999999998       55544443       555443             335555554421 233322 233332 


Q ss_pred             hCCCCCCCcEEEEEeCCCCCCCC----CHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhcc
Q 029517          107 RNEDLQGAPLLILANKQDLPDAV----SADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       107 ~~~~~~~~piiiv~nK~Dl~~~~----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~~  176 (192)
                        .  ...|+++|+||.|+....    ..+++.+.+.     ..+++++++||++| |++++|.++.+.+.+..
T Consensus       153 --~--~~~~iilV~~K~Dl~~~~e~~~~~~~~~~~~~-----~~~~~~~e~Sa~~~-~v~e~f~~l~~~i~~~~  216 (301)
T 2qnr_A          153 --H--NKVNIVPVIAKADTLTLKERERLKKRILDEIE-----EHNIKIYHLPDAES-DEDEDFKEQTRLLKASI  216 (301)
T ss_dssp             --T--TTSCEEEEECCGGGSCHHHHHHHHHHHHHHHH-----HTTCCCCCCC----------CHHHHHHHHTTC
T ss_pred             --H--hcCCEEEEEEeCCCCCHHHHHHHHHHHHHHHH-----HcCCeEEecCCccc-cccHHHHHHHHHhhcCC
Confidence              1  357999999999987521    1234555554     45689999999999 99999999999887543

>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=99.14  E-value=4.8e-10  Score=89.12  Aligned_cols=71  Identities=20%  Similarity=0.215  Sum_probs=46.6

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEec-----------------CEEEEEEeCCCCcccHH----
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVS-----------------NSKLVFWDLGGQPGLRS----   71 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~-----------------~~~~~i~D~~G~~~~~~----   71 (192)
                      =|||+||+|.+.-    ..+.+++..+..|+.|.    +...                 ...+++|||||..++..    
T Consensus        14 GKSTL~n~Lt~~~----~~v~~~p~tTi~p~~g~----v~~~~~r~~~l~~~~~~~~~~~~~i~lvDtpGl~~~a~~~~g   85 (363)
T 1jal_A           14 GKSTLFNALTKAG----IEAANYPFCTIEPNTGV----VPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGASKGEG   85 (363)
T ss_dssp             SHHHHHHHHHHTC----------CCCCCCCCSSE----EECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHHHHGG
T ss_pred             CHHHHHHHHHCCC----CcccCCCCceECceEEE----EecCCcccceeeeeecccceeeeEEEEEECCCCcccccccch
Confidence            4899999988643    23345555555666653    2222                 26899999999876542    


Q ss_pred             ---HHHHhhhcCCEEEEEEeCCC
Q 029517           72 ---IWEKYYEEAHAVVFVIDAAC   91 (192)
Q Consensus        72 ---~~~~~~~~~d~ii~v~D~~~   91 (192)
                         ....+++++|++++|+|+++
T Consensus        86 l~~~fl~~ir~ad~il~VvD~~~  108 (363)
T 1jal_A           86 LGNKFLANIRETDAIGHVVRCFE  108 (363)
T ss_dssp             GTCCHHHHHHTCSEEEEEEECSC
T ss_pred             HHHHHHHHHHhcCeEEEEEecCC
Confidence               23456899999999999986

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=99.14  E-value=8.5e-11  Score=100.22  Aligned_cols=156  Identities=15%  Similarity=0.132  Sum_probs=101.7

Q ss_pred             ccccHHHHHHHHhhhh--ccCCCC--CCCCC------CCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEE
Q 029517           14 TKTEFHTLLEKLKSVY--SNVEGL--PPDRI------VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAV   83 (192)
Q Consensus        14 kst~~~~l~~~~~~~~--~~~~~~--~~~~~------~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~i   83 (192)
                      |||+..+|+..--.+.  ..+...  ..+..      .-|+......+.+++..++++|||||.+|.......++-+|++
T Consensus        15 KTTL~e~LL~~~G~i~~~g~v~~g~~~~D~~~~EreRGITI~s~~~~~~~~~~~iNlIDTPGH~DF~~Ev~raL~~~Dga   94 (638)
T 3j25_A           15 KTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQWENTKVNIIDTPGHMDFLAEVYRSLSVLDGA   94 (638)
T ss_dssp             SHHHHHHHHHHHTCCSSCSSCCCSCCSTTCSTTHHHHSSCSSCCCCCCBCSSCBCCCEECCCSSSTHHHHHHHHTTCSEE
T ss_pred             HHHHHHHHHHHcCCCccccccccCCcccCCcHHHHhCCCcEEeeeEEEEECCEEEEEEECCCcHHHHHHHHHHHHHhCEE
Confidence            7899988886543211  111111  11111      2244444445777888999999999999999999999999999


Q ss_pred             EEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCH---HHHHhHcCccc------------------
Q 029517           84 VFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSA---DELARYLDLKK------------------  142 (192)
Q Consensus        84 i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~---~~~~~~~~~~~------------------  142 (192)
                      |+|+|+...-.-+.. ..++...+.    ++|.++++||+|.....-.   +++.+.+....                  
T Consensus        95 vlVVDa~~GV~~qT~-~v~~~a~~~----~lp~i~~INKmDr~~a~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~  169 (638)
T 3j25_A           95 ILLISAKDGVQAQTR-ILFHALRKM----GIPTIFFINKIDQNGIDLSTVYQDIKEKLSAEIVIKQKVELYPNVCVTNFT  169 (638)
T ss_dssp             ECCEESSCTTCSHHH-HHHHHHHHH----TCSCEECCEECCSSSCCSHHHHHHHHHTTCCCCCCCCCCCSCGGGCCCCCC
T ss_pred             EEEEeCCCCCcHHHH-HHHHHHHHc----CCCeEEEEeccccccCCHHHHHHHHHHHhCCCccccceeEeeccccccccc
Confidence            999999876544443 233333333    6899999999998763222   22222221000                  


Q ss_pred             --------------------------------------cCCcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          143 --------------------------------------LDERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       143 --------------------------------------~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                                                            ....-.+++..||+++.||+.+++.+.+.+..
T Consensus       170 ~~~~~e~~~e~~d~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~Pv~~gSa~~~~Gv~~LLd~i~~~~p~  239 (638)
T 3j25_A          170 ESEQWDTVIEGNDDLLEKYMSGKSLEALELEQEESIRFQNCSLFPLYHGSAKSNIGIDNLIEVITNKFYS  239 (638)
T ss_dssp             CHHHHHHHHHHHCHHHHHHHHHCCCCSHHHHHHHHHHHHHTSCCCCCCCCSTTCCSHHHHHHHHHHSCCC
T ss_pred             hhhhhhhhhcccHHHHhhhccCCccchHHHHHHHhhhhcccccccccccccccCCCchhHhhhhhccccC
Confidence                                                  00123567889999999999999999876654

>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=99.10  E-value=4.4e-11  Score=90.93  Aligned_cols=116  Identities=16%  Similarity=0.087  Sum_probs=71.1

Q ss_pred             CEEEEEEeCCCCcccHHH------HHHhhhcCCEEEEEEeCCCcccHHHHHHHH---HHHHhCCCCCCCcEEEEEeCCCC
Q 029517           55 NSKLVFWDLGGQPGLRSI------WEKYYEEAHAVVFVIDAACPSRFEDSKTAL---EKVLRNEDLQGAPLLILANKQDL  125 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~------~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~---~~i~~~~~~~~~piiiv~nK~Dl  125 (192)
                      .+.+.||||||+......      ....+.. +++++++|+....+........   ......   .+.|+++|+||+|+
T Consensus       108 ~~d~iiiDtpG~~~~~~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~~~---~~~p~~iv~NK~D~  183 (262)
T 1yrb_A          108 ENDYVLIDTPGQMETFLFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLIDLR---LGATTIPALNKVDL  183 (262)
T ss_dssp             HCSEEEEECCSSHHHHHHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHHHH---HTSCEEEEECCGGG
T ss_pred             cCCEEEEeCCCccchhhhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHhcc---cCCCeEEEEecccc
Confidence            358999999998765332      1134556 8999999986544333322211   111111   36899999999998


Q ss_pred             CCCCCHHHHHhHcC-cc----c------------------cC--CcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          126 PDAVSADELARYLD-LK----K------------------LD--ERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       126 ~~~~~~~~~~~~~~-~~----~------------------~~--~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      ......+++.+.+. ..    .                  ..  ....+++++||++|.|+++++++|.+.+..
T Consensus       184 ~~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~i~~~~~~  257 (262)
T 1yrb_A          184 LSEEEKERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHYCT  257 (262)
T ss_dssp             CCHHHHHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             cccccHHHHHHHHhChHHHHHHHhccccccchhHhHHHHHHHHhcCcccceEEEecCcccHHHHHHHHHHHhcc
Confidence            75321222222210 00    0                  00  112478999999999999999999887653

>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=99.08  E-value=8.1e-10  Score=88.16  Aligned_cols=75  Identities=19%  Similarity=0.131  Sum_probs=51.5

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE----------EE-------ecCEEEEEEeCCCCccc------
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR----------IE-------VSNSKLVFWDLGGQPGL------   69 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~----------~~-------~~~~~~~i~D~~G~~~~------   69 (192)
                      =|||+||+|.+.-    +.+.+++..+..|++|.....          +.       .....+++|||||..+.      
T Consensus        13 GKSTL~n~L~~~~----~~v~~~p~~Ti~pn~g~~~v~~~~l~~~~~~~~~~~~~~~~~~~~i~lvDtpGl~~~a~~~~~   88 (368)
T 2dby_A           13 GKSTLFNALTRAN----ALAANYPFATIDKNVGVVPLEDERLYALQRTFAKGERVPPVVPTHVEFVDIAGLVKGAHKGEG   88 (368)
T ss_dssp             SHHHHHHHHHHHH----TTCSSCCGGGGSTTEEEEECCCHHHHHHHHHHCBTTBCCCEECCEEEEEECCSCCCCCCSSSC
T ss_pred             CHHHHHHHHhCCC----CcccCCCCceeccceeeEecChHHHHHHHHHhcccccccccCCceEEEEECCCccccccccch
Confidence            3899999998763    344566666677777753110          00       12467999999997643      


Q ss_pred             -HHHHHHhhhcCCEEEEEEeCCC
Q 029517           70 -RSIWEKYYEEAHAVVFVIDAAC   91 (192)
Q Consensus        70 -~~~~~~~~~~~d~ii~v~D~~~   91 (192)
                       ......+++.+|++++|+|+++
T Consensus        89 lg~~fl~~ir~ad~ii~VvD~~~  111 (368)
T 2dby_A           89 LGNQFLAHIREVAAIAHVLRCFP  111 (368)
T ss_dssp             TTHHHHHHHHTCSEEEEEEECCC
T ss_pred             HHHHHHHHHHhCCEEEEEEECCC
Confidence             2344557899999999999975

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=99.07  E-value=2.8e-09  Score=91.94  Aligned_cols=68  Identities=16%  Similarity=0.166  Sum_probs=56.0

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      ++.++++|||||-+|.......++-||++|+|+|+...-..+.-.-| +...+.    ++|.++++||+|...
T Consensus        84 ~~~iNlIDTPGHvDF~~Ev~~aLr~~DgavlvVDaveGV~~qT~~v~-~~a~~~----~lp~i~~iNKiDr~~  151 (709)
T 4fn5_A           84 NYRVNVIDTPGHVDFTIEVERSLRVLDGAVVVFCGTSGVEPQSETVW-RQANKY----GVPRIVYVNKMDRQG  151 (709)
T ss_dssp             CEEEEEECCCSCTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHH-HHHHHH----TCCEEEEEECSSSTT
T ss_pred             CEEEEEEeCCCCcccHHHHHHHHHHhCeEEEEEECCCCCchhHHHHH-HHHHHc----CCCeEEEEccccccC
Confidence            68999999999999999999999999999999999877655543333 333333    689999999999865

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=99.07  E-value=1.4e-10  Score=97.31  Aligned_cols=67  Identities=13%  Similarity=0.225  Sum_probs=52.9

Q ss_pred             EEEEEeCCCCcc-----------cHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCC
Q 029517           57 KLVFWDLGGQPG-----------LRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDL  125 (192)
Q Consensus        57 ~~~i~D~~G~~~-----------~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl  125 (192)
                      .+.+|||||...           +...+..+++.+|++++|+|+++....+....++..+..    .+.|+++|+||+|+
T Consensus       155 ~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~----~~~pvilVlNK~Dl  230 (550)
T 2qpt_A          155 SISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRG----HEDKIRVVLNKADM  230 (550)
T ss_dssp             HCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTT----CGGGEEEEEECGGG
T ss_pred             CEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHh----cCCCEEEEEECCCc
Confidence            589999999764           556777889999999999999876555555666655533    35799999999998


Q ss_pred             CC
Q 029517          126 PD  127 (192)
Q Consensus       126 ~~  127 (192)
                      ..
T Consensus       231 ~~  232 (550)
T 2qpt_A          231 VE  232 (550)
T ss_dssp             SC
T ss_pred             cC
Confidence            75

>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=99.05  E-value=8.9e-11  Score=92.99  Aligned_cols=108  Identities=15%  Similarity=0.100  Sum_probs=67.0

Q ss_pred             cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHH-
Q 029517           54 SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSAD-  132 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~-  132 (192)
                      .++.+.||||||......   ...+.+|++++|+|++....++.+..   ..      .+.|.++|+||+|+.+..... 
T Consensus       147 ~~~~i~liDTpG~~~~~~---~~~~~aD~vl~Vvd~~~~~~~~~l~~---~~------~~~p~ivv~NK~Dl~~~~~~~~  214 (341)
T 2p67_A          147 AGYDVVIVETVGVGQSET---EVARMVDCFISLQIAGGGDDLQGIKK---GL------MEVADLIVINKDDGDNHTNVAI  214 (341)
T ss_dssp             TTCSEEEEEEECCTTHHH---HHHTTCSEEEEEECC------CCCCH---HH------HHHCSEEEECCCCTTCHHHHHH
T ss_pred             cCCCEEEEeCCCccchHH---HHHHhCCEEEEEEeCCccHHHHHHHH---hh------hcccCEEEEECCCCCChHHHHH
Confidence            367899999999765433   24689999999999975533211111   00      146889999999987521111 


Q ss_pred             ---HHHhHcCcccc--CCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517          133 ---ELARYLDLKKL--DERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus       133 ---~~~~~~~~~~~--~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                         ++.+.+.....  .....+++++||++|.|+++++++|.+.+.
T Consensus       215 ~~~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~gi~~L~~~l~~~~~  260 (341)
T 2p67_A          215 ARHMYESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKT  260 (341)
T ss_dssp             HHHHHHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccccccCCCCcEEEeeCCCCCCHHHHHHHHHHHHH
Confidence               22221110000  001357899999999999999999988665

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=99.04  E-value=1.3e-09  Score=87.08  Aligned_cols=102  Identities=19%  Similarity=0.116  Sum_probs=64.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcc-------cHHHHHHhhhcCCEEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPG-------LRSIWEKYYEEAHAVVFV   86 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~~d~ii~v   86 (192)
                      |||+||+|.+.    .+.+++++.++    .....+.+...+.+++++||||.-.       ........++.||++++|
T Consensus        85 KSTL~n~Lt~~----~~~v~~~pftT----~~~~~g~~~~~~~~i~l~D~pGl~~~a~~~~~~g~~~l~~i~~ad~il~v  156 (376)
T 4a9a_A           85 KSTLLSKLTGT----ESEAAEYEFTT----LVTVPGVIRYKGAKIQMLDLPGIIDGAKDGRGRGKQVIAVARTCNLLFII  156 (376)
T ss_dssp             HHHHHHHHHSB----CCCGGGTCSSC----CCEEEEEEEETTEEEEEEECGGGCCC-----CHHHHHHHHHHHCSEEEEE
T ss_pred             HHHHHHHHhCC----CCcccCCCCce----eeeeeEEEEeCCcEEEEEeCCCccCCchhhhHHHHHHHHHHHhcCccccc
Confidence            77777777653    34455555444    4445555788899999999999421       122344567899999999


Q ss_pred             EeCCCcc-cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCC
Q 029517           87 IDAACPS-RFEDSKTALEKVLRNEDLQGAPLLILANKQDL  125 (192)
Q Consensus        87 ~D~~~~~-s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl  125 (192)
                      +|++++. .++.+...+..+..  .....|.+++.||.|.
T Consensus       157 vD~~~p~~~~~~i~~EL~~~~~--~l~~k~~~i~~nK~d~  194 (376)
T 4a9a_A          157 LDVNKPLHHKQIIEKELEGVGI--RLNKTPPDILIKKKEK  194 (376)
T ss_dssp             EETTSHHHHHHHHHHHHHHTTE--EETCCCCCEEEEECSS
T ss_pred             cccCccHHHHHHHHHHHHHhhH--hhccCChhhhhhHhhh
Confidence            9998763 22223333322211  1235677778888886

>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=99.01  E-value=4.4e-10  Score=86.74  Aligned_cols=104  Identities=18%  Similarity=0.240  Sum_probs=71.6

Q ss_pred             EEeCCCCc-ccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHc
Q 029517           60 FWDLGGQP-GLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYL  138 (192)
Q Consensus        60 i~D~~G~~-~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~  138 (192)
                      |-..|||. .........++.+|+++.|+|+.++.+...  ..+.++.     .++|.++|+||+|+......+.+.+++
T Consensus         3 i~w~PGhm~ka~~~~~~~l~~aDvVl~VvDAr~p~~~~~--~~l~~~l-----~~kp~ilVlNK~DL~~~~~~~~~~~~~   75 (282)
T 1puj_A            3 IQWFPGHMAKARREVTEKLKLIDIVYELVDARIPMSSRN--PMIEDIL-----KNKPRIMLLNKADKADAAVTQQWKEHF   75 (282)
T ss_dssp             ------CTTHHHHHHHHHGGGCSEEEEEEETTSTTTTSC--HHHHHHC-----SSSCEEEEEECGGGSCHHHHHHHHHHH
T ss_pred             CcCCchHHHHHHHHHHHHHhhCCEEEEEEeCCCCCccCC--HHHHHHH-----CCCCEEEEEECcccCCHHHHHHHHHHH
Confidence            45578876 556677788999999999999998866542  1222222     468999999999997532223344444


Q ss_pred             CccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          139 DLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       139 ~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                      +     ..+++++.+||+++.|++++++.+.+.+...
T Consensus        76 ~-----~~g~~~i~iSA~~~~gi~~L~~~i~~~l~~~  107 (282)
T 1puj_A           76 E-----NQGIRSLSINSVNGQGLNQIVPASKEILQEK  107 (282)
T ss_dssp             H-----TTTCCEEECCTTTCTTGGGHHHHHHHHHHHH
T ss_pred             H-----hcCCcEEEEECCCcccHHHHHHHHHHHHHHH
Confidence            3     3456899999999999999999988776543

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=99.01  E-value=4.6e-10  Score=89.76  Aligned_cols=100  Identities=18%  Similarity=0.138  Sum_probs=70.6

Q ss_pred             CCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC-CCCHHHHHhHcCcccc
Q 029517           65 GQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD-AVSADELARYLDLKKL  143 (192)
Q Consensus        65 G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~-~~~~~~~~~~~~~~~~  143 (192)
                      ..++|...+..+.+.++++++|+|++++.     ..|...+.+..  .++|+++|+||+|+.. ....+.+.+++.. ..
T Consensus        55 ~~e~f~~~l~~i~~~~~~il~VvD~~d~~-----~~~~~~l~~~~--~~~p~ilV~NK~DL~~~~~~~~~~~~~l~~-~~  126 (368)
T 3h2y_A           55 TDDDFLRILNGIGKSDALVVKIVDIFDFN-----GSWLPGLHRFV--GNNKVLLVGNKADLIPKSVKHDKVKHWMRY-SA  126 (368)
T ss_dssp             -CHHHHHHHHHHHHSCCEEEEEEETTSHH-----HHCCTTHHHHS--SSSCEEEEEECGGGSCTTSCHHHHHHHHHH-HH
T ss_pred             CHHHHHHHHHHHhccCcEEEEEEECCCCc-----ccHHHHHHHHh--CCCcEEEEEEChhcCCcccCHHHHHHHHHH-HH
Confidence            46789999999999999999999998742     23433333332  3789999999999965 3334444444220 00


Q ss_pred             CCcce---EEEEeeecCCCCHHHHHHHHHHHH
Q 029517          144 DERVC---MFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus       144 ~~~~~---~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                      ...++   .++++||++|.|+++++++|.+..
T Consensus       127 ~~~g~~~~~v~~iSA~~g~gi~~L~~~l~~~~  158 (368)
T 3h2y_A          127 KQLGLKPEDVFLISAAKGQGIAELADAIEYYR  158 (368)
T ss_dssp             HHTTCCCSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHcCCCcccEEEEeCCCCcCHHHHHhhhhhhc
Confidence            12234   799999999999999999987644

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=99.00  E-value=5.4e-11  Score=88.15  Aligned_cols=107  Identities=15%  Similarity=0.137  Sum_probs=70.5

Q ss_pred             cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCC--CCH
Q 029517           54 SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDA--VSA  131 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~--~~~  131 (192)
                      ....+.+|||+|+.....   .+-...+++++|+|++......  ..+...       .+.|+++++||+|+...  ...
T Consensus       107 ~~~d~iiidt~G~~~~~~---~~~~~~~~~i~vvd~~~~~~~~--~~~~~~-------~~~~~iiv~NK~Dl~~~~~~~~  174 (221)
T 2wsm_A          107 SDCDLLLIENVGNLICPV---DFDLGENYRVVMVSVTEGDDVV--EKHPEI-------FRVADLIVINKVALAEAVGADV  174 (221)
T ss_dssp             TTCSEEEEEEEEBSSGGG---GCCCSCSEEEEEEEGGGCTTHH--HHCHHH-------HHTCSEEEEECGGGHHHHTCCH
T ss_pred             CCCCEEEEeCCCCCCCCc---hhccccCcEEEEEeCCCcchhh--hhhhhh-------hhcCCEEEEecccCCcchhhHH
Confidence            356789999999521100   1113578899999988654221  111111       24789999999998642  455


Q ss_pred             HHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          132 DELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                      +++.+.+...   ....+++++||++|.|+++++++|.+.+...
T Consensus       175 ~~~~~~~~~~---~~~~~i~~~Sa~~g~gi~~l~~~l~~~~~~~  215 (221)
T 2wsm_A          175 EKMKADAKLI---NPRAKIIEMDLKTGKGFEEWIDFLRGILNVH  215 (221)
T ss_dssp             HHHHHHHHHH---CTTSEEEECBTTTTBTHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHh---CCCCeEEEeecCCCCCHHHHHHHHHHHHHHH
Confidence            6665555410   2257899999999999999999999877544

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=98.97  E-value=1e-09  Score=87.21  Aligned_cols=108  Identities=15%  Similarity=0.092  Sum_probs=64.6

Q ss_pred             cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC---
Q 029517           54 SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVS---  130 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~---  130 (192)
                      .++.+.++||+|....   .......+|++++|+|++.+...+.+..   .+      ...|.++++||+|+.+...   
T Consensus       165 ~~~~~iliDT~Gi~~~---~~~l~~~~d~vl~V~d~~~~~~~~~i~~---~i------l~~~~ivVlNK~Dl~~~~~~~~  232 (349)
T 2www_A          165 AGYDIILIETVGVGQS---EFAVADMVDMFVLLLPPAGGDELQGIKR---GI------IEMADLVAVTKSDGDLIVPARR  232 (349)
T ss_dssp             TTCSEEEEECCCC--C---HHHHHTTCSEEEEEECCC---------------------CCSCSEEEECCCSGGGHHHHHH
T ss_pred             CCCCEEEEECCCcchh---hhhHHhhCCEEEEEEcCCcchhHHHhHH---HH------HhcCCEEEEeeecCCCchhHHH
Confidence            4678899999996422   2334678999999999986543222111   11      2468899999999863211   


Q ss_pred             -HHHHHhHcCcccc--CCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517          131 -ADELARYLDLKKL--DERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus       131 -~~~~~~~~~~~~~--~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                       ...+...+.....  .....+++.+||++|.|+++++++|.+.+.
T Consensus       233 ~~~~l~~~l~~~~~~a~~~~~~vi~iSA~~g~Gi~~L~~~I~~~~~  278 (349)
T 2www_A          233 IQAEYVSALKLLRKRSQVWKPKVIRISARSGEGISEMWDKMKDFQD  278 (349)
T ss_dssp             HHHHHHHHHTTCC-----CCCEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCccccCCCceEEEEecCCCCCHHHHHHHHHHHHH
Confidence             1122222221000  011357899999999999999999988654

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.92  E-value=1.6e-09  Score=86.72  Aligned_cols=100  Identities=21%  Similarity=0.223  Sum_probs=69.6

Q ss_pred             CCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCC-CCHHHHHhHcCcccc
Q 029517           65 GQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDA-VSADELARYLDLKKL  143 (192)
Q Consensus        65 G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~-~~~~~~~~~~~~~~~  143 (192)
                      .+++|+..+..+.++++++++|+|++++.+     .|...+.+..  .+.|+++|+||+|+... ...+.+.+++.. ..
T Consensus        57 ~~e~f~~~L~~~~~~~~lil~VvD~~d~~~-----s~~~~l~~~l--~~~piilV~NK~DLl~~~~~~~~~~~~l~~-~~  128 (369)
T 3ec1_A           57 DDDDFLSMLHRIGESKALVVNIVDIFDFNG-----SFIPGLPRFA--ADNPILLVGNKADLLPRSVKYPKLLRWMRR-MA  128 (369)
T ss_dssp             --CHHHHHHHHHHHHCCEEEEEEETTCSGG-----GCCSSHHHHC--TTSCEEEEEECGGGSCTTCCHHHHHHHHHH-HH
T ss_pred             CHHHHHHHHHHhhccCcEEEEEEECCCCCC-----chhhHHHHHh--CCCCEEEEEEChhcCCCccCHHHHHHHHHH-HH
Confidence            588899999999999999999999998752     2222222221  36899999999999753 334444444320 00


Q ss_pred             CCcc---eEEEEeeecCCCCHHHHHHHHHHHH
Q 029517          144 DERV---CMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus       144 ~~~~---~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                      ...+   ..++.+||++|.|++++++.+.+..
T Consensus       129 ~~~g~~~~~v~~iSA~~g~gi~~L~~~I~~~~  160 (369)
T 3ec1_A          129 EELGLCPVDVCLVSAAKGIGMAKVMEAINRYR  160 (369)
T ss_dssp             HTTTCCCSEEEECBTTTTBTHHHHHHHHHHHH
T ss_pred             HHcCCCcccEEEEECCCCCCHHHHHHHHHhhc
Confidence            1223   3789999999999999999987654

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=98.90  E-value=1.5e-10  Score=93.80  Aligned_cols=108  Identities=11%  Similarity=0.159  Sum_probs=47.5

Q ss_pred             CEEEEEEeCCCCcccH-------HH-------HHHh-----------hhcCCE--EEEEEeCCCcccHHHHH-HHHHHHH
Q 029517           55 NSKLVFWDLGGQPGLR-------SI-------WEKY-----------YEEAHA--VVFVIDAACPSRFEDSK-TALEKVL  106 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~-------~~-------~~~~-----------~~~~d~--ii~v~D~~~~~s~~~~~-~~~~~i~  106 (192)
                      ...+.+||++|...+.       ..       ...+           +.++++  ++++.+++. .++.... .|+..+.
T Consensus        87 ~~~Ltv~Dt~g~~~~~~~~~~~~~i~~~i~~~~~~~l~qr~~IaRal~~d~~~~vlL~ldePt~-~~L~~~d~~~lk~L~  165 (418)
T 2qag_C           87 QLLLTIVDTPGFGDAVDNSNCWQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSG-HGLKPLDIEFMKRLH  165 (418)
T ss_dssp             CEEEEEEECC-----------CHHHHHHHHHHHHHHTTTSCC-CCCCCCCC-CCEEEEECCC-C-CSCCHHHHHHHHHHT
T ss_pred             ccceeeeechhhhhhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCeeEEEEEecCcc-cCCCHHHHHHHHHHh
Confidence            3579999999976531       11       1122           233444  444444431 2343333 4655553


Q ss_pred             hCCCCCCCcEEEEEeCCCCCCCCCH----HHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517          107 RNEDLQGAPLLILANKQDLPDAVSA----DELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus       107 ~~~~~~~~piiiv~nK~Dl~~~~~~----~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                           .+.|+++|+||+|+......    +.+.+.+.     ..+++++++||+++.++.++|..+.+.++
T Consensus       166 -----~~v~iIlVinK~Dll~~~ev~~~k~~i~~~~~-----~~~i~~~~~sa~~~~~v~~~~~~l~~~iP  226 (418)
T 2qag_C          166 -----EKVNIIPLIAKADTLTPEECQQFKKQIMKEIQ-----EHKIKIYEFPETDDEEENKLVKKIKDRLP  226 (418)
T ss_dssp             -----TTSEEEEEEESTTSSCHHHHHHHHHHHHHHHH-----HHTCCCCCCC-----------------CC
T ss_pred             -----ccCcEEEEEEcccCccHHHHHHHHHHHHHHHH-----HcCCeEEeCCCCCCcCHHHHHHHHHhhCC
Confidence                 36899999999998642111    23334443     45788999999999999999988877554

>3zvr_A Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mitochondrial fission, GT stalk, PH, BSE, membrane fission; HET: 1PE; 3.10A {Rattus norvegicus} PDB: 3snh_A

Probab=98.69  E-value=3.8e-08  Score=84.93  Aligned_cols=111  Identities=22%  Similarity=0.148  Sum_probs=70.9

Q ss_pred             EEEEEEeCCCCcc-------------cHHHHHHhh-hcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEe
Q 029517           56 SKLVFWDLGGQPG-------------LRSIWEKYY-EEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILAN  121 (192)
Q Consensus        56 ~~~~i~D~~G~~~-------------~~~~~~~~~-~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~n  121 (192)
                      ..+.++||||-..             .......|+ +.+|++++|+|++....-.....++..+..    .+.|+++|+|
T Consensus       150 ~qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l~ll~~L~~----~g~pvIlVlN  225 (772)
T 3zvr_A          150 LNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDP----QGQRTIGVIT  225 (772)
T ss_dssp             CSEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHHHHHHHHCT----TCSSEEEEEE
T ss_pred             CceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHHHHHHHHHh----cCCCEEEEEe
Confidence            3689999999432             333455565 468999999999865333332233333322    3689999999


Q ss_pred             CCCCCCCCC-HHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHH
Q 029517          122 KQDLPDAVS-ADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEV  171 (192)
Q Consensus       122 K~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~  171 (192)
                      |+|+..... ...+.. -..........+++.+||++|.|++++++++.+.
T Consensus       226 KiDlv~~~~~~~~il~-~~~~~l~lg~~~VV~iSA~~G~GvdeL~eaI~~e  275 (772)
T 3zvr_A          226 KLDLMDEGTDARDVLE-NKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAE  275 (772)
T ss_dssp             CTTSSCTTCCSHHHHT-TCSSCCSSCEEECCCCCCEESSSSEEHHHHHHHH
T ss_pred             CcccCCcchhhHHHHH-HHhhhhhccCCceEEecccccccchhHHHHHHHH
Confidence            999975322 122222 1100011124578889999999999999998863

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=98.60  E-value=1.1e-10  Score=86.76  Aligned_cols=59  Identities=19%  Similarity=0.155  Sum_probs=44.7

Q ss_pred             CCcEEEEEeCCCCCCC--CCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          113 GAPLLILANKQDLPDA--VSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       113 ~~piiiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      ..|.++|+||+|+.+.  ...+++.+.+...   ..+.+++++||++|.|++++|++|.+.+..
T Consensus       164 ~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~~~---~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~  224 (226)
T 2hf9_A          164 KTADLIVINKIDLADAVGADIKKMENDAKRI---NPDAEVVLLSLKTMEGFDKVLEFIEKSVKE  224 (226)
T ss_dssp             TTCSEEEEECGGGHHHHTCCHHHHHHHHHHH---CTTSEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             hcCCEEEEeccccCchhHHHHHHHHHHHHHh---CCCCeEEEEEecCCCCHHHHHHHHHHHHHh
Confidence            3678999999998652  4556665555410   235689999999999999999999887754

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.53  E-value=1.3e-08  Score=77.68  Aligned_cols=93  Identities=14%  Similarity=0.098  Sum_probs=61.5

Q ss_pred             CCCCc-ccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCcc
Q 029517           63 LGGQP-GLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLK  141 (192)
Q Consensus        63 ~~G~~-~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~  141 (192)
                      .|||. +........+.++|+++.|+|+.++.+....  .+. +     . ++|.++|+||+|+.+....+.+.+++.  
T Consensus         4 ~PGhm~ka~~~~~~~l~~~D~vl~VvDar~P~~~~~~--~l~-l-----l-~k~~iivlNK~DL~~~~~~~~~~~~~~--   72 (262)
T 3cnl_A            4 YPGHIEKAKRQIKDLLRLVNTVVEVRDARAPFATSAY--GVD-F-----S-RKETIILLNKVDIADEKTTKKWVEFFK--   72 (262)
T ss_dssp             -----CCTTHHHHHHHTTCSEEEEEEETTSTTTTSCT--TSC-C-----T-TSEEEEEEECGGGSCHHHHHHHHHHHH--
T ss_pred             CchHHHHHHHHHHHHHhhCCEEEEEeeCCCCCcCcCh--HHH-h-----c-CCCcEEEEECccCCCHHHHHHHHHHHH--
Confidence            46765 3445667788999999999999987554321  111 1     1 689999999999975322233444443  


Q ss_pred             ccCCcceEEEEeeecCCCCHHHHHHHHHH
Q 029517          142 KLDERVCMFEAVSGYDGFGIKESVEWLVE  170 (192)
Q Consensus       142 ~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~  170 (192)
                         ..++++ .+||+++.|++++++++.+
T Consensus        73 ---~~g~~v-~iSa~~~~gi~~L~~~l~~   97 (262)
T 3cnl_A           73 ---KQGKRV-ITTHKGEPRKVLLKKLSFD   97 (262)
T ss_dssp             ---HTTCCE-EECCTTSCHHHHHHHHCCC
T ss_pred             ---HcCCeE-EEECCCCcCHHHHHHHHHH
Confidence               235567 8999999999999887654

>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=98.23  E-value=2.4e-05  Score=62.81  Aligned_cols=73  Identities=19%  Similarity=0.220  Sum_probs=48.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEe---------------cCEEEEEEeCCCCc-------ccHH
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEV---------------SNSKLVFWDLGGQP-------GLRS   71 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~---------------~~~~~~i~D~~G~~-------~~~~   71 (192)
                      |||+||+|.+...   ..+.+++.....|+.|.-.  +..               -...+.+||+||..       .+..
T Consensus        33 KSTL~n~Ltg~~~---a~~~~~p~tTi~p~~G~v~--v~~~r~~~l~~~~~~~~~v~~~i~lvD~pGl~~~~s~~e~L~~  107 (392)
T 1ni3_A           33 KSTFFRAITKSVL---GNPANYPYATIDPEEAKVA--VPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTKGASTGVGLGN  107 (392)
T ss_dssp             HHHHHHHHHHSTT---TSTTCCSSCCCCTTEEEEE--ECCHHHHHHHHHHCCSEEECEEEEEECTGGGCCCCCSSSSSCH
T ss_pred             HHHHHHHHHCCCc---ccccCCCceeecceeeeee--eCCcchhhhhhhcccccccCcceEEEeccccccCCcHHHHHHH
Confidence            8888888887432   1444666666677766421  111               02468999999932       2444


Q ss_pred             HHHHhhhcCCEEEEEEeCCC
Q 029517           72 IWEKYYEEAHAVVFVIDAAC   91 (192)
Q Consensus        72 ~~~~~~~~~d~ii~v~D~~~   91 (192)
                      .+..+++.+|++++|+|+.+
T Consensus       108 ~fl~~ir~~d~il~Vvd~~~  127 (392)
T 1ni3_A          108 AFLSHVRAVDAIYQVVRAFD  127 (392)
T ss_dssp             HHHHHHTTCSEEEEEEECCC
T ss_pred             HHHHHHHHHHHHHHHHhccc
Confidence            56667899999999999864

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=98.17  E-value=5.3e-06  Score=65.41  Aligned_cols=108  Identities=13%  Similarity=0.106  Sum_probs=64.0

Q ss_pred             cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC---
Q 029517           54 SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVS---  130 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~---  130 (192)
                      .+..+.++||+|...-..   .....+|.+++|+|+...+..+.+...+         ...|.++++||+|+.....   
T Consensus       146 ~~~~~iliDT~Gi~~~~~---~v~~~~d~vl~v~d~~~~~~~~~i~~~i---------~~~~~ivvlNK~Dl~~~~~~s~  213 (337)
T 2qm8_A          146 AGFDVILVETVGVGQSET---AVADLTDFFLVLMLPGAGDELQGIKKGI---------FELADMIAVNKADDGDGERRAS  213 (337)
T ss_dssp             TTCCEEEEEECSSSSCHH---HHHTTSSEEEEEECSCC------CCTTH---------HHHCSEEEEECCSTTCCHHHHH
T ss_pred             CCCCEEEEECCCCCcchh---hHHhhCCEEEEEEcCCCcccHHHHHHHH---------hccccEEEEEchhccCchhHHH
Confidence            467899999999754322   2347899999999986543221111111         1245677889999753211   


Q ss_pred             --HHHHHhHcCccc-c-CCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517          131 --ADELARYLDLKK-L-DERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus       131 --~~~~~~~~~~~~-~-~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                        .+.+...+.+.. . .....+++.+||+++.|++++++.|.+...
T Consensus       214 ~~~~~l~~a~~l~~~~~~~~~~~vl~~Sal~g~gi~~L~~~I~~~~~  260 (337)
T 2qm8_A          214 AAASEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRS  260 (337)
T ss_dssp             HHHHHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccccCCCCCEEEEeCCCCCCHHHHHHHHHHHHH
Confidence              112222121100 0 001346888999999999999999988654

>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=98.17  E-value=5.3e-07  Score=70.14  Aligned_cols=84  Identities=17%  Similarity=0.038  Sum_probs=57.6

Q ss_pred             HhhhcCCEEEEEEeCCCcc-cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC----HHHHHhHcCccccCCcceE
Q 029517           75 KYYEEAHAVVFVIDAACPS-RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVS----ADELARYLDLKKLDERVCM  149 (192)
Q Consensus        75 ~~~~~~d~ii~v~D~~~~~-s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~----~~~~~~~~~~~~~~~~~~~  149 (192)
                      ..+.++|.+++|+|+.++. +...+..++.... .   .++|.++|+||+|+.+...    .+++.+...     ..+++
T Consensus        82 ~~~anvD~v~~V~~~~~p~~~~~~i~r~L~~~~-~---~~~~~vivlnK~DL~~~~~~~~~~~~~~~~y~-----~~g~~  152 (307)
T 1t9h_A           82 PPICNVDQAVLVFSAVQPSFSTALLDRFLVLVE-A---NDIQPIICITKMDLIEDQDTEDTIQAYAEDYR-----NIGYD  152 (307)
T ss_dssp             TTEECCCEEEEEEESTTTTCCHHHHHHHHHHHH-T---TTCEEEEEEECGGGCCCHHHHHHHHHHHHHHH-----HHTCC
T ss_pred             HHHHhCCEEEEEEeCCCCCCCHHHHHHHHHHHH-H---CCCCEEEEEECCccCchhhhHHHHHHHHHHHH-----hCCCe
Confidence            4678999999999998553 4444444443322 2   4789999999999976422    233333332     33678


Q ss_pred             EEEeeecCCCCHHHHHHH
Q 029517          150 FEAVSGYDGFGIKESVEW  167 (192)
Q Consensus       150 ~~~~Sa~~~~gi~e~~~~  167 (192)
                      ++.+||.++.|++++++.
T Consensus       153 v~~~sa~~~~g~~~L~~~  170 (307)
T 1t9h_A          153 VYLTSSKDQDSLADIIPH  170 (307)
T ss_dssp             EEECCHHHHTTCTTTGGG
T ss_pred             EEEEecCCCCCHHHHHhh
Confidence            999999999998877543

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=98.14  E-value=2.1e-06  Score=68.92  Aligned_cols=74  Identities=16%  Similarity=0.107  Sum_probs=37.2

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEec-----------------CEEEEEEeCCCCcccHH----
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVS-----------------NSKLVFWDLGGQPGLRS----   71 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~-----------------~~~~~i~D~~G~~~~~~----   71 (192)
                      =|||+||+|.+.-.    .+++++..+..|+.|.    +...                 ...+++|||||..+...    
T Consensus        34 GKSTL~n~Ltg~~~----~~~~~p~tTi~p~~g~----v~v~~~r~~~l~~~~~p~~~~~~~i~lvDtpGl~~~as~~~g  105 (396)
T 2ohf_A           34 GKSTFFNVLTNSQA----SAENFPFCTIDPNESR----VPVPDERFDFLCQYHKPASKIPAFLNVVDIAGLVKGAHNGQG  105 (396)
T ss_dssp             SHHHHHHHHHC-----------------CCSEEE----EECCCHHHHHHHHHHCCSEEECCEEEEEECCC----------
T ss_pred             CHHHHHHHHHCCCc----cccCCCccccCceeEE----EEECCccceeeccccCcccccccccEEEECCCcccccchhhH
Confidence            37888888875432    3334444444444442    3221                 34699999999876443    


