Citrus Sinensis ID: 032030

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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-------15
Protein Sequence
MRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHYIVS
Secondary Structure (PSIPRED)
ccccccccccEEEEEccccccccccccccccHHHHHHHHccccccEEEEEccccEEEEccccccccEEEEEEEccccccccccccccEEEEcEEEEEHHccHHHHcccHHHHHHHHHHHcccccEEEEEccccccHHHHHHHHHHHHc
Secondary Structure Prediction (SSPRO)
cccccccHHHEEEEcccccccHHHHHHHHHHHHHHHHHHHHccccEEEEEcccccccccccHHHccEEEEEEEccccccccccccccccHccEEEEEccccccHccccHHHHHHHHHHHcccccEEEEcccccccHHHHHHHHHHHcc
Coil and Loop (DISEMBL)
MRNGALPEERIRavetggcphaairedisinlgpleelsnlFKADLLLcesggdnlaaNFSRELADYIIYIIDVsggdkiprkggpgitqadlLVINKTDLASAIGADLAVMERDalrmrdggpfifAQVGWVIGIIFTLSITHYIVS
Flexible Loop (DISEMBL)
mrngalpeeriravetggcphaaIREDISINLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHYIVS
Low Complexity Region (SEG)
MRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHYIVS
Disordered region (IsUnstruct)
*************VETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHYIV*
Disordered Region (DISOPRED)
***GALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHYIVS
Disordered Region (DISEMBL)
MRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHYIVS
Disordered Region (DISPRO)
***GALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHYIVS
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHYIVS
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	148	2.2.26 [Sep-21-2011]
A7HHN3	236	Urease accessory protein	yes	no	0.918	0.576	0.727	3e-54
Q96WV0	286	Uncharacterized urease ac	yes	no	0.918	0.475	0.720	8e-54
A9GP90	302	Urease accessory protein	yes	no	0.912	0.447	0.718	4e-50
Q11VN1	244	Urease accessory protein	yes	no	0.918	0.557	0.671	1e-46
B0UBI3	204	Urease accessory protein	yes	no	0.858	0.622	0.687	3e-44
B1M3X4	205	Urease accessory protein	yes	no	0.858	0.619	0.679	3e-44
B8IJ81	204	Urease accessory protein	yes	no	0.858	0.622	0.687	4e-44
B1ZHN6	204	Urease accessory protein	yes	no	0.858	0.622	0.671	1e-43
A9W6X0	204	Urease accessory protein	yes	no	0.858	0.622	0.671	2e-43
A0L6F5	202	Urease accessory protein	yes	no	0.864	0.633	0.651	1e-42

>sp|A7HHN3|UREG_ANADF Urease accessory protein UreG OS=Anaeromyxobacter sp. (strain Fw109-5) GN=ureG PE=3 SV=1

 Score =  210 bits (534), Expect = 3e-54,   Method: Compositional matrix adjust.
 Identities = 99/136 (72%), Positives = 116/136 (85%)

Query: 1   MRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANF 60
           +RN ALP ERIRAVETGGCPHAAIRED++ NL  LEEL+   + ++L CESGGDNLAA+F
Sbjct: 82  VRNDALPAERIRAVETGGCPHAAIREDVTANLLALEELTEAHRPEILFCESGGDNLAAHF 141

Query: 61  SRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMR 120
           SRELADY IY+IDV+GGDK+PRKGGPGITQADLLV+NKTDLA+A+GADL VM RDA RMR
Sbjct: 142 SRELADYTIYVIDVAGGDKVPRKGGPGITQADLLVVNKTDLATAVGADLDVMARDAARMR 201

Query: 121 DGGPFIFAQVGWVIGI 136
             GP +FAQV   +G+
Sbjct: 202 GDGPVVFAQVTRGVGV 217

Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG.
Anaeromyxobacter sp. (strain Fw109-5) (taxid: 404589)

>sp|Q96WV0|UREG_SCHPO Uncharacterized urease accessory protein ureG-like OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPCPB16A4.05c PE=3 SV=1

 Score =  208 bits (530), Expect = 8e-54,   Method: Compositional matrix adjust.
 Identities = 98/136 (72%), Positives = 119/136 (87%)

Query: 1   MRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANF 60
           +RN ALPEERIRA+ETGGCPHAAIRED+S NL  LEEL + F  +LLL ESGGDNLAAN+
Sbjct: 133 IRNKALPEERIRAIETGGCPHAAIREDVSGNLVALEELQSEFNTELLLVESGGDNLAANY 192

Query: 61  SRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMR 120
           SR+LAD+IIY+IDVSGGDKIPRKGGPGIT++DLL+INKTDLA  +GADL+VM+RDA ++R
Sbjct: 193 SRDLADFIIYVIDVSGGDKIPRKGGPGITESDLLIINKTDLAKLVGADLSVMDRDAKKIR 252

Query: 121 DGGPFIFAQVGWVIGI 136
           + GP +FAQV   +G+
Sbjct: 253 ENGPIVFAQVKNQVGM 268

Probably facilitates nickel incorporation.

Schizosaccharomyces pombe (strain 972 / ATCC 24843) (taxid: 284812)

>sp|A9GP90|UREG_SORC5 Urease accessory protein UreG OS=Sorangium cellulosum (strain So ce56) GN=ureG PE=3 SV=1

 Score =  196 bits (498), Expect = 4e-50,   Method: Compositional matrix adjust.
 Identities = 97/135 (71%), Positives = 109/135 (80%)

Query: 2   RNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANFS 61
           RN ALP ERIRAVETGGCPHAAIREDIS NL  L++L +     LL+ ESGGDNLAA +S
Sbjct: 146 RNKALPPERIRAVETGGCPHAAIREDISHNLVALDDLMDHVAPALLIVESGGDNLAAQYS 205

Query: 62  RELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRD 121
           REL DY IY+IDV+GGDK+PRKGGPGITQ+DLLVINKTDLA  +GADL VMERDA RMR 
Sbjct: 206 RELVDYTIYVIDVAGGDKVPRKGGPGITQSDLLVINKTDLAPHVGADLGVMERDARRMRG 265

Query: 122 GGPFIFAQVGWVIGI 136
            GPF+FAQ     G+
Sbjct: 266 DGPFLFAQCNRSQGV 280

Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG.

Sorangium cellulosum (strain So ce56) (taxid: 448385)

>sp|Q11VN1|UREG_CYTH3 Urease accessory protein UreG OS=Cytophaga hutchinsonii (strain ATCC 33406 / NCIMB 9469) GN=ureG PE=3 SV=1

 Score =  185 bits (469), Expect = 1e-46,   Method: Compositional matrix adjust.
 Identities = 92/137 (67%), Positives = 108/137 (78%), Gaps = 1/137 (0%)

Query: 1   MRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLF-KADLLLCESGGDNLAAN 59
           +RN AL ++RI  VETGGCPHAAIRED+S N+  LEEL   F   +LL  ESGGDNLAA+
Sbjct: 82  IRNEALSKDRIIGVETGGCPHAAIREDVSQNMYALEELMKRFPDVELLFVESGGDNLAAH 141

Query: 60  FSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRM 119
           FS+EL DY +Y+IDVSGGDKIPRKGGPGITQADLLVINK DLA  + ADL+VMERD+ +M
Sbjct: 142 FSKELVDYSVYVIDVSGGDKIPRKGGPGITQADLLVINKIDLAHLVNADLSVMERDSKKM 201

Query: 120 RDGGPFIFAQVGWVIGI 136
           R  GPF+FA+     GI
Sbjct: 202 RGDGPFLFARAKDCFGI 218

Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG.

Cytophaga hutchinsonii (strain ATCC 33406 / NCIMB 9469) (taxid: 269798)

>sp|B0UBI3|UREG_METS4 Urease accessory protein UreG OS=Methylobacterium sp. (strain 4-46) GN=ureG PE=3 SV=1

 Score =  177 bits (448), Expect = 3e-44,   Method: Compositional matrix adjust.
 Identities = 88/128 (68%), Positives = 102/128 (79%), Gaps = 1/128 (0%)

Query: 4   GALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKA-DLLLCESGGDNLAANFSR 62
           GALPEERI  VETGGCPH AIRED SINL  + E+   F + DL+L ESGGDNLAA FS 
Sbjct: 58  GALPEERIMGVETGGCPHTAIREDASINLAAVAEMRRRFPSLDLILIESGGDNLAATFSP 117

Query: 63  ELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDG 122
           ELAD  +Y+IDV+GG+KIPRKGGPGIT++DLLVINKTDLA  +GADLAVME D  RMR G
Sbjct: 118 ELADLTLYVIDVAGGEKIPRKGGPGITRSDLLVINKTDLAPLVGADLAVMEADTQRMRGG 177

Query: 123 GPFIFAQV 130
            P++F  +
Sbjct: 178 RPYVFTSL 185

Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG.

Methylobacterium sp. (strain 4-46) (taxid: 426117)

>sp|B1M3X4|UREG1_METRJ Urease accessory protein UreG 1 OS=Methylobacterium radiotolerans (strain ATCC 27329 / DSM 1819 / JCM 2831) GN=ureG1 PE=3 SV=1

 Score =  176 bits (447), Expect = 3e-44,   Method: Compositional matrix adjust.
 Identities = 87/128 (67%), Positives = 103/128 (80%), Gaps = 1/128 (0%)

Query: 4   GALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLF-KADLLLCESGGDNLAANFSR 62
           GALPEERI  VETGGCPH AIRED SINL  + E+S  F K DL+L ESGGDNLAA FS 
Sbjct: 57  GALPEERILGVETGGCPHTAIREDASINLAAVAEMSRRFPKLDLVLIESGGDNLAATFSP 116

Query: 63  ELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDG 122
           ELAD  +Y+IDV+GG+KIPRKGGPGIT++DLL++NKTDLA  +GADL+VME D  RMR  
Sbjct: 117 ELADITLYVIDVAGGEKIPRKGGPGITRSDLLIVNKTDLAPLVGADLSVMESDTQRMRGT 176

Query: 123 GPFIFAQV 130
            P++FA +
Sbjct: 177 RPYVFASL 184

Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG.

Methylobacterium radiotolerans (strain ATCC 27329 / DSM 1819 / JCM 2831) (taxid: 426355)

>sp|B8IJ81|UREG_METNO Urease accessory protein UreG OS=Methylobacterium nodulans (strain ORS2060 / LMG 21967) GN=ureG PE=3 SV=1

 Score =  176 bits (446), Expect = 4e-44,   Method: Compositional matrix adjust.
 Identities = 88/128 (68%), Positives = 101/128 (78%), Gaps = 1/128 (0%)

Query: 4   GALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKA-DLLLCESGGDNLAANFSR 62
           GALPEERI  VETGGCPH AIRED SINL  + E+   F A DL+L ESGGDNLAA FS 
Sbjct: 58  GALPEERIMGVETGGCPHTAIREDASINLAAVAEMRRRFPALDLILIESGGDNLAATFSP 117

Query: 63  ELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDG 122
           ELAD  +Y+IDV+GG+KIPRKGGPGIT++DLLVINKTDLA  +GADLAVME D  RMR  
Sbjct: 118 ELADLTLYVIDVAGGEKIPRKGGPGITRSDLLVINKTDLAPLVGADLAVMEADTRRMRGS 177

Query: 123 GPFIFAQV 130
            P++F  +
Sbjct: 178 RPYVFTSL 185

Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG.

Methylobacterium nodulans (strain ORS2060 / LMG 21967) (taxid: 460265)

>sp|B1ZHN6|UREG1_METPB Urease accessory protein UreG 1 OS=Methylobacterium populi (strain ATCC BAA-705 / NCIMB 13946 / BJ001) GN=ureG1 PE=3 SV=1

 Score =  174 bits (442), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 86/128 (67%), Positives = 102/128 (79%), Gaps = 1/128 (0%)

Query: 4   GALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLF-KADLLLCESGGDNLAANFSR 62
           GALPEERI  VETGGCPH AIRED SINL  + E+   F K DL+L ESGGDNLAA FS 
Sbjct: 57  GALPEERILGVETGGCPHTAIREDASINLAAVAEMRRRFPKLDLVLIESGGDNLAATFSP 116

Query: 63  ELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDG 122
           ELAD  +Y+IDV+GG+KIPRKGGPGIT++DLL++NKTDLA  +GADL+VME D  RMR  
Sbjct: 117 ELADITLYVIDVAGGEKIPRKGGPGITRSDLLIVNKTDLAPLVGADLSVMESDTQRMRGT 176

Query: 123 GPFIFAQV 130
            P++FA +
Sbjct: 177 RPYVFASL 184

Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG.

Methylobacterium populi (strain ATCC BAA-705 / NCIMB 13946 / BJ001) (taxid: 441620)

>sp|A9W6X0|UREG1_METEP Urease accessory protein UreG 1 OS=Methylobacterium extorquens (strain PA1) GN=ureG1 PE=3 SV=1

 Score =  174 bits (441), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 86/128 (67%), Positives = 102/128 (79%), Gaps = 1/128 (0%)

Query: 4   GALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLF-KADLLLCESGGDNLAANFSR 62
           GALPEERI  VETGGCPH AIRED SINL  + E+   F K DL+L ESGGDNLAA FS 
Sbjct: 57  GALPEERILGVETGGCPHTAIREDASINLAAVAEMRRRFPKLDLVLIESGGDNLAATFSP 116

Query: 63  ELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDG 122
           ELAD  +Y+IDV+GG+KIPRKGGPGIT++DLL++NKTDLA  +GADL+VME D  RMR  
Sbjct: 117 ELADLTLYVIDVAGGEKIPRKGGPGITRSDLLIVNKTDLAPLVGADLSVMEADTQRMRGT 176

Query: 123 GPFIFAQV 130
            P++FA +
Sbjct: 177 RPYVFASL 184

Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG.

Methylobacterium extorquens (strain PA1) (taxid: 419610)

>sp|A0L6F5|UREG_MAGSM Urease accessory protein UreG OS=Magnetococcus sp. (strain MC-1) GN=ureG PE=3 SV=1

 Score =  171 bits (434), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 84/129 (65%), Positives = 101/129 (78%), Gaps = 1/129 (0%)

Query: 3   NGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFK-ADLLLCESGGDNLAANFS 61
           +GALP ERI  VETGGCPH AIRED S+NL  +E++   F   +L+  ESGGDNLAA FS
Sbjct: 53  SGALPAERIMGVETGGCPHTAIREDASMNLAAVEDMQLRFADLELIFIESGGDNLAATFS 112

Query: 62  RELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRD 121
            ELAD  +Y+IDV+ G+KIPRKGGPGIT++DLLVINKTDLA  +GADLAVME+D LRMR 
Sbjct: 113 PELADLTLYVIDVAAGEKIPRKGGPGITRSDLLVINKTDLAPLVGADLAVMEQDTLRMRG 172

Query: 122 GGPFIFAQV 130
             PF+F  +
Sbjct: 173 SRPFVFTNL 181

Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG.

Magnetococcus sp. (strain MC-1) (taxid: 156889)

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	148
326521402	183	predicted protein [Hordeum vulgare subsp	0.918	0.743	0.911	2e-66
297826907	278	predicted protein [Arabidopsis lyrata su	0.918	0.489	0.911	3e-66
222424894	191	AT2G34470 [Arabidopsis thaliana]	0.918	0.712	0.904	3e-66
222143562	279	urease accessory protein ureG [Morus alb	0.918	0.487	0.919	6e-66
224069802	280	predicted protein [Populus trichocarpa]	0.918	0.485	0.919	6e-66
15226754	275	urease accessory protein [Arabidopsis th	0.918	0.494	0.904	6e-66
79324312	276	urease accessory protein [Arabidopsis th	0.918	0.492	0.904	6e-66
326522022	354	predicted protein [Hordeum vulgare subsp	0.918	0.384	0.911	7e-66
297740673	521	unnamed protein product [Vitis vinifera]	0.918	0.261	0.911	9e-66
225463462	369	PREDICTED: uncharacterized urease access	0.918	0.368	0.911	1e-65

>gi|326521402|dbj|BAJ96904.1| predicted protein [Hordeum vulgare subsp. vulgare]

 Score =  256 bits (655), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 124/136 (91%), Positives = 133/136 (97%)

Query: 1   MRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANF 60
           +++GALPEERIRAVETGGCPHAAIREDISINLGPLEELSNL+KADLLLCESGGDNLAANF
Sbjct: 28  VKHGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLYKADLLLCESGGDNLAANF 87

Query: 61  SRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMR 120
           SRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASA+GADLAVMERDALRMR
Sbjct: 88  SRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAVGADLAVMERDALRMR 147

Query: 121 DGGPFIFAQVGWVIGI 136
           +GGPF+FAQV   +G+
Sbjct: 148 EGGPFVFAQVKHGVGV 163

Source: Hordeum vulgare subsp. vulgare

Species: Hordeum vulgare

Genus: Hordeum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297826907|ref|XP_002881336.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297327175|gb|EFH57595.1| predicted protein [Arabidopsis lyrata subsp. lyrata]

 Score =  255 bits (652), Expect = 3e-66,   Method: Compositional matrix adjust.
 Identities = 124/136 (91%), Positives = 132/136 (97%)

Query: 1   MRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANF 60
           ++NGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANF
Sbjct: 123 VKNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANF 182

Query: 61  SRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMR 120
           SRELADYIIYIIDVS GDKIPRKGGPGITQADLLVINKTDLA+A+GADL+VMERDALRMR
Sbjct: 183 SRELADYIIYIIDVSAGDKIPRKGGPGITQADLLVINKTDLAAAVGADLSVMERDALRMR 242

Query: 121 DGGPFIFAQVGWVIGI 136
           DGGPF+FAQV   +G+
Sbjct: 243 DGGPFVFAQVKHGLGV 258

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|222424894|dbj|BAH20398.1| AT2G34470 [Arabidopsis thaliana]

 Score =  255 bits (652), Expect = 3e-66,   Method: Compositional matrix adjust.
 Identities = 123/136 (90%), Positives = 132/136 (97%)

Query: 1   MRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANF 60
           ++NGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANF
Sbjct: 36  VKNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANF 95

Query: 61  SRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMR 120
           SRELADYIIYIIDVS GDKIPRKGGPGITQADLLVINKTDLA+A+GADL+VMERD+LRMR
Sbjct: 96  SRELADYIIYIIDVSAGDKIPRKGGPGITQADLLVINKTDLAAAVGADLSVMERDSLRMR 155

Query: 121 DGGPFIFAQVGWVIGI 136
           DGGPF+FAQV   +G+
Sbjct: 156 DGGPFVFAQVKHGLGV 171

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|222143562|dbj|BAH19310.1| urease accessory protein ureG [Morus alba]

 Score =  254 bits (650), Expect = 6e-66,   Method: Compositional matrix adjust.
 Identities = 125/136 (91%), Positives = 131/136 (96%)

Query: 1   MRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANF 60
           ++NGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKAD+LLCESGGDNLAANF
Sbjct: 124 VKNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADILLCESGGDNLAANF 183

Query: 61  SRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMR 120
           SRELADYIIYIIDVS GDKIPRKGGPGITQADLLVINKTDLA A+GADLAVMERDALRMR
Sbjct: 184 SRELADYIIYIIDVSAGDKIPRKGGPGITQADLLVINKTDLAPAVGADLAVMERDALRMR 243

Query: 121 DGGPFIFAQVGWVIGI 136
           DGGPF+FAQV   +GI
Sbjct: 244 DGGPFVFAQVKHGVGI 259

Source: Morus alba

Species: Morus alba

Genus: Morus

Family: Moraceae

Order: Rosales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224069802|ref|XP_002303043.1| predicted protein [Populus trichocarpa] gi|222844769|gb|EEE82316.1| predicted protein [Populus trichocarpa]

 Score =  254 bits (650), Expect = 6e-66,   Method: Compositional matrix adjust.
 Identities = 125/136 (91%), Positives = 131/136 (96%)

Query: 1   MRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANF 60
           +++GALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANF
Sbjct: 125 IKHGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANF 184

Query: 61  SRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMR 120
           SRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLA A+GADL VMERDALRMR
Sbjct: 185 SRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLAPAVGADLVVMERDALRMR 244

Query: 121 DGGPFIFAQVGWVIGI 136
           DGGPF+FAQV   +GI
Sbjct: 245 DGGPFVFAQVKHGLGI 260

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15226754|ref|NP_180994.1| urease accessory protein [Arabidopsis thaliana] gi|3128220|gb|AAC26700.1| putative urease accessory protein [Arabidopsis thaliana] gi|20197163|gb|AAM14950.1| putative urease accessory protein [Arabidopsis thaliana] gi|21553947|gb|AAM63028.1| putative urease accessory protein [Arabidopsis thaliana] gi|26453270|dbj|BAC43708.1| putative urease accessory protein [Arabidopsis thaliana] gi|28950833|gb|AAO63340.1| At2g34470 [Arabidopsis thaliana] gi|330253884|gb|AEC08978.1| urease accessory protein [Arabidopsis thaliana]

 Score =  254 bits (650), Expect = 6e-66,   Method: Compositional matrix adjust.
 Identities = 123/136 (90%), Positives = 132/136 (97%)

Query: 1   MRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANF 60
           ++NGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANF
Sbjct: 120 VKNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANF 179

Query: 61  SRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMR 120
           SRELADYIIYIIDVS GDKIPRKGGPGITQADLLVINKTDLA+A+GADL+VMERD+LRMR
Sbjct: 180 SRELADYIIYIIDVSAGDKIPRKGGPGITQADLLVINKTDLAAAVGADLSVMERDSLRMR 239

Query: 121 DGGPFIFAQVGWVIGI 136
           DGGPF+FAQV   +G+
Sbjct: 240 DGGPFVFAQVKHGLGV 255

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|79324312|ref|NP_001031481.1| urease accessory protein [Arabidopsis thaliana] gi|330253885|gb|AEC08979.1| urease accessory protein [Arabidopsis thaliana]

 Score =  254 bits (650), Expect = 6e-66,   Method: Compositional matrix adjust.
 Identities = 123/136 (90%), Positives = 132/136 (97%)

Query: 1   MRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANF 60
           ++NGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANF
Sbjct: 121 VKNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANF 180

Query: 61  SRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMR 120
           SRELADYIIYIIDVS GDKIPRKGGPGITQADLLVINKTDLA+A+GADL+VMERD+LRMR
Sbjct: 181 SRELADYIIYIIDVSAGDKIPRKGGPGITQADLLVINKTDLAAAVGADLSVMERDSLRMR 240

Query: 121 DGGPFIFAQVGWVIGI 136
           DGGPF+FAQV   +G+
Sbjct: 241 DGGPFVFAQVKHGLGV 256

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|326522022|dbj|BAK04139.1| predicted protein [Hordeum vulgare subsp. vulgare]

 Score =  254 bits (649), Expect = 7e-66,   Method: Compositional matrix adjust.
 Identities = 124/136 (91%), Positives = 133/136 (97%)

Query: 1   MRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANF 60
           +++GALPEERIRAVETGGCPHAAIREDISINLGPLEELSNL+KADLLLCESGGDNLAANF
Sbjct: 199 VKHGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLYKADLLLCESGGDNLAANF 258

Query: 61  SRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMR 120
           SRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASA+GADLAVMERDALRMR
Sbjct: 259 SRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAVGADLAVMERDALRMR 318

Query: 121 DGGPFIFAQVGWVIGI 136
           +GGPF+FAQV   +G+
Sbjct: 319 EGGPFVFAQVKHGVGV 334

Source: Hordeum vulgare subsp. vulgare

Species: Hordeum vulgare

Genus: Hordeum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297740673|emb|CBI30855.3| unnamed protein product [Vitis vinifera]

 Score =  254 bits (649), Expect = 9e-66,   Method: Compositional matrix adjust.
 Identities = 124/136 (91%), Positives = 131/136 (96%)

Query: 1   MRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANF 60
           +++GALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFK D+LLCESGGDNLAANF
Sbjct: 366 VKHGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKVDILLCESGGDNLAANF 425

Query: 61  SRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMR 120
           SRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLA A+GADLAVMERD+LRMR
Sbjct: 426 SRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLAPAVGADLAVMERDSLRMR 485

Query: 121 DGGPFIFAQVGWVIGI 136
           DGGPFIFAQV   +GI
Sbjct: 486 DGGPFIFAQVRHGVGI 501

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225463462|ref|XP_002276305.1| PREDICTED: uncharacterized urease accessory protein ureG-like [Vitis vinifera]

 Score =  254 bits (648), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 124/136 (91%), Positives = 131/136 (96%)

Query: 1   MRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANF 60
           +++GALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFK D+LLCESGGDNLAANF
Sbjct: 214 VKHGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKVDILLCESGGDNLAANF 273

Query: 61  SRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMR 120
           SRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLA A+GADLAVMERD+LRMR
Sbjct: 274 SRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLAPAVGADLAVMERDSLRMR 333

Query: 121 DGGPFIFAQVGWVIGI 136
           DGGPFIFAQV   +GI
Sbjct: 334 DGGPFIFAQVRHGVGI 349

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	148
TAIR|locus:2040894	276	UREG "AT2G34470" [Arabidopsis	0.918	0.492	0.904	1.8e-62
UNIPROTKB|G4NCH0	277	MGG_01086 "Uncharacterized pro	0.912	0.487	0.742	4.6e-50
POMBASE|SPCPB16A4.05c	286	SPCPB16A4.05c "urease accessor	0.918	0.475	0.720	9.5e-50
ASPGD|ASPL0000062920	266	ureD [Emericella nidulans (tax	0.871	0.484	0.720	4.2e-47
UNIPROTKB|Q48DC7	205	ureG "Urease accessory protein	0.864	0.624	0.612	3e-37
UNIPROTKB|P0A664	224	ureG "Urease accessory protein	0.837	0.553	0.616	3.9e-37
TIGR_CMR|SPO_1717	215	SPO_1717 "urease accessory pro	0.878	0.604	0.595	3.9e-37
UNIPROTKB|P18319	205	ureG "Urease accessory protein	0.858	0.619	0.625	4.4e-36

TAIR|locus:2040894 UREG "AT2G34470" [Arabidopsis thaliana (taxid:3702)]

 Score = 638 (229.6 bits), Expect = 1.8e-62, P = 1.8e-62
 Identities = 123/136 (90%), Positives = 132/136 (97%)

Query:     1 MRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANF 60
             ++NGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANF
Sbjct:   121 VKNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANF 180

Query:    61 SRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMR 120
             SRELADYIIYIIDVS GDKIPRKGGPGITQADLLVINKTDLA+A+GADL+VMERD+LRMR
Sbjct:   181 SRELADYIIYIIDVSAGDKIPRKGGPGITQADLLVINKTDLAAAVGADLSVMERDSLRMR 240

Query:   121 DGGPFIFAQVGWVIGI 136
             DGGPF+FAQV   +G+
Sbjct:   241 DGGPFVFAQVKHGLGV 256

GO:0000166 "nucleotide binding" evidence=ISS

GO:0005524 "ATP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM;IEA

GO:0016151 "nickel cation binding" evidence=IEA

GO:0046872 "metal ion binding" evidence=ISS

GO:0006807 "nitrogen compound metabolic process" evidence=IMP

GO:0048554 "positive regulation of metalloenzyme activity" evidence=IMP

GO:0016020 "membrane" evidence=IDA

UNIPROTKB|G4NCH0 MGG_01086 "Uncharacterized protein" [Magnaporthe oryzae 70-15 (taxid:242507)]

 Score = 521 (188.5 bits), Expect = 4.6e-50, P = 4.6e-50
 Identities = 101/136 (74%), Positives = 115/136 (84%)

Query:     2 RNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKA-DLLLCESGGDNLAANF 60
             RN ALP  RIRA+ETGGCPHAA+REDIS NL  LE+L   F   DLLL ESGGDNLAAN+
Sbjct:   105 RNKALPPSRIRAIETGGCPHAAVREDISANLACLEDLHRTFNGVDLLLIESGGDNLAANY 164

Query:    61 SRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMR 120
             SRELAD+IIY+IDVSGGDKIPRKGGPGITQ+DLLV+NKTDLA  +GADL VMERDA +MR
Sbjct:   165 SRELADFIIYVIDVSGGDKIPRKGGPGITQSDLLVVNKTDLAEIVGADLGVMERDARKMR 224

Query:   121 DGGPFIFAQVGWVIGI 136
             +GGP +FAQV   +G+
Sbjct:   225 EGGPTVFAQVKKSVGV 240

GO:0005575 "cellular_component" evidence=ND

POMBASE|SPCPB16A4.05c SPCPB16A4.05c "urease accessory protein UREG (predicted)" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 518 (187.4 bits), Expect = 9.5e-50, P = 9.5e-50
 Identities = 98/136 (72%), Positives = 119/136 (87%)

Query:     1 MRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANF 60
             +RN ALPEERIRA+ETGGCPHAAIRED+S NL  LEEL + F  +LLL ESGGDNLAAN+
Sbjct:   133 IRNKALPEERIRAIETGGCPHAAIREDVSGNLVALEELQSEFNTELLLVESGGDNLAANY 192

Query:    61 SRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMR 120
             SR+LAD+IIY+IDVSGGDKIPRKGGPGIT++DLL+INKTDLA  +GADL+VM+RDA ++R
Sbjct:   193 SRDLADFIIYVIDVSGGDKIPRKGGPGITESDLLIINKTDLAKLVGADLSVMDRDAKKIR 252

Query:   121 DGGPFIFAQVGWVIGI 136
             + GP +FAQV   +G+
Sbjct:   253 ENGPIVFAQVKNQVGM 268

GO:0003924 "GTPase activity" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0006184 "GTP catabolic process" evidence=IEA

GO:0016151 "nickel cation binding" evidence=IEA

GO:0016530 "metallochaperone activity" evidence=IEA

GO:0019627 "urea metabolic process" evidence=ISM

GO:0042803 "protein homodimerization activity" evidence=IEA

ASPGD|ASPL0000062920 ureD [Emericella nidulans (taxid:162425)]

 Score = 493 (178.6 bits), Expect = 4.2e-47, P = 4.2e-47
 Identities = 93/129 (72%), Positives = 111/129 (86%)

Query:     2 RNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANFS 61
             RN AL  +RIRA+ETGGCPHAA+REDIS NL  L+ L   F+ DLLL ESGGDNLAAN+S
Sbjct:    95 RNKALSPDRIRAIETGGCPHAAVREDISANLLALQNLHRQFQTDLLLIESGGDNLAANYS 154

Query:    62 RELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRD 121
             RELAD+IIY+IDV+GGDK+PRKGGPGIT +DLLV+NK DLA A+GAD++VMERDA +MR+
Sbjct:   155 RELADFIIYVIDVAGGDKVPRKGGPGITGSDLLVVNKIDLAEAVGADISVMERDAAKMRE 214

Query:   122 GGPFIFAQV 130
             GGP +FA V
Sbjct:   215 GGPTVFAVV 223

GO:0043419 "urea catabolic process" evidence=IMP

GO:0009039 "urease activity" evidence=IMP

GO:0005634 "nucleus" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0005524 "ATP binding" evidence=IEA

GO:0016151 "nickel cation binding" evidence=IEA

UNIPROTKB|Q48DC7 ureG "Urease accessory protein UreG" [Pseudomonas syringae pv. phaseolicola 1448A (taxid:264730)]

 Score = 400 (145.9 bits), Expect = 3.0e-37, P = 3.0e-37
 Identities = 79/129 (61%), Positives = 98/129 (75%)

Query:     1 MRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKA-DLLLCESGGDNLAAN 59
             +RN AL  ERI  VETGGCPH AIRED SINL  +++L+  F+  DL++ ESGGDNL+A 
Sbjct:    52 VRNEALAPERIIGVETGGCPHTAIREDASINLEAVDQLNRRFEGLDLIIVESGGDNLSAT 111

Query:    60 FSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRM 119
             FS EL+D  IY+IDVS GDK+PRKGGPGI ++DLLVINK DLA  +GA L +M+ D  RM
Sbjct:   112 FSPELSDLTIYVIDVSAGDKLPRKGGPGICKSDLLVINKIDLAPLVGASLEMMDSDTRRM 171

Query:   120 RDGGPFIFA 128
             R   PF+F+
Sbjct:   172 RGEKPFVFS 180

GO:0016530 "metallochaperone activity" evidence=ISS

UNIPROTKB|P0A664 ureG "Urease accessory protein UreG" [Mycobacterium tuberculosis (taxid:1773)]

 Score = 399 (145.5 bits), Expect = 3.9e-37, P = 3.9e-37
 Identities = 77/125 (61%), Positives = 97/125 (77%)

Query:     3 NGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKA-DLLLCESGGDNLAANFS 61
             +  LP++RI AV+TGGCPH AIR+DI+ NL  ++EL     A DL+L ESGGDNL A FS
Sbjct:    74 HAVLPDDRIAAVQTGGCPHTAIRDDITANLDAIDELMAAHDALDLILVESGGDNLTATFS 133

Query:    62 RELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRD 121
               L D  I++IDV+GGDK+PRKGGPG+T +DLLV+NKTDLA+ +GADLAVM RDA  +RD
Sbjct:   134 SGLVDAQIFVIDVAGGDKVPRKGGPGVTYSDLLVVNKTDLAALVGADLAVMARDADAVRD 193

Query:   122 GGPFI 126
             G P +
Sbjct:   194 GRPTV 198

GO:0003924 "GTPase activity" evidence=IDA

GO:0006184 "GTP catabolic process" evidence=IDA

GO:0042803 "protein homodimerization activity" evidence=IPI

TIGR_CMR|SPO_1717 SPO_1717 "urease accessory protein UreG" [Ruegeria pomeroyi DSS-3 (taxid:246200)]

 Score = 399 (145.5 bits), Expect = 3.9e-37, P = 3.9e-37
 Identities = 78/131 (59%), Positives = 99/131 (75%)

Query:     1 MRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKA-DLLLCESGGDNLAAN 59
             MR   LP++RI  VETGGCPH AIRED SINL  + E+       +++L ESGGDNL+A 
Sbjct:    54 MRLQILPQDRIIGVETGGCPHTAIREDASINLAAVAEMERRHPGIEIILIESGGDNLSAT 113

Query:    60 FSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRM 119
             FS ELAD  +Y+IDV+ G++IPRKGGP IT++D+L+INKTDLA  +GA L VMERDA RM
Sbjct:   114 FSPELADVTLYVIDVAAGEEIPRKGGPAITKSDILIINKTDLAPHVGASLEVMERDAGRM 173

Query:   120 RDGGPFIFAQV 130
             R G PF+F+ +
Sbjct:   174 RCGRPFVFSSL 184

GO:0019627 "urea metabolic process" evidence=ISS

GO:0046872 "metal ion binding" evidence=ISS

UNIPROTKB|P18319 ureG "Urease accessory protein UreG" [Enterobacter aerogenes (taxid:548)]

 Score = 389 (142.0 bits), Expect = 4.4e-36, P = 4.4e-36
 Identities = 80/128 (62%), Positives = 92/128 (71%)

Query:     4 GALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLF-KADLLLCESGGDNLAANFSR 62
             GAL  ERI  VETGGCPH AIRED S+NL  +E LS  F   DL+  ESGGDNL+A FS 
Sbjct:    57 GALAPERIVGVETGGCPHTAIREDASMNLAAVEALSEKFGNLDLIFVESGGDNLSATFSP 116

Query:    63 ELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDG 122
             ELAD  IY+IDV+ G+KIPRKGGPGIT++D LVINKTDLA  +GA L VM  D  RMR  
Sbjct:   117 ELADLTIYVIDVAEGEKIPRKGGPGITKSDFLVINKTDLAPYVGASLEVMASDTQRMRGD 176

Query:   123 GPFIFAQV 130
              P+ F  +
Sbjct:   177 RPWTFTNL 184


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.322   0.142   0.415    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      148       148   0.00068  104 3  11 22  0.46    31
                                                     30  0.39    34


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  8
  No. of states in DFA:  548 (58 KB)
  Total size of DFA:  119 KB (2078 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  13.53u 0.13s 13.66t   Elapsed:  00:00:01
  Total cpu time:  13.53u 0.13s 13.66t   Elapsed:  00:00:01
  Start:  Fri May 10 12:06:55 2013   End:  Fri May 10 12:06:56 2013

GO:0005515 "protein binding" evidence=IPI

---

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)
B6JPH1	UREG_HELP2	No assigned EC number	0.6307	0.8716	0.6482	yes	no
B1ZHN6	UREG1_METPB	No assigned EC number	0.6718	0.8581	0.6225	yes	no
B2UW65	UREG_HELPS	No assigned EC number	0.6230	0.8716	0.6482	yes	no
Q6FD79	UREG_ACIAD	No assigned EC number	0.6153	0.8716	0.6323	yes	no
Q0I662	UREG_SYNS3	No assigned EC number	0.6615	0.8716	0.645	yes	no
Q8DMQ4	UREG_THEEB	No assigned EC number	0.5985	0.9189	0.68	yes	no
Q144E7	UREG_BURXL	No assigned EC number	0.6119	0.8986	0.6129	yes	no
Q2SDP8	UREG_HAHCH	No assigned EC number	0.6183	0.8783	0.6372	yes	no
A9W6X0	UREG1_METEP	No assigned EC number	0.6718	0.8581	0.6225	yes	no
Q7V3V8	UREG_PROMM	No assigned EC number	0.5878	0.9729	0.7128	yes	no
A4VQW0	UREG_PSEU5	No assigned EC number	0.6356	0.8648	0.6274	yes	no
A2CDZ5	UREG_PROM3	No assigned EC number	0.6538	0.8716	0.6354	yes	no
C3K4L3	UREG_PSEFS	No assigned EC number	0.5985	0.9189	0.6666	yes	no
Q93PJ0	UREG_HELHP	No assigned EC number	0.5882	0.9121	0.675	yes	no
Q96WV0	UREG_SCHPO	No assigned EC number	0.7205	0.9189	0.4755	yes	no
Q3AGD6	UREG_SYNSC	No assigned EC number	0.6538	0.8716	0.6417	yes	no
Q1CV86	UREG_HELPH	No assigned EC number	0.6307	0.8716	0.6482	yes	no
C1DMZ7	UREG_AZOVD	No assigned EC number	0.6384	0.8716	0.6323	yes	no
B8IJ81	UREG_METNO	No assigned EC number	0.6875	0.8581	0.6225	yes	no
Q3AVR7	UREG_SYNS9	No assigned EC number	0.625	0.9121	0.6716	yes	no
A4XQ16	UREG_PSEMY	No assigned EC number	0.6356	0.8648	0.6274	yes	no
Q473Q6	UREG_CUPPJ	No assigned EC number	0.6589	0.8648	0.6124	yes	no
B0UBI3	UREG_METS4	No assigned EC number	0.6875	0.8581	0.6225	yes	no
A7HHN3	UREG_ANADF	No assigned EC number	0.7279	0.9189	0.5762	yes	no
B1M3X4	UREG1_METRJ	No assigned EC number	0.6796	0.8581	0.6195	yes	no
B2JF70	UREG_BURP8	No assigned EC number	0.6194	0.8986	0.6244	yes	no
A3N2R0	UREG_ACTP2	No assigned EC number	0.5944	0.8918	0.6255	yes	no
Q1LPS6	UREG_RALME	No assigned EC number	0.6356	0.8648	0.6183	yes	no
Q3J773	UREG_NITOC	No assigned EC number	0.6183	0.8783	0.6403	yes	no
O54424	UREG_ACTPL	No assigned EC number	0.5874	0.8918	0.6255	yes	no
Q9ZMZ7	UREG_HELPJ	No assigned EC number	0.6230	0.8716	0.6482	yes	no
A9GP90	UREG_SORC5	No assigned EC number	0.7185	0.9121	0.4470	yes	no
B1YUF6	UREG_BURA4	No assigned EC number	0.6119	0.8986	0.6186	yes	no
Q17VS2	UREG_HELAH	No assigned EC number	0.6230	0.8716	0.6482	yes	no
Q39IW6	UREG_BURS3	No assigned EC number	0.6119	0.8986	0.6186	yes	no
A0L6F5	UREG_MAGSM	No assigned EC number	0.6511	0.8648	0.6336	yes	no
Q0KCP3	UREG_CUPNH	No assigned EC number	0.6434	0.8648	0.6124	yes	no
B5Z671	UREG_HELPG	No assigned EC number	0.6307	0.8716	0.6482	yes	no
Q1H0F5	UREG_METFK	No assigned EC number	0.6384	0.8716	0.6354	yes	no
Q09066	UREG_HELPY	No assigned EC number	0.6307	0.8716	0.6482	yes	no
B3H2K9	UREG_ACTP7	No assigned EC number	0.5874	0.8918	0.6255	yes	no
Q0BHN8	UREG_BURCM	No assigned EC number	0.6119	0.8986	0.6186	yes	no
B0BRT8	UREG_ACTPJ	No assigned EC number	0.5944	0.8918	0.6255	yes	no
A4JC39	UREG_BURVG	No assigned EC number	0.6119	0.8986	0.6186	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	148
TIGR00101	199	TIGR00101, ureG, urease accessory protein UreG	3e-60
COG0378	202	COG0378, HypB, Ni2+-binding GTPase involved in reg	4e-44
pfam02492	178	pfam02492, cobW, CobW/HypB/UreG, nucleotide-bindin	3e-25
TIGR00073	208	TIGR00073, hypB, hydrogenase accessory protein Hyp	7e-08

>gnl|CDD|129208 TIGR00101, ureG, urease accessory protein UreG

 Score =  184 bits (468), Expect = 3e-60
 Identities = 82/130 (63%), Positives = 98/130 (75%), Gaps = 1/130 (0%)

Query: 2   RNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLF-KADLLLCESGGDNLAANF 60
           +N ALP ERI  VETGGCPH AIRED S+NL  + E+   F   +++  ESGGDNL+A F
Sbjct: 49  KNSALPPERILGVETGGCPHTAIREDASMNLEAVAEMEARFPPLEMVFIESGGDNLSATF 108

Query: 61  SRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMR 120
           S ELAD  I++IDV+ GDKIPRKGGPGIT++DLLVINK DLA  +GADL VMERDA +MR
Sbjct: 109 SPELADLTIFVIDVAAGDKIPRKGGPGITRSDLLVINKIDLAPMVGADLGVMERDAKKMR 168

Query: 121 DGGPFIFAQV 130
              PFIF  +
Sbjct: 169 GEKPFIFTNL 178

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 [Central intermediary metabolism, Nitrogen metabolism]. Length = 199

>gnl|CDD|223455 COG0378, HypB, Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

 Score =  143 bits (363), Expect = 4e-44
 Identities = 67/124 (54%), Positives = 77/124 (62%), Gaps = 9/124 (7%)

Query: 7   PEERIRAVETG-GCPHAAIREDISINLGPLEELSNLF-KADLLLCESGGDNLAANFSREL 64
           P E I  VETG GC H     D S+NL  +EEL   F   DLL  ES G NL   FS +L
Sbjct: 63  PGEPIIGVETGKGC-H----LDASMNLEAIEELVLDFPDLDLLFIESVG-NLVCPFSPDL 116

Query: 65  AD-YIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGG 123
            D   + +IDV+ G+ IPRKGGPGI +ADLLVINKTDLA  +GADL VM RDA  +    
Sbjct: 117 GDHLRVVVIDVTEGEDIPRKGGPGIFKADLLVINKTDLAPYVGADLEVMARDAKEVNPEA 176

Query: 124 PFIF 127
           P IF
Sbjct: 177 PIIF 180

Length = 202

>gnl|CDD|217066 pfam02492, cobW, CobW/HypB/UreG, nucleotide-binding domain

 Score = 94.2 bits (235), Expect = 3e-25
 Identities = 44/132 (33%), Positives = 59/132 (44%), Gaps = 16/132 (12%)

Query: 8   EERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGG----------DNLA 57
              I  +  G       RED+S+ L  L EL    + DLL  E+ G              
Sbjct: 51  GALIVELNNGCICCTL-REDLSMVLEALLELKE--RLDLLFIETTGLACPAPVAQTFLSP 107

Query: 58  ANFSRELADYIIYIIDVSG--GDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERD 115
              S    D ++ ++DV+   G+ IP K    I  ADL+VINKTDLA A+ ADL  +E D
Sbjct: 108 ELRSDLGLDGVVTVVDVAETEGEDIPEKAPDQIAFADLIVINKTDLAPAV-ADLEKLEAD 166

Query: 116 ALRMRDGGPFIF 127
             R+    P I 
Sbjct: 167 LRRLNPEAPIIP 178

This domain is found in HypB, a hydrogenase expression / formation protein, and UreG a urease accessory protein. Both these proteins contain a P-loop nucleotide binding motif. HypB has GTPase activity and is a guanine nucleotide binding protein. It is not known whether UreG binds GTP or some other nucleotide. Both enzymes are involved in nickel binding. HypB can store nickel and is required for nickel dependent hydrogenase expression. UreG is required for functional incorporation of the urease nickel metallocenter. GTP hydrolysis may required by these proteins for nickel incorporation into other nickel proteins. This family of domains also contains P47K, a Pseudomonas chlororaphis protein needed for nitrile hydratase expression, and the cobW gene product, which may be involved in cobalamin biosynthesis in Pseudomonas denitrificans. Length = 178

>gnl|CDD|232811 TIGR00073, hypB, hydrogenase accessory protein HypB

 Score = 48.9 bits (117), Expect = 7e-08
 Identities = 34/87 (39%), Positives = 49/87 (56%), Gaps = 5/87 (5%)

Query: 35  LEELSNLFKADLLLCESGGDNLAANFSREL-ADYIIYIIDVSGGDKIPRKGGPGITQ-AD 92
           LE+L      DLL  E+ G NL      +L     + ++ V+ GD  P K  PG+ + AD
Sbjct: 95  LEDLPLD-DIDLLFIENVG-NLVCPADFDLGEHMRVVLLSVTEGDDKPLKY-PGMFKEAD 151

Query: 93  LLVINKTDLASAIGADLAVMERDALRM 119
           L+VINK DLA A+G D+  M+ DA ++
Sbjct: 152 LIVINKADLAEAVGFDVEKMKADAKKI 178

A GTP hydrolase for assembly of nickel metallocenter of hydrogenase. A similar protein, ureG, is an accessory protein for urease, which also uses nickel. hits scoring 75 and above are safe as orthologs. [SS 1/05/04 I changed the role_ID and process GO from protein folding to to protein modification, since a protein folding role has not been established, but HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.] [Protein fate, Protein modification and repair]. Length = 208

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	148
TIGR00101	199	ureG urease accessory protein UreG. This model rep	99.95
COG0523	323	Putative GTPases (G3E family) [General function pr	99.94
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	99.94
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	99.92
KOG2743	391	consensus Cobalamin synthesis protein [Coenzyme tr	99.9
PF02492	178	cobW: CobW/HypB/UreG, nucleotide-binding domain; I	99.87
PRK11537	318	putative GTP-binding protein YjiA; Provisional	99.87
TIGR02475	341	CobW cobalamin biosynthesis protein CobW. A broade	99.87
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	99.85
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	99.85
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	99.83
PRK09435	332	membrane ATPase/protein kinase; Provisional	99.77
cd03112	158	CobW_like The function of this protein family is u	99.61
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	99.48
COG1159	298	Era GTPase [General function prediction only]	98.78
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	98.77
PRK15467	158	ethanolamine utilization protein EutP; Provisional	98.69
PRK13768	253	GTPase; Provisional	98.68
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	98.66
PRK00089	292	era GTPase Era; Reviewed	98.64
cd00881	189	GTP_translation_factor GTP translation factor fami	98.64
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	98.63
COG2403	449	Predicted GTPase [General function prediction only	98.62
cd03114	148	ArgK-like The function of this protein family is u	98.62
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	98.61
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	98.61
PRK15494	339	era GTPase Era; Provisional	98.57
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.55
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	98.53
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	98.51
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	98.47
COG1160	444	Predicted GTPases [General function prediction onl	98.46
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	98.45
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	98.45
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.44
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	98.41
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	98.41
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	98.39
KOG0462	650	consensus Elongation factor-type GTP-binding prote	98.37
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.37
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	98.36
PRK00093	435	GTP-binding protein Der; Reviewed	98.35
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	98.35
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	98.34
cd01881	176	Obg_like The Obg-like subfamily consists of five w	98.33
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	98.32
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	98.32
PRK12289	352	GTPase RsgA; Reviewed	98.32
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	98.32
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	98.32
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	98.31
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	98.29
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	98.27
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.26
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.25
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	98.24
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	98.23
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	98.23
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	98.22
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	98.21
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	98.21
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	98.2
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	98.2
PRK03003	472	GTP-binding protein Der; Reviewed	98.18
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	98.17
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	98.16
PTZ00099	176	rab6; Provisional	98.15
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	98.14
smart00178	184	SAR Sar1p-like members of the Ras-family of small	98.13
PRK04213	201	GTP-binding protein; Provisional	98.13
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	98.12
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	98.11
PRK09866	741	hypothetical protein; Provisional	98.11
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	98.1
PLN00223	181	ADP-ribosylation factor; Provisional	98.1
PRK12299	335	obgE GTPase CgtA; Reviewed	98.07
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	98.07
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	98.07
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	98.07
PRK00098	298	GTPase RsgA; Reviewed	98.07
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	98.05
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.05
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	98.05
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	98.03
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	98.02
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	98.01
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	98.01
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	98.01
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	98.0
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	98.0
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	97.99
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	97.99
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	97.99
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	97.99
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	97.98
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	97.97
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	97.97
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	97.96
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	97.96
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	97.95
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	97.95
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	97.95
PRK09563	287	rbgA GTPase YlqF; Reviewed	97.94
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	97.94
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	97.94
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	97.93
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	97.93
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	97.93
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	97.92
COG2262	411	HflX GTPases [General function prediction only]	97.92
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	97.92
PRK04000	411	translation initiation factor IF-2 subunit gamma;	97.91
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	97.91
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	97.91
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	97.91
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	97.91
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	97.9
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	97.9
PTZ00133	182	ADP-ribosylation factor; Provisional	97.9
COG0486	454	ThdF Predicted GTPase [General function prediction	97.9
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	97.89
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	97.89
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	97.88
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	97.88
PRK01889	356	GTPase RsgA; Reviewed	97.88
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	97.87
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	97.86
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	97.86
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	97.85
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	97.83
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	97.81
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	97.81
PRK12298	390	obgE GTPase CgtA; Reviewed	97.79
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	97.79
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	97.79
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	97.78
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	97.78
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	97.78
KOG0092	200	consensus GTPase Rab5/YPT51 and related small G pr	97.77
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	97.77
PRK12288	347	GTPase RsgA; Reviewed	97.77
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	97.76
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	97.76
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	97.76
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	97.75
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	97.75
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	97.75
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	97.75
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	97.74
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	97.74
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	97.74
PRK12296	500	obgE GTPase CgtA; Reviewed	97.74
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	97.72
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	97.71
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	97.71
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	97.7
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	97.7
PRK12297	424	obgE GTPase CgtA; Reviewed	97.69
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	97.69
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	97.67
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	97.67
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	97.67
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	97.67
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	97.67
CHL00189	742	infB translation initiation factor 2; Provisional	97.67
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	97.66
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	97.66
PRK05306	787	infB translation initiation factor IF-2; Validated	97.65
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	97.65
KOG1489	366	consensus Predicted GTP-binding protein (ODN super	97.64
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	97.64
PLN03110	216	Rab GTPase; Provisional	97.64
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	97.63
PLN03108	210	Rab family protein; Provisional	97.62
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	97.62
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	97.61
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	97.6
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	97.59
PRK14845	1049	translation initiation factor IF-2; Provisional	97.58
PRK05433	600	GTP-binding protein LepA; Provisional	97.57
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	97.55
KOG0094	221	consensus GTPase Rab6/YPT6/Ryh1, small G protein s	97.55
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	97.54
PLN03118	211	Rab family protein; Provisional	97.54
PRK11058	426	GTPase HflX; Provisional	97.53
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	97.53
PTZ00369	189	Ras-like protein; Provisional	97.53
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	97.53
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	97.52
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	97.52
PRK03003	472	GTP-binding protein Der; Reviewed	97.52
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	97.51
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	97.5
COG1160	444	Predicted GTPases [General function prediction onl	97.5
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	97.49
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	97.48
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	97.46
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	97.46
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	97.46
COG3276	447	SelB Selenocysteine-specific translation elongatio	97.46
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	97.46
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	97.45
PRK13796	365	GTPase YqeH; Provisional	97.45
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	97.4
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	97.38
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	97.37
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	97.37
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	97.36
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	97.35
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	97.35
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	97.33
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	97.33
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	97.29
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	97.28
PRK12736	394	elongation factor Tu; Reviewed	97.27
cd01896	233	DRG The developmentally regulated GTP-binding prot	97.27
KOG0072	182	consensus GTP-binding ADP-ribosylation factor-like	97.22
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	97.19
PRK10218	607	GTP-binding protein; Provisional	97.19
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	97.19
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	97.19
PRK12317	425	elongation factor 1-alpha; Reviewed	97.19
PRK00093	435	GTP-binding protein Der; Reviewed	97.18
PRK00049	396	elongation factor Tu; Reviewed	97.18
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	97.18
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	97.13
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	97.11
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	97.09
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	97.08
TIGR00485	394	EF-Tu translation elongation factor TU. This align	97.08
COG1162	301	Predicted GTPases [General function prediction onl	97.07
PRK12735	396	elongation factor Tu; Reviewed	97.06
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	97.03
COG0218	200	Predicted GTPase [General function prediction only	97.03
KOG0078	207	consensus GTP-binding protein SEC4, small G protei	97.02
PRK04004	586	translation initiation factor IF-2; Validated	96.99
COG0536	369	Obg Predicted GTPase [General function prediction	96.97
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	96.97
PTZ00141	446	elongation factor 1- alpha; Provisional	96.96
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	96.91
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	96.9
PRK14974	336	cell division protein FtsY; Provisional	96.9
KOG0088	218	consensus GTPase Rab21, small G protein superfamil	96.88
KOG1145	683	consensus Mitochondrial translation initiation fac	96.88
PLN00043	447	elongation factor 1-alpha; Provisional	96.88
KOG1424	562	consensus Predicted GTP-binding protein MMR1 [Gene	96.86
KOG0076	197	consensus GTP-binding ADP-ribosylation factor-like	96.79
CHL00071	409	tufA elongation factor Tu	96.78
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	96.71
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	96.69
KOG2484	435	consensus GTPase [General function prediction only	96.63
PRK10416	318	signal recognition particle-docking protein FtsY;	96.63
PLN03127	447	Elongation factor Tu; Provisional	96.58
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	96.52
COG1161	322	Predicted GTPases [General function prediction onl	96.46
KOG0461	522	consensus Selenocysteine-specific elongation facto	96.43
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	96.41
COG1163	365	DRG Predicted GTPase [General function prediction	96.41
COG2229	187	Predicted GTPase [General function prediction only	96.37
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	96.33
KOG0084	205	consensus GTPase Rab1/YPT1, small G protein superf	96.29
COG5258	527	GTPBP1 GTPase [General function prediction only]	96.27
PLN03126	478	Elongation factor Tu; Provisional	96.23
KOG0098	216	consensus GTPase Rab2, small G protein superfamily	96.21
TIGR00064	272	ftsY signal recognition particle-docking protein F	96.17
KOG0079	198	consensus GTP-binding protein H-ray, small G prote	95.87
KOG0394	210	consensus Ras-related GTPase [General function pre	95.84
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	95.81
KOG0395	196	consensus Ras-related GTPase [General function pre	95.8
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	95.71
PRK12740	668	elongation factor G; Reviewed	95.71
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	95.6
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	95.43
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	95.41
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	95.34
COG1217	603	TypA Predicted membrane GTPase involved in stress	95.33
PRK00007	693	elongation factor G; Reviewed	95.3
KOG0075	186	consensus GTP-binding ADP-ribosylation factor-like	95.29
COG0050	394	TufB GTPases - translation elongation factors [Tra	95.24
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	95.24
PRK13351	687	elongation factor G; Reviewed	95.23
KOG0466	466	consensus Translation initiation factor 2, gamma s	95.17
KOG0093	193	consensus GTPase Rab3, small G protein superfamily	94.98
COG1084	346	Predicted GTPase [General function prediction only	94.96
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	94.9
KOG0095	213	consensus GTPase Rab30, small G protein superfamil	94.8
KOG0091	213	consensus GTPase Rab39, small G protein superfamil	94.79
PRK00741	526	prfC peptide chain release factor 3; Provisional	94.77
KOG4252	246	consensus GTP-binding protein [Signal transduction	94.73
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	94.68
PRK12739	691	elongation factor G; Reviewed	94.62
KOG0083	192	consensus GTPase Rab26/Rab37, small G protein supe	94.56
KOG0081	219	consensus GTPase Rab27, small G protein superfamil	94.24
KOG0070	181	consensus GTP-binding ADP-ribosylation factor Arf1	94.23
PRK09602	396	translation-associated GTPase; Reviewed	94.21
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	93.97
KOG1144	1064	consensus Translation initiation factor 5B (eIF-5B	93.86
KOG0087	222	consensus GTPase Rab11/YPT3, small G protein super	93.23
KOG2485	335	consensus Conserved ATP/GTP binding protein [Gener	93.01
PF08438	109	MMR_HSR1_C: GTPase of unknown function C-terminal;	92.62
KOG0097	215	consensus GTPase Rab14, small G protein superfamil	92.44
KOG0071	180	consensus GTP-binding ADP-ribosylation factor Arf6	92.01
KOG0460	449	consensus Mitochondrial translation elongation fac	90.83
cd03115	173	SRP The signal recognition particle (SRP) mediates	90.44
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	90.11
PF02606	326	LpxK: Tetraacyldisaccharide-1-P 4'-kinase; InterPr	90.02
KOG0080	209	consensus GTPase Rab18, small G protein superfamil	89.51
KOG1191	531	consensus Mitochondrial GTPase [Translation, ribos	89.05
KOG0090	238	consensus Signal recognition particle receptor, be	89.01
KOG2423	572	consensus Nucleolar GTPase [General function predi	88.78
cd04105	203	SR_beta Signal recognition particle receptor, beta	87.91
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	87.64
KOG3883	198	consensus Ras family small GTPase [Signal transduc	87.27
TIGR03172	232	probable selenium-dependent hydroxylase accessory	87.26
TIGR00503	527	prfC peptide chain release factor 3. This translat	87.25
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	87.11
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	87.06
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	87.0
KOG3905	473	consensus Dynein light intermediate chain [Cell mo	86.89
TIGR00959	428	ffh signal recognition particle protein. This mode	86.25
KOG1490	620	consensus GTP-binding protein CRFG/NOG1 (ODN super	86.24
KOG0458	603	consensus Elongation factor 1 alpha [Translation,	86.16
PRK10867	433	signal recognition particle protein; Provisional	85.98
KOG1143	591	consensus Predicted translation elongation factor	84.94
PRK07560	731	elongation factor EF-2; Reviewed	84.29
PLN00116	843	translation elongation factor EF-2 subunit; Provis	84.25
PTZ00416	836	elongation factor 2; Provisional	81.64
COG1100	219	GTPase SAR1 and related small G proteins [General	80.89
cd03110	179	Fer4_NifH_child This protein family's function is	80.87
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	80.47

>TIGR00101 ureG urease accessory protein UreG

Probab=99.95  E-value=1.2e-28  Score=189.06  Aligned_cols=141  Identities=57%  Similarity=0.898  Sum_probs=120.0

Q ss_pred             CCChhhhhhhhhcCCCeeeeeccchhhchHHHHHhhhh-cCCCEEEEecCCceeeeeeccccCceEEEEEeCCCCCCccc
Q 032030            4 GALPEERIRAVETGGCPHAAIREDISINLGPLEELSNL-FKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPR   82 (148)
Q Consensus         4 ~~~~~~~~~~~~~nGcicc~i~~dl~~~~~al~~l~~~-~~~D~IliEtsG~~~~~~~~~~~~d~~i~vvDa~~~~~~~~   82 (148)
                      |.+..+++.++.+|||+||++|+|+.++..+|.++..+ .++|+|+|||+|..+.+++.|..+|..++|+|+.+++..+.
T Consensus        51 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~L~~l~~~~~~~D~iiIEt~G~~l~~~~~~~l~~~~i~vvD~~~~~~~~~  130 (199)
T TIGR00101        51 SALPPERILGVETGGCPHTAIREDASMNLEAVAEMEARFPPLEMVFIESGGDNLSATFSPELADLTIFVIDVAAGDKIPR  130 (199)
T ss_pred             CCCCcCceehhhcCCCccceeccCHHHHHHHHHHHHhcCCCCCEEEEECCCCCcccccchhhhCcEEEEEEcchhhhhhh
Confidence            33444566666689999999999998888888777543 37999999999988777777777899999999999888755


Q ss_pred             cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030           83 KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus        83 ~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ...+|+++||++++||+|+.++..++++.+.+.++.+||.++++++||++|+|+++|++++.
T Consensus       131 ~~~~qi~~ad~~~~~k~d~~~~~~~~~~~~~~~~~~~~~~~~i~~~Sa~~g~gi~el~~~i~  192 (199)
T TIGR00101       131 KGGPGITRSDLLVINKIDLAPMVGADLGVMERDAKKMRGEKPFIFTNLKTKEGLDTVIDWIE  192 (199)
T ss_pred             hhHhHhhhccEEEEEhhhccccccccHHHHHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHH
Confidence            55679999999999999999743477889999999999999999999999999999999875

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.

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=99.94  E-value=6.4e-28  Score=196.88  Aligned_cols=129  Identities=23%  Similarity=0.309  Sum_probs=102.5

Q ss_pred             hhhhhcCCCeeeeeccchhhchHHHHHhhhhcCCCEEEEecCCceee----eee-c-ccc-----CceEEEEEeCCCCCC
Q 032030           11 IRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLA----ANF-S-REL-----ADYIIYIIDVSGGDK   79 (148)
Q Consensus        11 ~~~~~~nGcicc~i~~dl~~~~~al~~l~~~~~~D~IliEtsG~~~~----~~~-~-~~~-----~d~~i~vvDa~~~~~   79 (148)
                      +.++ +|||+|||+|+|+...+..|.+ . +.+||+|+|||||+|.|    .+| . +..     .|.+|+||||.++..
T Consensus        55 ~~El-~nGCICCT~r~dl~~~~~~L~~-~-~~~~D~ivIEtTGlA~P~pv~~t~~~~~~l~~~~~ld~vvtvVDa~~~~~  131 (323)
T COG0523          55 VVEL-TNGCICCTVRDDLLPALERLLR-R-RDRPDRLVIETTGLADPAPVIQTFLTDPELADGVRLDGVVTVVDAAHFLE  131 (323)
T ss_pred             EEEe-CCceEEEeccchhHHHHHHHHh-c-cCCCCEEEEeCCCCCCCHHHHHHhccccccccceeeceEEEEEeHHHhhh
Confidence            4444 5999999999999655554444 2 44699999999999865    233 2 222     355799999988754


Q ss_pred             c----cccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030           80 I----PRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus        80 ~----~~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      .    ......|+++||+||+||+||+++  ++++++++.++++||.|+++.+|+. +.+..++++.-.|
T Consensus       132 ~~~~~~~~~~~Qia~AD~ivlNK~Dlv~~--~~l~~l~~~l~~lnp~A~i~~~~~~-~~~~~~ll~~~~~  198 (323)
T COG0523         132 GLDAIAELAEDQLAFADVIVLNKTDLVDA--EELEALEARLRKLNPRARIIETSYG-DVDLAELLDEGLF  198 (323)
T ss_pred             hHHHHHHHHHHHHHhCcEEEEecccCCCH--HHHHHHHHHHHHhCCCCeEEEcccc-CCCHHHhhccccc
Confidence            2    234567999999999999999999  8899999999999999999999984 8898888877665

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=99.94  E-value=9.2e-27  Score=176.81  Aligned_cols=130  Identities=49%  Similarity=0.665  Sum_probs=113.7

Q ss_pred             hhhhhhhhcC-CCeeeeeccchhhchHHHHHhhhhcC-CCEEEEecCCceeeeeeccccCc-eEEEEEeCCCCCCcccc-
Q 032030            8 EERIRAVETG-GCPHAAIREDISINLGPLEELSNLFK-ADLLLCESGGDNLAANFSRELAD-YIIYIIDVSGGDKIPRK-   83 (148)
Q Consensus         8 ~~~~~~~~~n-Gcicc~i~~dl~~~~~al~~l~~~~~-~D~IliEtsG~~~~~~~~~~~~d-~~i~vvDa~~~~~~~~~-   83 (148)
                      ++|+.++.|+ || |    .|.+++..++.+|....+ .|++|||+.| .++.+|+|.+.| +.|+|+|+.+|+++|.+ 
T Consensus        64 g~~i~~v~TG~~C-H----~da~m~~~ai~~l~~~~~~~Dll~iEs~G-NL~~~~sp~L~d~~~v~VidvteGe~~P~K~  137 (202)
T COG0378          64 GEPIIGVETGKGC-H----LDASMNLEAIEELVLDFPDLDLLFIESVG-NLVCPFSPDLGDHLRVVVIDVTEGEDIPRKG  137 (202)
T ss_pred             CCeeEEeccCCcc-C----CcHHHHHHHHHHHhhcCCcCCEEEEecCc-ceecccCcchhhceEEEEEECCCCCCCcccC
Confidence            3444456677 89 7    699999999999877654 8999999999 666677788888 78999999999999987 


Q ss_pred             CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030           84 GGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus        84 ~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +|..+. ||++||||+||+++++++++.+.+..++.||.+|++++|.+||+|+++|++|+.
T Consensus       138 gP~i~~-aDllVInK~DLa~~v~~dlevm~~da~~~np~~~ii~~n~ktg~G~~~~~~~i~  197 (202)
T COG0378         138 GPGIFK-ADLLVINKTDLAPYVGADLEVMARDAKEVNPEAPIIFTNLKTGEGLDEWLRFIE  197 (202)
T ss_pred             CCceeE-eeEEEEehHHhHHHhCccHHHHHHHHHHhCCCCCEEEEeCCCCcCHHHHHHHHH
Confidence            555555 999999999999998899999999999999999999999999999999999874

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=99.92  E-value=1.7e-24  Score=174.11  Aligned_cols=133  Identities=20%  Similarity=0.153  Sum_probs=110.5

Q ss_pred             hhhhhhhhh------cCCCeeeeeccchhhchHHHHHhhhhcCCCEEEEecCCcee-eeeeccccCceEEEEEeCCCCCC
Q 032030            7 PEERIRAVE------TGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNL-AANFSRELADYIIYIIDVSGGDK   79 (148)
Q Consensus         7 ~~~~~~~~~------~nGcicc~i~~dl~~~~~al~~l~~~~~~D~IliEtsG~~~-~~~~~~~~~d~~i~vvDa~~~~~   79 (148)
                      |++||++..      ++||+||+.+.++   ..++.+|.. .+.|++|||++|+.. ++.|+ ...+..+++++..++++
T Consensus       146 Da~rI~~~g~pvvqi~tG~~Chl~a~mv---~~Al~~L~~-~~~d~liIEnvGnLvcPa~fd-lge~~~v~vlsV~eg~d  220 (290)
T PRK10463        146 DAARIRATGTPAIQVNTGKGCHLDAQMI---ADAAPRLPL-DDNGILFIENVGNLVCPASFD-LGEKHKVAVLSVTEGED  220 (290)
T ss_pred             HHHHHHhcCCcEEEecCCCCCcCcHHHH---HHHHHHHhh-cCCcEEEEECCCCccCCCccc-hhhceeEEEEECccccc
Confidence            899998732      7899999877666   456666543 578999999999743 45552 34455679999999988


Q ss_pred             ccccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030           80 IPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus        80 ~~~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .+.+++.|++.||++|+||+||+++..++++.+.+.++++||.++|+++||++|+|+++|++|+.
T Consensus       221 kplKyp~~f~~ADIVVLNKiDLl~~~~~dle~~~~~lr~lnp~a~I~~vSA~tGeGld~L~~~L~  285 (290)
T PRK10463        221 KPLKYPHMFAAASLMLLNKVDLLPYLNFDVEKCIACAREVNPEIEIILISATSGEGMDQWLNWLE  285 (290)
T ss_pred             cchhccchhhcCcEEEEEhHHcCcccHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHH
Confidence            87789999999999999999999864467899999999999999999999999999999999874

>KOG2743 consensus Cobalamin synthesis protein [Coenzyme transport and metabolism]

Probab=99.90  E-value=1.9e-24  Score=173.31  Aligned_cols=134  Identities=20%  Similarity=0.233  Sum_probs=106.9

Q ss_pred             CChhhhhhhhhcCCCeeeeeccchhhchHHHHHhhhh-cCCCEEEEecCCceee----eeeccc-------cCceEEEEE
Q 032030            5 ALPEERIRAVETGGCPHAAIREDISINLGPLEELSNL-FKADLLLCESGGDNLA----ANFSRE-------LADYIIYII   72 (148)
Q Consensus         5 ~~~~~~~~~~~~nGcicc~i~~dl~~~~~al~~l~~~-~~~D~IliEtsG~~~~----~~~~~~-------~~d~~i~vv   72 (148)
                      .-..|-..++. |||.|||+++++   ++++.++.++ .+||+|++||||+|.|    ++|+..       -.|-+|+||
T Consensus       110 g~lyEewv~L~-NGClCCtVk~~g---vraie~lvqkkGkfD~IllETTGlAnPaPia~~Fw~dd~l~sdVkLDGIVTvv  185 (391)
T KOG2743|consen  110 GELYEEWVELR-NGCLCCTVKDNG---VRAIENLVQKKGKFDHILLETTGLANPAPIASMFWLDDELGSDVKLDGIVTVV  185 (391)
T ss_pred             chHHHHHHHhc-CCeEEEEecchH---HHHHHHHHhcCCCcceEEEeccCCCCcHHHHHHHhhhhhhcCceeeeeEEEEE
Confidence            33455666666 999999999999   5667677654 4799999999999865    445421       236679999


Q ss_pred             eCCCCCCccc-c--------CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhh
Q 032030           73 DVSGGDKIPR-K--------GGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSIT  143 (148)
Q Consensus        73 Da~~~~~~~~-~--------~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~  143 (148)
                      |+.+...... .        .-.|+++||.+++||+||+++  +++.++++.++++|.-|++++|.+. ...++.+++.-
T Consensus       186 D~K~~~~~Lde~k~~g~i~EA~~QiA~AD~II~NKtDli~~--e~~~~l~q~I~~INslA~m~~Tky~-~vdlsnvLdi~  262 (391)
T KOG2743|consen  186 DAKHILKHLDEEKPDGLINEATRQIALADRIIMNKTDLVSE--EEVKKLRQRIRSINSLAQMIETKYS-RVDLSNVLDIH  262 (391)
T ss_pred             ehhhHHhhhcccCcccchHHHHHHHhhhheeeeccccccCH--HHHHHHHHHHHHhhhHHHhhhhhhc-cccHHHhcccc
Confidence            9987643211 1        123999999999999999999  9999999999999999999999975 78899999888


Q ss_pred             hh
Q 032030          144 HY  145 (148)
Q Consensus       144 ~~  145 (148)
                      +|
T Consensus       263 ay  264 (391)
T KOG2743|consen  263 AF  264 (391)
T ss_pred             cc
Confidence            77

>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt

Probab=99.87  E-value=8.3e-24  Score=159.16  Aligned_cols=118  Identities=24%  Similarity=0.360  Sum_probs=85.2

Q ss_pred             CChhhhhhhhh------cCCCeeeeeccchhhchHHHHHhhhhc--CCCEEEEecCCceeeeee---cc-----ccCceE
Q 032030            5 ALPEERIRAVE------TGGCPHAAIREDISINLGPLEELSNLF--KADLLLCESGGDNLAANF---SR-----ELADYI   68 (148)
Q Consensus         5 ~~~~~~~~~~~------~nGcicc~i~~dl~~~~~al~~l~~~~--~~D~IliEtsG~~~~~~~---~~-----~~~d~~   68 (148)
                      .+|++++....      +|||+||++++|+.   .++.++...+  +||+|+||+||++.+..+   .+     -..+.+
T Consensus        41 ~iD~~~l~~~~~~v~~l~~gcicc~~~~~~~---~~l~~l~~~~~~~~d~IiIE~sG~a~p~~l~~~~~~~~~~~~~~~i  117 (178)
T PF02492_consen   41 NIDAELLQEDGVPVVELNNGCICCTLRDDLV---EALRRLLREYEERPDRIIIETSGLADPAPLILQDPPLKEDFRLDSI  117 (178)
T ss_dssp             HHHHHHHHTTT-EEEEECTTTESS-TTS-HH---HHHHHHCCCCHGC-SEEEEEEECSSGGGGHHHHSHHHHHHESESEE
T ss_pred             ccchhhhcccceEEEEecCCCcccccHHHHH---HHHHHHHHhcCCCcCEEEECCccccccchhhhccccccccccccce
Confidence            46777776532      69999999999994   4666676666  899999999998866433   11     124667


Q ss_pred             EEEEeCCCCCC---ccccCCCCcceeeEEEEecCCCCCchhh-hHHHHHHHHHhcCCCCcEEE
Q 032030           69 IYIIDVSGGDK---IPRKGGPGITQADLLVINKTDLASAIGA-DLAVMERDALRMRDGGPFIF  127 (148)
Q Consensus        69 i~vvDa~~~~~---~~~~~~~qi~~ADivViNK~DL~~~~~~-~l~~~~~~i~~~np~a~vi~  127 (148)
                      |+|+|+.++..   .+....+|+++||++|+||+|++++  + .++++++.+|++||.++|+.
T Consensus       118 I~vVDa~~~~~~~~~~~~~~~Qi~~ADvIvlnK~D~~~~--~~~i~~~~~~ir~lnp~a~Iv~  178 (178)
T PF02492_consen  118 ITVVDATNFDELENIPELLREQIAFADVIVLNKIDLVSD--EQKIERVREMIRELNPKAPIVQ  178 (178)
T ss_dssp             EEEEEGTTHGGHTTHCHHHHHHHCT-SEEEEE-GGGHHH--H--HHHHHHHHHHH-TTSEEE-
T ss_pred             eEEeccccccccccchhhhhhcchhcCEEEEeccccCCh--hhHHHHHHHHHHHHCCCCEEeC
Confidence            99999977633   2334456999999999999999998  7 45999999999999999873

Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.

>PRK11537 putative GTP-binding protein YjiA; Provisional

Probab=99.87  E-value=1.2e-22  Score=165.74  Aligned_cols=131  Identities=21%  Similarity=0.281  Sum_probs=96.8

Q ss_pred             CChhhhhhhhh------cCCCeeeeeccchhhchHHHHHhhhh-----cCCCEEEEecCCceee----eee--cccc---
Q 032030            5 ALPEERIRAVE------TGGCPHAAIREDISINLGPLEELSNL-----FKADLLLCESGGDNLA----ANF--SREL---   64 (148)
Q Consensus         5 ~~~~~~~~~~~------~nGcicc~i~~dl~~~~~al~~l~~~-----~~~D~IliEtsG~~~~----~~~--~~~~---   64 (148)
                      .||++.+....      +|||+||++++|+...   +.++.++     .+||+|+|||||++.+    ..|  .+.+   
T Consensus        44 ~iD~~ll~~~~~~v~eL~~GCiCCs~~~~l~~~---l~~l~~~~~~~~~~~d~IvIEttG~a~p~~i~~~~~~~~~l~~~  120 (318)
T PRK11537         44 SVDDQLIGDRATQIKTLTNGCICCSRSNELEDA---LLDLLDNLDKGNIQFDRLVIECTGMADPGPIIQTFFSHEVLCQR  120 (318)
T ss_pred             cccHHHHhCcCceEEEECCCEEEEccCchHHHH---HHHHHHHHhccCCCCCEEEEECCCccCHHHHHHHHhcChhhccc
Confidence            46777665311      6999999999999654   4444432     3699999999999854    233  1222   


Q ss_pred             --CceEEEEEeCCCCCCccc---cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHH
Q 032030           65 --ADYIIYIIDVSGGDKIPR---KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFT  139 (148)
Q Consensus        65 --~d~~i~vvDa~~~~~~~~---~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l  139 (148)
                        .+.+++|||+.++.....   ....|+++||+||+||+|++++  .  +++++.++++||.|+++.++.. ......|
T Consensus       121 ~~l~~vvtvvDa~~~~~~~~~~~~~~~Qi~~AD~IvlnK~Dl~~~--~--~~~~~~l~~lnp~a~i~~~~~~-~v~~~~l  195 (318)
T PRK11537        121 YLLDGVIALVDAVHADEQMNQFTIAQSQVGYADRILLTKTDVAGE--A--EKLRERLARINARAPVYTVVHG-DIDLSLL  195 (318)
T ss_pred             EEeccEEEEEEhhhhhhhccccHHHHHHHHhCCEEEEeccccCCH--H--HHHHHHHHHhCCCCEEEEeccC-CCCHHHH
Confidence              255699999987754322   2235999999999999999986  4  6899999999999999998864 5677777


Q ss_pred             HHhh
Q 032030          140 LSIT  143 (148)
Q Consensus       140 ~~~~  143 (148)
                      ++.-
T Consensus       196 ~~~~  199 (318)
T PRK11537        196 FNTN  199 (318)
T ss_pred             hCCC
Confidence            6543

>TIGR02475 CobW cobalamin biosynthesis protein CobW

Probab=99.87  E-value=1.1e-22  Score=167.46  Aligned_cols=121  Identities=22%  Similarity=0.290  Sum_probs=93.8

Q ss_pred             cCCCeeeeeccchhhchHHHHHhhh-hcCCCEEEEecCCceee----eee-cccc-----CceEEEEEeCCCCCCc----
Q 032030           16 TGGCPHAAIREDISINLGPLEELSN-LFKADLLLCESGGDNLA----ANF-SREL-----ADYIIYIIDVSGGDKI----   80 (148)
Q Consensus        16 ~nGcicc~i~~dl~~~~~al~~l~~-~~~~D~IliEtsG~~~~----~~~-~~~~-----~d~~i~vvDa~~~~~~----   80 (148)
                      +|||+||++++|+   ..++.+|.. +.+||+|+|||||++.+    ..| .+..     .|.+++|||+.++...    
T Consensus        67 ~nGCiCCs~~~dl---~~~l~~l~~~~~~~d~IvIEtsG~a~P~~i~~~~~~~~l~~~~~l~~vvtvVDa~~~~~~~~~~  143 (341)
T TIGR02475        67 ANGCICCTVADDF---IPTMTKLLARRQRPDHILIETSGLALPKPLVQAFQWPEIRSRVTVDGVVTVVDGPAVAAGRFAA  143 (341)
T ss_pred             CCCCccccCcHHH---HHHHHHHHhccCCCCEEEEeCCCCCCHHHHHHHhcCccccceEEeeeEEEEEECchhhhhcccc
Confidence            6999999999999   456666654 46899999999999864    333 2222     3556999999765210    


Q ss_pred             ---------------------cccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCC-CcEEEEEecCCCCHHH
Q 032030           81 ---------------------PRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDG-GPFIFAQVGWVIGIIF  138 (148)
Q Consensus        81 ---------------------~~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~-a~vi~tSa~~g~gi~~  138 (148)
                                           ......|+++||+||+||+|++++  ++++++++.++++||. ++++.++.. ....+.
T Consensus       144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Qi~~AD~IvlnK~Dl~~~--~~l~~~~~~l~~~~~~~a~i~~~~~~-~v~~~~  220 (341)
T TIGR02475       144 DPDALDAQRAADDNLDHETPLEELFEDQLACADLVILNKADLLDA--AGLARVRAEIAAELPRAVKIVEASHG-EVDARV  220 (341)
T ss_pred             chhhhhhhccccccccccchHHHHHHHHHHhCCEEEEeccccCCH--HHHHHHHHHHHHhCCCCCEEEEcccC-CCCHHH
Confidence                                 001135999999999999999999  9999999999998875 589999864 688888


Q ss_pred             HHHh
Q 032030          139 TLSI  142 (148)
Q Consensus       139 l~~~  142 (148)
                      |++.
T Consensus       221 ll~~  224 (341)
T TIGR02475       221 LLGL  224 (341)
T ss_pred             HhCC
Confidence            8775

A broader CobW family is delineated by two PFAM models which identify the N- and C-terminal domains (pfam02492 and pfam07683).

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=99.85  E-value=1.5e-21  Score=156.65  Aligned_cols=142  Identities=20%  Similarity=0.119  Sum_probs=111.7

Q ss_pred             CCCChhhhhhhhhcCCCeeeeeccchhh--------chHHHHHhhhhcCCCEEEEecCCceeeeeeccccCceEEEEEeC
Q 032030            3 NGALPEERIRAVETGGCPHAAIREDISI--------NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDV   74 (148)
Q Consensus         3 ~~~~~~~~~~~~~~nGcicc~i~~dl~~--------~~~al~~l~~~~~~D~IliEtsG~~~~~~~~~~~~d~~i~vvDa   74 (148)
                      .|+|+|+||||.+.+--+..++|+..++        .......+++..+||+|+|||||+++...-....+|.+++|+-+
T Consensus        95 GGsiLGDRiRM~~~~~~~~vFiRs~~srG~lGGlS~at~~~i~~ldAaG~DvIIVETVGvGQsev~I~~~aDt~~~v~~p  174 (323)
T COG1703          95 GGSILGDRIRMQRLAVDPGVFIRSSPSRGTLGGLSRATREAIKLLDAAGYDVIIVETVGVGQSEVDIANMADTFLVVMIP  174 (323)
T ss_pred             CccccccHhhHHhhccCCCeEEeecCCCccchhhhHHHHHHHHHHHhcCCCEEEEEecCCCcchhHHhhhcceEEEEecC
Confidence            5999999999999888889999876654        23445567788899999999999998754434688999999999


Q ss_pred             CCCCCccccCCCCcceeeEEEEecCCCCCchh--hhHHHHHHHH----HhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030           75 SGGDKIPRKGGPGITQADLLVINKTDLASAIG--ADLAVMERDA----LRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus        75 ~~~~~~~~~~~~qi~~ADivViNK~DL~~~~~--~~l~~~~~~i----~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ..|+++|..+.+.+++||++||||.|+.+...  .++....+..    ++.-+..||+.|||.+|+|+++||+.+.
T Consensus       175 g~GD~~Q~iK~GimEiaDi~vINKaD~~~A~~a~r~l~~al~~~~~~~~~~~W~ppv~~t~A~~g~Gi~~L~~ai~  250 (323)
T COG1703         175 GAGDDLQGIKAGIMEIADIIVINKADRKGAEKAARELRSALDLLREVWRENGWRPPVVTTSALEGEGIDELWDAIE  250 (323)
T ss_pred             CCCcHHHHHHhhhhhhhheeeEeccChhhHHHHHHHHHHHHHhhcccccccCCCCceeEeeeccCCCHHHHHHHHH
Confidence            99999999889999999999999999765411  1222222222    2223567999999999999999998763

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=99.85  E-value=1.5e-21  Score=154.33  Aligned_cols=139  Identities=22%  Similarity=0.159  Sum_probs=99.4

Q ss_pred             CCCChhhhhhhhhcCCCeeeeeccchhhc--------hHHHHHhhhhcCCCEEEEecCCceeeeeeccccCceEEEEEeC
Q 032030            3 NGALPEERIRAVETGGCPHAAIREDISIN--------LGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDV   74 (148)
Q Consensus         3 ~~~~~~~~~~~~~~nGcicc~i~~dl~~~--------~~al~~l~~~~~~D~IliEtsG~~~~~~~~~~~~d~~i~vvDa   74 (148)
                      .|+|+||||||.+...-+..+||+..++.        ......+++..+||+|||||+|+++.+.-....+|.+++|+-+
T Consensus        73 GGAlLGDRiRM~~~~~d~~vfIRS~atRG~lGGls~~t~~~v~ll~aaG~D~IiiETVGvGQsE~~I~~~aD~~v~v~~P  152 (266)
T PF03308_consen   73 GGALLGDRIRMQELSRDPGVFIRSMATRGSLGGLSRATRDAVRLLDAAGFDVIIIETVGVGQSEVDIADMADTVVLVLVP  152 (266)
T ss_dssp             ---SS--GGGCHHHHTSTTEEEEEE---SSHHHHHHHHHHHHHHHHHTT-SEEEEEEESSSTHHHHHHTTSSEEEEEEES
T ss_pred             CCcccccHHHhcCcCCCCCEEEeecCcCCCCCCccHhHHHHHHHHHHcCCCEEEEeCCCCCccHHHHHHhcCeEEEEecC
Confidence            58999999999988888999999877652        3344557777899999999999998644334689999999999


Q ss_pred             CCCCCccccCCCCcceeeEEEEecCCCCCchhhhH-HHHHHHHHhcC-----CCCcEEEEEecCCCCHHHHHHhh
Q 032030           75 SGGDKIPRKGGPGITQADLLVINKTDLASAIGADL-AVMERDALRMR-----DGGPFIFAQVGWVIGIIFTLSIT  143 (148)
Q Consensus        75 ~~~~~~~~~~~~qi~~ADivViNK~DL~~~~~~~l-~~~~~~i~~~n-----p~a~vi~tSa~~g~gi~~l~~~~  143 (148)
                      ..|+++|..+.+.++.||++|+||.|+...  +.. ..++..++-..     +..||+.|||.+|.|+++|++.+
T Consensus       153 g~GD~iQ~~KaGimEiaDi~vVNKaD~~gA--~~~~~~l~~~l~l~~~~~~~W~ppV~~tsA~~~~Gi~eL~~~i  225 (266)
T PF03308_consen  153 GLGDEIQAIKAGIMEIADIFVVNKADRPGA--DRTVRDLRSMLHLLREREDGWRPPVLKTSALEGEGIDELWEAI  225 (266)
T ss_dssp             STCCCCCTB-TTHHHH-SEEEEE--SHHHH--HHHHHHHHHHHHHCSTSCTSB--EEEEEBTTTTBSHHHHHHHH
T ss_pred             CCccHHHHHhhhhhhhccEEEEeCCChHHH--HHHHHHHHHHHhhccccccCCCCCEEEEEeCCCCCHHHHHHHH
Confidence            999999999999999999999999996554  322 23444443222     34699999999999999999875

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.

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=99.83  E-value=2.9e-20  Score=142.76  Aligned_cols=135  Identities=28%  Similarity=0.315  Sum_probs=99.6

Q ss_pred             Chhhhhhhhh------cCCCeeeeeccchhhchHHHHHhhhhcCCCEEEEecCCcee-eeeeccccCceEEEEEeCCCCC
Q 032030            6 LPEERIRAVE------TGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNL-AANFSRELADYIIYIIDVSGGD   78 (148)
Q Consensus         6 ~~~~~~~~~~------~nGcicc~i~~dl~~~~~al~~l~~~~~~D~IliEtsG~~~-~~~~~~~~~d~~i~vvDa~~~~   78 (148)
                      +|.++++...      ++||+||....++   ..++.++.. .++|+|+|||||... +..+ ....+..++|+|+.+++
T Consensus        63 ~D~~~~~~~~~~~~~l~~gcic~~~~~~~---~~~l~~~~~-~~~d~IiIEt~G~l~~~~~~-~~~~~~~i~Vvd~~~~d  137 (207)
T TIGR00073        63 FDAERLRKYGAPAIQINTGKECHLDAHMV---AHALEDLPL-DDIDLLFIENVGNLVCPADF-DLGEHMRVVLLSVTEGD  137 (207)
T ss_pred             ccHHHHHHcCCcEEEEcCCCcccCChHHH---HHHHHHhcc-CCCCEEEEecCCCcCCCccc-ccccCeEEEEEecCccc
Confidence            6777776422      7999999654443   244444432 378999999999432 2222 13345668899998876


Q ss_pred             CccccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030           79 KIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus        79 ~~~~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ..+..++.++..|+++++||+|+.+....+++++.+.+++.+|.+|++++||++|.|++++++++.-
T Consensus       138 ~~~~~~~~~~~~a~iiv~NK~Dl~~~~~~~~~~~~~~l~~~~~~~~i~~~Sa~~g~gv~~l~~~i~~  204 (207)
T TIGR00073       138 DKPLKYPGMFKEADLIVINKADLAEAVGFDVEKMKADAKKINPEAEIILMSLKTGEGLDEWLEFLEG  204 (207)
T ss_pred             chhhhhHhHHhhCCEEEEEHHHccccchhhHHHHHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHH
Confidence            6544455677888999999999987422346778888898999999999999999999999998753

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=99.77  E-value=9.2e-19  Score=143.61  Aligned_cols=140  Identities=19%  Similarity=0.164  Sum_probs=104.6

Q ss_pred             CCCChhhhhhhhhcCCCeeeeeccc--------hhhchHHHHHhhhhcCCCEEEEecCCceeeeeeccccCceEEEEEeC
Q 032030            3 NGALPEERIRAVETGGCPHAAIRED--------ISINLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDV   74 (148)
Q Consensus         3 ~~~~~~~~~~~~~~nGcicc~i~~d--------l~~~~~al~~l~~~~~~D~IliEtsG~~~~~~~~~~~~d~~i~vvDa   74 (148)
                      .|++.++|+||.....|+..+++..        ++..+....+++...++|+|||||+|+.+.+......+|.+++++++
T Consensus       100 ~gallgd~~r~~~~~~~~~~~~r~~~~~~~l~~~a~~~~~~~~~~~~~g~d~viieT~Gv~qs~~~i~~~aD~vlvv~~p  179 (332)
T PRK09435        100 GGSILGDKTRMERLSRHPNAFIRPSPSSGTLGGVARKTRETMLLCEAAGYDVILVETVGVGQSETAVAGMVDFFLLLQLP  179 (332)
T ss_pred             chhhhchHhHHHhhcCCCCeEEEecCCcccccchHHHHHHHHHHHhccCCCEEEEECCCCccchhHHHHhCCEEEEEecC
Confidence            5889999999876566666666542        23334444455666799999999999987654445679999999988


Q ss_pred             CCCCCccccCCCCcceeeEEEEecCCCCCchhhhHH----HHHHHHHhcC-----CCCcEEEEEecCCCCHHHHHHhhh
Q 032030           75 SGGDKIPRKGGPGITQADLLVINKTDLASAIGADLA----VMERDALRMR-----DGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus        75 ~~~~~~~~~~~~qi~~ADivViNK~DL~~~~~~~l~----~~~~~i~~~n-----p~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ..+++++..+..++++||++|+||+|+.+.  ...+    .+.+.++-.+     +..||+++||++|.|+++|++.+.
T Consensus       180 ~~gd~iq~~k~gi~E~aDIiVVNKaDl~~~--~~a~~~~~el~~~L~l~~~~~~~w~~pVi~vSA~~g~GIdeL~~~I~  256 (332)
T PRK09435        180 GAGDELQGIKKGIMELADLIVINKADGDNK--TAARRAAAEYRSALRLLRPKDPGWQPPVLTCSALEGEGIDEIWQAIE  256 (332)
T ss_pred             CchHHHHHHHhhhhhhhheEEeehhcccch--hHHHHHHHHHHHHHhcccccccCCCCCEEEEECCCCCCHHHHHHHHH
Confidence            888888766667999999999999999875  3333    3444444323     237999999999999999998764

>cd03112 CobW_like The function of this protein family is unkown

Probab=99.61  E-value=1.6e-16  Score=117.57  Aligned_cols=86  Identities=27%  Similarity=0.361  Sum_probs=61.6

Q ss_pred             cCCCeeeeeccchhhchHHHH-Hhh-hhcCCCEEEEecCCceeee----ee--cc-----ccCceEEEEEeCCCCCCcc-
Q 032030           16 TGGCPHAAIREDISINLGPLE-ELS-NLFKADLLLCESGGDNLAA----NF--SR-----ELADYIIYIIDVSGGDKIP-   81 (148)
Q Consensus        16 ~nGcicc~i~~dl~~~~~al~-~l~-~~~~~D~IliEtsG~~~~~----~~--~~-----~~~d~~i~vvDa~~~~~~~-   81 (148)
                      +|||+||+.++++...+..+. ++. ..++||+|+|||+|++.+.    .+  .+     ...|.+++++|+.++.... 
T Consensus        57 ~~GCiCC~~~~~l~~~l~~l~~~~~~~~~~~d~I~IEt~G~~~p~~~~~~~~~~~~~~~~~~~d~vv~vvDa~~~~~~~~  136 (158)
T cd03112          57 NNGCICCTVRGDLIRALLDLLERLDAGKIAFDRIVIETTGLADPGPVAQTFFMDEELAERYLLDGVITLVDAKHANQHLD  136 (158)
T ss_pred             CCCEeEeeCchhHHHHHHHHHHHHHhccCCCCEEEEECCCcCCHHHHHHHHhhchhhhcceeeccEEEEEEhhHhHHHhh
Confidence            589999999999966554332 332 2468999999999997431    11  11     1346679999998765432 


Q ss_pred             --ccCCCCcceeeEEEEecCCC
Q 032030           82 --RKGGPGITQADLLVINKTDL  101 (148)
Q Consensus        82 --~~~~~qi~~ADivViNK~DL  101 (148)
                        .....|+++||+||+||+||
T Consensus       137 ~~~~~~~Qi~~ad~ivlnk~dl  158 (158)
T cd03112         137 QQTEAQSQIAFADRILLNKTDL  158 (158)
T ss_pred             ccHHHHHHHHHCCEEEEecccC
Confidence              12346999999999999997

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.