Q ss_pred             ---HHHHhhhcCCEEEEEEeCCCccc
Q 029517           72 ---IWEKYYEEAHAVVFVIDAACPSR   94 (192)
Q Consensus        72 ---~~~~~~~~~d~ii~v~D~~~~~s   94 (192)
                         .+..+++.+|++++|+|+++..+
T Consensus       106 lg~~~l~~ir~aD~Il~VvD~~~~~~  131 (396)
T 2ohf_A          106 LGNAFLSHISACDGIFHLTRAFEDDD  131 (396)
T ss_dssp             -CCHHHHHHHTSSSEEEEEEC-----
T ss_pred             HHHHHHHHHHhcCeEEEEEecCCCcc
Confidence               45678899999999999975443

>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=98.08  E-value=5.6e-06  Score=65.66  Aligned_cols=86  Identities=21%  Similarity=0.062  Sum_probs=54.7

Q ss_pred             hhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeec
Q 029517           77 YEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGY  156 (192)
Q Consensus        77 ~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  156 (192)
                      ..++|.+++|.......+...+..++.....    .++|.++|+||+|+......+.+.++..  .+...+++++.+||+
T Consensus       128 ~anvD~v~iv~a~~P~~~~~~i~r~L~~a~~----~~~~~iivlNK~DL~~~~~~~~~~~~~~--~y~~~G~~v~~~Sa~  201 (358)
T 2rcn_A          128 AANIDQIVIVSAILPELSLNIIDRYLVGCET----LQVEPLIVLNKIDLLDDEGMDFVNEQMD--IYRNIGYRVLMVSSH  201 (358)
T ss_dssp             EECCCEEEEEEESTTTCCHHHHHHHHHHHHH----HTCEEEEEEECGGGCCHHHHHHHHHHHH--HHHTTTCCEEECBTT
T ss_pred             HhcCCEEEEEEeCCCCCCHHHHHHHHHHHHh----cCCCEEEEEECccCCCchhHHHHHHHHH--HHHhCCCcEEEEecC
Confidence            5789999988665433344544455443322    3688899999999975321111222222  111457789999999


Q ss_pred             CCCCHHHHHHHH
Q 029517          157 DGFGIKESVEWL  168 (192)
Q Consensus       157 ~~~gi~e~~~~i  168 (192)
                      ++.|++++...+
T Consensus       202 ~~~gl~~L~~~~  213 (358)
T 2rcn_A          202 TQDGLKPLEEAL  213 (358)
T ss_dssp             TTBTHHHHHHHH
T ss_pred             CCcCHHHHHHhc
Confidence            999999987653

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=97.81  E-value=5.1e-05  Score=62.82  Aligned_cols=110  Identities=15%  Similarity=0.132  Sum_probs=63.2

Q ss_pred             cCEEEEEEeCCCCccc----HHHHHHh--hhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcE-EEEEeCCCCC
Q 029517           54 SNSKLVFWDLGGQPGL----RSIWEKY--YEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL-LILANKQDLP  126 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~----~~~~~~~--~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~pi-iiv~nK~Dl~  126 (192)
                      .++.+.|+||||....    .......  ...+|.+++|+|++......   .....+..     ..|+ .+|+||+|..
T Consensus       182 ~~~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~~~~---~~a~~~~~-----~~~i~gvVlNK~D~~  253 (504)
T 2j37_W          182 ENFEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQACE---AQAKAFKD-----KVDVASVIVTKLDGH  253 (504)
T ss_dssp             TTCCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCTTHH---HHHHHHHH-----HHCCCCEEEECTTSC
T ss_pred             CCCcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEeccccccHH---HHHHHHHh-----hcCceEEEEeCCccc
Confidence            4678999999997532    1111111  22789999999998654322   12222221     1564 8899999987


Q ss_pred             CCCCH-HHHHhHcCcc--------ccCC--cceEEEEeeecCCCC-HHHHHHHHHHH
Q 029517          127 DAVSA-DELARYLDLK--------KLDE--RVCMFEAVSGYDGFG-IKESVEWLVEV  171 (192)
Q Consensus       127 ~~~~~-~~~~~~~~~~--------~~~~--~~~~~~~~Sa~~~~g-i~e~~~~i~~~  171 (192)
                      ..... -.+.......        .+..  ...+...+|+..|.| +.++++++.+.
T Consensus       254 ~~~g~~l~~~~~~g~PI~fig~ge~~~dl~~f~~~~~vsal~G~Gdi~~Lie~i~e~  310 (504)
T 2j37_W          254 AKGGGALSAVAATKSPIIFIGTGEHIDDFEPFKTQPFISKLLGMGDIEGLIDKVNEL  310 (504)
T ss_dssp             CCCTHHHHHHHHHCCCEEEEECSSSTTCEECCTHHHHHHCCCTTTTTTTTHHHHTTT
T ss_pred             cchHHHHHHHHHhCCCeEEeccccchhhhhccCcceeeehhcCCCcHHHHHHHHHHH
Confidence            53321 1222222110        0000  011234579999999 99999998765

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=97.40  E-value=4.1e-06  Score=66.89  Aligned_cols=113  Identities=11%  Similarity=0.064  Sum_probs=56.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccH--------HHHHHhh--hcCCEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLR--------SIWEKYY--EEAHAV   83 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~--------~~~~~~~--~~~d~i   83 (192)
                      |||++|+|+++........  ........|.+.....+.   -.+.++||||.....        .....++  +..+.+
T Consensus       175 KStliN~L~~~~~~~~~~~--~~~~~~gtT~~~~~~~~~---~~~~liDtPG~~~~~~~~~~l~~~~l~~~~~~~~i~~~  249 (369)
T 3ec1_A          175 KSTFINRIIEEATGKGNVI--TTSYFPGTTLDMIEIPLE---SGATLYDTPGIINHHQMAHFVDARDLKIITPKREIHPR  249 (369)
T ss_dssp             HHHHHHHHHHHHHHTTCCC--EEEECTTSSCEEEEEECS---TTCEEEECCSCCCCSSGGGGSCTTTHHHHSCSSCCCCE
T ss_pred             hHHHHHHHHhhccCCccce--eecCCCCeEEeeEEEEeC---CCeEEEeCCCcCcHHHHHHHHhHHHHHHHhcccccCce
Confidence            7999999998853311000  000111123332222221   137999999943211        1122222  678999


Q ss_pred             EEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHh
Q 029517           84 VFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELAR  136 (192)
Q Consensus        84 i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~  136 (192)
                      ++++|+....-+..+.. +. ....   .+.|+++++||.|.......+.+.+
T Consensus       250 ~~~l~~~~~~~~g~l~~-l~-~l~~---~~~~~~~v~~k~d~~~~~~~~~~~~  297 (369)
T 3ec1_A          250 VYQLNEGQTLFFGGLAR-LD-YIKG---GRRSFVCYMANELTVHRTKLEKADS  297 (369)
T ss_dssp             EEEECTTEEEEETTTEE-EE-EEES---SSEEEEEEECTTSCEEEEEGGGHHH
T ss_pred             EEEEcCCceEEECCEEE-EE-EccC---CCceEEEEecCCcccccccHHHHHH
Confidence            99999842210111000 00 1111   4689999999999865333333333

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=97.30  E-value=6.9e-06  Score=65.53  Aligned_cols=117  Identities=9%  Similarity=0.043  Sum_probs=57.6

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCccc--------HHHHHHh--hhcCCE
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGL--------RSIWEKY--YEEAHA   82 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~--------~~~~~~~--~~~~d~   82 (192)
                      =|||++|+|+++......+.. ........|.......+..   .+.++||||....        ......+  .+..+.
T Consensus       172 GKStliN~L~~~~~~~~~~~~-~~~~~~gtT~~~~~~~~~~---~~~liDtPG~~~~~~~~~~l~~~~l~~~~~~~~i~~  247 (368)
T 3h2y_A          172 GKSTFINRMIKEFSDETENVI-TTSHFPGTTLDLIDIPLDE---ESSLYDTPGIINHHQMAHYVGKQSLKLITPTKEIKP  247 (368)
T ss_dssp             SHHHHHHHHHHHHTTSCSSCC-EEECCC----CEEEEESSS---SCEEEECCCBCCTTSGGGGSCHHHHHHHSCSSCCCC
T ss_pred             ChhHHHHHHHhhhccccccce-ecCCCCCeecceEEEEecC---CeEEEeCCCcCcHHHHHHHhhHHHHHHhccccccCc
Confidence            389999999998643211100 0001111222222222211   3899999994321        1122222  256788


Q ss_pred             EEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHc
Q 029517           83 VVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYL  138 (192)
Q Consensus        83 ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~  138 (192)
                      +++++|+....-+..+.. +. ....   .+.|+++++||+|.......+.+.+.+
T Consensus       248 ~~~~l~~~~~~~~g~l~~-~d-~l~~---~~~~~~~v~nk~d~~~~~~~~~~~~~~  298 (368)
T 3h2y_A          248 MVFQLNEEQTLFFSGLAR-FD-YVSG---GRRAFTCHFSNRLTIHRTKLEKADELY  298 (368)
T ss_dssp             EEEEECTTEEEEETTTEE-EE-EEES---SSEEEEEEECTTSCEEEEEHHHHHHHH
T ss_pred             eEEEEcCCCEEEEcceEE-EE-EecC---CCceEEEEecCccccccccHHHHHHHH
Confidence            999998742211111000 00 1111   368999999999987644444444443

>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=96.80  E-value=0.0011  Score=53.60  Aligned_cols=41  Identities=12%  Similarity=0.097  Sum_probs=23.4

Q ss_pred             CCCcEEEEEeCCCCCCCCCHHHHHhHcCc--cccCCcceEEEEeee
Q 029517          112 QGAPLLILANKQDLPDAVSADELARYLDL--KKLDERVCMFEAVSG  155 (192)
Q Consensus       112 ~~~piiiv~nK~Dl~~~~~~~~~~~~~~~--~~~~~~~~~~~~~Sa  155 (192)
                      .+.|+++|.||+|...   .+++..+...  ..+...+++++.+|.
T Consensus       175 ~~~~vI~Vi~KtD~Lt---~~E~~~l~~~I~~~L~~~gi~I~~is~  217 (427)
T 2qag_B          175 SKVNIIPIIAKADAIS---KSELTKFKIKITSELVSNGVQIYQFPT  217 (427)
T ss_dssp             SCSEEEEEESCGGGSC---HHHHHHHHHHHHHHHBTTBCCCCCCC-
T ss_pred             hCCCEEEEEcchhccc---hHHHHHHHHHHHHHHHHcCCcEEecCC
Confidence            4789999999999764   3333322220  012245666666664

>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=95.91  E-value=0.023  Score=46.28  Aligned_cols=94  Identities=13%  Similarity=0.077  Sum_probs=52.5

Q ss_pred             CEEEEEEeCCCCcccHH----HHH--HhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCC
Q 029517           55 NSKLVFWDLGGQPGLRS----IWE--KYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDA  128 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~----~~~--~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~  128 (192)
                      ++.+.|+||+|......    ...  .....+|.+++|+|++....-..   ....+.+.    -.+..+|+||.|....
T Consensus       182 ~~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~gq~a~~---~a~~f~~~----~~i~gVIlTKlD~~~~  254 (443)
T 3dm5_A          182 GVDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQQAYN---QALAFKEA----TPIGSIIVTKLDGSAK  254 (443)
T ss_dssp             TCSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHH---HHHHHHHS----CTTEEEEEECCSSCSS
T ss_pred             CCCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCchhHHH---HHHHHHhh----CCCeEEEEECCCCccc
Confidence            47899999999542211    111  11235799999999976533222   22333322    2355689999998642


Q ss_pred             CCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHH
Q 029517          129 VSADELARYLDLKKLDERVCMFEAVSGYDGFGIKES  164 (192)
Q Consensus       129 ~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~  164 (192)
                        ...+.....     ..+.++..++.  |++++++
T Consensus       255 --gG~~ls~~~-----~~g~PI~fig~--Ge~vddL  281 (443)
T 3dm5_A          255 --GGGALSAVA-----ATGAPIKFIGT--GEKIDDI  281 (443)
T ss_dssp             --HHHHHHHHH-----TTCCCEEEEEC--SSSTTCE
T ss_pred             --ccHHHHHHH-----HHCCCEEEEEc--CCChHHh
Confidence              122233222     23455555554  7766554

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=95.60  E-value=0.039  Score=41.84  Aligned_cols=42  Identities=14%  Similarity=0.199  Sum_probs=25.9

Q ss_pred             CCEEEEEEeCC-CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           80 AHAVVFVIDAA-CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        80 ~d~ii~v~D~~-~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      +.+.++++|.. .+-+... ...+..+. .   . .++++|+||+|...
T Consensus       112 al~~lllldep~~gL~~lD-~~~l~~L~-~---~-~~vI~Vi~K~D~lt  154 (270)
T 3sop_A          112 VHCCLYFISPTGHSLRPLD-LEFMKHLS-K---V-VNIIPVIAKADTMT  154 (270)
T ss_dssp             CCEEEEEECCCSSSCCHHH-HHHHHHHH-T---T-SEEEEEETTGGGSC
T ss_pred             eeeeeEEEecCCCcCCHHH-HHHHHHHH-h---c-CcEEEEEeccccCC
Confidence            57888999864 2222222 23333332 2   2 89999999999764

>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=95.45  E-value=0.02  Score=46.51  Aligned_cols=66  Identities=12%  Similarity=0.165  Sum_probs=40.5

Q ss_pred             cCEEEEEEeCCCCcccHHHH----HHh--hhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCC-c-EEEEEeCCCC
Q 029517           54 SNSKLVFWDLGGQPGLRSIW----EKY--YEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGA-P-LLILANKQDL  125 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~----~~~--~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~-p-iiiv~nK~Dl  125 (192)
                      ..+.+.|+||||........    ...  +..+|.+++|+|++....   .......+.     ... | ..+|+||.|.
T Consensus       179 ~~~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g~~---~~~~~~~~~-----~~~~~i~gvVlnK~D~  250 (432)
T 2v3c_C          179 KKADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQQ---AGIQAKAFK-----EAVGEIGSIIVTKLDG  250 (432)
T ss_dssp             SSCSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGGGG---HHHHHHHHH-----TTSCSCEEEEEECSSS
T ss_pred             hCCCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeeccccHH---HHHHHHHHh-----hcccCCeEEEEeCCCC
Confidence            45688999999976432211    111  125899999999875532   222222222     124 5 7889999998


Q ss_pred             CC
Q 029517          126 PD  127 (192)
Q Consensus       126 ~~  127 (192)
                      ..
T Consensus       251 ~~  252 (432)
T 2v3c_C          251 SA  252 (432)
T ss_dssp             CS
T ss_pred             cc
Confidence            64

>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=95.36  E-value=0.034  Score=44.88  Aligned_cols=113  Identities=17%  Similarity=0.177  Sum_probs=62.1

Q ss_pred             EEEEEeCCCCcc----cHHHHHH-hhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCC-----
Q 029517           57 KLVFWDLGGQPG----LRSIWEK-YYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLP-----  126 (192)
Q Consensus        57 ~~~i~D~~G~~~----~~~~~~~-~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~-----  126 (192)
                      .+.+||++|...    ....... -+...+..+. ++..... -++  ..+...+..   .+.|+++|.||.|+.     
T Consensus       121 ~ltv~D~~g~~~~~~~~~~~L~~~~L~~~~~~~~-lS~G~~~-kqr--v~la~aL~~---~~~p~~lV~tkpdlllLDEP  193 (413)
T 1tq4_A          121 NVVFWDLPGIGSTNFPPDTYLEKMKFYEYDFFII-ISATRFK-KND--IDIAKAISM---MKKEFYFVRTKVDSDITNEA  193 (413)
T ss_dssp             TEEEEECCCGGGSSCCHHHHHHHTTGGGCSEEEE-EESSCCC-HHH--HHHHHHHHH---TTCEEEEEECCHHHHHHHHH
T ss_pred             CeeehHhhcccchHHHHHHHHHHcCCCccCCeEE-eCCCCcc-HHH--HHHHHHHHh---cCCCeEEEEecCcccccCcc
Confidence            588999999431    1222221 2334455554 6664211 222  222222222   368999999999863     


Q ss_pred             ----CCCCHHHHHhHcCccc------cCCcceEEEEeee--cCCCCHHHHHHHHHHHHHhcc
Q 029517          127 ----DAVSADELARYLDLKK------LDERVCMFEAVSG--YDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       127 ----~~~~~~~~~~~~~~~~------~~~~~~~~~~~Sa--~~~~gi~e~~~~i~~~i~~~~  176 (192)
                          +....+++.+.+....      .......++.+|+  ..+.|++++.+.+.+.+....
T Consensus       194 tsgLD~~~~~~l~~~l~~l~~~~l~~~g~~~~~iiliSsh~l~~~~~e~L~d~I~~~Lpeg~  255 (413)
T 1tq4_A          194 DGEPQTFDKEKVLQDIRLNCVNTFRENGIAEPPIFLLSNKNVCHYDFPVLMDKLISDLPIYK  255 (413)
T ss_dssp             TTCCTTCCHHHHHHHHHHHHHHHHHHTTCSSCCEEECCTTCTTSTTHHHHHHHHHHHSCGGG
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHHHhcCCCCCcEEEEecCcCCccCHHHHHHHHHHhCccch
Confidence                1233444433332100      0011236788999  667789999999988776554

>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=95.21  E-value=0.048  Score=41.93  Aligned_cols=94  Identities=17%  Similarity=0.161  Sum_probs=54.1

Q ss_pred             cCEEEEEEeCCCCcc--cHH-HHH-----HhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCc-EEEEEeCCC
Q 029517           54 SNSKLVFWDLGGQPG--LRS-IWE-----KYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAP-LLILANKQD  124 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~--~~~-~~~-----~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~p-iiiv~nK~D  124 (192)
                      ..+.+.|+||||...  ... ...     .....+|.+++|+|+....   ........+..     ..| ..+|.||.|
T Consensus       179 ~~~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g~---~~~~~~~~~~~-----~~~i~gvVlnk~D  250 (297)
T 1j8m_F          179 EKMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQ---KAYDLASKFNQ-----ASKIGTIIITKMD  250 (297)
T ss_dssp             TTCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGG---GHHHHHHHHHH-----TCTTEEEEEECGG
T ss_pred             CCCCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCchH---HHHHHHHHHHh-----hCCCCEEEEeCCC
Confidence            467899999999776  322 111     1245799999999986432   22222222222     245 678899999


Q ss_pred             CCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHH
Q 029517          125 LPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKES  164 (192)
Q Consensus       125 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~  164 (192)
                      ...  ....+.....     ..+.++..++  .|++++++
T Consensus       251 ~~~--~~g~~~~~~~-----~~~~pi~~i~--~Ge~v~dl  281 (297)
T 1j8m_F          251 GTA--KGGGALSAVA-----ATGATIKFIG--TGEKIDEL  281 (297)
T ss_dssp             GCT--THHHHHHHHH-----TTTCCEEEEE--CSSSTTCE
T ss_pred             CCc--chHHHHHHHH-----HHCcCEEEEe--CCCChhhc
Confidence            753  2233333332     3345555554  57777553

>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=95.21  E-value=0.068  Score=38.06  Aligned_cols=68  Identities=10%  Similarity=0.028  Sum_probs=48.7

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCC-CCCCcEEEEEeCCCCC
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNED-LQGAPLLILANKQDLP  126 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~-~~~~piiiv~nK~Dl~  126 (192)
                      .+.+.|+|+|+...  ......+..+|.+++++.++...  ..+...+..+.+... ..+.++.+|.|+.|..
T Consensus        75 ~yD~viiD~~~~~~--~~~~~~l~~ad~viiv~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~~vv~N~~~~~  143 (206)
T 4dzz_A           75 DYDFAIVDGAGSLS--VITSAAVMVSDLVIIPVTPSPLD--FSAAGSVVTVLEAQAYSRKVEARFLITRKIEM  143 (206)
T ss_dssp             TSSEEEEECCSSSS--HHHHHHHHHCSEEEEEECSCTTT--HHHHHHHHHHHTTSCGGGCCEEEEEECSBCTT
T ss_pred             CCCEEEEECCCCCC--HHHHHHHHHCCEEEEEecCCHHH--HHHHHHHHHHHHHHHhCCCCcEEEEEeccCCC
Confidence            47889999999762  34455677899999999986443  666666666655421 2356789999999854

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=94.69  E-value=0.18  Score=36.97  Aligned_cols=81  Identities=14%  Similarity=0.173  Sum_probs=58.4

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHH
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADEL  134 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~  134 (192)
                      .+.+.|+|+|+....  .....+..+|.+++++.++ ..+...+...++.+..... ....+-+|.|+.+.......+++
T Consensus       118 ~yD~viiD~p~~~~~--~~~~~l~~ad~viiv~~~~-~~~~~~~~~~~~~l~~~~~-~~~~~~~v~N~~~~~~~~~~~~~  193 (245)
T 3ea0_A          118 FYDYIIVDFGASIDH--VGVWVLEHLDELCIVTTPS-LQSLRRAGQLLKLCKEFEK-PISRIEIILNRADTNSRITSDEI  193 (245)
T ss_dssp             HCSEEEEEEESSCCT--THHHHGGGCSEEEEEECSS-HHHHHHHHHHHHHHHTCSS-CCSCEEEEEESTTSCTTSCHHHH
T ss_pred             hCCEEEEeCCCCCch--HHHHHHHHCCEEEEEecCc-HHHHHHHHHHHHHHHHhCC-CccceEEEEecCCCCCCCCHHHH
Confidence            467899999996532  3445678899999999875 5567777777777665421 24568899999997666666777


Q ss_pred             HhHcC
Q 029517          135 ARYLD  139 (192)
Q Consensus       135 ~~~~~  139 (192)
                      .+.+.
T Consensus       194 ~~~~~  198 (245)
T 3ea0_A          194 EKVIG  198 (245)
T ss_dssp             HHHHT
T ss_pred             HHHhC
Confidence            77665

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=94.39  E-value=0.097  Score=37.83  Aligned_cols=68  Identities=9%  Similarity=0.003  Sum_probs=49.1

Q ss_pred             cCEEEEEEeCCCC-cccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           54 SNSKLVFWDLGGQ-PGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        54 ~~~~~~i~D~~G~-~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      ..+.+.|+|+|+. ...  .....+..+|.+|+++.++ ..++..+...++.+....   +.++.+|.|+.|...
T Consensus        66 ~~yD~viiD~p~~~~~~--~~~~~l~~aD~viiv~~~~-~~~~~~~~~~~~~l~~~~---~~~~~vv~N~~~~~~  134 (209)
T 3cwq_A           66 PKYQNIVIDTQARPEDE--DLEALADGCDLLVIPSTPD-ALALDALMLTIETLQKLG---NNRFRILLTIIPPYP  134 (209)
T ss_dssp             GGCSEEEEEEECCCSSS--HHHHHHHTSSEEEEEECSS-HHHHHHHHHHHHHHHHTC---SSSEEEEECSBCCTT
T ss_pred             hcCCEEEEeCCCCcCcH--HHHHHHHHCCEEEEEecCC-chhHHHHHHHHHHHHhcc---CCCEEEEEEecCCcc
Confidence            3567899999997 543  2344677899999999875 455666666666665532   467889999998653

>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=93.79  E-value=0.37  Score=35.90  Aligned_cols=67  Identities=13%  Similarity=0.075  Sum_probs=44.7

Q ss_pred             cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEE-EEEeCCCC
Q 029517           54 SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLL-ILANKQDL  125 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~pii-iv~nK~Dl  125 (192)
                      ..+.+.|+|+|+...........+..+|.+|+|..+. ..+...+...++.+...    +.+++ +|.|+.|.
T Consensus       127 ~~yD~ViID~pp~~~~~~~~~~~~~~aD~viiv~~~~-~~s~~~~~~~~~~l~~~----~~~~~gvV~N~~~~  194 (262)
T 2ph1_A          127 GELDHLLIDLPPGTGDAPLTVMQDAKPTGVVVVSTPQ-ELTAVIVEKAINMAEET----NTSVLGLVENMSYF  194 (262)
T ss_dssp             CSCSEEEEECCSSSSSHHHHHHHHHCCSEEEEEECSS-SCCHHHHHHHHHHHHTT----TCCEEEEEETTCCE
T ss_pred             cCCCEEEEECcCCCchHHHHHHhhccCCeEEEEecCc-cchHHHHHHHHHHHHhC----CCCEEEEEECCCcc
Confidence            4578999999997543222222233689999999876 44566666666665443    46666 89999874

>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=93.66  E-value=0.084  Score=42.82  Aligned_cols=92  Identities=15%  Similarity=0.153  Sum_probs=51.8

Q ss_pred             CEEEEEEeCCCCcc------cHHHHHHh--hhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCC
Q 029517           55 NSKLVFWDLGGQPG------LRSIWEKY--YEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLP  126 (192)
Q Consensus        55 ~~~~~i~D~~G~~~------~~~~~~~~--~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~  126 (192)
                      .+.+.|+||||...      ........  .-..+.+++|+|+........   ....+.+.    -.+..+|+||.|..
T Consensus       179 ~~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~gq~a~~---~a~~f~~~----~~~~gVIlTKlD~~  251 (433)
T 3kl4_A          179 KMDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQKAYD---LASRFHQA----SPIGSVIITKMDGT  251 (433)
T ss_dssp             TCSEEEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGGGGGGHH---HHHHHHHH----CSSEEEEEECGGGC
T ss_pred             CCCEEEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCccchHHHH---HHHHHhcc----cCCcEEEEeccccc
Confidence            56788999999643      11112211  124699999999976533222   22233222    14577899999976


Q ss_pred             CCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHH
Q 029517          127 DAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIK  162 (192)
Q Consensus       127 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  162 (192)
                      ..  ...+.....     ..+.|+..++.  |++++
T Consensus       252 a~--~G~als~~~-----~~g~Pi~fig~--Ge~v~  278 (433)
T 3kl4_A          252 AK--GGGALSAVV-----ATGATIKFIGT--GEKID  278 (433)
T ss_dssp             SC--HHHHHHHHH-----HHTCEEEEEEC--CSSSS
T ss_pred             cc--chHHHHHHH-----HHCCCEEEEEC--CCChH
Confidence            42  222333332     22466666664  77764

>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=93.51  E-value=0.32  Score=36.21  Aligned_cols=65  Identities=9%  Similarity=-0.003  Sum_probs=47.5

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCC
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQD  124 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D  124 (192)
                      .+.+.|+|+|+...  ......+..+|.+|+++.++ ..+...+...+..+....  .+.++.+|+|+.+
T Consensus       144 ~yD~viiD~pp~~~--~~~~~~l~~aD~vivv~~~~-~~s~~~~~~~~~~l~~~~--~~~~~~vv~N~~~  208 (267)
T 3k9g_A          144 KYDYIVIDTNPSLD--VTLKNALLCSDYVIIPMTAE-KWAVESLDLFNFFVRKLN--LFLPIFLIITRFK  208 (267)
T ss_dssp             TCSEEEEEECSSCS--HHHHHHHTTCSEEEEEEESC-TTHHHHHHHHHHHHHTTT--CCCCEEEEEEEEC
T ss_pred             CCCEEEEECcCCcc--HHHHHHHHHCCeEEEEeCCC-hHHHHHHHHHHHHHHHHh--ccCCEEEEEeccc
Confidence            56789999999753  23445667899999999985 456677766666665543  3567889999994

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=92.85  E-value=0.017  Score=43.67  Aligned_cols=45  Identities=20%  Similarity=0.180  Sum_probs=22.1

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCc
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQP   67 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~   67 (192)
                      =|||++|+|.++.......+++.       |.+..  .+.. +..+.+|||||..
T Consensus       111 GKSslin~l~~~~~~~~~~~~g~-------T~~~~--~~~~-~~~~~l~DtpG~~  155 (262)
T 3cnl_A          111 GKSTIINKLKGKRASSVGAQPGI-------TKGIQ--WFSL-ENGVKILDTPGIL  155 (262)
T ss_dssp             SHHHHHHHHHTTCC-----------------CCSC--EEEC-TTSCEEESSCEEC
T ss_pred             CHHHHHHHHhcccccccCCCCCC-------ccceE--EEEe-CCCEEEEECCCcc
Confidence            37888888886544322222222       11111  1221 3468999999954

>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=92.50  E-value=1.1  Score=32.35  Aligned_cols=79  Identities=10%  Similarity=0.024  Sum_probs=53.1

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCC-CCHHH
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDA-VSADE  133 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~-~~~~~  133 (192)
                      .+.+.|+|+|+...  ......+..+|.+|+|++.. ..++..+...+..+.+.   ...++-+|.|+.+.... ...++
T Consensus       111 ~yD~viiD~~~~~~--~~~~~~~~~ad~vi~v~~~~-~~~~~~~~~~~~~l~~~---~~~~~~vv~N~~~~~~~~~~~~~  184 (237)
T 1g3q_A          111 KFDFILIDCPAGLQ--LDAMSAMLSGEEALLVTNPE-ISCLTDTMKVGIVLKKA---GLAILGFVLNRYGRSDRDIPPEA  184 (237)
T ss_dssp             GCSEEEEECCSSSS--HHHHHHHTTCSEEEEEECSC-HHHHHHHHHHHHHHHHT---TCEEEEEEEEEETSCTTCCCHHH
T ss_pred             cCCEEEEECCCCcC--HHHHHHHHHCCeEEEEecCC-cccHHHHHHHHHHHHhC---CCceEEEEEecCCcccchhHHHH
Confidence            46789999998654  33455678899999999875 44566666666666544   22456788999986542 34555


Q ss_pred             HHhHcC
Q 029517          134 LARYLD  139 (192)
Q Consensus       134 ~~~~~~  139 (192)
                      +.+.+.
T Consensus       185 ~~~~~~  190 (237)
T 1g3q_A          185 AEDVME  190 (237)
T ss_dssp             HHHHHC
T ss_pred             HHHHhC
Confidence            555544

>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=92.36  E-value=0.021  Score=43.62  Aligned_cols=45  Identities=18%  Similarity=0.155  Sum_probs=21.6

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCc
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQP   67 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~   67 (192)
                      =|||++|+|+++....++..++.+.       ....  +.. +..+.+|||||..
T Consensus       132 GKSsliN~l~~~~~~~~~~~~g~T~-------~~~~--~~~-~~~~~l~DtpG~~  176 (282)
T 1puj_A          132 GKSTLINRLAKKNIAKTGDRPGITT-------SQQW--VKV-GKELELLDTPGIL  176 (282)
T ss_dssp             SHHHHHHHHHTSCCC-------------------CC--EEE-TTTEEEEECCCCC
T ss_pred             chHHHHHHHhcCceeecCCCCCeee-------eeEE--EEe-CCCEEEEECcCcC
Confidence            3788888888655443333333221       1111  212 2368999999953

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A*

Probab=90.78  E-value=0.64  Score=34.43  Aligned_cols=70  Identities=20%  Similarity=0.060  Sum_probs=45.1

Q ss_pred             cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHH---hCCCCCCCcEE-EEEeCCCCCC
Q 029517           54 SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVL---RNEDLQGAPLL-ILANKQDLPD  127 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~---~~~~~~~~pii-iv~nK~Dl~~  127 (192)
                      ..+.+.|+|+|+.....  ....+..+|.+|+++.++ ..++..+...+..+.   ... ..+.+++ +|.|+.|...
T Consensus       110 ~~yD~iiiD~pp~~~~~--~~~~l~~aD~viiv~~~~-~~s~~~~~~~~~~l~~~~~~~-~~~~~~~gvv~N~~~~~~  183 (257)
T 1wcv_1          110 EGYDLVLLDAPPSLSPL--TLNALAAAEGVVVPVQAE-YYALEGVAGLLATLEEVRAGL-NPRLRLLGILVTMYDGRT  183 (257)
T ss_dssp             TTCSEEEEECCSSCCHH--HHHHHHHCSEEEEEEESS-THHHHHHHHHHHHHHHHHHHT-CTTCEEEEEEEESBCTTC
T ss_pred             cCCCEEEEeCCCCCCHH--HHHHHHHCCeEEEEecCc-hHHHHHHHHHHHHHHHHHHHh-CCCceEEEEEEEeECCCc
Confidence            45789999999975432  334567899999999976 344554444444333   211 1356764 8999998643

>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=90.73  E-value=0.42  Score=35.42  Aligned_cols=66  Identities=12%  Similarity=0.056  Sum_probs=46.1

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCC
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLP  126 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~  126 (192)
                      .+.+.|+|+|+...  ......+..+|.+|+|+... ..+...+...+..+.+.   ...++-+|.|+.|..
T Consensus       110 ~yD~viiD~~~~~~--~~~~~~~~~ad~vi~v~~~~-~~~~~~~~~~~~~l~~~---~~~~~~vv~N~~~~~  175 (263)
T 1hyq_A          110 STDILLLDAPAGLE--RSAVIAIAAAQELLLVVNPE-ISSITDGLKTKIVAERL---GTKVLGVVVNRITTL  175 (263)
T ss_dssp             TCSEEEEECCSSSS--HHHHHHHHHSSEEEEEECSS-HHHHHHHHHHHHHHHHH---TCEEEEEEEEEECTT
T ss_pred             hCCEEEEeCCCCCC--hHHHHHHHHCCEEEEEeCCC-hhHHHHHHHHHHHHHhc---CCCeeEEEEccCCcc
Confidence            56799999998654  33445677899999999875 44566666666655544   224566899999854

>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=90.69  E-value=0.32  Score=35.52  Aligned_cols=78  Identities=10%  Similarity=0.015  Sum_probs=50.1

Q ss_pred             cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHH
Q 029517           54 SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADE  133 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~  133 (192)
                      ..+.+.|+|+|+....  .....+..+|.++++++++ ..++..+......+...   ....+.++.|+.+..  ...++
T Consensus       130 ~~yD~viiD~pp~~~~--~~~~~l~~aD~viiv~~~~-~~s~~~~~~~~~~~~~~---~~~~~~~v~N~~~~~--~~~~~  201 (254)
T 3kjh_A          130 DKKEAVVMDMGAGIEH--LTRGTAKAVDMMIAVIEPN-LNSIKTGLNIEKLAGDL---GIKKVRYVINKVRNI--KEEKL  201 (254)
T ss_dssp             TCCSEEEEEECTTCTT--CCHHHHTTCSEEEEEECSS-HHHHHHHHHHHHHHHHH---TCSCEEEEEEEECCH--HHHHH
T ss_pred             CCCCEEEEeCCCcccH--HHHHHHHHCCEEEEecCCC-HHHHHHHHHHHHHHHHc---CCccEEEEEeCCCCh--hHHHH
Confidence            4678999999986533  3344568899999999875 44566665555533333   224678899999832  12344


Q ss_pred             HHhHcC
Q 029517          134 LARYLD  139 (192)
Q Consensus       134 ~~~~~~  139 (192)
                      +.+.+.
T Consensus       202 ~~~~~~  207 (254)
T 3kjh_A          202 IKKHLP  207 (254)
T ss_dssp             HHHHSC
T ss_pred             HHHHhc
Confidence            555554

>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=89.12  E-value=0.65  Score=34.18  Aligned_cols=82  Identities=11%  Similarity=0.038  Sum_probs=54.0

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCC-----CCCCcEEEEEeCCCCCC--
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNED-----LQGAPLLILANKQDLPD--  127 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~-----~~~~piiiv~nK~Dl~~--  127 (192)
                      .+.+.|+|+|+...  ......+..+|.+|+|++++ ..++..+...+..+.....     ....++-+|.|+.|...  
T Consensus       113 ~yD~viiD~p~~~~--~~~~~~l~~ad~vi~v~~~~-~~s~~~~~~~~~~l~~~~~~~~~~~~~~~~~~v~N~~~~~~~~  189 (260)
T 3q9l_A          113 DFEFIVCDSPAGIE--TGALMALYFADEAIITTNPE-VSSVRDSDRILGILASKSRRAENGEEPIKEHLLLTRYNPGRVS  189 (260)
T ss_dssp             TCSEEEEECCSSSS--HHHHHHHHTCSEEEEEECSS-HHHHHHHHHHHHHHTTSSHHHHTTCSCCEEEEEEEEECHHHHH
T ss_pred             CCCEEEEcCCCCCC--HHHHHHHHhCCEEEEEecCC-hhHHHHHHHHHHHHHHhccccccccCCcceEEEEecCCccccc
Confidence            67899999998653  24455677899999999875 4556666666666544321     01257788999998421  


Q ss_pred             ---CCCHHHHHhHcC
Q 029517          128 ---AVSADELARYLD  139 (192)
Q Consensus       128 ---~~~~~~~~~~~~  139 (192)
                         ....+++.+.+.
T Consensus       190 ~~~~~~~~~~~~~~~  204 (260)
T 3q9l_A          190 RGDMLSMEDVLEILR  204 (260)
T ss_dssp             TTSSCCHHHHHHHHC
T ss_pred             cccccCHHHHHHHhC
Confidence               223456666554

>3bfv_A CAPA1, CAPB2, membrane protein CAPA1, protein tyrosine kinase; chimerical protein, P-loop protein, capsule biogenesis/degradation; HET: ADP; 1.80A {Staphylococcus aureus} PDB: 2ved_A*

Probab=88.89  E-value=1.5  Score=32.91  Aligned_cols=66  Identities=20%  Similarity=0.255  Sum_probs=44.3

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEE-EEEeCCCCC
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLL-ILANKQDLP  126 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~pii-iv~nK~Dl~  126 (192)
                      .+.+.|+|+|+...... .......+|++|+|+... ..+...+...++.+.+.    +.+++ +|+|+.|..
T Consensus       191 ~yD~VIIDtpp~~~~~d-~~~l~~~aD~vilVv~~~-~~~~~~~~~~~~~l~~~----~~~~~GvVlN~~~~~  257 (271)
T 3bfv_A          191 NYNFVIIDTPPVNTVTD-AQLFSKFTGNVVYVVNSE-NNNKDEVKKGKELIEAT----GAKLLGVVLNRMPKD  257 (271)
T ss_dssp             HCSEEEEECCCTTTCSH-HHHHHHHHCEEEEEEETT-SCCHHHHHHHHHHHHTT----TCEEEEEEEEEECC-
T ss_pred             CCCEEEEeCCCCchHHH-HHHHHHHCCEEEEEEeCC-CCcHHHHHHHHHHHHhC----CCCEEEEEEeCCcCC
Confidence            46789999999653321 122346799999999885 34566666666665543    45655 889999854

>3la6_A Tyrosine-protein kinase WZC; P-loop protein, nucleotide binding domain, walker A motif, B protein kinase, oligomerization; HET: ADP; 3.20A {Escherichia coli}

Probab=88.78  E-value=1.7  Score=32.91  Aligned_cols=68  Identities=15%  Similarity=0.038  Sum_probs=46.4

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      .+.+.|+|+|+...... .....+.+|++|+|+... ..+...+...++.+.+.   ....+-+|+|+.|...
T Consensus       201 ~yD~VIIDtpp~~~~~d-a~~l~~~aD~vllVv~~~-~~~~~~~~~~~~~l~~~---g~~~~GvVlN~v~~~~  268 (286)
T 3la6_A          201 NYDLVLIDTPPILAVTD-AAIVGRHVGTTLMVARYA-VNTLKEVETSLSRFEQN---GIPVKGVILNSIFRRA  268 (286)
T ss_dssp             HCSEEEEECCCTTTCTH-HHHHTTTCSEEEEEEETT-TSBHHHHHHHHHHHHHT---TCCCCEEEEEEECCCC
T ss_pred             CCCEEEEcCCCCcchHH-HHHHHHHCCeEEEEEeCC-CCcHHHHHHHHHHHHhC---CCCEEEEEEcCccccc
Confidence            45789999999754322 223456799999999976 34466666666666554   2345667899998654

>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=86.64  E-value=0.31  Score=41.15  Aligned_cols=49  Identities=18%  Similarity=0.128  Sum_probs=28.4

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEE---ecCEEEEEEeCCCCc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIE---VSNSKLVFWDLGGQP   67 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~---~~~~~~~i~D~~G~~   67 (192)
                      |||++|+|+++-.+.  .+++   +....|.|+......   ..+..+.++||||..
T Consensus        51 KStLiN~L~g~~~~~--~~~~---tt~~~T~gi~~~~~~~~~~~~~~i~LiDTpGi~  102 (592)
T 1f5n_A           51 KSYLMNKLAGKKKGF--SLGS---TVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLG  102 (592)
T ss_dssp             HHHHHHHHTTCSSCS--CCCC---SSSCCCCSEEEEEEECSSSTTCEEEEEEECCBC
T ss_pred             HHHHHHhHcCCCCcc--ccCC---CCCCceeEEEEeecccccCCCceEEEecCCCcC
Confidence            788888887653321  2222   223456666433221   245689999999954

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=86.07  E-value=1.9  Score=32.50  Aligned_cols=70  Identities=10%  Similarity=0.077  Sum_probs=44.5