>TIGR00750 lao LAO/AO transport system ATPase

Probab=99.48  E-value=1.2e-13  Score=111.82  Aligned_cols=140  Identities=19%  Similarity=0.120  Sum_probs=87.5

Q ss_pred             CCCChhhhhhhhhcCCCeeeeeccchh--------hchHHHHHhhhhcCCCEEEEecCCceeeeeeccccCceEEEEEeC
Q 032030            3 NGALPEERIRAVETGGCPHAAIREDIS--------INLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDV   74 (148)
Q Consensus         3 ~~~~~~~~~~~~~~nGcicc~i~~dl~--------~~~~al~~l~~~~~~D~IliEtsG~~~~~~~~~~~~d~~i~vvDa   74 (148)
                      .|++.++|+|+.+...+.-+++++...        .....+.++++..++|+|||||+|.+....-....+|.++++.++
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~D~viidT~G~~~~e~~i~~~aD~i~vv~~~  157 (300)
T TIGR00750        78 GGSILGDRTRMQRLATDPGAFIRSMPTRGHLGGLSQATRELILLLDAAGYDVIIVETVGVGQSEVDIANMADTFVVVTIP  157 (300)
T ss_pred             hhhhcccchhhhhcccCCCceeeecCccccccchhHHHHHHHHHHHhCCCCEEEEeCCCCchhhhHHHHhhceEEEEecC
Confidence            467888888775533333333322221        123334445556799999999999885432223456777777766


Q ss_pred             CCCCCccccCCCCcceeeEEEEecCCCCCchhhhHHHHH----HHHHh-----cCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030           75 SGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVME----RDALR-----MRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus        75 ~~~~~~~~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~----~~i~~-----~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ..++++....+.....++++|+||+|+.+.  .......    ..++.     .++..+++++||++|.|+++|++++.
T Consensus       158 ~~~~el~~~~~~l~~~~~ivv~NK~Dl~~~--~~~~~~~~~~~~~l~~l~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~  234 (300)
T TIGR00750       158 GTGDDLQGIKAGLMEIADIYVVNKADGEGA--TNVTIARLMLALALEEIRRREDGWRPPVLTTSAVEGRGIDELWDAIE  234 (300)
T ss_pred             CccHHHHHHHHHHhhhccEEEEEcccccch--hHHHHHHHHHHHHHhhccccccCCCCCEEEEEccCCCCHHHHHHHHH
Confidence            666665443344556779999999999876  4322111    11111     12335799999999999999998764

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.

>COG1159 Era GTPase [General function prediction only]

Probab=98.78  E-value=3.7e-08  Score=79.49  Aligned_cols=99  Identities=14%  Similarity=0.084  Sum_probs=76.0

Q ss_pred             cCCCEEEEecCCceeeee-----------eccccCceEEEEEeCCCCCC----c-cc-cCCCCcceeeEEEEecCCCCCc
Q 032030           42 FKADLLLCESGGDNLAAN-----------FSRELADYIIYIIDVSGGDK----I-PR-KGGPGITQADLLVINKTDLASA  104 (148)
Q Consensus        42 ~~~D~IliEtsG~~~~~~-----------~~~~~~d~~i~vvDa~~~~~----~-~~-~~~~qi~~ADivViNK~DL~~~  104 (148)
                      ...-+|||.|.|+--+..           -.-..+|++++++|+.+...    . .. ....+.+  .++++||+|..++
T Consensus        52 ~~~QiIfvDTPGih~pk~~l~~~m~~~a~~sl~dvDlilfvvd~~~~~~~~d~~il~~lk~~~~p--vil~iNKID~~~~  129 (298)
T COG1159          52 DNAQIIFVDTPGIHKPKHALGELMNKAARSALKDVDLILFVVDADEGWGPGDEFILEQLKKTKTP--VILVVNKIDKVKP  129 (298)
T ss_pred             CCceEEEEeCCCCCCcchHHHHHHHHHHHHHhccCcEEEEEEeccccCCccHHHHHHHHhhcCCC--eEEEEEccccCCc
Confidence            468899999999853210           01247899999999987432    1 11 1122345  8999999999998


Q ss_pred             hhhh-HHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          105 IGAD-LAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       105 ~~~~-l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                        .. +..+.+..+...|..+++++||++|.|++.|.+.+.
T Consensus       130 --~~~l~~~~~~~~~~~~f~~ivpiSA~~g~n~~~L~~~i~  168 (298)
T COG1159         130 --KTVLLKLIAFLKKLLPFKEIVPISALKGDNVDTLLEIIK  168 (298)
T ss_pred             --HHHHHHHHHHHHhhCCcceEEEeeccccCCHHHHHHHHH
Confidence              77 678888899999999999999999999999998753

>cd04163 Era Era subfamily

Probab=98.77  E-value=2.5e-08  Score=71.19  Aligned_cols=100  Identities=14%  Similarity=0.069  Sum_probs=71.6

Q ss_pred             CCCEEEEecCCceeeee-----e------ccccCceEEEEEeCCCCCCc-cccCC---CCcceeeEEEEecCCCC-Cchh
Q 032030           43 KADLLLCESGGDNLAAN-----F------SRELADYIIYIIDVSGGDKI-PRKGG---PGITQADLLVINKTDLA-SAIG  106 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~-----~------~~~~~d~~i~vvDa~~~~~~-~~~~~---~qi~~ADivViNK~DL~-~~~~  106 (148)
                      +.++++++|.|......     +      .-...|.+++++|+.+.... .....   .......++|+||+|+. ++  
T Consensus        50 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~i~~v~d~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~--  127 (168)
T cd04163          50 DAQIIFVDTPGIHKPKKKLGERMVKAAWSALKDVDLVLFVVDASEPIGEGDEFILELLKKSKTPVILVLNKIDLVKDK--  127 (168)
T ss_pred             CeEEEEEECCCCCcchHHHHHHHHHHHHHHHHhCCEEEEEEECCCccCchHHHHHHHHHHhCCCEEEEEEchhccccH--
Confidence            57899999999753211     0      12356889999999876221 11000   11123479999999998 45  


Q ss_pred             hhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          107 ADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       107 ~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .++....+.++..++..+++++|++++.|++++++++.
T Consensus       128 ~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~l~~~l~  165 (168)
T cd04163         128 EDLLPLLEKLKELGPFAEIFPISALKGENVDELLEEIV  165 (168)
T ss_pred             HHHHHHHHHHHhccCCCceEEEEeccCCChHHHHHHHH
Confidence            66677777788777778999999999999999999875

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.

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=98.69  E-value=1e-07  Score=70.16  Aligned_cols=77  Identities=19%  Similarity=0.197  Sum_probs=56.8

Q ss_pred             ccCceEEEEEeCCCCCCc-cc---cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHH
Q 032030           63 ELADYIIYIIDVSGGDKI-PR---KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIF  138 (148)
Q Consensus        63 ~~~d~~i~vvDa~~~~~~-~~---~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~  138 (148)
                      ..+|.+++|+|+..++.. ..   ......+  -++++||+|+.+.   +.+.+.+.+++.....|++++||++|.|+++
T Consensus        63 ~~ad~il~v~d~~~~~s~~~~~~~~~~~~~~--ii~v~nK~Dl~~~---~~~~~~~~~~~~~~~~p~~~~Sa~~g~gi~~  137 (158)
T PRK15467         63 QDVDMLIYVHGANDPESRLPAGLLDIGVSKR--QIAVISKTDMPDA---DVAATRKLLLETGFEEPIFELNSHDPQSVQQ  137 (158)
T ss_pred             hcCCEEEEEEeCCCcccccCHHHHhccCCCC--eEEEEEccccCcc---cHHHHHHHHHHcCCCCCEEEEECCCccCHHH
Confidence            357999999999876532 11   1111223  6899999999653   4566777777766667999999999999999


Q ss_pred             HHHhhh
Q 032030          139 TLSITH  144 (148)
Q Consensus       139 l~~~~~  144 (148)
                      |+++++
T Consensus       138 l~~~l~  143 (158)
T PRK15467        138 LVDYLA  143 (158)
T ss_pred             HHHHHH
Confidence            999875

>PRK13768 GTPase; Provisional

Probab=98.68  E-value=6.5e-08  Score=76.70  Aligned_cols=102  Identities=17%  Similarity=0.098  Sum_probs=69.4

Q ss_pred             hhhcCCCEEEEecCCceeeee-------e----ccccCceEEEEEeCCCCCCcc-----cc------CCCCcceeeEEEE
Q 032030           39 SNLFKADLLLCESGGDNLAAN-------F----SRELADYIIYIIDVSGGDKIP-----RK------GGPGITQADLLVI   96 (148)
Q Consensus        39 ~~~~~~D~IliEtsG~~~~~~-------~----~~~~~d~~i~vvDa~~~~~~~-----~~------~~~qi~~ADivVi   96 (148)
                      .+..+.|++++++.|..-...       +    .....+.+++|+|+..+....     ..      ....++  -++|+
T Consensus        92 l~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~~~~~~--~i~v~  169 (253)
T PRK13768         92 IESLDADYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQLRLGLP--QIPVL  169 (253)
T ss_pred             HHhcCCCEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHHHcCCC--EEEEE
Confidence            344577999999999632111       1    111267889999997654210     00      011233  79999


Q ss_pred             ecCCCCCchhhhHHHHHHH----------------------------HHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030           97 NKTDLASAIGADLAVMERD----------------------------ALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus        97 NK~DL~~~~~~~l~~~~~~----------------------------i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ||+|+.+.  .+.++..+.                            +++.++..+++++|++++.|+++|++++.
T Consensus       170 nK~D~~~~--~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~~~vi~iSa~~~~gl~~L~~~I~  243 (253)
T PRK13768        170 NKADLLSE--EELERILKWLEDPEYLLEELKLEKGLQGLLSLELLRALEETGLPVRVIPVSAKTGEGFDELYAAIQ  243 (253)
T ss_pred             EhHhhcCc--hhHHHHHHHHhCHHHHHHHHhcccchHHHHHHHHHHHHHHHCCCCcEEEEECCCCcCHHHHHHHHH
Confidence            99999987  665554443                            34456778999999999999999999875

>cd00880 Era_like Era (E

Probab=98.66  E-value=2e-07  Score=65.45  Aligned_cols=101  Identities=21%  Similarity=0.100  Sum_probs=70.1

Q ss_pred             CCCEEEEecCCceeeeee----------ccccCceEEEEEeCCCCCCcccc----CCCCcceeeEEEEecCCCCCchhhh
Q 032030           43 KADLLLCESGGDNLAANF----------SRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASAIGAD  108 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~----------~~~~~d~~i~vvDa~~~~~~~~~----~~~qi~~ADivViNK~DL~~~~~~~  108 (148)
                      ..++.++++.|.......          .-...|.+++++|+..+......    ...+.....++|+||+|+...  ..
T Consensus        44 ~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~il~v~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nK~D~~~~--~~  121 (163)
T cd00880          44 LGPVVLIDTPGIDEAGGLGREREELARRVLERADLILFVVDADLRADEEEEKLLELLRERGKPVLLVLNKIDLLPE--EE  121 (163)
T ss_pred             CCcEEEEECCCCCccccchhhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhcCCeEEEEEEccccCCh--hh
Confidence            578999999997532110          01356888999999877543111    111223337999999999987  55


Q ss_pred             HHHHH---HHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          109 LAVME---RDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       109 l~~~~---~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      .....   .......+..+++++|++++.|++++++++.-
T Consensus       122 ~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~v~~l~~~l~~  161 (163)
T cd00880         122 EEELLELRLLILLLLLGLPVIAVSALTGEGIDELREALIE  161 (163)
T ss_pred             HHHHHHHHHhhcccccCCceEEEeeeccCCHHHHHHHHHh
Confidence            54442   33445567889999999999999999998754

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

>PRK00089 era GTPase Era; Reviewed

Probab=98.64  E-value=2.1e-07  Score=74.58  Aligned_cols=99  Identities=14%  Similarity=0.123  Sum_probs=70.6

Q ss_pred             CCCEEEEecCCceeee-----ee------ccccCceEEEEEeCCCCCCc-----cc-cCCCCcceeeEEEEecCCCC-Cc
Q 032030           43 KADLLLCESGGDNLAA-----NF------SRELADYIIYIIDVSGGDKI-----PR-KGGPGITQADLLVINKTDLA-SA  104 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~-----~~------~~~~~d~~i~vvDa~~~~~~-----~~-~~~~qi~~ADivViNK~DL~-~~  104 (148)
                      +..+++++|.|.....     .+      .-..+|.+++++|+......     .. ......+  .++|+||+|+. +.
T Consensus        52 ~~qi~~iDTPG~~~~~~~l~~~~~~~~~~~~~~~D~il~vvd~~~~~~~~~~~i~~~l~~~~~p--vilVlNKiDl~~~~  129 (292)
T PRK00089         52 DAQIIFVDTPGIHKPKRALNRAMNKAAWSSLKDVDLVLFVVDADEKIGPGDEFILEKLKKVKTP--VILVLNKIDLVKDK  129 (292)
T ss_pred             CceEEEEECCCCCCchhHHHHHHHHHHHHHHhcCCEEEEEEeCCCCCChhHHHHHHHHhhcCCC--EEEEEECCcCCCCH
Confidence            4789999999974321     00      11367999999999873221     11 1111234  79999999998 55


Q ss_pred             hhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          105 IGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       105 ~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                        .++....+.+.+..+..+++++||++|.|++++++++.-
T Consensus       130 --~~l~~~~~~l~~~~~~~~i~~iSA~~~~gv~~L~~~L~~  168 (292)
T PRK00089        130 --EELLPLLEELSELMDFAEIVPISALKGDNVDELLDVIAK  168 (292)
T ss_pred             --HHHHHHHHHHHhhCCCCeEEEecCCCCCCHHHHHHHHHH
Confidence              566666677776677889999999999999999998753

>cd00881 GTP_translation_factor GTP translation factor family

Probab=98.64  E-value=8e-08  Score=70.70  Aligned_cols=101  Identities=15%  Similarity=0.058  Sum_probs=66.7

Q ss_pred             CCCEEEEecCCceee-eee--ccccCceEEEEEeCCCCCCccc--c--CCCCcceeeEEEEecCCCCCchhhhHH----H
Q 032030           43 KADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDKIPR--K--GGPGITQADLLVINKTDLASAIGADLA----V  111 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~~~~--~--~~~qi~~ADivViNK~DL~~~~~~~l~----~  111 (148)
                      +.++++++|.|.... ...  .-..+|.+++|+|+.++.....  .  ...+.....++|+||+|+.++  ++++    .
T Consensus        61 ~~~~~liDtpG~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~i~iv~nK~D~~~~--~~~~~~~~~  138 (189)
T cd00881          61 DRRVNFIDTPGHEDFSSEVIRGLSVSDGAILVVDANEGVQPQTREHLRIAREGGLPIIVAINKIDRVGE--EDLEEVLRE  138 (189)
T ss_pred             CEEEEEEeCCCcHHHHHHHHHHHHhcCEEEEEEECCCCCcHHHHHHHHHHHHCCCCeEEEEECCCCcch--hcHHHHHHH
Confidence            568999999997531 111  1135788999999987643210  0  001112337999999999875  4443    3


Q ss_pred             HHHHHHhcC------------CCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          112 MERDALRMR------------DGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       112 ~~~~i~~~n------------p~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +.+.++...            ...+++++||++|.|++++++++..
T Consensus       139 ~~~~~~~~~~~~~~~~~~~~~~~~~v~~~Sa~~g~gi~~l~~~l~~  184 (189)
T cd00881         139 IKELLGLIGFISTKEEGTRNGLLVPIVPGSALTGIGVEELLEAIVE  184 (189)
T ss_pred             HHHHHccccccchhhhhcccCCcceEEEEecccCcCHHHHHHHHHh
Confidence            444444322            3579999999999999999998764

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.

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=98.63  E-value=1.6e-07  Score=66.84  Aligned_cols=79  Identities=14%  Similarity=0.026  Sum_probs=53.1

Q ss_pred             cCceEEEEEeCCCCCCccc-cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHh
Q 032030           64 LADYIIYIIDVSGGDKIPR-KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSI  142 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~-~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~  142 (148)
                      .+|.++.|+|+.+...... .........-++|+||+||.+. ....+...+..++.+ ..+++++||++|.|+++++++
T Consensus        62 ~ad~vilv~d~~~~~s~~~~~~~~~~~~p~ilv~NK~Dl~~~-~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~gi~~l~~~  139 (142)
T TIGR02528        62 DADVIALVQSATDPESRFPPGFASIFVKPVIGLVTKIDLAEA-DVDIERAKELLETAG-AEPIFEISSVDEQGLEALVDY  139 (142)
T ss_pred             cCCEEEEEecCCCCCcCCChhHHHhccCCeEEEEEeeccCCc-ccCHHHHHHHHHHcC-CCcEEEEecCCCCCHHHHHHH
Confidence            6788999999977654311 1111112246889999999763 023345555555433 348899999999999999988


Q ss_pred             hh
Q 032030          143 TH  144 (148)
Q Consensus       143 ~~  144 (148)
                      ++
T Consensus       140 l~  141 (142)
T TIGR02528       140 LN  141 (142)
T ss_pred             Hh
Confidence            74

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.

>COG2403 Predicted GTPase [General function prediction only]

Probab=98.62  E-value=1.3e-07  Score=78.60  Aligned_cols=79  Identities=24%  Similarity=0.325  Sum_probs=64.5

Q ss_pred             CCEEEEecCCceeeeeeccccCceEEEEEeCCCC-CCccccC-CCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCC
Q 032030           44 ADLLLCESGGDNLAANFSRELADYIIYIIDVSGG-DKIPRKG-GPGITQADLLVINKTDLASAIGADLAVMERDALRMRD  121 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~~~~~d~~i~vvDa~~~-~~~~~~~-~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np  121 (148)
                      -|+|+.|.+|...+    +-.-|++|+|+||.+. ..+.... +-.++.||++++||+|-++.  +.++++.+.++++||
T Consensus       225 aD~IlwdGgnndfP----fvkpd~~Ivvvda~rpg~ei~~~pGe~~irlAD~VIItkveea~~--~kvrkI~~~I~~iNP  298 (449)
T COG2403         225 ADFILWDGGNNDFP----FVKPDLHIVVVDALRPGEEIGSFPGELRIRLADLVIITKVEEAMA--EKVRKIVRNIEEINP  298 (449)
T ss_pred             ccEEEEeCCCCCCC----cccCCeeEEEecCCCCchhhccCCCceeeeeccEEEEecccccch--HHHHHHHHHHHhhCC
Confidence            49999999996654    3356889999999884 3332211 23789999999999999999  899999999999999


Q ss_pred             CCcEEEE
Q 032030          122 GGPFIFA  128 (148)
Q Consensus       122 ~a~vi~t  128 (148)
                      .|.|+.+
T Consensus       299 ~A~Vi~~  305 (449)
T COG2403         299 KAEVILA  305 (449)
T ss_pred             CcEEEec
Confidence            9999877

>cd03114 ArgK-like The function of this protein family is unkown

Probab=98.62  E-value=3.5e-08  Score=72.34  Aligned_cols=66  Identities=21%  Similarity=0.275  Sum_probs=50.9

Q ss_pred             HHHhhhhcCCCEEEEecCCceeeeeeccccCceEEEEEeCCCCCCccccCCCCcceeeEEEEecCC
Q 032030           35 LEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTD  100 (148)
Q Consensus        35 l~~l~~~~~~D~IliEtsG~~~~~~~~~~~~d~~i~vvDa~~~~~~~~~~~~qi~~ADivViNK~D  100 (148)
                      ..+.++..++|+|||+|.|........-..+|..+.++.+..++..+.++.++++.||++++||+|
T Consensus        83 ~~~~~~~~~~D~iiIDtaG~~~~~~~~~~~Ad~~ivv~tpe~~D~y~~~k~~~~~~~~~~~~~k~~  148 (148)
T cd03114          83 VIRVLDAAGFDVIIVETVGVGQSEVDIASMADTTVVVMAPGAGDDIQAIKAGIMEIADIVVVNKAD  148 (148)
T ss_pred             HHHHHHhcCCCEEEEECCccChhhhhHHHhCCEEEEEECCCchhHHHHhhhhHhhhcCEEEEeCCC
Confidence            334444458999999999976432111246788999998887777777788999999999999998

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.

>cd01895 EngA2 EngA2 subfamily

Probab=98.61  E-value=4.4e-07  Score=65.39  Aligned_cols=104  Identities=17%  Similarity=0.159  Sum_probs=68.5

Q ss_pred             CCCEEEEecCCceee----ee---e-------ccccCceEEEEEeCCCCCCccc----cCCCCcceeeEEEEecCCCCCc
Q 032030           43 KADLLLCESGGDNLA----AN---F-------SRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASA  104 (148)
Q Consensus        43 ~~D~IliEtsG~~~~----~~---~-------~~~~~d~~i~vvDa~~~~~~~~----~~~~qi~~ADivViNK~DL~~~  104 (148)
                      +.++.+++|.|....    ..   +       .....|.++.++|+..+.....    ..........++++||+|+.+.
T Consensus        49 ~~~~~iiDtpG~~~~~~~~~~~e~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~  128 (174)
T cd01895          49 GKKYTLIDTAGIRRKGKVEEGIEKYSVLRTLKAIERADVVLLVIDATEGITEQDLRIAGLILEEGKALVIVVNKWDLVEK  128 (174)
T ss_pred             CeeEEEEECCCCccccchhccHHHHHHHHHHHHHhhcCeEEEEEeCCCCcchhHHHHHHHHHhcCCCEEEEEeccccCCc
Confidence            567899999996421    00   0       0125688999999877633211    0000112237999999999865


Q ss_pred             hhhhHHHHHHHHHhcCC---CCcEEEEEecCCCCHHHHHHhhhhh
Q 032030          105 IGADLAVMERDALRMRD---GGPFIFAQVGWVIGIIFTLSITHYI  146 (148)
Q Consensus       105 ~~~~l~~~~~~i~~~np---~a~vi~tSa~~g~gi~~l~~~~~~~  146 (148)
                      -....+.+.+.+++..+   ..+++++||++|.|++++++++.++
T Consensus       129 ~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~~~~l~~~  173 (174)
T cd01895         129 DSKTMKEFKKEIRRKLPFLDYAPIVFISALTGQGVDKLFDAIDEV  173 (174)
T ss_pred             cHHHHHHHHHHHHhhcccccCCceEEEeccCCCCHHHHHHHHHHh
Confidence            21244555566654443   5789999999999999999998764

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.

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=98.61  E-value=4e-07  Score=66.72  Aligned_cols=94  Identities=15%  Similarity=0.117  Sum_probs=67.5

Q ss_pred             EEecCCceee-eee------ccccCceEEEEEeCCCCCCc-cccCCCCcceeeEEEEecCCCC-CchhhhHHHHHHHHHh
Q 032030           48 LCESGGDNLA-ANF------SRELADYIIYIIDVSGGDKI-PRKGGPGITQADLLVINKTDLA-SAIGADLAVMERDALR  118 (148)
Q Consensus        48 liEtsG~~~~-~~~------~~~~~d~~i~vvDa~~~~~~-~~~~~~qi~~ADivViNK~DL~-~~~~~~l~~~~~~i~~  118 (148)
                      +|.|.|--+. ..|      ....+|.++.+.|+...... +-.+...+..=.+=||||+|+. ++  +++++.+++++.
T Consensus        40 ~IDTPGEyiE~~~~y~aLi~ta~dad~V~ll~dat~~~~~~pP~fa~~f~~pvIGVITK~Dl~~~~--~~i~~a~~~L~~  117 (143)
T PF10662_consen   40 TIDTPGEYIENPRFYHALIVTAQDADVVLLLQDATEPRSVFPPGFASMFNKPVIGVITKIDLPSDD--ANIERAKKWLKN  117 (143)
T ss_pred             EEECChhheeCHHHHHHHHHHHhhCCEEEEEecCCCCCccCCchhhcccCCCEEEEEECccCccch--hhHHHHHHHHHH
Confidence            4788885332 011      12468999999999876442 2222223333378899999999 66  788999999986


Q ss_pred             cCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          119 MRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       119 ~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .... ++|++|+.+|+|+++|.+++.
T Consensus       118 aG~~-~if~vS~~~~eGi~eL~~~L~  142 (143)
T PF10662_consen  118 AGVK-EIFEVSAVTGEGIEELKDYLE  142 (143)
T ss_pred             cCCC-CeEEEECCCCcCHHHHHHHHh
Confidence            6554 679999999999999999863

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

>PRK15494 era GTPase Era; Provisional

Probab=98.57  E-value=2.6e-07  Score=76.19  Aligned_cols=100  Identities=14%  Similarity=0.037  Sum_probs=67.7

Q ss_pred             CCCEEEEecCCceee-----eeec------cccCceEEEEEeCCCCCCc-cc-cCC--CCcceeeEEEEecCCCCCchhh
Q 032030           43 KADLLLCESGGDNLA-----ANFS------RELADYIIYIIDVSGGDKI-PR-KGG--PGITQADLLVINKTDLASAIGA  107 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-----~~~~------~~~~d~~i~vvDa~~~~~~-~~-~~~--~qi~~ADivViNK~DL~~~~~~  107 (148)
                      +..++|+.|.|....     ..+.      -..+|.+++|+|+.....- .. ...  ......-++|+||+|+.+.   
T Consensus        99 ~~qi~~~DTpG~~~~~~~l~~~~~r~~~~~l~~aDvil~VvD~~~s~~~~~~~il~~l~~~~~p~IlViNKiDl~~~---  175 (339)
T PRK15494         99 DTQVILYDTPGIFEPKGSLEKAMVRCAWSSLHSADLVLLIIDSLKSFDDITHNILDKLRSLNIVPIFLLNKIDIESK---  175 (339)
T ss_pred             CeEEEEEECCCcCCCcccHHHHHHHHHHHHhhhCCEEEEEEECCCCCCHHHHHHHHHHHhcCCCEEEEEEhhcCccc---
Confidence            345788999997321     0110      1367999999998764321 10 000  0111235899999999754   


Q ss_pred             hHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          108 DLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       108 ~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      .+..+.+.+++.++..+++++||++|.|++++++++.-
T Consensus       176 ~~~~~~~~l~~~~~~~~i~~iSAktg~gv~eL~~~L~~  213 (339)
T PRK15494        176 YLNDIKAFLTENHPDSLLFPISALSGKNIDGLLEYITS  213 (339)
T ss_pred             cHHHHHHHHHhcCCCcEEEEEeccCccCHHHHHHHHHH
Confidence            35667777777778889999999999999999998753

>cd01858 NGP_1 NGP-1

Probab=98.55  E-value=3.1e-07  Score=67.19  Aligned_cols=77  Identities=16%  Similarity=0.077  Sum_probs=54.3

Q ss_pred             ccCceEEEEEeCCCCCCc-----ccc---CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCC
Q 032030           63 ELADYIIYIIDVSGGDKI-----PRK---GGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVI  134 (148)
Q Consensus        63 ~~~d~~i~vvDa~~~~~~-----~~~---~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~  134 (148)
                      ..+|.+++|+|+..+..-     ...   .....+  -++|+||+||.++  +++....+.+++..+.. ++++||+++.
T Consensus         7 ~~aD~il~VvD~~~p~~~~~~~i~~~l~~~~~~~p--~ilVlNKiDl~~~--~~~~~~~~~~~~~~~~~-~~~iSa~~~~   81 (157)
T cd01858           7 DSSDVVIQVLDARDPMGTRCKHVEEYLKKEKPHKH--LIFVLNKCDLVPT--WVTARWVKILSKEYPTI-AFHASINNPF   81 (157)
T ss_pred             hhCCEEEEEEECCCCccccCHHHHHHHHhccCCCC--EEEEEEchhcCCH--HHHHHHHHHHhcCCcEE-EEEeeccccc
Confidence            367999999999765221     111   111234  6999999999987  66666666666555433 6889999999


Q ss_pred             CHHHHHHhhh
Q 032030          135 GIIFTLSITH  144 (148)
Q Consensus       135 gi~~l~~~~~  144 (148)
                      |+++|++++.
T Consensus        82 ~~~~L~~~l~   91 (157)
T cd01858          82 GKGSLIQLLR   91 (157)
T ss_pred             cHHHHHHHHH
Confidence            9999988763

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.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=98.53  E-value=2.5e-07  Score=67.18  Aligned_cols=98  Identities=17%  Similarity=0.159  Sum_probs=64.7

Q ss_pred             CCCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc-------ccC----CCCcceeeEEEEecCCCCCchhhh
Q 032030           43 KADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP-------RKG----GPGITQADLLVINKTDLASAIGAD  108 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~-------~~~----~~qi~~ADivViNK~DL~~~~~~~  108 (148)
                      +..+.++++.|.......   .-..+|.+++|+|+.......       ...    ...++  -++++||+|+.+.  ..
T Consensus        49 ~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p--~ilv~NK~D~~~~--~~  124 (167)
T cd04160          49 NARLKFWDLGGQESLRSLWDKYYAECHAIIYVIDSTDRERFEESKSALEKVLRNEALEGVP--LLILANKQDLPDA--LS  124 (167)
T ss_pred             CEEEEEEECCCChhhHHHHHHHhCCCCEEEEEEECchHHHHHHHHHHHHHHHhChhhcCCC--EEEEEEccccccC--CC
Confidence            467788888886321111   013578899999987653211       000    12345  7899999999776  54


Q ss_pred             HHHHHHHHHhc----C-CCCcEEEEEecCCCCHHHHHHhhh
Q 032030          109 LAVMERDALRM----R-DGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       109 l~~~~~~i~~~----n-p~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .+.+.+.++..    + ...+++++||++|.|++++++|+.
T Consensus       125 ~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~  165 (167)
T cd04160         125 VEEIKEVFQDKAEEIGRRDCLVLPVSALEGTGVREGIEWLV  165 (167)
T ss_pred             HHHHHHHhccccccccCCceEEEEeeCCCCcCHHHHHHHHh
Confidence            55555555432    1 345899999999999999999874

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.

>TIGR00436 era GTP-binding protein Era

Probab=98.51  E-value=2.4e-07  Score=73.73  Aligned_cols=98  Identities=11%  Similarity=0.023  Sum_probs=66.8

Q ss_pred             CCCEEEEecCCceee-ee----e------ccccCceEEEEEeCCCCCCccc-----cCCCCcceeeEEEEecCCCCCchh
Q 032030           43 KADLLLCESGGDNLA-AN----F------SRELADYIIYIIDVSGGDKIPR-----KGGPGITQADLLVINKTDLASAIG  106 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-~~----~------~~~~~d~~i~vvDa~~~~~~~~-----~~~~qi~~ADivViNK~DL~~~~~  106 (148)
                      +..++|+.|.|.... ..    +      .-..+|.+++|+|+..+.....     ......+  -++|+||+|+.+.  
T Consensus        47 ~~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~~aDvvl~VvD~~~~~~~~~~i~~~l~~~~~p--~ilV~NK~Dl~~~--  122 (270)
T TIGR00436        47 ASQIIFIDTPGFHEKKHSLNRLMMKEARSAIGGVDLILFVVDSDQWNGDGEFVLTKLQNLKRP--VVLTRNKLDNKFK--  122 (270)
T ss_pred             CcEEEEEECcCCCCCcchHHHHHHHHHHHHHhhCCEEEEEEECCCCCchHHHHHHHHHhcCCC--EEEEEECeeCCCH--
Confidence            345899999997421 00    0      1135789999999987643211     1112334  5999999999876  


Q ss_pred             hhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          107 ADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       107 ~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .++....+.+....+..+++++||++|.|+++|++++.
T Consensus       123 ~~~~~~~~~~~~~~~~~~v~~iSA~~g~gi~~L~~~l~  160 (270)
T TIGR00436       123 DKLLPLIDKYAILEDFKDIVPISALTGDNTSFLAAFIE  160 (270)
T ss_pred             HHHHHHHHHHHhhcCCCceEEEecCCCCCHHHHHHHHH
Confidence            55544444454455666899999999999999998874

Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.

>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily

Probab=98.47  E-value=6.3e-07  Score=64.92  Aligned_cols=97  Identities=13%  Similarity=0.124  Sum_probs=63.0

Q ss_pred             CCCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhHHHHH
Q 032030           43 KADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADLAVME  113 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~  113 (148)
                      +.++.+++|.|......+   ....+|.+++|+|+..+.....      .....++  .++|+||+|+.+.  . .+.+.
T Consensus        49 ~~~~~iiDtpG~~~~~~~~~~~~~~~d~il~v~d~~~~~~~~~~~~~~~~~~~~~p--~ivv~NK~Dl~~~--~-~~~~~  123 (168)
T cd01887          49 IPGITFIDTPGHEAFTNMRARGASLTDIAILVVAADDGVMPQTIEAIKLAKAANVP--FIVALNKIDKPNA--N-PERVK  123 (168)
T ss_pred             cceEEEEeCCCcHHHHHHHHHHHhhcCEEEEEEECCCCccHHHHHHHHHHHHcCCC--EEEEEEceecccc--c-HHHHH
Confidence            678999999996321111   1246789999999987532110      1112344  7999999999854  2 12222


Q ss_pred             HHHH--------hcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          114 RDAL--------RMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       114 ~~i~--------~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +.++        ......+++++|+++|.|++++++++.
T Consensus       124 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  162 (168)
T cd01887         124 NELSELGLQGEDEWGGDVQIVPTSAKTGEGIDDLLEAIL  162 (168)
T ss_pred             HHHHHhhccccccccCcCcEEEeecccCCCHHHHHHHHH
Confidence            2221        122346899999999999999999875

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.

>COG1160 Predicted GTPases [General function prediction only]

Probab=98.46  E-value=5.1e-07  Score=76.50  Aligned_cols=104  Identities=19%  Similarity=0.182  Sum_probs=72.5

Q ss_pred             cCCCEEEEecCCce----ee---eeec-------cccCceEEEEEeCCCCCCcccc----CCCCcceeeEEEEecCCCCC
Q 032030           42 FKADLLLCESGGDN----LA---ANFS-------RELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLAS  103 (148)
Q Consensus        42 ~~~D~IliEtsG~~----~~---~~~~-------~~~~d~~i~vvDa~~~~~~~~~----~~~qi~~ADivViNK~DL~~  103 (148)
                      .+=.+.+|+|-|+=    +.   ..|+       -..+|.++.|+||.++..-+..    +...-..|.++|+||.|+.+
T Consensus       224 ~~~~~~liDTAGiRrk~ki~e~~E~~Sv~rt~~aI~~a~vvllviDa~~~~~~qD~~ia~~i~~~g~~~vIvvNKWDl~~  303 (444)
T COG1160         224 DGRKYVLIDTAGIRRKGKITESVEKYSVARTLKAIERADVVLLVIDATEGISEQDLRIAGLIEEAGRGIVIVVNKWDLVE  303 (444)
T ss_pred             CCeEEEEEECCCCCcccccccceEEEeehhhHhHHhhcCEEEEEEECCCCchHHHHHHHHHHHHcCCCeEEEEEccccCC
Confidence            35668999999982    11   1111       1357889999999988542211    11123446899999999987


Q ss_pred             chhhhHHHHHHHHHhcC---CCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          104 AIGADLAVMERDALRMR---DGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       104 ~~~~~l~~~~~~i~~~n---p~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      .-....+..++.++...   ..+|++++||++|.|+.++++...-
T Consensus       304 ~~~~~~~~~k~~i~~~l~~l~~a~i~~iSA~~~~~i~~l~~~i~~  348 (444)
T COG1160         304 EDEATMEEFKKKLRRKLPFLDFAPIVFISALTGQGLDKLFEAIKE  348 (444)
T ss_pred             chhhHHHHHHHHHHHHhccccCCeEEEEEecCCCChHHHHHHHHH
Confidence            52245566777776555   4689999999999999999987653

>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans

Probab=98.45  E-value=1.2e-06  Score=63.63  Aligned_cols=98  Identities=14%  Similarity=0.094  Sum_probs=64.3

Q ss_pred             CCCEEEEecCCceee---e-------eec--cccCceEEEEEeCCCCCCc---------cccCC--CCcceeeEEEEecC
Q 032030           43 KADLLLCESGGDNLA---A-------NFS--RELADYIIYIIDVSGGDKI---------PRKGG--PGITQADLLVINKT   99 (148)
Q Consensus        43 ~~D~IliEtsG~~~~---~-------~~~--~~~~d~~i~vvDa~~~~~~---------~~~~~--~qi~~ADivViNK~   99 (148)
                      +..+.++.|.|....   .       .+.  ....|.+++|+|+......         .....  ...+  -++|+||+
T Consensus        46 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~~~~p--vilv~NK~  123 (168)
T cd01897          46 YLRWQVIDTPGLLDRPLEERNTIEMQAITALAHLRAAVLFLFDPSETCGYSLEEQLSLFEEIKPLFKNKP--VIVVLNKI  123 (168)
T ss_pred             ceEEEEEECCCcCCccccCCchHHHHHHHHHHhccCcEEEEEeCCcccccchHHHHHHHHHHHhhcCcCC--eEEEEEcc
Confidence            467889999996310   0       000  1235788999998764321         00111  1344  69999999


Q ss_pred             CCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhhh
Q 032030          100 DLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHYI  146 (148)
Q Consensus       100 DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~~  146 (148)
                      |+.+.  .......+..+  .+..+++++||++|.|++++++++...
T Consensus       124 Dl~~~--~~~~~~~~~~~--~~~~~~~~~Sa~~~~gi~~l~~~l~~~  166 (168)
T cd01897         124 DLLTF--EDLSEIEEEEE--LEGEEVLKISTLTEEGVDEVKNKACEL  166 (168)
T ss_pred             ccCch--hhHHHHHHhhh--hccCceEEEEecccCCHHHHHHHHHHH
Confidence            99877  65554434333  245789999999999999999988654

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.

>cd04165 GTPBP1_like GTPBP1-like

Probab=98.45  E-value=7.4e-07  Score=69.53  Aligned_cols=100  Identities=16%  Similarity=0.121  Sum_probs=65.7

Q ss_pred             CCCEEEEecCCceee-----eeeccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhHHH
Q 032030           43 KADLLLCESGGDNLA-----ANFSRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADLAV  111 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-----~~~~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l~~  111 (148)
                      +.-+-+|.+.|.--.     ........|..+.|+|+.++..-+.      .....++  -++|+||+|+.++  .++++
T Consensus        83 ~~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~~~d~~~l~~l~~~~ip--~ivvvNK~D~~~~--~~~~~  158 (224)
T cd04165          83 SKLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGIIGMTKEHLGLALALNIP--VFVVVTKIDLAPA--NILQE  158 (224)
T ss_pred             CcEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCcHHHHHHHHHHHHcCCC--EEEEEECccccCH--HHHHH
Confidence            455778888885311     1111124688999999987643111      1122455  4999999999887  66655


Q ss_pred             HHHHHHhc----------------------------CCCCcEEEEEecCCCCHHHHHHhhhhh
Q 032030          112 MERDALRM----------------------------RDGGPFIFAQVGWVIGIIFTLSITHYI  146 (148)
Q Consensus       112 ~~~~i~~~----------------------------np~a~vi~tSa~~g~gi~~l~~~~~~~  146 (148)
                      ..+.+++.                            ....|++.+|+.+|.|+++|++++..+
T Consensus       159 ~~~~l~~~L~~~g~~~~p~~~~~~~~~~~~~~~~~~~~~~pi~~vSavtg~Gi~~L~~~L~~l  221 (224)
T cd04165         159 TLKDLKRILKVPGVRKLPVPVKSDDDVVLAASNFSSERIVPIFQVSNVTGEGLDLLHAFLNLL  221 (224)
T ss_pred             HHHHHHHHhcCCCccccceeeecccceeehhhcCCccccCcEEEeeCCCccCHHHHHHHHHhc
Confidence            44444321                            124599999999999999999988654

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

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.44  E-value=9.9e-07  Score=64.45  Aligned_cols=73  Identities=19%  Similarity=-0.004  Sum_probs=50.9

Q ss_pred             ceEEEEEeCCCCCCc-----c--ccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHH
Q 032030           66 DYIIYIIDVSGGDKI-----P--RKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIF  138 (148)
Q Consensus        66 d~~i~vvDa~~~~~~-----~--~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~  138 (148)
                      |.++.|+|+..+...     .  .......+  -++|+||+|+++.  +++......+++.. ..+++++||++|.|+++
T Consensus         1 Dvvl~VvD~~~p~~~~~~~i~~~~~~~~~~p--~IiVlNK~Dl~~~--~~~~~~~~~~~~~~-~~~ii~vSa~~~~gi~~   75 (155)
T cd01849           1 DVILEVLDARDPLGTRSPDIERVLIKEKGKK--LILVLNKADLVPK--EVLRKWLAYLRHSY-PTIPFKISATNGQGIEK   75 (155)
T ss_pred             CEEEEEEeccCCccccCHHHHHHHHhcCCCC--EEEEEechhcCCH--HHHHHHHHHHHhhC-CceEEEEeccCCcChhh
Confidence            678899999765321     1  11223455  7999999999877  65544333444333 46789999999999999


Q ss_pred             HHHhh
Q 032030          139 TLSIT  143 (148)
Q Consensus       139 l~~~~  143 (148)
                      |.+.+
T Consensus        76 L~~~i   80 (155)
T cd01849          76 KESAF   80 (155)
T ss_pred             HHHHH
Confidence            99865

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.

>cd01889 SelB_euk SelB subfamily

Probab=98.41  E-value=1.3e-06  Score=65.74  Aligned_cols=98  Identities=14%  Similarity=0.134  Sum_probs=63.9

Q ss_pred             CCCEEEEecCCcee-eeee--ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhH----
Q 032030           43 KADLLLCESGGDNL-AANF--SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADL----  109 (148)
Q Consensus        43 ~~D~IliEtsG~~~-~~~~--~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l----  109 (148)
                      +..+.++.|.|..- ...+  ....+|.+++|+|+..+.....      ......+  -++++||+|+.+.  .+.    
T Consensus        67 ~~~~~i~DtpG~~~~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~~~~~~~~~--~iiv~NK~Dl~~~--~~~~~~~  142 (192)
T cd01889          67 NLQITLVDCPGHASLIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLVIGEILCKK--LIVVLNKIDLIPE--EERERKI  142 (192)
T ss_pred             CceEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHHHHHHcCCC--EEEEEECcccCCH--HHHHHHH
Confidence            57788999999631 1111  1235688999999987643211      0001223  5799999999865  443    


Q ss_pred             HHHHHHHHhc-----CCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          110 AVMERDALRM-----RDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       110 ~~~~~~i~~~-----np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +.+.+.++..     +.+.+++++||++|.|+++|++++.
T Consensus       143 ~~~~~~l~~~~~~~~~~~~~vi~iSa~~g~gi~~L~~~l~  182 (192)
T cd01889         143 EKMKKKLQKTLEKTRFKNSPIIPVSAKPGGGEAELGKDLN  182 (192)
T ss_pred             HHHHHHHHHHHHhcCcCCCCEEEEeccCCCCHHHHHHHHH
Confidence            3333333322     3567999999999999999998763

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

>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site

Probab=98.41  E-value=4.9e-07  Score=67.92  Aligned_cols=98  Identities=20%  Similarity=0.153  Sum_probs=62.4

Q ss_pred             CCEEEEecCCceee--eee-ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhHHHHHH
Q 032030           44 ADLLLCESGGDNLA--ANF-SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADLAVMER  114 (148)
Q Consensus        44 ~D~IliEtsG~~~~--~~~-~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~  114 (148)
                      .-+-+|.+.|-...  ... .-..+|..+.|||+..+...+.      ....+++  -++++||+|+. .  .++++..+
T Consensus        70 ~~i~~iDtPG~~~f~~~~~~~~~~~D~ailvVda~~g~~~~~~~~l~~~~~~~~p--~ivvlNK~D~~-~--~~~~~~~~  144 (188)
T PF00009_consen   70 RKITLIDTPGHEDFIKEMIRGLRQADIAILVVDANDGIQPQTEEHLKILRELGIP--IIVVLNKMDLI-E--KELEEIIE  144 (188)
T ss_dssp             EEEEEEEESSSHHHHHHHHHHHTTSSEEEEEEETTTBSTHHHHHHHHHHHHTT-S--EEEEEETCTSS-H--HHHHHHHH
T ss_pred             cceeecccccccceeecccceecccccceeeeecccccccccccccccccccccc--eEEeeeeccch-h--hhHHHHHH
Confidence            44566666664310  000 1136799999999998754211      1122455  79999999999 4  44444433


Q ss_pred             HHH-----hc--CC--CCcEEEEEecCCCCHHHHHHhhhhh
Q 032030          115 DAL-----RM--RD--GGPFIFAQVGWVIGIIFTLSITHYI  146 (148)
Q Consensus       115 ~i~-----~~--np--~a~vi~tSa~~g~gi~~l~~~~~~~  146 (148)
                      .++     ..  ++  ..|++++||++|.|+++|++.+.-.
T Consensus       145 ~~~~~l~~~~~~~~~~~~~vi~~Sa~~g~gi~~Ll~~l~~~  185 (188)
T PF00009_consen  145 EIKEKLLKEYGENGEEIVPVIPISALTGDGIDELLEALVEL  185 (188)
T ss_dssp             HHHHHHHHHTTSTTTSTEEEEEEBTTTTBTHHHHHHHHHHH
T ss_pred             HHHHHhccccccCccccceEEEEecCCCCCHHHHHHHHHHh
Confidence            333     22  22  4689999999999999999987654

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 ....

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=98.39  E-value=1.2e-06  Score=73.64  Aligned_cols=99  Identities=20%  Similarity=0.205  Sum_probs=66.9

Q ss_pred             CCEEEEecCCceee-------eee-------ccccCceEEEEEeCCCCCCcccc----CCCCcceeeEEEEecCCCC-Cc
Q 032030           44 ADLLLCESGGDNLA-------ANF-------SRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLA-SA  104 (148)
Q Consensus        44 ~D~IliEtsG~~~~-------~~~-------~~~~~d~~i~vvDa~~~~~~~~~----~~~qi~~ADivViNK~DL~-~~  104 (148)
                      ..+.++.|.|..-.       ..+       .-..+|.+++|+|+.++...+..    ....-...-++|+||+|+. +.
T Consensus       220 ~~~~liDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~ilV~D~~~~~~~~~~~~~~~~~~~~~~iiiv~NK~Dl~~~~  299 (429)
T TIGR03594       220 KKYLLIDTAGIRRKGKVTEGVEKYSVLRTLKAIERADVVLLVLDATEGITEQDLRIAGLILEAGKALVIVVNKWDLVKDE  299 (429)
T ss_pred             cEEEEEECCCccccccchhhHHHHHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHHcCCcEEEEEECcccCCCH
Confidence            46788889886321       001       01357899999999876432110    0001123479999999998 55


Q ss_pred             hhhhHHHHHHHHHhcC---CCCcEEEEEecCCCCHHHHHHhhh
Q 032030          105 IGADLAVMERDALRMR---DGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       105 ~~~~l~~~~~~i~~~n---p~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                        ...+.+.+.++...   +.++++++||++|.|++++++++.
T Consensus       300 --~~~~~~~~~~~~~~~~~~~~~vi~~SA~~g~~v~~l~~~i~  340 (429)
T TIGR03594       300 --KTREEFKKELRRKLPFLDFAPIVFISALTGQGVDKLLDAID  340 (429)
T ss_pred             --HHHHHHHHHHHHhcccCCCCceEEEeCCCCCCHHHHHHHHH
Confidence              56667777776544   458999999999999999998764

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.