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCC--CCCCCc-EEEEEeCCCCCC
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNE--DLQGAP-LLILANKQDLPD  127 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~--~~~~~p-iiiv~nK~Dl~~  127 (192)
                      .+.+.|+|+|+.....  ....+..+|.+|+++.+. ..+...+...+..+....  ...+.+ +-+|.|+.|...
T Consensus       154 ~yD~IiiD~pp~~~~~--~~~~l~~aD~viiv~~~~-~~s~~~~~~~~~~l~~~~~~~~~~~~~~gvv~n~~~~~~  226 (298)
T 2oze_A          154 DYDLIIIDTVPTPSVY--TNNAIVASDYVMIPLQAE-EESTNNIQNYISYLIDLQEQFNPGLDMIGFVPYLVDTDS  226 (298)
T ss_dssp             GCSEEEEEECSSCSHH--HHHHHHHCSEEEEEECGG-GCCHHHHHHHHHHHHHHHHHHCTTCEEEEEEEEESCTTC
T ss_pred             CCCEEEEECCCCccHH--HHHHHHHCCeEEEEecCc-HHHHHHHHHHHHHHHHHHHHhCCCCeEEEEEEEEECCCc
Confidence            4678999999975432  233455799999999875 345655555544443310  013566 448899998654

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=83.27  E-value=2.8  Score=33.88  Aligned_cols=66  Identities=14%  Similarity=0.146  Sum_probs=39.4

Q ss_pred             cCEEEEEEeCCCCcccH-HHHH-----HhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCc-EEEEEeCCCCC
Q 029517           54 SNSKLVFWDLGGQPGLR-SIWE-----KYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAP-LLILANKQDLP  126 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~-~~~~-----~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~p-iiiv~nK~Dl~  126 (192)
                      ..+.+.|+||||..... ....     ..+..++.+++|+|+.......   .....+..     ..+ .-+|+||.|..
T Consensus       182 ~~~D~VIIDTpG~l~~~~~l~~~L~~~~~~~~p~~vllVvda~~g~~~~---~~~~~f~~-----~l~i~gvVlnK~D~~  253 (433)
T 2xxa_A          182 KFYDVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTGQDAA---NTAKAFNE-----ALPLTGVVLTKVDGD  253 (433)
T ss_dssp             TTCSEEEEECCCCCTTCHHHHHHHHHHHHHSCCSEEEEEEETTBCTTHH---HHHHHHHH-----HSCCCCEEEECTTSS
T ss_pred             CCCCEEEEECCCcccccHHHHHHHHHHHHhhcCcceeEEeecchhHHHH---HHHHHHhc-----cCCCeEEEEecCCCC
Confidence            46789999999965431 1111     1244789999999987543222   22222221     133 34689999976


Q ss_pred             C
Q 029517          127 D  127 (192)
Q Consensus       127 ~  127 (192)
                      .
T Consensus       254 ~  254 (433)
T 2xxa_A          254 A  254 (433)
T ss_dssp             S
T ss_pred             c
Confidence            4

>3pg5_A Uncharacterized protein; structural genomics, PSI-biology, protein structure initiati northeast structural genomics consortium, NESG; 3.30A {Corynebacterium diphtheriae}

Probab=80.21  E-value=4.6  Score=31.59  Aligned_cols=42  Identities=17%  Similarity=0.193  Sum_probs=29.6

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHH
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSK   99 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~   99 (192)
                      .+.+.|+|+|....  ......+..||.+|+++.+. ..++..+.
T Consensus       153 ~yD~VIID~pP~l~--~~~~~aL~~aD~viip~~~~-~~s~~~~~  194 (361)
T 3pg5_A          153 RYDVIFFDVGPSLG--PFNRTVLLGCDAFVTPTATD-LFSFHAFG  194 (361)
T ss_dssp             CCSEEEEECCSCCS--HHHHHHHTTCSEEEEEECCS-HHHHHHHH
T ss_pred             CCCEEEEECCCCcC--HHHHHHHHHCCEEEEEecCC-hHHHHHHH
Confidence            67899999998653  34455667799999999875 33444333

---

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	192
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	4e-19
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	2e-18
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	2e-17
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	5e-16
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	2e-15
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	6e-15
d1azta2	221	c.37.1.8 (A:35-65,A:202-391) Transducin (alpha sub	9e-13
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	2e-12
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	2e-12
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	5e-12
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	9e-12
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	2e-11
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	2e-10
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	2e-10
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	4e-10
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	5e-10
d2fh5b1	207	c.37.1.8 (B:63-269) Signal recognition particle re	8e-10
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	2e-09
d1zcba2	200	c.37.1.8 (A:47-75,A:202-372) Transducin (alpha sub	2e-08
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	2e-08
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	3e-08
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	7e-08
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	2e-07
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	2e-07
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	4e-07
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	4e-07
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	4e-06
d1tq4a_	400	c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (	8e-06
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	8e-06
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	1e-05
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	1e-05
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	1e-05
d1puja_	273	c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subti	2e-05
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	3e-05
d1svsa1	195	c.37.1.8 (A:32-60,A:182-347) Transducin (alpha sub	5e-05
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	3e-04
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	4e-04
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	4e-04
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	0.001
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	0.001
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	0.001

>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 = 78.1 bits (191), Expect = 4e-19
 Identities = 52/175 (29%), Positives = 83/175 (47%), Gaps = 19/175 (10%)

Query: 8   LWKYIFTKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSN 55
           +   IF   E              T+L KLK   S          +PTVG N+  +   N
Sbjct: 3   VLSKIFGNKEMRILMLGLDAAGKTTILYKLKLGQS-------VTTIPTVGFNVETVTYKN 55

Query: 56  SKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAP 115
            K   WD+GGQ  +R +W  YY     ++FV+D A   R ++++  L +++ + +++ A 
Sbjct: 56  VKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAI 115

Query: 116 LLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE 170
           +LI ANKQDLPDA+   E+   L L ++ +R    +      G G+ E + WL  
Sbjct: 116 ILIFANKQDLPDAMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTS 170

>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 = 76.6 bits (187), Expect = 2e-18
 Identities = 59/187 (31%), Positives = 96/187 (51%), Gaps = 20/187 (10%)

Query: 3   SLFYGLWKYIF-TKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNIG 49
           ++F  ++  ++ +  E              T+L +L+               PT+G N+ 
Sbjct: 2   NIFSSMFDKLWGSNKELRILILGLDGAGKTTILYRLQIGEV-------VTTKPTIGFNVE 54

Query: 50  RIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNE 109
            +   N KL  WDLGGQ  +R  W  YY +  AV+FV+D+    R   +   L  +L+ E
Sbjct: 55  TLSYKNLKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEE 114

Query: 110 DLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLV 169
           +LQ A LL+ ANKQD P A+SA E+++ L+L +L +R     A S   G GI E ++WL+
Sbjct: 115 ELQDAALLVFANKQDQPGALSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLI 174

Query: 170 EVMERSK 176
           +V++  +
Sbjct: 175 DVIKEEQ 181

>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 = 73.5 bits (179), Expect = 2e-17
 Identities = 51/182 (28%), Positives = 90/182 (49%), Gaps = 20/182 (10%)

Query: 4   LFYGLWKYIFTKTEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRI 51
           LF  +W+ +F   E              T+L +                 PT+G N+  I
Sbjct: 3   LFTRIWR-LFNHQEHKVIIVGLDNAGKTTILYQFS-------MNEVVHTSPTIGSNVEEI 54

Query: 52  EVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDL 111
            ++N++ + WD+GGQ  LRS W  YY     V+ V+D+    R   ++  L K+L +EDL
Sbjct: 55  VINNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDL 114

Query: 112 QGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEV 171
           + A LLI ANKQD+ + ++  E++++L L  + +     +A     G G+ + +EW++  
Sbjct: 115 RKAGLLIFANKQDVKECMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSR 174

Query: 172 ME 173
           ++
Sbjct: 175 LK 176

>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 = 70.0 bits (170), Expect = 5e-16
 Identities = 55/156 (35%), Positives = 83/156 (53%), Gaps = 10/156 (6%)

Query: 15  KTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWE 74
           KT   TLL++L              I PT G NI  ++    KL  WD+GGQ  +R  W 
Sbjct: 29  KT---TLLKQLA-------SEDISHITPTQGFNIKSVQSQGFKLNVWDIGGQRKIRPYWR 78

Query: 75  KYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADEL 134
            Y+E    +++VID+A   RFE++   L ++L  E L   P+LI ANKQDL  A  A E+
Sbjct: 79  SYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAPASEI 138

Query: 135 ARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE 170
           A  L+L  + +RV   ++ S   G G+++ + W+ +
Sbjct: 139 AEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCK 174

>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 = 68.5 bits (166), Expect = 2e-15
 Identities = 57/161 (35%), Positives = 84/161 (52%), Gaps = 11/161 (6%)

Query: 15  KTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWE 74
           KT   T+L+K         G   D I PT+G NI  +E    KL  WD+GGQ  LRS W 
Sbjct: 15  KT---TILKKFN-------GEDVDTISPTLGFNIKTLEHRGFKLNIWDVGGQKSLRSYWR 64

Query: 75  KYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADEL 134
            Y+E    +++V+D+A   R +D +  L+ +L  E L GA LLI ANKQDLP A+S + +
Sbjct: 65  NYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSCNAI 124

Query: 135 ARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE-VMER 174
              L+L  +       +  S   G  +   ++WL++ +  R
Sbjct: 125 QEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISSR 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 = 67.0 bits (162), Expect = 6e-15
 Identities = 44/131 (33%), Positives = 74/131 (56%)

Query: 40  IVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSK 99
            +PT+G N+  +E  N     WD+GGQ  +R +W  Y++    ++FV+D+    R  +++
Sbjct: 28  TIPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAR 87

Query: 100 TALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGF 159
             L ++L  ++L+ A LL+ ANKQDLP+A++A E+   L L  L  R    +A     G 
Sbjct: 88  EELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGD 147

Query: 160 GIKESVEWLVE 170
           G+ E ++WL  
Sbjct: 148 GLYEGLDWLSN 158

>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 = 62.1 bits (150), Expect = 9e-13
 Identities = 23/124 (18%), Positives = 54/124 (43%), Gaps = 23/124 (18%)

Query: 15  KTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWE 74
           K+   T++++++             +V T G+   + +V       +D+GGQ   R  W 
Sbjct: 19  KS---TIVKQMRI----------LHVVLTSGIFETKFQVDKVNFHMFDVGGQRDERRKWI 65

Query: 75  KYYEEAHAVVFVIDAACP----------SRFEDSKTALEKVLRNEDLQGAPLLILANKQD 124
           + + +  A++FV+ ++            +R +++    + +  N  L+   +++  NKQD
Sbjct: 66  QCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQD 125

Query: 125 LPDA 128
           L   
Sbjct: 126 LLAE 129

>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 = 60.2 bits (145), Expect = 2e-12
 Identities = 21/151 (13%), Positives = 47/151 (31%), Gaps = 9/151 (5%)

Query: 32  VEGLPPDRIVPTVGLNIGRIEVS----NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVI 87
            E       + T+G++     +       KL  WD  GQ   R+I   YY  A  ++ V 
Sbjct: 27  SEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVY 86

Query: 88  DAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERV 147
           D      F++ +  +  +  +       +++            + E           +  
Sbjct: 87  DITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEK----LALDYG 142

Query: 148 CMFEAVSGYDGFGIKESVEWLV-EVMERSKR 177
             F   S      ++ +   L  ++  +  +
Sbjct: 143 IKFMETSAKANINVENAFFTLARDIKAKMDK 173

>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 = 60.1 bits (144), Expect = 2e-12
 Identities = 52/156 (33%), Positives = 85/156 (54%), Gaps = 9/156 (5%)

Query: 15  KTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWE 74
           KT   T +  +        G   + ++PTVG N+ +I   N  +  WD+GGQP  RS+WE
Sbjct: 15  KT---TFVNVI------ASGQFNEDMIPTVGFNMRKITKGNVTIKLWDIGGQPRFRSMWE 65

Query: 75  KYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADEL 134
           +Y     A+V+++DAA   + E SK  L  +L    LQG P+L+L NK+DLP A+   EL
Sbjct: 66  RYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALDEKEL 125

Query: 135 ARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE 170
              ++L  + +R     ++S  +   I  +++WL++
Sbjct: 126 IEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQ 161

>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 = 59.4 bits (143), Expect = 5e-12
 Identities = 34/152 (22%), Positives = 52/152 (34%), Gaps = 10/152 (6%)

Query: 28  VYSNVEGLPPDRIVPTVGLNIGRIEVS----NSKLVFWDLGGQPGLRSIWEKYYEEAHAV 83
           +   VE       + T+G++     V       KL  WD  GQ   R+I   YY  A  +
Sbjct: 19  LVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGI 78

Query: 84  VFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKL 143
           + V D      F + K    K +       A LL++ NK D+   V   +          
Sbjct: 79  ILVYDITDERTFTNIKQW-FKTVNEHANDEAQLLLVGNKSDMETRVVTADQGE----ALA 133

Query: 144 DERVCMFEAVSGYDGFGIKESVEWLV-EVMER 174
            E    F   S  +   + E    L   + E+
Sbjct: 134 KELGIPFIESSAKNDDNVNEIFFTLAKLIQEK 165

>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 = 58.6 bits (140), Expect = 9e-12
 Identities = 42/138 (30%), Positives = 67/138 (48%), Gaps = 7/138 (5%)

Query: 40  IVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSK 99
           + PT       + + N K   +DLGG    R +W+ Y+ E + +VF++DAA P RF++++
Sbjct: 28  LQPTWHPTSEELAIGNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERFDEAR 87

Query: 100 TALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKL-------DERVCMFEA 152
             L+ +    +L+  P +IL NK D P+AVS  EL   L L           +R      
Sbjct: 88  VELDALFNIAELKDVPFVILGNKIDAPNAVSEAELRSALGLLNTTGSQRIEGQRPVEVFM 147

Query: 153 VSGYDGFGIKESVEWLVE 170
            S     G  E+ +WL +
Sbjct: 148 CSVVMRNGYLEAFQWLSQ 165

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 194

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 57.9 bits (139), Expect = 2e-11
 Identities = 31/154 (20%), Positives = 57/154 (37%), Gaps = 8/154 (5%)

Query: 32  VEGLPPDRIVPTVGLNIGRIEVS----NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVI 87
            +    +  + T+G++     V       KL  WD  GQ   R+I   YY  +H ++ V 
Sbjct: 27  SDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVY 86

Query: 88  DAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERV 147
           D      F   K  L+++ R         L++ NK DL D    +             ++
Sbjct: 87  DVTDQESFNGVKMWLQEIDRYAT-STVLKLLVGNKCDLKDKRVVEYDVAKEFAD--ANKM 143

Query: 148 CMFEAVSGYDGFGIKESVEWLVEVMERSKRTEML 181
              E  S  D   ++++   +   ++ S   + L
Sbjct: 144 PFLE-TSALDSTNVEDAFLTMARQIKESMSQQNL 176

>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 = 55.1 bits (131), Expect = 2e-10
 Identities = 49/191 (25%), Positives = 78/191 (40%), Gaps = 32/191 (16%)

Query: 5   FYGLWKYIFT----------KTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVS 54
           F GL+K              KT   TLL  LK            + VPT+      + ++
Sbjct: 6   FLGLYKKTGKLVFLGLDNAGKT---TLLHMLKDDR-------LGQHVPTLHPTSEELTIA 55

Query: 55  NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGA 114
                 +DLGG    R +W+ Y    + +VF++D A   R  +SK  L+ ++ +E +   
Sbjct: 56  GMTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANV 115

Query: 115 PLLILANKQDLPDAVSADELARYLDL------------KKLDERVCMFEAVSGYDGFGIK 162
           P+LIL NK D P+A+S + L     L            K+L+ R       S     G  
Sbjct: 116 PILILGNKIDRPEAISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYG 175

Query: 163 ESVEWLVEVME 173
           E   W+ + ++
Sbjct: 176 EGFRWMAQYID 186

>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 = 54.9 bits (131), Expect = 2e-10
 Identities = 28/119 (23%), Positives = 44/119 (36%), Gaps = 5/119 (4%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           KL  WD  GQ   R+I   YY  A   + + D      F   +    ++        A +
Sbjct: 55  KLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSW-DNAQV 113

Query: 117 LILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE-VMER 174
           L++ NK D+ D               L      F   S  D   +K++ E LV+ + E+
Sbjct: 114 LLVGNKCDMEDERVVSSERGRQLADHLG---FEFFEASAKDNINVKQTFERLVDVICEK 169

>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 = 54.1 bits (129), Expect = 4e-10
 Identities = 26/118 (22%), Positives = 46/118 (38%), Gaps = 4/118 (3%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           KL  WD  GQ   RS+   YY +AHA++ + D    + F++ +  L ++        A +
Sbjct: 57  KLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALM 116

Query: 117 LILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMER 174
           L+        + V   E    L      E    F   S   G  +  +   + + ++R
Sbjct: 117 LLGNKVDSAHERVVKREDGEKL----AKEYGLPFMETSAKTGLNVDLAFTAIAKELKR 170

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 54.1 bits (129), Expect = 5e-10
 Identities = 32/161 (19%), Positives = 60/161 (37%), Gaps = 10/161 (6%)

Query: 15  KTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWE 74
           K+   +LL +        +      I     +    ++ + +KL  WD  GQ   R++  
Sbjct: 20  KS---SLLLRF--TDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTP 74

Query: 75  KYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADEL 134
            YY  A  V+ V D      F      L ++           +++ NK D  +     E+
Sbjct: 75  SYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKENR----EV 130

Query: 135 ARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLV-EVMER 174
            R   LK   +   +F   S     G++ + E LV ++++ 
Sbjct: 131 DRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQT 171

>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 = 53.9 bits (128), Expect = 8e-10
 Identities = 35/125 (28%), Positives = 56/125 (44%), Gaps = 7/125 (5%)

Query: 41  VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSI----WEKYYEEAHAVVFVIDAACPSRF- 95
             ++  +    +V+N++     L   PG  S+     +++   A AVVFV+D+A   R  
Sbjct: 29  QTSITDSSAIYKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDSAAFQREV 88

Query: 96  EDSKTALEKVLRNEDLQGA--PLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAV 153
           +D    L +VL +         LLI  NKQD+  A SA  + + L+ +    RV    A 
Sbjct: 89  KDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAKLIQQQLEKELNTLRVTRSAAP 148

Query: 154 SGYDG 158
           S  D 
Sbjct: 149 STLDS 153

>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 = 52.6 bits (125), Expect = 2e-09
 Identities = 28/140 (20%), Positives = 59/140 (42%), Gaps = 4/140 (2%)

Query: 40  IVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSK 99
           +    G N    +     L  WD  GQ   RS+   ++ +A   + + D      F + +
Sbjct: 48  VYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVR 107

Query: 100 TALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGF 159
             + ++  N   +   ++++ NK DLPD    +E       +  D+    +   S   G 
Sbjct: 108 NWMSQLQANAYCENPDIVLIGNKADLPDQREVNE---RQARELADKYGIPYFETSAATGQ 164

Query: 160 GIKESVEWLV-EVMERSKRT 178
            ++++VE L+  +M+R ++ 
Sbjct: 165 NVEKAVETLLDLIMKRMEQC 184

>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 = 49.9 bits (118), Expect = 2e-08
 Identities = 23/134 (17%), Positives = 53/134 (39%), Gaps = 23/134 (17%)

Query: 15  KTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWE 74
           K+   T L++++ ++            PT G++    E+ N      D+GGQ   R  W 
Sbjct: 15  KS---TFLKQMRIIHG---------QDPTKGIHEYDFEIKNVPFKMVDVGGQRSERKRWF 62

Query: 75  KYYEEAHAVVFVIDAACPSRF----------EDSKTALEKVLRNEDLQGAPLLILANKQ- 123
           + ++   +++F++ ++   +            +S    E ++ N       +++  NK  
Sbjct: 63  ECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTD 122

Query: 124 DLPDAVSADELARY 137
            L + V    +  Y
Sbjct: 123 LLEEKVQVVSIKDY 136

>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 = 49.1 bits (116), Expect = 2e-08
 Identities = 26/126 (20%), Positives = 44/126 (34%), Gaps = 5/126 (3%)

Query: 55  NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGA 114
             KL  WD  GQ   RS+   YY  A   + V D      +      L         Q  
Sbjct: 53  YVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLAS-QNI 111

Query: 115 PLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLV-EVME 173
            +++  NK+DL        L      ++ +    MF   S   G  ++E+      +++ 
Sbjct: 112 VIILCGNKKDLDADREVTFLEASRFAQENE---LMFLETSALTGENVEEAFVQCARKILN 168

Query: 174 RSKRTE 179
           + +  E
Sbjct: 169 KIESGE 174

>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 = 49.1 bits (116), Expect = 3e-08
 Identities = 25/120 (20%), Positives = 47/120 (39%), Gaps = 4/120 (3%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           K   WD  GQ   R I   YY  A   + V D A    +E+ +  L+++  + D     +
Sbjct: 54  KAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHAD-SNIVI 112

Query: 117 LILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSK 176
           +++ NK DL    +             ++    F   S  D   ++E+ + ++  + R  
Sbjct: 113 MLVGNKSDLRHLRAVPTDEAR---AFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIV 169

>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 = 47.9 bits (113), Expect = 7e-08
 Identities = 27/150 (18%), Positives = 55/150 (36%), Gaps = 9/150 (6%)

Query: 32  VEGLPPDRIVPTVGLNIGRIEVS----NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVI 87
            +GL P     T+G++     V       KL  WD  GQ   RSI + YY  A+A++   
Sbjct: 26  TQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTY 85

Query: 88  DAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERV 147
           D  C   F      L ++ +    +   +L+            + + A     +  + + 
Sbjct: 86  DITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAE----EFSEAQD 141

Query: 148 CMFEAVSGYDGFGIKESVEWLV-EVMERSK 176
             +   S  +   +++    L   ++  ++
Sbjct: 142 MYYLETSAKESDNVEKLFLDLACRLISEAR 171

>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 = 46.9 bits (110), Expect = 2e-07
 Identities = 21/116 (18%), Positives = 40/116 (34%), Gaps = 4/116 (3%)

Query: 60  FWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLIL 119
             D  GQ    +I + Y+      + V        F  +    E++LR ++ +  P L++
Sbjct: 56  ILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLV 115

Query: 120 ANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLV-EVMER 174
            NK DL D              + +     +   S      + +    L+ E+  R
Sbjct: 116 GNKSDLEDKRQVSVEEAKNRADQWN---VNYVETSAKTRANVDKVFFDLMREIRAR 168

>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 = 46.6 bits (109), Expect = 2e-07
 Identities = 50/138 (36%), Positives = 78/138 (56%), Gaps = 1/138 (0%)

Query: 40  IVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSK 99
            +PT+G N+  +   N K   WDLGG   +R  W  YY    AV++V+D+    R   SK
Sbjct: 33  TIPTIGFNVETVTYKNLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISK 92

Query: 100 TALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGF 159
           + L  +L  E+L+ A L++ ANKQD+  A+++ E+A  L L  L +R       S   G 
Sbjct: 93  SELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGT 152

Query: 160 GIKESVEWLVEVMERSKR 177
           G+ E++EWLVE + +S++
Sbjct: 153 GLDEAMEWLVETL-KSRQ 169

>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 = 46.0 bits (108), Expect = 4e-07
 Identities = 24/119 (20%), Positives = 40/119 (33%), Gaps = 5/119 (4%)

Query: 60  FWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLIL 119
            WD  GQ   RSI   YY  A   + V D      F    + LE   R        ++++
Sbjct: 56  IWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLED-ARQHSSSNMVIMLI 114

Query: 120 ANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLV-EVMERSKR 177
            NK DL               ++      +F   S      ++E+      E+  + ++
Sbjct: 115 GNKSDLESRRDVKREEGEAFAREHG---LIFMETSAKTACNVEEAFINTAKEIYRKIQQ 170

>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 = 46.1 bits (108), Expect = 4e-07
 Identities = 27/193 (13%), Positives = 67/193 (34%), Gaps = 44/193 (22%)

Query: 15  KTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWE 74
           K+   T +++++ ++ +         VPT G+     ++ +      D+GGQ   R  W 
Sbjct: 15  KS---TFIKQMRIIHGS--------GVPTTGIIEYPFDLQSVIFRMVDVGGQRSERRKWI 63

Query: 75  KYYEEAHAVVFVIDAACPSR----------FEDSKTALEKVLRNEDLQGAPLLILAN-KQ 123
             +E   +++F++  +   +           E+SK     ++     Q + +++  N K 
Sbjct: 64  HCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKD 123

Query: 124 DLPDAVSADELARY----------------------LDLKKLDERVCMFEAVSGYDGFGI 161
            L + +    L  Y                      +DL    +++         D   I
Sbjct: 124 LLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENI 183

Query: 162 KESVEWLVEVMER 174
           +     + + + +
Sbjct: 184 RFVFAAVKDTILQ 196

>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 = 43.0 bits (100), Expect = 4e-06
 Identities = 24/142 (16%), Positives = 48/142 (33%), Gaps = 6/142 (4%)

Query: 32  VEGLPPDRIVPTVGLNIGRIEVSNSKLVFW---DLGGQPGLRSIWEKYYEEAHAVVFVID 88
           V G   ++  PT+     +    +S        D  G     S+ + Y +     + V  
Sbjct: 24  VTGTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYS 83

Query: 89  AACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVC 148
                 F+D K   ++++R +  +  P++++ NK DL               ++     C
Sbjct: 84  LVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWG---C 140

Query: 149 MFEAVSGYDGFGIKESVEWLVE 170
            F   S      + E    +V 
Sbjct: 141 PFMETSAKSKTMVDELFAEIVR 162

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]} Length = 400

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 42.8 bits (100), Expect = 8e-06
 Identities = 25/185 (13%), Positives = 57/185 (30%), Gaps = 27/185 (14%)

Query: 20  TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEE 79
           + +  L+ + +  EG     +V            +   +VFWDL G        + Y E+
Sbjct: 71  SFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIPNVVFWDLPGIGSTNFPPDTYLEK 130

Query: 80  AHAVVFVIDAACPS-RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYL 138
                +       + RF+ +   + K +            +  K D      AD   +  
Sbjct: 131 MKFYEYDFFIIISATRFKKNDIDIAKAISM---MKKEFYFVRTKVDSDITNEADGEPQTF 187

Query: 139 DLKKL------------------DERVCMFEAVSGYD--GFGIKESVEWLVEVMERSKRT 178
           D +K+                  +  + +   +S  +   +     ++ L+  +   KR 
Sbjct: 188 DKEKVLQDIRLNCVNTFRENGIAEPPIFL---LSNKNVCHYDFPVLMDKLISDLPIYKRH 244

Query: 179 EMLRA 183
             + +
Sbjct: 245 NFMVS 249

>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 = 42.0 bits (97), Expect = 8e-06
 Identities = 24/111 (21%), Positives = 45/111 (40%), Gaps = 1/111 (0%)

Query: 60  FWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLIL 119
            WD  GQ    S+   YY  A A + V D   P  F  ++  ++++      +   + ++
Sbjct: 56  IWDTAGQERFASLAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQAS-KDIIIALV 114

Query: 120 ANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE 170
            NK D+       ++AR    K  +E+  +F   S   G  + +    + E
Sbjct: 115 GNKIDMLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGE 165

>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 = 41.8 bits (97), Expect = 1e-05
 Identities = 23/114 (20%), Positives = 40/114 (35%), Gaps = 4/114 (3%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
           KL  WD  GQ   R++   YY  A   + V D    S +    + L    RN       +
Sbjct: 54  KLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTD-ARNLTNPNTVI 112

Query: 117 LILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE 170
           +++ NK DL               ++      +F   S   G  ++++     +
Sbjct: 113 ILIGNKADLEAQRDVTYEEAKQFAEENG---LLFLEASAKTGENVEDAFLEAAK 163

>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 = 41.9 bits (97), Expect = 1e-05
 Identities = 26/116 (22%), Positives = 45/116 (38%), Gaps = 4/116 (3%)

Query: 55  NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGA 114
             +L  WD  GQ   RS+   Y  ++ A V V D    + F+ +   ++ V         
Sbjct: 48  TIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERG-SDV 106

Query: 115 PLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE 170
            ++++ NK DL D             K+L+    MF   S   G+ +K+    +  
Sbjct: 107 IIMLVGNKTDLADKRQVSIEEGERKAKELN---VMFIETSAKAGYNVKQLFRRVAA 159

>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 = 41.5 bits (96), Expect = 1e-05
 Identities = 26/146 (17%), Positives = 53/146 (36%), Gaps = 7/146 (4%)

Query: 32  VEGLPPDRIVPTVGLNIGRIEVSNSK---LVFWDLGGQPGLRSIWEKYYEEAHAVVFVID 88
           ++    D   PT+  +  +  V + +   L   D  GQ    ++ ++Y       + V  
Sbjct: 24  IQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFA 83

Query: 89  AACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVC 148
                 FED     E++ R +D    P++++ NK DL         A+            
Sbjct: 84  INNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQ----DLARSYGI 139

Query: 149 MFEAVSGYDGFGIKESVEWLVEVMER 174
            +   S     G++++   LV  + +
Sbjct: 140 PYIETSAKTRQGVEDAFYTLVREIRQ 165

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]} Length = 273

class: 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]

 Score = 41.7 bits (97), Expect = 2e-05
 Identities = 21/123 (17%), Positives = 40/123 (32%), Gaps = 8/123 (6%)

Query: 68  GLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD 127
             R + EK  +    V  ++DA  P    +    +E +L+N+     P ++L NK D  D
Sbjct: 5   ARREVTEKL-KLIDIVYELVDARIPMSSRNP--MIEDILKNK-----PRIMLLNKADKAD 56

Query: 128 AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSKRTEMLRARAGA 187
           A    +   + + + +           G +            +      +    RA    
Sbjct: 57  AAVTQQWKEHFENQGIRSLSINSVNGQGLNQIVPASKEILQEKFDRMRAKGVKPRAIRAL 116

Query: 188 STG 190
             G
Sbjct: 117 IIG 119

>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 = 40.4 bits (93), Expect = 3e-05
 Identities = 28/146 (19%), Positives = 55/146 (37%), Gaps = 5/146 (3%)

Query: 32  VEGLPPDRIVPTVGLNIGRIEVSNSKLV---FWDLGGQPGLRSIWEKYYEEAHAVVFVID 88
           V+G+  ++  PT+  +  +    + +       D  G     ++ + Y +       V  
Sbjct: 24  VQGIFVEKYDPTIEDSYRKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYS 83

Query: 89  AACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVC 148
               S F D +   E++LR +D +  P++++ NK DL D     +       ++     C
Sbjct: 84  ITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCN--C 141

Query: 149 MFEAVSGYDGFGIKESVEWLVEVMER 174
            F   S      + E    LV  + R
Sbjct: 142 AFLESSAKSKINVNEIFYDLVRQINR 167

>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 = 39.9 bits (92), Expect = 5e-05
 Identities = 19/134 (14%), Positives = 45/134 (33%), Gaps = 25/134 (18%)

Query: 15  KTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWE 74
           K+   T+++++K ++               G+        +     +D+GGQ   R  W 
Sbjct: 15  KS---TIVKQMKIIH-----------EAGTGIVETHFTFKDLHFKMFDVGGQRSERKKWI 60

Query: 75  KYYEEAHAVVFVIDA----------ACPSRFEDSKTALEKVLRNEDLQGAPLLILAN-KQ 123
             +E   A++F +               +R  +S    + +  N+      +++  N K 
Sbjct: 61  HCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKD 120

Query: 124 DLPDAVSADELARY 137
              + +    L   
Sbjct: 121 LFEEKIKKSPLTIC 134

>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 = 37.7 bits (86), Expect = 3e-04
 Identities = 21/117 (17%), Positives = 39/117 (33%), Gaps = 3/117 (2%)

Query: 60  FWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLIL 119
             D  GQ    ++ E+Y    H  + V        F +      ++LR +D    P++++
Sbjct: 58  ILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLV 117

Query: 120 ANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSK 176
            NK DL                        +   S      + E+ E LV  + + +
Sbjct: 118 GNKADLESQRQVPRSEASAFGASHH---VAYFEASAKLRLNVDEAFEQLVRAVRKYQ 171

>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 = 37.2 bits (85), Expect = 4e-04
 Identities = 23/117 (19%), Positives = 41/117 (35%), Gaps = 6/117 (5%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVV---FVIDAACPSRFEDSKTALEKVLRNEDLQG 113
            +  WD  GQ   RS+   +Y  +   +    V D+       + K         ++ + 
Sbjct: 56  TMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPES 115

Query: 114 APLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE 170
            P +IL NK D+ +   + E A+       D     +   S  D   +  + E  V 
Sbjct: 116 FPFVILGNKIDISERQVSTEEAQAWCRDNGD---YPYFETSAKDATNVAAAFEEAVR 169

>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 = 37.3 bits (85), Expect = 4e-04
 Identities = 22/116 (18%), Positives = 40/116 (34%), Gaps = 4/116 (3%)

Query: 60  FWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLIL 119
            WD  GQ    S+   YY  A A + V D      F  +K  ++++ R        + + 
Sbjct: 59  IWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQAS-PNIVIALS 117

Query: 120 ANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS 175
            NK DL +  + D                +F   S      + E    + + + ++
Sbjct: 118 GNKADLANKRAVDFQEAQSYADDNS---LLFMETSAKTSMNVNEIFMAIAKKLPKN 170

>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 = 36.2 bits (82), Expect = 0.001
 Identities = 30/157 (19%), Positives = 62/157 (39%), Gaps = 11/157 (7%)

Query: 32  VEGLPPDRIVPTVGLNIGRIEVSNS----KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVI 87
           V     ++   T+G +    EV        +  WD  GQ   +S+   +Y  A   V V 
Sbjct: 23  VNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVF 82

Query: 88  DAACPSRFEDSKTALEKVLRN---EDLQGAPLLILANKQDLPDAVSADELARYLDLKKLD 144
           D   P+ F+   +  ++ L      D +  P ++L NK DL +   A + A+     K +
Sbjct: 83  DVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVATKRAQAWCYSKNN 142

Query: 145 ERVCMFEAVSGYDGFGIKESVEWLV-EVMERSKRTEM 180
                +   S  +   ++++ + +    +++    E+
Sbjct: 143 ---IPYFETSAKEAINVEQAFQTIARNALKQETEVEL 176

>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 = 36.2 bits (82), Expect = 0.001
 Identities = 26/122 (21%), Positives = 50/122 (40%), Gaps = 5/122 (4%)

Query: 59  VFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRN---EDLQGAP 115
             WD  GQ   +S+   +Y  A   V V D    S FE+ K+  ++ L +      +  P
Sbjct: 55  QVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFP 114

Query: 116 LLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLV-EVMER 174
            +IL NK D  ++          +L K    + +F   S  +   +  + E +    +++
Sbjct: 115 FVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFL-TSAKNAINVDTAFEEIARSALQQ 173

Query: 175 SK 176
           ++
Sbjct: 174 NQ 175

>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 = 35.7 bits (81), Expect = 0.001
 Identities = 24/118 (20%), Positives = 41/118 (34%), Gaps = 5/118 (4%)

Query: 57  KLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPL 116
            L  WD  GQ    ++   YY +++  + V D      F+  K  ++++ R        L
Sbjct: 53  NLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKEL-RKMLGNEICL 111

Query: 117 LILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLV-EVME 173
            I+ NK DL               + +          S     GI+E    L   ++E
Sbjct: 112 CIVGNKIDLEKERHVSIQEAESYAESVG---AKHYHTSAKQNKGIEELFLDLCKRMIE 166

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	192
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.96
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.95
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	99.95
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.95
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	99.95
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.95
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	99.95
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.94
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	99.94
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.94
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.94
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.94
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.94
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.94
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.94
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.94
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.94
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	99.94
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.94
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.94
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	99.94
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.93
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.93
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.93
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.93
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.93
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.93
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.93
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.93
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.93
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.93
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.93
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.92
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.92
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.92
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.92
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.92
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.92
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.91
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.91
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.91
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.91
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.9
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.9
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.9
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.9
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.9
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.88
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.85
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.84
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.81
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.78
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.78
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.77
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.77
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.76
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.76
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.76
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.76
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.75
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.67
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.67
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.67
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.66
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.64
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.63
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.61
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.6
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.56
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.56
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.55
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.53
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	99.45
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	99.36
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	99.35
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.24
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	99.24
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	99.19
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	99.17
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	98.98
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	98.94
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	98.82
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.69
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	98.48
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	98.4
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.31
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	97.98
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	97.97
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	97.95
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	97.88
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	97.73
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	97.45
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	96.56
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	96.52
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	93.34
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	92.7
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	92.13
d2qy9a2	211	GTPase domain of the signal recognition particle r	89.89
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	89.73
d1vmaa2	213	GTPase domain of the signal recognition particle r	88.69
d1j8yf2	211	GTPase domain of the signal sequence recognition p	85.57
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	83.79
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	83.49

>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=99.96  E-value=1.1e-27  Score=169.87  Aligned_cols=148  Identities=34%  Similarity=0.660  Sum_probs=130.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS   93 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~   93 (192)
                      |||++++|    ..      +.+...+.||+|.++..++.+.+.+.+||+||++.+...+..++..++++++|+|+++.+
T Consensus        15 KTsLl~~l----~~------~~~~~~~~~T~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~   84 (164)
T d1zd9a1          15 KTTFVNVI----AS------GQFNEDMIPTVGFNMRKITKGNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQE   84 (164)
T ss_dssp             HHHHHHHH----HH------SCCCCSCCCCCSEEEEEEEETTEEEEEEEECCSHHHHTTHHHHHTTCSEEEEEEETTCGG
T ss_pred             HHHHHHHH----Hc------CCCCCcccccceeeeeeeeeeeEEEEEeeccccccccccccccccccchhhccccccccc
Confidence            55555554    44      556778899999999999999999999999999999999999999999999999999999


Q ss_pred             cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHH
Q 029517           94 RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEV  171 (192)
Q Consensus        94 s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~  171 (192)
                      +++++..|+..+.+.....++|+++|+||.|+.+.....++.+.+........+++++++||++|.||+++|+||++.
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~pi~lv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e~~~~l~~~  162 (164)
T d1zd9a1          85 KIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALDEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQH  162 (164)
T ss_dssp             GHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHT
T ss_pred             ccchhhhhhhhhhhhhcccCCcEEEEEeccccchhhhHHHHHHHHHHHHHHhCCCEEEEEeCcCCcCHHHHHHHHHHc
Confidence            999999999999877655789999999999998877888888888766666778999999999999999999999874

>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=99.95  E-value=2.2e-27  Score=168.33  Aligned_cols=150  Identities=34%  Similarity=0.627  Sum_probs=129.1

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS   93 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~   93 (192)
                      |||++|+|    .+       ...+.+.||.|.....+..+++.+.+||+||++.++..+..+++.++++++|+|+++..
T Consensus        15 KTsLi~~l----~~-------~~~~~~~~t~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~d~~   83 (165)
T d1ksha_          15 KTTILKKF----NG-------EDVDTISPTLGFNIKTLEHRGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQ   83 (165)
T ss_dssp             HHHHHHHH----TT-------CCCSSCCCCSSEEEEEEEETTEEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTCGG
T ss_pred             HHHHHHHH----cC-------CCCCcccceEeeeeeeccccccceeeeecCcchhhhhHHHhhhhhhhcceeeeecccch
Confidence            56666654    32       23466799999999999999999999999999999999999999999999999999999


Q ss_pred             cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517           94 RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus        94 s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      ++..+..++..........+.|+++|+||+|+.+....++....+.+..+...++++++|||++|.||+++|+||.+++.
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~~i~  163 (165)
T d1ksha_          84 RMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDIS  163 (165)
T ss_dssp             GHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             hHHHHHHhhhhhhhhcccCCCceEEEEeccccccccCHHHHHHHHHhhhhhcCCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            99999888888776555578999999999999988888888887765555567889999999999999999999999876


Q ss_pred             h
Q 029517          174 R  174 (192)
Q Consensus       174 ~  174 (192)
                      +
T Consensus       164 ~  164 (165)
T d1ksha_         164 S  164 (165)
T ss_dssp             T
T ss_pred             c
Confidence            4

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=99.95  E-value=5.6e-28  Score=172.18  Aligned_cols=136  Identities=18%  Similarity=0.261  Sum_probs=116.5

Q ss_pred             CCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCC
Q 029517           34 GLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNED  110 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~  110 (192)
                      +.+.+.|.||+|.++..   +++..+.+.+||++|++.+...+..+++++|++++|||+++..+++.+..|+..+.+...
T Consensus        27 ~~f~~~~~~T~~~~~~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~  106 (168)
T d1u8za_          27 DEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKE  106 (168)
T ss_dssp             SCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHC
T ss_pred             CCCCcccCCccccccccccccccccccccccccccccchhhhhhhcccccceeEEEeeccchhhhhhHHHHHHHHHHhhC
Confidence            56788889999988764   344568999999999999999999999999999999999999999999999999987654


Q ss_pred             CCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          111 LQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       111 ~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      ..++|+++|+||+|+.+  +++.+++.++++     ..++++++|||++|.||+++|++|++.+..
T Consensus       107 ~~~~piiivgnK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~e~Sak~g~gv~e~f~~l~~~i~~  167 (168)
T d1u8za_         107 DENVPFLLVGNKSDLEDKRQVSVEEAKNRAD-----QWNVNYVETSAKTRANVDKVFFDLMREIRA  167 (168)
T ss_dssp             CTTSCEEEEEECGGGGGGCCSCHHHHHHHHH-----HHTCEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             CCCCcEEEEeccccccccccccHHHHHHHHH-----HcCCeEEEEcCCCCcCHHHHHHHHHHHHHC
Confidence            46899999999999866  577888888887     557899999999999999999999988754

>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=99.95  E-value=6.2e-28  Score=173.91  Aligned_cols=166  Identities=36%  Similarity=0.671  Sum_probs=135.4

Q ss_pred             hhhHHHHhhhhcc-ccHH------------HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCccc
Q 029517            3 SLFYGLWKYIFTK-TEFH------------TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGL   69 (192)
Q Consensus         3 ~~~~~~~~~~~ks-t~~~------------~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~   69 (192)
                      ++|+++++.++.+ .-++            ||++++..      +. ...+.||.|........+.+++.+||+||++.+
T Consensus         2 ~~~~~~~~~l~~~~k~~KI~lvG~~~vGKTsLi~~l~~------~~-~~~~~~t~~~~~~~~~~~~~~~~i~D~~g~~~~   74 (182)
T d1moza_           2 NIFSSMFDKLWGSNKELRILILGLDGAGKTTILYRLQI------GE-VVTTKPTIGFNVETLSYKNLKLNVWDLGGQTSI   74 (182)
T ss_dssp             HHHHHHHGGGTTCSSCEEEEEEEETTSSHHHHHHHTCC------SE-EEEECSSTTCCEEEEEETTEEEEEEEEC----C
T ss_pred             hhHHHHHHHHhCCCceEEEEEECCCCCCHHHHHHHHhc------CC-CCccccccceEEEEEeeCCEEEEEEeccccccc
Confidence            5677887655332 1122            77777764      33 344578999999889999999999999999999


Q ss_pred             HHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceE
Q 029517           70 RSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCM  149 (192)
Q Consensus        70 ~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  149 (192)
                      +..+..+++.++++++|+|+++..++.++..|+..+.......+.|+++++||+|+....+.+++.+.+.+..+...+++
T Consensus        75 ~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~  154 (182)
T d1moza_          75 RPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGALSASEVSKELNLVELKDRSWS  154 (182)
T ss_dssp             CTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTCCCHHHHHHHTTTTTCCSSCEE
T ss_pred             chhHHhhhccceeEEEEeeecccccchhHHHHHHHHHHhhccCCcceEEEEEeeccccccCHHHHHHHHHHHHHhhCCCE
Confidence            99999999999999999999999999999999988877655578999999999999988888888888776666677899


Q ss_pred             EEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          150 FEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       150 ~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                      +++|||++|+||+++|+||.+.+.+.
T Consensus       155 ~~e~SA~~g~gv~e~~~~l~~~i~~~  180 (182)
T d1moza_         155 IVASSAIKGEGITEGLDWLIDVIKEE  180 (182)
T ss_dssp             EEEEBGGGTBTHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            99999999999999999999988653

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.95  E-value=9.1e-28  Score=171.05  Aligned_cols=133  Identities=20%  Similarity=0.231  Sum_probs=101.7

Q ss_pred             CCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCc
Q 029517           39 RIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAP  115 (192)
Q Consensus        39 ~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~p  115 (192)
                      .+.||.+..+..   +++..+.+.+||++|++.+...+..+++++|++|+|||++++.+++.+..|+..+.......++|
T Consensus        28 ~~~~~~~~~~~~~i~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv~d~t~~~s~~~~~~~~~~i~~~~~~~~~p  107 (168)
T d2gjsa1          28 PEAEAAGHTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVP  107 (168)
T ss_dssp             ------CEEEEEEEEETTEEEEEEEEECC-------CHHHHHTSCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC--CCC
T ss_pred             CcCCeeeeeecceeeccccccceeeeecccccccceecccchhhhhhhceeccccccccccccccccchhhcccccccce
Confidence            345666665542   33456899999999999999999999999999999999999999999999999988765556789


Q ss_pred             EEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhcc
Q 029517          116 LLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       116 iiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~~  176 (192)
                      +++|+||+|+..  +++.+++.++++     ..++++++|||++|.||+++|++|++.+...+
T Consensus       108 iilvgnK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~e~Sak~~~~v~~~f~~l~~~i~~~~  165 (168)
T d2gjsa1         108 IILVGNKSDLVRSREVSVDEGRACAV-----VFDCKFIETSAALHHNVQALFEGVVRQIRLRR  165 (168)
T ss_dssp             EEEEEECTTCGGGCCSCHHHHHHHHH-----HHTSEEEECBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             EEEeecccchhhhcchhHHHHHHHHH-----hcCCEEEEEeCCCCcCHHHHHHHHHHHHHHHh
Confidence            999999999876  567778887776     56789999999999999999999999876544

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.95  E-value=3.7e-28  Score=173.44  Aligned_cols=136  Identities=16%  Similarity=0.346  Sum_probs=114.3

Q ss_pred             CCCCCCCCCCcceEEEEEE----ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCC
Q 029517           34 GLPPDRIVPTVGLNIGRIE----VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNE  109 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~~~----~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~  109 (192)
                      +.+.+.|.||+|.++....    +..+.+.+||++|++.+...+..++++++++++|||++++++|+.+..|+..+.+..
T Consensus        26 ~~f~~~~~~Ti~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~  105 (170)
T d1i2ma_          26 GEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC  105 (170)
T ss_dssp             ----CCEEEETTEEEEEEEECBTTCCEEEEEEECTTHHHHSSCGGGGTTTCCEEEEEEETTSGGGGTTHHHHHHHHHHHH
T ss_pred             CCCCcccccceeccccccccccccccccccccccccccccceecchhcccccchhhccccccccccchhHHHHHHHhhcc
Confidence            6677888999998877533    246899999999999988889999999999999999999999999999999988754


Q ss_pred             CCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhcc
Q 029517          110 DLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~~  176 (192)
                        .++|+++|+||+|+......++...++.     ..+++++++||++|.||+++|++|.+.+.+..
T Consensus       106 --~~~piilvgnK~Dl~~~~~~~~~~~~~~-----~~~~~~~e~Sak~~~~v~e~f~~l~~~l~~~~  165 (170)
T d1i2ma_         106 --ENIPIVLCGNKVDIKDRKVKAKSIVFHR-----KKNLQYYDISAKSNYNFEKPFLWLARKLIGDP  165 (170)
T ss_dssp             --CSCCEEEEEECCCCSCSCCTTTSHHHHS-----SCSSEEEEEBTTTTBTTTHHHHHHHHHHHTCT
T ss_pred             --CCCceeeecchhhhhhhhhhhHHHHHHH-----HcCCEEEEEeCCCCCCHHHHHHHHHHHHccCC
Confidence              5799999999999987555555556665     66789999999999999999999999887644

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.95  E-value=3e-27  Score=168.47  Aligned_cols=146  Identities=19%  Similarity=0.218  Sum_probs=123.1

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||+++++    ..      +.+.+.+.||.+..+..   ++...+.+.+||++|++.+...+..+++++|++++|||++
T Consensus        17 KTsll~~~----~~------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~llv~d~~   86 (169)
T d1x1ra1          17 KSALTIQF----FQ------KIFVPDYDPTIEDSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVT   86 (169)
T ss_dssp             HHHHHHHH----HH------SSCCTTCCTTCCEEEEEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEEEEETT
T ss_pred             HHHHHHHH----Hh------CCCCcccCcceeeccccccccccccccccccccccccccccchhhhhhhccEEEEecccc
Confidence            55555555    44      56677788999876653   3344688999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCC-CHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGF-GIKESVEW  167 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~-gi~e~~~~  167 (192)
                      ++++|+.+..|+..+.+.....+.|+++++||+|+..  .++.+++.++++     ..+++|+++||+++. ||+++|++
T Consensus        87 d~~Sf~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~v~~e~~~~~~~-----~~~~~~~e~Sak~~~~nV~~~F~~  161 (169)
T d1x1ra1          87 DKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMAT-----KYNIPYIETSAKDPPLNVDKTFHD  161 (169)
T ss_dssp             CHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHH-----HHTCCEEEEBCSSSCBSHHHHHHH
T ss_pred             cchhhhccchhhHHHHhhccccCccEEEEecccchhhhceeehhhHHHHHH-----HcCCEEEEEcCCCCCcCHHHHHHH
Confidence            9999999999999988765446899999999999876  577889988887     667899999999886 99999999


Q ss_pred             HHHHHHh
Q 029517          168 LVEVMER  174 (192)
Q Consensus       168 i~~~i~~  174 (192)
                      |++.+.+
T Consensus       162 l~~~i~~  168 (169)
T d1x1ra1         162 LVRVIRQ  168 (169)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            9998765

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=2.4e-27  Score=169.59  Aligned_cols=149  Identities=17%  Similarity=0.267  Sum_probs=123.2

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++++|    ..      +.+.+.+.||.+..+..   +++..+.+.+||++|++++...+..++++++++++|||++
T Consensus        19 KTsLi~r~----~~------~~f~~~~~~t~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~   88 (173)
T d2fn4a1          19 KSALTIQF----IQ------SYFVSDYDPTIEDSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAIN   88 (173)
T ss_dssp             HHHHHHHH----HH------SSCCSSCCTTCCEEEEEEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSEEEEEEETT
T ss_pred             HHHHHHHH----Hh------CCCCcccccccccceeeEeccCCeeeeeeccccccccccccccchhhccceeeeeecccc
Confidence            55555554    44      56777888887655442   3334688999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      ++.+++.+..|+..+.+.....+.|+++|+||+|+..  ....+++.++++     ..+++|++|||++|.||+++|++|
T Consensus        89 ~~~s~~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~e~Sak~g~gv~e~f~~l  163 (173)
T d2fn4a1          89 DRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGA-----SHHVAYFEASAKLRLNVDEAFEQL  163 (173)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHH-----HTTCEEEECBTTTTBSHHHHHHHH
T ss_pred             cccccchhhhhhHHHHHHhccCCCceEEEEEeechhhccccchhhhhHHHH-----hcCCEEEEEeCCCCcCHHHHHHHH
Confidence            9999999999999887654446899999999999865  566788888887     567899999999999999999999


Q ss_pred             HHHHHhcch
Q 029517          169 VEVMERSKR  177 (192)
Q Consensus       169 ~~~i~~~~~  177 (192)
                      ++.+.+.++
T Consensus       164 ~~~i~k~~~  172 (173)
T d2fn4a1         164 VRAVRKYQE  172 (173)
T ss_dssp             HHHHHHHTT
T ss_pred             HHHHHHHhc
Confidence            999876553

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=9.8e-28  Score=170.57  Aligned_cols=136  Identities=18%  Similarity=0.200  Sum_probs=117.9

Q ss_pred             CCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCC
Q 029517           34 GLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNED  110 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~  110 (192)
                      +.+.+.+.||++.++..   +++..+.+.+||++|.+.+..++..+++.+|++++|||++++++|+.+..|+..+.+...
T Consensus        27 ~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~  106 (167)
T d1xtqa1          27 GQFVDSYDPTIENTFTKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVG  106 (167)
T ss_dssp             SCCCSCCCSSCCEEEEEEEEETTEEEEEEEEECCCCCTTCCCCGGGTSSCCEEEEEEETTCHHHHHHHHHHHHHHHHHHC
T ss_pred             CCCCcccCcceecccceEEecCcEEEEeeecccccccccccccchhhhhhhhhhhhcccchhhhhhhhhhhhhhhhhccc
Confidence            56778889999998653   334567899999999999888888899999999999999999999999999999887544


Q ss_pred             CCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          111 LQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       111 ~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      ..++|+++|+||+|+..  .++.+++.++++     ..+++|++|||++|.||+++|+.|++.+.+
T Consensus       107 ~~~~piilvgnK~Dl~~~r~v~~~~~~~~a~-----~~~~~~~e~Sak~~~~v~~~f~~li~~~~K  167 (167)
T d1xtqa1         107 KVQIPIMLVGNKKDLHMERVISYEEGKALAE-----SWNAAFLESSAKENQTAVDVFRRIILEAEK  167 (167)
T ss_dssp             SSCCCEEEEEECTTCGGGCCSCHHHHHHHHH-----HHTCEEEECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             ccccceeeeccccccccccchhHHHHHHHHH-----HcCCEEEEEecCCCCCHHHHHHHHHHHhcC
Confidence            46899999999999865  578888888886     567899999999999999999999988753

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=4e-27  Score=167.40  Aligned_cols=144  Identities=20%  Similarity=0.332  Sum_probs=120.6

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE   96 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~   96 (192)
                      +|++|+..      +.|.+.|.||++..+..   .+...+.+.+||++|++.+...+..+++++|++|+|||++++.+|+
T Consensus        18 sli~r~~~------~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~sf~   91 (167)
T d1c1ya_          18 ALTVQFVQ------GIFVEKYDPTIEDSYRKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFN   91 (167)
T ss_dssp             HHHHHHHH------CCCCCSCCCCSEEEEEEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEEEETTCHHHHH
T ss_pred             HHHHHHHc------CCCCCccCCccccccceeEEeeeeEEEeccccccCcccccccccccccccceeEEeeeccchhhhH
Confidence            44445555      67888899999977763   2345689999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517           97 DSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus        97 ~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      .+..|+..+.+.....++|+++|+||+|+..  ....++..++++    ...++++++|||++|.||+++|++|++.+.
T Consensus        92 ~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~----~~~~~~~~e~Sak~g~gv~e~F~~l~~~i~  166 (167)
T d1c1ya_          92 DLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLAR----QWCNCAFLESSAKSKINVNEIFYDLVRQIN  166 (167)
T ss_dssp             THHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHH----HTTSCEEEECBTTTTBSHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHhcCCCCCeEEEEEEecCcccccccchhHHHHHHH----HhCCCEEEEEcCCCCcCHHHHHHHHHHHhc
Confidence            9999999988754446899999999999976  566666776665    234789999999999999999999998875

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.94  E-value=1e-26  Score=165.64  Aligned_cols=135  Identities=26%  Similarity=0.361  Sum_probs=114.6

Q ss_pred             CCCCCCCCCCcceEEEE--EEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCC
Q 029517           34 GLPPDRIVPTVGLNIGR--IEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNE  109 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~--~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~  109 (192)
                      +.+...+.||.|.+...  +..  ..+.+++|||||++++..++..+++++|++|+|||+++++++..+..|+..+....
T Consensus        28 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~wDt~G~e~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~  107 (169)
T d3raba_          28 DSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYS  107 (169)
T ss_dssp             SCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTTTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHC
T ss_pred             CCCCcccccccccceeeEEEEeecceEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECccchhhhhhhhhhhhhhccc
Confidence            56777888999877664  222  35789999999999999999999999999999999999999999999888776543


Q ss_pred             CCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          110 DLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                       ....|+++++||.|+.+  .++.+++.++++     ..++++++|||++|.||+++|++|++.+.+
T Consensus       108 -~~~~~iivv~nK~D~~~~~~v~~~~~~~~~~-----~~~~~~~e~Sak~g~gv~e~f~~l~~~i~e  168 (169)
T d3raba_         108 -WDNAQVLLVGNKCDMEDERVVSSERGRQLAD-----HLGFEFFEASAKDNINVKQTFERLVDVICE  168 (169)
T ss_dssp             -CSCCEEEEEEECTTCGGGCCSCHHHHHHHHH-----HHTCEEEECBTTTTBSHHHHHHHHHHHHHT
T ss_pred             -CCcceEEEEEeecccccccccchhhhHHHHH-----HcCCEEEEecCCCCcCHHHHHHHHHHHHhh
Confidence             25789999999999876  567788877776     557899999999999999999999998765

>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=99.94  E-value=3.4e-26  Score=163.69  Aligned_cols=134  Identities=37%  Similarity=0.700  Sum_probs=119.7

Q ss_pred             CCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEE
Q 029517           38 DRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLL  117 (192)
Q Consensus        38 ~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~pii  117 (192)
                      ..+.|+.|.....+..+++.+.+||++|++.++..+..+++.+|++++|||+++..++.++..++..+.......++|++
T Consensus        42 ~~~~~~~~~~~~~i~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~~~~~~~~~~~~~~pil  121 (176)
T d1fzqa_          42 SHITPTQGFNIKSVQSQGFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVL  121 (176)
T ss_dssp             EEEEEETTEEEEEEEETTEEEEEEECSSCGGGHHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCCEE
T ss_pred             CcceeeeeeeEEEeccCCeeEeEeeccccccchhHHHHHhhccceeEEeeccccccchhhhhhhhhhhhhhhccCCCeEE
Confidence            45578889988899999999999999999999999999999999999999999999999999999888776555689999


Q ss_pred             EEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHH
Q 029517          118 ILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEV  171 (192)
Q Consensus       118 iv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~  171 (192)
                      +++||+|+......+++.+.+.........+++++|||++|+||+|+|+||++.
T Consensus       122 lv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~gv~e~~~~l~~~  175 (176)
T d1fzqa_         122 IFANKQDLLTAAPASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKN  175 (176)
T ss_dssp             EEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHT
T ss_pred             EEEEeccccccccHHHHHHHHHHHHHHhcCCEEEEEeCCCCCCHHHHHHHHHhc
Confidence            999999999888888888777655556778999999999999999999999875

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=7.1e-27  Score=166.36  Aligned_cols=146  Identities=20%  Similarity=0.164  Sum_probs=118.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||+++++    ..      +.|.+.|.||+|.++..   .++..+.+++||++|++.+. ....++++++++++|||++
T Consensus        15 KTsli~r~----~~------~~f~~~~~pTi~~~~~~~~~~~~~~~~l~i~D~~g~~~~~-~~~~~~~~~~~~ilv~d~~   83 (168)
T d2atva1          15 KSALVVRF----LT------KRFIWEYDPTLESTYRHQATIDDEVVSMEILDTAGQEDTI-QREGHMRWGEGFVLVYDIT   83 (168)
T ss_dssp             HHHHHHHH----HH------SCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCCCCCH-HHHHHHHHCSEEEEEEETT
T ss_pred             HHHHHHHH----Hh------CCCCCccCCceeccccccccccccceEEEEeecccccccc-cchhhhcccccceeecccC
Confidence            55655555    44      56778899999998764   22345899999999998875 5567899999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCC-CHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGF-GIKESVEW  167 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~-gi~e~~~~  167 (192)
                      +++++..+..|...........+.|+++|+||+|+..  .++.+++.++++     ..+++|++|||++|. ||+++|.+
T Consensus        84 ~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~r~V~~~e~~~~a~-----~~~~~~~e~Saktg~gnV~e~F~~  158 (168)
T d2atva1          84 DRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLAT-----ELACAFYECSACTGEGNITEIFYE  158 (168)
T ss_dssp             CHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHH-----HHTSEEEECCTTTCTTCHHHHHHH
T ss_pred             CccchhhhhhhcccccccccccCcceeeeccchhhhhhccCcHHHHHHHHH-----HhCCeEEEEccccCCcCHHHHHHH
Confidence            9999999988876665543336899999999999965  678889888887     567899999999998 59999999


Q ss_pred             HHHHHHhc
Q 029517          168 LVEVMERS  175 (192)
Q Consensus       168 i~~~i~~~  175 (192)
                      |++.+.+.
T Consensus       159 l~~~i~~~  166 (168)
T d2atva1         159 LCREVRRR  166 (168)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99987643

>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=99.94  E-value=3.9e-26  Score=163.11  Aligned_cols=146  Identities=34%  Similarity=0.679  Sum_probs=126.7

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSK   99 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~   99 (192)
                      +|++|+..      +.+ ....||.|..........+.+.+||+||++.++..+..+++.++++++|+|+++.+++..+.
T Consensus        27 Sli~rl~~------~~~-~~~~~t~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~v~D~s~~~~~~~~~   99 (173)
T d1e0sa_          27 TILYKLKL------GQS-VTTIPTVGFNVETVTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDCADRDRIDEAR   99 (173)
T ss_dssp             HHHHHTTC------CCC-EEEEEETTEEEEEEEETTEEEEEEEESCCGGGHHHHGGGTTTCCEEEEEEETTCGGGHHHHH
T ss_pred             HHHHHHhc------CCC-CCccceeeeeEEEeeccceeeEEecCCCcchhhhHHHhhhcccceEEEEEecccchhHHHHH
Confidence            56666654      333 44578899998888888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517          100 TALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus       100 ~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                      .|+....+.....+.|+++++||+|+.+.....++.+.+.+..+...++.+++|||++|+||+|+|+||.+.+
T Consensus       100 ~~l~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~e~SA~tg~gv~e~~~~l~~~~  172 (173)
T d1e0sa_         100 QELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNY  172 (173)
T ss_dssp             HHHHHHHTSGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHHHC
T ss_pred             HHHHHHhhhcccccceeeeeeecccccccccHHHHHHHHHHHHHHhCCCEEEEeeCCCCcCHHHHHHHHHHhc
Confidence            9998888765556899999999999998888888888877666667788999999999999999999998764

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=8.8e-27  Score=166.26  Aligned_cols=136  Identities=23%  Similarity=0.344  Sum_probs=115.7

Q ss_pred             CCCCCCCCCCcceEEEE--EE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCC
Q 029517           34 GLPPDRIVPTVGLNIGR--IE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNE  109 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~--~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~  109 (192)
                      +.+.+.+.||++.++..  +.  +..+++.+|||||++.|...+..++++++++++|+|.++..+++.+..|+..+.+..
T Consensus        28 ~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~  107 (171)
T d2ew1a1          28 GLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYA  107 (171)
T ss_dssp             SSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHS
T ss_pred             CCCCCcccccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhccceEEEeeecccchhhhhhhhhhhhhcccc
Confidence            66777888888877664  33  346789999999999999999999999999999999999999999999999887653


Q ss_pred             CCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          110 DLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                      . .+.|+++|+||+|+.+  .++.+++.++++     ..++++++|||++|.||+++|.+|++++...
T Consensus       108 ~-~~~~~ilvgnK~D~~~~~~v~~~~~~~~~~-----~~~~~~~~~SAktg~gV~e~f~~l~~~l~~~  169 (171)
T d2ew1a1         108 S-NKVITVLVGNKIDLAERREVSQQRAEEFSE-----AQDMYYLETSAKESDNVEKLFLDLACRLISE  169 (171)
T ss_dssp             C-TTCEEEEEEECGGGGGGCSSCHHHHHHHHH-----HHTCCEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             c-ccccEEEEEeecccccccchhhhHHHHHHH-----hCCCEEEEEccCCCCCHHHHHHHHHHHHHHh
Confidence            2 5789999999999865  566778887776     5577899999999999999999999877643

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=6.4e-27  Score=166.86  Aligned_cols=145  Identities=19%  Similarity=0.246  Sum_probs=119.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++++|    ..      +.+.+.|.||+|..+..   +++..+.+.+||++|++.+...+..+++.+|++++|||++
T Consensus        15 KTsLi~r~----~~------~~f~~~~~~T~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv~d~~   84 (171)
T d2erxa1          15 KSSLVLRF----VK------GTFRESYIPTVEDTYRQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSIT   84 (171)
T ss_dssp             HHHHHHHH----HT------CCCCSSCCCCSCEEEEEEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEEEETT
T ss_pred             HHHHHHHH----Hh------CCCCCccCcceeeccccceeeccccceeccccccccccccccccccccceeEEEEEeecc
Confidence            56655555    44      56778889999977654   3334578999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhC-CCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRN-EDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~-~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      ++++++.+..|+..+.+. ....++|+++|+||+|+..  +++.+++.++++     ..++++++|||++|.||+++|+.
T Consensus        85 ~~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~~~~~v~~~e~~~~~~-----~~~~~~~e~Sak~~~~v~e~f~~  159 (171)
T d2erxa1          85 SRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALAR-----TWKCAFMETSAKLNHNVKELFQE  159 (171)
T ss_dssp             CHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHH-----HHTCEEEECBTTTTBSHHHHHHH
T ss_pred             cccchhcccchhhhhhhhhccCCCCcEEEEeecccccccccccHHHHHHHHH-----HcCCeEEEEcCCCCcCHHHHHHH
Confidence            999999999999888763 2235789999999999864  677888888876     56789999999999999999999


Q ss_pred             HHHHHH
Q 029517          168 LVEVME  173 (192)
Q Consensus       168 i~~~i~  173 (192)
                      |++.+.
T Consensus       160 l~~~~~  165 (171)
T d2erxa1         160 LLNLEK  165 (171)
T ss_dssp             HHHTCC
T ss_pred             HHHHHH
Confidence            987543

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=2.1e-26  Score=164.28  Aligned_cols=138  Identities=19%  Similarity=0.292  Sum_probs=114.4

Q ss_pred             CCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCC
Q 029517           34 GLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNED  110 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~  110 (192)
                      +.+...+.||.+.....   +++..+.+.+||++|++.+...+..+++.+|++++|+|++++++++.+..|+..+.+...
T Consensus        28 ~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~  107 (171)
T d2erya1          28 SYFVTDYDPTIEDSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKD  107 (171)
T ss_dssp             SCCCSSCCTTCCEEEEEEEEETTEEEEEEEEECC----CCHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHT
T ss_pred             CCCCcccCcccccceeeeeeecccccccccccccccccccccccccccccceEEEeeccccccchhhHHHHhHHHHhhcc
Confidence            56777889998865543   333457899999999999999999999999999999999999999999999998877654


Q ss_pred             CCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhcc
Q 029517          111 LQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       111 ~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~~  176 (192)
                      ....|+++|+||+|+..  .+..+++.++++     ..+++|++|||++|.||+++|++|++.+.+.+
T Consensus       108 ~~~~p~ilvgnK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~e~Sak~~~~i~e~f~~l~~~i~k~~  170 (171)
T d2erya1         108 RDEFPMILIGNKADLDHQRQVTQEEGQQLAR-----QLKVTYMEASAKIRMNVDQAFHELVRVIRKFQ  170 (171)
T ss_dssp             SSCCSEEEEEECTTCTTSCSSCHHHHHHHHH-----HTTCEEEECBTTTTBSHHHHHHHHHHHHHHHT
T ss_pred             cCCCCEEEEEeccchhhhccchHHHHHHHHH-----HcCCEEEEEcCCCCcCHHHHHHHHHHHHHHhh
Confidence            46799999999999976  577888888887     56789999999999999999999999886543

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.94  E-value=2.6e-27  Score=167.90  Aligned_cols=143  Identities=22%  Similarity=0.330  Sum_probs=121.1

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEE----ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIE----VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~----~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|+    .      +.+...+.||++.+.....    +..+.+.+||++|++.+...+..++++++++++|||+
T Consensus        15 KSsLi~rl~----~------~~~~~~~~~ti~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v~d~   84 (164)
T d1z2aa1          15 KSSMIQRYC----K------GIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFST   84 (164)
T ss_dssp             HHHHHHHHH----H------CCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEEEET
T ss_pred             HHHHHHHHH----h------CCCCcccccccccccceeeeeecCceeeeeeeccCCccchhhhhhhhhccCceEEEEEec
Confidence            666666554    3      5677888999997766432    2357899999999999988899999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++++++.+..|+..+.+..  .++|+++|+||+|+.+  .+..+++.++++     ..+++++++||++|.||+++|++
T Consensus        85 ~~~~s~~~~~~~~~~i~~~~--~~~~iilVgnK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~e~Sak~g~~v~e~f~~  157 (164)
T d1z2aa1          85 TDRESFEAISSWREKVVAEV--GDIPTALVQNKIDLLDDSCIKNEEAEGLAK-----RLKLRFYRTSVKEDLNVSEVFKY  157 (164)
T ss_dssp             TCHHHHHTHHHHHHHHHHHH--CSCCEEEEEECGGGGGGCSSCHHHHHHHHH-----HHTCEEEECBTTTTBSSHHHHHH
T ss_pred             cchhhhhhcccccccccccC--CCceEEEeeccCCcccceeeeehhhHHHHH-----HcCCEEEEeccCCCcCHHHHHHH
Confidence            99999999999999987754  5799999999999865  577788888876     55789999999999999999999


Q ss_pred             HHHHHH
Q 029517          168 LVEVME  173 (192)
Q Consensus       168 i~~~i~  173 (192)
                      |++.+.
T Consensus       158 l~~~~l  163 (164)
T d1z2aa1         158 LAEKHL  163 (164)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            998875

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=3.6e-26  Score=162.30  Aligned_cols=146  Identities=18%  Similarity=0.243  Sum_probs=123.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++|+|+    .      +.+.+.+.||++..+..   ..+..+.+.+||++|++.+...+..+++.++++++|+|++
T Consensus        16 KTsli~~l~----~------~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~~~~~~~~~~~~~~~~~~~iiv~d~~   85 (166)
T d1ctqa_          16 KSALTIQLI----Q------NHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAIN   85 (166)
T ss_dssp             HHHHHHHHH----H------CCCCCSCCCCSEEEEEEEEEETTEEEEEEEEEECCCGGGHHHHHHHHHHCSEEEEEEETT
T ss_pred             HHHHHHHHH----h------CCCCCccCCccceeeccceeeeceeeeeeeeeccCccccccchhhhhhcccccceeeccc
Confidence            566666554    4      56778889999987664   2234678999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC-CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD-AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLV  169 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~  169 (192)
                      ++.+++.+..|+..+.+.....++|+++|+||+|+.. .++.+++.++++     ..++++++|||++|.||+++|++|+
T Consensus        86 ~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~e~Sak~g~gi~e~f~~i~  160 (166)
T d1ctqa_          86 NTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLAR-----SYGIPYIETSAKTRQGVEDAFYTLV  160 (166)
T ss_dssp             CHHHHHTHHHHHHHHHHHHTCSSCCEEEEEECTTCSCCCSCHHHHHHHHH-----HHTCCEEECCTTTCTTHHHHHHHHH
T ss_pred             ccccHHHHHHHHHHHHHhcCCCCCeEEEEecccccccccccHHHHHHHHH-----HhCCeEEEEcCCCCcCHHHHHHHHH
Confidence            9999999999999988765446799999999999976 566778888876     5678999999999999999999999


Q ss_pred             HHHHh
Q 029517          170 EVMER  174 (192)
Q Consensus       170 ~~i~~  174 (192)
                      +.+.+
T Consensus       161 ~~i~~  165 (166)
T d1ctqa_         161 REIRQ  165 (166)
T ss_dssp             HHHHT
T ss_pred             HHHHh
Confidence            98864

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=1.2e-26  Score=166.40  Aligned_cols=145  Identities=17%  Similarity=0.244  Sum_probs=115.5

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||+++++    ..      +.+.+.+.||++.....   .+...+.+++||++|++.+...+..+++++|++|+|||++
T Consensus        15 KTsLi~~~----~~------~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~   84 (177)
T d1kmqa_          15 KTCLLIVN----SK------DQFPEVYVPTVFENYVADIEVDGKQVELALWDTAGLEDYDRLRPLSYPDTDVILMCFSID   84 (177)
T ss_dssp             HHHHHHHH----HH------SCCCSSCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETT
T ss_pred             HHHHHHHH----Hh------CCCCCCcCCceeeeccccccccccceeeeccccCccchhcccchhhcccchhhhhhcccc
Confidence            55555544    44      66778889999866542   3345678999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--------------CCCHHHHHhHcCccccCCcceEEEEeeec
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--------------AVSADELARYLDLKKLDERVCMFEAVSGY  156 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--------------~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  156 (192)
                      +++||+.+..|+........ .+.|+++|+||+|+..              .++.+++.++++    .....+|++|||+
T Consensus        85 ~~~Sf~~~~~~~~~~~~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~e~~~~a~----~~~~~~~~E~SAk  159 (177)
T d1kmqa_          85 SPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMAN----RIGAFGYMECSAK  159 (177)
T ss_dssp             CHHHHHHHHHTHHHHHHHHS-TTSCEEEEEECGGGTTCHHHHHHHHHTTCCCCCHHHHHHHHH----HTTCSEEEECCTT
T ss_pred             hhHHHHHHHHHHHHHHHHhC-CCCceEEeeecccccchhhHHHHHHHhhcccccHHHHHHHHH----HcCCcEEEEecCC
Confidence            99999998877666555322 5799999999999864              355666666665    1234689999999


Q ss_pred             CCCCHHHHHHHHHHHHH
Q 029517          157 DGFGIKESVEWLVEVME  173 (192)
Q Consensus       157 ~~~gi~e~~~~i~~~i~  173 (192)
                      +|.||+++|+.+.+.+.
T Consensus       160 t~~gi~e~F~~i~~~~l  176 (177)
T d1kmqa_         160 TKDGVREVFEMATRAAL  176 (177)
T ss_dssp             TCTTHHHHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHHHHHh
Confidence            99999999999998775

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=7.2e-27  Score=166.08  Aligned_cols=135  Identities=22%  Similarity=0.275  Sum_probs=110.6

Q ss_pred             CCCCCCCCCCcceEEEEEE----ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCC
Q 029517           34 GLPPDRIVPTVGLNIGRIE----VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNE  109 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~~~----~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~  109 (192)
                      +.|.+.+.||.+..+....    +..+.+.+||++|++.+...+..+++++|++++|||+++++||+.+..|+..+....
T Consensus        26 ~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~Sf~~~~~~~~~~~~~~  105 (167)
T d1z08a1          26 NKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKML  105 (167)
T ss_dssp             CCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCcccccccccchheeeeccCCccceeeeeccCCcceecccchhhccCCceeEEEEeCCchhHHHhhhhhhhhccccc
Confidence            6788899999998776532    235799999999999999999999999999999999999999999999998876543


Q ss_pred             CCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          110 DLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      . ...|+++++||+|+..  .++.+++.++++     ..++++++|||++|.||+++|++|++.+.+
T Consensus       106 ~-~~~~~ilvgnK~Dl~~~~~v~~~e~~~~a~-----~~~~~~~e~Sak~~~~v~e~F~~l~~~i~~  166 (167)
T d1z08a1         106 G-NEICLCIVGNKIDLEKERHVSIQEAESYAE-----SVGAKHYHTSAKQNKGIEELFLDLCKRMIE  166 (167)
T ss_dssp             G-GGSEEEEEEECGGGGGGCCSCHHHHHHHHH-----HTTCEEEEEBTTTTBSHHHHHHHHHHHHHC
T ss_pred             c-cccceeeeccccccccccccchHHHHHHHH-----HcCCeEEEEecCCCcCHHHHHHHHHHHHhh
Confidence            2 5689999999999865  678889988887     567899999999999999999999998864

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.93  E-value=5.2e-26  Score=161.42  Aligned_cols=133  Identities=20%  Similarity=0.331  Sum_probs=113.1

Q ss_pred             CCCCCCCCCCcceEEEE----EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCC
Q 029517           34 GLPPDRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNE  109 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~  109 (192)
                      +.+...+.|+.+.++..    +++..+++.+||++|++.+...+..+++++|++++|+|+++.++++.+..|+..+....
T Consensus        27 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~  106 (166)
T d1z0fa1          27 KKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLT  106 (166)
T ss_dssp             SCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHS
T ss_pred             CCCCCcccccccccceeEEEEECCEEEEEEEeccCCchhHHHHHHHHhcCCcEEEEEeccCchHHHHHHHHHHHHHHhhc
Confidence            56667777777776653    33346799999999999999999999999999999999999999999999998887653


Q ss_pred             CCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517          110 DLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                      . ...|+++++||+|+..  .+..+++.++++     ..++++++|||++|.||+++|++|++.+
T Consensus       107 ~-~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~e~Saktg~~v~e~f~~i~~~i  165 (166)
T d1z0fa1         107 N-PNTVIILIGNKADLEAQRDVTYEEAKQFAE-----ENGLLFLEASAKTGENVEDAFLEAAKKI  165 (166)
T ss_dssp             C-TTCEEEEEEECTTCGGGCCSCHHHHHHHHH-----HTTCEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             c-ccceEEEEcccccchhhcccHHHHHHHHHH-----HcCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            3 5789999999999855  566678888876     5578999999999999999999999875

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.93  E-value=2.8e-26  Score=162.97  Aligned_cols=146  Identities=21%  Similarity=0.291  Sum_probs=121.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++++|+    .      +.+.+.+.||++..+..   ++...+.+.+||++|++.+...+..++++++++++|||++
T Consensus        16 KTsLi~r~~----~------~~f~~~~~~t~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv~d~~   85 (167)
T d1kaoa_          16 KSALTVQFV----T------GTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLV   85 (167)
T ss_dssp             HHHHHHHHH----H------SCCCSCCCTTCCEEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETT
T ss_pred             HHHHHHHHH----h------CCCCCccCCceeeeeeeeeecCcceEeeccccCCCccccccchHHHhhcccceeeeeeec
Confidence            566665554    4      56778889999865443   3334678999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      ++.++..+..|...+.......++|+++|+||+|+..  ....+++..+++     ..++++++|||++|.||+++|++|
T Consensus        86 ~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~e~Sak~g~~i~e~f~~i  160 (167)
T d1kaoa_          86 NQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAE-----EWGCPFMETSAKSKTMVDELFAEI  160 (167)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHH-----HHTSCEEEECTTCHHHHHHHHHHH
T ss_pred             chhhhhhhhchhhhhhhhccCCCCCEEEEEEccchhhcccchHHHHHHHHH-----HcCCeEEEECCCCCcCHHHHHHHH
Confidence            9999999999999887755556899999999999865  566777777776     456789999999999999999999


Q ss_pred             HHHHHh
Q 029517          169 VEVMER  174 (192)
Q Consensus       169 ~~~i~~  174 (192)
                      ++++..
T Consensus       161 ~~~i~~  166 (167)
T d1kaoa_         161 VRQMNY  166 (167)
T ss_dssp             HHHHHH
T ss_pred             HHHHcc
Confidence            987753

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.93  E-value=3.4e-26  Score=161.99  Aligned_cols=144  Identities=22%  Similarity=0.347  Sum_probs=121.5

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEE----ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIE----VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~----~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|+    .      +.+...+.||++.......    ...+.+.+||++|++.+...+..+++.++++++|||.
T Consensus        13 KTsLi~r~~----~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~   82 (164)
T d1yzqa1          13 KTSLITRFM----Y------DSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVYDI   82 (164)
T ss_dssp             HHHHHHHHH----H------SCCCSSCCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEET
T ss_pred             HHHHHHHHH----h------CCCCCccccceeeeccceeeccCCCceeeeecccCCcchhccchHHHhhccceEEEeecc
Confidence            566655554    4      5677888999988776432    3468999999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+..... .+.|+++|+||+|+.+  .+..+++.++++     ..++++++|||++|.||+++|++
T Consensus        83 ~~~~s~~~i~~~~~~~~~~~~-~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~e~SAk~g~~v~e~f~~  156 (164)
T d1yzqa1          83 TNVNSFQQTTKWIDDVRTERG-SDVIIMLVGNKTDLADKRQVSIEEGERKAK-----ELNVMFIETSAKAGYNVKQLFRR  156 (164)
T ss_dssp             TCHHHHHTHHHHHHHHHHHHT-TSSEEEEEEECTTCGGGCCSCHHHHHHHHH-----HTTCEEEECCTTTCTTHHHHHHH
T ss_pred             ccccchhhhHhhHHHHHHhcC-CCceEEEEecccchhhhhhhhHHHHHHHHH-----HcCCEEEEecCCCCcCHHHHHHH
Confidence            999999999999998876532 5799999999999865  667778888886     56789999999999999999999


Q ss_pred             HHHHHH
Q 029517          168 LVEVME  173 (192)
Q Consensus       168 i~~~i~  173 (192)
                      |++++.
T Consensus       157 i~~~l~  162 (164)
T d1yzqa1         157 VAAALP  162 (164)
T ss_dssp             HHHHSC
T ss_pred             HHHhhC
Confidence            998764

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.93  E-value=3.1e-26  Score=165.48  Aligned_cols=138  Identities=20%  Similarity=0.381  Sum_probs=118.2

Q ss_pred             CCCCCCCCCCcceEEEE--EE------------ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHH
Q 029517           34 GLPPDRIVPTVGLNIGR--IE------------VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSK   99 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~--~~------------~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~   99 (192)
                      +.+...+.||.+..+..  +.            ...+.+.+|||+|+++|..++..+++++|++|+|||++++.+++.+.
T Consensus        28 ~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~dt~G~e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~  107 (186)
T d2f7sa1          28 NKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVR  107 (186)
T ss_dssp             SCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHHHHHHTTCCEEEEEEETTCHHHHHHHH
T ss_pred             CCCCCccCCcccceeeEEEEEEecccccccccccceEEeccccCCcchhhHHHHHHHHhcCCEEEEEEeccccccceeee
Confidence            66777888888877653  11            12468999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhcc
Q 029517          100 TALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       100 ~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~~  176 (192)
                      .|+..+.........|+++|+||.|+..  +++.+++.++++     ..++++++|||++|.||+++|++|++.+.+.+
T Consensus       108 ~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~v~~~e~~~~~~-----~~~~~~~e~Sak~~~~i~e~f~~l~~~i~~k~  181 (186)
T d2f7sa1         108 NWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELAD-----KYGIPYFETSAATGQNVEKAVETLLDLIMKRM  181 (186)
T ss_dssp             HHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHH-----HTTCCEEEEBTTTTBTHHHHHHHHHHHHHHHH
T ss_pred             eccchhhhhccCCCceEEEEeeeccchhhhcchHHHHHHHHH-----HcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            9998887765556789999999999966  577888888887     55789999999999999999999999887554

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.93  E-value=5.7e-26  Score=161.82  Aligned_cols=143  Identities=22%  Similarity=0.329  Sum_probs=120.8