>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]

Probab=98.37  E-value=8.4e-07  Score=76.84  Aligned_cols=98  Identities=21%  Similarity=0.165  Sum_probs=65.3

Q ss_pred             CCEEEEecCCceee-eeecc--ccCceEEEEEeCCCCCCccccC----CCCcceeeEEEEecCCCCCchhhhHHHHHHHH
Q 032030           44 ADLLLCESGGDNLA-ANFSR--ELADYIIYIIDVSGGDKIPRKG----GPGITQADLLVINKTDLASAIGADLAVMERDA  116 (148)
Q Consensus        44 ~D~IliEtsG~~~~-~~~~~--~~~d~~i~vvDa~~~~~~~~~~----~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i  116 (148)
                      +-+=+|.|.|-... ....+  ...|-.+.||||.+|..-+...    .-+.-.+-+.|+||+|+.++   +-++++..+
T Consensus       125 ylLNLIDTPGHvDFs~EVsRslaac~G~lLvVDA~qGvqAQT~anf~lAfe~~L~iIpVlNKIDlp~a---dpe~V~~q~  201 (650)
T KOG0462|consen  125 YLLNLIDTPGHVDFSGEVSRSLAACDGALLVVDASQGVQAQTVANFYLAFEAGLAIIPVLNKIDLPSA---DPERVENQL  201 (650)
T ss_pred             eEEEeecCCCcccccceehehhhhcCceEEEEEcCcCchHHHHHHHHHHHHcCCeEEEeeeccCCCCC---CHHHHHHHH
Confidence            34445666664321 11111  2356679999999997643211    11233448999999999875   455666666


Q ss_pred             HhcC--CCCcEEEEEecCCCCHHHHHHhhh
Q 032030          117 LRMR--DGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       117 ~~~n--p~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .+++  |.++++.+|||+|.|++++++.+.
T Consensus       202 ~~lF~~~~~~~i~vSAK~G~~v~~lL~AII  231 (650)
T KOG0462|consen  202 FELFDIPPAEVIYVSAKTGLNVEELLEAII  231 (650)
T ss_pred             HHHhcCCccceEEEEeccCccHHHHHHHHH
Confidence            6544  778999999999999999998764

>cd01859 MJ1464 MJ1464

Probab=98.37  E-value=1.9e-06  Score=62.71  Aligned_cols=75  Identities=17%  Similarity=0.192  Sum_probs=50.6

Q ss_pred             cCceEEEEEeCCCCCCccc--c----CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHH
Q 032030           64 LADYIIYIIDVSGGDKIPR--K----GGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGII  137 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~--~----~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~  137 (148)
                      .+|.++.|+|+..+.....  .    .....+  -++|+||+|+.+.  ...+...+..+  ..+.+++++||++|.|++
T Consensus        12 ~aD~vl~V~D~~~~~~~~~~~l~~~~~~~~~p--~iiv~NK~Dl~~~--~~~~~~~~~~~--~~~~~~~~iSa~~~~gi~   85 (156)
T cd01859          12 ESDVVLEVLDARDPELTRSRKLERYVLELGKK--LLIVLNKADLVPK--EVLEKWKSIKE--SEGIPVVYVSAKERLGTK   85 (156)
T ss_pred             hCCEEEEEeeCCCCcccCCHHHHHHHHhCCCc--EEEEEEhHHhCCH--HHHHHHHHHHH--hCCCcEEEEEccccccHH
Confidence            3688899999876532111  0    111333  6999999999865  54444332222  245689999999999999


Q ss_pred             HHHHhhh
Q 032030          138 FTLSITH  144 (148)
Q Consensus       138 ~l~~~~~  144 (148)
                      +|++.+.
T Consensus        86 ~L~~~l~   92 (156)
T cd01859          86 ILRRTIK   92 (156)
T ss_pred             HHHHHHH
Confidence            9998875

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.

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=98.36  E-value=1.5e-06  Score=61.81  Aligned_cols=96  Identities=21%  Similarity=0.207  Sum_probs=64.9

Q ss_pred             CCCEEEEecCCceeeeee-----------ccccCceEEEEEeCCCCCCcc--ccCCCCcceeeEEEEecCCCCCchhhhH
Q 032030           43 KADLLLCESGGDNLAANF-----------SRELADYIIYIIDVSGGDKIP--RKGGPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~-----------~~~~~d~~i~vvDa~~~~~~~--~~~~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      +..+.++.|.|.......           ....+|.++.++|+.......  ...........++|+||+|+.+.  ...
T Consensus        48 ~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~d~~~~~~~~~~~~~~~~~~~~vi~v~nK~D~~~~--~~~  125 (157)
T cd04164          48 GIPVRLIDTAGIRETEDEIEKIGIERAREAIEEADLVLFVIDASRGLDEEDLEILELPADKPIIVVLNKSDLLPD--SEL  125 (157)
T ss_pred             CEEEEEEECCCcCCCcchHHHHHHHHHHHHHhhCCEEEEEEECCCCCCHHHHHHHHhhcCCCEEEEEEchhcCCc--ccc
Confidence            457889999996422110           113578899999998643321  11111222337999999999987  543


Q ss_pred             HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhhhc
Q 032030          110 AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHYIV  147 (148)
Q Consensus       110 ~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~~~  147 (148)
                             .......+++++||+++.|+++|++++.-.+
T Consensus       126 -------~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~  156 (157)
T cd04164         126 -------LSLLAGKPIIAISAKTGEGLDELKEALLELA  156 (157)
T ss_pred             -------ccccCCCceEEEECCCCCCHHHHHHHHHHhh
Confidence                   2334567999999999999999999987553

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=98.35  E-value=2.4e-06  Score=72.07  Aligned_cols=100  Identities=20%  Similarity=0.222  Sum_probs=67.4

Q ss_pred             CCCEEEEecCCceee-------eee-------ccccCceEEEEEeCCCCCCcccc----CCCCcceeeEEEEecCCCCCc
Q 032030           43 KADLLLCESGGDNLA-------ANF-------SRELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASA  104 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-------~~~-------~~~~~d~~i~vvDa~~~~~~~~~----~~~qi~~ADivViNK~DL~~~  104 (148)
                      +.++.+++|.|..-.       ..+       .-..+|.++.|+|+..+...+..    ........-++++||+|+.++
T Consensus       220 ~~~~~lvDT~G~~~~~~~~~~~e~~~~~~~~~~~~~ad~~ilViD~~~~~~~~~~~i~~~~~~~~~~~ivv~NK~Dl~~~  299 (435)
T PRK00093        220 GQKYTLIDTAGIRRKGKVTEGVEKYSVIRTLKAIERADVVLLVIDATEGITEQDLRIAGLALEAGRALVIVVNKWDLVDE  299 (435)
T ss_pred             CeeEEEEECCCCCCCcchhhHHHHHHHHHHHHHHHHCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCcEEEEEECccCCCH
Confidence            456889999996311       000       01246899999999877432110    000112337999999999976


Q ss_pred             hhhhHHHHHHHHHhcC---CCCcEEEEEecCCCCHHHHHHhhh
Q 032030          105 IGADLAVMERDALRMR---DGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       105 ~~~~l~~~~~~i~~~n---p~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                        ...+.+.+.++...   +.+|++++||++|.|++++++.+.
T Consensus       300 --~~~~~~~~~~~~~l~~~~~~~i~~~SA~~~~gv~~l~~~i~  340 (435)
T PRK00093        300 --KTMEEFKKELRRRLPFLDYAPIVFISALTGQGVDKLLEAID  340 (435)
T ss_pred             --HHHHHHHHHHHHhcccccCCCEEEEeCCCCCCHHHHHHHHH
Confidence              66666666665433   568999999999999999998753

>cd04157 Arl6 Arl6 subfamily

Probab=98.35  E-value=2.3e-06  Score=61.61  Aligned_cols=98  Identities=13%  Similarity=0.032  Sum_probs=60.4

Q ss_pred             CCCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCc-------c---cc---CCCCcceeeEEEEecCCCCCchh
Q 032030           43 KADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKI-------P---RK---GGPGITQADLLVINKTDLASAIG  106 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~-------~---~~---~~~qi~~ADivViNK~DL~~~~~  106 (148)
                      +..+-++++.|......++   -..+|.+++|+|+......       .   ..   ....++  -++|+||+|+.+.  
T Consensus        44 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p--~iiv~NK~Dl~~~--  119 (162)
T cd04157          44 NLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVIDSSDRLRLVVVKDELELLLNHPDIKHRRVP--ILFFANKMDLPDA--  119 (162)
T ss_pred             CEEEEEEECCCCHhhHHHHHHHHccCCEEEEEEeCCcHHHHHHHHHHHHHHHcCcccccCCCC--EEEEEeCccccCC--
Confidence            3445677777753211110   1357889999999765321       0   00   112344  6999999999875  


Q ss_pred             hhHHHHHHHHHhc---CCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          107 ADLAVMERDALRM---RDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       107 ~~l~~~~~~i~~~---np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ...+++.+.+.-.   +...+++++||++|.|++++++++.
T Consensus       120 ~~~~~~~~~l~~~~~~~~~~~~~~~Sa~~g~gv~~~~~~l~  160 (162)
T cd04157         120 LTAVKITQLLGLENIKDKPWHIFASNALTGEGLDEGVQWLQ  160 (162)
T ss_pred             CCHHHHHHHhCCccccCceEEEEEeeCCCCCchHHHHHHHh
Confidence            4334444433211   1223689999999999999999874

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

>cd01898 Obg Obg subfamily

Probab=98.34  E-value=4.2e-06  Score=60.76  Aligned_cols=98  Identities=19%  Similarity=0.198  Sum_probs=62.5

Q ss_pred             CEEEEecCCceee----ee----ec--cccCceEEEEEeCCCCC-Cc---c---c---cCCCC-cceeeEEEEecCCCCC
Q 032030           45 DLLLCESGGDNLA----AN----FS--RELADYIIYIIDVSGGD-KI---P---R---KGGPG-ITQADLLVINKTDLAS  103 (148)
Q Consensus        45 D~IliEtsG~~~~----~~----~~--~~~~d~~i~vvDa~~~~-~~---~---~---~~~~q-i~~ADivViNK~DL~~  103 (148)
                      .+.++.|.|....    ..    +.  -..+|.+++|+|+.... ..   .   .   ...+. ....-++|+||+|+.+
T Consensus        49 ~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~d~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~  128 (170)
T cd01898          49 SFVVADIPGLIEGASEGKGLGHRFLRHIERTRLLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLD  128 (170)
T ss_pred             eEEEEecCcccCcccccCCchHHHHHHHHhCCEEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCC
Confidence            7789999996310    01    11  12478899999998762 11   0   0   01111 1122599999999987


Q ss_pred             chhhhHHHHH-HHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          104 AIGADLAVME-RDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       104 ~~~~~l~~~~-~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      .  ....... ...++. ...+++++||+++.|+++++++++.
T Consensus       129 ~--~~~~~~~~~~~~~~-~~~~~~~~Sa~~~~gi~~l~~~i~~  168 (170)
T cd01898         129 E--EELFELLKELLKEL-WGKPVFPISALTGEGLDELLRKLAE  168 (170)
T ss_pred             c--hhhHHHHHHHHhhC-CCCCEEEEecCCCCCHHHHHHHHHh
Confidence            6  5544333 333332 3468999999999999999998764

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.

>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1

Probab=98.33  E-value=5.4e-06  Score=60.32  Aligned_cols=102  Identities=19%  Similarity=0.170  Sum_probs=66.7

Q ss_pred             CCCEEEEecCCceee----e----eec--cccCceEEEEEeCCCCC-----C-cc-------cc--CCCC------ccee
Q 032030           43 KADLLLCESGGDNLA----A----NFS--RELADYIIYIIDVSGGD-----K-IP-------RK--GGPG------ITQA   91 (148)
Q Consensus        43 ~~D~IliEtsG~~~~----~----~~~--~~~~d~~i~vvDa~~~~-----~-~~-------~~--~~~q------i~~A   91 (148)
                      +..+.++.|.|....    .    .+.  -..+|.++.|+|+....     . ..       ..  ....      ....
T Consensus        43 ~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p  122 (176)
T cd01881          43 GARIQVADIPGLIEGASEGRGLGNQFLAHIRRADAILHVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKP  122 (176)
T ss_pred             CCeEEEEeccccchhhhcCCCccHHHHHHHhccCEEEEEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCC
Confidence            567889999996321    1    111  13478899999998763     1 10       00  1110      1233


Q ss_pred             eEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhhh
Q 032030           92 DLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHYI  146 (148)
Q Consensus        92 DivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~~  146 (148)
                      .++|+||+|+.+.  .................+++++||+++.|++++++++.+.
T Consensus       123 ~ivv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gl~~l~~~l~~~  175 (176)
T cd01881         123 VIYVLNKIDLDDA--EELEEELVRELALEEGAEVVPISAKTEEGLDELIRAIYEL  175 (176)
T ss_pred             eEEEEEchhcCch--hHHHHHHHHHHhcCCCCCEEEEehhhhcCHHHHHHHHHhh
Confidence            7999999999877  5554442223334456789999999999999999988764

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

>cd04158 ARD1 ARD1 subfamily

Probab=98.32  E-value=2.3e-06  Score=62.95  Aligned_cols=98  Identities=14%  Similarity=0.108  Sum_probs=62.1

Q ss_pred             CCCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc-------ccC-C---CCcceeeEEEEecCCCCCchhhh
Q 032030           43 KADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP-------RKG-G---PGITQADLLVINKTDLASAIGAD  108 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~-------~~~-~---~qi~~ADivViNK~DL~~~~~~~  108 (148)
                      +..+.++++.|..-.....   -..+|.+++|+|......+.       ... .   ...+  -++|.||+|+...  ..
T Consensus        42 ~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~s~~~s~~~~~~~~~~~~~~~~~~~~p--iilv~NK~Dl~~~--~~  117 (169)
T cd04158          42 NLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVVDSSHRDRVSEAHSELAKLLTEKELRDAL--LLIFANKQDVAGA--LS  117 (169)
T ss_pred             CEEEEEEECCCChhcchHHHHHhccCCEEEEEEeCCcHHHHHHHHHHHHHHhcChhhCCCC--EEEEEeCcCcccC--CC
Confidence            4667788888864221111   13578899999987653210       001 1   1223  5899999999765  44


Q ss_pred             HHHHHHHHHhcC--C--CCcEEEEEecCCCCHHHHHHhhh
Q 032030          109 LAVMERDALRMR--D--GGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       109 l~~~~~~i~~~n--p--~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .+.+.+.++..+  .  ..+++++||++|.|++++|++++
T Consensus       118 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~~f~~l~  157 (169)
T cd04158         118 VEEMTELLSLHKLCCGRSWYIQGCDARSGMGLYEGLDWLS  157 (169)
T ss_pred             HHHHHHHhCCccccCCCcEEEEeCcCCCCCCHHHHHHHHH
Confidence            455655553111  1  23678899999999999999975

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

>cd04171 SelB SelB subfamily

Probab=98.32  E-value=2.2e-06  Score=61.53  Aligned_cols=99  Identities=16%  Similarity=0.066  Sum_probs=61.2

Q ss_pred             CCEEEEecCCceee-eee--ccccCceEEEEEeCCCCCCcc--c---cC-CCCcceeeEEEEecCCCCCchhhhH----H
Q 032030           44 ADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDKIP--R---KG-GPGITQADLLVINKTDLASAIGADL----A  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~~~--~---~~-~~qi~~ADivViNK~DL~~~~~~~l----~  110 (148)
                      ..+.++.|.|.--. ...  .-..+|.+++|+|+..+....  .   .. ....+ --++++||+|+.++  ...    +
T Consensus        51 ~~~~~~DtpG~~~~~~~~~~~~~~ad~ii~V~d~~~~~~~~~~~~~~~~~~~~~~-~~ilv~NK~Dl~~~--~~~~~~~~  127 (164)
T cd04171          51 KRLGFIDVPGHEKFIKNMLAGAGGIDLVLLVVAADEGIMPQTREHLEILELLGIK-RGLVVLTKADLVDE--DWLELVEE  127 (164)
T ss_pred             cEEEEEECCChHHHHHHHHhhhhcCCEEEEEEECCCCccHhHHHHHHHHHHhCCC-cEEEEEECccccCH--HHHHHHHH
Confidence            45677788885211 000  113578999999987642110  0   00 00110 25799999999876  433    3


Q ss_pred             HHHHHHHhcC-CCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          111 VMERDALRMR-DGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       111 ~~~~~i~~~n-p~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ++.+.++... ...+++++||++|.|++++++++..
T Consensus       128 ~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~  163 (164)
T cd04171         128 EIRELLAGTFLADAPIFPVSAVTGEGIEELKEYLDE  163 (164)
T ss_pred             HHHHHHHhcCcCCCcEEEEeCCCCcCHHHHHHHHhh
Confidence            4445554321 3579999999999999999988753

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

>PRK12289 GTPase RsgA; Reviewed

Probab=98.32  E-value=4.9e-06  Score=69.13  Aligned_cols=75  Identities=24%  Similarity=0.244  Sum_probs=53.2

Q ss_pred             cCceEEEEEeCCCCCCcc----cc----CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCC
Q 032030           64 LADYIIYIIDVSGGDKIP----RK----GGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIG  135 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~----~~----~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~g  135 (148)
                      .+|.++.|+|+.+.+--+    ..    ....++  -++|+||+||+++  .+++...+.++.  .+.+++++||++|.|
T Consensus        89 NvD~vLlV~d~~~p~~~~~~LdR~L~~a~~~~ip--~ILVlNK~DLv~~--~~~~~~~~~~~~--~g~~v~~iSA~tg~G  162 (352)
T PRK12289         89 NADQILLVFALAEPPLDPWQLSRFLVKAESTGLE--IVLCLNKADLVSP--TEQQQWQDRLQQ--WGYQPLFISVETGIG  162 (352)
T ss_pred             cCCEEEEEEECCCCCCCHHHHHHHHHHHHHCCCC--EEEEEEchhcCCh--HHHHHHHHHHHh--cCCeEEEEEcCCCCC
Confidence            468889999987543111    11    112344  5999999999987  666666566654  345799999999999


Q ss_pred             HHHHHHhhh
Q 032030          136 IIFTLSITH  144 (148)
Q Consensus       136 i~~l~~~~~  144 (148)
                      +++|++++.
T Consensus       163 I~eL~~~L~  171 (352)
T PRK12289        163 LEALLEQLR  171 (352)
T ss_pred             HHHHhhhhc
Confidence            999998764

>cd04154 Arl2 Arl2 subfamily

Probab=98.32  E-value=2.2e-06  Score=63.03  Aligned_cols=97  Identities=18%  Similarity=0.127  Sum_probs=61.1

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCc-------ccc----CCCCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKI-------PRK----GGPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~-------~~~----~~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      +.+.++++.|.-....+.   -..+|.+++|+|+......       ...    .....+  -++|+||+|+...  ...
T Consensus        58 ~~l~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p--~iiv~nK~Dl~~~--~~~  133 (173)
T cd04154          58 YKLNIWDVGGQKTLRPYWRNYFESTDALIWVVDSSDRLRLDDCKRELKELLQEERLAGAT--LLILANKQDLPGA--LSE  133 (173)
T ss_pred             EEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhcCCC--EEEEEECcccccC--CCH
Confidence            445667777742110010   1257888999998765221       010    012344  6899999999865  444


Q ss_pred             HHHHHHHHhc---CCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          110 AVMERDALRM---RDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       110 ~~~~~~i~~~---np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +.+.+.++..   ....+++++||++|.|++++++++.
T Consensus       134 ~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~  171 (173)
T cd04154         134 EEIREALELDKISSHHWRIQPCSAVTGEGLLQGIDWLV  171 (173)
T ss_pred             HHHHHHhCccccCCCceEEEeccCCCCcCHHHHHHHHh
Confidence            5555555422   2456899999999999999999864

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.

>cd04151 Arl1 Arl1 subfamily

Probab=98.32  E-value=1.6e-06  Score=62.73  Aligned_cols=98  Identities=16%  Similarity=0.124  Sum_probs=61.9

Q ss_pred             CCCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCc-------ccc-C---CCCcceeeEEEEecCCCCCchhhh
Q 032030           43 KADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKI-------PRK-G---GPGITQADLLVINKTDLASAIGAD  108 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~-------~~~-~---~~qi~~ADivViNK~DL~~~~~~~  108 (148)
                      +..+.++++.|.--....+   -..+|.+++|+|+......       ... .   ..+.+  -++|+||+|+.+.  ..
T Consensus        42 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p--iiiv~nK~Dl~~~--~~  117 (158)
T cd04151          42 NLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVDSTDRDRLGTAKEELHAMLEEEELKGAV--LLVFANKQDMPGA--LS  117 (158)
T ss_pred             CEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCc--EEEEEeCCCCCCC--CC
Confidence            4667788888863211111   1357889999998764211       100 0   12344  6999999999765  33


Q ss_pred             HHHHHHHHHhcC---CCCcEEEEEecCCCCHHHHHHhhh
Q 032030          109 LAVMERDALRMR---DGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       109 l~~~~~~i~~~n---p~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .+++.+.+....   ...+++++||++|.|+++++++++
T Consensus       118 ~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  156 (158)
T cd04151         118 EAEISEKLGLSELKDRTWSIFKTSAIKGEGLDEGMDWLV  156 (158)
T ss_pred             HHHHHHHhCccccCCCcEEEEEeeccCCCCHHHHHHHHh
Confidence            344444442111   124799999999999999999874

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.

>cd01890 LepA LepA subfamily

Probab=98.31  E-value=3.5e-06  Score=61.90  Aligned_cols=99  Identities=18%  Similarity=0.101  Sum_probs=61.9

Q ss_pred             CCCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhHHHHH
Q 032030           43 KADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADLAVME  113 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~  113 (148)
                      ++.+.++.|.|.--....   .-..+|.+++|+|+..+.....      .....++  -++|+||+|+.+.  .. ....
T Consensus        66 ~~~~~l~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~~~~~~--iiiv~NK~Dl~~~--~~-~~~~  140 (179)
T cd01890          66 EYLLNLIDTPGHVDFSYEVSRSLAACEGALLLVDATQGVEAQTLANFYLALENNLE--IIPVINKIDLPSA--DP-ERVK  140 (179)
T ss_pred             cEEEEEEECCCChhhHHHHHHHHHhcCeEEEEEECCCCccHhhHHHHHHHHHcCCC--EEEEEECCCCCcC--CH-HHHH
Confidence            566778899996421000   1135788999999987543111      1112344  6999999999654  21 1222


Q ss_pred             HHHHhc-C-CCCcEEEEEecCCCCHHHHHHhhhhh
Q 032030          114 RDALRM-R-DGGPFIFAQVGWVIGIIFTLSITHYI  146 (148)
Q Consensus       114 ~~i~~~-n-p~a~vi~tSa~~g~gi~~l~~~~~~~  146 (148)
                      +.+.+. . +..+++++||++|.|++++++++...
T Consensus       141 ~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~  175 (179)
T cd01890         141 QQIEDVLGLDPSEAILVSAKTGLGVEDLLEAIVER  175 (179)
T ss_pred             HHHHHHhCCCcccEEEeeccCCCCHHHHHHHHHhh
Confidence            222222 2 33469999999999999999998754

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.

>cd04149 Arf6 Arf6 subfamily

Probab=98.29  E-value=2.1e-06  Score=63.36  Aligned_cols=97  Identities=18%  Similarity=0.136  Sum_probs=59.7

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc-------ccCC----CCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP-------RKGG----PGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~-------~~~~----~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      +.+.+.++.|..-.....   -..+|.+++|+|+.......       ....    ...+  -++|.||+|+...  ...
T Consensus        53 ~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii~v~D~t~~~s~~~~~~~~~~~~~~~~~~~~p--iilv~NK~Dl~~~--~~~  128 (168)
T cd04149          53 VKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDSADRDRIDEARQELHRIINDREMRDAL--LLVFANKQDLPDA--MKP  128 (168)
T ss_pred             EEEEEEECCCCHHHHHHHHHHhccCCEEEEEEeCCchhhHHHHHHHHHHHhcCHhhcCCc--EEEEEECcCCccC--CCH
Confidence            445666777753111111   13578899999988743211       0111    1233  6899999999754  333


Q ss_pred             HHHHHHHH--hcC-CCCcEEEEEecCCCCHHHHHHhhh
Q 032030          110 AVMERDAL--RMR-DGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       110 ~~~~~~i~--~~n-p~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +++.+.++  ..+ ...+++++||++|.|++++|+++.
T Consensus       129 ~~i~~~~~~~~~~~~~~~~~~~SAk~g~gv~~~~~~l~  166 (168)
T cd04149         129 HEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLS  166 (168)
T ss_pred             HHHHHHcCCCccCCCcEEEEEeeCCCCCChHHHHHHHh
Confidence            45555543  112 234789999999999999999874

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

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

Probab=98.27  E-value=3.5e-06  Score=60.66  Aligned_cols=99  Identities=17%  Similarity=0.127  Sum_probs=66.0

Q ss_pred             CCCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc----------c-cCCCCcceeeEEEEecCCCCCchhhh
Q 032030           43 KADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP----------R-KGGPGITQADLLVINKTDLASAIGAD  108 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~----------~-~~~~qi~~ADivViNK~DL~~~~~~~  108 (148)
                      +..+.++++.|.-....+.   -..+|.+++|+|+.......          . ......+  -+++.||+|+...  ..
T Consensus        42 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p--iiiv~nK~D~~~~--~~  117 (158)
T cd00878          42 NVSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVDSSDRERIEEAKEELHKLLNEEELKGVP--LLIFANKQDLPGA--LS  117 (158)
T ss_pred             CEEEEEEECCCChhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCc--EEEEeeccCCccc--cC
Confidence            4678888888863211111   13568899999998763210          0 0112344  5888999999876  55


Q ss_pred             HHHHHHHHHhc---CCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          109 LAVMERDALRM---RDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       109 l~~~~~~i~~~---np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      .+.+.+.++..   ....+++++||++|.|++++++++..
T Consensus       118 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~~l~~  157 (158)
T cd00878         118 VSELIEKLGLEKILGRRWHIQPCSAVTGDGLDEGLDWLLQ  157 (158)
T ss_pred             HHHHHHhhChhhccCCcEEEEEeeCCCCCCHHHHHHHHhh
Confidence            55666665532   23458999999999999999998763

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

>cd01855 YqeH YqeH

Probab=98.26  E-value=4e-06  Score=63.04  Aligned_cols=78  Identities=15%  Similarity=0.084  Sum_probs=50.5

Q ss_pred             ccCceEEEEEeCCCCCC-cc-cc--CCCCcceeeEEEEecCCCCCchhhh-HHHHHHHH-----HhcC-CCCcEEEEEec
Q 032030           63 ELADYIIYIIDVSGGDK-IP-RK--GGPGITQADLLVINKTDLASAIGAD-LAVMERDA-----LRMR-DGGPFIFAQVG  131 (148)
Q Consensus        63 ~~~d~~i~vvDa~~~~~-~~-~~--~~~qi~~ADivViNK~DL~~~~~~~-l~~~~~~i-----~~~n-p~a~vi~tSa~  131 (148)
                      ..+|.++.|+|+...+. .. ..  .....+  -++|+||+|+.+.  .. .+.+..+.     +..+ +..+++++||+
T Consensus        33 ~~ad~il~VvD~~~~~~~~~~~l~~~~~~~~--~ilV~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~i~~vSA~  108 (190)
T cd01855          33 PKKALVVHVVDIFDFPGSLIPRLRLFGGNNP--VILVGNKIDLLPK--DKNLVRIKNWLRAKAAAGLGLKPKDVILISAK  108 (190)
T ss_pred             cCCcEEEEEEECccCCCccchhHHHhcCCCc--EEEEEEchhcCCC--CCCHHHHHHHHHHHHHhhcCCCcccEEEEECC
Confidence            45788999999976542 11 11  112233  5899999999865  32 22233322     2222 23479999999


Q ss_pred             CCCCHHHHHHhhh
Q 032030          132 WVIGIIFTLSITH  144 (148)
Q Consensus       132 ~g~gi~~l~~~~~  144 (148)
                      +|.|+++|++++.
T Consensus       109 ~~~gi~eL~~~l~  121 (190)
T cd01855         109 KGWGVEELINAIK  121 (190)
T ss_pred             CCCCHHHHHHHHH
Confidence            9999999998875

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.

>cd01856 YlqF YlqF

Probab=98.25  E-value=7.4e-06  Score=60.82  Aligned_cols=76  Identities=18%  Similarity=0.093  Sum_probs=50.7

Q ss_pred             cCceEEEEEeCCCCCCccc--c--CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHH
Q 032030           64 LADYIIYIIDVSGGDKIPR--K--GGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFT  139 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~--~--~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l  139 (148)
                      .+|.+++|+|+..+.....  .  .....+  .++|+||+|+.++  .......+.++..  ..+++.+||+++.|+++|
T Consensus        19 ~aD~il~v~D~~~~~~~~~~~i~~~~~~k~--~ilVlNK~Dl~~~--~~~~~~~~~~~~~--~~~vi~iSa~~~~gi~~L   92 (171)
T cd01856          19 LVDLVIEVRDARIPLSSRNPLLEKILGNKP--RIIVLNKADLADP--KKTKKWLKYFESK--GEKVLFVNAKSGKGVKKL   92 (171)
T ss_pred             hCCEEEEEeeccCccCcCChhhHhHhcCCC--EEEEEehhhcCCh--HHHHHHHHHHHhc--CCeEEEEECCCcccHHHH
Confidence            5688889999876532110  0  001222  6999999999866  5544443444432  357899999999999999


Q ss_pred             HHhhhh
Q 032030          140 LSITHY  145 (148)
Q Consensus       140 ~~~~~~  145 (148)
                      .+.+..
T Consensus        93 ~~~l~~   98 (171)
T cd01856          93 LKAAKK   98 (171)
T ss_pred             HHHHHH
Confidence            887653

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.

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=98.24  E-value=3.6e-06  Score=61.46  Aligned_cols=97  Identities=15%  Similarity=0.118  Sum_probs=58.4

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc-------ccCC----CCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP-------RKGG----PGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~-------~~~~----~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      ..+.+.++.|......+.   -..+|.+++|+|+.....+.       ....    .+.+  -+++.||+|+.+.  ...
T Consensus        44 ~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~p--iilv~NK~Dl~~~--~~~  119 (159)
T cd04150          44 ISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERIGEAREELQRMLNEDELRDAV--LLVFANKQDLPNA--MSA  119 (159)
T ss_pred             EEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhcHHhcCCC--EEEEEECCCCCCC--CCH
Confidence            445666777743211111   13578899999997643210       1111    1344  4899999999754  333


Q ss_pred             HHHHHHHH--hc-CCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          110 AVMERDAL--RM-RDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       110 ~~~~~~i~--~~-np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +++.+.+.  .. +....++++||++|.|++++|++++
T Consensus       120 ~~i~~~~~~~~~~~~~~~~~~~Sak~g~gv~~~~~~l~  157 (159)
T cd04150         120 AEVTDKLGLHSLRNRNWYIQATCATSGDGLYEGLDWLS  157 (159)
T ss_pred             HHHHHHhCccccCCCCEEEEEeeCCCCCCHHHHHHHHh
Confidence            34444442  11 2334678999999999999999874

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

>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2)

Probab=98.23  E-value=2.6e-06  Score=64.97  Aligned_cols=98  Identities=14%  Similarity=0.146  Sum_probs=61.1

Q ss_pred             CCEEEEecCCceee-eee--ccccCceEEEEEeCCCC-CCcc------ccCCCCcceeeEEEEecCCCCCchhhhHHHHH
Q 032030           44 ADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGG-DKIP------RKGGPGITQADLLVINKTDLASAIGADLAVME  113 (148)
Q Consensus        44 ~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~-~~~~------~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~  113 (148)
                      .-+.|+.|.|.... ...  .-..+|.++.|+|+..+ ...+      ......++ .-++|+||+|+.+.  .+.....
T Consensus        83 ~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~~~~~~~-~iiivvNK~Dl~~~--~~~~~~~  159 (203)
T cd01888          83 RHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAALEIMGLK-HIIIVQNKIDLVKE--EQALENY  159 (203)
T ss_pred             cEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHHHHcCCC-cEEEEEEchhccCH--HHHHHHH
Confidence            44789999995311 111  11346899999999864 1111      00001121 14779999999876  5444333


Q ss_pred             HHHHhc-----CCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          114 RDALRM-----RDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       114 ~~i~~~-----np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +.+++.     ....+++++||++|.|+++|++++.
T Consensus       160 ~~i~~~~~~~~~~~~~i~~vSA~~g~gi~~L~~~l~  195 (203)
T cd01888         160 EQIKKFVKGTIAENAPIIPISAQLKYNIDVLLEYIV  195 (203)
T ss_pred             HHHHHHHhccccCCCcEEEEeCCCCCCHHHHHHHHH
Confidence            333322     2357899999999999999998874

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

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=98.23  E-value=4.1e-06  Score=57.76  Aligned_cols=98  Identities=22%  Similarity=0.217  Sum_probs=66.2

Q ss_pred             CCCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc-----------ccCCCCcceeeEEEEecCCCCCchhhh
Q 032030           43 KADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP-----------RKGGPGITQADLLVINKTDLASAIGAD  108 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~-----------~~~~~qi~~ADivViNK~DL~~~~~~~  108 (148)
                      +.++.++++.|.......   .....|.+++++|+.......           .......+  -++++||+|+.+.  ..
T Consensus        44 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~--~ivv~nk~D~~~~--~~  119 (157)
T cd00882          44 KVKLQIWDTAGQERFRSLRRLYYRGADGIILVYDVTDRESFENVKEWLLLILINKEGENIP--IILVGNKIDLPEE--RV  119 (157)
T ss_pred             EEEEEEEecCChHHHHhHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhhccCCCc--EEEEEeccccccc--cc
Confidence            567889999996532111   124578899999998764211           11122344  6999999999877  44


Q ss_pred             HHHHH-HHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          109 LAVME-RDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       109 l~~~~-~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .+... .......+..+++++|++++.|++++++++.
T Consensus       120 ~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  156 (157)
T cd00882         120 VSEEELAEQLAKELGVPYFETSAKTGENVEELFEELA  156 (157)
T ss_pred             hHHHHHHHHHHhhcCCcEEEEecCCCCChHHHHHHHh
Confidence            43321 2233345678999999999999999999863

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

>cd01894 EngA1 EngA1 subfamily

Probab=98.22  E-value=7.5e-06  Score=58.25  Aligned_cols=94  Identities=21%  Similarity=0.191  Sum_probs=61.8

Q ss_pred             CCCEEEEecCCceeeee-----e------ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCch
Q 032030           43 KADLLLCESGGDNLAAN-----F------SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAI  105 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~-----~------~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~  105 (148)
                      +..+.++.|.|..-...     +      .-..+|.+++|+|+.++.....      ......+  -++|+||+|+.+. 
T Consensus        44 ~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~p--iiiv~nK~D~~~~-  120 (157)
T cd01894          44 GREFILIDTGGIEPDDEGISKEIREQAELAIEEADVILFVVDGREGLTPADEEIAKYLRKSKKP--VILVVNKVDNIKE-  120 (157)
T ss_pred             CeEEEEEECCCCCCchhHHHHHHHHHHHHHHHhCCEEEEEEeccccCCccHHHHHHHHHhcCCC--EEEEEECcccCCh-
Confidence            56788999999753111     1      1135788999999876532211      0011233  5999999999876 


Q ss_pred             hhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          106 GADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       106 ~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                       ...   .+.+... ...+++++|+++|.|++++++++.
T Consensus       121 -~~~---~~~~~~~-~~~~~~~~Sa~~~~gv~~l~~~l~  154 (157)
T cd01894         121 -EDE---AAEFYSL-GFGEPIPISAEHGRGIGDLLDAIL  154 (157)
T ss_pred             -HHH---HHHHHhc-CCCCeEEEecccCCCHHHHHHHHH
Confidence             443   2333333 234789999999999999999864

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.

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=98.21  E-value=1.5e-05  Score=62.89  Aligned_cols=75  Identities=16%  Similarity=0.110  Sum_probs=50.8

Q ss_pred             cCceEEEEEeCCCCCC-c---ccc----CCCCcceeeEEEEecCCCCCchhhhHH-HHHHHHHhcCCCCcEEEEEecCCC
Q 032030           64 LADYIIYIIDVSGGDK-I---PRK----GGPGITQADLLVINKTDLASAIGADLA-VMERDALRMRDGGPFIFAQVGWVI  134 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~-~---~~~----~~~qi~~ADivViNK~DL~~~~~~~l~-~~~~~i~~~np~a~vi~tSa~~g~  134 (148)
                      .+|.++.|.|+..... .   ...    ....++  -++|+||+||.+.  .+.. +..+.+++  .+.+++.+||++|.
T Consensus        36 n~D~viiV~d~~~p~~s~~~l~r~l~~~~~~~i~--~vIV~NK~DL~~~--~~~~~~~~~~~~~--~g~~v~~~SAktg~  109 (245)
T TIGR00157        36 NIDQIVIVSSAVLPELSLNQLDRFLVVAEAQNIE--PIIVLNKIDLLDD--EDMEKEQLDIYRN--IGYQVLMTSSKNQD  109 (245)
T ss_pred             cCCEEEEEEECCCCCCCHHHHHHHHHHHHHCCCC--EEEEEECcccCCC--HHHHHHHHHHHHH--CCCeEEEEecCCch
Confidence            4577899999876542 1   111    112344  4899999999875  4432 33344443  34689999999999


Q ss_pred             CHHHHHHhhh
Q 032030          135 GIIFTLSITH  144 (148)
Q Consensus       135 gi~~l~~~~~  144 (148)
                      |++++++.+.
T Consensus       110 gi~eLf~~l~  119 (245)
T TIGR00157       110 GLKELIEALQ  119 (245)
T ss_pred             hHHHHHhhhc
Confidence            9999998764

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=98.21  E-value=4.1e-06  Score=60.30  Aligned_cols=97  Identities=18%  Similarity=0.165  Sum_probs=59.9

Q ss_pred             CCEEEEecCCceee-eee--ccccCceEEEEEeCCCCCCcc-------ccCC----CCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDKIP-------RKGG----PGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~~~-------~~~~----~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      ..+.+.++.|.... ...  .-..+|.+++|+|+.+...+.       ....    ...+  -++|+||+|+.+.  ...
T Consensus        44 ~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~--~~~  119 (160)
T cd04156          44 LSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVDSSDEARLDESQKELKHILKNEHIKGVP--VVLLANKQDLPGA--LTA  119 (160)
T ss_pred             eEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHhchhhcCCC--EEEEEECcccccC--cCH
Confidence            55677777775321 100  013478899999997754211       0001    2344  7999999999754  333


Q ss_pred             HHHHHHHH--hcC--CCCcEEEEEecCCCCHHHHHHhhh
Q 032030          110 AVMERDAL--RMR--DGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       110 ~~~~~~i~--~~n--p~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +.+...++  +..  +..+++++||++|.|+++++++++
T Consensus       120 ~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~~i~  158 (160)
T cd04156         120 EEITRRFKLKKYCSDRDWYVQPCSAVTGEGLAEAFRKLA  158 (160)
T ss_pred             HHHHHHcCCcccCCCCcEEEEecccccCCChHHHHHHHh
Confidence            34443332  111  234789999999999999999874

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

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=98.20  E-value=3.3e-06  Score=72.44  Aligned_cols=97  Identities=14%  Similarity=0.169  Sum_probs=63.0

Q ss_pred             CEEEEecCCceee-eee--ccccCceEEEEEeCCCC-CCccc-cC-----CCCcceeeEEEEecCCCCCchhhhHHHHHH
Q 032030           45 DLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGG-DKIPR-KG-----GPGITQADLLVINKTDLASAIGADLAVMER  114 (148)
Q Consensus        45 D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~-~~~~~-~~-----~~qi~~ADivViNK~DL~~~~~~~l~~~~~  114 (148)
                      -+.||.+.|-... .+.  .-...|..+.|+|+.++ ...+. .+     .-.++ --++++||+|+++.  +++++..+
T Consensus       118 ~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~ehl~i~~~lgi~-~iIVvlNKiDlv~~--~~~~~~~~  194 (460)
T PTZ00327        118 HVSFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQTSEHLAAVEIMKLK-HIIILQNKIDLVKE--AQAQDQYE  194 (460)
T ss_pred             eEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhhHHHHHHHHHcCCC-cEEEEEecccccCH--HHHHHHHH
Confidence            4688999995311 111  11357999999999875 22111 00     01122 13789999999986  55544444


Q ss_pred             HHHhc-----CCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          115 DALRM-----RDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       115 ~i~~~-----np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .+++.     ....+++++||++|.|+++|++.+.
T Consensus       195 ei~~~l~~~~~~~~~iipVSA~~G~nI~~Ll~~L~  229 (460)
T PTZ00327        195 EIRNFVKGTIADNAPIIPISAQLKYNIDVVLEYIC  229 (460)
T ss_pred             HHHHHHHhhccCCCeEEEeeCCCCCCHHHHHHHHH
Confidence            44332     2568999999999999999999876

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=98.20  E-value=1.3e-05  Score=57.81  Aligned_cols=97  Identities=19%  Similarity=0.137  Sum_probs=68.9

Q ss_pred             CEEEEecCCceee-----eee--ccccCceEEEEEeCCCCCC-ccccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHH
Q 032030           45 DLLLCESGGDNLA-----ANF--SRELADYIIYIIDVSGGDK-IPRKGGPGITQADLLVINKTDLASAIGADLAVMERDA  116 (148)
Q Consensus        45 D~IliEtsG~~~~-----~~~--~~~~~d~~i~vvDa~~~~~-~~~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i  116 (148)
                      |.-.|.|.|--..     ..+  ....+|.++.|-.+.++.. ++-.+...+..-.|-|++|+||++.  ++++..++++
T Consensus        38 d~~~IDTPGEy~~~~~~Y~aL~tt~~dadvi~~v~~and~~s~f~p~f~~~~~k~vIgvVTK~DLaed--~dI~~~~~~L  115 (148)
T COG4917          38 DKGDIDTPGEYFEHPRWYHALITTLQDADVIIYVHAANDPESRFPPGFLDIGVKKVIGVVTKADLAED--ADISLVKRWL  115 (148)
T ss_pred             CccccCCchhhhhhhHHHHHHHHHhhccceeeeeecccCccccCCcccccccccceEEEEecccccch--HhHHHHHHHH
Confidence            5556778886321     001  1245677777777766543 2222222222227889999999988  9999999999


Q ss_pred             HhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          117 LRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       117 ~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ++.. ..+||.+|+....|+++|+++++
T Consensus       116 ~eaG-a~~IF~~s~~d~~gv~~l~~~L~  142 (148)
T COG4917         116 REAG-AEPIFETSAVDNQGVEELVDYLA  142 (148)
T ss_pred             HHcC-CcceEEEeccCcccHHHHHHHHH
Confidence            9876 56999999999999999999876

>PRK03003 GTP-binding protein Der; Reviewed

Probab=98.18  E-value=6.8e-06  Score=70.48  Aligned_cols=78  Identities=18%  Similarity=0.046  Sum_probs=53.7

Q ss_pred             cCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHh---cCCCCcEEEEEecCCC
Q 032030           64 LADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADLAVMERDALR---MRDGGPFIFAQVGWVI  134 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~---~np~a~vi~tSa~~g~  134 (148)
                      .+|.++.|+|+..+...+.      ......+  -++|+||+||.++  .....+.+.+++   ..+.+|++++||++|.
T Consensus       293 ~ad~vilV~Da~~~~s~~~~~~~~~~~~~~~p--iIiV~NK~Dl~~~--~~~~~~~~~i~~~l~~~~~~~~~~~SAk~g~  368 (472)
T PRK03003        293 AAEVAVVLIDASEPISEQDQRVLSMVIEAGRA--LVLAFNKWDLVDE--DRRYYLEREIDRELAQVPWAPRVNISAKTGR  368 (472)
T ss_pred             cCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCC--EEEEEECcccCCh--hHHHHHHHHHHHhcccCCCCCEEEEECCCCC
Confidence            5788999999987643211      1112233  6999999999875  444344444432   1246899999999999


Q ss_pred             CHHHHHHhhhh
Q 032030          135 GIIFTLSITHY  145 (148)
Q Consensus       135 gi~~l~~~~~~  145 (148)
                      |++++++.++-
T Consensus       369 gv~~lf~~i~~  379 (472)
T PRK03003        369 AVDKLVPALET  379 (472)
T ss_pred             CHHHHHHHHHH
Confidence            99999988753

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=98.17  E-value=8.5e-06  Score=72.18  Aligned_cols=80  Identities=13%  Similarity=0.034  Sum_probs=54.1

Q ss_pred             cCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHH----hcC-CCCcEEEEEecC
Q 032030           64 LADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADLAVMERDAL----RMR-DGGPFIFAQVGW  132 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~----~~n-p~a~vi~tSa~~  132 (148)
                      ..|..++|+|+.++..-+.      .....++. -++|+||+|++++  +.++.+.+.++    ..+ ...+++++||++
T Consensus        74 ~~D~~lLVVda~eg~~~qT~ehl~il~~lgi~~-iIVVlNKiDlv~~--~~~~~v~~ei~~~l~~~~~~~~~ii~VSA~t  150 (614)
T PRK10512         74 GIDHALLVVACDDGVMAQTREHLAILQLTGNPM-LTVALTKADRVDE--ARIAEVRRQVKAVLREYGFAEAKLFVTAATE  150 (614)
T ss_pred             cCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCe-EEEEEECCccCCH--HHHHHHHHHHHHHHHhcCCCCCcEEEEeCCC
Confidence            5788999999987643111      00011220 2689999999986  65554444443    322 357999999999


Q ss_pred             CCCHHHHHHhhhhh
Q 032030          133 VIGIIFTLSITHYI  146 (148)
Q Consensus       133 g~gi~~l~~~~~~~  146 (148)
                      |.|+++|++++.-+
T Consensus       151 G~gI~~L~~~L~~~  164 (614)
T PRK10512        151 GRGIDALREHLLQL  164 (614)
T ss_pred             CCCCHHHHHHHHHh
Confidence            99999999987643

>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily

Probab=98.16  E-value=5.8e-06  Score=59.10  Aligned_cols=98  Identities=14%  Similarity=0.110  Sum_probs=63.5

Q ss_pred             CCCEEEEecCCceeee----------eec-cccCceEEEEEeCCCCCCcccc----CCCCcceeeEEEEecCCCCCchhh
Q 032030           43 KADLLLCESGGDNLAA----------NFS-RELADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASAIGA  107 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~----------~~~-~~~~d~~i~vvDa~~~~~~~~~----~~~qi~~ADivViNK~DL~~~~~~  107 (148)
                      +.++.++.|.|.....          .+. ....|.++.|+|+...+.....    .....+  -++|+||+|+.+.  .
T Consensus        42 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~~~~~~~~~~~~~--~iiv~NK~Dl~~~--~  117 (158)
T cd01879          42 GKEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDLIVNVVDATNLERNLYLTLQLLELGLP--VVVALNMIDEAEK--R  117 (158)
T ss_pred             CeEEEEEECCCccccCCCChhHHHHHHHhcCCCCcEEEEEeeCCcchhHHHHHHHHHHcCCC--EEEEEehhhhccc--c
Confidence            4678999999974211          111 1367889999999875432111    111233  6999999999876  4


Q ss_pred             hHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          108 DLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       108 ~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ....-.+.+... .+.+++++||.+|.|++++++++.-
T Consensus       118 ~~~~~~~~~~~~-~~~~~~~iSa~~~~~~~~l~~~l~~  154 (158)
T cd01879         118 GIKIDLDKLSEL-LGVPVVPTSARKGEGIDELKDAIAE  154 (158)
T ss_pred             cchhhHHHHHHh-hCCCeEEEEccCCCCHHHHHHHHHH
Confidence            332222233222 2368999999999999999988754

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.