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEE----ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIE----VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRF   95 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~----~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~   95 (192)
                      +|++|+..      +.+.+.+.||.+..+....    ...+.+.+||++|++.+...+..++++++++++|+|.++.+++
T Consensus        21 sLi~~l~~------~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~   94 (170)
T d1r2qa_          21 SLVLRFVK------GQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESF   94 (170)
T ss_dssp             HHHHHHHH------SCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHH
T ss_pred             HHHHHHHh------CCCCcccccccccccccceeeccceEEEEEeccCCCchhhhhhHHHHhhCcceEEEEeccchhhHH
Confidence            44455555      6778888999998876532    2357899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517           96 EDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus        96 ~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      +.+..|...+.+... .+.|+++|+||+|+..  .++.+++.++++     ..+++|++|||++|.||+++|++|++.+.
T Consensus        95 ~~~~~~~~~~~~~~~-~~~~iilvgnK~Dl~~~~~v~~e~~~~~~~-----~~~~~~~e~SAk~g~~V~e~f~~l~~~i~  168 (170)
T d1r2qa_          95 ARAKNWVKELQRQAS-PNIVIALSGNKADLANKRAVDFQEAQSYAD-----DNSLLFMETSAKTSMNVNEIFMAIAKKLP  168 (170)
T ss_dssp             HHHHHHHHHHHHHSC-TTCEEEEEEECGGGGGGCCSCHHHHHHHHH-----HTTCEEEECCTTTCTTHHHHHHHHHHTSC
T ss_pred             HHHHHHhhhhhhccC-CCceEEeecccccccccccccHHHHHHHHH-----hcCCEEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            999999998876432 5799999999999865  577888888876     56789999999999999999999988765


Q ss_pred             h
Q 029517          174 R  174 (192)
Q Consensus       174 ~  174 (192)
                      +
T Consensus       169 ~  169 (170)
T d1r2qa_         169 K  169 (170)
T ss_dssp             C
T ss_pred             h
Confidence            4

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.93  E-value=9.2e-26  Score=164.12  Aligned_cols=151  Identities=23%  Similarity=0.373  Sum_probs=124.2

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEE--E--EecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--I--EVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRF   95 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~--~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~   95 (192)
                      +|++++..      +.+...+.||.+..+..  +  .+..+.+.+|||||++++...+..++++++++|+|+|+++.+++
T Consensus        21 sli~~l~~------~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~a~~~i~v~d~t~~~s~   94 (194)
T d2bcgy1          21 CLLLRFSD------DTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESF   94 (194)
T ss_dssp             HHHHHHHH------CCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSEEEEEEETTCHHHH
T ss_pred             HHHHHHhh------CCCCCCcCCccceeEEEEEEEEeeEEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEeCcchhhh
Confidence            44455555      66778889999887653  3  33467899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517           96 EDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus        96 ~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      ..+..|...+.+... .+.|+++|+||.|+.+  .+..++......     ..+..++++||++|.||+++|++|++.+.
T Consensus        95 ~~~~~~~~~~~~~~~-~~~~iilv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~e~SAk~g~gi~e~f~~l~~~i~  168 (194)
T d2bcgy1          95 NGVKMWLQEIDRYAT-STVLKLLVGNKCDLKDKRVVEYDVAKEFAD-----ANKMPFLETSALDSTNVEDAFLTMARQIK  168 (194)
T ss_dssp             HHHHHHHHHHHHHSC-TTCEEEEEEECTTCTTTCCSCHHHHHHHHH-----HTTCCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             hhHhhhhhhhhhccc-CCceEEEEEeccccccccchhHHHHhhhhh-----ccCcceEEEecCcCccHHHHHHHHHHHHH
Confidence            999999888876432 6789999999999976  566677777766     55788999999999999999999999988


Q ss_pred             hcchhhhhh
Q 029517          174 RSKRTEMLR  182 (192)
Q Consensus       174 ~~~~~~~~~  182 (192)
                      +....+.+.
T Consensus       169 ~~~~~~~~~  177 (194)
T d2bcgy1         169 ESMSQQNLN  177 (194)
T ss_dssp             HHCCHHHHH
T ss_pred             HHhhhcccC
Confidence            776555444

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.93  E-value=6.7e-26  Score=163.67  Aligned_cols=143  Identities=17%  Similarity=0.275  Sum_probs=113.1

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE   96 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~   96 (192)
                      +|++|+..      +.+.+.+.||++.....   ..+..+.+.+||++|++.+...+..+++++|++++|||++++++|+
T Consensus        24 sLi~r~~~------~~f~~~~~~Ti~~~~~~~~~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~a~~~ilv~d~t~~~Sf~   97 (185)
T d2atxa1          24 CLLMSYAN------DAFPEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQ   97 (185)
T ss_dssp             HHHHHHHH------SSCCCSCCCSSCCCEEEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSEEEEEEETTCHHHHH
T ss_pred             HHHHHHhh------CCCCCcCCCceeeeeeEEEeeCCceEEeecccccccchhhhhhhhcccccceeeeccccchHHHHH
Confidence            44555555      66778889999865543   2234688999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--------------CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHH
Q 029517           97 DSKTALEKVLRNEDLQGAPLLILANKQDLPD--------------AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIK  162 (192)
Q Consensus        97 ~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--------------~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  162 (192)
                      .+..|.....+.. ..+.|+++|+||+|+.+              .++.+++.++++    ....+.|+||||++|.||+
T Consensus        98 ~~~~~~~~~~~~~-~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~~~~~~~~a~----~~~~~~~~E~SAk~~~gv~  172 (185)
T d2atxa1          98 NVKEEWVPELKEY-APNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAK----EIGACCYVECSALTQKGLK  172 (185)
T ss_dssp             HHHHTHHHHHHHH-STTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHH----HHTCSCEEECCTTTCTTHH
T ss_pred             HHHHHHHHHHHhc-CCCCCeeEeeeccccccchhhhhhhhhcccccccHHHHHHHHH----HcCCCEEEEecCCCCcCHH
Confidence            8876666555432 25799999999999864              456677776665    1224789999999999999


Q ss_pred             HHHHHHHHHHH
Q 029517          163 ESVEWLVEVME  173 (192)
Q Consensus       163 e~~~~i~~~i~  173 (192)
                      ++|+.+++++.
T Consensus       173 e~F~~li~~il  183 (185)
T d2atxa1         173 TVFDEAIIAIL  183 (185)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHc
Confidence            99999998874

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.93  E-value=1.1e-25  Score=159.79  Aligned_cols=144  Identities=20%  Similarity=0.278  Sum_probs=121.1

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEE--e--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIE--V--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~--~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++++|    ..      +.+.+.+.||.+..+....  .  ....+.+||++|++++...+..+++.++++|+|||+
T Consensus        17 KTsli~rl----~~------~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v~d~   86 (167)
T d1z0ja1          17 KSSIMWRF----VE------DSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDI   86 (167)
T ss_dssp             HHHHHHHH----HH------SCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEET
T ss_pred             HHHHHHHH----Hh------CCCCcccccccccccccccccccccccceeeeecCCchhhhHHHHHHHhhccceEEEeee
Confidence            56655555    44      6677888999998876532  2  346789999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++++++.+..|+..+..... .+.|+++|+||+|+.+  .+..+++.++++     ..+++|++|||++|.||+++|.+
T Consensus        87 ~~~~s~~~~~~~~~~~~~~~~-~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~e~SAk~~~nV~e~f~~  160 (167)
T d1z0ja1          87 TKEETFSTLKNWVRELRQHGP-PSIVVAIAGNKCDLTDVREVMERDAKDYAD-----SIHAIFVETSAKNAININELFIE  160 (167)
T ss_dssp             TCHHHHHHHHHHHHHHHHHSC-TTSEEEEEEECTTCGGGCCSCHHHHHHHHH-----HTTCEEEECBTTTTBSHHHHHHH
T ss_pred             chhhhhhhHHHhhhhhhhccC-CcceEEEecccchhccccchhHHHHHHHHH-----HcCCEEEEEecCCCCCHHHHHHH
Confidence            999999999999988776543 5789999999999965  577788888886     56789999999999999999999


Q ss_pred             HHHHHH
Q 029517          168 LVEVME  173 (192)
Q Consensus       168 i~~~i~  173 (192)
                      |++++.
T Consensus       161 l~~~i~  166 (167)
T d1z0ja1         161 ISRRIP  166 (167)
T ss_dssp             HHHHCC
T ss_pred             HHHhCC
Confidence            998763

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.93  E-value=1.2e-25  Score=160.75  Aligned_cols=145  Identities=23%  Similarity=0.303  Sum_probs=120.8

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEEEE----ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIE----VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRF   95 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~----~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~   95 (192)
                      +|++|+..      +.+...+.||.+.......    ...+.+.+||+||++++...+..++++++++++|+|.++.+++
T Consensus        20 sll~~~~~------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~   93 (174)
T d2bmea1          20 CLLHQFIE------KKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETY   93 (174)
T ss_dssp             HHHHHHHH------SSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEEEEEEETTCHHHH
T ss_pred             HHHHHHHh------CCCCcccccccccceeeEEEEecCcceeEEEEECCCchhhhhhHHHHhhhCCEEEEEEecccchhH
Confidence            44555555      6677888899888876432    2456899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517           96 EDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus        96 ~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      ..+..|+..+..... .++|+++++||+|+..  ....+.+.+++.     ..++++++|||++|.||+++|+++++.+.
T Consensus        94 ~~~~~~~~~~~~~~~-~~~piivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~e~Sak~~~gi~e~f~~l~~~i~  167 (174)
T d2bmea1          94 NALTNWLTDARMLAS-QNIVIILCGNKKDLDADREVTFLEASRFAQ-----ENELMFLETSALTGENVEEAFVQCARKIL  167 (174)
T ss_dssp             HTHHHHHHHHHHHSC-TTCEEEEEEECGGGGGGCCSCHHHHHHHHH-----HTTCEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHhhhhcccccccC-CceEEEEEEecccccchhchhhhHHHHHHH-----hCCCEEEEeeCCCCcCHHHHHHHHHHHHH
Confidence            999999999877543 5799999999999865  555666667665     55789999999999999999999999987


Q ss_pred             hcc
Q 029517          174 RSK  176 (192)
Q Consensus       174 ~~~  176 (192)
                      +..
T Consensus       168 ~~~  170 (174)
T d2bmea1         168 NKI  170 (174)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            654

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.93  E-value=8.4e-26  Score=160.96  Aligned_cols=132  Identities=23%  Similarity=0.416  Sum_probs=104.5

Q ss_pred             CCCCCCCcceEEEEE--E--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCC
Q 029517           37 PDRIVPTVGLNIGRI--E--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQ  112 (192)
Q Consensus        37 ~~~~~~T~g~~~~~~--~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~  112 (192)
                      ...+.++++.++...  .  +..+++.+|||||++++...+..+++++|++++|+|+++.+++..+..|+..+..... .
T Consensus        33 ~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~  111 (170)
T d2g6ba1          33 AGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQ-H  111 (170)
T ss_dssp             CCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSC-T
T ss_pred             cccccceeeeeeEEEEEEecCcEEEEEEEECCCchhhHHHHHHhhcCCceeEEEecCCcccchhhhhhhhhhhhhccC-C
Confidence            455677788777753  2  2357899999999999999999999999999999999999999999999888776543 5


Q ss_pred             CCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          113 GAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       113 ~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      ..|+++++||.|+..  .++.+++.++++     ..+++++++||++|.||+++|++|++.+.+
T Consensus       112 ~~~iilv~~k~d~~~~~~v~~~~~~~~~~-----~~~~~~~e~Sak~g~gi~e~f~~l~~~i~k  170 (170)
T d2g6ba1         112 DVALMLLGNKVDSAHERVVKREDGEKLAK-----EYGLPFMETSAKTGLNVDLAFTAIAKELKR  170 (170)
T ss_dssp             TCEEEEEEECCSTTSCCCSCHHHHHHHHH-----HHTCCEEECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             CceEEEEEeeechhhcccccHHHHHHHHH-----HcCCEEEEEeCCCCcCHHHHHHHHHHHcCC
Confidence            789999999999877  667788888876     557899999999999999999999988753

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.93  E-value=5.9e-27  Score=167.51  Aligned_cols=147  Identities=20%  Similarity=0.310  Sum_probs=97.8

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++++|+    .      +.+...+.||++.++..  +..  ..+.+.+||+||++.+...+..+++.+|++|+|||+
T Consensus        19 KTsLi~~l~----~------~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~e~~~~~~~~~~~~~~~~i~v~d~   88 (173)
T d2fu5c1          19 KTCVLFRFS----E------DAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDI   88 (173)
T ss_dssp             -------------------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEEEEEEET
T ss_pred             HHHHHHHHH----h------CCCCCccCccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHhccCCCEEEEEEEC
Confidence            566666664    3      44566778888877653  333  357899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|...+..... .+.|+++|+||.|+..  ....+++.+.+.     ..++++++|||++|.||+++|++
T Consensus        89 ~~~~s~~~~~~~~~~~~~~~~-~~~~iilv~~k~D~~~~~~~~~~~~~~~~~-----~~~~~~~e~Sa~~g~gv~e~f~~  162 (173)
T d2fu5c1          89 TNEKSFDNIRNWIRNIEEHAS-ADVEKMILGNKCDVNDKRQVSKERGEKLAL-----DYGIKFMETSAKANINVENAFFT  162 (173)
T ss_dssp             TCHHHHHHHHHHHHHHHHHSC-TTCEEEEEEEC--CCSCCCSCHHHHHHHHH-----HHTCEEEECCC---CCHHHHHHH
T ss_pred             CChhhHHHHHHHHHHhhhhcc-CCceEEEEEecccchhhcccHHHHHHHHHH-----hcCCEEEEEeCCCCCCHHHHHHH
Confidence            999999999999988865432 5799999999999976  455566766665     56789999999999999999999


Q ss_pred             HHHHHHhcc
Q 029517          168 LVEVMERSK  176 (192)
Q Consensus       168 i~~~i~~~~  176 (192)
                      |++.+....
T Consensus       163 l~~~i~~k~  171 (173)
T d2fu5c1         163 LARDIKAKM  171 (173)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhc
Confidence            999886543

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.92  E-value=7.5e-26  Score=164.18  Aligned_cols=148  Identities=18%  Similarity=0.245  Sum_probs=118.2

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||+++++    ..      +.|...+.||++..+..   ..+..+.+.+||++|+++|...+..+++++|++++|||++
T Consensus        16 KTSli~r~----~~------~~f~~~~~~t~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~   85 (191)
T d2ngra_          16 KTCLLISY----TT------NKFPSEYVPTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVV   85 (191)
T ss_dssp             HHHHHHHH----HH------SCCCSSCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETT
T ss_pred             HHHHHHHH----Hh------CCCCCCcCCceeeecceeEeeCCceeeeeccccccchhhhhhhhhcccccceeecccccc
Confidence            55555554    44      66778889999976653   2234678999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--------------CCCHHHHHhHcCccccCCcceEEEEeeec
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--------------AVSADELARYLDLKKLDERVCMFEAVSGY  156 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--------------~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  156 (192)
                      +++||+.+..|+........ .+.|+++|+||+|+.+              .++.+++.+++.    ...+.+|++|||+
T Consensus        86 ~~~Sf~~~~~~~~~~~~~~~-~~~~i~lvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~----~~~~~~~~e~SAk  160 (191)
T d2ngra_          86 SPSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLAR----DLKAVKYVECSAL  160 (191)
T ss_dssp             CHHHHHHHHHTHHHHHHHHC-TTCCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHH----HTTCSCEEECCTT
T ss_pred             hHHHHHHHHHHHHHHHhhcC-CCCceEEEeccccccccchhhhhhhhcccccccHHHHHHHHH----HcCCCeEEEEeCC
Confidence            99999999876555554322 5799999999999853              466777777765    2346789999999


Q ss_pred             CCCCHHHHHHHHHHHHHhcc
Q 029517          157 DGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       157 ~~~gi~e~~~~i~~~i~~~~  176 (192)
                      +|.||+++|+.+.+.+.+..
T Consensus       161 ~~~~V~e~f~~l~~~~~~~~  180 (191)
T d2ngra_         161 TQKGLKNVFDEAILAALEPP  180 (191)
T ss_dssp             TCTTHHHHHHHHHHHHTSCC
T ss_pred             CCcCHHHHHHHHHHHHhcCc
Confidence            99999999999998876654

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.92  E-value=5.7e-25  Score=157.59  Aligned_cols=138  Identities=22%  Similarity=0.321  Sum_probs=118.9

Q ss_pred             CCCCCCCCCCcceEEEE--EE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCC
Q 029517           34 GLPPDRIVPTVGLNIGR--IE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNE  109 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~--~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~  109 (192)
                      +.+...+.++.+..+..  +.  ...+.+.+|||||++++..++..+++++|++++|+|++++.+++.+..|+..+.+..
T Consensus        30 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~  109 (177)
T d1x3sa1          30 DTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYC  109 (177)
T ss_dssp             SCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHTTCC
T ss_pred             CCCCCccccceeecceeEEEEEeccccEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCccccccchhhhhhhcccc
Confidence            66777778888776553  33  346789999999999999999999999999999999999999999999999998876


Q ss_pred             CCCCCcEEEEEeCCCCCC-CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhcc
Q 029517          110 DLQGAPLLILANKQDLPD-AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~~  176 (192)
                      .....|+++++||.|... .++.+++.++++     ..+++++++||++|.||+++|++|++.+.+..
T Consensus       110 ~~~~~~i~~~~nk~d~~~~~v~~~~~~~~~~-----~~~~~~~e~Sa~tg~gv~e~f~~l~~~l~~~p  172 (177)
T d1x3sa1         110 TRNDIVNMLVGNKIDKENREVDRNEGLKFAR-----KHSMLFIEASAKTCDGVQCAFEELVEKIIQTP  172 (177)
T ss_dssp             SCSCCEEEEEEECTTSSSCCSCHHHHHHHHH-----HTTCEEEECCTTTCTTHHHHHHHHHHHHHTSG
T ss_pred             cccceeeEEEeeccccccccccHHHHHHHHH-----HCCCEEEEEeCCCCCCHHHHHHHHHHHHccCc
Confidence            656799999999999866 677788888876     56789999999999999999999999888653

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.92  E-value=2.4e-25  Score=158.55  Aligned_cols=141  Identities=20%  Similarity=0.331  Sum_probs=118.6

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccH
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRF   95 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~   95 (192)
                      +|++|+..      +.+.+.+.||+|.++..  +..  ..+.+.+||++|++.+...+..+++.+|++++|||.+++.++
T Consensus        18 sLi~~~~~------~~f~~~~~~t~~~~~~~~~i~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~   91 (170)
T d1ek0a_          18 SIVLRFVS------NDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPMYYRNAQAALVVYDVTKPQSF   91 (170)
T ss_dssp             HHHHHHHH------SCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHH
T ss_pred             HHHHHHHh------CCCCccccccccceeeccccccccccccccccccCCchhHHHHHHHHHhccceEEEEEeCCcccch
Confidence            45555555      67888899999987763  333  457899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC-----CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHH
Q 029517           96 EDSKTALEKVLRNEDLQGAPLLILANKQDLPD-----AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE  170 (192)
Q Consensus        96 ~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~  170 (192)
                      +.+..|+..+..... ...|+++++||+|+..     .++.+++.++++     ..+++|++|||++|.||+++|.+|.+
T Consensus        92 ~~~~~~~~~~~~~~~-~~~~~~~v~nk~d~~~~~~~~~v~~~~~~~~~~-----~~~~~~~e~Sak~g~gV~e~F~~i~~  165 (170)
T d1ek0a_          92 IKARHWVKELHEQAS-KDIIIALVGNKIDMLQEGGERKVAREEGEKLAE-----EKGLLFFETSAKTGENVNDVFLGIGE  165 (170)
T ss_dssp             HHHHHHHHHHHHHSC-TTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHH-----HHTCEEEECCTTTCTTHHHHHHHHHT
T ss_pred             hhhhhhhhhhccccc-cccceeeeecccccccccchhhhhHHHHHHHHH-----HcCCEEEEecCCCCcCHHHHHHHHHH
Confidence            999999887766432 5789999999999743     567788888887     66789999999999999999999987


Q ss_pred             HH
Q 029517          171 VM  172 (192)
Q Consensus       171 ~i  172 (192)
                      ++
T Consensus       166 ~i  167 (170)
T d1ek0a_         166 KI  167 (170)
T ss_dssp             TS
T ss_pred             Hh
Confidence            64

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.92  E-value=3.4e-25  Score=158.52  Aligned_cols=148  Identities=22%  Similarity=0.330  Sum_probs=116.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EEe--cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IEV--SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||+++++    .+      +.+...+.|+.+.....  +..  ..+.+.+||++|+++|...+..+++.++++|+|||.
T Consensus        17 KTsLi~~~----~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~e~~~~~~~~~~~~~~~~i~v~d~   86 (175)
T d2f9la1          17 KSNLLSRF----TR------NEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDI   86 (175)
T ss_dssp             HHHHHHHH----HH------SCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEEEEEET
T ss_pred             HHHHHHHH----Hh------CCCCCcccccccceeeeEEEEECCEEEEEEecccCCcHHHHHHHHHHhhccCeEEEEEEC
Confidence            55555554    44      56677777777765543  333  457899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      ++++++..+..|+..+.+... .++|+++|+||+|+.+  ....+.......     ..+.++++|||++|.||+++|++
T Consensus        87 ~~~~S~~~~~~~~~~i~~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~e~Sa~~g~~i~e~f~~  160 (175)
T d2f9la1          87 AKHLTYENVERWLKELRDHAD-SNIVIMLVGNKSDLRHLRAVPTDEARAFAE-----KNNLSFIETSALDSTNVEEAFKN  160 (175)
T ss_dssp             TCHHHHHTHHHHHHHHHHHSC-TTCEEEEEEECTTCGGGCCSCHHHHHHHHH-----HTTCEEEECCTTTCTTHHHHHHH
T ss_pred             CCcccchhHHHHHHHHHHhcC-CCCcEEEEEeeecccccccchHHHHHHhhc-----ccCceEEEEecCCCcCHHHHHHH
Confidence            999999999999999887654 5789999999999975  344455555554     45689999999999999999999


Q ss_pred             HHHHHHhcch
Q 029517          168 LVEVMERSKR  177 (192)
Q Consensus       168 i~~~i~~~~~  177 (192)
                      +++.+.+...
T Consensus       161 l~~~i~~~~~  170 (175)
T d2f9la1         161 ILTEIYRIVS  170 (175)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhh
Confidence            9998865443

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.92  E-value=8.7e-26  Score=161.29  Aligned_cols=134  Identities=18%  Similarity=0.229  Sum_probs=104.1

Q ss_pred             CCCCCCcceEEEE----EEecCEEEEEEeCCCCccc-HHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCC
Q 029517           38 DRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGL-RSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQ  112 (192)
Q Consensus        38 ~~~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~-~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~  112 (192)
                      ..+.||+|.+...    +++..+.+.+||+++.... +..+..+++++|++|+|||+++..+++.+..|...+.......
T Consensus        31 ~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~~~~g~e~~~~~~~~~~~~~~ilvfd~t~~~s~~~~~~~~~~i~~~~~~~  110 (172)
T d2g3ya1          31 DSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTE  110 (172)
T ss_dssp             CCC---CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHHHHHCCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGT
T ss_pred             cccccceeeecceeeeccCCceeeeeeeccccccccccccccccccccceeeeeecccccchhhhhhhhhhhhhhccccC
Confidence            3445666655442    3334677889998764321 2256678899999999999999999999999999888765556


Q ss_pred             CCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhcc
Q 029517          113 GAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSK  176 (192)
Q Consensus       113 ~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~~  176 (192)
                      ++|+++|+||+|+..  +++.+++.++++     ..+++|++|||++|.||+++|++|++.+...+
T Consensus       111 ~~piilvgnK~Dl~~~~~v~~~~~~~~a~-----~~~~~~~e~Sak~g~~i~~~f~~l~~~i~~rr  171 (172)
T d2g3ya1         111 DIPIILVGNKSDLVRCREVSVSEGRACAV-----VFDCKFIETSAAVQHNVKELFEGIVRQVRLRR  171 (172)
T ss_dssp             TSCEEEEEECTTCGGGCCSCHHHHHHHHH-----HHTCEEEECBTTTTBSHHHHHHHHHHHHHHHC
T ss_pred             CceEEEEeccccccccccccHHHHHHHHH-----HcCCeEEEEeCCCCcCHHHHHHHHHHHHHHcc
Confidence            899999999999866  577888887776     55789999999999999999999999886543

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.92  E-value=3.2e-25  Score=158.39  Aligned_cols=148  Identities=22%  Similarity=0.306  Sum_probs=117.1

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE----EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||+++++    ..      +.+.+.+.|+.+.....    .....+.+.+||++|++.+...+..+++.+|++|+|+|+
T Consensus        16 KTsli~r~----~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~d~~ilv~d~   85 (173)
T d2a5ja1          16 KSCLLLQF----TD------KRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDI   85 (173)
T ss_dssp             HHHHHHHH----HH------SCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSEEEEEEET
T ss_pred             HHHHHHHH----hc------CCCCCCcccceeeccceeeeeeeeeEEEEEeecccCccchhhHHHHHhhccCEEEEEEee
Confidence            56665555    44      55666667776665553    223457999999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      +++.+++.+..|+..+.+... .++|+++|+||+|+..  ....+++.++++     ..+++++++||++|.||+++|.+
T Consensus        86 ~~~~sf~~~~~~~~~~~~~~~-~~~piilv~nK~D~~~~~~~~~~~~~~~a~-----~~~~~~~e~Sa~tg~~V~e~f~~  159 (173)
T d2a5ja1          86 TRRETFNHLTSWLEDARQHSS-SNMVIMLIGNKSDLESRRDVKREEGEAFAR-----EHGLIFMETSAKTACNVEEAFIN  159 (173)
T ss_dssp             TCHHHHHTHHHHHHHHHHHSC-TTCEEEEEEECTTCGGGCCSCHHHHHHHHH-----HHTCEEEEECTTTCTTHHHHHHH
T ss_pred             cChHHHHhHHHHHHHHHHhCC-CCCeEEEEecCCchhhhhhhHHHHHHHHHH-----HcCCEEEEecCCCCCCHHHHHHH
Confidence            999999999999998877543 5789999999999865  567777888876     55789999999999999999999


Q ss_pred             HHHHHHhcch
Q 029517          168 LVEVMERSKR  177 (192)
Q Consensus       168 i~~~i~~~~~  177 (192)
                      |.+.+.+..+
T Consensus       160 i~~~i~~~~~  169 (173)
T d2a5ja1         160 TAKEIYRKIQ  169 (173)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9998875443

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.91  E-value=2.3e-24  Score=153.90  Aligned_cols=149  Identities=19%  Similarity=0.264  Sum_probs=105.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEE-----ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEe
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIE-----VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVID   88 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~-----~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D   88 (192)
                      |||++++|+    +      +.+.+.+.||.+.......     ...+.+.+||++|++++...+..+++.++++++|||
T Consensus        15 KSsLi~~~~----~------~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d   84 (175)
T d1ky3a_          15 KTSLMHRYV----N------DKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYD   84 (175)
T ss_dssp             HHHHHHHHH----H------SCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCEEEEEEE
T ss_pred             HHHHHHHHH----c------CCCCCccCcccccceeeeeeeecCcccccceeeccCCchhhhhHHHHHhhccceEEEEee
Confidence            566666554    3      4566677777776555422     234689999999999999999999999999999999


Q ss_pred             CCCcccHHHHHHHHHHHHhC---CCCCCCcEEEEEeCCCCCC---CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHH
Q 029517           89 AACPSRFEDSKTALEKVLRN---EDLQGAPLLILANKQDLPD---AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIK  162 (192)
Q Consensus        89 ~~~~~s~~~~~~~~~~i~~~---~~~~~~piiiv~nK~Dl~~---~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  162 (192)
                      ++++.+++.+..|+..+...   ....++|+++++||+|+.+   .++.+++.++++    .....+|++|||++|.||+
T Consensus        85 ~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~----~~~~~~~~e~SA~~g~gv~  160 (175)
T d1ky3a_          85 VTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAK----SLGDIPLFLTSAKNAINVD  160 (175)
T ss_dssp             TTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHH----HTTSCCEEEEBTTTTBSHH
T ss_pred             cccccccchhhhcchhhhhhhhhcccccCcEEEEecccchhhhhcchhHHHHHHHHH----HcCCCeEEEEeCCCCcCHH
Confidence            99999999999999888653   2224789999999999875   366677777765    1235789999999999999


Q ss_pred             HHHHHHHHHHHhcc
Q 029517          163 ESVEWLVEVMERSK  176 (192)
Q Consensus       163 e~~~~i~~~i~~~~  176 (192)
                      ++|++|++.+.+.+
T Consensus       161 e~f~~l~~~~l~~~  174 (175)
T d1ky3a_         161 TAFEEIARSALQQN  174 (175)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcc
Confidence            99999998876543

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.91  E-value=1.1e-23  Score=150.44  Aligned_cols=137  Identities=18%  Similarity=0.300  Sum_probs=111.5

Q ss_pred             CCCCCCCCCCcceEEEE--E--EecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhC-
Q 029517           34 GLPPDRIVPTVGLNIGR--I--EVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRN-  108 (192)
Q Consensus        34 ~~~~~~~~~T~g~~~~~--~--~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~-  108 (192)
                      +.+...+.+|++.....  .  ....+.+.+||++|+..+...+..++..++++++++|.+++.+++.+..|+..+... 
T Consensus        29 ~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~s~~~~~~~~~~i~~~~  108 (174)
T d1wmsa_          29 NKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYA  108 (174)
T ss_dssp             SCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHH
T ss_pred             CCCCCccccceeeeeeeeeeeecCceeeEeeecccCcceehhhhhhhhhccceEEEEEeeecccccchhhhHHHHHHHHh
Confidence            66778888998887653  2  223578999999999999999999999999999999999999999999998777653 


Q ss_pred             --CCCCCCcEEEEEeCCCCCC-CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          109 --EDLQGAPLLILANKQDLPD-AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       109 --~~~~~~piiiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                        ....+.|+++|+||+|+.+ .+..+++.++++    ....++|++|||++|.||+++|++|++.+..
T Consensus       109 ~~~~~~~~piilVgnK~Dl~~~~v~~~~~~~~~~----~~~~~~~~e~Sak~~~gI~e~f~~l~~~il~  173 (174)
T d1wmsa_         109 DVKEPESFPFVILGNKIDISERQVSTEEAQAWCR----DNGDYPYFETSAKDATNVAAAFEEAVRRVLA  173 (174)
T ss_dssp             TCSCTTTSCEEEEEECTTCSSCSSCHHHHHHHHH----HTTCCCEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             ccccCCCceEEEeccccchhhccCcHHHHHHHHH----HcCCCeEEEEcCCCCcCHHHHHHHHHHHHhc
Confidence              3335689999999999976 678888888886    1335789999999999999999999998764

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.91  E-value=1.1e-24  Score=154.41  Aligned_cols=146  Identities=22%  Similarity=0.318  Sum_probs=114.4

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE--EE--ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR--IE--VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~--~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++++|    ..      +.+...+.||++.++..  +.  +..+++.+|||||++.|...+..++++++++++|+|.
T Consensus        15 KTSli~~l----~~------~~~~~~~~~t~~~~~~~~~i~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~   84 (166)
T d1g16a_          15 KSCLLVRF----VE------DKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDI   84 (166)
T ss_dssp             HHHHHHHH----HH------CCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEEEET
T ss_pred             HHHHHHHH----Hh------CCCCCccCCccceeEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEEC
Confidence            55555554    44      56778889999887764  33  3457899999999999999999999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC-CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD-AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWL  168 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i  168 (192)
                      +++++++.+..|...+..... ...|+++++||.|+.. ....+++.++++     ..++++++|||++|.||+++|++|
T Consensus        85 ~~~~s~~~~~~~~~~~~~~~~-~~~~~i~~~~k~d~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~e~f~~l  158 (166)
T d1g16a_          85 TDERTFTNIKQWFKTVNEHAN-DEAQLLLVGNKSDMETRVVTADQGEALAK-----ELGIPFIESSAKNDDNVNEIFFTL  158 (166)
T ss_dssp             TCHHHHHTHHHHHHHHHHHSC-TTCEEEEEEECTTCTTCCSCHHHHHHHHH-----HHTCCEEECBTTTTBSHHHHHHHH
T ss_pred             CCccCHHHHHhhhhhhhcccc-CcceeeeecchhhhhhhhhhHHHHHHHHH-----hcCCeEEEECCCCCCCHHHHHHHH
Confidence            999999999988887776543 5689999999999877 566777777776     567899999999999999999999


Q ss_pred             HHHHHhc
Q 029517          169 VEVMERS  175 (192)
Q Consensus       169 ~~~i~~~  175 (192)
                      ++.+.+.
T Consensus       159 ~~~i~~k  165 (166)
T d1g16a_         159 AKLIQEK  165 (166)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHhc
Confidence            9987653

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.91  E-value=1.5e-24  Score=155.72  Aligned_cols=146  Identities=18%  Similarity=0.268  Sum_probs=115.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||+++++    ..      +.|...|.||++..+..   ++...+.+.+||++|++.+...+..+++++|++++|||++
T Consensus        15 KTsli~r~----~~------~~f~~~~~~t~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~   84 (179)
T d1m7ba_          15 KTALLHVF----AK------DCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDIS   84 (179)
T ss_dssp             HHHHHHHH----HH------SCCCSSCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETT
T ss_pred             HHHHHHHH----Hh------CCCCCccCCceeecccccccccceEEeeccccccccccccccccchhhhhhhhheeeecc
Confidence            55555555    44      67788889999865553   2235688999999999999888889999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--------------CCCHHHHHhHcCccccCCcceEEEEeeec
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--------------AVSADELARYLDLKKLDERVCMFEAVSGY  156 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--------------~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  156 (192)
                      +++||+.+..|+........ .+.|+++||||+|+..              .++.+++.++++    +.....|+||||+
T Consensus        85 ~~~Sf~~~~~~~~~~~~~~~-~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~V~~~e~~~~a~----~~~~~~y~E~SAk  159 (179)
T d1m7ba_          85 RPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAK----QIGAATYIECSAL  159 (179)
T ss_dssp             CHHHHHHHHHTHHHHHHHHC-TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHH----HHTCSEEEECBTT
T ss_pred             cCCCHHHHHHHHHHHHhccC-CcceEEEEEecccccccchhhHHHhhhhcCcchHHHHHHHHH----HhCCCeEEEEeCC
Confidence            99999998887666554322 5899999999999742              466777777775    1224689999999


Q ss_pred             CCC-CHHHHHHHHHHHHHh
Q 029517          157 DGF-GIKESVEWLVEVMER  174 (192)
Q Consensus       157 ~~~-gi~e~~~~i~~~i~~  174 (192)
                      +|. ||+++|+.+.+.+.+
T Consensus       160 ~~~n~i~~~F~~~~~~~l~  178 (179)
T d1m7ba_         160 QSENSVRDIFHVATLACVN  178 (179)
T ss_dssp             TBHHHHHHHHHHHHHHHHT
T ss_pred             CCCcCHHHHHHHHHHHHhc
Confidence            998 599999999998765

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.90  E-value=3.8e-23  Score=147.88  Aligned_cols=148  Identities=13%  Similarity=0.221  Sum_probs=113.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||+++++++          +.+ ..+.||.+..+..   +++..+.+.+|||+|+.++.     |++.+|++|+|||++
T Consensus        18 KTsLi~~~~~----------~~f-~~~~~t~~~~~~~~i~v~~~~~~l~i~Dt~g~~~~~-----~~~~ad~~ilVfd~~   81 (175)
T d2bmja1          18 KSSLIHRFLT----------GSY-QVLEKTESEQYKKEMLVDGQTHLVLIREEAGAPDAK-----FSGWADAVIFVFSLE   81 (175)
T ss_dssp             HHHHHHHHHH----------SCC-CCCCCSSCEEEEEEEEETTEEEEEEEEECSSCCCHH-----HHHHCSEEEEEEETT
T ss_pred             HHHHHHHHHh----------CCC-CCcCCccceeEEEEeecCceEEEEEEeecccccccc-----cccccceeEEEeecc
Confidence            6666666643          333 3446677666653   33456889999999998763     788999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCC--CCCCCcEEEEEeCCCCCC----CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHH
Q 029517           91 CPSRFEDSKTALEKVLRNE--DLQGAPLLILANKQDLPD----AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKES  164 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~--~~~~~piiiv~nK~Dl~~----~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~  164 (192)
                      +.+||+.+..|+..+....  ....+|+++|+||.|+..    .++.+++.+++.    ...+++|++|||++|.||+++
T Consensus        82 ~~~Sf~~~~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~~~~~~v~~~~~~~~~~----~~~~~~~~e~SAk~~~~v~~~  157 (175)
T d2bmja1          82 DENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALCA----DMKRCSYYETCATYGLNVDRV  157 (175)
T ss_dssp             CHHHHHHHHHHHHHHHHHCC--CCCCEEEEEEECTTCCSSSCCCSCHHHHHHHHH----TSTTEEEEEEBTTTTBTHHHH
T ss_pred             cchhhhhhHHHHHHHHHHhhcccCCccEEEEeeecCcchhhhcchhHHHHHHHHH----HhCCCeEEEeCCCCCcCHHHH
Confidence            9999999999988876532  235689999999998754    456677777754    245789999999999999999


Q ss_pred             HHHHHHHHHhcchhhhh
Q 029517          165 VEWLVEVMERSKRTEML  181 (192)
Q Consensus       165 ~~~i~~~i~~~~~~~~~  181 (192)
                      |.++++.+.+.++++++
T Consensus       158 F~~l~~~i~~~~~~~~l  174 (175)
T d2bmja1         158 FQEVAQKVVTLRKQQQL  174 (175)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhccc
Confidence            99999999887765543

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.90  E-value=2.7e-24  Score=154.80  Aligned_cols=145  Identities=16%  Similarity=0.266  Sum_probs=112.4

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE---EEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR---IEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~---~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~   90 (192)
                      |||++++|+    .      +.|...+.||++..+..   .+...+.+.+||++|++.+...+..+++++|++++|||++
T Consensus        18 KTsli~~~~----~------~~f~~~~~~ti~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~   87 (183)
T d1mh1a_          18 KTCLLISYT----T------NAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLV   87 (183)
T ss_dssp             HHHHHHHHH----H------SSCCSSCCCCSCCEEEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETT
T ss_pred             HHHHHHHHH----h------CCCCcccccceeeceeeeeeccCcceEEEeecccccccchhhhhhcccccceeeeeeccc
Confidence            666666665    3      56778889999866543   2344678999999999999999999999999999999999


Q ss_pred             CcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--------------CCCHHHHHhHcCccccCCcceEEEEeeec
Q 029517           91 CPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--------------AVSADELARYLDLKKLDERVCMFEAVSGY  156 (192)
Q Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--------------~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  156 (192)
                      ++++|+.+..|+....+.. ..+.|+++|+||+|+.+              .....+..++++    +...++|+||||+
T Consensus        88 ~~~sf~~i~~~~~~~~~~~-~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~a~----~~~~~~~~E~SAk  162 (183)
T d1mh1a_          88 SPASFENVRAKWYPEVRHH-CPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAK----EIGAVKYLECSAL  162 (183)
T ss_dssp             CHHHHHHHHHTHHHHHHHH-STTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHH----HTTCSEEEECCTT
T ss_pred             hHHHHHHHHHHHHHHHHHh-CCCCcEEEEeecccchhhhhhhhhhhhccccchhhHHHHHHHH----HcCCceEEEcCCC
Confidence            9999999977555544432 25789999999999753              233334444443    1234799999999


Q ss_pred             CCCCHHHHHHHHHHHHH
Q 029517          157 DGFGIKESVEWLVEVME  173 (192)
Q Consensus       157 ~~~gi~e~~~~i~~~i~  173 (192)
                      +|.||+++|++|++.+.
T Consensus       163 ~~~~V~e~F~~l~~~il  179 (183)
T d1mh1a_         163 TQRGLKTVFDEAIRAVL  179 (183)
T ss_dssp             TCTTHHHHHHHHHHHHS
T ss_pred             CCcCHHHHHHHHHHHHc
Confidence            99999999999998875

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.90  E-value=7.7e-24  Score=152.49  Aligned_cols=152  Identities=16%  Similarity=0.287  Sum_probs=122.4

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEE----ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIE----VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~----~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++++|+    .      +.+...|.||+|.++....    ...+.+.+||++|+..+...+..++..++++++|+|.
T Consensus        15 KSSLi~~l~----~------~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d~   84 (184)
T d1vg8a_          15 KTSLMNQYV----N------KKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDV   84 (184)
T ss_dssp             HHHHHHHHH----H------SCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEEEET
T ss_pred             HHHHHHHHH----h------CCCCCCcCCccceeeeeeeeeeCCceEEEEeeecCCcccccccccccccCccEEEEeecc
Confidence            666666554    3      5577888999998876533    2357899999999998888888999999999999999