>PTZ00099 rab6; Provisional

Probab=98.15  E-value=5.1e-06  Score=62.29  Aligned_cols=98  Identities=16%  Similarity=0.079  Sum_probs=62.1

Q ss_pred             CCCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCc-------ccc---CCCCcceeeEEEEecCCCCCchhhhH
Q 032030           43 KADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKI-------PRK---GGPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~-------~~~---~~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      .+.+.|..|.|.--...+   .-..+|.+++|+|......+       ...   ....++  -++|.||+||.+.-....
T Consensus        28 ~v~l~iwDt~G~e~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~~~~~~p--iilVgNK~DL~~~~~v~~  105 (176)
T PTZ00099         28 PVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVI--IALVGNKTDLGDLRKVTY  105 (176)
T ss_pred             EEEEEEEECCChHHhhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCe--EEEEEECcccccccCCCH
Confidence            577888999996321111   11468999999998774321       111   111222  479999999965300122


Q ss_pred             HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          110 AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       110 ~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +......+..  ..+++++||++|.|++++|++++
T Consensus       106 ~e~~~~~~~~--~~~~~e~SAk~g~nV~~lf~~l~  138 (176)
T PTZ00099        106 EEGMQKAQEY--NTMFHETSAKAGHNIKVLFKKIA  138 (176)
T ss_pred             HHHHHHHHHc--CCEEEEEECCCCCCHHHHHHHHH
Confidence            3344444433  34689999999999999999876

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=98.14  E-value=7.6e-06  Score=60.49  Aligned_cols=98  Identities=17%  Similarity=0.110  Sum_probs=60.7

Q ss_pred             CCCEEEEecCCceee-eee--ccccCceEEEEEeCCCCCCccc-------cC-C---CCcceeeEEEEecCCCCCchhhh
Q 032030           43 KADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDKIPR-------KG-G---PGITQADLLVINKTDLASAIGAD  108 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~~~~-------~~-~---~qi~~ADivViNK~DL~~~~~~~  108 (148)
                      +..+.++++.|..-. ...  .-..+|.+++|+|+...+....       .. .   ...+  -++++||+|+...  ..
T Consensus        58 ~~~~~l~D~~G~~~~~~~~~~~~~~~d~vi~V~D~s~~~~~~~~~~~l~~~~~~~~~~~~p--~viv~NK~Dl~~~--~~  133 (174)
T cd04153          58 NIRFLMWDIGGQESLRSSWNTYYTNTDAVILVIDSTDRERLPLTKEELYKMLAHEDLRKAV--LLVLANKQDLKGA--MT  133 (174)
T ss_pred             CeEEEEEECCCCHHHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCC--EEEEEECCCCCCC--CC
Confidence            345677778875311 110  0135788999999986543210       00 1   1233  5999999999764  33


Q ss_pred             HHHHHHHHHh---cCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          109 LAVMERDALR---MRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       109 l~~~~~~i~~---~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .+.+.+.+..   .+...+++++||++|.|+++++++++
T Consensus       134 ~~~i~~~l~~~~~~~~~~~~~~~SA~~g~gi~e~~~~l~  172 (174)
T cd04153         134 PAEISESLGLTSIRDHTWHIQGCCALTGEGLPEGLDWIA  172 (174)
T ss_pred             HHHHHHHhCcccccCCceEEEecccCCCCCHHHHHHHHh
Confidence            3444444421   12334799999999999999999875

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.

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

Probab=98.13  E-value=3.1e-06  Score=63.36  Aligned_cols=98  Identities=14%  Similarity=0.074  Sum_probs=61.4

Q ss_pred             CCCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc-------ccCC----CCcceeeEEEEecCCCCCchhhh
Q 032030           43 KADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP-------RKGG----PGITQADLLVINKTDLASAIGAD  108 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~-------~~~~----~qi~~ADivViNK~DL~~~~~~~  108 (148)
                      ++.+.++++.|.......   .-..+|.+++|+|+...+.+.       ....    ...+  -++|+||+|+...  -.
T Consensus        60 ~~~~~~~D~~G~~~~~~~~~~~~~~ad~ii~vvD~~~~~~~~~~~~~l~~l~~~~~~~~~p--iliv~NK~Dl~~~--~~  135 (184)
T smart00178       60 NIKFTTFDLGGHQQARRLWKDYFPEVNGIVYLVDAYDKERFAESKRELDALLSDEELATVP--FLILGNKIDAPYA--AS  135 (184)
T ss_pred             CEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCcHHHHHHHHHHHHHHHcChhhcCCC--EEEEEeCccccCC--CC
Confidence            345567777775321111   113578899999997653211       0111    2333  7999999999654  33


Q ss_pred             HHHHHHHHHhc----------CCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          109 LAVMERDALRM----------RDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       109 l~~~~~~i~~~----------np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .+++++.+.-.          .+...++++||++|.|++++++|+.
T Consensus       136 ~~~i~~~l~l~~~~~~~~~~~~~~~~i~~~Sa~~~~g~~~~~~wl~  181 (184)
T smart00178      136 EDELRYALGLTNTTGSKGKVGVRPLEVFMCSVVRRMGYGEGFKWLS  181 (184)
T ss_pred             HHHHHHHcCCCcccccccccCCceeEEEEeecccCCChHHHHHHHH
Confidence            44555555211          1344699999999999999999984

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

>PRK04213 GTP-binding protein; Provisional

Probab=98.13  E-value=1.1e-05  Score=60.63  Aligned_cols=97  Identities=14%  Similarity=0.044  Sum_probs=57.7

Q ss_pred             CEEEEecCCceeee--------ee-------cc---ccCceEEEEEeCCCCCCcc-c---------------c-CCCCcc
Q 032030           45 DLLLCESGGDNLAA--------NF-------SR---ELADYIIYIIDVSGGDKIP-R---------------K-GGPGIT   89 (148)
Q Consensus        45 D~IliEtsG~~~~~--------~~-------~~---~~~d~~i~vvDa~~~~~~~-~---------------~-~~~qi~   89 (148)
                      ++.++.|.|.+...        .+       ..   ..++.++.|+|+....... .               . ....++
T Consensus        53 ~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~p  132 (201)
T PRK04213         53 DFILTDLPGFGFMSGVPKEVQEKIKDEIVRYIEDNADRILAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFLRELGIP  132 (201)
T ss_pred             ceEEEeCCccccccccCHHHHHHHHHHHHHHHHhhhhhheEEEEEEeCccccccccccccCCCcHHHHHHHHHHHHcCCC
Confidence            68899999963211        01       01   2346788999986542210 0               0 012344


Q ss_pred             eeeEEEEecCCCCCchhhhHHHHHHHHHhcCC----CCcEEEEEecCCCCHHHHHHhhh
Q 032030           90 QADLLVINKTDLASAIGADLAVMERDALRMRD----GGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus        90 ~ADivViNK~DL~~~~~~~l~~~~~~i~~~np----~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                        -++|+||+|+.+......+++.+.+....+    ..+++++||++| |++++++++.
T Consensus       133 --~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g-gi~~l~~~l~  188 (201)
T PRK04213        133 --PIVAVNKMDKIKNRDEVLDEIAERLGLYPPWRQWQDIIAPISAKKG-GIEELKEAIR  188 (201)
T ss_pred             --eEEEEECccccCcHHHHHHHHHHHhcCCccccccCCcEEEEecccC-CHHHHHHHHH
Confidence              499999999976511133334333321001    236899999999 9999999875

>cd01878 HflX HflX subfamily

Probab=98.12  E-value=7.4e-06  Score=61.87  Aligned_cols=93  Identities=22%  Similarity=0.193  Sum_probs=61.6

Q ss_pred             CCEEEEecCCcee--e----eeec-----cccCceEEEEEeCCCCCCccc------c---C-CCCcceeeEEEEecCCCC
Q 032030           44 ADLLLCESGGDNL--A----ANFS-----RELADYIIYIIDVSGGDKIPR------K---G-GPGITQADLLVINKTDLA  102 (148)
Q Consensus        44 ~D~IliEtsG~~~--~----~~~~-----~~~~d~~i~vvDa~~~~~~~~------~---~-~~qi~~ADivViNK~DL~  102 (148)
                      ..+.+++|.|..-  .    ..+.     -..+|.+++|+|+........      .   . ....+  -++|+||+|+.
T Consensus        89 ~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~~~--viiV~NK~Dl~  166 (204)
T cd01878          89 REVLLTDTVGFIRDLPHQLVEAFRSTLEEVAEADLLLHVVDASDPDYEEQIETVEKVLKELGAEDIP--MILVLNKIDLL  166 (204)
T ss_pred             ceEEEeCCCccccCCCHHHHHHHHHHHHHHhcCCeEEEEEECCCCChhhHHHHHHHHHHHcCcCCCC--EEEEEEccccC
Confidence            3788899999631  0    1110     124688999999976543211      0   0 01222  59999999998


Q ss_pred             CchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          103 SAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       103 ~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +.  ....   +..+  ....+++++||++|.|++++++++..
T Consensus       167 ~~--~~~~---~~~~--~~~~~~~~~Sa~~~~gi~~l~~~L~~  202 (204)
T cd01878         167 DD--EELE---ERLE--AGRPDAVFISAKTGEGLDELLEAIEE  202 (204)
T ss_pred             Ch--HHHH---HHhh--cCCCceEEEEcCCCCCHHHHHHHHHh
Confidence            76  5433   3333  34568999999999999999998865

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.

>cd00879 Sar1 Sar1 subfamily

Probab=98.11  E-value=1.2e-05  Score=59.89  Aligned_cols=77  Identities=14%  Similarity=0.065  Sum_probs=52.0

Q ss_pred             cCceEEEEEeCCCCCCcc-------ccC----CCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcC------------
Q 032030           64 LADYIIYIIDVSGGDKIP-------RKG----GPGITQADLLVINKTDLASAIGADLAVMERDALRMR------------  120 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~-------~~~----~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~n------------  120 (148)
                      .+|.+++++|+.+...+.       ...    ....+  -++++||+|+...  ...+.+++.++...            
T Consensus        86 ~ad~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~~p--vivv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (190)
T cd00879          86 EVDGIVFLVDAADPERFQESKEELDSLLSDEELANVP--FLILGNKIDLPGA--VSEEELRQALGLYGTTTGKGVSLKVS  161 (190)
T ss_pred             cCCEEEEEEECCcHHHHHHHHHHHHHHHcCccccCCC--EEEEEeCCCCCCC--cCHHHHHHHhCccccccccccccccc
Confidence            467889999987642210       000    11233  6899999999765  44556666664211            


Q ss_pred             --CCCcEEEEEecCCCCHHHHHHhhh
Q 032030          121 --DGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       121 --p~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                        ...+++++||++|.|++++|++++
T Consensus       162 ~~~~~~~~~~Sa~~~~gv~e~~~~l~  187 (190)
T cd00879         162 GIRPIEVFMCSVVKRQGYGEAFRWLS  187 (190)
T ss_pred             CceeEEEEEeEecCCCChHHHHHHHH
Confidence              124689999999999999999975

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.

>PRK09866 hypothetical protein; Provisional

Probab=98.11  E-value=1.5e-05  Score=70.83  Aligned_cols=100  Identities=13%  Similarity=0.062  Sum_probs=64.9

Q ss_pred             CCCEEEEecCCceeee-e-ec------cccCceEEEEEeCCCCCC-----ccc---cCCCCcceeeEEEEecCCCCCchh
Q 032030           43 KADLLLCESGGDNLAA-N-FS------RELADYIIYIIDVSGGDK-----IPR---KGGPGITQADLLVINKTDLASAIG  106 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~-~-~~------~~~~d~~i~vvDa~~~~~-----~~~---~~~~qi~~ADivViNK~DL~~~~~  106 (148)
                      ...+||+-|.|+--+. . +.      -..+|.+++|+|+..+..     +..   ....+.+  -++|+||+|+.+..+
T Consensus       229 ~~QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~~s~~DeeIlk~Lkk~~K~~P--VILVVNKIDl~dree  306 (741)
T PRK09866        229 PGQLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQLKSISDEEVREAILAVGQSVP--LYVLVNKFDQQDRNS  306 (741)
T ss_pred             cCCEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCCCChhHHHHHHHHHhcCCCCC--EEEEEEcccCCCccc
Confidence            4677888888874321 1 11      135799999999977422     111   1111124  689999999986411


Q ss_pred             hhHHHHHHHHH-----hcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          107 ADLAVMERDAL-----RMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       107 ~~l~~~~~~i~-----~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ...+.+.+.++     ...+..+|+++||++|.|+++|++.+.
T Consensus       307 ddkE~Lle~V~~~L~q~~i~f~eIfPVSAlkG~nid~LLdeI~  349 (741)
T PRK09866        307 DDADQVRALISGTLMKGCITPQQIFPVSSMWGYLANRARHELA  349 (741)
T ss_pred             chHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHH
Confidence            22444555443     233678999999999999999998775

>cd01863 Rab18 Rab18 subfamily

Probab=98.10  E-value=1.6e-05  Score=57.20  Aligned_cols=99  Identities=16%  Similarity=0.059  Sum_probs=61.9

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCccc---------cCCCCcceeeEEEEecCCCCCchhhhHHH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADLAV  111 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~~---------~~~~qi~~ADivViNK~DL~~~~~~~l~~  111 (148)
                      ..+.++++.|.--....   .-..+|.+++++|.........         .+...-...-++|+||+|+.... ...+.
T Consensus        49 ~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~~~~-~~~~~  127 (161)
T cd01863          49 VKLAIWDTAGQERFRTLTSSYYRGAQGVILVYDVTRRDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKENRE-VTREE  127 (161)
T ss_pred             EEEEEEECCCchhhhhhhHHHhCCCCEEEEEEECCCHHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCcccccc-cCHHH
Confidence            55677788885311111   0135788999999876532110         11111122269999999997430 23344


Q ss_pred             HHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          112 MERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       112 ~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ..+..+..  ..+++++||++|.|++++++.+..
T Consensus       128 ~~~~~~~~--~~~~~~~Sa~~~~gi~~~~~~~~~  159 (161)
T cd01863         128 GLKFARKH--NMLFIETSAKTRDGVQQAFEELVE  159 (161)
T ss_pred             HHHHHHHc--CCEEEEEecCCCCCHHHHHHHHHH
Confidence            55555543  578999999999999999998754

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

>PLN00223 ADP-ribosylation factor; Provisional

Probab=98.10  E-value=1.1e-05  Score=60.45  Aligned_cols=78  Identities=17%  Similarity=0.073  Sum_probs=52.0

Q ss_pred             cCceEEEEEeCCCCCCcc-------ccC-C---CCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcC--CC-CcEEEEE
Q 032030           64 LADYIIYIIDVSGGDKIP-------RKG-G---PGITQADLLVINKTDLASAIGADLAVMERDALRMR--DG-GPFIFAQ  129 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~-------~~~-~---~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~n--p~-a~vi~tS  129 (148)
                      .+|.+|+|+|+...+.+.       ... .   +..+  -+|+.||+|+...  ...+.+.+.+.-.+  +. -.++++|
T Consensus        84 ~a~~iI~V~D~s~~~s~~~~~~~l~~~l~~~~~~~~p--iilv~NK~Dl~~~--~~~~~~~~~l~l~~~~~~~~~~~~~S  159 (181)
T PLN00223         84 NTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAV--LLVFANKQDLPNA--MNAAEITDKLGLHSLRQRHWYIQSTC  159 (181)
T ss_pred             cCCEEEEEEeCCcHHHHHHHHHHHHHHhcCHhhCCCC--EEEEEECCCCCCC--CCHHHHHHHhCccccCCCceEEEecc
Confidence            468889999998654321       111 1   1233  5889999999876  55556666553211  21 2456899


Q ss_pred             ecCCCCHHHHHHhhhh
Q 032030          130 VGWVIGIIFTLSITHY  145 (148)
Q Consensus       130 a~~g~gi~~l~~~~~~  145 (148)
                      |++|+|++++++|++-
T Consensus       160 a~~g~gv~e~~~~l~~  175 (181)
T PLN00223        160 ATSGEGLYEGLDWLSN  175 (181)
T ss_pred             CCCCCCHHHHHHHHHH
Confidence            9999999999999863

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=98.07  E-value=1.9e-05  Score=65.18  Aligned_cols=99  Identities=18%  Similarity=0.239  Sum_probs=62.2

Q ss_pred             CCEEEEecCCceee--------eeecc--ccCceEEEEEeCCCCCCc------cc---cCCCC-cceeeEEEEecCCCCC
Q 032030           44 ADLLLCESGGDNLA--------ANFSR--ELADYIIYIIDVSGGDKI------PR---KGGPG-ITQADLLVINKTDLAS  103 (148)
Q Consensus        44 ~D~IliEtsG~~~~--------~~~~~--~~~d~~i~vvDa~~~~~~------~~---~~~~q-i~~ADivViNK~DL~~  103 (148)
                      ..++++.+.|+...        ..|..  +.++.+++|+|+...+..      ..   .+.+. ....-++|+||+|+.+
T Consensus       206 ~~~~i~D~PGli~ga~~~~gLg~~flrhie~a~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~  285 (335)
T PRK12299        206 KSFVIADIPGLIEGASEGAGLGHRFLKHIERTRLLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLD  285 (335)
T ss_pred             cEEEEEeCCCccCCCCccccHHHHHHHHhhhcCEEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCC
Confidence            45788889887321        11212  246788999998764311      00   11111 1233799999999987


Q ss_pred             chhhhHH--HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhhh
Q 032030          104 AIGADLA--VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHYI  146 (148)
Q Consensus       104 ~~~~~l~--~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~~  146 (148)
                      .  .+..  ......+.  ...+++++||+++.|++++++++.-.
T Consensus       286 ~--~~~~~~~~~~~~~~--~~~~i~~iSAktg~GI~eL~~~L~~~  326 (335)
T PRK12299        286 E--EEEREKRAALELAA--LGGPVFLISAVTGEGLDELLRALWEL  326 (335)
T ss_pred             c--hhHHHHHHHHHHHh--cCCCEEEEEcCCCCCHHHHHHHHHHH
Confidence            6  4332  23233332  23689999999999999999988643

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

Probab=98.07  E-value=1.2e-05  Score=59.58  Aligned_cols=97  Identities=16%  Similarity=0.108  Sum_probs=56.8

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc-------ccC-C---CCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP-------RKG-G---PGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~-------~~~-~---~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      ..+.+..+.|..-...++   -..+|.+++|+|+.....+.       ... .   ...+  -+||.||+||.+.  ...
T Consensus        57 ~~l~l~D~~G~~~~~~~~~~~~~~ad~ii~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~p--iilv~NK~Dl~~~--~~~  132 (175)
T smart00177       57 ISFTVWDVGGQDKIRPLWRHYYTNTQGLIFVVDSNDRDRIDEAREELHRMLNEDELRDAV--ILVFANKQDLPDA--MKA  132 (175)
T ss_pred             EEEEEEECCCChhhHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHhhCHhhcCCc--EEEEEeCcCcccC--CCH
Confidence            445566666642111111   13578899999987643211       010 1   1233  5899999999754  222


Q ss_pred             HHHHHHHH--h-cCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          110 AVMERDAL--R-MRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       110 ~~~~~~i~--~-~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +++.+.+.  . ......++++||++|.|++++++|+.
T Consensus       133 ~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~  170 (175)
T smart00177      133 AEITEKLGLHSIRDRNWYIQPTCATSGDGLYEGLTWLS  170 (175)
T ss_pred             HHHHHHhCccccCCCcEEEEEeeCCCCCCHHHHHHHHH
Confidence            33433332  1 11234577899999999999999874

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

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=98.07  E-value=9.1e-06  Score=60.69  Aligned_cols=100  Identities=17%  Similarity=0.169  Sum_probs=60.6

Q ss_pred             CCCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc----------cc-CCCCcceeeEEEEecCCCCCchhhh
Q 032030           43 KADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP----------RK-GGPGITQADLLVINKTDLASAIGAD  108 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~----------~~-~~~qi~~ADivViNK~DL~~~~~~~  108 (148)
                      +..+-+.++.|.-....++   -..+|.+++|+|+.......          .. ....++  -++|+||+|+...  ..
T Consensus        51 ~~~l~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p--~iiv~NK~D~~~~--~~  126 (183)
T cd04152          51 GITFHFWDVGGQEKLRPLWKSYTRCTDGIVFVVDSVDVERMEEAKTELHKITRFSENQGVP--VLVLANKQDLPNA--LS  126 (183)
T ss_pred             ceEEEEEECCCcHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhhhhcCCCc--EEEEEECcCcccc--CC
Confidence            3456667777742110111   13578899999987653210          00 112344  6999999999754  33


Q ss_pred             HHHHHHHHH--hcC--CCCcEEEEEecCCCCHHHHHHhhhhh
Q 032030          109 LAVMERDAL--RMR--DGGPFIFAQVGWVIGIIFTLSITHYI  146 (148)
Q Consensus       109 l~~~~~~i~--~~n--p~a~vi~tSa~~g~gi~~l~~~~~~~  146 (148)
                      .+.+.+.+.  +..  ...+++++||++|.|+++++++++-.
T Consensus       127 ~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~l~~~  168 (183)
T cd04152         127 VSEVEKLLALHELSASTPWHVQPACAIIGEGLQEGLEKLYEM  168 (183)
T ss_pred             HHHHHHHhCccccCCCCceEEEEeecccCCCHHHHHHHHHHH
Confidence            334443332  122  23568999999999999999998743

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.

>cd04128 Spg1 Spg1p

Probab=98.07  E-value=1.3e-05  Score=60.16  Aligned_cols=76  Identities=21%  Similarity=0.297  Sum_probs=48.5

Q ss_pred             cCceEEEEEeCCCCCCc-------cc---cCCCCcceeeEEEEecCCCCCchh-hh----HHHHHHHHHhcCCCCcEEEE
Q 032030           64 LADYIIYIIDVSGGDKI-------PR---KGGPGITQADLLVINKTDLASAIG-AD----LAVMERDALRMRDGGPFIFA  128 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~-------~~---~~~~qi~~ADivViNK~DL~~~~~-~~----l~~~~~~i~~~np~a~vi~t  128 (148)
                      .+|.+++++|..+....       ..   ..+...+   ++|.||+||..... .+    .+...+..+..+  ++++++
T Consensus        72 ~a~~iilv~D~t~~~s~~~i~~~~~~~~~~~~~~~p---ilVgnK~Dl~~~~~~~~~~~~~~~~~~~a~~~~--~~~~e~  146 (182)
T cd04128          72 DAVAILFMFDLTRKSTLNSIKEWYRQARGFNKTAIP---ILVGTKYDLFADLPPEEQEEITKQARKYAKAMK--APLIFC  146 (182)
T ss_pred             CCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCE---EEEEEchhccccccchhhhhhHHHHHHHHHHcC--CEEEEE
Confidence            56888999998765321       01   1122344   78999999963210 11    122233333333  789999


Q ss_pred             EecCCCCHHHHHHhhh
Q 032030          129 QVGWVIGIIFTLSITH  144 (148)
Q Consensus       129 Sa~~g~gi~~l~~~~~  144 (148)
                      ||++|.|++++|++++
T Consensus       147 SAk~g~~v~~lf~~l~  162 (182)
T cd04128         147 STSHSINVQKIFKIVL  162 (182)
T ss_pred             eCCCCCCHHHHHHHHH
Confidence            9999999999999875

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

>PRK00098 GTPase RsgA; Reviewed

Probab=98.07  E-value=3.1e-05  Score=62.74  Aligned_cols=75  Identities=16%  Similarity=0.119  Sum_probs=49.6

Q ss_pred             cCceEEEEEeCCCCCCcc----c----cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCC
Q 032030           64 LADYIIYIIDVSGGDKIP----R----KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIG  135 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~----~----~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~g  135 (148)
                      .+|.++.|+|+...+...    .    .....++  -++|+||+||.+.. ...+...+.+++.  +.+++++||++|.|
T Consensus        80 niD~vllV~d~~~p~~~~~~idr~L~~~~~~~ip--~iIVlNK~DL~~~~-~~~~~~~~~~~~~--g~~v~~vSA~~g~g  154 (298)
T PRK00098         80 NVDQAVLVFAAKEPDFSTDLLDRFLVLAEANGIK--PIIVLNKIDLLDDL-EEARELLALYRAI--GYDVLELSAKEGEG  154 (298)
T ss_pred             cCCEEEEEEECCCCCCCHHHHHHHHHHHHHCCCC--EEEEEEhHHcCCCH-HHHHHHHHHHHHC--CCeEEEEeCCCCcc
Confidence            357789999986543110    1    1122445  58999999997430 3333444445433  35899999999999


Q ss_pred             HHHHHHhh
Q 032030          136 IIFTLSIT  143 (148)
Q Consensus       136 i~~l~~~~  143 (148)
                      +++|++.+
T Consensus       155 i~~L~~~l  162 (298)
T PRK00098        155 LDELKPLL  162 (298)
T ss_pred             HHHHHhhc
Confidence            99999875

>cd04155 Arl3 Arl3 subfamily

Probab=98.05  E-value=1.5e-05  Score=58.20  Aligned_cols=77  Identities=19%  Similarity=0.161  Sum_probs=50.7

Q ss_pred             cCceEEEEEeCCCCCCcc-------cc----CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhc---CCCCcEEEEE
Q 032030           64 LADYIIYIIDVSGGDKIP-------RK----GGPGITQADLLVINKTDLASAIGADLAVMERDALRM---RDGGPFIFAQ  129 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~-------~~----~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~---np~a~vi~tS  129 (148)
                      .+|.+++++|+.....+.       ..    ....++  -++++||+|+.+.  ...+.+.+.++-.   +...+++++|
T Consensus        81 ~~~~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p--~ivv~nK~D~~~~--~~~~~i~~~l~~~~~~~~~~~~~~~S  156 (173)
T cd04155          81 NTDCLIYVIDSADKKRLEEAGAELVELLEEEKLAGVP--VLVFANKQDLATA--APAEEIAEALNLHDLRDRTWHIQACS  156 (173)
T ss_pred             CCCEEEEEEeCCCHHHHHHHHHHHHHHHhChhhcCCC--EEEEEECCCCccC--CCHHHHHHHcCCcccCCCeEEEEEeE
Confidence            467889999987632110       00    012344  6788999999876  5555555544311   1123578999


Q ss_pred             ecCCCCHHHHHHhhh
Q 032030          130 VGWVIGIIFTLSITH  144 (148)
Q Consensus       130 a~~g~gi~~l~~~~~  144 (148)
                      |++|+|++++++|++
T Consensus       157 a~~~~gi~~~~~~l~  171 (173)
T cd04155         157 AKTGEGLQEGMNWVC  171 (173)
T ss_pred             CCCCCCHHHHHHHHh
Confidence            999999999999974

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.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.05  E-value=2.1e-05  Score=63.01  Aligned_cols=76  Identities=18%  Similarity=0.071  Sum_probs=51.7

Q ss_pred             cCceEEEEEeCCCCCCcc--c--cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHH
Q 032030           64 LADYIIYIIDVSGGDKIP--R--KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFT  139 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~--~--~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l  139 (148)
                      .+|.++.|+|+..+....  .  ..-.+.+  -++|+||+||+++  .+.+...+.+++  ...+++++||+++.|+++|
T Consensus        21 ~aDvVl~V~Dar~p~~~~~~~i~~~l~~kp--~IiVlNK~DL~~~--~~~~~~~~~~~~--~~~~vi~iSa~~~~gi~~L   94 (276)
T TIGR03596        21 LVDVVIEVLDARIPLSSRNPMIDEIRGNKP--RLIVLNKADLADP--AVTKQWLKYFEE--KGIKALAINAKKGKGVKKI   94 (276)
T ss_pred             hCCEEEEEEeCCCCCCCCChhHHHHHCCCC--EEEEEEccccCCH--HHHHHHHHHHHH--cCCeEEEEECCCcccHHHH
Confidence            578889999987543211  0  0011223  5899999999876  555554445543  2357899999999999999


Q ss_pred             HHhhhh
Q 032030          140 LSITHY  145 (148)
Q Consensus       140 ~~~~~~  145 (148)
                      .+.+..
T Consensus        95 ~~~i~~  100 (276)
T TIGR03596        95 IKAAKK  100 (276)
T ss_pred             HHHHHH
Confidence            877653

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.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=98.05  E-value=1.5e-05  Score=71.54  Aligned_cols=100  Identities=17%  Similarity=0.031  Sum_probs=66.1

Q ss_pred             CCCEEEEecCCcee-------eeeec-------cccCceEEEEEeCCCCCCcccc--CC--CCcceeeEEEEecCCCCCc
Q 032030           43 KADLLLCESGGDNL-------AANFS-------RELADYIIYIIDVSGGDKIPRK--GG--PGITQADLLVINKTDLASA  104 (148)
Q Consensus        43 ~~D~IliEtsG~~~-------~~~~~-------~~~~d~~i~vvDa~~~~~~~~~--~~--~qi~~ADivViNK~DL~~~  104 (148)
                      +.++.++.|.|.--       ...+.       -..+|.+++|+|+..+...+..  ..  ......-++|+||+||.+.
T Consensus       497 ~~~~~liDTaG~~~~~~~~~~~e~~~~~r~~~~i~~advvilViDat~~~s~~~~~i~~~~~~~~~piIiV~NK~DL~~~  576 (712)
T PRK09518        497 GEDWLFIDTAGIKRRQHKLTGAEYYSSLRTQAAIERSELALFLFDASQPISEQDLKVMSMAVDAGRALVLVFNKWDLMDE  576 (712)
T ss_pred             CCEEEEEECCCcccCcccchhHHHHHHHHHHHHhhcCCEEEEEEECCCCCCHHHHHHHHHHHHcCCCEEEEEEchhcCCh
Confidence            44677889999631       01110       0246889999999877432110  00  0011237999999999876


Q ss_pred             hhhhHHHHHHHHHhc---CCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          105 IGADLAVMERDALRM---RDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       105 ~~~~l~~~~~~i~~~---np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                        ...+.+.+.++..   .+.++++++||++|.|++++++.+.
T Consensus       577 --~~~~~~~~~~~~~l~~~~~~~ii~iSAktg~gv~~L~~~i~  617 (712)
T PRK09518        577 --FRRQRLERLWKTEFDRVTWARRVNLSAKTGWHTNRLAPAMQ  617 (712)
T ss_pred             --hHHHHHHHHHHHhccCCCCCCEEEEECCCCCCHHHHHHHHH
Confidence              5555566555533   3578999999999999999998764

>cd04120 Rab12 Rab12 subfamily

Probab=98.03  E-value=1.7e-05  Score=60.85  Aligned_cols=77  Identities=19%  Similarity=0.081  Sum_probs=51.9

Q ss_pred             cCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhhH--HHHHHHHHhcCCCCcEEEEEec
Q 032030           64 LADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGADL--AVMERDALRMRDGGPFIFAQVG  131 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~l--~~~~~~i~~~np~a~vi~tSa~  131 (148)
                      .+|.+++|.|......+.          ......++  -++|.||+||.+.  .++  +...+..++ +.+.+++.|||+
T Consensus        72 ~ad~iIlVfDvtd~~Sf~~l~~w~~~i~~~~~~~~p--iilVgNK~DL~~~--~~v~~~~~~~~a~~-~~~~~~~etSAk  146 (202)
T cd04120          72 SAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAE--LLLVGNKLDCETD--REISRQQGEKFAQQ-ITGMRFCEASAK  146 (202)
T ss_pred             CCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCc--EEEEEECcccccc--cccCHHHHHHHHHh-cCCCEEEEecCC
Confidence            578889999987653211          01122344  5899999999754  332  233333333 234689999999


Q ss_pred             CCCCHHHHHHhhhh
Q 032030          132 WVIGIIFTLSITHY  145 (148)
Q Consensus       132 ~g~gi~~l~~~~~~  145 (148)
                      +|.|++++|++++.
T Consensus       147 tg~gV~e~F~~l~~  160 (202)
T cd04120         147 DNFNVDEIFLKLVD  160 (202)
T ss_pred             CCCCHHHHHHHHHH
Confidence            99999999998874

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

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

Probab=98.02  E-value=1.7e-05  Score=58.25  Aligned_cols=98  Identities=11%  Similarity=-0.026  Sum_probs=61.2

Q ss_pred             CCCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCccc---------cCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           43 KADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~~---------~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      .+.+.+.+|.|.-....+.   -..+|.+|+|+|.........         .....++  -++|.||+|+...  ....
T Consensus        48 ~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~p--iiiv~nK~Dl~~~--~~~~  123 (166)
T cd00877          48 KIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIMFDVTSRVTYKNVPNWHRDLVRVCGNIP--IVLCGNKVDIKDR--KVKA  123 (166)
T ss_pred             EEEEEEEECCCChhhccccHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCc--EEEEEEchhcccc--cCCH
Confidence            3556677777753211111   134788899999876543211         0112344  5889999999744  3222


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHYI  146 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~~  146 (148)
                      +..+..+  ....+++++||++|.|++++|++++..
T Consensus       124 ~~~~~~~--~~~~~~~e~Sa~~~~~v~~~f~~l~~~  157 (166)
T cd00877         124 KQITFHR--KKNLQYYEISAKSNYNFEKPFLWLARK  157 (166)
T ss_pred             HHHHHHH--HcCCEEEEEeCCCCCChHHHHHHHHHH
Confidence            2223333  234689999999999999999998743

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

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=98.01  E-value=2.8e-05  Score=68.47  Aligned_cols=98  Identities=15%  Similarity=0.071  Sum_probs=60.7

Q ss_pred             CCEEEEecCCceee-eee--ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhHHHHH-
Q 032030           44 ADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADLAVME-  113 (148)
Q Consensus        44 ~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~-  113 (148)
                      ..+-++.+.|---. ...  .-..+|..++|+|+.++...+.      .....++. -++|+||+|++++  ..++.+. 
T Consensus        50 ~~v~~iDtPGhe~f~~~~~~g~~~aD~aILVVDa~~G~~~qT~ehl~il~~lgi~~-iIVVlNK~Dlv~~--~~~~~~~~  126 (581)
T TIGR00475        50 YRLGFIDVPGHEKFISNAIAGGGGIDAALLVVDADEGVMTQTGEHLAVLDLLGIPH-TIVVITKADRVNE--EEIKRTEM  126 (581)
T ss_pred             EEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCe-EEEEEECCCCCCH--HHHHHHHH
Confidence            34567777774210 000  1135789999999988642110      00011221 4899999999987  6554433 


Q ss_pred             ---HHHHhc--CCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          114 ---RDALRM--RDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       114 ---~~i~~~--np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                         +.++..  .+..+++++||++|.|++++++++.
T Consensus       127 ei~~~l~~~~~~~~~~ii~vSA~tG~GI~eL~~~L~  162 (581)
T TIGR00475       127 FMKQILNSYIFLKNAKIFKTSAKTGQGIGELKKELK  162 (581)
T ss_pred             HHHHHHHHhCCCCCCcEEEEeCCCCCCchhHHHHHH
Confidence               333332  2368999999999999999987764

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.

>cd00157 Rho Rho (Ras homology) family

Probab=98.01  E-value=2.1e-05  Score=56.98  Aligned_cols=96  Identities=16%  Similarity=0.121  Sum_probs=60.9

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhhH-
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGADL-  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~l-  109 (148)
                      +.+.++++.|.-....+.   -..+|.+++++|+.+.....          .....+.+  -++|+||+|+.+.  ... 
T Consensus        48 ~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p--~ivv~nK~Dl~~~--~~~~  123 (171)
T cd00157          48 VNLGLWDTAGQEEYDRLRPLSYPNTDVFLICFSVDSPSSFENVKTKWIPEIRHYCPNVP--IILVGTKIDLRDD--ENTL  123 (171)
T ss_pred             EEEEEEeCCCcccccccchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCC--EEEEEccHHhhhc--hhhh
Confidence            457778888854221111   13478899999987643210          01122444  6999999999876  422 


Q ss_pred             ------------HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          110 ------------AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       110 ------------~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                                  +...+..+.. ...+++.+||++|.|++++++++.
T Consensus       124 ~~~~~~~~~v~~~~~~~~~~~~-~~~~~~~~Sa~~~~gi~~l~~~i~  169 (171)
T cd00157         124 KKLEKGKEPITPEEGEKLAKEI-GAIGYMECSALTQEGVKEVFEEAI  169 (171)
T ss_pred             hhcccCCCccCHHHHHHHHHHh-CCeEEEEeecCCCCCHHHHHHHHh
Confidence                        2233333333 334899999999999999998875

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

>cd04124 RabL2 RabL2 subfamily

Probab=98.01  E-value=2.6e-05  Score=56.76  Aligned_cols=95  Identities=15%  Similarity=0.111  Sum_probs=59.2

Q ss_pred             CCCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCc---cc------cCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           43 KADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKI---PR------KGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~---~~------~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      .+.+-+.+|+|.-....+.   -..+|.+++|+|+......   ..      ...+.++  -++|+||+|+...  . .+
T Consensus        48 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~p--~ivv~nK~Dl~~~--~-~~  122 (161)
T cd04124          48 TILVDFWDTAGQERFQTMHASYYHKAHACILVFDVTRKITYKNLSKWYEELREYRPEIP--CIVVANKIDLDPS--V-TQ  122 (161)
T ss_pred             EEEEEEEeCCCchhhhhhhHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCc--EEEEEECccCchh--H-HH
Confidence            3455677777753211111   1356889999998765321   10      1112344  6899999999543  2 22


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +..+..+..  ..+++++||++|.|++++++.++
T Consensus       123 ~~~~~~~~~--~~~~~~~Sa~~~~gv~~l~~~l~  154 (161)
T cd04124         123 KKFNFAEKH--NLPLYYVSAADGTNVVKLFQDAI  154 (161)
T ss_pred             HHHHHHHHc--CCeEEEEeCCCCCCHHHHHHHHH
Confidence            333333322  46899999999999999999876

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

>cd04113 Rab4 Rab4 subfamily

Probab=98.00  E-value=2.2e-05  Score=56.58  Aligned_cols=98  Identities=16%  Similarity=0.079  Sum_probs=62.0

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      +.+.+.++.|.......   .-..+|.++.++|+.+.....          ....+.++  -+++.||+|+.+...-..+
T Consensus        49 ~~l~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~--iivv~nK~D~~~~~~~~~~  126 (161)
T cd04113          49 VKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITNRTSFEALPTWLSDARALASPNIV--VILVGNKSDLADQREVTFL  126 (161)
T ss_pred             EEEEEEECcchHHHHHhHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCe--EEEEEEchhcchhccCCHH
Confidence            45566777774211000   113568899999998753311          11123444  6999999999764111223


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ......+..+  .+++.+||++|.|++++|++++-
T Consensus       127 ~~~~~~~~~~--~~~~~~Sa~~~~~i~~~~~~~~~  159 (161)
T cd04113         127 EASRFAQENG--LLFLETSALTGENVEEAFLKCAR  159 (161)
T ss_pred             HHHHHHHHcC--CEEEEEECCCCCCHHHHHHHHHH
Confidence            4555555443  78999999999999999998763

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

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=98.00  E-value=1.4e-05  Score=58.07  Aligned_cols=75  Identities=23%  Similarity=0.197  Sum_probs=51.0

Q ss_pred             cCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhhH--HHHHHHHHhcCCCCcEEEEEec
Q 032030           64 LADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGADL--AVMERDALRMRDGGPFIFAQVG  131 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~l--~~~~~~i~~~np~a~vi~tSa~  131 (148)
                      .+|.+++++|+...+...          ....+.++  -+++.||+|+...  ..+  +......+.  .+.+++++||+
T Consensus        74 ~~~~ii~v~d~~~~~s~~~l~~~~~~~~~~~~~~~~--~iiv~nK~Dl~~~--~~~~~~~~~~~~~~--~~~~~~~~Sa~  147 (166)
T cd01869          74 GAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVN--KLLVGNKCDLTDK--RVVDYSEAQEFADE--LGIPFLETSAK  147 (166)
T ss_pred             cCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCc--EEEEEEChhcccc--cCCCHHHHHHHHHH--cCCeEEEEECC
Confidence            478899999987653211          00112344  6899999999754  322  334444443  34689999999


Q ss_pred             CCCCHHHHHHhhh
Q 032030          132 WVIGIIFTLSITH  144 (148)
Q Consensus       132 ~g~gi~~l~~~~~  144 (148)
                      +|.|+++++++++
T Consensus       148 ~~~~v~~~~~~i~  160 (166)
T cd01869         148 NATNVEQAFMTMA  160 (166)
T ss_pred             CCcCHHHHHHHHH
Confidence            9999999998875

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

>cd01865 Rab3 Rab3 subfamily

Probab=97.99  E-value=2.9e-05  Score=56.53  Aligned_cols=80  Identities=16%  Similarity=0.019  Sum_probs=51.6

Q ss_pred             cCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      .+|.+++++|........          .......+  -++|.||+|+.+.-....+...+..+..+  .+++++||++|
T Consensus        73 ~~~~~l~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p--iivv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~  148 (165)
T cd01865          73 GAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQ--VILVGNKCDMEDERVVSSERGRQLADQLG--FEFFEASAKEN  148 (165)
T ss_pred             CCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCC--EEEEEECcccCcccccCHHHHHHHHHHcC--CEEEEEECCCC
Confidence            567789999987543211          01112333  59999999997641011233444444332  47999999999


Q ss_pred             CCHHHHHHhhhhhc
Q 032030          134 IGIIFTLSITHYIV  147 (148)
Q Consensus       134 ~gi~~l~~~~~~~~  147 (148)
                      .|+++++++++..+
T Consensus       149 ~gv~~l~~~l~~~~  162 (165)
T cd01865         149 INVKQVFERLVDII  162 (165)
T ss_pred             CCHHHHHHHHHHHH
Confidence            99999999987653

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

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=97.99  E-value=3.7e-05  Score=64.84  Aligned_cols=98  Identities=17%  Similarity=0.126  Sum_probs=61.1

Q ss_pred             CCEEEEecCCceee-eee--ccccCceEEEEEeCCCCC-Cccc-c-C----CCCcceeeEEEEecCCCCCchhhhH----
Q 032030           44 ADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGD-KIPR-K-G----GPGITQADLLVINKTDLASAIGADL----  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~-~~~~-~-~----~~qi~~ADivViNK~DL~~~~~~~l----  109 (148)
                      .-+.++.+.|--.. ..+  ....+|..++|+|+.++. .-+. . .    ...++ --++++||+|+.++  ...    
T Consensus        80 ~~i~liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~~l~~~gi~-~iIVvvNK~Dl~~~--~~~~~~~  156 (406)
T TIGR03680        80 RRVSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTKEHLMALEIIGIK-NIVIVQNKIDLVSK--EKALENY  156 (406)
T ss_pred             cEEEEEECCCHHHHHHHHHHHHHHCCEEEEEEECCCCccccchHHHHHHHHHcCCC-eEEEEEEccccCCH--HHHHHHH
Confidence            45678888884211 111  113568999999998764 1110 0 0    00111 13788999999876  443    


Q ss_pred             HHHHHHHHhc-CCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          110 AVMERDALRM-RDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       110 ~~~~~~i~~~-np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +++.+.++.. ....+++++||++|.|+++|++++.
T Consensus       157 ~~i~~~l~~~~~~~~~ii~vSA~~g~gi~~L~e~L~  192 (406)
T TIGR03680       157 EEIKEFVKGTVAENAPIIPVSALHNANIDALLEAIE  192 (406)
T ss_pred             HHHHhhhhhcccCCCeEEEEECCCCCChHHHHHHHH
Confidence            3344444332 2356899999999999999999875

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>cd04122 Rab14 Rab14 subfamily

Probab=97.99  E-value=1.6e-05  Score=57.87  Aligned_cols=98  Identities=14%  Similarity=0.052  Sum_probs=59.6

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc---c-------cCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP---R-------KGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~---~-------~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      +.+-+.+++|..-....   .-..+|.+++|+|........   .       ...+..+  -++|.||+|+.++-....+
T Consensus        51 ~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~--iiiv~nK~Dl~~~~~~~~~  128 (166)
T cd04122          51 IKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTV--IFLIGNKADLEAQRDVTYE  128 (166)
T ss_pred             EEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCe--EEEEEECcccccccCcCHH
Confidence            34556666664211000   013568889999987653210   0       1122333  5899999999765111223


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ...+..+..  ..+++++||++|.|++++|..++-
T Consensus       129 ~~~~~~~~~--~~~~~e~Sa~~~~~i~e~f~~l~~  161 (166)
T cd04122         129 EAKQFADEN--GLLFLECSAKTGENVEDAFLETAK  161 (166)
T ss_pred             HHHHHHHHc--CCEEEEEECCCCCCHHHHHHHHHH
Confidence            455555533  468999999999999999988763

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

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=97.99  E-value=1.4e-05  Score=57.65  Aligned_cols=95  Identities=22%  Similarity=0.247  Sum_probs=58.2

Q ss_pred             CCCEEEEecCCceee----eeeccccCceEEEEEeCCCCCCcc------c---cCCCCcceeeEEEEecCCCCCchhhhH
Q 032030           43 KADLLLCESGGDNLA----ANFSRELADYIIYIIDVSGGDKIP------R---KGGPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        43 ~~D~IliEtsG~~~~----~~~~~~~~d~~i~vvDa~~~~~~~------~---~~~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      ...+.+..|+|.-..    ..+. ..+|.+++|+|..+.....      .   ......+  -++|+||+|+.+.  .++
T Consensus        51 ~~~l~i~Dt~G~~~~~~~~~~~~-~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~p--~ilv~nK~Dl~~~--~~~  125 (164)
T cd04101          51 TVELFIFDSAGQELYSDMVSNYW-ESPSVFILVYDVSNKASFENCSRWVNKVRTASKHMP--GVLVGNKMDLADK--AEV  125 (164)
T ss_pred             EEEEEEEECCCHHHHHHHHHHHh-CCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCC--EEEEEECcccccc--cCC
Confidence            356667777774211    1111 3578899999987653211      0   0111233  6999999999765  433


Q ss_pred             HH--HHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          110 AV--MERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       110 ~~--~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ..  .....+.  .+.+++++||++|.|++++++.++
T Consensus       126 ~~~~~~~~~~~--~~~~~~~~Sa~~~~gi~~l~~~l~  160 (164)
T cd04101         126 TDAQAQAFAQA--NQLKFFKTSALRGVGYEEPFESLA  160 (164)
T ss_pred             CHHHHHHHHHH--cCCeEEEEeCCCCCChHHHHHHHH
Confidence            22  2222222  236789999999999999998764

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.

>cd04176 Rap2 Rap2 subgroup

Probab=97.98  E-value=7.6e-06  Score=59.19  Aligned_cols=96  Identities=19%  Similarity=0.110  Sum_probs=57.1

Q ss_pred             EEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc----------cc-CCCCcceeeEEEEecCCCCCchhhhHHH
Q 032030           46 LLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP----------RK-GGPGITQADLLVINKTDLASAIGADLAV  111 (148)
Q Consensus        46 ~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~----------~~-~~~qi~~ADivViNK~DL~~~~~~~l~~  111 (148)
                      +-+.+|+|.--.....   -..+|.++++.|......+.          .. ....++  -++|.||+|+.+......+.
T Consensus        51 l~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p--iviv~nK~Dl~~~~~~~~~~  128 (163)
T cd04176          51 LEILDTAGTEQFASMRDLYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKGYEKVP--IILVGNKVDLESEREVSSAE  128 (163)
T ss_pred             EEEEECCCcccccchHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC--EEEEEECccchhcCccCHHH
Confidence            4456777742111111   13568888889987653211          00 012345  68999999997541111222


Q ss_pred             HHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          112 MERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       112 ~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      .....+..  +.+++++||++|.|+++++.+++-
T Consensus       129 ~~~~~~~~--~~~~~~~Sa~~~~~v~~l~~~l~~  160 (163)
T cd04176         129 GRALAEEW--GCPFMETSAKSKTMVNELFAEIVR  160 (163)
T ss_pred             HHHHHHHh--CCEEEEecCCCCCCHHHHHHHHHH
Confidence            33333332  368999999999999999998763

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

>cd01860 Rab5_related Rab5-related subfamily

Probab=97.97  E-value=3.2e-05  Score=55.66  Aligned_cols=99  Identities=15%  Similarity=0.069  Sum_probs=61.1

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCc---cc-------cCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKI---PR-------KGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~---~~-------~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      ..+.++++.|-.-...+.   -..+|.+++++|+.....+   ..       ...+.++  -++++||+|+.+......+
T Consensus        50 ~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~--iivv~nK~D~~~~~~~~~~  127 (163)
T cd01860          50 VKFEIWDTAGQERYRSLAPMYYRGAAAAIVVYDITSEESFEKAKSWVKELQRNASPNII--IALVGNKADLESKRQVSTE  127 (163)
T ss_pred             EEEEEEeCCchHHHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCe--EEEEEECccccccCcCCHH
Confidence            345566777742110011   1246888999998765432   11       0112233  4789999999853112344


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHYI  146 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~~  146 (148)
                      ...+..+..+  .+++++||++|.|++++++++...
T Consensus       128 ~~~~~~~~~~--~~~~~~Sa~~~~~v~~l~~~l~~~  161 (163)
T cd01860         128 EAQEYADENG--LLFFETSAKTGENVNELFTEIAKK  161 (163)
T ss_pred             HHHHHHHHcC--CEEEEEECCCCCCHHHHHHHHHHH
Confidence            5555555544  689999999999999999998653

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

>cd04142 RRP22 RRP22 subfamily

Probab=97.97  E-value=1.9e-05  Score=60.16  Aligned_cols=98  Identities=14%  Similarity=0.058  Sum_probs=61.1

Q ss_pred             CCEEEEecCCcee----e-ee-----e-ccccCceEEEEEeCCCCCCcc----------ccC---CCCcceeeEEEEecC
Q 032030           44 ADLLLCESGGDNL----A-AN-----F-SRELADYIIYIIDVSGGDKIP----------RKG---GPGITQADLLVINKT   99 (148)
Q Consensus        44 ~D~IliEtsG~~~----~-~~-----~-~~~~~d~~i~vvDa~~~~~~~----------~~~---~~qi~~ADivViNK~   99 (148)
                      +.+.+++|.|..-    . ..     + .-..+|.+++|+|+...+.+.          ...   ...++  -++|.||+
T Consensus        49 ~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~~~~ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~p--iiivgNK~  126 (198)
T cd04142          49 YDLHILDVPNMQRYPGTAGQEWMDPRFRGLRNSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPP--IVVVGNKR  126 (198)
T ss_pred             EEEEEEeCCCcccCCccchhHHHHHHHhhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCC--EEEEEECc
Confidence            6677899988531    0 00     0 013578999999998764211          001   22344  69999999


Q ss_pred             CCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          100 DLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       100 DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      |+...-....+.+.+..++ ..+.+++++||++|.|++++|+.++
T Consensus       127 Dl~~~~~~~~~~~~~~~~~-~~~~~~~e~Sak~g~~v~~lf~~i~  170 (198)
T cd04142         127 DQQRHRFAPRHVLSVLVRK-SWKCGYLECSAKYNWHILLLFKELL  170 (198)
T ss_pred             cccccccccHHHHHHHHHH-hcCCcEEEecCCCCCCHHHHHHHHH
Confidence            9965300111223332222 2357899999999999999998876

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.

>cd04110 Rab35 Rab35 subfamily

Probab=97.96  E-value=3.1e-05  Score=58.64  Aligned_cols=78  Identities=15%  Similarity=0.057  Sum_probs=51.9

Q ss_pred             cCceEEEEEeCCCCCCccc---------cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCC
Q 032030           64 LADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVI  134 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~---------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~  134 (148)
                      .++.+++|+|+.+...+..         ...+.++  -++|+||+|+.+......+...+..+..+  .+++++||++|.
T Consensus        78 ~a~~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~p--iivVgNK~Dl~~~~~~~~~~~~~~~~~~~--~~~~e~Sa~~~~  153 (199)
T cd04110          78 GTHGVIVVYDVTNGESFVNVKRWLQEIEQNCDDVC--KVLVGNKNDDPERKVVETEDAYKFAGQMG--ISLFETSAKENI  153 (199)
T ss_pred             CCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCC--EEEEEECcccccccccCHHHHHHHHHHcC--CEEEEEECCCCc
Confidence            4677899999876532210         0112233  58999999997651112234444454433  689999999999


Q ss_pred             CHHHHHHhhhh
Q 032030          135 GIIFTLSITHY  145 (148)
Q Consensus       135 gi~~l~~~~~~  145 (148)
                      |++++|+++..
T Consensus       154 gi~~lf~~l~~  164 (199)
T cd04110         154 NVEEMFNCITE  164 (199)
T ss_pred             CHHHHHHHHHH
Confidence            99999998764

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

>cd04123 Rab21 Rab21 subfamily

Probab=97.96  E-value=3.5e-05  Score=55.02  Aligned_cols=97  Identities=21%  Similarity=0.171  Sum_probs=60.6

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      ..+.+.++.|.-......   -..+|.+++|+|..+.+...          ......+  .-++|+||+|+.+......+
T Consensus        49 ~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~--piiiv~nK~D~~~~~~~~~~  126 (162)
T cd04123          49 IDLAIWDTAGQERYHALGPIYYRDADGAILVYDITDADSFQKVKKWIKELKQMRGNNI--SLVIVGNKIDLERQRVVSKS  126 (162)
T ss_pred             EEEEEEECCchHHHHHhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCC--eEEEEEECcccccccCCCHH
Confidence            456677777742111111   13578889999987664211          1111233  37899999999864111223


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .+.+..+..  +.+++++|+++|.|++++++++.
T Consensus       127 ~~~~~~~~~--~~~~~~~s~~~~~gi~~~~~~l~  158 (162)
T cd04123         127 EAEEYAKSV--GAKHFETSAKTGKGIEELFLSLA  158 (162)
T ss_pred             HHHHHHHHc--CCEEEEEeCCCCCCHHHHHHHHH
Confidence            455555543  36789999999999999999864

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

>cd04159 Arl10_like Arl10-like subfamily

Probab=97.95  E-value=1.9e-05  Score=55.81  Aligned_cols=77  Identities=17%  Similarity=0.106  Sum_probs=51.1

Q ss_pred             cCceEEEEEeCCCCCCcc-------ccC----CCCcceeeEEEEecCCCCCchhhhHHHHHHHHH--hc-CCCCcEEEEE
Q 032030           64 LADYIIYIIDVSGGDKIP-------RKG----GPGITQADLLVINKTDLASAIGADLAVMERDAL--RM-RDGGPFIFAQ  129 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~-------~~~----~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~--~~-np~a~vi~tS  129 (148)
                      .+|.+++++|+.......       ...    ...++  -++|+||.|+.+.  ...+.+.+.+.  .. ....+++++|
T Consensus        67 ~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p--~iiv~nK~D~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~S  142 (159)
T cd04159          67 GVNAIVYVVDAADRTALEAAKNELHDLLEKPSLEGIP--LLVLGNKNDLPGA--LSVDELIEQMNLKSITDREVSCYSIS  142 (159)
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhcCCC--EEEEEeCccccCC--cCHHHHHHHhCcccccCCceEEEEEE
Confidence            568889999987643211       000    12334  4789999999876  54444444432  11 2335789999


Q ss_pred             ecCCCCHHHHHHhhh
Q 032030          130 VGWVIGIIFTLSITH  144 (148)
Q Consensus       130 a~~g~gi~~l~~~~~  144 (148)
                      +++|.|++++++++.
T Consensus       143 a~~~~gi~~l~~~l~  157 (159)
T cd04159         143 CKEKTNIDIVLDWLI  157 (159)
T ss_pred             eccCCChHHHHHHHh
Confidence            999999999999874

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.

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=97.95  E-value=2.3e-05  Score=56.24  Aligned_cols=98  Identities=14%  Similarity=0.114  Sum_probs=59.9

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCC------c----ccc-CCCCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDK------I----PRK-GGPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~------~----~~~-~~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      +.+.++++.|......+.   -...|..++++|......      +    ... ....++  -++|+||+|+.+......
T Consensus        48 ~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p--iiiv~NK~D~~~~~~~~~  125 (164)
T cd04139          48 VQLNILDTAGQEDYAAIRDNYHRSGEGFLLVFSITDMESFTATAEFREQILRVKDDDNVP--LLLVGNKCDLEDKRQVSS  125 (164)
T ss_pred             EEEEEEECCChhhhhHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC--EEEEEEccccccccccCH
Confidence            457777888853211111   124577788888765321      1    010 012344  699999999976200233


Q ss_pred             HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          110 AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       110 ~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +...+..++.  +.+++++||++|.|++++++++..
T Consensus       126 ~~~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~~  159 (164)
T cd04139         126 EEAANLARQW--GVPYVETSAKTRQNVEKAFYDLVR  159 (164)
T ss_pred             HHHHHHHHHh--CCeEEEeeCCCCCCHHHHHHHHHH
Confidence            3444444433  368999999999999999998864

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

>cd04136 Rap_like Rap-like subfamily

Probab=97.95  E-value=2.1e-05  Score=56.56  Aligned_cols=99  Identities=14%  Similarity=0.069  Sum_probs=59.3

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCc----------cc-cCCCCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKI----------PR-KGGPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~----------~~-~~~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      +.+-+.+|.|.--...+.   -..+|.+++++|......+          .. .....++  -++|.||+|+.+.-....
T Consensus        49 ~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~p--iilv~nK~Dl~~~~~~~~  126 (163)
T cd04136          49 CMLEILDTAGTEQFTAMRDLYIKNGQGFVLVYSITSQSSFNDLQDLREQILRVKDTENVP--MVLVGNKCDLEDERVVSR  126 (163)
T ss_pred             EEEEEEECCCccccchHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC--EEEEEECccccccceecH
Confidence            344567777753211111   1346778888998654321          01 0112344  578999999976400122


Q ss_pred             HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhhh
Q 032030          110 AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHYI  146 (148)
Q Consensus       110 ~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~~  146 (148)
                      +...+..+..+  .+++++||++|.|++++++++...
T Consensus       127 ~~~~~~~~~~~--~~~~~~Sa~~~~~v~~l~~~l~~~  161 (163)
T cd04136         127 EEGQALARQWG--CPFYETSAKSKINVDEVFADLVRQ  161 (163)
T ss_pred             HHHHHHHHHcC--CeEEEecCCCCCCHHHHHHHHHHh
Confidence            23333334333  789999999999999999998754

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.

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=97.94  E-value=4e-05  Score=61.74  Aligned_cols=76  Identities=20%  Similarity=0.062  Sum_probs=52.1

Q ss_pred             cCceEEEEEeCCCCCCccc----cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHH
Q 032030           64 LADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFT  139 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~----~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l  139 (148)
                      .+|.++.|+|+..+.....    ....+.+  -++|+||+||++.  ...+...+.+++.  +.+++++||+++.|+++|
T Consensus        24 ~aDvIL~VvDar~p~~~~~~~l~~~~~~kp--~iiVlNK~DL~~~--~~~~~~~~~~~~~--~~~vi~vSa~~~~gi~~L   97 (287)
T PRK09563         24 LVDVVIEVLDARIPLSSENPMIDKIIGNKP--RLLILNKSDLADP--EVTKKWIEYFEEQ--GIKALAINAKKGQGVKKI   97 (287)
T ss_pred             hCCEEEEEEECCCCCCCCChhHHHHhCCCC--EEEEEEchhcCCH--HHHHHHHHHHHHc--CCeEEEEECCCcccHHHH
Confidence            5688999999876533210    1111333  6999999999876  5555555555432  367899999999999999


Q ss_pred             HHhhhh
Q 032030          140 LSITHY  145 (148)
Q Consensus       140 ~~~~~~  145 (148)
                      .+.+..
T Consensus        98 ~~~l~~  103 (287)
T PRK09563         98 LKAAKK  103 (287)
T ss_pred             HHHHHH
Confidence            887643

>cd04127 Rab27A Rab27a subfamily

Probab=97.94  E-value=3.2e-05  Score=56.85  Aligned_cols=78  Identities=14%  Similarity=0.003  Sum_probs=51.6

Q ss_pred             cCceEEEEEeCCCCCCccc-----------cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecC
Q 032030           64 LADYIIYIIDVSGGDKIPR-----------KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGW  132 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~-----------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~  132 (148)
                      .+|.+++|.|+........           ...+..+  -++|.||+|+.+.-....+...+..++.  +.+++++||++
T Consensus        86 ~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p--iiiv~nK~Dl~~~~~v~~~~~~~~~~~~--~~~~~e~Sak~  161 (180)
T cd04127          86 DAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPD--IVLCGNKADLEDQRQVSEEQAKALADKY--GIPYFETSAAT  161 (180)
T ss_pred             CCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCc--EEEEEeCccchhcCccCHHHHHHHHHHc--CCeEEEEeCCC
Confidence            4688899999876532110           0112344  5889999999754001223444555543  36899999999


Q ss_pred             CCCHHHHHHhhhh
Q 032030          133 VIGIIFTLSITHY  145 (148)
Q Consensus       133 g~gi~~l~~~~~~  145 (148)
                      |.|++++++++.-
T Consensus       162 ~~~v~~l~~~l~~  174 (180)
T cd04127         162 GTNVEKAVERLLD  174 (180)
T ss_pred             CCCHHHHHHHHHH
Confidence            9999999998864

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

>cd04126 Rab20 Rab20 subfamily

Probab=97.94  E-value=4.9e-05  Score=59.13  Aligned_cols=99  Identities=13%  Similarity=0.016  Sum_probs=60.3

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCC-------
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLAS-------  103 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~-------  103 (148)
                      +.+-+..|.|--....+   .-..+|.+|+|.|......+.          ......++  -++|.||+||.+       
T Consensus        44 ~~l~iwDt~G~e~~~~l~~~~~~~ad~~IlV~Dvt~~~Sf~~l~~~~~~l~~~~~~~~p--iIlVgNK~DL~~~~~~~~~  121 (220)
T cd04126          44 YNISIWDTAGREQFHGLGSMYCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANEDCL--FAVVGNKLDLTEEGALAGQ  121 (220)
T ss_pred             EEEEEEeCCCcccchhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCc--EEEEEECcccccccccccc
Confidence            45566677774321111   113578899999987653211          01112333  589999999975       


Q ss_pred             ------------chhhhHHHHHHHHHhcCC------------CCcEEEEEecCCCCHHHHHHhhh
Q 032030          104 ------------AIGADLAVMERDALRMRD------------GGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       104 ------------~~~~~l~~~~~~i~~~np------------~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                                  .-.-..+...+..++.+.            ..+++++||++|.|++++|..++
T Consensus       122 ~~~~~~~~~~~~~r~v~~~e~~~~a~~~~~~~~~~~~~~~~~~~~~~E~SA~tg~~V~elf~~i~  186 (220)
T cd04126         122 EKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKMLDEDLSPAAEKMCFETSAKTGYNVDELFEYLF  186 (220)
T ss_pred             cccccccccccccccCCHHHHHHHHHHhCccccccccccccccceEEEeeCCCCCCHHHHHHHHH
Confidence                        100112345555554431            25889999999999999998876

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

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=97.93  E-value=4.4e-05  Score=63.38  Aligned_cols=93  Identities=25%  Similarity=0.278  Sum_probs=59.9

Q ss_pred             CCCEEEEecCCce--ee----eeec-----cccCceEEEEEeCCCCCCcc------c---cCC-CCcceeeEEEEecCCC
Q 032030           43 KADLLLCESGGDN--LA----ANFS-----RELADYIIYIIDVSGGDKIP------R---KGG-PGITQADLLVINKTDL  101 (148)
Q Consensus        43 ~~D~IliEtsG~~--~~----~~~~-----~~~~d~~i~vvDa~~~~~~~------~---~~~-~qi~~ADivViNK~DL  101 (148)
                      +..++++.|+|.-  .+    ..|.     -..+|.+++|+|+.+.....      .   ... ...+  -++|+||+|+
T Consensus       236 ~~~i~l~DT~G~~~~l~~~lie~f~~tle~~~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l~~~~~p--iIlV~NK~Dl  313 (351)
T TIGR03156       236 GGEVLLTDTVGFIRDLPHELVAAFRATLEEVREADLLLHVVDASDPDREEQIEAVEKVLEELGAEDIP--QLLVYNKIDL  313 (351)
T ss_pred             CceEEEEecCcccccCCHHHHHHHHHHHHHHHhCCEEEEEEECCCCchHHHHHHHHHHHHHhccCCCC--EEEEEEeecC
Confidence            3567888898862  11    1121     12579999999998654211      0   001 1233  5999999999


Q ss_pred             CCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          102 ASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       102 ~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      .+.  .++..    ...  ...+++++||++|.|+++|++++.-
T Consensus       314 ~~~--~~v~~----~~~--~~~~~i~iSAktg~GI~eL~~~I~~  349 (351)
T TIGR03156       314 LDE--PRIER----LEE--GYPEAVFVSAKTGEGLDLLLEAIAE  349 (351)
T ss_pred             CCh--HhHHH----HHh--CCCCEEEEEccCCCCHHHHHHHHHh
Confidence            876  44322    221  2246899999999999999998753

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).

>cd04140 ARHI_like ARHI subfamily

Probab=97.93  E-value=1.5e-05  Score=58.08  Aligned_cols=95  Identities=14%  Similarity=0.040  Sum_probs=57.3

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc---c-------cC---CCCcceeeEEEEecCCCCCchhh
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP---R-------KG---GPGITQADLLVINKTDLASAIGA  107 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~---~-------~~---~~qi~~ADivViNK~DL~~~~~~  107 (148)
                      ..+-+..|+|.-....+   .-..+|.+++|.|........   .       ..   .+.+|  -++|.||+|+...  .
T Consensus        49 ~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~p--iilv~nK~Dl~~~--~  124 (165)
T cd04140          49 CTLQITDTTGSHQFPAMQRLSISKGHAFILVYSVTSKQSLEELKPIYELICEIKGNNIEKIP--IMLVGNKCDESHK--R  124 (165)
T ss_pred             EEEEEEECCCCCcchHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCC--EEEEEECcccccc--C
Confidence            34556666664211111   112467788999987653211   0       00   12344  6899999999763  2


Q ss_pred             hH--HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          108 DL--AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       108 ~l--~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ++  +......+  ....+++++||++|.|++++|++++
T Consensus       125 ~v~~~~~~~~~~--~~~~~~~e~SA~~g~~v~~~f~~l~  161 (165)
T cd04140         125 EVSSNEGAACAT--EWNCAFMETSAKTNHNVQELFQELL  161 (165)
T ss_pred             eecHHHHHHHHH--HhCCcEEEeecCCCCCHHHHHHHHH
Confidence            22  22233333  2346899999999999999999874

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

>cd04112 Rab26 Rab26 subfamily

Probab=97.93  E-value=2.2e-05  Score=58.89  Aligned_cols=76  Identities=16%  Similarity=0.172  Sum_probs=50.5

Q ss_pred             cCceEEEEEeCCCCCCc----------cccCCCCcceeeEEEEecCCCCCchhhh--HHHHHHHHHhcCCCCcEEEEEec
Q 032030           64 LADYIIYIIDVSGGDKI----------PRKGGPGITQADLLVINKTDLASAIGAD--LAVMERDALRMRDGGPFIFAQVG  131 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~----------~~~~~~qi~~ADivViNK~DL~~~~~~~--l~~~~~~i~~~np~a~vi~tSa~  131 (148)
                      .+|.+++|+|+...+.+          ....+..++  -++|+||+|+..+  ..  .+...+..+..  ..+++++||+
T Consensus        73 ~ad~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~p--iiiv~NK~Dl~~~--~~~~~~~~~~l~~~~--~~~~~e~Sa~  146 (191)
T cd04112          73 DAHALLLLYDITNKASFDNIRAWLTEIKEYAQEDVV--IMLLGNKADMSGE--RVVKREDGERLAKEY--GVPFMETSAK  146 (191)
T ss_pred             CCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCc--EEEEEEcccchhc--cccCHHHHHHHHHHc--CCeEEEEeCC
Confidence            46889999998765321          111122344  6789999999743  21  22333433432  3589999999


Q ss_pred             CCCCHHHHHHhhhh
Q 032030          132 WVIGIIFTLSITHY  145 (148)
Q Consensus       132 ~g~gi~~l~~~~~~  145 (148)
                      +|.|++++|++++-
T Consensus       147 ~~~~v~~l~~~l~~  160 (191)
T cd04112         147 TGLNVELAFTAVAK  160 (191)
T ss_pred             CCCCHHHHHHHHHH
Confidence            99999999998753

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.

>cd01864 Rab19 Rab19 subfamily

Probab=97.92  E-value=4.7e-05  Score=55.25  Aligned_cols=98  Identities=14%  Similarity=0.106  Sum_probs=60.5

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCc---c-------ccCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKI---P-------RKGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~---~-------~~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      +.+.+.++.|......+.   -..+|.++.++|+.+...+   .       ......++  -++|.||+|+...-....+
T Consensus        52 ~~l~i~D~~G~~~~~~~~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~i~~~~~~~~p--~ivv~nK~Dl~~~~~~~~~  129 (165)
T cd01864          52 VKLQIWDTAGQERFRTITQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVV--LLLIGNKCDLEEQREVLFE  129 (165)
T ss_pred             EEEEEEECCChHHHHHHHHHHhccCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCc--EEEEEECcccccccccCHH
Confidence            466777787743110010   1246889999999875321   1       11122444  5899999999754111223


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ...+..+. ....+++++||++|.|+++++++++
T Consensus       130 ~~~~~~~~-~~~~~~~e~Sa~~~~~v~~~~~~l~  162 (165)
T cd01864         130 EACTLAEK-NGMLAVLETSAKESQNVEEAFLLMA  162 (165)
T ss_pred             HHHHHHHH-cCCcEEEEEECCCCCCHHHHHHHHH
Confidence            44444443 3334789999999999999998865

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.

>COG2262 HflX GTPases [General function prediction only]

Probab=97.92  E-value=3.1e-05  Score=65.11  Aligned_cols=93  Identities=22%  Similarity=0.235  Sum_probs=62.4

Q ss_pred             CCCEEEEecCCce--ee----eeec-----cccCceEEEEEeCCCCCCcc---------c-cCCCCcceeeEEEEecCCC
Q 032030           43 KADLLLCESGGDN--LA----ANFS-----RELADYIIYIIDVSGGDKIP---------R-KGGPGITQADLLVINKTDL  101 (148)
Q Consensus        43 ~~D~IliEtsG~~--~~----~~~~-----~~~~d~~i~vvDa~~~~~~~---------~-~~~~qi~~ADivViNK~DL  101 (148)
                      +..+++-.|+|-.  +|    +.|.     ...+|+++.|||+++..-..         . .....+|  -++|+||+|+
T Consensus       239 g~~vlLtDTVGFI~~LP~~LV~AFksTLEE~~~aDlllhVVDaSdp~~~~~~~~v~~vL~el~~~~~p--~i~v~NKiD~  316 (411)
T COG2262         239 GRKVLLTDTVGFIRDLPHPLVEAFKSTLEEVKEADLLLHVVDASDPEILEKLEAVEDVLAEIGADEIP--IILVLNKIDL  316 (411)
T ss_pred             CceEEEecCccCcccCChHHHHHHHHHHHHhhcCCEEEEEeecCChhHHHHHHHHHHHHHHcCCCCCC--EEEEEecccc
Confidence            4669999999964  22    2331     13579999999998873211         0 1112345  6999999999


Q ss_pred             CCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          102 ASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       102 ~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ++.  ..   ....++...|  ..+++||++|.|++.|.+.+.
T Consensus       317 ~~~--~~---~~~~~~~~~~--~~v~iSA~~~~gl~~L~~~i~  352 (411)
T COG2262         317 LED--EE---ILAELERGSP--NPVFISAKTGEGLDLLRERII  352 (411)
T ss_pred             cCc--hh---hhhhhhhcCC--CeEEEEeccCcCHHHHHHHHH
Confidence            877  44   2233333334  578999999999999987654

>cd01854 YjeQ_engC YjeQ/EngC

Probab=97.92  E-value=1.5e-05  Score=64.25  Aligned_cols=74  Identities=18%  Similarity=0.184  Sum_probs=49.4

Q ss_pred             CceEEEEEeCCCCC-Cc---ccc----CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCH
Q 032030           65 ADYIIYIIDVSGGD-KI---PRK----GGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGI  136 (148)
Q Consensus        65 ~d~~i~vvDa~~~~-~~---~~~----~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi  136 (148)
                      +|.++.|+|+..+. ..   ...    ....++  -++|+||+||.++  .+.........  ..+.+++++||+++.|+
T Consensus        79 vD~vllV~d~~~p~~s~~~ldr~L~~~~~~~ip--~iIVlNK~DL~~~--~~~~~~~~~~~--~~g~~v~~vSA~~g~gi  152 (287)
T cd01854          79 VDQLVIVVSLNEPFFNPRLLDRYLVAAEAAGIE--PVIVLTKADLLDD--EEEELELVEAL--ALGYPVLAVSAKTGEGL  152 (287)
T ss_pred             CCEEEEEEEcCCCCCCHHHHHHHHHHHHHcCCC--EEEEEEHHHCCCh--HHHHHHHHHHH--hCCCeEEEEECCCCccH
Confidence            57789999987664 21   110    112344  5999999999876  43222222223  35579999999999999


Q ss_pred             HHHHHhhh
Q 032030          137 IFTLSITH  144 (148)
Q Consensus       137 ~~l~~~~~  144 (148)
                      ++|++++.
T Consensus       153 ~~L~~~L~  160 (287)
T cd01854         153 DELREYLK  160 (287)
T ss_pred             HHHHhhhc
Confidence            99988754

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.

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=97.91  E-value=2e-05  Score=66.65  Aligned_cols=98  Identities=17%  Similarity=0.140  Sum_probs=61.3

Q ss_pred             CCEEEEecCCceee-eee--ccccCceEEEEEeCCCCC-Cccc------cCCCCcceeeEEEEecCCCCCchhhhHH---
Q 032030           44 ADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGD-KIPR------KGGPGITQADLLVINKTDLASAIGADLA---  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~-~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l~---  110 (148)
                      .-+.|+.|.|-... ..+  ....+|..+.|+|+.++. ..+.      .....++ --++|+||+|+.++  .+..   
T Consensus        85 ~~i~liDtPG~~~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~~l~~l~~~~i~-~iiVVlNK~Dl~~~--~~~~~~~  161 (411)
T PRK04000         85 RRVSFVDAPGHETLMATMLSGAALMDGAILVIAANEPCPQPQTKEHLMALDIIGIK-NIVIVQNKIDLVSK--ERALENY  161 (411)
T ss_pred             cEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCCChhHHHHHHHHHHcCCC-cEEEEEEeeccccc--hhHHHHH
Confidence            45788999995311 111  113468999999998763 1110      0001121 13788999999876  4433   


Q ss_pred             -HHHHHHHhc-CCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          111 -VMERDALRM-RDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       111 -~~~~~i~~~-np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                       ++.+.++.. ....+++++||++|.|+++|++++.
T Consensus       162 ~~i~~~l~~~~~~~~~ii~vSA~~g~gI~~L~~~L~  197 (411)
T PRK04000        162 EQIKEFVKGTVAENAPIIPVSALHKVNIDALIEAIE  197 (411)
T ss_pred             HHHHHHhccccCCCCeEEEEECCCCcCHHHHHHHHH
Confidence             333444322 2357899999999999999999875

>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=97.91  E-value=6.1e-07  Score=66.63  Aligned_cols=94  Identities=23%  Similarity=0.210  Sum_probs=57.8

Q ss_pred             CCCEEEEecCCce-ee-----ee-----eccccCceEEEEEeCCCCCCc----cccCCCCcceeeEEEEecCCCCCchhh
Q 032030           43 KADLLLCESGGDN-LA-----AN-----FSRELADYIIYIIDVSGGDKI----PRKGGPGITQADLLVINKTDLASAIGA  107 (148)
Q Consensus        43 ~~D~IliEtsG~~-~~-----~~-----~~~~~~d~~i~vvDa~~~~~~----~~~~~~qi~~ADivViNK~DL~~~~~~  107 (148)
                      +..+.+|-+.|.- +.     +.     +.....|.++.|+|+.+.+.-    .+...-.+|  -++++||+|++..-+-
T Consensus        46 ~~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~~D~ii~VvDa~~l~r~l~l~~ql~e~g~P--~vvvlN~~D~a~~~g~  123 (156)
T PF02421_consen   46 DQQVELVDLPGIYSLSSKSEEERVARDYLLSEKPDLIIVVVDATNLERNLYLTLQLLELGIP--VVVVLNKMDEAERKGI  123 (156)
T ss_dssp             TEEEEEEE----SSSSSSSHHHHHHHHHHHHTSSSEEEEEEEGGGHHHHHHHHHHHHHTTSS--EEEEEETHHHHHHTTE
T ss_pred             CceEEEEECCCcccCCCCCcHHHHHHHHHhhcCCCEEEEECCCCCHHHHHHHHHHHHHcCCC--EEEEEeCHHHHHHcCC
Confidence            4567888888852 10     00     112357899999999876431    111223456  7999999998876221


Q ss_pred             --hHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhh
Q 032030          108 --DLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSIT  143 (148)
Q Consensus       108 --~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~  143 (148)
                        +.+++.+.+     +.|++++||++|.|+++|.+.+
T Consensus       124 ~id~~~Ls~~L-----g~pvi~~sa~~~~g~~~L~~~I  156 (156)
T PF02421_consen  124 EIDAEKLSERL-----GVPVIPVSARTGEGIDELKDAI  156 (156)
T ss_dssp             EE-HHHHHHHH-----TS-EEEEBTTTTBTHHHHHHHH
T ss_pred             EECHHHHHHHh-----CCCEEEEEeCCCcCHHHHHhhC
Confidence              234454444     3689999999999999998763

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 ....

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=97.91  E-value=3.2e-05  Score=63.63  Aligned_cols=101  Identities=21%  Similarity=0.230  Sum_probs=65.3

Q ss_pred             CCEEEEecCCceeee--------eecc--ccCceEEEEEeCCCCC--C----ccc------cCCCC-cceeeEEEEecCC
Q 032030           44 ADLLLCESGGDNLAA--------NFSR--ELADYIIYIIDVSGGD--K----IPR------KGGPG-ITQADLLVINKTD  100 (148)
Q Consensus        44 ~D~IliEtsG~~~~~--------~~~~--~~~d~~i~vvDa~~~~--~----~~~------~~~~q-i~~ADivViNK~D  100 (148)
                      ..+.++.+.|+.-.+        .|..  ..++.+++|+|+...+  +    +..      .+.+. ....-++|+||+|
T Consensus       205 ~~~~i~D~PGli~~a~~~~gLg~~flrhierad~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~D  284 (329)
T TIGR02729       205 RSFVIADIPGLIEGASEGAGLGHRFLKHIERTRVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKID  284 (329)
T ss_pred             eEEEEEeCCCcccCCcccccHHHHHHHHHHhhCEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCcc
Confidence            457888888873211        1211  2467889999987641  1    100      11111 1223699999999


Q ss_pred             CCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhhhc
Q 032030          101 LASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHYIV  147 (148)
Q Consensus       101 L~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~~~  147 (148)
                      +.++  ...+++.+.+.+.. ..+++++||+++.|++++++++.-.+
T Consensus       285 L~~~--~~~~~~~~~l~~~~-~~~vi~iSAktg~GI~eL~~~I~~~l  328 (329)
T TIGR02729       285 LLDE--EELAELLKELKKAL-GKPVFPISALTGEGLDELLYALAELL  328 (329)
T ss_pred             CCCh--HHHHHHHHHHHHHc-CCcEEEEEccCCcCHHHHHHHHHHHh
Confidence            9887  66666666555333 25899999999999999999886543

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.

>cd04148 RGK RGK subfamily

Probab=97.91  E-value=2.1e-05  Score=60.84  Aligned_cols=98  Identities=15%  Similarity=0.100  Sum_probs=61.6

Q ss_pred             CCCEEEEecCCcee--eeeeccccCceEEEEEeCCCCCCcc-------c--cC--CCCcceeeEEEEecCCCCCchhhhH
Q 032030           43 KADLLLCESGGDNL--AANFSRELADYIIYIIDVSGGDKIP-------R--KG--GPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        43 ~~D~IliEtsG~~~--~~~~~~~~~d~~i~vvDa~~~~~~~-------~--~~--~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      ...+.++++.|...  ...+....+|.+++|+|+.....+.       .  ..  ...++  -++|.||+|+.+.  .++
T Consensus        49 ~~~l~i~Dt~G~~~~~~~~~~~~~ad~iilV~d~td~~S~~~~~~~~~~l~~~~~~~~~p--iilV~NK~Dl~~~--~~v  124 (221)
T cd04148          49 ESTLVVIDHWEQEMWTEDSCMQYQGDAFVVVYSVTDRSSFERASELRIQLRRNRQLEDRP--IILVGNKSDLARS--REV  124 (221)
T ss_pred             EEEEEEEeCCCcchHHHhHHhhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC--EEEEEEChhcccc--cee
Confidence            35567788888641  1111111679999999987653211       0  01  12345  5999999999765  322


Q ss_pred             --HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhhh
Q 032030          110 --AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHYI  146 (148)
Q Consensus       110 --~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~~  146 (148)
                        +...+....  .+.+++++||++|.|+++++++++-.
T Consensus       125 ~~~~~~~~a~~--~~~~~~e~SA~~~~gv~~l~~~l~~~  161 (221)
T cd04148         125 SVQEGRACAVV--FDCKFIETSAGLQHNVDELLEGIVRQ  161 (221)
T ss_pred             cHHHHHHHHHH--cCCeEEEecCCCCCCHHHHHHHHHHH
Confidence              222233332  24689999999999999999988643

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

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=97.91  E-value=2.7e-05  Score=57.87  Aligned_cols=89  Identities=18%  Similarity=0.168  Sum_probs=56.2

Q ss_pred             CEEEEecCCceeee--------------eecc--ccCceEEEEEeCCCCCCccc-----c-CCCCcceeeEEEEecCCCC
Q 032030           45 DLLLCESGGDNLAA--------------NFSR--ELADYIIYIIDVSGGDKIPR-----K-GGPGITQADLLVINKTDLA  102 (148)
Q Consensus        45 D~IliEtsG~~~~~--------------~~~~--~~~d~~i~vvDa~~~~~~~~-----~-~~~qi~~ADivViNK~DL~  102 (148)
                      .+.++.|.|.....              .+.+  ...+.+++|+|+.++.....     . ....++  -++++||+|+.
T Consensus        65 ~~~liDtpG~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ii~vvd~~~~~~~~~~~~~~~~~~~~~p--viiv~nK~D~~  142 (179)
T TIGR03598        65 GFRLVDLPGYGYAKVSKEEKEKWQKLIEEYLEKRENLKGVVLLMDIRHPLKELDLEMLEWLRERGIP--VLIVLTKADKL  142 (179)
T ss_pred             cEEEEeCCCCccccCChhHHHHHHHHHHHHHHhChhhcEEEEEecCCCCCCHHHHHHHHHHHHcCCC--EEEEEECcccC
Confidence            57889999964210              0101  12467899999876432111     0 112344  58999999998


Q ss_pred             CchhhhH----HHHHHHHHhcCCCCcEEEEEecCCCCHH
Q 032030          103 SAIGADL----AVMERDALRMRDGGPFIFAQVGWVIGII  137 (148)
Q Consensus       103 ~~~~~~l----~~~~~~i~~~np~a~vi~tSa~~g~gi~  137 (148)
                      ++  .+.    +.+++.++...+..+++++||++|.|++
T Consensus       143 ~~--~~~~~~~~~i~~~l~~~~~~~~v~~~Sa~~g~gi~  179 (179)
T TIGR03598       143 KK--SELNKQLKKIKKALKKDADDPSVQLFSSLKKTGID  179 (179)
T ss_pred             CH--HHHHHHHHHHHHHHhhccCCCceEEEECCCCCCCC
Confidence            76  544    4455555544445689999999999974

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.

>smart00175 RAB Rab subfamily of small GTPases

Probab=97.90  E-value=4.8e-05  Score=54.61  Aligned_cols=96  Identities=17%  Similarity=0.163  Sum_probs=61.3

Q ss_pred             CCEEEEecCCceee----eeeccccCceEEEEEeCCCCCCccc---c-------CCCCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLA----ANFSRELADYIIYIIDVSGGDKIPR---K-------GGPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~----~~~~~~~~d~~i~vvDa~~~~~~~~---~-------~~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      ..+.++++.|....    ..+ -..+|.+++++|+.+......   .       ..+.++  -++++||+|+........
T Consensus        49 ~~~~l~D~~G~~~~~~~~~~~-~~~~d~~ilv~d~~~~~s~~~~~~~l~~~~~~~~~~~p--ivvv~nK~D~~~~~~~~~  125 (164)
T smart00175       49 VKLQIWDTAGQERFRSITSSY-YRGAVGALLVYDITNRESFENLKNWLKELREYADPNVV--IMLVGNKSDLEDQRQVSR  125 (164)
T ss_pred             EEEEEEECCChHHHHHHHHHH-hCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCe--EEEEEEchhcccccCCCH
Confidence            34556777775311    111 134789999999977543210   0       113345  799999999976411233


Q ss_pred             HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          110 AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       110 ~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +...+..+..  +.+++++|+++|.|++++++++.
T Consensus       126 ~~~~~~~~~~--~~~~~e~Sa~~~~~i~~l~~~i~  158 (164)
T smart00175      126 EEAEAFAEEH--GLPFFETSAKTNTNVEEAFEELA  158 (164)
T ss_pred             HHHHHHHHHc--CCeEEEEeCCCCCCHHHHHHHHH
Confidence            4555555543  36799999999999999998764

Rab GTPases are implicated in vesicle trafficking.

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=97.90  E-value=5.4e-05  Score=55.62  Aligned_cols=98  Identities=14%  Similarity=0.168  Sum_probs=59.4

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCccc----------cCCCCcceeeEEEEecCCCCCchh----
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPR----------KGGPGITQADLLVINKTDLASAIG----  106 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~~----------~~~~qi~~ADivViNK~DL~~~~~----  106 (148)
                      ..+.+.++.|.-....+   .-..+|.++++.|......+..          ...+..+  -+++.||+|+.+..+    
T Consensus        48 ~~~~i~Dt~G~~~~~~~~~~~~~~a~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~~~~~~~  125 (173)
T cd04130          48 VRLQLCDTAGQDEFDKLRPLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRKHNPKAP--IILVGTQADLRTDVNVLIQ  125 (173)
T ss_pred             EEEEEEECCCChhhccccccccCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCC--EEEEeeChhhccChhHHHH
Confidence            44567777775321111   1135788899999876533211          0112344  499999999975410    


Q ss_pred             --------hhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          107 --------ADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       107 --------~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                              -..+...+..++. ...+++++||++|.|++++|+.+.
T Consensus       126 ~~~~~~~~v~~~~~~~~a~~~-~~~~~~e~Sa~~~~~v~~lf~~~~  170 (173)
T cd04130         126 LARYGEKPVSQSRAKALAEKI-GACEYIECSALTQKNLKEVFDTAI  170 (173)
T ss_pred             HhhcCCCCcCHHHHHHHHHHh-CCCeEEEEeCCCCCCHHHHHHHHH
Confidence                    0112333444432 234899999999999999998764

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,

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=97.90  E-value=4.1e-05  Score=57.29  Aligned_cols=78  Identities=17%  Similarity=0.100  Sum_probs=49.0

Q ss_pred             cCceEEEEEeCCCCCCc-------cccC-C---CCcceeeEEEEecCCCCCchhhhHHHHHHHHHh--cC-CCCcEEEEE
Q 032030           64 LADYIIYIIDVSGGDKI-------PRKG-G---PGITQADLLVINKTDLASAIGADLAVMERDALR--MR-DGGPFIFAQ  129 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~-------~~~~-~---~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~--~n-p~a~vi~tS  129 (148)
                      .+|.+|+|+|+.....+       .... .   .+.+  -++|.||.|+...  ...+.+.+.+..  .+ ....++++|
T Consensus        84 ~ad~iI~v~D~t~~~s~~~~~~~l~~~~~~~~~~~~p--iilv~NK~Dl~~~--~~~~~i~~~l~~~~~~~~~~~~~~~S  159 (182)
T PTZ00133         84 NTNGLIFVVDSNDRERIGDAREELERMLSEDELRDAV--LLVFANKQDLPNA--MSTTEVTEKLGLHSVRQRNWYIQGCC  159 (182)
T ss_pred             CCCEEEEEEeCCCHHHHHHHHHHHHHHHhCHhhcCCC--EEEEEeCCCCCCC--CCHHHHHHHhCCCcccCCcEEEEeee
Confidence            57889999998764321       1111 1   1234  5788999999764  333344444321  11 112567899


Q ss_pred             ecCCCCHHHHHHhhhh
Q 032030          130 VGWVIGIIFTLSITHY  145 (148)
Q Consensus       130 a~~g~gi~~l~~~~~~  145 (148)
                      |++|.|++++++++.-
T Consensus       160 a~tg~gv~e~~~~l~~  175 (182)
T PTZ00133        160 ATTAQGLYEGLDWLSA  175 (182)
T ss_pred             CCCCCCHHHHHHHHHH
Confidence            9999999999999863

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=97.90  E-value=3.5e-05  Score=65.71  Aligned_cols=94  Identities=18%  Similarity=0.148  Sum_probs=62.2

Q ss_pred             CCCEEEEecCCceeee----------ee-ccccCceEEEEEeCCCCCCc--cc---cCCCCcceeeEEEEecCCCCCchh
Q 032030           43 KADLLLCESGGDNLAA----------NF-SRELADYIIYIIDVSGGDKI--PR---KGGPGITQADLLVINKTDLASAIG  106 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~----------~~-~~~~~d~~i~vvDa~~~~~~--~~---~~~~qi~~ADivViNK~DL~~~~~  106 (148)
                      ++-+.++.|-|+=...          +. .-..+|++++|+|+.+....  ..   ..+...+  .++|+||+||.++  
T Consensus       264 G~pv~l~DTAGiRet~d~VE~iGIeRs~~~i~~ADlvL~v~D~~~~~~~~d~~~~~~~~~~~~--~i~v~NK~DL~~~--  339 (454)
T COG0486         264 GIPVRLVDTAGIRETDDVVERIGIERAKKAIEEADLVLFVLDASQPLDKEDLALIELLPKKKP--IIVVLNKADLVSK--  339 (454)
T ss_pred             CEEEEEEecCCcccCccHHHHHHHHHHHHHHHhCCEEEEEEeCCCCCchhhHHHHHhcccCCC--EEEEEechhcccc--
Confidence            5556677777763110          00 11357999999999885221  11   1222333  5999999999998  


Q ss_pred             hhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          107 ADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       107 ~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ...+..     +..+..+++.+|+++|+|++.|.+.+.-
T Consensus       340 ~~~~~~-----~~~~~~~~i~iSa~t~~Gl~~L~~~i~~  373 (454)
T COG0486         340 IELESE-----KLANGDAIISISAKTGEGLDALREAIKQ  373 (454)
T ss_pred             cccchh-----hccCCCceEEEEecCccCHHHHHHHHHH
Confidence            654433     3345568999999999999999877653

>cd04175 Rap1 Rap1 subgroup

Probab=97.89  E-value=2.7e-05  Score=56.42  Aligned_cols=99  Identities=13%  Similarity=0.050  Sum_probs=58.9

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCc----------cc-cCCCCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKI----------PR-KGGPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~----------~~-~~~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      +.+-+..|+|.-....+   .-..+|.+++++|.......          .. ...+.+|  -+++.||+|+.+......
T Consensus        49 ~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~p--iilv~nK~Dl~~~~~~~~  126 (164)
T cd04175          49 CMLEILDTAGTEQFTAMRDLYMKNGQGFVLVYSITAQSTFNDLQDLREQILRVKDTEDVP--MILVGNKCDLEDERVVGK  126 (164)
T ss_pred             EEEEEEECCCcccchhHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC--EEEEEECCcchhccEEcH
Confidence            33446677774321111   11356788889997653211          11 1123455  589999999975411122


Q ss_pred             HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhhh
Q 032030          110 AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHYI  146 (148)
Q Consensus       110 ~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~~  146 (148)
                      +...+..++.+  .+++++||++|.|+++++.++..-
T Consensus       127 ~~~~~~~~~~~--~~~~~~Sa~~~~~v~~~~~~l~~~  161 (164)
T cd04175         127 EQGQNLARQWG--CAFLETSAKAKINVNEIFYDLVRQ  161 (164)
T ss_pred             HHHHHHHHHhC--CEEEEeeCCCCCCHHHHHHHHHHH
Confidence            23334344333  589999999999999999998643

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

>cd01892 Miro2 Miro2 subfamily

Probab=97.89  E-value=5.1e-05  Score=55.93  Aligned_cols=79  Identities=14%  Similarity=-0.004  Sum_probs=51.0

Q ss_pred             ccCceEEEEEeCCCCCCcc------ccC--CCCcceeeEEEEecCCCCCchhhhH--HHHHHHHHhcCCCCcEEEEEecC
Q 032030           63 ELADYIIYIIDVSGGDKIP------RKG--GPGITQADLLVINKTDLASAIGADL--AVMERDALRMRDGGPFIFAQVGW  132 (148)
Q Consensus        63 ~~~d~~i~vvDa~~~~~~~------~~~--~~qi~~ADivViNK~DL~~~~~~~l--~~~~~~i~~~np~a~vi~tSa~~  132 (148)
                      ..+|.+++|+|+.......      ...  ...+|  -++|+||+|+.+.  ...  ....+..+..+. .+++++||++
T Consensus        76 ~~~d~~llv~d~~~~~s~~~~~~~~~~~~~~~~~p--~iiv~NK~Dl~~~--~~~~~~~~~~~~~~~~~-~~~~~~Sa~~  150 (169)
T cd01892          76 AACDVACLVYDSSDPKSFSYCAEVYKKYFMLGEIP--CLFVAAKADLDEQ--QQRYEVQPDEFCRKLGL-PPPLHFSSKL  150 (169)
T ss_pred             hcCCEEEEEEeCCCHHHHHHHHHHHHHhccCCCCe--EEEEEEccccccc--ccccccCHHHHHHHcCC-CCCEEEEecc
Confidence            3678899999987653211      111  12344  7999999999754  211  122333333332 3458999999


Q ss_pred             CCCHHHHHHhhhhh
Q 032030          133 VIGIIFTLSITHYI  146 (148)
Q Consensus       133 g~gi~~l~~~~~~~  146 (148)
                      |.|++++|+.++-.
T Consensus       151 ~~~v~~lf~~l~~~  164 (169)
T cd01892         151 GDSSNELFTKLATA  164 (169)
T ss_pred             CccHHHHHHHHHHH
Confidence            99999999987643

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.