Q ss_pred             CCcccHHHHHHHHHHHHhCC---CCCCCcEEEEEeCCCCCC-CCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHH
Q 029517           90 ACPSRFEDSKTALEKVLRNE---DLQGAPLLILANKQDLPD-AVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus        90 ~~~~s~~~~~~~~~~i~~~~---~~~~~piiiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      ++..+++.+..|+..+....   ...++|+++|+||+|+.+ .+..++..+++.    ...++++++|||++|.||+++|
T Consensus        85 ~~~~~~~~~~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~----~~~~~~~~e~Sak~~~gI~e~f  160 (184)
T d1vg8a_          85 TAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVATKRAQAWCY----SKNNIPYFETSAKEAINVEQAF  160 (184)
T ss_dssp             TCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCCCSCHHHHHHHHH----HTTSCCEEECBTTTTBSHHHHH
T ss_pred             cchhhhhcchhhHHHHHHHhccccccCCCEEEEEEeecccccchhHHHHHHHHH----HhcCCeEEEEcCCCCcCHHHHH
Confidence            99999999999988876532   224689999999999876 566666766664    2457899999999999999999


Q ss_pred             HHHHHHHHhcchhh
Q 029517          166 EWLVEVMERSKRTE  179 (192)
Q Consensus       166 ~~i~~~i~~~~~~~  179 (192)
                      ++|++.+.+.+.+.
T Consensus       161 ~~l~~~i~~~~~~~  174 (184)
T d1vg8a_         161 QTIARNALKQETEV  174 (184)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccc
Confidence            99999887765433

>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=99.90  E-value=1.6e-22  Score=141.59  Aligned_cols=148  Identities=31%  Similarity=0.601  Sum_probs=121.1

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS   93 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~   93 (192)
                      |||++|+|.+.-          +...+. +........+...+.+.+||++|.+.+...+..+++.++++++++|.++..
T Consensus        13 KSsLi~~l~~~~----------~~~~~~-~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~   81 (160)
T d1r8sa_          13 KTTILYKLKLGE----------IVTTIP-TIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRE   81 (160)
T ss_dssp             HHHHHHHHHHHC----------SSCCCC-CSSCCEEEEECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTCGG
T ss_pred             HHHHHHHHhcCC----------CCcccc-ceeeEEEEEeeeeEEEEEecCCCcccchhhhhhhhccceeEEEEEEecChH
Confidence            788888876542          222222 223334556677899999999999999999999999999999999999999


Q ss_pred             cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517           94 RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus        94 s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                      ++..+..|+..+.........|+++++||.|+.......++.....+......++++++|||++|+||+++|+||.+++
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~i~~v~~k~d~~~~~~~~~i~~~~~~~~~~~~~~~~~~~SAktg~gi~e~~~~l~~~l  160 (160)
T d1r8sa_          82 RVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQL  160 (160)
T ss_dssp             GHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHhhcccCceEEEEeecccccccccHHHHHHHHHHHHHhhCCCEEEEeECCCCCCHHHHHHHHHhcC
Confidence            9999999999988766557899999999999998777777776665555556788999999999999999999998763

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.90  E-value=1.5e-23  Score=148.34  Aligned_cols=138  Identities=25%  Similarity=0.384  Sum_probs=112.5

Q ss_pred             HHHHHHhhhhccCCCCCCCCCCCCcceEEEE----EEecCEEEEEEeCCCCcccHH-HHHHhhhcCCEEEEEEeCCCccc
Q 029517           20 TLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR----IEVSNSKLVFWDLGGQPGLRS-IWEKYYEEAHAVVFVIDAACPSR   94 (192)
Q Consensus        20 ~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~----~~~~~~~~~i~D~~G~~~~~~-~~~~~~~~~d~ii~v~D~~~~~s   94 (192)
                      +|++|+..      +.+...+.+|.+.....    +......+.+||++|...+.. .+..+++++|++|+|||++++++
T Consensus        17 sLl~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~ilv~d~~~~~s   90 (165)
T d1z06a1          17 CLTYRFCA------GRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMAS   90 (165)
T ss_dssp             HHHHHHHH------SSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEEEEEETTCHHH
T ss_pred             HHHHHHHh------CCCCCccCcccccccceeeeeeeccceEEEEEeccCchhhccccceeeecCCCceEEEEEeehhhh
Confidence            44445554      56677778888866653    333467899999999887654 57789999999999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC--CCCHHHHHhHcCccccCCcceEEEEeeecC---CCCHHHHHHHH
Q 029517           95 FEDSKTALEKVLRNEDLQGAPLLILANKQDLPD--AVSADELARYLDLKKLDERVCMFEAVSGYD---GFGIKESVEWL  168 (192)
Q Consensus        95 ~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~---~~gi~e~~~~i  168 (192)
                      ++.+..|+..+.+.....++|+++||||+|+.+  .++.+++.++++     ..++++++|||++   +.||+++|++|
T Consensus        91 ~~~~~~~~~~i~~~~~~~~~pi~lvgnK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~e~SAkt~~~~~~V~e~F~~l  164 (165)
T d1z06a1          91 FHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFAD-----THSMPLFETSAKNPNDNDHVEAIFMTL  164 (165)
T ss_dssp             HHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHH-----HTTCCEEECCSSSGGGGSCHHHHHHHH
T ss_pred             hhhhhhhhHHHHhhccCCCCeEEEEeccccchhccchhHHHHHHHHH-----HCCCEEEEEecccCCcCcCHHHHHHHh
Confidence            999999999998765556899999999999865  578888888887     5678999999987   55999999987

>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=99.88  E-value=9.6e-22  Score=140.08  Aligned_cols=163  Identities=30%  Similarity=0.614  Sum_probs=128.8

Q ss_pred             hhHHHHhhhhcccc-----------HHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHH
Q 029517            4 LFYGLWKYIFTKTE-----------FHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSI   72 (192)
Q Consensus         4 ~~~~~~~~~~kst~-----------~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~   72 (192)
                      ||+++|+.+.|..+           =.||++|+.+      +.+. ...++.+.....+....+.+.+||++|++.+...
T Consensus         3 ~~~~~~~~~~~k~~kI~vvG~~~~GKSsLi~rl~~------~~~~-~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~   75 (177)
T d1zj6a1           3 LFTRIWRLFNHQEHKVIIVGLDNAGKTTILYQFSM------NEVV-HTSPTIGSNVEEIVINNTRFLMWDIGGQESLRSS   75 (177)
T ss_dssp             HHHHHHHHHTTSCEEEEEEESTTSSHHHHHHHHHT------TSCE-EEECCSCSSCEEEEETTEEEEEEECCC----CGG
T ss_pred             hHHHHHHHhCCCeEEEEEECCCCCCHHHHHHHHhc------CCCC-ccccccceeEEEEeecceEEEEeccccccccccc
Confidence            67888866554321           1277777765      3332 3456667667777788899999999999988888


Q ss_pred             HHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEE
Q 029517           73 WEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEA  152 (192)
Q Consensus        73 ~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~  152 (192)
                      +..++..++++++|+|.++..++.....+.............|+++++||+|+......+++.+.+.+......+.++++
T Consensus        76 ~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~  155 (177)
T d1zj6a1          76 WNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTVAEISQFLKLTSIKDHQWHIQA  155 (177)
T ss_dssp             GHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCCSSCEEEEE
T ss_pred             hhhhhccceeeeeecccccccchhhhhhhhhhhhhcccccceEEEEEEEcccccccCcHHHHHHHHHHHhhHhcCCEEEE
Confidence            99999999999999999999999998887777776655578999999999999888888888888876666677899999


Q ss_pred             eeecCCCCHHHHHHHHHHHHH
Q 029517          153 VSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus       153 ~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      +||++|+||+|+++||.++++
T Consensus       156 ~Sa~tg~Gi~e~~~~L~~~lk  176 (177)
T d1zj6a1         156 CCALTGEGLCQGLEWMMSRLK  176 (177)
T ss_dssp             CBTTTTBTHHHHHHHHHHHHC
T ss_pred             EeCCCCCCHHHHHHHHHHHhC
Confidence            999999999999999998763

>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=99.85  E-value=1.8e-20  Score=131.14  Aligned_cols=146  Identities=31%  Similarity=0.519  Sum_probs=123.1

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS   93 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~   93 (192)
                      |||++|+|++.          . ...+.||.+..........+...+||++|...+...+..+++.++++++++|.++..
T Consensus        13 KSSLln~l~~~----------~-~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~   81 (166)
T d2qtvb1          13 KTTLLHMLKND----------R-LATLQPTWHPTSEELAIGNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPE   81 (166)
T ss_dssp             HHHHHHHHHHS----------C-CCCCCCCCSCEEEEECCTTCCEEEEECCCSGGGGGGGGGGCTTCSEEEEEEETTCGG
T ss_pred             HHHHHHHHhCC----------C-CCeeeceeeEeEEEeccCCeeEEEEeeccchhhhhhHhhhhhheeeeeeeccccchh
Confidence            78888877652          2 235688999999888888899999999999988888999999999999999999999


Q ss_pred             cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCcccc-------CCcceEEEEeeecCCCCHHHHHH
Q 029517           94 RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKL-------DERVCMFEAVSGYDGFGIKESVE  166 (192)
Q Consensus        94 s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~Sa~~~~gi~e~~~  166 (192)
                      ++.....+...........+.|+++++||.|+.......++.+.+.+...       ....+++++|||++|+||+|+|+
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~Gv~e~~~  161 (166)
T d2qtvb1          82 RFDEARVELDALFNIAELKDVPFVILGNKIDAPNAVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQ  161 (166)
T ss_dssp             GHHHHHHHHHHHHTCTTTTTCCEEEEEECTTSSSCCCHHHHHHHHTCSSCCC---CCSSCCEEEEEEBTTTTBSHHHHHH
T ss_pred             hhhhhhHHHHhhhhhhccCCceEEEEeccccccccCCHHHHHHHhhhhhhhHHHhhcccCCCEEEEeeCCCCCCHHHHHH
Confidence            99999888888887766678999999999999887777877777653221       24567899999999999999999


Q ss_pred             HHHH
Q 029517          167 WLVE  170 (192)
Q Consensus       167 ~i~~  170 (192)
                      ||.+
T Consensus       162 ~l~~  165 (166)
T d2qtvb1         162 WLSQ  165 (166)
T ss_dssp             HHTT
T ss_pred             HHhC
Confidence            9864

>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=99.84  E-value=8e-20  Score=128.49  Aligned_cols=151  Identities=34%  Similarity=0.582  Sum_probs=124.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS   93 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~   93 (192)
                      |||++|++++.          .+. ...||.+........+.+.+.+||.+|.+.+......++..++++++++|+.+..
T Consensus        18 KSSLi~~~~~~----------~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (169)
T d1upta_          18 KTTILYRLQVG----------EVV-TTIPTIGFNVETVTYKNLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRD   86 (169)
T ss_dssp             HHHHHHHHHHS----------SCC-CCCCCSSEEEEEEEETTEEEEEEEECCCGGGGGGGGGGCTTCSEEEEEEETTCCT
T ss_pred             HHHHHHHHhCC----------CCc-ceecccceeeeeeccCceEEEEeeccccccccccchhhhhhhhhhhhhhhhhhcc
Confidence            67777776542          333 3468888888888888999999999999998888888999999999999999999


Q ss_pred             cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517           94 RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus        94 s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      ++.....+.............|+++++||.|+.......++.............+++++|||++|.||+++|++|.+.+.
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~i~iv~nk~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gv~e~~~~l~~~l~  166 (169)
T d1upta_          87 RIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLK  166 (169)
T ss_dssp             THHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             hhhhccchhhhhhhhhccccceEEEEEeeccccccccHHHHHHHHHHHHHhcCCCEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            99988888777766555567899999999999987777777665543344467899999999999999999999999875


Q ss_pred             hc
Q 029517          174 RS  175 (192)
Q Consensus       174 ~~  175 (192)
                      +.
T Consensus       167 ~k  168 (169)
T d1upta_         167 SR  168 (169)
T ss_dssp             TC
T ss_pred             hC
Confidence            53

>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=99.81  E-value=3.5e-20  Score=132.36  Aligned_cols=145  Identities=21%  Similarity=0.149  Sum_probs=95.2

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCccc--------HHHHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGL--------RSIWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~--------~~~~~~~~~~~d~ii~   85 (192)
                      |||++|+|+++-....+       .....|...........+..+.+|||||....        ......++++||++++
T Consensus        18 KSSLin~l~~~~~~~~~-------~~~~tt~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~~~~~~~~ad~il~   90 (178)
T d1wf3a1          18 KSTLLNNLLGVKVAPIS-------PRPQTTRKRLRGILTEGRRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVW   90 (178)
T ss_dssp             HHHHHHHHHTSCCSCCC-------SSSCCCCSCEEEEEEETTEEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSEEEE
T ss_pred             HHHHHHHHhCCCceeec-------ccCCcccccccceeeeeeeeeeecccccccccccccchhcccccccccccccceee
Confidence            78888888765332221       22233444445556677889999999997432        2333456788999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHH
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      |+|++++..... ..+...+....  .+.|+++|+||+|+...  .++..+....   ......++++||++|.||++++
T Consensus        91 v~D~~~~~~~~~-~~i~~~l~~~~--~~~piilv~NK~Dl~~~--~~~~~~~~~~---~~~~~~~~~iSA~~~~gi~~L~  162 (178)
T d1wf3a1          91 VVDLRHPPTPED-ELVARALKPLV--GKVPILLVGNKLDAAKY--PEEAMKAYHE---LLPEAEPRMLSALDERQVAELK  162 (178)
T ss_dssp             EEETTSCCCHHH-HHHHHHHGGGT--TTSCEEEEEECGGGCSS--HHHHHHHHHH---TSTTSEEEECCTTCHHHHHHHH
T ss_pred             eechhhhhcccc-cchhhheeccc--cchhhhhhhcccccccC--HHHHHHHHHh---hcccCceEEEecCCCCCHHHHH
Confidence            999987654432 23333333332  46899999999999753  2333222220   0124577889999999999999


Q ss_pred             HHHHHHHH
Q 029517          166 EWLVEVME  173 (192)
Q Consensus       166 ~~i~~~i~  173 (192)
                      ++|.+.+.
T Consensus       163 ~~i~~~lp  170 (178)
T d1wf3a1         163 ADLLALMP  170 (178)
T ss_dssp             HHHHTTCC
T ss_pred             HHHHHhCC
Confidence            99987664

>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=99.78  E-value=1.2e-17  Score=116.75  Aligned_cols=139  Identities=22%  Similarity=0.278  Sum_probs=98.1

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCc--------cc-HHHHHHhhhcCCEE
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQP--------GL-RSIWEKYYEEAHAV   83 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~--------~~-~~~~~~~~~~~d~i   83 (192)
                      =|||++|+|+++-....+..++.+.       ......+...+..+.+|||||..        .+ .......++.+|++
T Consensus        12 GKSSLin~l~g~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~~~~ad~i   84 (160)
T d1xzpa2          12 GKSTLLNRLLNEDRAIVTDIPGTTR-------DVISEEIVIRGILFRIVDTAGVRSETNDLVERLGIERTLQEIEKADIV   84 (160)
T ss_dssp             HTCHHHHHHHHHTBCCCCCSSCCSS-------CSCCEEEEETTEEEEEEESSCCCSSCCTTCCCCCHHHHHHHHHHCSEE
T ss_pred             CHHHHHHHHhCCCceeeeccccccc-------cceeEEEEeCCeeEEeccccccccCCccHHHHHHHHHHHHHHHhCCEE
Confidence            4899999999875543333332221       12233466678899999999932        11 12333457889999


Q ss_pred             EEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHH
Q 029517           84 VFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKE  163 (192)
Q Consensus        84 i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e  163 (192)
                      ++|+|++++...+...-+ ..+      ...|+++++||+|+.+....+++.+.+.      ...+++++||++|.||++
T Consensus        85 i~v~d~~~~~~~~~~~~~-~~~------~~~~~i~~~~k~d~~~~~~~~~~~~~~~------~~~~~~~vSA~~g~gi~~  151 (160)
T d1xzpa2          85 LFVLDASSPLDEEDRKIL-ERI------KNKRYLVVINKVDVVEKINEEEIKNKLG------TDRHMVKISALKGEGLEK  151 (160)
T ss_dssp             EEEEETTSCCCHHHHHHH-HHH------TTSSEEEEEEECSSCCCCCHHHHHHHHT------CSTTEEEEEGGGTCCHHH
T ss_pred             EEEEeCCCCcchhhhhhh-hhc------ccccceeeeeeccccchhhhHHHHHHhC------CCCcEEEEECCCCCCHHH
Confidence            999999988765543222 111      3578999999999998777777776664      245789999999999999


Q ss_pred             HHHHHHHH
Q 029517          164 SVEWLVEV  171 (192)
Q Consensus       164 ~~~~i~~~  171 (192)
                      ++++|.++
T Consensus       152 L~~~I~ke  159 (160)
T d1xzpa2         152 LEESIYRE  159 (160)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHhc
Confidence            99998764

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.78  E-value=5e-19  Score=127.88  Aligned_cols=135  Identities=19%  Similarity=0.329  Sum_probs=101.7

Q ss_pred             CCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc----------cHHHHHHHHHHHHhCC
Q 029517           40 IVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS----------RFEDSKTALEKVLRNE  109 (192)
Q Consensus        40 ~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~----------s~~~~~~~~~~i~~~~  109 (192)
                      |.||+|.++..+....+.+++||++|++.++..|..+++.++++++|+|.++..          .+.+...++..+....
T Consensus        29 ~~pTiG~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~  108 (200)
T d2bcjq2          29 GVPTTGIIEYPFDLQSVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYP  108 (200)
T ss_dssp             CCCCCSCEEEEEECSSCEEEEEECCCSTTGGGGGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCG
T ss_pred             CCceeeEEEEEEeccceeeeeccccccccccccccccccccceeeEeeeccchhhhhhhhccccchHHHHHHHHHHHhhh
Confidence            679999999999999999999999999999999999999999999999987653          2334444444455443


Q ss_pred             CCCCCcEEEEEeCCCCCC------------------CCCHHHHHhHc-----CccccCCcceEEEEeeecCCCCHHHHHH
Q 029517          110 DLQGAPLLILANKQDLPD------------------AVSADELARYL-----DLKKLDERVCMFEAVSGYDGFGIKESVE  166 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~------------------~~~~~~~~~~~-----~~~~~~~~~~~~~~~Sa~~~~gi~e~~~  166 (192)
                      ...+.|+++++||.|+.+                  ..+.....++.     .......+.+.+++|||++|.||+++|+
T Consensus       109 ~~~~~~~~~v~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~f~~~~~~~~~~~~~~~tSAk~~~ni~~vF~  188 (200)
T d2bcjq2         109 WFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFA  188 (200)
T ss_dssp             GGSSSEEEEEEECHHHHHHHTTTSCHHHHSTTCCSCSSCHHHHHHHHHHHHHTTCSCTTSCEEEEECCTTCHHHHHHHHH
T ss_pred             hccCccEEEecchhhhhhhcccchHHHHhcccccCCchhHHHHHHHHHHHHHHhcccCCCceEEEEeEEEcCHhHHHHHH
Confidence            346899999999999732                  11122222221     1222234568889999999999999999


Q ss_pred             HHHHHHHh
Q 029517          167 WLVEVMER  174 (192)
Q Consensus       167 ~i~~~i~~  174 (192)
                      .+.+.+.+
T Consensus       189 ~i~~~I~~  196 (200)
T d2bcjq2         189 AVKDTILQ  196 (200)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99887764

>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=99.77  E-value=2.9e-18  Score=122.10  Aligned_cols=134  Identities=28%  Similarity=0.522  Sum_probs=106.3

Q ss_pred             CCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEE
Q 029517           39 RIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLI  118 (192)
Q Consensus        39 ~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piii  118 (192)
                      ...||.+.+...+......+.+||++++..+...+..+.+.++++++++|+++...+.....++..........+.|+++
T Consensus        40 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~li  119 (186)
T d1f6ba_          40 QHVPTLHPTSEELTIAGMTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILI  119 (186)
T ss_dssp             ---CCCCCSCEEEEETTEEEEEEEECC----CCGGGGGGGGCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEE
T ss_pred             ceecccccceeEEEecccccccccccchhhhhhHHhhhhcccceeeeeeeccCccchHHHHHHHHHhhcccccCCCceEE
Confidence            34577777777788888999999999999888888889999999999999999999988887777666655557899999


Q ss_pred             EEeCCCCCCCCCHHHHHhHcCcc------------ccCCcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517          119 LANKQDLPDAVSADELARYLDLK------------KLDERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus       119 v~nK~Dl~~~~~~~~~~~~~~~~------------~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                      ++||.|+......+++.+.+.+.            .....++++++|||++|+||+|+|+||.+.+
T Consensus       120 ~~~K~D~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~Gi~e~~~~l~~~i  185 (186)
T d1f6ba_         120 LGNKIDRPEAISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQYI  185 (186)
T ss_dssp             EEECTTSTTCCCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEEEECBTTTTBSHHHHHHHHHTTC
T ss_pred             EEeccCccccCCHHHHHHHHhhcccchhhhhhhHHHhhcCCCEEEEEeCCCCCCHHHHHHHHHHhh
Confidence            99999999888888777766522            1234467899999999999999999998753

>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=99.77  E-value=4.7e-19  Score=126.66  Aligned_cols=156  Identities=13%  Similarity=0.158  Sum_probs=97.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS   93 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~   93 (192)
                      |||++|+|++............... ...|.......+...+..+.++|+||+.+|.......+..+|++++|+|+++..
T Consensus        18 KSTL~n~L~~~~~~~~~~~~~~~~~-~g~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~l~~~d~~ilv~d~~~g~   96 (179)
T d1wb1a4          18 KTTLSKVLTEIASTSAHDKLPESQK-RGITIDIGFSAFKLENYRITLVDAPGHADLIRAVVSAADIIDLALIVVDAKEGP   96 (179)
T ss_dssp             HHHHHHHHHTTC---------------------CCCEEEETTEEEEECCCSSHHHHHHHHHHHTTSCCEEEEEEETTTCS
T ss_pred             HHHHHHHHHHhcCceecccccceee-eeeeccccccccccCCccccccccccccccccchhhhhhhcccccccccccccc
Confidence            8999999985332211111111111 112233333456667889999999999999998888999999999999998765


Q ss_pred             cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHH---HHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHH
Q 029517           94 RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSAD---ELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVE  170 (192)
Q Consensus        94 s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~---~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~  170 (192)
                      ..+.. ..+.. ...   .++|+++|+||+|+.+....+   +..+.+..........+++++||++|.|++++++.|.+
T Consensus        97 ~~~~~-~~~~~-~~~---~~~p~iiv~NKiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~iSA~~g~gi~eL~~~I~~  171 (179)
T d1wb1a4          97 KTQTG-EHMLI-LDH---FNIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSIIPISAKTGFGVDELKNLIIT  171 (179)
T ss_dssp             CHHHH-HHHHH-HHH---TTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCEEECCTTTCTTHHHHHHHHHH
T ss_pred             chhhh-hhhhh-hhh---cCCcceeccccccccCHHHHHHHHHHHHHHHHHhhcCCCCeEEEEEccCCcCHHHHHHHHHh
Confidence            44332 22222 222   368999999999987632211   11111110111233578999999999999999999998


Q ss_pred             HHHhc
Q 029517          171 VMERS  175 (192)
Q Consensus       171 ~i~~~  175 (192)
                      .+...
T Consensus       172 ~l~~~  176 (179)
T d1wb1a4         172 TLNNA  176 (179)
T ss_dssp             HHHHS
T ss_pred             cCCcc
Confidence            87653

>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=99.76  E-value=8.6e-19  Score=126.13  Aligned_cols=134  Identities=19%  Similarity=0.336  Sum_probs=98.6

Q ss_pred             CCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccH----------HHHHHHHHHHHhCCC
Q 029517           41 VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRF----------EDSKTALEKVLRNED  110 (192)
Q Consensus        41 ~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~----------~~~~~~~~~i~~~~~  110 (192)
                      .||+|.....+....+++++||++|++.++..+..|++.++++++|+|.++..++          .+...++..+.....
T Consensus        27 ~~t~~~~~~~~~~~~~~~~i~D~~Gq~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~~~~  106 (195)
T d1svsa1          27 EAGTGIVETHFTFKDLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKW  106 (195)
T ss_dssp             SCCCSEEEEEEEETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTCGG
T ss_pred             CCCccEEEEEEEeeeeeeeeeccccccccccchhhcccCCceeeeEEeecccchHHHHhhhhHHHHHHHHHHHHHhcccc
Confidence            3567777777888899999999999999999999999999999999999877655          233444455554444


Q ss_pred             CCCCcEEEEEeCCCCCC-----------------CCCHHHHHhHc-----Cc-cccCCcceEEEEeeecCCCCHHHHHHH
Q 029517          111 LQGAPLLILANKQDLPD-----------------AVSADELARYL-----DL-KKLDERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus       111 ~~~~piiiv~nK~Dl~~-----------------~~~~~~~~~~~-----~~-~~~~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      ....|+++++||.|+..                 ....++.....     .. .....+.+.+++|||++|.||+++|+.
T Consensus       107 ~~~~~~~lv~Nk~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~tSA~~~~nv~~~F~~  186 (195)
T d1svsa1         107 FTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDA  186 (195)
T ss_dssp             GTTSEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHH
T ss_pred             cCCCCEEEEeccchhhhhhccchHHHHHhhhhcCcccHHHHHHHHHHHHHHHhcccCCCcceeEEEEeECCHhHHHHHHH
Confidence            46789999999998621                 11222222111     11 112245778889999999999999999


Q ss_pred             HHHHHHh
Q 029517          168 LVEVMER  174 (192)
Q Consensus       168 i~~~i~~  174 (192)
                      +.+.+.+
T Consensus       187 v~~~il~  193 (195)
T d1svsa1         187 VTDVIIK  193 (195)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            9887754

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.76  E-value=1.5e-18  Score=125.61  Aligned_cols=137  Identities=17%  Similarity=0.322  Sum_probs=97.8

Q ss_pred             CCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcc----------cHHHHHHHHHHHHh
Q 029517           38 DRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPS----------RFEDSKTALEKVLR  107 (192)
Q Consensus        38 ~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~----------s~~~~~~~~~~i~~  107 (192)
                      ..+.||+|.....+..+...+++||++|++.++..+..+++.++++++++|.++..          ++++...++..+..
T Consensus        26 ~~~~pTiG~~~~~~~~~~~~~~~~D~~gq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~  105 (200)
T d1zcba2          26 HGQDPTKGIHEYDFEIKNVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVN  105 (200)
T ss_dssp             HSCCCCSSEEEEEEEETTEEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHT
T ss_pred             CCCCCeeeeEEEEEeeeeeeeeeecccceeeecccccccccccceeEEEEEcCCcceeeeecccchhhhHHHHHHHHHhh
Confidence            34689999999999999999999999999999999999999999999999998653          35666777777777


Q ss_pred             CCCCCCCcEEEEEeCCCCCC------------------CCCHHHHHhHcC-----c-cccCCcceEEEEeeecCCCCHHH
Q 029517          108 NEDLQGAPLLILANKQDLPD------------------AVSADELARYLD-----L-KKLDERVCMFEAVSGYDGFGIKE  163 (192)
Q Consensus       108 ~~~~~~~piiiv~nK~Dl~~------------------~~~~~~~~~~~~-----~-~~~~~~~~~~~~~Sa~~~~gi~e  163 (192)
                      .....+.|+++++||.|+.+                  ....+.+.+++.     + .....+.+.+++|||+++.||++
T Consensus       106 ~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~iy~~~TsA~d~~ni~~  185 (200)
T d1zcba2         106 NRVFSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHFTTAINTENIRL  185 (200)
T ss_dssp             CGGGTTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--CCEEEECCTTCHHHHHH
T ss_pred             ChhhcCceEEEEeccchhhhhhccccHHHHhCccccCCcchHHHHHHHHHHHHHHhccCCCCCceEEEEeeeeCcHHHHH
Confidence            65557899999999999732                  112222322221     0 01123456677899999999999


Q ss_pred             HHHHHHHHHHh
Q 029517          164 SVEWLVEVMER  174 (192)
Q Consensus       164 ~~~~i~~~i~~  174 (192)
                      +|+.+.+.+.+
T Consensus       186 vf~~v~d~i~~  196 (200)
T d1zcba2         186 VFRDVKDTILH  196 (200)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99998877654

>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=99.76  E-value=6.5e-19  Score=123.43  Aligned_cols=139  Identities=16%  Similarity=0.195  Sum_probs=96.0

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCccc--------HHHHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGL--------RSIWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~--------~~~~~~~~~~~d~ii~   85 (192)
                      |||++|+|+++-....++.++.       +.......+...+..+.+||+||....        ......++..+|++++
T Consensus        14 KSsLin~l~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~d~~i~   86 (161)
T d2gj8a1          14 KSSLLNALAGREAAIVTDIAGT-------TRDVLREHIHIDGMPLHIIDTAGLREASDEVERIGIERAWQEIEQADRVLF   86 (161)
T ss_dssp             HHHHHHHHHTSCCSCCCSSTTC-------CCSCEEEEEEETTEEEEEEECCCCSCCSSHHHHHHHHHHHHHHHTCSEEEE
T ss_pred             HHHHHHHHhCCCceEeeccccc-------ccceEeeeeeccCceeeeccccccccccccchhHHHHHHHHHHHhccccce
Confidence            8899888886533322222221       222223456677889999999995422        1223456789999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHHH
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKESV  165 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~  165 (192)
                      ++|..+..+++....|...+....  .+.|+++|+||+|+......      +.    ...+.+++++||++|.||++++
T Consensus        87 ~~d~~~~~~~~~~~~~~~~~~~~~--~~~~iilv~NK~Dl~~~~~~------~~----~~~~~~~~~iSAk~~~gi~~L~  154 (161)
T d2gj8a1          87 MVDGTTTDAVDPAEIWPEFIARLP--AKLPITVVRNKADITGETLG------MS----EVNGHALIRLSARTGEGVDVLR  154 (161)
T ss_dssp             EEETTTCCCCSHHHHCHHHHHHSC--TTCCEEEEEECHHHHCCCCE------EE----EETTEEEEECCTTTCTTHHHHH
T ss_pred             eeccccccchhhhhhhhhhhhhcc--cccceeeccchhhhhhhHHH------HH----HhCCCcEEEEECCCCCCHHHHH
Confidence            999998887777666655555443  47899999999998642210      00    1336789999999999999999


Q ss_pred             HHHHHH
Q 029517          166 EWLVEV  171 (192)
Q Consensus       166 ~~i~~~  171 (192)
                      ++|.+.
T Consensus       155 ~~l~~~  160 (161)
T d2gj8a1         155 NHLKQS  160 (161)
T ss_dssp             HHHHHH
T ss_pred             HHHHhh
Confidence            999875

>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=99.76  E-value=2.4e-18  Score=121.89  Aligned_cols=147  Identities=17%  Similarity=0.148  Sum_probs=93.2

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCc---------ccHHHHHHhhhcCCEE
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQP---------GLRSIWEKYYEEAHAV   83 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~---------~~~~~~~~~~~~~d~i   83 (192)
                      =|||++|+|+++.....+..+       ..|.......+......+.+||++|..         .+......++..+|++
T Consensus        12 GKSsLi~~L~~~~~~~~~~~~-------~~t~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~ad~i   84 (171)
T d1mkya1          12 GKSTLFNKLVKKKKAIVEDEE-------GVTRDPVQDTVEWYGKTFKLVDTCGVFDNPQDIISQKMKEVTLNMIREADLV   84 (171)
T ss_dssp             SHHHHHHHHHC---------------------CCSEEEEEETTEEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTCSEE
T ss_pred             CHHHHHHHHhCCCcceecccC-------ceeeccccccccccccccccccccceeeeeccccccccccccccccccCcEE
Confidence            389999999876544333332       333333456677888999999999931         2233445567899999


Q ss_pred             EEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHH
Q 029517           84 VFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKE  163 (192)
Q Consensus        84 i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e  163 (192)
                      +++.|.+....... ..++..+..    .++|+++|+||+|+......+...+..+     .....++++||++|.||++
T Consensus        85 ~~~~~~~~~~~~~~-~~~~~~l~~----~~~pviiv~NK~Dl~~~~~~~~~~~~~~-----~~~~~~i~iSAk~g~gid~  154 (171)
T d1mkya1          85 LFVVDGKRGITKED-ESLADFLRK----STVDTILVANKAENLREFEREVKPELYS-----LGFGEPIPVSAEHNINLDT  154 (171)
T ss_dssp             EEEEETTTCCCHHH-HHHHHHHHH----HTCCEEEEEESCCSHHHHHHHTHHHHGG-----GSSCSCEECBTTTTBSHHH
T ss_pred             EEeecccccccccc-ccccccccc----ccccccccchhhhhhhhhhhHHHHHHHh-----cCCCCeEEEecCCCCCHHH
Confidence            99999876654432 233333333    3689999999999875333333333333     2233568899999999999


Q ss_pred             HHHHHHHHHHhcc
Q 029517          164 SVEWLVEVMERSK  176 (192)
Q Consensus       164 ~~~~i~~~i~~~~  176 (192)
                      ++++|.+.+.+..
T Consensus       155 L~~~i~~~l~e~~  167 (171)
T d1mkya1         155 MLETIIKKLEEKG  167 (171)
T ss_dssp             HHHHHHHHHHHTT
T ss_pred             HHHHHHHhCCCCC
Confidence            9999999886653

>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=99.75  E-value=6e-19  Score=126.01  Aligned_cols=149  Identities=20%  Similarity=0.252  Sum_probs=95.1

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEE-ecCEEEEEEeCCCCc-------ccHHHHHHhhhcCCEEE
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIE-VSNSKLVFWDLGGQP-------GLRSIWEKYYEEAHAVV   84 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~-~~~~~~~i~D~~G~~-------~~~~~~~~~~~~~d~ii   84 (192)
                      =|||++|+|++....    +.+..    ..|....+.... ....++++|||||..       ........++..+++++
T Consensus        13 GKSTLin~L~~~~~~----~~~~~----~~t~~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~~~   84 (180)
T d1udxa2          13 GKSSLLAAMTRAHPK----IAPYP----FTTLSPNLGVVEVSEEERFTLADIPGIIEGASEGKGLGLEFLRHIARTRVLL   84 (180)
T ss_dssp             CHHHHHHHHCSSCCE----ECCCT----TCSSCCEEEEEECSSSCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSSEEE
T ss_pred             CHHHHHHHHhCCCCc----eeccC----CCceeeeeceeeecCCCeEEEcCCCeeecCchHHHHHHHHHHHHHHhhhhhh
Confidence            378888887654222    22222    223333333332 346689999999942       22233445678999999


Q ss_pred             EEEeCCCcc--cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHH
Q 029517           85 FVIDAACPS--RFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIK  162 (192)
Q Consensus        85 ~v~D~~~~~--s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  162 (192)
                      +++|.....  .+.....++......  ..++|+++|+||+|+......+++.+.+.     ..+.+++++||++|.||+
T Consensus        85 ~~~d~~~~~~~~~~~~~~~~~~~~~~--~~~~p~iiv~NK~D~~~~~~~~~~~~~~~-----~~~~~~~~iSA~tg~gid  157 (180)
T d1udxa2          85 YVLDAADEPLKTLETLRKEVGAYDPA--LLRRPSLVALNKVDLLEEEAVKALADALA-----REGLAVLPVSALTGAGLP  157 (180)
T ss_dssp             EEEETTSCHHHHHHHHHHHHHHHCHH--HHHSCEEEEEECCTTSCHHHHHHHHHHHH-----TTTSCEEECCTTTCTTHH
T ss_pred             hhcccccccccchhhhhhhhhccccc--cchhhhhhhhhhhhhhhHHHHHHHHHHHH-----hcCCeEEEEEcCCCCCHH
Confidence            999986432  233333333322211  13589999999999976444444444444     457889999999999999


Q ss_pred             HHHHHHHHHHHhcc
Q 029517          163 ESVEWLVEVMERSK  176 (192)
Q Consensus       163 e~~~~i~~~i~~~~  176 (192)
                      ++++.|.+.+....
T Consensus       158 ~L~~~i~~~l~~~~  171 (180)
T d1udxa2         158 ALKEALHALVRSTP  171 (180)
T ss_dssp             HHHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHhhcC
Confidence            99999988886543

>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=99.67  E-value=1.2e-16  Score=114.24  Aligned_cols=149  Identities=20%  Similarity=0.163  Sum_probs=92.7

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcc------------cHHHHHHhhhcCC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPG------------LRSIWEKYYEEAH   81 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~------------~~~~~~~~~~~~d   81 (192)
                      |||++|+|+++-...+.+.+       ..|.......+...+..+.++|+||...            .......+++.+|
T Consensus        21 KSTLin~l~~~~~~~~~~~~-------~t~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~d   93 (186)
T d1mkya2          21 KSTLFNAILNKERALVSPIP-------GTTRDPVDDEVFIDGRKYVFVDTAGLRRKSRVEPRTVEKYSNYRVVDSIEKAD   93 (186)
T ss_dssp             HHHHHHHHHTSTTEEECCCC-------------CCEEEEETTEEEEESSCSCC-----------CCSCCHHHHHHHHHCS
T ss_pred             HHHHHHHHHCCCcceeeccc-------ccccccceeeeccCCceeeeeccCCccccccccccccccchhHHHHHHHhcCC
Confidence            89999998875443322222       2222222344666678889999999532            2234455678999


Q ss_pred             EEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCC--CHHHHHhHcCccccCCcceEEEEeeecCCC
Q 029517           82 AVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAV--SADELARYLDLKKLDERVCMFEAVSGYDGF  159 (192)
Q Consensus        82 ~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  159 (192)
                      ++++|+|+..+..- ....++..+..    .+.|+++++||+|+....  ..+++.+.+..........+++++||++|.
T Consensus        94 vii~v~d~~~~~~~-~~~~~~~~~~~----~~~~~i~v~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~vSa~~g~  168 (186)
T d1mkya2          94 VVVIVLDATQGITR-QDQRMAGLMER----RGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLIFTSADKGW  168 (186)
T ss_dssp             EEEEEEETTTCCCH-HHHHHHHHHHH----TTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCEEECBTTTTB
T ss_pred             EEEEeecccccchh-hHHHHHHHHHH----cCCceeeeccchhhhcchhhhhhhHHHHHHHHhcccCCCeEEEEeCCCCC
Confidence            99999999865432 22333333333    368999999999986522  233333333311111234578999999999


Q ss_pred             CHHHHHHHHHHHHHh
Q 029517          160 GIKESVEWLVEVMER  174 (192)
Q Consensus       160 gi~e~~~~i~~~i~~  174 (192)
                      ||++++++|.+.+..
T Consensus       169 gv~~L~~~i~~~~~~  183 (186)
T d1mkya2         169 NIDRMIDAMNLAYAS  183 (186)
T ss_dssp             SHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHh
Confidence            999999999776654

>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=99.67  E-value=1.3e-16  Score=117.57  Aligned_cols=135  Identities=19%  Similarity=0.361  Sum_probs=103.3

Q ss_pred             CCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCc----------ccHHHHHHHHHHHHhCC
Q 029517           40 IVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACP----------SRFEDSKTALEKVLRNE  109 (192)
Q Consensus        40 ~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~----------~s~~~~~~~~~~i~~~~  109 (192)
                      +.||+|+....+..+++++++||++|++.++..|..++++++++++|+|.++.          .+..+...++..++...
T Consensus        31 ~~pTiG~~~~~~~~~~~~~~~~D~~Gq~~~r~~w~~~~~~~~~ii~v~d~s~~~~~~~~~~~~~r~~e~~~~~~~il~~~  110 (221)
T d1azta2          31 VVLTSGIFETKFQVDKVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNR  110 (221)
T ss_dssp             CCCCCSCEEEEEEETTEEEEEEECCCSTTTTTGGGGGCTTCSEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCG
T ss_pred             cCCCCCeEEEEEEECcEEEEEEecCccceeccchhhhcccccceEEEEEccccccccccccchHHHHHHHHHHHHHhcCh
Confidence            36899999999999999999999999999999999999999999999998743          34566777777888776


Q ss_pred             CCCCCcEEEEEeCCCCCCC------CC--------------------------HHHHHhHcC--------ccccCCcceE
Q 029517          110 DLQGAPLLILANKQDLPDA------VS--------------------------ADELARYLD--------LKKLDERVCM  149 (192)
Q Consensus       110 ~~~~~piiiv~nK~Dl~~~------~~--------------------------~~~~~~~~~--------~~~~~~~~~~  149 (192)
                      ...++|+++++||+|+.+.      ..                          ...+..++.        ......+.+.
T Consensus       111 ~~~~~~iil~~NK~Dl~~~k~~~~~~~~~~~f~~~~~~~~~~~~~~~~g~~~~~~~a~~~i~~~f~~~~~~~~~~~~~~y  190 (221)
T d1azta2         111 WLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCY  190 (221)
T ss_dssp             GGSSCEEEEEEECHHHHHHHHHHCSSCHHHHCGGGGGCCCCTTCCCCTTCCHHHHHHHHHHHHHHHHHHTSSCTTSCCEE
T ss_pred             hhCCCcEEEEechhhhhhhhhccCcccHHHhCccccccCCcccccccCCCchhHHHHHHHHHHHHHHHhccCCCCCCcee
Confidence            6678999999999998431      11                          111111111        1111224566


Q ss_pred             EEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          150 FEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       150 ~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      .++|||+++.||..+|+.+.+.|.+
T Consensus       191 ~h~T~A~Dt~ni~~vf~~v~d~I~~  215 (221)
T d1azta2         191 PHFTCAVDTENIRRVFNDCRDIIQR  215 (221)
T ss_dssp             EEECCTTCHHHHHHHHHTTHHHHHH
T ss_pred             eeecceeccHHHHHHHHHHHHHHHH
Confidence            7899999999999999998776664