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=97.88  E-value=1.7e-05  Score=69.96  Aligned_cols=97  Identities=18%  Similarity=0.142  Sum_probs=62.2

Q ss_pred             CCCEEEEecCCceeeee----------e-ccccCceEEEEEeCCCCCCccc----cCCCCcceeeEEEEecCCCCCchhh
Q 032030           43 KADLLLCESGGDNLAAN----------F-SRELADYIIYIIDVSGGDKIPR----KGGPGITQADLLVINKTDLASAIGA  107 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~----------~-~~~~~d~~i~vvDa~~~~~~~~----~~~~qi~~ADivViNK~DL~~~~~~  107 (148)
                      +..+.++.|.|.--...          + .....|.++.|+|+.+.+....    ......+  -++++||+|+.+.  .
T Consensus        40 ~~~i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI~VvDat~ler~l~l~~ql~~~~~P--iIIVlNK~Dl~~~--~  115 (591)
T TIGR00437        40 GEDIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVVNVVDASNLERNLYLTLQLLELGIP--MILALNLVDEAEK--K  115 (591)
T ss_pred             CeEEEEEECCCccccCccchHHHHHHHHHhhcCCCEEEEEecCCcchhhHHHHHHHHhcCCC--EEEEEehhHHHHh--C
Confidence            34578999999632110          1 1135799999999987643211    1122344  6899999999754  3


Q ss_pred             hHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          108 DLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       108 ~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ....-.+.+.+.. +.|++++||++|.|++++++++.
T Consensus       116 ~i~~d~~~L~~~l-g~pvv~tSA~tg~Gi~eL~~~i~  151 (591)
T TIGR00437       116 GIRIDEEKLEERL-GVPVVPTSATEGRGIERLKDAIR  151 (591)
T ss_pred             CChhhHHHHHHHc-CCCEEEEECCCCCCHHHHHHHHH
Confidence            2222123333322 36899999999999999999875

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.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=97.88  E-value=6e-05  Score=54.20  Aligned_cols=66  Identities=17%  Similarity=0.130  Sum_probs=45.6

Q ss_pred             cCceEEEEEeCCCCCCcc-----ccC-C--CCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCC
Q 032030           64 LADYIIYIIDVSGGDKIP-----RKG-G--PGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIG  135 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~-----~~~-~--~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~g  135 (148)
                      .+|.++.|+|+..+....     ... .  ...+  -++|+||+|+.++  .++....+.+++..  .+++++||+++.+
T Consensus        11 ~aD~vl~ViD~~~p~~~~~~~l~~~l~~~~~~k~--~iivlNK~DL~~~--~~~~~~~~~~~~~~--~~ii~iSa~~~~~   84 (141)
T cd01857          11 RSDIVVQIVDARNPLLFRPPDLERYVKEVDPRKK--NILLLNKADLLTE--EQRKAWAEYFKKEG--IVVVFFSALKENA   84 (141)
T ss_pred             hCCEEEEEEEccCCcccCCHHHHHHHHhccCCCc--EEEEEechhcCCH--HHHHHHHHHHHhcC--CeEEEEEecCCCc
Confidence            578899999997654311     100 0  1334  6899999999877  66666666666544  5899999998764

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.

>PRK01889 GTPase RsgA; Reviewed

Probab=97.88  E-value=5e-05  Score=63.12  Aligned_cols=73  Identities=14%  Similarity=0.154  Sum_probs=49.6

Q ss_pred             CceEEEEEeCCCCCCcc--cc-----CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHH
Q 032030           65 ADYIIYIIDVSGGDKIP--RK-----GGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGII  137 (148)
Q Consensus        65 ~d~~i~vvDa~~~~~~~--~~-----~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~  137 (148)
                      .|.++.|+++.......  ..     ....++  -++|+||+||+++  .+  ...+.++..+++.+++.+|+++|.|++
T Consensus       113 vD~vliV~s~~p~~~~~~ldr~L~~a~~~~i~--piIVLNK~DL~~~--~~--~~~~~~~~~~~g~~Vi~vSa~~g~gl~  186 (356)
T PRK01889        113 VDTVFIVCSLNHDFNLRRIERYLALAWESGAE--PVIVLTKADLCED--AE--EKIAEVEALAPGVPVLAVSALDGEGLD  186 (356)
T ss_pred             CCEEEEEEecCCCCChhHHHHHHHHHHHcCCC--EEEEEEChhcCCC--HH--HHHHHHHHhCCCCcEEEEECCCCccHH
Confidence            47777888874322210  01     112344  4999999999876  32  233455555778899999999999999


Q ss_pred             HHHHhh
Q 032030          138 FTLSIT  143 (148)
Q Consensus       138 ~l~~~~  143 (148)
                      +|.+++
T Consensus       187 ~L~~~L  192 (356)
T PRK01889        187 VLAAWL  192 (356)
T ss_pred             HHHHHh
Confidence            998876

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

Probab=97.87  E-value=7.5e-05  Score=54.48  Aligned_cols=98  Identities=15%  Similarity=0.073  Sum_probs=62.2

Q ss_pred             CCCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc--------c--cCCCCcceeeEEEEecCCCCCchhhh-
Q 032030           43 KADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP--------R--KGGPGITQADLLVINKTDLASAIGAD-  108 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~--------~--~~~~qi~~ADivViNK~DL~~~~~~~-  108 (148)
                      .+.+.+.+|.|.-....+.   -..+|.++++.|......+.        .  ...+..+  -++|.||+|+.+.  .. 
T Consensus        45 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~i~~~~~~~p--iilv~nK~Dl~~~--~~~  120 (174)
T smart00174       45 PVELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSVDSPASFENVKEKWYPEVKHFCPNTP--IILVGTKLDLRED--KST  120 (174)
T ss_pred             EEEEEEEECCCCcccchhchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCC--EEEEecChhhhhC--hhh
Confidence            4567788888864221111   13578899999987653211        0  1123455  6999999999763  21 


Q ss_pred             -------------HHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          109 -------------LAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       109 -------------l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                                   .+...+..++.+ ..+++++||++|.|++++|+.++-
T Consensus       121 ~~~~~~~~~~~v~~~~~~~~~~~~~-~~~~~e~Sa~~~~~v~~lf~~l~~  169 (174)
T smart00174      121 LRELSKQKQEPVTYEQGEALAKRIG-AVKYLECSALTQEGVREVFEEAIR  169 (174)
T ss_pred             hhhhhcccCCCccHHHHHHHHHHcC-CcEEEEecCCCCCCHHHHHHHHHH
Confidence                         122233444333 347899999999999999998764

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

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=97.86  E-value=3.7e-05  Score=55.50  Aligned_cols=97  Identities=13%  Similarity=0.080  Sum_probs=59.3

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc----------cc-CCCCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP----------RK-GGPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~----------~~-~~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      +.+-+++|.|......+.   -..+|..+++.|+.....+.          .. .....+  -++|.||+|+.+.-....
T Consensus        48 ~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p--ii~v~nK~Dl~~~~~~~~  125 (164)
T smart00173       48 CLLDILDTAGQEEFSAMRDQYMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVP--IVLVGNKCDLESERVVST  125 (164)
T ss_pred             EEEEEEECCCcccchHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC--EEEEEECccccccceEcH
Confidence            445567787753211111   13467889999987643210          00 111334  478999999976410122


Q ss_pred             HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          110 AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       110 ~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +...+..+..+  .+++++||++|.|++++++++.
T Consensus       126 ~~~~~~~~~~~--~~~~~~Sa~~~~~i~~l~~~l~  158 (164)
T smart00173      126 EEGKELARQWG--CPFLETSAKERVNVDEAFYDLV  158 (164)
T ss_pred             HHHHHHHHHcC--CEEEEeecCCCCCHHHHHHHHH
Confidence            34444455433  7899999999999999999876

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

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=97.86  E-value=6.7e-05  Score=54.71  Aligned_cols=77  Identities=18%  Similarity=0.085  Sum_probs=50.8

Q ss_pred             cCceEEEEEeCCCCCCccc----------cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKIPR----------KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~----------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      .+|.++++.|+...+.+..          .....++  -++|.||+|+.+.-....+...+..+..  ..+++++||++|
T Consensus        75 ~ad~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p--~iiv~nK~Dl~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~  150 (167)
T cd01867          75 GAMGIILVYDITDEKSFENIRNWMRNIEEHASEDVE--RMLVGNKCDMEEKRVVSKEEGEALADEY--GIKFLETSAKAN  150 (167)
T ss_pred             CCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCCCCc--EEEEEECcccccccCCCHHHHHHHHHHc--CCEEEEEeCCCC
Confidence            5788899999876533111          0112233  5899999999854111223444555533  358999999999


Q ss_pred             CCHHHHHHhhh
Q 032030          134 IGIIFTLSITH  144 (148)
Q Consensus       134 ~gi~~l~~~~~  144 (148)
                      .|++++|+++.
T Consensus       151 ~~v~~~~~~i~  161 (167)
T cd01867         151 INVEEAFFTLA  161 (167)
T ss_pred             CCHHHHHHHHH
Confidence            99999998764

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

>cd04114 Rab30 Rab30 subfamily

Probab=97.85  E-value=3.9e-05  Score=55.64  Aligned_cols=76  Identities=16%  Similarity=0.123  Sum_probs=51.2

Q ss_pred             cCceEEEEEeCCCCCCc---ccc-------CCCCcceeeEEEEecCCCCCchhhhH-HHHHHHHHhcCCCCcEEEEEecC
Q 032030           64 LADYIIYIIDVSGGDKI---PRK-------GGPGITQADLLVINKTDLASAIGADL-AVMERDALRMRDGGPFIFAQVGW  132 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~---~~~-------~~~qi~~ADivViNK~DL~~~~~~~l-~~~~~~i~~~np~a~vi~tSa~~  132 (148)
                      .+|.+++++|+...+..   ...       ....++  -++|.||+|+.+.  .++ ....+.+.+..+ .+++++||++
T Consensus        79 ~~d~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~--~i~v~NK~D~~~~--~~i~~~~~~~~~~~~~-~~~~~~Sa~~  153 (169)
T cd04114          79 SANALILTYDITCEESFRCLPEWLREIEQYANNKVI--TILVGNKIDLAER--REVSQQRAEEFSDAQD-MYYLETSAKE  153 (169)
T ss_pred             CCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCe--EEEEEECcccccc--cccCHHHHHHHHHHcC-CeEEEeeCCC
Confidence            46888999998765321   110       112333  4999999999765  332 233344444444 7899999999


Q ss_pred             CCCHHHHHHhhh
Q 032030          133 VIGIIFTLSITH  144 (148)
Q Consensus       133 g~gi~~l~~~~~  144 (148)
                      |.|++++|+++.
T Consensus       154 ~~gv~~l~~~i~  165 (169)
T cd04114         154 SDNVEKLFLDLA  165 (169)
T ss_pred             CCCHHHHHHHHH
Confidence            999999999876

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.

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=97.83  E-value=4.8e-05  Score=54.61  Aligned_cols=97  Identities=12%  Similarity=0.049  Sum_probs=59.4

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCc----------cccCC-----CCcceeeEEEEecCCCCCch
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKI----------PRKGG-----PGITQADLLVINKTDLASAI  105 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~----------~~~~~-----~qi~~ADivViNK~DL~~~~  105 (148)
                      +.+-+.+|.|.-.....   .-..+|.++.++|..+....          .....     .+.+  -++|.||+|+.++.
T Consensus        49 ~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~~  126 (168)
T cd04119          49 VRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIV--VVVCANKIDLTKHR  126 (168)
T ss_pred             EEEEEEECCccHHHHHHHHHHhccCCEEEEEEECCCHHHHHhHHHHHHHHHHhccccccCCCce--EEEEEEchhccccc
Confidence            44556666664211001   11357888999998764221          01111     2344  69999999997431


Q ss_pred             hhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          106 GADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       106 ~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ....+...+..++.+  .+++++||++|.|++++++++.
T Consensus       127 ~~~~~~~~~~~~~~~--~~~~~~Sa~~~~gi~~l~~~l~  163 (168)
T cd04119         127 AVSEDEGRLWAESKG--FKYFETSACTGEGVNEMFQTLF  163 (168)
T ss_pred             ccCHHHHHHHHHHcC--CeEEEEECCCCCCHHHHHHHHH
Confidence            122334444455433  6899999999999999999876

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.

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

Probab=97.81  E-value=4.7e-05  Score=56.02  Aligned_cols=100  Identities=13%  Similarity=0.024  Sum_probs=59.1

Q ss_pred             CCCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc-------cc--CCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           43 KADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP-------RK--GGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~-------~~--~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      .+.+.+++++|..-...+   ....++.++++.|........       ..  .........++++||+|+...-....+
T Consensus        48 ~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~  127 (180)
T cd04137          48 DYHLEIVDTAGQDEYSILPQKYSIGIHGYILVYSVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHTQRQVSTE  127 (180)
T ss_pred             EEEEEEEECCChHhhHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEchhhhhcCccCHH
Confidence            355678888885321111   113467788999987653210       00  001112237999999999743001112


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ......+..  +.+++++||++|.|+++++.++.
T Consensus       128 ~~~~~~~~~--~~~~~~~Sa~~~~gv~~l~~~l~  159 (180)
T cd04137         128 EGKELAESW--GAAFLESSARENENVEEAFELLI  159 (180)
T ss_pred             HHHHHHHHc--CCeEEEEeCCCCCCHHHHHHHHH
Confidence            233333332  36899999999999999998874

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

>cd01862 Rab7 Rab7 subfamily

Probab=97.81  E-value=6.2e-05  Score=54.54  Aligned_cols=78  Identities=13%  Similarity=0.083  Sum_probs=51.2

Q ss_pred             cCceEEEEEeCCCCCCcc----------c-cC---CCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEE
Q 032030           64 LADYIIYIIDVSGGDKIP----------R-KG---GPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQ  129 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~----------~-~~---~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tS  129 (148)
                      .+|.+++++|+.......          . ..   +..++  -++|+||+|+..+.....+.+....+. ....+++++|
T Consensus        72 ~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p--~ilv~nK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~~~S  148 (172)
T cd01862          72 GADCCVLVYDVTNPKSFESLDSWRDEFLIQASPSDPENFP--FVVLGNKIDLEEKRQVSTKKAQQWCQS-NGNIPYFETS  148 (172)
T ss_pred             CCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCccCCCCce--EEEEEECcccccccccCHHHHHHHHHH-cCCceEEEEE
Confidence            468889999987653210          0 00   12445  478899999984300223445555543 3346899999


Q ss_pred             ecCCCCHHHHHHhhh
Q 032030          130 VGWVIGIIFTLSITH  144 (148)
Q Consensus       130 a~~g~gi~~l~~~~~  144 (148)
                      +++|.|++++++++.
T Consensus       149 a~~~~gv~~l~~~i~  163 (172)
T cd01862         149 AKEAINVEQAFETIA  163 (172)
T ss_pred             CCCCCCHHHHHHHHH
Confidence            999999999998865

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-

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=97.79  E-value=5.8e-05  Score=63.57  Aligned_cols=99  Identities=19%  Similarity=0.184  Sum_probs=63.2

Q ss_pred             CEEEEecCCceeee--------eec--cccCceEEEEEeCCCCC--C-------ccc---cCCCC-cceeeEEEEecCCC
Q 032030           45 DLLLCESGGDNLAA--------NFS--RELADYIIYIIDVSGGD--K-------IPR---KGGPG-ITQADLLVINKTDL  101 (148)
Q Consensus        45 D~IliEtsG~~~~~--------~~~--~~~~d~~i~vvDa~~~~--~-------~~~---~~~~q-i~~ADivViNK~DL  101 (148)
                      .++|+.+.|+.-.+        .|.  -..+|.+++|+|+...+  +       +..   .+... .....++|+||+|+
T Consensus       208 ~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~radvlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl  287 (390)
T PRK12298        208 SFVVADIPGLIEGASEGAGLGIRFLKHLERCRVLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDL  287 (390)
T ss_pred             EEEEEeCCCccccccchhhHHHHHHHHHHhCCEEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCcc
Confidence            37899999974321        111  13468899999987321  1       000   01110 12236999999999


Q ss_pred             CCchhhhHHHHHHHHHhcCCC-CcEEEEEecCCCCHHHHHHhhhh
Q 032030          102 ASAIGADLAVMERDALRMRDG-GPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       102 ~~~~~~~l~~~~~~i~~~np~-a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      .+.  .++....+.+++..+. .+++++||+++.|+++|++++.-
T Consensus       288 ~~~--~el~~~l~~l~~~~~~~~~Vi~ISA~tg~GIdeLl~~I~~  330 (390)
T PRK12298        288 LDE--EEAEERAKAIVEALGWEGPVYLISAASGLGVKELCWDLMT  330 (390)
T ss_pred             CCh--HHHHHHHHHHHHHhCCCCCEEEEECCCCcCHHHHHHHHHH
Confidence            876  6655444444443333 48999999999999999988754

>cd04147 Ras_dva Ras-dva subfamily

Probab=97.79  E-value=8.4e-05  Score=56.11  Aligned_cols=97  Identities=10%  Similarity=0.002  Sum_probs=59.5

Q ss_pred             CCEEEEecCCceeeee---eccccCceEEEEEeCCCCCCcc----------cc-CCCCcceeeEEEEecCCCCCchhhh-
Q 032030           44 ADLLLCESGGDNLAAN---FSRELADYIIYIIDVSGGDKIP----------RK-GGPGITQADLLVINKTDLASAIGAD-  108 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~---~~~~~~d~~i~vvDa~~~~~~~----------~~-~~~qi~~ADivViNK~DL~~~~~~~-  108 (148)
                      ..+.++.+.|.--...   .....+|.+++|+|+.+...+.          .. ....++  -++|+||+|+.... .. 
T Consensus        47 ~~l~i~D~~G~~~~~~~~~~~~~~ad~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~p--iilv~NK~Dl~~~~-~~v  123 (198)
T cd04147          47 LTLDILDTSGSYSFPAMRKLSIQNSDAFALVYAVDDPESFEEVERLREEILEVKEDKFVP--IVVVGNKADSLEEE-RQV  123 (198)
T ss_pred             EEEEEEECCCchhhhHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCc--EEEEEEcccccccc-ccc
Confidence            4556777777432111   1124678999999987653211          00 112344  69999999997630 11 


Q ss_pred             -HHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          109 -LAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       109 -l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                       .+...+.. ......+++++||++|.|++++++++.
T Consensus       124 ~~~~~~~~~-~~~~~~~~~~~Sa~~g~gv~~l~~~l~  159 (198)
T cd04147         124 PAKDALSTV-ELDWNCGFVETSAKDNENVLEVFKELL  159 (198)
T ss_pred             cHHHHHHHH-HhhcCCcEEEecCCCCCCHHHHHHHHH
Confidence             12222222 223457899999999999999999875

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.

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=97.79  E-value=2.9e-05  Score=57.46  Aligned_cols=76  Identities=20%  Similarity=0.076  Sum_probs=51.2

Q ss_pred             cCceEEEEEeCCCCCCcc----------c-cCCCCcceeeEEEEecCCCCCchhhhH--HHHHHHHHhcCCCCcEEEEEe
Q 032030           64 LADYIIYIIDVSGGDKIP----------R-KGGPGITQADLLVINKTDLASAIGADL--AVMERDALRMRDGGPFIFAQV  130 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~----------~-~~~~qi~~ADivViNK~DL~~~~~~~l--~~~~~~i~~~np~a~vi~tSa  130 (148)
                      .+|.++++.|..+...+.          . ...+.++  -++|.||+|+.+.  ..+  +...+..++.  +.+++++||
T Consensus        73 ~~d~~ilv~d~~~~~Sf~~~~~~~~~i~~~~~~~~~p--iilvgNK~Dl~~~--~~v~~~~~~~~a~~~--~~~~~e~Sa  146 (172)
T cd04141          73 CGEGFIICYSVTDRHSFQEASEFKKLITRVRLTEDIP--LVLVGNKVDLESQ--RQVTTEEGRNLAREF--NCPFFETSA  146 (172)
T ss_pred             cCCEEEEEEECCchhHHHHHHHHHHHHHHhcCCCCCC--EEEEEEChhhhhc--CccCHHHHHHHHHHh--CCEEEEEec
Confidence            467889999987653211          1 1112344  6999999998654  222  2333444433  479999999


Q ss_pred             cCCCCHHHHHHhhhh
Q 032030          131 GWVIGIIFTLSITHY  145 (148)
Q Consensus       131 ~~g~gi~~l~~~~~~  145 (148)
                      ++|.|++++|++++-
T Consensus       147 ~~~~~v~~~f~~l~~  161 (172)
T cd04141         147 ALRHYIDDAFHGLVR  161 (172)
T ss_pred             CCCCCHHHHHHHHHH
Confidence            999999999999864

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

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=97.78  E-value=4.4e-05  Score=65.62  Aligned_cols=72  Identities=21%  Similarity=0.219  Sum_probs=52.2

Q ss_pred             EEEEEeCCCCCCcccc---C---CCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcC--CCCcEEEEEecCCCCHHHH
Q 032030           68 IIYIIDVSGGDKIPRK---G---GPGITQADLLVINKTDLASAIGADLAVMERDALRMR--DGGPFIFAQVGWVIGIIFT  139 (148)
Q Consensus        68 ~i~vvDa~~~~~~~~~---~---~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~n--p~a~vi~tSa~~g~gi~~l  139 (148)
                      .+.||||++|-+-+..   +   ...++  -+-|+||+||...   +.+++.+.++..-  +....+.+|||||.|++++
T Consensus       103 alLvVDAsQGveAQTlAN~YlAle~~Le--IiPViNKIDLP~A---dpervk~eIe~~iGid~~dav~~SAKtG~gI~~i  177 (603)
T COG0481         103 ALLVVDASQGVEAQTLANVYLALENNLE--IIPVLNKIDLPAA---DPERVKQEIEDIIGIDASDAVLVSAKTGIGIEDV  177 (603)
T ss_pred             cEEEEECccchHHHHHHHHHHHHHcCcE--EEEeeecccCCCC---CHHHHHHHHHHHhCCCcchheeEecccCCCHHHH
Confidence            4889999998653221   1   12344  5779999999764   5667777776544  5567799999999999999


Q ss_pred             HHhhh
Q 032030          140 LSITH  144 (148)
Q Consensus       140 ~~~~~  144 (148)
                      ++.+.
T Consensus       178 Le~Iv  182 (603)
T COG0481         178 LEAIV  182 (603)
T ss_pred             HHHHH
Confidence            98753

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

Probab=97.78  E-value=4.3e-05  Score=54.98  Aligned_cols=99  Identities=14%  Similarity=0.100  Sum_probs=60.4

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc----------cc-CCCCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP----------RK-GGPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~----------~~-~~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      +.+-+++|.|.-....+.   -..+|.+++++|+.......          .. ....++  -++++||+|+.+.-....
T Consensus        50 ~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~p--iiiv~NK~Dl~~~~~~~~  127 (164)
T cd04145          50 AILDILDTAGQEEFSAMREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFP--MILVGNKADLEHQRKVSR  127 (164)
T ss_pred             EEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCC--EEEEeeCccccccceecH
Confidence            345567777743211111   13568889999987643210          00 112344  588999999976411122


Q ss_pred             HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhhh
Q 032030          110 AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHYI  146 (148)
Q Consensus       110 ~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~~  146 (148)
                      +...+..+..  +.+++++||++|.|++++|+++...
T Consensus       128 ~~~~~~~~~~--~~~~~~~Sa~~~~~i~~l~~~l~~~  162 (164)
T cd04145         128 EEGQELARKL--KIPYIETSAKDRLNVDKAFHDLVRV  162 (164)
T ss_pred             HHHHHHHHHc--CCcEEEeeCCCCCCHHHHHHHHHHh
Confidence            3444444432  3589999999999999999988643

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=97.78  E-value=6.1e-05  Score=54.13  Aligned_cols=98  Identities=16%  Similarity=0.113  Sum_probs=61.0

Q ss_pred             CCCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc---c------cCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           43 KADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP---R------KGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~---~------~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      .+++.+.++.|.-....+.   -..+|.++.|.|+.......   .      .....++  -++|+||+|+.++.....+
T Consensus        50 ~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~v~d~~~~~s~~~l~~~~~~~~~~~~~~p--~iiv~nK~Dl~~~~~v~~~  127 (162)
T cd04106          50 DVRLMLWDTAGQEEFDAITKAYYRGAQACILVFSTTDRESFEAIESWKEKVEAECGDIP--MVLVQTKIDLLDQAVITNE  127 (162)
T ss_pred             EEEEEEeeCCchHHHHHhHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCC--EEEEEEChhcccccCCCHH
Confidence            4567777888842111110   13568888999986543211   0      0112344  5999999999764111223


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +..+..+..  +.+++++||++|.|+++++++++
T Consensus       128 ~~~~~~~~~--~~~~~~~Sa~~~~~v~~l~~~l~  159 (162)
T cd04106         128 EAEALAKRL--QLPLFRTSVKDDFNVTELFEYLA  159 (162)
T ss_pred             HHHHHHHHc--CCeEEEEECCCCCCHHHHHHHHH
Confidence            444445543  35899999999999999999875

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

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

Probab=97.77  E-value=6.6e-05  Score=57.38  Aligned_cols=77  Identities=19%  Similarity=0.151  Sum_probs=53.4

Q ss_pred             cCceEEEEEeCCCCCCc----------cccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKI----------PRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~----------~~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      .++..|.|.|..+.+.+          +...++.+-  -.+|.||+||.+.-.-+.+....+..  ..++..+.||||||
T Consensus        77 gA~AAivvYDit~~~SF~~aK~WvkeL~~~~~~~~v--ialvGNK~DL~~~R~V~~~ea~~yAe--~~gll~~ETSAKTg  152 (200)
T KOG0092|consen   77 GANAAIVVYDITDEESFEKAKNWVKELQRQASPNIV--IALVGNKADLLERREVEFEEAQAYAE--SQGLLFFETSAKTG  152 (200)
T ss_pred             CCcEEEEEEecccHHHHHHHHHHHHHHHhhCCCCeE--EEEecchhhhhhcccccHHHHHHHHH--hcCCEEEEEecccc
Confidence            34556888998776432          111222222  25789999999842245566777776  47789999999999


Q ss_pred             CCHHHHHHhhh
Q 032030          134 IGIIFTLSITH  144 (148)
Q Consensus       134 ~gi~~l~~~~~  144 (148)
                      .|++++|..++
T Consensus       153 ~Nv~~if~~Ia  163 (200)
T KOG0092|consen  153 ENVNEIFQAIA  163 (200)
T ss_pred             cCHHHHHHHHH
Confidence            99999998765

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

Probab=97.77  E-value=5.8e-05  Score=53.88  Aligned_cols=78  Identities=17%  Similarity=0.120  Sum_probs=50.2

Q ss_pred             cCceEEEEEeCCCCCCc----------ccc-CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecC
Q 032030           64 LADYIIYIIDVSGGDKI----------PRK-GGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGW  132 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~----------~~~-~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~  132 (148)
                      .+|..+.++|......+          ... ....++  -++|.||+|+.+.. ...+...+..+..  ..+++++||++
T Consensus        72 ~~~~~i~v~~~~~~~s~~~~~~~~~~i~~~~~~~~~p--iivv~nK~Dl~~~~-~~~~~~~~~~~~~--~~~~~~~Sa~~  146 (162)
T cd04138          72 TGEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVP--MVLVGNKCDLAART-VSSRQGQDLAKSY--GIPYIETSAKT  146 (162)
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC--EEEEEECcccccce-ecHHHHHHHHHHh--CCeEEEecCCC
Confidence            46777888887654211          000 112344  58999999997640 1223344444433  35899999999


Q ss_pred             CCCHHHHHHhhhhh
Q 032030          133 VIGIIFTLSITHYI  146 (148)
Q Consensus       133 g~gi~~l~~~~~~~  146 (148)
                      |.|+++++++++..
T Consensus       147 ~~gi~~l~~~l~~~  160 (162)
T cd04138         147 RQGVEEAFYTLVRE  160 (162)
T ss_pred             CCCHHHHHHHHHHH
Confidence            99999999998754

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.

>PRK12288 GTPase RsgA; Reviewed

Probab=97.77  E-value=6.5e-05  Score=62.34  Aligned_cols=49  Identities=18%  Similarity=0.041  Sum_probs=36.8

Q ss_pred             eEEEEecCCCCCchhhhHHHH---HHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030           92 DLLVINKTDLASAIGADLAVM---ERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus        92 DivViNK~DL~~~~~~~l~~~---~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      -++|+||+||.++  .+.+.+   .+.++.  .+.+++.+||+++.|+++|++++.
T Consensus       153 ~VIVlNK~DL~~~--~~~~~~~~~~~~y~~--~g~~v~~vSA~tg~GideL~~~L~  204 (347)
T PRK12288        153 PLIVLNKIDLLDD--EGRAFVNEQLDIYRN--IGYRVLMVSSHTGEGLEELEAALT  204 (347)
T ss_pred             EEEEEECccCCCc--HHHHHHHHHHHHHHh--CCCeEEEEeCCCCcCHHHHHHHHh
Confidence            4899999999886  543333   333333  346999999999999999998764

>cd00154 Rab Rab family

Probab=97.76  E-value=0.00014  Score=51.22  Aligned_cols=77  Identities=17%  Similarity=0.060  Sum_probs=51.5

Q ss_pred             cCceEEEEEeCCCCCCc---c-------ccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKI---P-------RKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~---~-------~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      .+|.+++++|+.+.+..   .       .......+  -++++||+|+.++.....+.+.+..+.  ...+++.+|+++|
T Consensus        72 ~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~p--~ivv~nK~D~~~~~~~~~~~~~~~~~~--~~~~~~~~sa~~~  147 (159)
T cd00154          72 GAHGAILVYDITNRESFENLDKWLKELKEYAPENIP--IILVGNKIDLEDQRQVSTEEAQQFAKE--NGLLFFETSAKTG  147 (159)
T ss_pred             CCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCc--EEEEEEcccccccccccHHHHHHHHHH--cCCeEEEEecCCC
Confidence            46889999999764321   0       01112355  489999999963211233445555543  3578999999999


Q ss_pred             CCHHHHHHhhh
Q 032030          134 IGIIFTLSITH  144 (148)
Q Consensus       134 ~gi~~l~~~~~  144 (148)
                      .|++++++++.
T Consensus       148 ~~i~~~~~~i~  158 (159)
T cd00154         148 ENVEELFQSLA  158 (159)
T ss_pred             CCHHHHHHHHh
Confidence            99999999864

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

>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=97.76  E-value=8.2e-05  Score=55.44  Aligned_cols=77  Identities=19%  Similarity=0.170  Sum_probs=53.3

Q ss_pred             cCceEEEEEeCCCCCCccc-------c-CC---CCcceeeEEEEecCCCCCchhhhHHHHHHHHH--hcC--CCCcEEEE
Q 032030           64 LADYIIYIIDVSGGDKIPR-------K-GG---PGITQADLLVINKTDLASAIGADLAVMERDAL--RMR--DGGPFIFA  128 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~-------~-~~---~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~--~~n--p~a~vi~t  128 (148)
                      ..|.+|+|+|+.....+..       . ..   ...|  -+|+.||.|+.+.  ...+.+.+.+.  .+.  ....++.+
T Consensus        81 ~~~~iIfVvDssd~~~l~e~~~~L~~ll~~~~~~~~p--iLIl~NK~D~~~~--~~~~~i~~~l~l~~l~~~~~~~v~~~  156 (175)
T PF00025_consen   81 NADGIIFVVDSSDPERLQEAKEELKELLNDPELKDIP--ILILANKQDLPDA--MSEEEIKEYLGLEKLKNKRPWSVFSC  156 (175)
T ss_dssp             TESEEEEEEETTGGGGHHHHHHHHHHHHTSGGGTTSE--EEEEEESTTSTTS--STHHHHHHHTTGGGTTSSSCEEEEEE
T ss_pred             ccceeEEEEecccceeecccccchhhhcchhhcccce--EEEEeccccccCc--chhhHHHhhhhhhhcccCCceEEEee
Confidence            4577899999986543110       0 11   1345  5788899999876  45556665553  333  34578999


Q ss_pred             EecCCCCHHHHHHhhh
Q 032030          129 QVGWVIGIIFTLSITH  144 (148)
Q Consensus       129 Sa~~g~gi~~l~~~~~  144 (148)
                      ||.+|.|+.+-++|+.
T Consensus       157 sa~~g~Gv~e~l~WL~  172 (175)
T PF00025_consen  157 SAKTGEGVDEGLEWLI  172 (175)
T ss_dssp             BTTTTBTHHHHHHHHH
T ss_pred             eccCCcCHHHHHHHHH
Confidence            9999999999999974

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 ....

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=97.76  E-value=8e-05  Score=56.30  Aligned_cols=98  Identities=19%  Similarity=0.100  Sum_probs=60.2

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc----------c--cC--CCCcceeeEEEEecCCCCCchh
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP----------R--KG--GPGITQADLLVINKTDLASAIG  106 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~----------~--~~--~~qi~~ADivViNK~DL~~~~~  106 (148)
                      +.+.+.++.|.-....+.   -..+|.+++++|......+.          .  ..  ...++  -++|.||+|+.+...
T Consensus        50 ~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~p--iilv~NK~Dl~~~~~  127 (201)
T cd04107          50 VRLQLWDIAGQERFGGMTRVYYRGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIP--CLLLANKCDLKKRLA  127 (201)
T ss_pred             EEEEEEECCCchhhhhhHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhcccCCCCCc--EEEEEECCCcccccc
Confidence            345566666642111111   13568889999987643210          0  01  12344  599999999973211


Q ss_pred             hhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          107 ADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       107 ~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ...+.+.+..+..+ ..+++++||++|.|++++|+++.
T Consensus       128 ~~~~~~~~~~~~~~-~~~~~e~Sak~~~~v~e~f~~l~  164 (201)
T cd04107         128 KDGEQMDQFCKENG-FIGWFETSAKEGINIEEAMRFLV  164 (201)
T ss_pred             cCHHHHHHHHHHcC-CceEEEEeCCCCCCHHHHHHHHH
Confidence            33345666665433 35899999999999999999875

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.

>cd04125 RabA_like RabA-like subfamily

Probab=97.75  E-value=7.1e-05  Score=55.78  Aligned_cols=96  Identities=15%  Similarity=0.157  Sum_probs=58.1

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhhH-
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGADL-  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~l-  109 (148)
                      +.+-+.++.|.......   .-..+|.+++|+|......+.          .......+  -+++.||+|+.+.  ... 
T Consensus        49 ~~~~i~Dt~g~~~~~~~~~~~~~~~d~iilv~d~~~~~s~~~i~~~~~~i~~~~~~~~~--~ivv~nK~Dl~~~--~~v~  124 (188)
T cd04125          49 IKLQIWDTNGQERFRSLNNSYYRGAHGYLLVYDVTDQESFENLKFWINEINRYARENVI--KVIVANKSDLVNN--KVVD  124 (188)
T ss_pred             EEEEEEECCCcHHHHhhHHHHccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCe--EEEEEECCCCccc--ccCC
Confidence            44456677774211100   013578899999987653211          11112233  4889999999854  322 


Q ss_pred             -HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          110 -AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       110 -~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                       +...+..+.  .+.+++.+||++|.|++++|++++-
T Consensus       125 ~~~~~~~~~~--~~~~~~evSa~~~~~i~~~f~~l~~  159 (188)
T cd04125         125 SNIAKSFCDS--LNIPFFETSAKQSINVEEAFILLVK  159 (188)
T ss_pred             HHHHHHHHHH--cCCeEEEEeCCCCCCHHHHHHHHHH
Confidence             233333333  2458999999999999999998764

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.

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

Probab=97.75  E-value=6.8e-05  Score=57.43  Aligned_cols=97  Identities=10%  Similarity=-0.026  Sum_probs=60.0

Q ss_pred             CCCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc---c------cCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           43 KADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP---R------KGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~---~------~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      .+.+-+.+++|.-....+.   -..+|.+++|.|......+.   .      ...+.++  -++|.||+||...  ....
T Consensus        43 ~~~l~iwDt~G~e~~~~l~~~~~~~ad~~ilV~D~t~~~S~~~i~~w~~~i~~~~~~~p--iilvgNK~Dl~~~--~v~~  118 (200)
T smart00176       43 PIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTARVTYKNVPNWHRDLVRVCENIP--IVLCGNKVDVKDR--KVKA  118 (200)
T ss_pred             EEEEEEEECCCchhhhhhhHHHhcCCCEEEEEEECCChHHHHHHHHHHHHHHHhCCCCC--EEEEEECcccccc--cCCH
Confidence            4556677777753211111   13568889999998764321   0      1112344  6899999998653  2111


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +..+..+.  ...+++.+||++|.|++++|++++-
T Consensus       119 ~~~~~~~~--~~~~~~e~SAk~~~~v~~~F~~l~~  151 (200)
T smart00176      119 KSITFHRK--KNLQYYDISAKSNYNFEKPFLWLAR  151 (200)
T ss_pred             HHHHHHHH--cCCEEEEEeCCCCCCHHHHHHHHHH
Confidence            22233332  3468999999999999999999874

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

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=97.75  E-value=5.7e-05  Score=64.59  Aligned_cols=89  Identities=22%  Similarity=0.200  Sum_probs=58.2

Q ss_pred             CCEEEEecCCceeeee------e-----ccccCceEEEEEeCCCCCCccc---c-CCCCcceeeEEEEecCCCCCchhhh
Q 032030           44 ADLLLCESGGDNLAAN------F-----SRELADYIIYIIDVSGGDKIPR---K-GGPGITQADLLVINKTDLASAIGAD  108 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~------~-----~~~~~d~~i~vvDa~~~~~~~~---~-~~~qi~~ADivViNK~DL~~~~~~~  108 (148)
                      ..+.++.|.|.-....      +     .-..+|.+++|+|+..+.....   . .....+  -++|+||+|+.+.  ..
T Consensus       263 ~~i~l~DT~G~~~~~~~ie~~gi~~~~~~~~~aD~il~VvD~s~~~s~~~~~~l~~~~~~p--iiiV~NK~DL~~~--~~  338 (449)
T PRK05291        263 IPLRLIDTAGIRETDDEVEKIGIERSREAIEEADLVLLVLDASEPLTEEDDEILEELKDKP--VIVVLNKADLTGE--ID  338 (449)
T ss_pred             eEEEEEeCCCCCCCccHHHHHHHHHHHHHHHhCCEEEEEecCCCCCChhHHHHHHhcCCCC--cEEEEEhhhcccc--ch
Confidence            4567788888632110      0     1134788999999976542111   0 012233  5999999999876  43


Q ss_pred             HHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          109 LAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       109 l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ..        ..+..+++++||++|.|+++|++++.
T Consensus       339 ~~--------~~~~~~~i~iSAktg~GI~~L~~~L~  366 (449)
T PRK05291        339 LE--------EENGKPVIRISAKTGEGIDELREAIK  366 (449)
T ss_pred             hh--------hccCCceEEEEeeCCCCHHHHHHHHH
Confidence            22        23446889999999999999998874

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=97.75  E-value=0.00014  Score=64.32  Aligned_cols=96  Identities=13%  Similarity=0.152  Sum_probs=59.4

Q ss_pred             CEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhHHHHHHH
Q 032030           45 DLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADLAVMERD  115 (148)
Q Consensus        45 D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~  115 (148)
                      .+.|+.|.|-.-...+   .....|..+.|+|+..+...+.      .....++  -++++||+|+.+.   ..+++.+.
T Consensus       136 ~i~~iDTPGhe~F~~~r~rga~~aDiaILVVda~dgv~~qT~e~i~~~~~~~vP--iIVviNKiDl~~~---~~e~v~~~  210 (587)
T TIGR00487       136 MITFLDTPGHEAFTSMRARGAKVTDIVVLVVAADDGVMPQTIEAISHAKAANVP--IIVAINKIDKPEA---NPDRVKQE  210 (587)
T ss_pred             EEEEEECCCCcchhhHHHhhhccCCEEEEEEECCCCCCHhHHHHHHHHHHcCCC--EEEEEECcccccC---CHHHHHHH
Confidence            4566677774311111   1235688899999887643111      1112455  6999999999653   22334444


Q ss_pred             HHhc-------CCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          116 ALRM-------RDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       116 i~~~-------np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +++.       ....+++++||++|.|++++++++..
T Consensus       211 L~~~g~~~~~~~~~~~~v~iSAktGeGI~eLl~~I~~  247 (587)
T TIGR00487       211 LSEYGLVPEDWGGDTIFVPVSALTGDGIDELLDMILL  247 (587)
T ss_pred             HHHhhhhHHhcCCCceEEEEECCCCCChHHHHHhhhh
Confidence            3322       22458999999999999999998754

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.

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=97.74  E-value=9.2e-05  Score=54.37  Aligned_cols=98  Identities=16%  Similarity=0.076  Sum_probs=61.7

Q ss_pred             CCCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc-------cc--CC--CCcceeeEEEEecCCCCCchhhh
Q 032030           43 KADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP-------RK--GG--PGITQADLLVINKTDLASAIGAD  108 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~-------~~--~~--~qi~~ADivViNK~DL~~~~~~~  108 (148)
                      ++.+.++++.|..-....+   -..+|.+++|+|+.....+.       ..  ..  ...+  -++|+||+|+.+.  ..
T Consensus        42 ~~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~V~D~s~~~s~~~~~~~l~~l~~~~~~~~~p--iliv~NK~Dl~~~--~~  117 (167)
T cd04161          42 KYEVCIFDLGGGANFRGIWVNYYAEAHGLVFVVDSSDDDRVQEVKEILRELLQHPRVSGKP--ILVLANKQDKKNA--LL  117 (167)
T ss_pred             CEEEEEEECCCcHHHHHHHHHHHcCCCEEEEEEECCchhHHHHHHHHHHHHHcCccccCCc--EEEEEeCCCCcCC--CC
Confidence            5667788888853211111   13678899999987653221       00  11  1334  6999999999776  43


Q ss_pred             HHHHHHHHH--hc----CCCCcEEEEEecCC------CCHHHHHHhhh
Q 032030          109 LAVMERDAL--RM----RDGGPFIFAQVGWV------IGIIFTLSITH  144 (148)
Q Consensus       109 l~~~~~~i~--~~----np~a~vi~tSa~~g------~gi~~l~~~~~  144 (148)
                      .+.+.+.+.  .+    +...+++++||++|      .|+.+-|+|+.
T Consensus       118 ~~~i~~~~~l~~~~~~~~~~~~~~~~Sa~~g~~~~~~~g~~~~~~wl~  165 (167)
T cd04161         118 GADVIEYLSLEKLVNENKSLCHIEPCSAIEGLGKKIDPSIVEGLRWLL  165 (167)
T ss_pred             HHHHHHhcCcccccCCCCceEEEEEeEceeCCCCccccCHHHHHHHHh
Confidence            344443321  21    22347888999998      89999999984

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.