>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=99.67  E-value=5.3e-17  Score=115.84  Aligned_cols=142  Identities=20%  Similarity=0.178  Sum_probs=84.6

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCc-----------c----cHHHHHHhhh
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQP-----------G----LRSIWEKYYE   78 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~-----------~----~~~~~~~~~~   78 (192)
                      |||++|+|+++... .++.++       .|...  ..+...+  +.+|||||..           .    +........+
T Consensus        13 KSsLin~l~~~~~~-~~~~~g-------~T~~~--~~~~~~~--~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (184)
T d2cxxa1          13 KSTLIYRLTGKKVR-RGKRPG-------VTRKI--IEIEWKN--HKIIDMPGFGFMMGLPKEVQERIKDEIVHFIEDNAK   80 (184)
T ss_dssp             HHHHHHHHHSCCCS-SSSSTT-------CTTSC--EEEEETT--EEEEECCCBSCCTTSCHHHHHHHHHHHHHHHHHHGG
T ss_pred             HHHHHHHHhCCCce-eeCCCC-------Eeecc--ccccccc--ceecccCCceeccccccccccccchhhhhhhhhccc
Confidence            89999999875322 122221       23322  2333333  5789999941           1    1122344567


Q ss_pred             cCCEEEEEEeCCCcccHHHH----------HHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHH----hHcCccccC
Q 029517           79 EAHAVVFVIDAACPSRFEDS----------KTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELA----RYLDLKKLD  144 (192)
Q Consensus        79 ~~d~ii~v~D~~~~~s~~~~----------~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~----~~~~~~~~~  144 (192)
                      .+|++++|+|++........          .+.+..+ ..   .++|+++|+||+|+.+.  .+...    +... ....
T Consensus        81 ~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l-~~---~~~p~iiv~NK~D~~~~--~~~~~~~~~~~~~-~~~~  153 (184)
T d2cxxa1          81 NIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFL-RE---LDIPTIVAVNKLDKIKN--VQEVINFLAEKFE-VPLS  153 (184)
T ss_dssp             GCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHH-HH---TTCCEEEEEECGGGCSC--HHHHHHHHHHHHT-CCGG
T ss_pred             ccchheeeeeccccchhhhhhhhccccHHHHHHHHHH-HH---cCCCEEEEEeeeehhhh--HHHHHHHHHHHhc-cccc
Confidence            89999999998643211110          0122222 22   36899999999998642  22222    2222 1122


Q ss_pred             CcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          145 ERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       145 ~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                      .....++++||++|.||++++++|.+.+.+
T Consensus       154 ~~~~~~~~vSA~~g~gi~~L~~~i~~~l~e  183 (184)
T d2cxxa1         154 EIDKVFIPISAKFGDNIERLKNRIFEVIRE  183 (184)
T ss_dssp             GHHHHEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHHHccC
Confidence            334568899999999999999999988865

>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=99.66  E-value=1.8e-16  Score=117.18  Aligned_cols=121  Identities=17%  Similarity=0.169  Sum_probs=82.3

Q ss_pred             ecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC--
Q 029517           53 VSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVS--  130 (192)
Q Consensus        53 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~--  130 (192)
                      .+...+.++|||||.+|.......+..||++|+|+|+.+.-..+. ...+..+..    .++|+++++||+|+.....  
T Consensus        67 ~~~~~~~~iDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~~-~~~~~~~~~----~~~p~iivlNK~D~~~~~~~~  141 (227)
T d1g7sa4          67 ETLPGLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQT-QEALNILRM----YRTPFVVAANKIDRIHGWRVH  141 (227)
T ss_dssp             GTCCEEEEECCCTTSCCTTSBCSSSBSCSEEEEEEETTTCCCHHH-HHHHHHHHH----TTCCEEEEEECGGGSTTCCCC
T ss_pred             ccccccccccccceecccccchhcccccceEEEEEecccCcccch-hHHHHHhhc----CCCeEEEEEECccCCCchhhh
Confidence            345689999999999987777777888999999999987644433 222333332    3689999999999865211  


Q ss_pred             -HHHHHhHcC----------------------cc----------ccCCcceEEEEeeecCCCCHHHHHHHHHHHHHhcch
Q 029517          131 -ADELARYLD----------------------LK----------KLDERVCMFEAVSGYDGFGIKESVEWLVEVMERSKR  177 (192)
Q Consensus       131 -~~~~~~~~~----------------------~~----------~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~~~~  177 (192)
                       .+.+.....                      ..          .......+++++||++|.|++++++.|.+...+..+
T Consensus       142 ~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~pvSa~~G~gid~Ll~~l~~l~~~~~~  221 (227)
T d1g7sa4         142 EGRPFMETFSKQDIQVQQKLDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQYLR  221 (227)
T ss_dssp             TTCCHHHHHTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHHHCS
T ss_pred             hhHHHHHhhhcchHHHHHHHHHHHHHHHHHHHHhhhhhhhhcccccccCCCeEEEeeCCCCCCHHHHHHHHHHHHHHHHH
Confidence             011111000                      00          001234689999999999999999999887766554


Q ss_pred             h
Q 029517          178 T  178 (192)
Q Consensus       178 ~  178 (192)
                      .
T Consensus       222 ~  222 (227)
T d1g7sa4         222 E  222 (227)
T ss_dssp             G
T ss_pred             H
Confidence            4

>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=99.64  E-value=1e-16  Score=115.84  Aligned_cols=113  Identities=16%  Similarity=0.181  Sum_probs=80.4

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCC----C
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAV----S  130 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~----~  130 (192)
                      ..++.++|||||.+|.......+..+|++++|+|+.+...-....+.+..+...   ...+++++.||+|+.+..    .
T Consensus        77 ~~~~~~iDtPGh~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~---~~~~iiv~inK~D~~d~~~~~~~  153 (195)
T d1kk1a3          77 VRRVSFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQII---GQKNIIIAQNKIELVDKEKALEN  153 (195)
T ss_dssp             EEEEEEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHH---TCCCEEEEEECGGGSCHHHHHHH
T ss_pred             ceeEeeeccchhhhhhHHhhcccccccccccccchhhhhhhhhhHHHHHHHHHh---cCccceeeeecccchhhHHHHHH
Confidence            456899999999999998888899999999999998764223333333333333   235688899999987621    1


Q ss_pred             HHHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517          131 ADELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                      .+.+.+++.  ......++++++||++|.||+++++.|.+.+
T Consensus       154 ~~~~~~~~~--~~~~~~~~iIpiSA~~G~ni~~Ll~~I~~~i  193 (195)
T d1kk1a3         154 YRQIKEFIE--GTVAENAPIIPISALHGANIDVLVKAIEDFI  193 (195)
T ss_dssp             HHHHHHHHT--TSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             HHHHHHHhc--cccCCCCeEEEEECCCCCCHHHHHHHHHHHC
Confidence            233344443  1122357899999999999999999988754

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.63  E-value=4.2e-15  Score=107.95  Aligned_cols=146  Identities=29%  Similarity=0.362  Sum_probs=98.6

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEe---cCEEEEEEeCCCCcccH-HHHHHhhhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEV---SNSKLVFWDLGGQPGLR-SIWEKYYEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~---~~~~~~i~D~~G~~~~~-~~~~~~~~~~d~ii~v~D~   89 (192)
                      |||++|+|++.          .+.. ..||++.+...+..   ..+.+.+||++|++.++ ..+..+++.++++++|+|+
T Consensus        13 KTsLl~~l~~~----------~~~~-~~~t~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~i~v~D~   81 (207)
T d2fh5b1          13 KTLLFVRLLTG----------QYRD-TQTSITDSSAIYKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDS   81 (207)
T ss_dssp             HHHHHHHHHHS----------CCCC-BCCCCSCEEEEEECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEET
T ss_pred             HHHHHHHHHcC----------CCCc-ccCCeeEEEEEEEEeeeeeeeeeeeeccccccccchhhhhhhhhccccceEEEc
Confidence            77887777653          2222 24777777776553   46789999999999886 4678888999999999999


Q ss_pred             CCccc-HHHHHHHHHHHHhC--CCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCc--------------------------
Q 029517           90 ACPSR-FEDSKTALEKVLRN--EDLQGAPLLILANKQDLPDAVSADELARYLDL--------------------------  140 (192)
Q Consensus        90 ~~~~s-~~~~~~~~~~i~~~--~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~--------------------------  140 (192)
                      ++..+ +....+++..++..  .....+|+++++||+|++.+.+.+++.+.++.                          
T Consensus        82 ~d~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~a~~~~~i~~~l~~e~~~~~~~~~~~~~~~~~~~~~~~~~  161 (207)
T d2fh5b1          82 AAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAKLIQQQLEKELNTLRVTRSAAPSTLDSSSTAPAQL  161 (207)
T ss_dssp             TTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHHCC------------CCCS
T ss_pred             ccccccHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccCCCCCHHHHHHHHHHHhhhhhhccccccceeehhhhhhhhh
Confidence            98765 34555555555431  12246899999999999887777666554320                          


Q ss_pred             cc------c--CCcceEEEEeeecCCCC------HHHHHHHHHH
Q 029517          141 KK------L--DERVCMFEAVSGYDGFG------IKESVEWLVE  170 (192)
Q Consensus       141 ~~------~--~~~~~~~~~~Sa~~~~g------i~e~~~~i~~  170 (192)
                      ..      +  ......++++|++.|.|      ++++-+||.+
T Consensus       162 ~~~~~~~~~~~~~~~v~~~~~S~~~~~~~~~~~~i~~~~~wl~~  205 (207)
T d2fh5b1         162 GKKGKEFEFSQLPLKVEFLECSAKGGRGDTGSADIQDLEKWLAK  205 (207)
T ss_dssp             SCTTSCCCGGGSSSCEEEEECBCC-------CCBCHHHHHHHHH
T ss_pred             cccchhhhHHhccCCcEEEEeeecCCCcccccccHHHHHHHHHH
Confidence            00      0  01246789999999987      7778777764

>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=99.61  E-value=1.2e-16  Score=114.32  Aligned_cols=148  Identities=22%  Similarity=0.258  Sum_probs=89.3

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEec-CEEEEEEeCCCCc-------ccHHHHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVS-NSKLVFWDLGGQP-------GLRSIWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~-~~~~~i~D~~G~~-------~~~~~~~~~~~~~d~ii~   85 (192)
                      |||++|+|.++..    .+.+..    ..|........... ...+.+|||||..       .........+..++.+++
T Consensus        14 KSSLin~L~~~~~----~~~~~~----~~T~~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~i~~   85 (185)
T d1lnza2          14 KSTLLSVVSSAKP----KIADYH----FTTLVPNLGMVETDDGRSFVMADLPGLIEGAHQGVGLGHQFLRHIERTRVIVH   85 (185)
T ss_dssp             HHHHHHHSEEECC----EESSTT----SSCCCCCEEEEECSSSCEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCCEEEE
T ss_pred             HHHHHHHHhCCCC----ceecCC----CceEeeeeceeEecCCcEEEEecCCCcccCchHHHHHHHHHHHHHHHhhhhhh
Confidence            7888887765432    222222    33344444444443 4579999999942       111223345678999999


Q ss_pred             EEeCCCcccH--HHHHHHHHHH--HhCCCCCCCcEEEEEeCCCCCCCCC-HHHHHhHcCccccCCcceEEEEeeecCCCC
Q 029517           86 VIDAACPSRF--EDSKTALEKV--LRNEDLQGAPLLILANKQDLPDAVS-ADELARYLDLKKLDERVCMFEAVSGYDGFG  160 (192)
Q Consensus        86 v~D~~~~~s~--~~~~~~~~~i--~~~~~~~~~piiiv~nK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g  160 (192)
                      +++.......  .....+....  .......++|+++|+||+|+.+... .+.+.+.+      ..+.+++.+||++|.|
T Consensus        86 ~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~Dl~~~~~~~~~~~~~~------~~~~~v~~iSA~~g~G  159 (185)
T d1lnza2          86 VIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAAENLEAFKEKL------TDDYPVFPISAVTREG  159 (185)
T ss_dssp             EEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHHHHHHHHHHHC------CSCCCBCCCSSCCSST
T ss_pred             eeeecccccchhhhhhhhhhhccchhhhhccCCcchhhccccchHhHHHHHHHHHHHh------ccCCcEEEEECCCCCC
Confidence            9977644322  2211111111  1223335789999999999975311 12233322      2357889999999999


Q ss_pred             HHHHHHHHHHHHHhc
Q 029517          161 IKESVEWLVEVMERS  175 (192)
Q Consensus       161 i~e~~~~i~~~i~~~  175 (192)
                      |++++++|.+.+...
T Consensus       160 i~~L~~~i~~~L~~~  174 (185)
T d1lnza2         160 LRELLFEVANQLENT  174 (185)
T ss_dssp             THHHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHhhhhC
Confidence            999999999988654

>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=99.60  E-value=3.7e-16  Score=113.73  Aligned_cols=112  Identities=15%  Similarity=0.123  Sum_probs=79.2

Q ss_pred             EEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC----H
Q 029517           56 SKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVS----A  131 (192)
Q Consensus        56 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~----~  131 (192)
                      .++.+.|+|||.+|.......+..+|++|+|+|+.+.-.-...++.+..+...   ...|++++.||+|+.+...    .
T Consensus        86 r~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~~---~i~~iIV~vNK~Dl~~~~~~~~~~  162 (205)
T d2qn6a3          86 RRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGII---GVKNLIIVQNKVDVVSKEEALSQY  162 (205)
T ss_dssp             EEEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHHT---TCCCEEEEEECGGGSCHHHHHHHH
T ss_pred             EEEEEeccchHHHHHhhhhcceeccccccccccccccccchhHHHHHHHHHHc---CCceeeeccccCCCccchHHHHHH
Confidence            57899999999999988888889999999999998763122222333323223   2358999999999976211    1


Q ss_pred             HHHHhHcCccccCCcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517          132 DELARYLDLKKLDERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                      +++.+.+.  ......++++++||++|.||+++++.|...+
T Consensus       163 ~~~~~~l~--~~~~~~~p~ipiSA~~g~nI~~L~e~i~~~i  201 (205)
T d2qn6a3         163 RQIKQFTK--GTWAENVPIIPVSALHKINIDSLIEGIEEYI  201 (205)
T ss_dssp             HHHHHHHT--TSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             HHHHHHhc--cccCCCCeEEEEeCCCCCChHHHHHHHHhhC
Confidence            22233332  2223467899999999999999999988754

>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=99.56  E-value=4.9e-15  Score=106.60  Aligned_cols=92  Identities=20%  Similarity=0.128  Sum_probs=60.7

Q ss_pred             hhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEeee
Q 029517           76 YYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVSG  155 (192)
Q Consensus        76 ~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  155 (192)
                      .+..++++++|+|++.+..-.. .++++.+..    .++|+++|+||+|+......++..+............+++++||
T Consensus       102 ~~~~~~~vi~viD~~~~~~~~~-~~~~~~l~~----~~~piivv~NK~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~~SA  176 (195)
T d1svia_         102 TREELKAVVQIVDLRHAPSNDD-VQMYEFLKY----YGIPVIVIATKADKIPKGKWDKHAKVVRQTLNIDPEDELILFSS  176 (195)
T ss_dssp             HCTTEEEEEEEEETTSCCCHHH-HHHHHHHHH----TTCCEEEEEECGGGSCGGGHHHHHHHHHHHHTCCTTSEEEECCT
T ss_pred             cccchhhhhhhhhccccccccc-ccccccccc----ccCcceechhhccccCHHHHHHHHHHHHHHhcccCCCCEEEEeC
Confidence            3456799999999976533221 233333332    36899999999998654333332222210001235678999999


Q ss_pred             cCCCCHHHHHHHHHHHH
Q 029517          156 YDGFGIKESVEWLVEVM  172 (192)
Q Consensus       156 ~~~~gi~e~~~~i~~~i  172 (192)
                      ++|.|+++++++|.+.+
T Consensus       177 ~~~~gi~el~~~i~~~l  193 (195)
T d1svia_         177 ETKKGKDEAWGAIKKMI  193 (195)
T ss_dssp             TTCTTHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHh
Confidence            99999999999998876

>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=99.56  E-value=2e-15  Score=108.92  Aligned_cols=155  Identities=10%  Similarity=-0.023  Sum_probs=99.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCC------CCC--CCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGL------PPD--RIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVF   85 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~------~~~--~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~   85 (192)
                      |||+.++|++............      ...  ...-|+......+.....++.++||||+..|.......+..+|++++
T Consensus        16 KSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~Er~rgiTi~~~~~~~~~~~~~~~~iDtPGh~~f~~~~~~~~~~aD~all   95 (196)
T d1d2ea3          16 KTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVKNMITGTAPLDGCIL   95 (196)
T ss_dssp             HHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSSCEEEEEECSSHHHHHHHHHHTSSCCSEEEE
T ss_pred             HHHHHHHHHHHHHHcCcchhhhhhhcccchhhcCCCccCCcceEEEEeceeeEEeecCcchHHHHHHHHHHHhhcCeEEE
Confidence            8999999886543321111100      011  11234444445677778899999999999999988888899999999


Q ss_pred             EEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCC-CHH----HHHhHcCccccCCcceEEEEeeecCC--
Q 029517           86 VIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAV-SAD----ELARYLDLKKLDERVCMFEAVSGYDG--  158 (192)
Q Consensus        86 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~-~~~----~~~~~~~~~~~~~~~~~~~~~Sa~~~--  158 (192)
                      |+|+.+...-+. .+.+..+...   ...|++++.||+|+.... ..+    ++.+++..........+++++||++|  
T Consensus        96 VVda~~G~~~QT-~~~~~~a~~~---~~~~iIv~iNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~~~~pii~iSa~~g~~  171 (196)
T d1d2ea3          96 VVAANDGPMPQT-REHLLLARQI---GVEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKGEETPIIVGSALCALE  171 (196)
T ss_dssp             EEETTTCSCHHH-HHHHHHHHHT---TCCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCTTTSCEEECCHHHHHT
T ss_pred             EEEcCCCCchhH-HHHHHHHHHh---cCCcEEEEEecccccccHHHHHHHHHHHHHHHHHhCCCcccCEEEEEEcccccc
Confidence            999987654332 3333333333   346899999999986411 111    23333321122234578999999998  


Q ss_pred             --------CCHHHHHHHHHHHH
Q 029517          159 --------FGIKESVEWLVEVM  172 (192)
Q Consensus       159 --------~gi~e~~~~i~~~i  172 (192)
                              +|+.++++.|.+.+
T Consensus       172 ~~~~~~~~~~~~~Lldai~~~i  193 (196)
T d1d2ea3         172 QRDPELGLKSVQKLLDAVDTYI  193 (196)
T ss_dssp             TCCTTTTHHHHHHHHHHHHHHS
T ss_pred             ccCcccccCCHHHHHHHHHhhC
Confidence                    58888888876643

>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=99.55  E-value=4e-14  Score=103.90  Aligned_cols=117  Identities=12%  Similarity=0.155  Sum_probs=80.8

Q ss_pred             CCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCC-cEEEEE
Q 029517           42 PTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGA-PLLILA  120 (192)
Q Consensus        42 ~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~-piiiv~  120 (192)
                      .|+......+.....++.++|+|||..|......-...+|++++|+|+.....-+.... + .+...   .++ .++++.
T Consensus        75 ~ti~~~~~~~~~~~~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~Qt~e~-~-~~~~~---~gv~~iiv~v  149 (222)
T d1zunb3          75 ITIDVAYRYFSTAKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRRH-S-YIASL---LGIKHIVVAI  149 (222)
T ss_dssp             CCCCCEEEEEECSSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHHH-H-HHHHH---TTCCEEEEEE
T ss_pred             CCceeeEEEEeccceEEEEEeccchhhhhhhhccccccCceEEEEeccccCcccchHHH-H-HHHHH---cCCCEEEEEE
Confidence            34444445566678899999999999999988888999999999999987654443222 2 22332   344 588999


Q ss_pred             eCCCCCCCCC------HHHHHhHcCccccCCcceEEEEeeecCCCCHHH
Q 029517          121 NKQDLPDAVS------ADELARYLDLKKLDERVCMFEAVSGYDGFGIKE  163 (192)
Q Consensus       121 nK~Dl~~~~~------~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e  163 (192)
                      ||+|+.+...      .+++..+++...+....++++++||.+|.||.+
T Consensus       150 NK~D~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i~~IPiSA~~G~ni~~  198 (222)
T d1zunb3         150 NKMDLNGFDERVFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVN  198 (222)
T ss_dssp             ECTTTTTSCHHHHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSS
T ss_pred             EccccccccceehhhhHHHHhhhhHhhccCCCceEEEEEEcccCccCCc
Confidence            9999976211      123333333222334568899999999999854

>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=99.53  E-value=1e-14  Score=105.94  Aligned_cols=137  Identities=15%  Similarity=0.047  Sum_probs=90.8

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCC-----C------CCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPP-----D------RIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHA   82 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~-----~------~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   82 (192)
                      |||+.++|++........  +...     +      ...-|+......+..++.++.|+|||||.+|......-++.+|+
T Consensus        16 KSTL~~~Ll~~~g~~~~~--~~~~~~~~~d~~~eE~~rgiTi~~~~~~~~~~~~~i~iiDtPGh~df~~~~~~~~~~aD~   93 (204)
T d2c78a3          16 KTTLTAALTYVAAAENPN--VEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYIKNMITGAAQMDG   93 (204)
T ss_dssp             HHHHHHHHHHHHHHSCTT--SCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCSGGGHHHHHHHHTTCSS
T ss_pred             HHHHHHHHHHHhhhccCC--cchhhhhhcccchHHhcCCeEEEeeEEEEEeCCeEEEEEeCCCchhhHHHHHHHHHHCCE
Confidence            899999998765432111  1111     0      11457777777888889999999999999999988888999999


Q ss_pred             EEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCc-EEEEEeCCCCCCCCC-H----HHHHhHcCccccCCcceEEEEeeec
Q 029517           83 VVFVIDAACPSRFEDSKTALEKVLRNEDLQGAP-LLILANKQDLPDAVS-A----DELARYLDLKKLDERVCMFEAVSGY  156 (192)
Q Consensus        83 ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~p-iiiv~nK~Dl~~~~~-~----~~~~~~~~~~~~~~~~~~~~~~Sa~  156 (192)
                      +|+|+|+.+....+....| ..+ ..   .++| +++++||+|+.+... .    +++.+.+..........+++..||.
T Consensus        94 avlVvda~~Gv~~qt~~~~-~~~-~~---~gi~~iiv~iNK~D~~~~~~~~~~~~~~i~~~l~~~~~~~~~i~~i~~sa~  168 (204)
T d2c78a3          94 AILVVSAADGPMPQTREHI-LLA-RQ---VGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPGDEVPVIRGSAL  168 (204)
T ss_dssp             EEEEEETTTCCCHHHHHHH-HHH-HH---TTCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTTSCTTTSCEEECCHH
T ss_pred             EEEEEECCCCCcHHHHHHH-HHH-HH---cCCCeEEEEEEecccCCCHHHHHHHHHHHHHHHHhcCCCcccceeeeeech
Confidence            9999999887666543333 222 22   3555 788899999865211 1    2233333211223345778888886


Q ss_pred             C
Q 029517          157 D  157 (192)
Q Consensus       157 ~  157 (192)
                      .
T Consensus       169 ~  169 (204)
T d2c78a3         169 L  169 (204)
T ss_dssp             H
T ss_pred             h
Confidence            4

>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=99.45  E-value=8.3e-13  Score=99.42  Aligned_cols=108  Identities=12%  Similarity=0.063  Sum_probs=78.4

Q ss_pred             ccccHHHHHHHHhhh-----------hccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCE
Q 029517           14 TKTEFHTLLEKLKSV-----------YSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHA   82 (192)
Q Consensus        14 kst~~~~l~~~~~~~-----------~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   82 (192)
                      |||+..+|+...-.+           ..+..+... ....|+......+..++.+++|+||||+.+|.......++.+|+
T Consensus        19 KTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~-~r~~si~~~~~~~~~~~~~~n~iDtPG~~dF~~e~~~~l~~~D~   97 (276)
T d2bv3a2          19 KTTTTERILYYTGRIHKIGEVHEGAATMDFMEQER-ERGITITAAVTTCFWKDHRINIIDAPGHVDFTIEVERSMRVLDG   97 (276)
T ss_dssp             HHHHHHHHHHHHTSSCC--------------------CCCCCCCSEEEEEETTEEEEEECCCSSSSCSTTHHHHHHHCCE
T ss_pred             HHHHHHHHHHhcCccccccceecCceEEeccHHHH-hcCCccccceeeeccCCeEEEEecCCchhhhHHHHHHHHHhhhh
Confidence            788888887543321           111111121 22457777778899999999999999999999999999999999


Q ss_pred             EEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           83 VVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        83 ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      +|+|+|+.+.-..+....|  +....   .++|.++++||+|...
T Consensus        98 avlVvda~~Gv~~~T~~~w--~~a~~---~~lP~i~fINKmDr~~  137 (276)
T d2bv3a2          98 AIVVFDSSQGVEPQSETVW--RQAEK---YKVPRIAFANKMDKTG  137 (276)
T ss_dssp             EEEEEETTTSSCHHHHHHH--HHHHT---TTCCEEEEEECTTSTT
T ss_pred             eEEeccccCCcchhHHHHH--HHHHH---cCCCEEEEEecccccc
Confidence            9999999988766665555  22333   4799999999999843

>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=99.36  E-value=2.2e-12  Score=90.90  Aligned_cols=145  Identities=14%  Similarity=0.127  Sum_probs=85.1

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHH--HHHh-------hhcCCEE
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSI--WEKY-------YEEAHAV   83 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~--~~~~-------~~~~d~i   83 (192)
                      =|||++|+|+++-.......   +.+. .+.+   ..........+..||++|.......  ....       ...++++
T Consensus        17 GKSSLin~L~~~~~~~~~~~---~~t~-~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (179)
T d1egaa1          17 GKSTLLNKLLGQKISITSRK---AQTT-RHRI---VGIHTEGAYQAIYVDTPGLHMEEKRAINRLMNKAASSSIGDVELV   89 (179)
T ss_dssp             SHHHHHHHHHTCSEEECCCC---SSCC-SSCE---EEEEEETTEEEEEESSSSCCHHHHHHHHHHHTCCTTSCCCCEEEE
T ss_pred             CHHHHHHHHhCCCceeeccC---CCce-EEEE---EeeeecCCceeEeecCCCceecchhhhhhhhhhccccchhhccee
Confidence            38999999987644322211   1111 1111   2334445667888999996532221  1111       2346778


Q ss_pred             EEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCC--HHHHHhHcCccccCCcceEEEEeeecCCCCH
Q 029517           84 VFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVS--ADELARYLDLKKLDERVCMFEAVSGYDGFGI  161 (192)
Q Consensus        84 i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  161 (192)
                      +++.|.......  ...+...+.+    ...|.++++||.|+.....  .........    .....+++++||++|.|+
T Consensus        90 l~~~d~~~~~~~--~~~~~~~l~~----~~~~~i~v~~k~d~~~~~~~~~~~~~~~~~----~~~~~~~~~vSA~~g~gi  159 (179)
T d1egaa1          90 IFVVEGTRWTPD--DEMVLNKLRE----GKAPVILAVNKVDNVQEKADLLPHLQFLAS----QMNFLDIVPISAETGLNV  159 (179)
T ss_dssp             EEEEETTCCCHH--HHHHHHHHHS----SSSCEEEEEESTTTCCCHHHHHHHHHHHHT----TSCCSEEEECCTTTTTTH
T ss_pred             EEEEecCccchh--HHHHHHHhhh----ccCceeeeeeeeeccchhhhhhhHhhhhhh----hcCCCCEEEEeCcCCCCH
Confidence            888887754322  2233333332    3578999999999875311  112222222    233568999999999999


Q ss_pred             HHHHHHHHHHHHh
Q 029517          162 KESVEWLVEVMER  174 (192)
Q Consensus       162 ~e~~~~i~~~i~~  174 (192)
                      ++++++|.+.+++
T Consensus       160 ~~L~~~i~~~lpe  172 (179)
T d1egaa1         160 DTIAAIVRKHLPE  172 (179)
T ss_dssp             HHHHHHHHTTCCB
T ss_pred             HHHHHHHHHhCCC
Confidence            9999999876643

>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=99.35  E-value=1.3e-11  Score=92.43  Aligned_cols=107  Identities=17%  Similarity=0.147  Sum_probs=78.8

Q ss_pred             ccccHHHHHHHHhhhhccC---CC-CCC-------CCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCE
Q 029517           14 TKTEFHTLLEKLKSVYSNV---EG-LPP-------DRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHA   82 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~---~~-~~~-------~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   82 (192)
                      |||+..+|+...-. ..+.   .. .+.       .....|+...+..+..++.++.++||||+.+|.......++.+|+
T Consensus        15 KTtL~e~ll~~~g~-~~~~g~v~~g~~~~D~~~~E~~r~~ti~~~~~~~~~~~~~~n~iDtPGh~dF~~e~~~al~~~D~   93 (267)
T d2dy1a2          15 KTTLTEALLYKTGA-KERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGYGDFVGEIRGALEAADA   93 (267)
T ss_dssp             HHHHHHHHHHHTTS-SSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETTEEEEEEECCCSGGGHHHHHHHHHHCSE
T ss_pred             HHHHHHHHHHHcCC-chhhccchhccccccchHHHHHhCCeEEeecccccccccceeEEccCchhhhhhhhhhhhcccCc
Confidence            78888888765322 1111   11 111       123457777778888999999999999999999999999999999


Q ss_pred             EEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCC
Q 029517           83 VVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLP  126 (192)
Q Consensus        83 ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~  126 (192)
                      +|+|+|+...-..+....|.  ....   .++|.++++||+|..
T Consensus        94 avlvvda~~Gv~~~t~~~~~--~~~~---~~~p~~i~iNk~D~~  132 (267)
T d2dy1a2          94 ALVAVSAEAGVQVGTERAWT--VAER---LGLPRMVVVTKLDKG  132 (267)
T ss_dssp             EEEEEETTTCSCHHHHHHHH--HHHH---TTCCEEEEEECGGGC
T ss_pred             eEEEeeccCCccchhHHHHH--hhhh---ccccccccccccccc
Confidence            99999999876666544442  2222   368999999999974

>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=99.24  E-value=4.3e-12  Score=91.48  Aligned_cols=108  Identities=18%  Similarity=0.255  Sum_probs=71.9

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHh----hhcCCEEEEEEeC
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKY----YEEAHAVVFVIDA   89 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~----~~~~d~ii~v~D~   89 (192)
                      |||++|+|+++-..      +      ..|.......+...+..+.+||+||++.+...+..+    ...++.+++++|+
T Consensus        16 KTSLln~l~~~~~~------~------~tt~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~~~~~i~~vd~   83 (209)
T d1nrjb_          16 KTSLLTLLTTDSVR------P------TVVSQEPLSAADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDS   83 (209)
T ss_dssp             HHHHHHHHHHSSCC------C------BCCCSSCEEETTGGGSSCEEEECCCCGGGTHHHHHHHHHHGGGEEEEEEEEET
T ss_pred             HHHHHHHHhCCCCC------C------eEEecceEEEEEeCCeEEEEEecccccchhhHHHHHHHHHhhhccccceEEEE
Confidence            88999888764211      1      112222244455667789999999998776655544    4456899999997


Q ss_pred             CC-cccHHHHHHHHHHHHh---CCCCCCCcEEEEEeCCCCCCCCCHHH
Q 029517           90 AC-PSRFEDSKTALEKVLR---NEDLQGAPLLILANKQDLPDAVSADE  133 (192)
Q Consensus        90 ~~-~~s~~~~~~~~~~i~~---~~~~~~~piiiv~nK~Dl~~~~~~~~  133 (192)
                      .+ ..+++....|+..+..   .....++|+++++||+|+......+.
T Consensus        84 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~piiiv~NK~D~~~~~~~~~  131 (209)
T d1nrjb_          84 TVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSK  131 (209)
T ss_dssp             TSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHHH
T ss_pred             ecccccHHHHHHHHHHHHHHHHHHHhccCCeEEEEEeecccccCcHHH
Confidence            64 5667777777655432   22225799999999999987554443

>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=99.24  E-value=5e-12  Score=93.87  Aligned_cols=122  Identities=21%  Similarity=0.236  Sum_probs=66.1

Q ss_pred             CCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHH-------HHHHHHHHHHhCCCCCCC
Q 029517           42 PTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE-------DSKTALEKVLRNEDLQGA  114 (192)
Q Consensus        42 ~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~-------~~~~~~~~i~~~~~~~~~  114 (192)
                      .|+......+.....++.+.|+|||..|......-...+|++++|+|+.... ++       ...+.+..+...   .-.
T Consensus        88 ~ti~~~~~~~~~~~~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~-~~~~~~~~~QT~e~l~l~~~~---~i~  163 (245)
T d1r5ba3          88 KTVEVGRAYFETEHRRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGE-FEAGFERGGQTREHAVLARTQ---GIN  163 (245)
T ss_dssp             ------CCEEECSSEEEEECCCCC-----------TTSCSEEEEEEECSTTH-HHHTTSTTCCHHHHHHHHHHT---TCS
T ss_pred             ccccccccccccccceeeeecccccccchhhhhhhhhhhcceeeEEEcCCCc-cCCccccccchHHHHHHHHHc---CCC
Confidence            3444444456677889999999999999998888889999999999997642 11       122222222222   123


Q ss_pred             cEEEEEeCCCCCCCCC----HHHHHhHcCc-----ccc-CCcceEEEEeeecCCCCHHHHHHH
Q 029517          115 PLLILANKQDLPDAVS----ADELARYLDL-----KKL-DERVCMFEAVSGYDGFGIKESVEW  167 (192)
Q Consensus       115 piiiv~nK~Dl~~~~~----~~~~~~~~~~-----~~~-~~~~~~~~~~Sa~~~~gi~e~~~~  167 (192)
                      ++++++||+|+.....    .+++.+.++.     ... ....++++++||++|.||.++++.
T Consensus       164 ~iiv~iNKmD~~~~~~~e~~~~ei~~~l~~~l~~i~~~~~~~~v~~VPiSA~~G~nI~~~~~s  226 (245)
T d1r5ba3         164 HLVVVINKMDEPSVQWSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRVDS  226 (245)
T ss_dssp             SEEEEEECTTSTTCSSCHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCCCT
T ss_pred             eEEEEEEcCCCCccchhHHHHHHHHHHHHHHHHHHhCcCcccCCEEEEeeccCCCCcccchhc
Confidence            5889999999975322    1222222210     001 122578999999999999876543

>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=99.19  E-value=1e-11  Score=91.81  Aligned_cols=118  Identities=16%  Similarity=0.245  Sum_probs=81.5

Q ss_pred             CCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHH-------HHHHHHHHHHhCCCCCC
Q 029517           41 VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFE-------DSKTALEKVLRNEDLQG  113 (192)
Q Consensus        41 ~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~-------~~~~~~~~i~~~~~~~~  113 (192)
                      .-|+...+..+...+.++.|.|+|||.+|......-+..+|++|+|+|+.... ++       ...+.+......    +
T Consensus        69 GiTi~~~~~~~~~~~~~i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~-~e~g~~~~~QT~eh~~~~~~~----g  143 (239)
T d1f60a3          69 GITIDIALWKFETPKYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGE-FEAGISKDGQTREHALLAFTL----G  143 (239)
T ss_dssp             TCCCSCSCEEEECSSEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHH-HHHHTCTTSHHHHHHHHHHHT----T
T ss_pred             eeccccceeEeccCCEEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCc-cccccCchHhHHHHHHHHHHc----C
Confidence            55777777788888999999999999999999988899999999999997531 11       122222222222    4


Q ss_pred             C-cEEEEEeCCCCCCCCC------HHHHHhHcCccccCCcceEEEEeeecCCCCHHH
Q 029517          114 A-PLLILANKQDLPDAVS------ADELARYLDLKKLDERVCMFEAVSGYDGFGIKE  163 (192)
Q Consensus       114 ~-piiiv~nK~Dl~~~~~------~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e  163 (192)
                      + ++++++||+|+.+...      .+++..++.........++++++||..|.|+.+
T Consensus       144 v~~iiv~iNKmD~~~~d~~~~~~~~~el~~~l~~~~~~~~~i~~ipiSa~~G~ni~~  200 (239)
T d1f60a3         144 VRQLIVAVNKMDSVKWDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIE  200 (239)
T ss_dssp             CCEEEEEEECGGGGTTCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTB
T ss_pred             CCeEEEEEECCCCCCCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEEccCCCccee
Confidence            4 5889999999876321      122333332112223467889999999998755

>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=99.17  E-value=1.6e-11  Score=89.97  Aligned_cols=120  Identities=16%  Similarity=0.163  Sum_probs=76.2

Q ss_pred             CCCcceEEEEEEecCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccH------HHHHHHHHHHHhCCCCCCC
Q 029517           41 VPTVGLNIGRIEVSNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRF------EDSKTALEKVLRNEDLQGA  114 (192)
Q Consensus        41 ~~T~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~------~~~~~~~~~i~~~~~~~~~  114 (192)
                      ..|+......+..++..+.+.|||||.+|......-++-+|++|+|+|+.+...-      ....+-+......   ...
T Consensus        66 g~ti~~~~~~~~~~~~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~~---~~~  142 (224)
T d1jnya3          66 GVTINLTFMRFETKKYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTM---GLD  142 (224)
T ss_dssp             --------CEEECSSCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHT---TCT
T ss_pred             CccccceEEEEecCCceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchhHHHHHHHHHh---CCC
Confidence            3455555556777889999999999999999999999999999999999865211      1122222222222   245


Q ss_pred             cEEEEEeCCCCCCC-CCHH-------HHHhHcCccccCCcceEEEEeeecCCCCHHH
Q 029517          115 PLLILANKQDLPDA-VSAD-------ELARYLDLKKLDERVCMFEAVSGYDGFGIKE  163 (192)
Q Consensus       115 piiiv~nK~Dl~~~-~~~~-------~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e  163 (192)
                      +++++.||+|+... ...+       ++.+++..........+++++||..|.||.+
T Consensus       143 ~iIv~iNK~D~~~~~~~~~~~~~v~~~i~~~~~~~~~~~~~i~~IPISA~~G~NV~~  199 (224)
T d1jnya3         143 QLIVAVNKMDLTEPPYDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITH  199 (224)
T ss_dssp             TCEEEEECGGGSSSTTCHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTB
T ss_pred             ceEEEEEcccCCCccccHHHHHHHHHHHHhHHHhcCCCcccCeEEEEEccCCCCccc
Confidence            78999999998752 1211       1222222112234568899999999999865

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.98  E-value=7.5e-10  Score=85.43  Aligned_cols=79  Identities=15%  Similarity=0.122  Sum_probs=60.4

Q ss_pred             cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC---CCC
Q 029517           54 SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD---AVS  130 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~---~~~  130 (192)
                      +...+.++|||||.+|.......++-+|++|+|+|+..+-..+....|-. ..+    .+.|+++++||+|...   ...
T Consensus        94 ~~~~inliDtPGh~dF~~ev~~al~~~D~allVVda~eGv~~qT~~~~~~-a~~----~~~p~i~viNKiDr~~~el~~~  168 (341)
T d1n0ua2          94 NSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQ-ALG----ERIKPVVVINKVDRALLELQVS  168 (341)
T ss_dssp             SEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHH-HHH----TTCEEEEEEECHHHHHHTSCCC
T ss_pred             cceEEEEEcCCCcHHHHHHHHHHHhhcCceEEEEecccCcchhHHHHHHH-HHH----cCCCeEEEEECcccccccHHhh
Confidence            45679999999999999999999999999999999998766665444433 222    3689999999999743   344


Q ss_pred             HHHHHhH
Q 029517          131 ADELARY  137 (192)
Q Consensus       131 ~~~~~~~  137 (192)
                      .+++.+.
T Consensus       169 ~~~~~~~  175 (341)
T d1n0ua2         169 KEDLYQT  175 (341)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4554443

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=98.94  E-value=8.6e-10  Score=77.43  Aligned_cols=84  Identities=14%  Similarity=0.139  Sum_probs=51.1

Q ss_pred             CCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCH----HHHHhHcCccccCCcceEEEEeee
Q 029517           80 AHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSA----DELARYLDLKKLDERVCMFEAVSG  155 (192)
Q Consensus        80 ~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~----~~~~~~~~~~~~~~~~~~~~~~Sa  155 (192)
                      .+.++.+.|...... .....++..+...    ..++++++||+|+.+....    +++.+.+..   .....+++.+||
T Consensus        99 ~~~~~~~~~~~~~~~-~~~~~~~~~~~~~----~~~~~~v~~k~D~~~~~~~~~~~~~~~~~l~~---~~~~~~~i~vSA  170 (188)
T d1puia_          99 LQGLVVLMDIRHPLK-DLDQQMIEWAVDS----NIAVLVLLTKADKLASGARKAQLNMVREAVLA---FNGDVQVETFSS  170 (188)
T ss_dssp             EEEEEEEEETTSCCC-HHHHHHHHHHHHT----TCCEEEEEECGGGSCHHHHHHHHHHHHHHHGG---GCSCEEEEECBT
T ss_pred             eeEEEEeecccccch-hHHHHHHHHhhhc----cccccchhhhhhccCHHHHHHHHHHHHHHHHh---hCCCCcEEEEeC
Confidence            344555556554432 3333444444333    5789999999998762222    222222220   123568999999


Q ss_pred             cCCCCHHHHHHHHHHH
Q 029517          156 YDGFGIKESVEWLVEV  171 (192)
Q Consensus       156 ~~~~gi~e~~~~i~~~  171 (192)
                      ++|.||++++++|.+-
T Consensus       171 ~~g~Gid~L~~~i~~~  186 (188)
T d1puia_         171 LKKQGVDKLRQKLDTW  186 (188)
T ss_dssp             TTTBSHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHH
Confidence            9999999999998654

>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=98.82  E-value=3.7e-09  Score=83.44  Aligned_cols=115  Identities=12%  Similarity=0.150  Sum_probs=66.2

Q ss_pred             EEEEEEeCCCCccc----HH-HHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC---
Q 029517           56 SKLVFWDLGGQPGL----RS-IWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD---  127 (192)
Q Consensus        56 ~~~~i~D~~G~~~~----~~-~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~---  127 (192)
                      ..+.+|||||....    .. .....+..+|.++++.|.....  .. ...+..+.+    .++|+++|.||+|...   
T Consensus       107 ~~~~l~DtPG~~~~~~~~~~~~~~~~~~~~d~~l~~~~~~~~~--~d-~~l~~~l~~----~~k~~~~V~nK~D~~~~~~  179 (400)
T d1tq4a_         107 PNVVFWDLPGIGSTNFPPDTYLEKMKFYEYDFFIIISATRFKK--ND-IDIAKAISM----MKKEFYFVRTKVDSDITNE  179 (400)
T ss_dssp             TTEEEEECCCGGGSSCCHHHHHHHTTGGGCSEEEEEESSCCCH--HH-HHHHHHHHH----TTCEEEEEECCHHHHHHHH
T ss_pred             CeEEEEeCCCcccccccHHHHHHHhhhhcceEEEEecCCCCCH--HH-HHHHHHHHH----cCCCEEEEEeCcccccchh
Confidence            35789999995421    11 1222356789999988754322  11 123333333    3689999999999521   


Q ss_pred             ------CCCHHHHHhHc----C--ccccCCcceEEEEeeecC--CCCHHHHHHHHHHHHHhcch
Q 029517          128 ------AVSADELARYL----D--LKKLDERVCMFEAVSGYD--GFGIKESVEWLVEVMERSKR  177 (192)
Q Consensus       128 ------~~~~~~~~~~~----~--~~~~~~~~~~~~~~Sa~~--~~gi~e~~~~i~~~i~~~~~  177 (192)
                            ....+...+.+    .  +........+++.+|+.+  ..|+.++.+++.+.+.+.++
T Consensus       180 ~~~~~~~~~~e~~l~~ir~~~~~~l~~~~~~~~~vflvS~~~~~~~d~~~L~~~l~~~L~~~~~  243 (400)
T d1tq4a_         180 ADGEPQTFDKEKVLQDIRLNCVNTFRENGIAEPPIFLLSNKNVCHYDFPVLMDKLISDLPIYKR  243 (400)
T ss_dssp             HTTCCTTCCHHHHHHHHHHHHHHHHHHTTCSSCCEEECCTTCTTSTTHHHHHHHHHHHSCGGGH
T ss_pred             hhcccccccHHHHHHHHHHHHHHHHHHcCCCCCCEEEecCCcccccCHHHHHHHHHHHhHHHHH
Confidence                  11222221111    1  111112345678888765  45899999999888776554

>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=98.69  E-value=1.1e-08  Score=76.75  Aligned_cols=94  Identities=19%  Similarity=0.278  Sum_probs=70.3

Q ss_pred             HHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceE
Q 029517           70 RSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCM  149 (192)
Q Consensus        70 ~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  149 (192)
                      .......++.+|++|+|+|+.++.+...  ..+..+.     .++|.++|+||+|+......+++.+++.     ..+..
T Consensus         6 ~r~i~~~i~~~DvIl~V~DaR~P~ss~~--~~l~~~~-----~~Kp~IlVlNK~DLv~~~~~~~w~~~f~-----~~~~~   73 (273)
T d1puja_           6 RREVTEKLKLIDIVYELVDARIPMSSRN--PMIEDIL-----KNKPRIMLLNKADKADAAVTQQWKEHFE-----NQGIR   73 (273)
T ss_dssp             HHHHHHHGGGCSEEEEEEETTSTTTTSC--HHHHHHC-----SSSCEEEEEECGGGSCHHHHHHHHHHHH-----TTTCC
T ss_pred             HHHHHHHHHhCCEEEEEEECCCCCCCCC--HHHHHHH-----cCCCeEEEEECccCCchHHHHHHHHHHH-----hcCCc
Confidence            3455678999999999999988754432  3444443     2579999999999986444555666665     45678


Q ss_pred             EEEeeecCCCCHHHHHHHHHHHHHhc
Q 029517          150 FEAVSGYDGFGIKESVEWLVEVMERS  175 (192)
Q Consensus       150 ~~~~Sa~~~~gi~e~~~~i~~~i~~~  175 (192)
                      .+.+|++++.|+.++...+.+.+.+.
T Consensus        74 ~i~isa~~~~~~~~~~~~~~~~l~~~   99 (273)
T d1puja_          74 SLSINSVNGQGLNQIVPASKEILQEK   99 (273)
T ss_dssp             EEECCTTTCTTGGGHHHHHHHHHHHH
T ss_pred             cceeecccCCCccccchhhhhhhhhh
Confidence            88999999999999988887766554

>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=98.48  E-value=3.5e-07  Score=67.68  Aligned_cols=105  Identities=7%  Similarity=-0.000  Sum_probs=61.4

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCcc-------cHHHHHHhh--hcCCEEE
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPG-------LRSIWEKYY--EEAHAVV   84 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~--~~~d~ii   84 (192)
                      |||++|+|+++-....+..+       ..|...........+..+.++||||..+       .......+.  ...++++
T Consensus        45 KSSliN~ilg~~~~~vs~~~-------~~T~~~~~~~~~~~g~~i~viDTPGl~~~~~~~~~~~~~i~~~~~~~~~~~il  117 (257)
T d1h65a_          45 KSSTVNSIIGERVVSISPFQ-------SEGPRPVMVSRSRAGFTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTIDVLL  117 (257)
T ss_dssp             HHHHHHHHHTSCCSCCCSSS-------CCCSSCEEEEEEETTEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECEEE
T ss_pred             HHHHHHHHhCCCceeecCCC-------CcceeEEEEEEEeccEEEEEEeeecccCCcchHHHHHHHHHHHHhcCCCCeEE
Confidence            79999999986544322221       3334444555667788999999999431       111222222  3468899


Q ss_pred             EEEeCCCcc-cH--HHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           85 FVIDAACPS-RF--EDSKTALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        85 ~v~D~~~~~-s~--~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      +|++++... +-  ......+..+...  ..-.++++|.||+|...
T Consensus       118 ~v~~~~~~r~~~~~~~~l~~l~~~fg~--~~~~~~ivv~t~~D~~~  161 (257)
T d1h65a_         118 YVDRLDAYRVDNLDKLVAKAITDSFGK--GIWNKAIVALTHAQFSP  161 (257)
T ss_dssp             EEEESSCCCCCHHHHHHHHHHHHHHCG--GGGGGEEEEEECCSCCC
T ss_pred             EEEECCCCCCCHHHHHHHHHHHHHcch--hhhhCEEEEEECcccCC
Confidence            998876432 11  2222233333221  12358999999999865

>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=98.40  E-value=1.1e-07  Score=69.25  Aligned_cols=115  Identities=18%  Similarity=0.112  Sum_probs=68.5

Q ss_pred             CEEEEEEeCCCCcccHHHHH---Hhhh--cCCEEEEEEeCCCcccHHHH---HHHHHHHHhCCCCCCCcEEEEEeCCCCC
Q 029517           55 NSKLVFWDLGGQPGLRSIWE---KYYE--EAHAVVFVIDAACPSRFEDS---KTALEKVLRNEDLQGAPLLILANKQDLP  126 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~---~~~~--~~d~ii~v~D~~~~~s~~~~---~~~~~~i~~~~~~~~~piiiv~nK~Dl~  126 (192)
                      ...+.+.|+||+..+.....   ...+  ..+++++++|+.........   ..........   ...|.++++||+|+.
T Consensus        94 ~~~~~~id~~g~~~~~~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~~~---~~~~~ivvinK~D~~  170 (244)
T d1yrba1          94 ENDYVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEILKKPNDYCFVRFFALLIDLR---LGATTIPALNKVDLL  170 (244)
T ss_dssp             HCSEEEEECCSSHHHHHHSHHHHHHHHTSSSCEEEEEECGGGCCSHHHHHHHHHHHHHHHHH---HTSCEEEEECCGGGC
T ss_pred             ccceeeeccccchhHHHHHHHHHHHHhhccCceEEEEeccccccCchhHhhHHHHHHHHHHH---hCCCceeeeeccccc
Confidence            45689999999976543221   1222  46789999998644333221   1111111112   368999999999987


Q ss_pred             CCCCHHHHHhHcC----------c-c--------------ccCCcceEEEEeeecCCCCHHHHHHHHHHHH
Q 029517          127 DAVSADELARYLD----------L-K--------------KLDERVCMFEAVSGYDGFGIKESVEWLVEVM  172 (192)
Q Consensus       127 ~~~~~~~~~~~~~----------~-~--------------~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i  172 (192)
                      .....+.......          . .              .-.....+++++||++|+|++++++.|.+..
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vSa~~geGi~~L~~~l~e~~  241 (244)
T d1yrba1         171 SEEEKERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHY  241 (244)
T ss_dssp             CHHHHHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            5322211111100          0 0              0002346789999999999999999988753

>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=98.31  E-value=5.5e-07  Score=65.00  Aligned_cols=87  Identities=20%  Similarity=0.216  Sum_probs=60.6

Q ss_pred             hhhcCCEEEEEEeCCCc-ccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHHHHhHcCccccCCcceEEEEee
Q 029517           76 YYEEAHAVVFVIDAACP-SRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADELARYLDLKKLDERVCMFEAVS  154 (192)
Q Consensus        76 ~~~~~d~ii~v~D~~~~-~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  154 (192)
                      .+.+.|.+++|+.+..| -+...+..++-.....    ++|.++|+||+||.+....+.+.+....   ...+++++.+|
T Consensus         7 ~vANiD~vliV~s~~~P~~~~~~ldR~Lv~a~~~----~i~pvIvlnK~DL~~~~~~~~~~~~~~~---~~~~~~v~~vS   79 (225)
T d1u0la2           7 HVANVDQVILVVTVKMPETSTYIIDKFLVLAEKN----ELETVMVINKMDLYDEDDLRKVRELEEI---YSGLYPIVKTS   79 (225)
T ss_dssp             TEESCCEEEEEECSSTTCCCHHHHHHHHHHHHHT----TCEEEEEECCGGGCCHHHHHHHHHHHHH---HTTTSCEEECC
T ss_pred             CcccCCEEEEEEeCCCCCCCHHHHHHHHHHHHHc----CCCEEEEEeCcccCCHHHHHHHHHhhcc---cccceeEEEec
Confidence            35688999999988654 4556666666555443    7999999999999753333333333321   12357889999


Q ss_pred             ecCCCCHHHHHHHHH
Q 029517          155 GYDGFGIKESVEWLV  169 (192)
Q Consensus       155 a~~~~gi~e~~~~i~  169 (192)
                      |+++.|++++.+++.
T Consensus        80 a~~~~g~~~L~~~l~   94 (225)
T d1u0la2          80 AKTGMGIEELKEYLK   94 (225)
T ss_dssp             TTTCTTHHHHHHHHS
T ss_pred             cccchhHhhHHHHhc
Confidence            999999999987763

>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=97.98  E-value=2e-06  Score=65.26  Aligned_cols=75  Identities=19%  Similarity=0.173  Sum_probs=37.5

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEE--------------------ecCEEEEEEeCCCCcc----
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIE--------------------VSNSKLVFWDLGGQPG----   68 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~--------------------~~~~~~~i~D~~G~~~----   68 (192)
                      =|||+||+|.+.    ..+++++++++..|.+|+.+...+                    ....+++++|+||.-.    
T Consensus        12 GKStlfn~lt~~----~~~v~nypftT~~pn~Gv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~D~pGli~ga~~   87 (319)
T d1wxqa1          12 GKSTFFSAATLV----DVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAGLVPGAHE   87 (319)
T ss_dssp             SHHHHHHHHHC------------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC--------
T ss_pred             CHHHHHHHHHCC----CCchhcCCCCcccCccceeeCCCCchhhhhhhccCccccccccccccccEEEEECCCcccchhc
Confidence            378888888654    457788888888888887543211                    1235799999999422    


Q ss_pred             ---cHHHHHHhhhcCCEEEEEEeCCC
Q 029517           69 ---LRSIWEKYYEEAHAVVFVIDAAC   91 (192)
Q Consensus        69 ---~~~~~~~~~~~~d~ii~v~D~~~   91 (192)
                         ........++.+|++++|+|+.+
T Consensus        88 g~~~~~~~l~~i~~~d~ii~VVd~~~  113 (319)
T d1wxqa1          88 GRGLGNKFLDDLRMASALIHVVDATG  113 (319)
T ss_dssp             -------CCCSSTTCSEEEEEEETTC
T ss_pred             ccchHHHHHHhhccceEEEEEecccc
Confidence               11112234578999999999863

>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=97.97  E-value=6.4e-07  Score=64.86  Aligned_cols=87  Identities=15%  Similarity=0.094  Sum_probs=59.6

Q ss_pred             hhhcCCEEEEEEeCCCc-ccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHHH-HHhHcCccccCCcceEEEEe
Q 029517           76 YYEEAHAVVFVIDAACP-SRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSADE-LARYLDLKKLDERVCMFEAV  153 (192)
Q Consensus        76 ~~~~~d~ii~v~D~~~~-~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~~~~~  153 (192)
                      .+.+.|.+++|+++.++ -++..+..++-....    .+++.++|+||+||......++ +..+..  .....+++++.+
T Consensus         7 ~vANiD~~~iV~s~~~P~~~~~~idR~Lv~a~~----~~i~pvIvlnK~DL~~~~~~~~~~~~~~~--~y~~~g~~v~~~   80 (231)
T d1t9ha2           7 PICNVDQAVLVFSAVQPSFSTALLDRFLVLVEA----NDIQPIICITKMDLIEDQDTEDTIQAYAE--DYRNIGYDVYLT   80 (231)
T ss_dssp             TEECCCEEEEEEESTTTTCCHHHHHHHHHHHHT----TTCEEEEEEECGGGCCCHHHHHHHHHHHH--HHHHHTCCEEEC
T ss_pred             CccccCEEEEEEECCCCCCCHHHHHHHHHHHHH----cCCCEEEEEecccccccHHHHHHHHHHHH--HHhhccccceee
Confidence            34688999999988655 456666666555443    4789999999999975432222 222221  011347899999


Q ss_pred             eecCCCCHHHHHHHH
Q 029517          154 SGYDGFGIKESVEWL  168 (192)
Q Consensus       154 Sa~~~~gi~e~~~~i  168 (192)
                      ||+++.|++++.+++
T Consensus        81 Sa~~~~gl~~L~~~l   95 (231)
T d1t9ha2          81 SSKDQDSLADIIPHF   95 (231)
T ss_dssp             CHHHHTTCTTTGGGG
T ss_pred             ecCChhHHHHHHHhh
Confidence            999999999986654

>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=97.95  E-value=1.1e-05  Score=60.52  Aligned_cols=76  Identities=20%  Similarity=0.164  Sum_probs=53.0

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEE-------------EecCEEEEEEeCCCC-----c--ccHHH
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRI-------------EVSNSKLVFWDLGGQ-----P--GLRSI   72 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~-------------~~~~~~~~i~D~~G~-----~--~~~~~   72 (192)
                      =|||+||+|.+.   ..++++++++++..|..|+-...-             ......+++.|+||.     +  .....
T Consensus        22 GKSTlfnalT~~---~~~~~anypftTi~pn~g~v~v~d~r~~~l~~~~~~~~~~~~~i~~~DvaGLv~gA~~g~GLGn~   98 (296)
T d1ni3a1          22 GKSTFFRAITKS---VLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTKGASTGVGLGNA   98 (296)
T ss_dssp             SHHHHHHHHHHS---TTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCCCCCSSSSSCHH
T ss_pred             CHHHHHHHHHCC---CCCCcCCCCccCccCCeEEEeccccchhhhhhcccCCceecccceeeeccccccccccccccHHH
Confidence            388999988753   234667888888888888732110             012357999999992     1  23345


Q ss_pred             HHHhhhcCCEEEEEEeCCC
Q 029517           73 WEKYYEEAHAVVFVIDAAC   91 (192)
Q Consensus        73 ~~~~~~~~d~ii~v~D~~~   91 (192)
                      ....++.||++++|+|+.+
T Consensus        99 fL~~ir~~d~lihVV~~f~  117 (296)
T d1ni3a1          99 FLSHVRAVDAIYQVVRAFD  117 (296)
T ss_dssp             HHHHHTTCSEEEEEEECCC
T ss_pred             HHHHhhccceeEEEEeccC
Confidence            6667899999999999865

>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=97.88  E-value=1e-05  Score=61.54  Aligned_cols=106  Identities=16%  Similarity=0.131  Sum_probs=61.7

Q ss_pred             EEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCH----
Q 029517           56 SKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSA----  131 (192)
Q Consensus        56 ~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~----  131 (192)
                      +.+.+++|.|.-.-.   ..+...+|.+++|.++...+..+....-   +++.      +=++|+||+|+......    
T Consensus       147 ~d~iliEtvG~gq~e---~~i~~~aD~~l~v~~P~~Gd~iq~~k~g---i~e~------aDi~VvNKaD~~~~~~~~~~~  214 (327)
T d2p67a1         147 YDVVIVETVGVGQSE---TEVARMVDCFISLQIAGGGDDLQGIKKG---LMEV------ADLIVINKDDGDNHTNVAIAR  214 (327)
T ss_dssp             CSEEEEEEECCTTHH---HHHHTTCSEEEEEECC------CCCCHH---HHHH------CSEEEECCCCTTCHHHHHHHH
T ss_pred             CCeEEEeeccccccc---hhhhhccceEEEEecCCCchhhhhhchh---hhcc------ccEEEEEeecccchHHHHHHH
Confidence            456777777743211   1245679999999987665544433333   3332      33688999998762211    


Q ss_pred             HHHHhHcCc--cccCCcceEEEEeeecCCCCHHHHHHHHHHHHH
Q 029517          132 DELARYLDL--KKLDERVCMFEAVSGYDGFGIKESVEWLVEVME  173 (192)
Q Consensus       132 ~~~~~~~~~--~~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~  173 (192)
                      .+....+.+  .....-..+++.|||.+|.||+++.+.|.+...
T Consensus       215 ~~~~~al~~~~~~~~~w~p~V~~~SA~~g~Gi~eL~~~I~~~~~  258 (327)
T d2p67a1         215 HMYESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKT  258 (327)
T ss_dssp             HHHHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhcccCCCCCcceeEEEEeeCCCCHHHHHHHHHHHHH
Confidence            122221111  111223468999999999999999999987554

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=97.73  E-value=3.2e-05  Score=58.68  Aligned_cols=109  Identities=12%  Similarity=0.109  Sum_probs=66.2

Q ss_pred             cCEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCCCCCHH-
Q 029517           54 SNSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPDAVSAD-  132 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~~~-  132 (192)
                      .++.+.|+.|.|.-.-...   ...-+|..++|..+...+..+....   .++      .++=++|+||+|+.+..... 
T Consensus       142 ~g~d~iiiETVG~gq~e~~---~~~~~D~~v~v~~p~~GD~iQ~~k~---gil------E~aDi~vvNKaD~~~~~~~~~  209 (323)
T d2qm8a1         142 AGFDVILVETVGVGQSETA---VADLTDFFLVLMLPGAGDELQGIKK---GIF------ELADMIAVNKADDGDGERRAS  209 (323)
T ss_dssp             TTCCEEEEEECSSSSCHHH---HHTTSSEEEEEECSCC------CCT---THH------HHCSEEEEECCSTTCCHHHHH
T ss_pred             CCCCeEEEeehhhhhhhhh---hhcccceEEEEeeccchhhhhhhhh---hHh------hhhheeeEeccccccchHHHH
Confidence            3567888889885432222   3456999999999887654443222   222      23457999999987632211 


Q ss_pred             ----HHHhHcCcc--ccCCcceEEEEeeecCCCCHHHHHHHHHHHHHh
Q 029517          133 ----ELARYLDLK--KLDERVCMFEAVSGYDGFGIKESVEWLVEVMER  174 (192)
Q Consensus       133 ----~~~~~~~~~--~~~~~~~~~~~~Sa~~~~gi~e~~~~i~~~i~~  174 (192)
                          +....+...  .......+++.+||++|.|++++.++|.+....
T Consensus       210 ~~~~~~~~~l~~~~~~~~~~~p~V~~~Sa~~g~Gi~el~~~I~~~~~~  257 (323)
T d2qm8a1         210 AAASEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRSK  257 (323)
T ss_dssp             HHHHHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcccccccCCCCceEEEEecCCCCHHHHHHHHHHHHHH
Confidence                122222211  112235679999999999999999999876543

>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=97.45  E-value=9.2e-05  Score=54.82  Aligned_cols=74  Identities=19%  Similarity=0.204  Sum_probs=46.2

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEE----------EEec---CEEEEEEeCCCCcc-------cHHH
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGR----------IEVS---NSKLVFWDLGGQPG-------LRSI   72 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~----------~~~~---~~~~~i~D~~G~~~-------~~~~   72 (192)
                      =|||+||+|.+    ..++++++++++..|.+|+-...          ++..   ...++++|+||.-.       ....
T Consensus        14 GKSTlf~~lt~----~~~~~~~ypf~ti~pn~gvv~v~d~r~~~l~~~~~~~~~~~a~i~~~Di~GLi~ga~~g~Glg~~   89 (278)
T d1jala1          14 GKSTLFNALTK----AGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGASKGEGLGNK   89 (278)
T ss_dssp             SHHHHHHHHHH----TC------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHHHHGGGTCC
T ss_pred             CHHHHHHHHHC----CCCccccCCCCCCCCceEEEecccHhHHHHHHhcCCCceeeeeEEEEEccccCCCcccCCCccHH
Confidence            37888887764    34577799999999999883221          1111   23689999999421       2223


Q ss_pred             HHHhhhcCCEEEEEEeCC
Q 029517           73 WEKYYEEAHAVVFVIDAA   90 (192)
Q Consensus        73 ~~~~~~~~d~ii~v~D~~   90 (192)
                      ...++++||+++.|+|+.
T Consensus        90 FL~~ir~~d~LihVVr~f  107 (278)
T d1jala1          90 FLANIRETDAIGHVVRCF  107 (278)
T ss_dssp             HHHHHHTCSEEEEEEECS
T ss_pred             HHHHHHhccceEEEeecc
Confidence            456789999999999874

>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=96.56  E-value=0.0023  Score=47.25  Aligned_cols=67  Identities=22%  Similarity=0.268  Sum_probs=45.0

Q ss_pred             EEEEEeCCCCc-------------ccHHHHHHhhhcCCEEE-EEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeC
Q 029517           57 KLVFWDLGGQP-------------GLRSIWEKYYEEAHAVV-FVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANK  122 (192)
Q Consensus        57 ~~~i~D~~G~~-------------~~~~~~~~~~~~~d~ii-~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK  122 (192)
                      .+.++|+||..             ....+...|+..++.++ +|.++....+-..+..+.+.+..    ...++++|+||
T Consensus       126 ~l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~~~~~~~~~~~----~~~r~i~Vltk  201 (299)
T d2akab1         126 NLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDP----QGQRTIGVITK  201 (299)
T ss_dssp             SEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHHCT----TCSSEEEEEEC
T ss_pred             CeeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhHHHHHHHHhCc----CCCceeeEEec
Confidence            58899999932             12355677888888654 55566555445555556555432    34689999999


Q ss_pred             CCCCC
Q 029517          123 QDLPD  127 (192)
Q Consensus       123 ~Dl~~  127 (192)
                      +|+..
T Consensus       202 ~D~~~  206 (299)
T d2akab1         202 LDLMD  206 (299)
T ss_dssp             GGGSC
T ss_pred             ccccc
Confidence            99876

>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=96.52  E-value=0.0026  Score=47.17  Aligned_cols=68  Identities=22%  Similarity=0.277  Sum_probs=44.2

Q ss_pred             EEEEEEeCCCCcc-------------cHHHHHHhhhcCCEEEEEE-eCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEe
Q 029517           56 SKLVFWDLGGQPG-------------LRSIWEKYYEEAHAVVFVI-DAACPSRFEDSKTALEKVLRNEDLQGAPLLILAN  121 (192)
Q Consensus        56 ~~~~i~D~~G~~~-------------~~~~~~~~~~~~d~ii~v~-D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~n  121 (192)
                      ..+.++|+||...             ....+..|+++++.+++++ +......-.....+.+.+..    ...++++|+|
T Consensus       131 ~~l~iiDtPG~~~~~~~~~~~~~~~~~~~~~~~yi~~~~~~il~v~~~~~~~~~~~~~~~~~~~~~----~~~r~i~Vit  206 (306)
T d1jwyb_         131 VNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEVDP----EGKRTIGVIT  206 (306)
T ss_dssp             CSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHHCS----SCSSEEEEEE
T ss_pred             CCceEecCCCccccccCCcchhHHHHHHHHHHHHHhCCCceeEEeecccccccccHHHHHHHHhCc----CCCeEEEEEe
Confidence            3688999999421             2356778999999876666 44332222333444444422    3468999999


Q ss_pred             CCCCCC
Q 029517          122 KQDLPD  127 (192)
Q Consensus       122 K~Dl~~  127 (192)
                      |+|...
T Consensus       207 k~D~~~  212 (306)
T d1jwyb_         207 KLDLMD  212 (306)
T ss_dssp             CTTSSC
T ss_pred             cccccc
Confidence            999865

>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=93.34  E-value=0.0059  Score=44.58  Aligned_cols=45  Identities=18%  Similarity=0.201  Sum_probs=23.4

Q ss_pred             hhccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCC
Q 029517           12 IFTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQ   66 (192)
Q Consensus        12 ~~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~   66 (192)
                      +=|||++|+|.++-...++..|+.+.+..         .+.. +-.+.++||||.
T Consensus       123 vGKSsliN~L~~~~~~~~~~~pG~Tr~~~---------~i~~-~~~~~l~DTPGi  167 (273)
T d1puja_         123 VGKSTLINRLAKKNIAKTGDRPGITTSQQ---------WVKV-GKELELLDTPGI  167 (273)
T ss_dssp             SSHHHHHHHHHTSCCC------------C---------CEEE-TTTEEEEECCCC
T ss_pred             cchhhhhhhhhccceEEECCcccccccce---------EEEC-CCCeEEecCCCc
Confidence            44899999999877766666666554321         1221 235899999994

>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=92.70  E-value=0.25  Score=33.99  Aligned_cols=78  Identities=12%  Similarity=0.130  Sum_probs=51.7

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEE-EEEeCCCCCC-CCCHH
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLL-ILANKQDLPD-AVSAD  132 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~pii-iv~nK~Dl~~-~~~~~  132 (192)
                      .+.+.++|+++....  .....+..+|.++++...+ ..++..+...+..+.+.    +.|++ +|.|+.+..+ ....+
T Consensus       111 ~~d~IiiD~~~~~~~--~~~~~l~~aD~viiv~~~~-~~s~~~~~~~~~~~~~~----~~~~~giv~N~~~~~~~~~~~~  183 (237)
T d1g3qa_         111 KFDFILIDCPAGLQL--DAMSAMLSGEEALLVTNPE-ISCLTDTMKVGIVLKKA----GLAILGFVLNRYGRSDRDIPPE  183 (237)
T ss_dssp             GCSEEEEECCSSSSH--HHHHHHTTCSEEEEEECSC-HHHHHHHHHHHHHHHHT----TCEEEEEEEEEETSCTTCCCHH
T ss_pred             cCCEEEEcccccccc--cchhhhhhhhccccccccc-ceecchhhHHHHHHhhh----hhhhhhhhhcccccccchhhhH
Confidence            568999999997543  3344577899999999875 44566666665555433    56665 7899998755 33344


Q ss_pred             HHHhHcC
Q 029517          133 ELARYLD  139 (192)
Q Consensus       133 ~~~~~~~  139 (192)
                      ...++..
T Consensus       184 ~~~~~~~  190 (237)
T d1g3qa_         184 AAEDVME  190 (237)
T ss_dssp             HHHHHHC
T ss_pred             HHHhhcC
Confidence            4454444

>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=92.13  E-value=0.01  Score=42.02  Aligned_cols=53  Identities=15%  Similarity=0.048  Sum_probs=24.5

Q ss_pred             ccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCccc
Q 029517           14 TKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGL   69 (192)
Q Consensus        14 kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~   69 (192)
                      |||++|+|+++....+..+........-.|.......+..+   -.++||||...+
T Consensus       108 KSTLiN~L~~~~~~~T~~vs~~~~rGrHTTt~~~l~~l~~g---g~iiDTPG~r~~  160 (225)
T d1u0la2         108 KSSLLNAINPGLKLRVSEVSEKLQRGRHTTTTAQLLKFDFG---GYVVDTPGFANL  160 (225)
T ss_dssp             HHHHHHHHSTTCCCC-------------CCCSCCEEECTTS---CEEESSCSSTTC
T ss_pred             HHHHHHhhcchhhhhccCcccccCCCCccccceeEEEECCC---cEEEeCCccccc
Confidence            78888888765544443333322211122333334444332   489999997544

>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=89.89  E-value=0.63  Score=32.07  Aligned_cols=94  Identities=18%  Similarity=0.060  Sum_probs=51.2

Q ss_pred             CEEEEEEeCCCCcccHHH----HHH---hhhc-----CCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeC
Q 029517           55 NSKLVFWDLGGQPGLRSI----WEK---YYEE-----AHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANK  122 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~----~~~---~~~~-----~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK  122 (192)
                      +..+.++||+|.......    ...   .++.     .+-.++|+|++..  .+.+..........     -+--++.+|
T Consensus        91 ~~d~ilIDTaGr~~~d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~~--~~~~~~~~~~~~~~-----~~~~lIlTK  163 (211)
T d2qy9a2          91 NIDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTG--QNAVSQAKLFHEAV-----GLTGITLTK  163 (211)
T ss_dssp             TCSEEEECCCCCGGGHHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGGT--HHHHHHHHHHHHHS-----CCCEEEEEC
T ss_pred             CCCEEEeccCCCccccHHHHHHHHHHHHHHhhhcccCcceeeeehhcccC--cchHHHHhhhhhcc-----CCceEEEee
Confidence            567899999996543221    222   2222     4578999998754  23333333322222     234467999


Q ss_pred             CCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHH
Q 029517          123 QDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKES  164 (192)
Q Consensus       123 ~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~  164 (192)
                      .|.....  -.+.....     ..+.++..++  .|++|+|+
T Consensus       164 lDe~~~~--G~~l~~~~-----~~~~Pi~~i~--~Gq~v~Dl  196 (211)
T d2qy9a2         164 LDGTAKG--GVIFSVAD-----QFGIPIRYIG--VGERIEDL  196 (211)
T ss_dssp             CTTCTTT--THHHHHHH-----HHCCCEEEEE--CSSSGGGE
T ss_pred             cCCCCCc--cHHHHHHH-----HHCCCEEEEe--CCCCcccC
Confidence            9976532  22333332     2345655555  67888653

>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=89.73  E-value=0.036  Score=39.24  Aligned_cols=53  Identities=9%  Similarity=-0.034  Sum_probs=21.6

Q ss_pred             hccccHHHHHHHHhhhhccCCCCCCCCCCCCcceEEEEEEecCEEEEEEeCCCCccc
Q 029517           13 FTKTEFHTLLEKLKSVYSNVEGLPPDRIVPTVGLNIGRIEVSNSKLVFWDLGGQPGL   69 (192)
Q Consensus        13 ~kst~~~~l~~~~~~~~~~~~~~~~~~~~~T~g~~~~~~~~~~~~~~i~D~~G~~~~   69 (192)
                      =|||++|+|++.....+..+......---.|........+  +  -.+.||||...+
T Consensus       109 GKSSLiN~L~~~~~~~t~~vs~~~~rGrHTTt~~~l~~~~--g--g~iiDTPG~r~~  161 (231)
T d1t9ha2         109 GKSSLLNAISPELGLRTNEISEHLGRGKHTTRHVELIHTS--G--GLVADTPGFSSL  161 (231)
T ss_dssp             HHHHHHHHHCC-------------------CCCCCEEEET--T--EEEESSCSCSSC
T ss_pred             cHHHHHHhhccHhHhhhcccccccCCCceeeeeEEEEecC--C--CEEEECCccccc
Confidence            3899999998776555444443322111122223333332  2  358899997654

>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=88.69  E-value=0.61  Score=32.19  Aligned_cols=94  Identities=17%  Similarity=0.020  Sum_probs=51.4

Q ss_pred             CEEEEEEeCCCCcccHHH----HHHhhhc--------CCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeC
Q 029517           55 NSKLVFWDLGGQPGLRSI----WEKYYEE--------AHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANK  122 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~----~~~~~~~--------~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK  122 (192)
                      ++.+.++||+|...+...    ...+.+.        .+-.++|+|++..  .+.+.+........     -+-=++.+|
T Consensus        93 ~~d~ilIDTaGr~~~d~~~~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~--~~~~~~~~~~~~~~-----~~~~lI~TK  165 (213)
T d1vmaa2          93 NKDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTG--QNGLVQAKIFKEAV-----NVTGIILTK  165 (213)
T ss_dssp             TCSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGH--HHHHHHHHHHHHHS-----CCCEEEEEC
T ss_pred             CCCEEEEeccccccchHHHHHHHHHHHhhhhhccccccceeEEeeccccC--cchhhhhhhhcccc-----CCceEEEec
Confidence            567999999996544332    2222221        3568999998643  33333333333222     234477999


Q ss_pred             CCCCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHH
Q 029517          123 QDLPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKES  164 (192)
Q Consensus       123 ~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~  164 (192)
                      .|......  .+.....     ..+.|+..++  +|++++++
T Consensus       166 lDe~~~~G--~~l~~~~-----~~~~Pi~~i~--~Gq~v~Dl  198 (213)
T d1vmaa2         166 LDGTAKGG--ITLAIAR-----ELGIPIKFIG--VGEKAEDL  198 (213)
T ss_dssp             GGGCSCTT--HHHHHHH-----HHCCCEEEEE--CSSSGGGE
T ss_pred             ccCCCccc--HHHHHHH-----HHCCCEEEEe--CCCCcccC
Confidence            99754322  3333332     2245555555  57777654

>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=85.57  E-value=1  Score=30.99  Aligned_cols=94  Identities=16%  Similarity=0.181  Sum_probs=52.2

Q ss_pred             cCEEEEEEeCCCCcccH------HHHHHhh--hcCCEEEEEEeCCCcc-cHHHHHHHHHHHHhCCCCCCCcEEEEEeCCC
Q 029517           54 SNSKLVFWDLGGQPGLR------SIWEKYY--EEAHAVVFVIDAACPS-RFEDSKTALEKVLRNEDLQGAPLLILANKQD  124 (192)
Q Consensus        54 ~~~~~~i~D~~G~~~~~------~~~~~~~--~~~d~ii~v~D~~~~~-s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D  124 (192)
                      .+..+.++||+|...+.      .....+.  -+.+-+++|+|++... ..+.+..   .. +.   .++ --++.||.|
T Consensus        93 ~~~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~---~~-~~---~~~-~~lI~TKlD  164 (211)
T d1j8yf2          93 EKMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLASK---FN-QA---SKI-GTIIITKMD  164 (211)
T ss_dssp             TTCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHHHH---HH-HH---CTT-EEEEEECTT
T ss_pred             cCCceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcchHHHHhh---hh-cc---cCc-ceEEEeccc
Confidence            45689999999964321      1122222  2356789999987543 2332222   22 11   122 236699999


Q ss_pred             CCCCCCHHHHHhHcCccccCCcceEEEEeeecCCCCHHHH
Q 029517          125 LPDAVSADELARYLDLKKLDERVCMFEAVSGYDGFGIKES  164 (192)
Q Consensus       125 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~e~  164 (192)
                      ...  ..-.+.+...     ..+.++..+|  .|++|+|+
T Consensus       165 et~--~~G~~l~~~~-----~~~lPi~~it--~Gq~v~DL  195 (211)
T d1j8yf2         165 GTA--KGGGALSAVA-----ATGATIKFIG--TGEKIDEL  195 (211)
T ss_dssp             SCS--CHHHHHHHHH-----TTTCCEEEEE--CSSSTTCE
T ss_pred             CCC--cccHHHHHHH-----HHCcCEEEEe--CCCCcccC
Confidence            754  3344444444     4456665565  58888653

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon 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: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=83.79  E-value=1.2  Score=30.25  Aligned_cols=79  Identities=13%  Similarity=0.108  Sum_probs=47.7

Q ss_pred             CEEEEEEeCCCCcccHHHHHHhhhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC-CCCHHH
Q 029517           55 NSKLVFWDLGGQPGLRSIWEKYYEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD-AVSADE  133 (192)
Q Consensus        55 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~-~~~~~~  133 (192)
                      .+.+.|+|+|+....  .....+..+|.+++|.+.. ..++......+....+.   ...++-++.|+.+... ....++
T Consensus       109 ~~D~viiD~~~~~~~--~~~~~l~~ad~v~~v~~~~-~~~~~~~~~~~~~~~~~---~~~~~~iv~N~~~~~~~~~~~~~  182 (232)
T d1hyqa_         109 STDILLLDAPAGLER--SAVIAIAAAQELLLVVNPE-ISSITDGLKTKIVAERL---GTKVLGVVVNRITTLGIEMAKNE  182 (232)
T ss_dssp             TCSEEEEECCSSSSH--HHHHHHHHSSEEEEEECSS-HHHHHHHHHHHHHHHHH---TCEEEEEEEEEECTTTHHHHHHH
T ss_pred             ccceeeecccccccc--hhHHHhhhhheeeeecccc-ccchhhhhhhhhhhhhc---ccccccccccccccccccchhhh
Confidence            466899999997643  3334567799999999875 33444444444433333   1223457899987543 223345


Q ss_pred             HHhHcC
Q 029517          134 LARYLD  139 (192)
Q Consensus       134 ~~~~~~  139 (192)
                      +.+.+.
T Consensus       183 i~~~~~  188 (232)
T d1hyqa_         183 IEAILE  188 (232)
T ss_dssp             HHHHTT
T ss_pred             HHhhcC
Confidence            555554

>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=83.49  E-value=2  Score=29.47  Aligned_cols=88  Identities=16%  Similarity=0.131  Sum_probs=45.7

Q ss_pred             EEEEEEeCCCCcccHHHHHHh--------hhcCCEEEEEEeCCCcccHHHHHHHHHHHHhCCCCCCCcEEEEEeCCCCCC
Q 029517           56 SKLVFWDLGGQPGLRSIWEKY--------YEEAHAVVFVIDAACPSRFEDSKTALEKVLRNEDLQGAPLLILANKQDLPD  127 (192)
Q Consensus        56 ~~~~i~D~~G~~~~~~~~~~~--------~~~~d~ii~v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~  127 (192)
                      ....+..+.|...-.......        .-..+++|.|+|+........-...+....+..      =++++||+|+..
T Consensus        90 ~d~iiIE~sG~~~p~~l~~~~~~~~~~~~~~~l~~vi~vVDa~~~~~~~~~~~~~~~Qi~~A------D~ivlNK~Dl~~  163 (222)
T d1nija1          90 FDRLVIECTGMADPGPIIQTFFSHEVLCQRYLLDGVIALVDAVHADEQMNQFTIAQSQVGYA------DRILLTKTDVAG  163 (222)
T ss_dssp             CSEEEEEEETTCCHHHHHHHHHHSHHHHHHEEEEEEEEEEETTTHHHHHHHCHHHHHHHHTC------SEEEEECTTTCS
T ss_pred             cceeEEeecccchhhHHHHHHHhhhcccccccccchhhhhhhhhhhhhhhhhHHHHHHHHhC------Cccccccccccc
Confidence            345788888865433322211        113588999999986543222222222222222      347899999975


Q ss_pred             CCCHHHHHhHcCccccCCcceEEEEee
Q 029517          128 AVSADELARYLDLKKLDERVCMFEAVS  154 (192)
Q Consensus       128 ~~~~~~~~~~~~~~~~~~~~~~~~~~S  154 (192)
                      .  .+.+.+.+..  + +...++++++
T Consensus       164 ~--~~~~~~~l~~--l-NP~a~Ii~~~  185 (222)
T d1nija1         164 E--AEKLHERLAR--I-NARAPVYTVT  185 (222)
T ss_dssp             C--THHHHHHHHH--H-CSSSCEEECC
T ss_pred             H--HHHHHHHHHH--H-hCCCeEEEee
Confidence            3  3444444431  1 2344555544