>cd04132 Rho4_like Rho4-like subfamily

Probab=97.74  E-value=8.7e-05  Score=55.01  Aligned_cols=99  Identities=16%  Similarity=0.088  Sum_probs=60.4

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCccc----c------CCCCcceeeEEEEecCCCCCchh----
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIPR----K------GGPGITQADLLVINKTDLASAIG----  106 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~~----~------~~~qi~~ADivViNK~DL~~~~~----  106 (148)
                      +.+.+.+|.|......+.   -..+|.++++.|......+..    .      ..+.+|  -++|.||+|+.+...    
T Consensus        49 ~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~~~~~~~  126 (187)
T cd04132          49 IELALWDTAGQEEYDRLRPLSYPDVDVLLICYAVDNPTSLDNVEDKWFPEVNHFCPGTP--IMLVGLKTDLRKDKNLDRK  126 (187)
T ss_pred             EEEEEEECCCchhHHHHHHHhCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC--EEEEEeChhhhhCccccCC
Confidence            456677777743111111   135788999999876532110    1      123455  589999999976300    


Q ss_pred             hhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          107 ADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       107 ~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      -..+...+..+..+ ..+++.+||++|.|++++|+.++-
T Consensus       127 v~~~~~~~~~~~~~-~~~~~e~Sa~~~~~v~~~f~~l~~  164 (187)
T cd04132         127 VTPAQAESVAKKQG-AFAYLECSAKTMENVEEVFDTAIE  164 (187)
T ss_pred             cCHHHHHHHHHHcC-CcEEEEccCCCCCCHHHHHHHHHH
Confidence            01234444444332 227899999999999999988764

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.

>cd04135 Tc10 TC10 subfamily

Probab=97.74  E-value=0.00018  Score=52.42  Aligned_cols=96  Identities=14%  Similarity=0.121  Sum_probs=58.2

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhh--
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGAD--  108 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~--  108 (148)
                      +.+-++++.|........   -..+|.++++.|......+.          ....+..+  -++|.||+|+.+.  ..  
T Consensus        48 ~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~~~~~~~s~~~~~~~~~~~l~~~~~~~p--iivv~nK~Dl~~~--~~~~  123 (174)
T cd04135          48 YLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVP--YLLVGTQIDLRDD--PKTL  123 (174)
T ss_pred             EEEEEEeCCCcccccccccccCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCC--EEEEeEchhhhcC--hhhH
Confidence            445567788754321111   13567888888887653211          01123445  4889999999654  21  


Q ss_pred             ------------HHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          109 ------------LAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       109 ------------l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                                  .+...+..++.+ ..+++.+||++|.|++++|+.++
T Consensus       124 ~~~~~~~~~~v~~~~~~~~~~~~~-~~~~~e~Sa~~~~gi~~~f~~~~  170 (174)
T cd04135         124 ARLNDMKEKPVTVEQGQKLAKEIG-AHCYVECSALTQKGLKTVFDEAI  170 (174)
T ss_pred             HHHhhccCCCCCHHHHHHHHHHcC-CCEEEEecCCcCCCHHHHHHHHH
Confidence                        122333444333 34789999999999999998764

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

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=97.74  E-value=9.7e-05  Score=64.05  Aligned_cols=51  Identities=22%  Similarity=0.187  Sum_probs=38.6

Q ss_pred             eEEEEecCCCCCchhhhHH-HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhhh
Q 032030           92 DLLVINKTDLASAIGADLA-VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHYI  146 (148)
Q Consensus        92 DivViNK~DL~~~~~~~l~-~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~~  146 (148)
                      -+||+||+|+.+.  .++. .+.+.+++.  ..+++++||+++.|+++|+.++.-.
T Consensus       287 ~IVVlNKiDL~da--~el~e~l~~~l~~~--g~~Vf~ISA~tgeGLdEL~~~L~el  338 (500)
T PRK12296        287 RLVVLNKIDVPDA--RELAEFVRPELEAR--GWPVFEVSAASREGLRELSFALAEL  338 (500)
T ss_pred             EEEEEECccchhh--HHHHHHHHHHHHHc--CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            6999999999765  4433 344444433  4689999999999999999987644

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=97.72  E-value=9e-05  Score=55.18  Aligned_cols=77  Identities=16%  Similarity=0.022  Sum_probs=50.6

Q ss_pred             ceEEEEEeCCCCCCcc-----cc-CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCC--CCcEEEEEecCCCCHH
Q 032030           66 DYIIYIIDVSGGDKIP-----RK-GGPGITQADLLVINKTDLASAIGADLAVMERDALRMRD--GGPFIFAQVGWVIGII  137 (148)
Q Consensus        66 d~~i~vvDa~~~~~~~-----~~-~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np--~a~vi~tSa~~g~gi~  137 (148)
                      +..+.++|+.......     .. ....++  -++++||+|+.+.  .+.++..+.+++...  ..+++++||++|.|++
T Consensus       108 ~~~~~v~d~~~~~~~~~~~i~~~l~~~~~~--~iiv~nK~Dl~~~--~~~~~~~~~i~~~l~~~~~~~~~~Sa~~~~gi~  183 (196)
T PRK00454        108 KGVVLLIDSRHPLKELDLQMIEWLKEYGIP--VLIVLTKADKLKK--GERKKQLKKVRKALKFGDDEVILFSSLKKQGID  183 (196)
T ss_pred             eEEEEEEecCCCCCHHHHHHHHHHHHcCCc--EEEEEECcccCCH--HHHHHHHHHHHHHHHhcCCceEEEEcCCCCCHH
Confidence            5567788876543211     10 111333  5899999999887  665554443432221  5799999999999999


Q ss_pred             HHHHhhhhh
Q 032030          138 FTLSITHYI  146 (148)
Q Consensus       138 ~l~~~~~~~  146 (148)
                      ++++++.-.
T Consensus       184 ~l~~~i~~~  192 (196)
T PRK00454        184 ELRAAIAKW  192 (196)
T ss_pred             HHHHHHHHH
Confidence            999987643

>cd01866 Rab2 Rab2 subfamily

Probab=97.71  E-value=0.00016  Score=52.89  Aligned_cols=97  Identities=16%  Similarity=0.117  Sum_probs=59.2

Q ss_pred             CCEEEEecCCcee----eeeeccccCceEEEEEeCCCCCCcc---cc-------CCCCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNL----AANFSRELADYIIYIIDVSGGDKIP---RK-------GGPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~----~~~~~~~~~d~~i~vvDa~~~~~~~---~~-------~~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      ..+.+.++.|.--    ...+ -..+|.+++++|+.......   ..       ..+.++  -++|.||+|+.+......
T Consensus        53 ~~~~i~Dt~G~~~~~~~~~~~-~~~~d~il~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p--vivv~nK~Dl~~~~~~~~  129 (168)
T cd01866          53 IKLQIWDTAGQESFRSITRSY-YRGAAGALLVYDITRRETFNHLTSWLEDARQHSNSNMT--IMLIGNKCDLESRREVSY  129 (168)
T ss_pred             EEEEEEECCCcHHHHHHHHHH-hccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCc--EEEEEECcccccccCCCH
Confidence            3455666666321    0001 13568899999987542211   10       112344  599999999985411122


Q ss_pred             HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          110 AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       110 ~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +......++.  ..+++++||++|.|++++|.+++-
T Consensus       130 ~~~~~~~~~~--~~~~~e~Sa~~~~~i~~~~~~~~~  163 (168)
T cd01866         130 EEGEAFAKEH--GLIFMETSAKTASNVEEAFINTAK  163 (168)
T ss_pred             HHHHHHHHHc--CCEEEEEeCCCCCCHHHHHHHHHH
Confidence            3444445443  468999999999999999987754

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

>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily

Probab=97.71  E-value=7.5e-05  Score=56.14  Aligned_cols=95  Identities=15%  Similarity=0.145  Sum_probs=57.2

Q ss_pred             CCCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc-----c-cCCCCcceeeEEEEecCCCCCch-hhhHHHH
Q 032030           43 KADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP-----R-KGGPGITQADLLVINKTDLASAI-GADLAVM  112 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~-----~-~~~~qi~~ADivViNK~DL~~~~-~~~l~~~  112 (148)
                      +..+.++.|.|..-....   .-..+|.+++|+|+..+....     . .....++  -++|+||+|+.... ...++.+
T Consensus        64 ~~~~~l~DtpG~~~~~~~~~~~~~~~d~~ilV~d~~~~~~~~~~~~~~~~~~~~~p--~iiv~NK~Dl~~~~~~~~~~~~  141 (194)
T cd01891          64 DTKINIVDTPGHADFGGEVERVLSMVDGVLLLVDASEGPMPQTRFVLKKALELGLK--PIVVINKIDRPDARPEEVVDEV  141 (194)
T ss_pred             CEEEEEEECCCcHHHHHHHHHHHHhcCEEEEEEECCCCccHHHHHHHHHHHHcCCC--EEEEEECCCCCCCCHHHHHHHH
Confidence            456778889886421000   113578899999998753110     0 1112345  69999999997541 1123444


Q ss_pred             HHHHHhc-----CCCCcEEEEEecCCCCHHHH
Q 032030          113 ERDALRM-----RDGGPFIFAQVGWVIGIIFT  139 (148)
Q Consensus       113 ~~~i~~~-----np~a~vi~tSa~~g~gi~~l  139 (148)
                      .+.+...     ..+.+++++||++|.|+.+|
T Consensus       142 ~~~~~~~~~~~~~~~~~iv~~Sa~~g~~~~~~  173 (194)
T cd01891         142 FDLFIELGATEEQLDFPVLYASAKNGWASLNL  173 (194)
T ss_pred             HHHHHHhCCccccCccCEEEeehhcccccccc
Confidence            4444322     22568999999999887555

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

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=97.70  E-value=0.00013  Score=51.88  Aligned_cols=77  Identities=19%  Similarity=0.123  Sum_probs=51.1

Q ss_pred             CceEEEEEeCCCCCCcc-----cc-CCCCcceeeEEEEecCCCCCchhhhHHHHHHH----HHhcCCCCcEEEEEecCCC
Q 032030           65 ADYIIYIIDVSGGDKIP-----RK-GGPGITQADLLVINKTDLASAIGADLAVMERD----ALRMRDGGPFIFAQVGWVI  134 (148)
Q Consensus        65 ~d~~i~vvDa~~~~~~~-----~~-~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~----i~~~np~a~vi~tSa~~g~  134 (148)
                      .+.++.++|........     .. ...+.+  .++++||+|+.+.  .+.......    ++...+..+++++|++++.
T Consensus        82 ~~~~~~v~d~~~~~~~~~~~~~~~l~~~~~~--vi~v~nK~D~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~Sa~~~~  157 (170)
T cd01876          82 LKGVVLLIDSRHGPTEIDLEMLDWLEELGIP--FLVVLTKADKLKK--SELAKALKEIKKELKLFEIDPPIILFSSLKGQ  157 (170)
T ss_pred             hhEEEEEEEcCcCCCHhHHHHHHHHHHcCCC--EEEEEEchhcCCh--HHHHHHHHHHHHHHHhccCCCceEEEecCCCC
Confidence            45677888886552211     10 111233  6889999999876  554443333    3223567799999999999


Q ss_pred             CHHHHHHhhhh
Q 032030          135 GIIFTLSITHY  145 (148)
Q Consensus       135 gi~~l~~~~~~  145 (148)
                      |++++++++.-
T Consensus       158 ~~~~l~~~l~~  168 (170)
T cd01876         158 GIDELRALIEK  168 (170)
T ss_pred             CHHHHHHHHHH
Confidence            99999998864

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.

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=97.70  E-value=6.4e-05  Score=55.11  Aligned_cols=98  Identities=15%  Similarity=0.169  Sum_probs=61.1

Q ss_pred             CCCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCc-------ccc--CCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           43 KADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKI-------PRK--GGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~-------~~~--~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      +..+.+.++.|.......+   -..+|.+++|+|+.....+       ...  ..+.++  -++|.||+|+.+.  ...+
T Consensus        43 ~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~t~~~s~~~~~~~l~~~~~~~~~~p--iilv~NK~Dl~~~--~~~~  118 (164)
T cd04162          43 DAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVDSADSERLPLARQELHQLLQHPPDLP--LVVLANKQDLPAA--RSVQ  118 (164)
T ss_pred             CeEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHhCCCCCc--EEEEEeCcCCcCC--CCHH
Confidence            4556677777753221111   1357889999998765321       111  123455  5899999999776  4444


Q ss_pred             HHHHHH--Hhc--CCCCcEEEEEecC------CCCHHHHHHhhh
Q 032030          111 VMERDA--LRM--RDGGPFIFAQVGW------VIGIIFTLSITH  144 (148)
Q Consensus       111 ~~~~~i--~~~--np~a~vi~tSa~~------g~gi~~l~~~~~  144 (148)
                      .+.+.+  ..+  ....+++.+||++      ++|+.++|+.+.
T Consensus       119 ~i~~~~~~~~~~~~~~~~~~~~Sa~~~~s~~~~~~v~~~~~~~~  162 (164)
T cd04162         119 EIHKELELEPIARGRRWILQGTSLDDDGSPSRMEAVKDLLSQLI  162 (164)
T ss_pred             HHHHHhCChhhcCCCceEEEEeeecCCCChhHHHHHHHHHHHHh
Confidence            433332  111  1245788999999      999999999875

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.

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=97.69  E-value=0.00019  Score=61.05  Aligned_cols=97  Identities=22%  Similarity=0.239  Sum_probs=59.0

Q ss_pred             CCEEEEecCCceeee--------eecc--ccCceEEEEEeCCCCC--C-------cc---ccCCCC-cceeeEEEEecCC
Q 032030           44 ADLLLCESGGDNLAA--------NFSR--ELADYIIYIIDVSGGD--K-------IP---RKGGPG-ITQADLLVINKTD  100 (148)
Q Consensus        44 ~D~IliEtsG~~~~~--------~~~~--~~~d~~i~vvDa~~~~--~-------~~---~~~~~q-i~~ADivViNK~D  100 (148)
                      ..++++.+.|+.-.+        .|..  ...+.+++|+|+...+  +       +.   ..+.+. ...--+||+||+|
T Consensus       206 ~~~~laD~PGliega~~~~gLg~~fLrhier~~llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~D  285 (424)
T PRK12297        206 RSFVMADIPGLIEGASEGVGLGHQFLRHIERTRVIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMD  285 (424)
T ss_pred             ceEEEEECCCCcccccccchHHHHHHHHHhhCCEEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCC
Confidence            457888888873211        1111  2468899999986431  1       00   011111 1223699999999


Q ss_pred             CCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhhh
Q 032030          101 LASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHYI  146 (148)
Q Consensus       101 L~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~~  146 (148)
                      |...  .  +.+.+..+.+.  .+++++||+++.|+++|++++.-.
T Consensus       286 L~~~--~--e~l~~l~~~l~--~~i~~iSA~tgeGI~eL~~~L~~~  325 (424)
T PRK12297        286 LPEA--E--ENLEEFKEKLG--PKVFPISALTGQGLDELLYAVAEL  325 (424)
T ss_pred             CcCC--H--HHHHHHHHHhC--CcEEEEeCCCCCCHHHHHHHHHHH
Confidence            8543  2  22333333322  589999999999999999987643

>cd01861 Rab6 Rab6 subfamily

Probab=97.69  E-value=9.5e-05  Score=53.09  Aligned_cols=99  Identities=16%  Similarity=0.104  Sum_probs=58.5

Q ss_pred             CEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCc---c----cc-CCCCcceeeEEEEecCCCCCchhhhHHHHH
Q 032030           45 DLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKI---P----RK-GGPGITQADLLVINKTDLASAIGADLAVME  113 (148)
Q Consensus        45 D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~---~----~~-~~~qi~~ADivViNK~DL~~~~~~~l~~~~  113 (148)
                      .+.++++.|..-...+.   -..+|.++.|.|......+   .    .. ....-...-++++||+|+........+...
T Consensus        50 ~l~~~D~~G~~~~~~~~~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~~~~  129 (161)
T cd01861          50 RLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDKRQVSTEEGE  129 (161)
T ss_pred             EEEEEECCCcHHHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCEEEEEEEChhccccCccCHHHHH
Confidence            35677777743111010   1356888999998764321   1    10 011101337999999999543111223344


Q ss_pred             HHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          114 RDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       114 ~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ...+..  +.+++++||++|.|++++++++.-
T Consensus       130 ~~~~~~--~~~~~~~Sa~~~~~v~~l~~~i~~  159 (161)
T cd01861         130 KKAKEL--NAMFIETSAKAGHNVKELFRKIAS  159 (161)
T ss_pred             HHHHHh--CCEEEEEeCCCCCCHHHHHHHHHH
Confidence            444433  478999999999999999998754

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

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=97.67  E-value=0.00014  Score=50.77  Aligned_cols=50  Identities=24%  Similarity=0.127  Sum_probs=38.3

Q ss_pred             eeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhh
Q 032030           91 ADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSIT  143 (148)
Q Consensus        91 ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~  143 (148)
                      ..++++||.|+...  ...+...+.+... +..+++++||++|.|++++++++
T Consensus       110 p~ivv~nK~D~~~~--~~~~~~~~~~~~~-~~~~~~~~sa~~~~gv~~~~~~l  159 (161)
T TIGR00231       110 PIILVGNKIDLRDA--KLKTHVAFLFAKL-NGEPIIPLSAETGKNIDSAFKIV  159 (161)
T ss_pred             cEEEEEEcccCCcc--hhhHHHHHHHhhc-cCCceEEeecCCCCCHHHHHHHh
Confidence            37999999999876  4344454545443 44569999999999999999875

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.

>cd04109 Rab28 Rab28 subfamily

Probab=97.67  E-value=0.00012  Score=56.14  Aligned_cols=97  Identities=16%  Similarity=0.075  Sum_probs=59.3

Q ss_pred             CCEEEEecCCceee----eeeccccCceEEEEEeCCCCCCcc----------ccCC---CCcceeeEEEEecCCCCCchh
Q 032030           44 ADLLLCESGGDNLA----ANFSRELADYIIYIIDVSGGDKIP----------RKGG---PGITQADLLVINKTDLASAIG  106 (148)
Q Consensus        44 ~D~IliEtsG~~~~----~~~~~~~~d~~i~vvDa~~~~~~~----------~~~~---~qi~~ADivViNK~DL~~~~~  106 (148)
                      +.+.+.++.|.-..    ..+ -..+|.+++|+|......+.          ....   ...+  -++|.||+||...-.
T Consensus        50 ~~~~i~Dt~G~~~~~~l~~~~-~~~ad~iilV~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~p--iilVgNK~DL~~~~~  126 (215)
T cd04109          50 VTLQVWDIGGQSIGGKMLDKY-IYGAHAVFLVYDVTNSQSFENLEDWYSMVRKVLKSSETQPL--VVLVGNKTDLEHNRT  126 (215)
T ss_pred             EEEEEEECCCcHHHHHHHHHH-hhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccccCCCce--EEEEEECcccccccc
Confidence            45567777774321    111 13678999999987652211          0001   1122  478999999975310


Q ss_pred             hhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          107 ADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       107 ~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ...+...+..+..  +.+.+.+||++|.|++++|++++-
T Consensus       127 v~~~~~~~~~~~~--~~~~~~iSAktg~gv~~lf~~l~~  163 (215)
T cd04109         127 VKDDKHARFAQAN--GMESCLVSAKTGDRVNLLFQQLAA  163 (215)
T ss_pred             cCHHHHHHHHHHc--CCEEEEEECCCCCCHHHHHHHHHH
Confidence            1223444444432  368899999999999999998874

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

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=97.67  E-value=2.9e-05  Score=59.90  Aligned_cols=95  Identities=14%  Similarity=0.162  Sum_probs=54.6

Q ss_pred             CCCEEEEecCCcee--eeee-ccccCceEEEEEeCCCCC-----Cc-cc-c----CCCCcce-eeEEEEecCCCCCc--h
Q 032030           43 KADLLLCESGGDNL--AANF-SRELADYIIYIIDVSGGD-----KI-PR-K----GGPGITQ-ADLLVINKTDLASA--I  105 (148)
Q Consensus        43 ~~D~IliEtsG~~~--~~~~-~~~~~d~~i~vvDa~~~~-----~~-~~-~----~~~qi~~-ADivViNK~DL~~~--~  105 (148)
                      ++.+.++.|.|...  ...+ ....+|..++|+|+..+.     .. .. .    ....... --++++||+|+.+.  .
T Consensus        76 ~~~i~liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiivvNK~Dl~~~~~~  155 (219)
T cd01883          76 KYRFTILDAPGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHALLARTLGVKQLIVAVNKMDDVTVNWS  155 (219)
T ss_pred             CeEEEEEECCChHHHHHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHHHHHHHcCCCeEEEEEEcccccccccc
Confidence            56788889998531  1111 113578999999998742     11 00 0    0001111 13669999999831  0


Q ss_pred             hhhHHHHHHH----HHhcC---CCCcEEEEEecCCCCHH
Q 032030          106 GADLAVMERD----ALRMR---DGGPFIFAQVGWVIGII  137 (148)
Q Consensus       106 ~~~l~~~~~~----i~~~n---p~a~vi~tSa~~g~gi~  137 (148)
                      .+..+.+.+.    ++...   ...+++++||++|.|++
T Consensus       156 ~~~~~~i~~~l~~~l~~~~~~~~~~~ii~iSA~tg~gi~  194 (219)
T cd01883         156 EERYDEIKKELSPFLKKVGYNPKDVPFIPISGLTGDNLI  194 (219)
T ss_pred             HHHHHHHHHHHHHHHHHcCCCcCCceEEEeecCcCCCCC
Confidence            1333444443    44332   24789999999999986

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

>cd04134 Rho3 Rho3 subfamily

Probab=97.67  E-value=9.1e-05  Score=55.54  Aligned_cols=99  Identities=19%  Similarity=0.194  Sum_probs=59.7

Q ss_pred             CCCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc--------cc--CCCCcceeeEEEEecCCCCCchhhhH
Q 032030           43 KADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP--------RK--GGPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~--------~~--~~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      ..++.+.++.|.-....+   .-..+|.++.+.|......+.        ..  ..+.++  -++|.||+||...  ...
T Consensus        47 ~~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv~dv~~~~sf~~~~~~~~~~i~~~~~~~p--iilvgNK~Dl~~~--~~~  122 (189)
T cd04134          47 HIELSLWDTAGQEEFDRLRSLSYADTDVIMLCFSVDSPDSLENVESKWLGEIREHCPGVK--LVLVALKCDLREA--RNE  122 (189)
T ss_pred             EEEEEEEECCCChhccccccccccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC--EEEEEEChhhccC--hhh
Confidence            355667777775321111   113467888888876543211        11  112334  6999999999765  322


Q ss_pred             H--------------HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhhh
Q 032030          110 A--------------VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHYI  146 (148)
Q Consensus       110 ~--------------~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~~  146 (148)
                      +              ...+..++. ...+++++||++|.|++++|++++-.
T Consensus       123 ~~~~~~~~~~~v~~~~~~~~~~~~-~~~~~~e~SAk~~~~v~e~f~~l~~~  172 (189)
T cd04134         123 RDDLQRYGKHTISYEEGLAVAKRI-NALRYLECSAKLNRGVNEAFTEAARV  172 (189)
T ss_pred             HHHHhhccCCCCCHHHHHHHHHHc-CCCEEEEccCCcCCCHHHHHHHHHHH
Confidence            2              222333332 23678999999999999999998743

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.

>cd01893 Miro1 Miro1 subfamily

Probab=97.67  E-value=8.8e-05  Score=54.13  Aligned_cols=99  Identities=16%  Similarity=0.151  Sum_probs=61.0

Q ss_pred             CCCEEEEecCCceee-eee--ccccCceEEEEEeCCCCCCccc----------cCCCCcceeeEEEEecCCCCCchhhhH
Q 032030           43 KADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDKIPR----------KGGPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~~~~----------~~~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      ..++.++.|.|.... ..+  .-..+|.+++++|+.....+..          .....++  -++|+||+|+.+.  ...
T Consensus        46 ~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~i~~~~~~~p--viiv~nK~Dl~~~--~~~  121 (166)
T cd01893          46 RVPTTIVDTSSRPQDRANLAAEIRKANVICLVYSVDRPSTLERIRTKWLPLIRRLGVKVP--IILVGNKSDLRDG--SSQ  121 (166)
T ss_pred             eEEEEEEeCCCchhhhHHHhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC--EEEEEEchhcccc--cch
Confidence            466778888886421 100  0135788899999876433211          1122344  6899999999875  331


Q ss_pred             ---HH-HHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          110 ---AV-MERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       110 ---~~-~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                         +. +....+..+...+++++||++|.|++++|+.+.=
T Consensus       122 ~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf~~~~~  161 (166)
T cd01893         122 AGLEEEMLPIMNEFREIETCVECSAKTLINVSEVFYYAQK  161 (166)
T ss_pred             hHHHHHHHHHHHHHhcccEEEEeccccccCHHHHHHHHHH
Confidence               12 2222222222248999999999999999987653

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.

>CHL00189 infB translation initiation factor 2; Provisional

Probab=97.67  E-value=0.00017  Score=65.15  Aligned_cols=96  Identities=18%  Similarity=0.216  Sum_probs=60.5

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhHHHHHH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADLAVMER  114 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~  114 (148)
                      ..+.|+.|.|-.-....   .-..+|..+.|+|+..+...+.      .....++  -++++||+|+.+.   ..+++.+
T Consensus       295 ~kItfiDTPGhe~F~~mr~rg~~~aDiaILVVDA~dGv~~QT~E~I~~~k~~~iP--iIVViNKiDl~~~---~~e~v~~  369 (742)
T CHL00189        295 QKIVFLDTPGHEAFSSMRSRGANVTDIAILIIAADDGVKPQTIEAINYIQAANVP--IIVAINKIDKANA---NTERIKQ  369 (742)
T ss_pred             eEEEEEECCcHHHHHHHHHHHHHHCCEEEEEEECcCCCChhhHHHHHHHHhcCce--EEEEEECCCcccc---CHHHHHH
Confidence            45667777774311000   1135788999999987643111      1122345  6899999999764   2334444


Q ss_pred             HHHh-------cCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          115 DALR-------MRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       115 ~i~~-------~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .++.       +....+++++||++|.|+++|++++.
T Consensus       370 eL~~~~ll~e~~g~~vpvv~VSAktG~GIdeLle~I~  406 (742)
T CHL00189        370 QLAKYNLIPEKWGGDTPMIPISASQGTNIDKLLETIL  406 (742)
T ss_pred             HHHHhccchHhhCCCceEEEEECCCCCCHHHHHHhhh
Confidence            4432       22346899999999999999998864

>TIGR01393 lepA GTP-binding protein LepA

Probab=97.66  E-value=0.00016  Score=64.01  Aligned_cols=97  Identities=22%  Similarity=0.150  Sum_probs=61.2

Q ss_pred             CCEEEEecCCceeeee-e--ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhHHHHHH
Q 032030           44 ADLLLCESGGDNLAAN-F--SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADLAVMER  114 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~-~--~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~  114 (148)
                      +.+.|+.|.|...... .  .-..+|..++|+|+.++...+.      .....++  -++|+||+|+.+.  . .+...+
T Consensus        70 ~~l~liDTPG~~dF~~~v~~~l~~aD~aILVvDat~g~~~qt~~~~~~~~~~~ip--iIiViNKiDl~~~--~-~~~~~~  144 (595)
T TIGR01393        70 YVLNLIDTPGHVDFSYEVSRSLAACEGALLLVDAAQGIEAQTLANVYLALENDLE--IIPVINKIDLPSA--D-PERVKK  144 (595)
T ss_pred             EEEEEEECCCcHHHHHHHHHHHHhCCEEEEEecCCCCCCHhHHHHHHHHHHcCCC--EEEEEECcCCCcc--C-HHHHHH
Confidence            4567888888643100 0  1135788999999988743211      1112344  5899999999754  2 222323


Q ss_pred             HHHhcC--CCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          115 DALRMR--DGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       115 ~i~~~n--p~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      .+++..  +..+++++||++|.|++++++++.-
T Consensus       145 el~~~lg~~~~~vi~vSAktG~GI~~Lle~I~~  177 (595)
T TIGR01393       145 EIEEVIGLDASEAILASAKTGIGIEEILEAIVK  177 (595)
T ss_pred             HHHHHhCCCcceEEEeeccCCCCHHHHHHHHHH
Confidence            333222  2246899999999999999998753

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.

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=97.66  E-value=0.00014  Score=55.59  Aligned_cols=96  Identities=17%  Similarity=0.104  Sum_probs=56.7

Q ss_pred             CCCEEEEecCCceee--eee-ccccCceEEEEEeCCCCCCccc----cC--CCCcceeeEEEEecCCCCCchhhhHH---
Q 032030           43 KADLLLCESGGDNLA--ANF-SRELADYIIYIIDVSGGDKIPR----KG--GPGITQADLLVINKTDLASAIGADLA---  110 (148)
Q Consensus        43 ~~D~IliEtsG~~~~--~~~-~~~~~d~~i~vvDa~~~~~~~~----~~--~~qi~~ADivViNK~DL~~~~~~~l~---  110 (148)
                      +..+.++.|.|....  ... .-..+|..++|+|+..+.....    ..  ....+ --++|+||+|+.+...+..+   
T Consensus        76 ~~~~~liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~~~~~~~~~~~~~~~~~~~-~iIvviNK~D~~~~~~~~~~~i~  154 (208)
T cd04166          76 KRKFIIADTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQTRRHSYILSLLGIR-HVVVAVNKMDLVDYSEEVFEEIV  154 (208)
T ss_pred             CceEEEEECCcHHHHHHHHHHhhhhCCEEEEEEECCCCccHhHHHHHHHHHHcCCC-cEEEEEEchhcccCCHHHHHHHH
Confidence            457889999995311  111 1135789999999987642111    00  01112 13558999999753112222   


Q ss_pred             -HHHHHHHhcC-CCCcEEEEEecCCCCHHHH
Q 032030          111 -VMERDALRMR-DGGPFIFAQVGWVIGIIFT  139 (148)
Q Consensus       111 -~~~~~i~~~n-p~a~vi~tSa~~g~gi~~l  139 (148)
                       .+.+.++.++ +..+++++||++|.|+++.
T Consensus       155 ~~~~~~~~~~~~~~~~ii~iSA~~g~ni~~~  185 (208)
T cd04166         155 ADYLAFAAKLGIEDITFIPISALDGDNVVSR  185 (208)
T ss_pred             HHHHHHHHHcCCCCceEEEEeCCCCCCCccC
Confidence             3334444444 4567999999999999753

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.

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=97.65  E-value=0.0002  Score=65.12  Aligned_cols=97  Identities=13%  Similarity=0.183  Sum_probs=60.2

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhHHHHHH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADLAVMER  114 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~  114 (148)
                      ..+.|+.|.|-.....+   .-...|.+++|+|+..+...+.      .....++  -++++||+|+.+.   ..+++..
T Consensus       337 ~~ItfiDTPGhe~F~~m~~rga~~aDiaILVVdAddGv~~qT~e~i~~a~~~~vP--iIVviNKiDl~~a---~~e~V~~  411 (787)
T PRK05306        337 GKITFLDTPGHEAFTAMRARGAQVTDIVVLVVAADDGVMPQTIEAINHAKAAGVP--IIVAINKIDKPGA---NPDRVKQ  411 (787)
T ss_pred             EEEEEEECCCCccchhHHHhhhhhCCEEEEEEECCCCCCHhHHHHHHHHHhcCCc--EEEEEECcccccc---CHHHHHH
Confidence            34567777775321111   1134688899999987632111      1112344  6999999999653   2233333


Q ss_pred             HHH-------hcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          115 DAL-------RMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       115 ~i~-------~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      .+.       .+....+++++||++|.|+++|++++..
T Consensus       412 eL~~~~~~~e~~g~~vp~vpvSAktG~GI~eLle~I~~  449 (787)
T PRK05306        412 ELSEYGLVPEEWGGDTIFVPVSAKTGEGIDELLEAILL  449 (787)
T ss_pred             HHHHhcccHHHhCCCceEEEEeCCCCCCchHHHHhhhh
Confidence            222       2234578999999999999999998754

>cd04117 Rab15 Rab15 subfamily

Probab=97.65  E-value=0.00011  Score=53.38  Aligned_cols=76  Identities=16%  Similarity=0.075  Sum_probs=50.4

Q ss_pred             cCceEEEEEeCCCCCCc---c-------ccCCCCcceeeEEEEecCCCCCchhhhH--HHHHHHHHhcCCCCcEEEEEec
Q 032030           64 LADYIIYIIDVSGGDKI---P-------RKGGPGITQADLLVINKTDLASAIGADL--AVMERDALRMRDGGPFIFAQVG  131 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~---~-------~~~~~qi~~ADivViNK~DL~~~~~~~l--~~~~~~i~~~np~a~vi~tSa~  131 (148)
                      .+|.++++.|......+   .       ...+..++  -++|.||.||..+  ..+  +......+..+  .+++++||+
T Consensus        72 ~~~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~~~~--iilvgnK~Dl~~~--~~v~~~~~~~~~~~~~--~~~~e~Sa~  145 (161)
T cd04117          72 RAQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQ--KILIGNKADEEQK--RQVGDEQGNKLAKEYG--MDFFETSAC  145 (161)
T ss_pred             CCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCe--EEEEEECcccccc--cCCCHHHHHHHHHHcC--CEEEEEeCC
Confidence            46888999998654321   1       11112233  6899999999765  322  23334444333  678999999


Q ss_pred             CCCCHHHHHHhhhh
Q 032030          132 WVIGIIFTLSITHY  145 (148)
Q Consensus       132 ~g~gi~~l~~~~~~  145 (148)
                      +|.|++++|.+++-
T Consensus       146 ~~~~v~~~f~~l~~  159 (161)
T cd04117         146 TNSNIKESFTRLTE  159 (161)
T ss_pred             CCCCHHHHHHHHHh
Confidence            99999999999864

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

>KOG1489 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=97.64  E-value=9.2e-05  Score=60.77  Aligned_cols=75  Identities=17%  Similarity=0.141  Sum_probs=47.3

Q ss_pred             CceEEEEEeCCCC---CCccc---------cCCC-CcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEec
Q 032030           65 ADYIIYIIDVSGG---DKIPR---------KGGP-GITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVG  131 (148)
Q Consensus        65 ~d~~i~vvDa~~~---~~~~~---------~~~~-qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~  131 (148)
                      .+.+++|||...+   ..++.         .+.. -....-++|.||+|+.+.   +-+.+.+..+ .-+...|+++||+
T Consensus       275 ~~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~ea---e~~~l~~L~~-~lq~~~V~pvsA~  350 (366)
T KOG1489|consen  275 CKGLLFVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLPEA---EKNLLSSLAK-RLQNPHVVPVSAK  350 (366)
T ss_pred             hceEEEEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCchhH---HHHHHHHHHH-HcCCCcEEEeeec
Confidence            4567999998776   22111         0111 233446999999999643   2222333333 2233379999999


Q ss_pred             CCCCHHHHHHhh
Q 032030          132 WVIGIIFTLSIT  143 (148)
Q Consensus       132 ~g~gi~~l~~~~  143 (148)
                      +++|+++|++.+
T Consensus       351 ~~egl~~ll~~l  362 (366)
T KOG1489|consen  351 SGEGLEELLNGL  362 (366)
T ss_pred             cccchHHHHHHH
Confidence            999999998764

>cd04121 Rab40 Rab40 subfamily

Probab=97.64  E-value=0.00012  Score=55.48  Aligned_cols=78  Identities=21%  Similarity=0.153  Sum_probs=53.2

Q ss_pred             ccCceEEEEEeCCCCCCcc-------c--cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCC
Q 032030           63 ELADYIIYIIDVSGGDKIP-------R--KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        63 ~~~d~~i~vvDa~~~~~~~-------~--~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      ..+|.+++|.|......+.       .  ...+.++  -+||.||.||...-.-..+..+++.++.  +.+++.+||++|
T Consensus        77 ~~ad~illVfD~t~~~Sf~~~~~w~~~i~~~~~~~p--iilVGNK~DL~~~~~v~~~~~~~~a~~~--~~~~~e~SAk~g  152 (189)
T cd04121          77 RGAQGIILVYDITNRWSFDGIDRWIKEIDEHAPGVP--KILVGNRLHLAFKRQVATEQAQAYAERN--GMTFFEVSPLCN  152 (189)
T ss_pred             cCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCC--EEEEEECccchhccCCCHHHHHHHHHHc--CCEEEEecCCCC
Confidence            3678899999987653211       0  1122344  5999999999653002234556666544  368999999999


Q ss_pred             CCHHHHHHhhh
Q 032030          134 IGIIFTLSITH  144 (148)
Q Consensus       134 ~gi~~l~~~~~  144 (148)
                      .|++++|++++
T Consensus       153 ~~V~~~F~~l~  163 (189)
T cd04121         153 FNITESFTELA  163 (189)
T ss_pred             CCHHHHHHHHH
Confidence            99999999875

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

>PLN03110 Rab GTPase; Provisional

Probab=97.64  E-value=0.00012  Score=56.29  Aligned_cols=76  Identities=14%  Similarity=0.103  Sum_probs=49.5

Q ss_pred             cCceEEEEEeCCCCCCc---cc-------cCCCCcceeeEEEEecCCCCCchhhhH--HHHHHHHHhcCCCCcEEEEEec
Q 032030           64 LADYIIYIIDVSGGDKI---PR-------KGGPGITQADLLVINKTDLASAIGADL--AVMERDALRMRDGGPFIFAQVG  131 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~---~~-------~~~~qi~~ADivViNK~DL~~~~~~~l--~~~~~~i~~~np~a~vi~tSa~  131 (148)
                      .++.++++.|......+   ..       .....++  -++|.||+|+...  .+.  +.......  ....+++++||+
T Consensus        84 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~p--iiiv~nK~Dl~~~--~~~~~~~~~~l~~--~~~~~~~e~SA~  157 (216)
T PLN03110         84 GAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIV--IMMAGNKSDLNHL--RSVAEEDGQALAE--KEGLSFLETSAL  157 (216)
T ss_pred             CCCEEEEEEECCChHHHHHHHHHHHHHHHhCCCCCe--EEEEEEChhcccc--cCCCHHHHHHHHH--HcCCEEEEEeCC
Confidence            46778999998654321   10       0112333  6899999999654  222  22333322  235789999999


Q ss_pred             CCCCHHHHHHhhhh
Q 032030          132 WVIGIIFTLSITHY  145 (148)
Q Consensus       132 ~g~gi~~l~~~~~~  145 (148)
                      +|.|++++|++++-
T Consensus       158 ~g~~v~~lf~~l~~  171 (216)
T PLN03110        158 EATNVEKAFQTILL  171 (216)
T ss_pred             CCCCHHHHHHHHHH
Confidence            99999999998753

>cd01884 EF_Tu EF-Tu subfamily

Probab=97.63  E-value=0.00031  Score=53.60  Aligned_cols=91  Identities=12%  Similarity=0.139  Sum_probs=55.4

Q ss_pred             CCCEEEEecCCcee--eeee-ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhh-HH--
Q 032030           43 KADLLLCESGGDNL--AANF-SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGAD-LA--  110 (148)
Q Consensus        43 ~~D~IliEtsG~~~--~~~~-~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~-l~--  110 (148)
                      +..+.|+.|.|..-  .... .-..+|..++|+|+..+...+.      .....++ .-++++||+|+.+.  .+ .+  
T Consensus        64 ~~~i~~iDtPG~~~~~~~~~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~~~-~iIvviNK~D~~~~--~~~~~~~  140 (195)
T cd01884          64 NRHYAHVDCPGHADYIKNMITGAAQMDGAILVVSATDGPMPQTREHLLLARQVGVP-YIVVFLNKADMVDD--EELLELV  140 (195)
T ss_pred             CeEEEEEECcCHHHHHHHHHHHhhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCC-cEEEEEeCCCCCCc--HHHHHHH
Confidence            45679999999641  1111 1235799999999987643211      0011222 12588999999754  33 23  


Q ss_pred             --HHHHHHHhc--C-CCCcEEEEEecCCCCH
Q 032030          111 --VMERDALRM--R-DGGPFIFAQVGWVIGI  136 (148)
Q Consensus       111 --~~~~~i~~~--n-p~a~vi~tSa~~g~gi  136 (148)
                        ++.+.++..  + .++|++++||++|.+.
T Consensus       141 ~~~i~~~l~~~g~~~~~v~iipiSa~~g~n~  171 (195)
T cd01884         141 EMEVRELLSKYGFDGDNTPIVRGSALKALEG  171 (195)
T ss_pred             HHHHHHHHHHhcccccCCeEEEeeCccccCC
Confidence              344444432  2 2589999999999974

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.

>PLN03108 Rab family protein; Provisional

Probab=97.62  E-value=0.00023  Score=54.40  Aligned_cols=77  Identities=19%  Similarity=0.108  Sum_probs=50.9

Q ss_pred             cCceEEEEEeCCCCCCcc---c-------cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKIP---R-------KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~---~-------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      .+|.+++|+|+.....+.   .       ...+.++  -++|.||+||.+.-....+...+..+..  +.+++++||+++
T Consensus        78 ~ad~~vlv~D~~~~~s~~~l~~~~~~~~~~~~~~~p--iiiv~nK~Dl~~~~~~~~~~~~~~~~~~--~~~~~e~Sa~~~  153 (210)
T PLN03108         78 GAAGALLVYDITRRETFNHLASWLEDARQHANANMT--IMLIGNKCDLAHRRAVSTEEGEQFAKEH--GLIFMEASAKTA  153 (210)
T ss_pred             cCCEEEEEEECCcHHHHHHHHHHHHHHHHhcCCCCc--EEEEEECccCccccCCCHHHHHHHHHHc--CCEEEEEeCCCC
Confidence            467789999987653211   0       1112333  5899999999763112234455555543  368999999999


Q ss_pred             CCHHHHHHhhh
Q 032030          134 IGIIFTLSITH  144 (148)
Q Consensus       134 ~gi~~l~~~~~  144 (148)
                      .|++++|++++
T Consensus       154 ~~v~e~f~~l~  164 (210)
T PLN03108        154 QNVEEAFIKTA  164 (210)
T ss_pred             CCHHHHHHHHH
Confidence            99999998764

>cd04116 Rab9 Rab9 subfamily

Probab=97.62  E-value=0.00014  Score=52.87  Aligned_cols=77  Identities=8%  Similarity=0.009  Sum_probs=49.8

Q ss_pred             cCceEEEEEeCCCCCCc---ccc-----------CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEE
Q 032030           64 LADYIIYIIDVSGGDKI---PRK-----------GGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQ  129 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~---~~~-----------~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tS  129 (148)
                      .+|.++.+.|.......   ...           .+..++  -++|.||+|+.... ...+.+.+..++.+ ..+++++|
T Consensus        77 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~~-~~~~~~~~~~~~~~-~~~~~e~S  152 (170)
T cd04116          77 GSDCCLLTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFP--FVVLGNKNDIPERQ-VSTEEAQAWCRENG-DYPYFETS  152 (170)
T ss_pred             CCCEEEEEEECCCHHHHHhHHHHHHHHHHhcccccCCCCc--EEEEEECccccccc-cCHHHHHHHHHHCC-CCeEEEEE
Confidence            45777888887654311   100           012344  58999999996430 12345556665433 35789999


Q ss_pred             ecCCCCHHHHHHhhh
Q 032030          130 VGWVIGIIFTLSITH  144 (148)
Q Consensus       130 a~~g~gi~~l~~~~~  144 (148)
                      |++|.|+.++|++++
T Consensus       153 a~~~~~v~~~~~~~~  167 (170)
T cd04116         153 AKDATNVAAAFEEAV  167 (170)
T ss_pred             CCCCCCHHHHHHHHH
Confidence            999999999999875

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

>cd04143 Rhes_like Rhes_like subfamily

Probab=97.61  E-value=0.00015  Score=57.37  Aligned_cols=98  Identities=10%  Similarity=0.034  Sum_probs=60.8

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc----------cc---------CCCCcceeeEEEEecCCC
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP----------RK---------GGPGITQADLLVINKTDL  101 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~----------~~---------~~~qi~~ADivViNK~DL  101 (148)
                      +.+-+.+|+|.-....+   .-..+|.+++|.|....+.+.          ..         ....++  -+++.||+|+
T Consensus        48 ~~l~I~Dt~G~~~~~~~~~~~~~~ad~iIlVfdv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~p--iIivgNK~Dl  125 (247)
T cd04143          48 YQLDILDTSGNHPFPAMRRLSILTGDVFILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIP--MVICGNKADR  125 (247)
T ss_pred             EEEEEEECCCChhhhHHHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCc--EEEEEECccc
Confidence            45557788885321111   113568889999987643210          00         112334  6999999999


Q ss_pred             CCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          102 ASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       102 ~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ..+-....+++.+.+... ...+++++||++|.|++++|++++
T Consensus       126 ~~~~~v~~~ei~~~~~~~-~~~~~~evSAktg~gI~elf~~L~  167 (247)
T cd04143         126 DFPREVQRDEVEQLVGGD-ENCAYFEVSAKKNSNLDEMFRALF  167 (247)
T ss_pred             hhccccCHHHHHHHHHhc-CCCEEEEEeCCCCCCHHHHHHHHH
Confidence            753112334555555432 346799999999999999998875

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

>cd00876 Ras Ras family

Probab=97.60  E-value=0.00017  Score=51.29  Aligned_cols=97  Identities=19%  Similarity=0.117  Sum_probs=61.5

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCc----------cccCC-CCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKI----------PRKGG-PGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~----------~~~~~-~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      +.+.++++.|......+   .-...|.++.++|....+..          ..... ...+  -++++||+|+...-....
T Consensus        47 ~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p--~ivv~nK~D~~~~~~~~~  124 (160)
T cd00876          47 YTLDILDTAGQEEFSAMRDLYIRQGDGFILVYSITDRESFEEIKGYREQILRVKDDEDIP--IVLVGNKCDLENERQVSK  124 (160)
T ss_pred             EEEEEEECCChHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCc--EEEEEECCcccccceecH
Confidence            45667788885321111   11356888999998764321          00011 2344  589999999986311223


Q ss_pred             HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          110 AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       110 ~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +.+.+..+..+  .+++++|+++|.|++++++++.
T Consensus       125 ~~~~~~~~~~~--~~~~~~S~~~~~~i~~l~~~l~  157 (160)
T cd00876         125 EEGKALAKEWG--CPFIETSAKDNINIDEVFKLLV  157 (160)
T ss_pred             HHHHHHHHHcC--CcEEEeccCCCCCHHHHHHHHH
Confidence            45555555444  7899999999999999999875

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

>cd04144 Ras2 Ras2 subfamily

Probab=97.59  E-value=0.00015  Score=54.39  Aligned_cols=94  Identities=14%  Similarity=0.105  Sum_probs=57.4

Q ss_pred             CEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCc----------cccC---CCCcceeeEEEEecCCCCCchhhh
Q 032030           45 DLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKI----------PRKG---GPGITQADLLVINKTDLASAIGAD  108 (148)
Q Consensus        45 D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~----------~~~~---~~qi~~ADivViNK~DL~~~~~~~  108 (148)
                      .+-+..|.|..-...+.   -..+|.+++|.|......+          ....   ....+  -++|.||+|+.+.  ..
T Consensus        48 ~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~p--iilvgNK~Dl~~~--~~  123 (190)
T cd04144          48 MLEVLDTAGQEEYTALRDQWIREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVP--IMIVGNKCDKVYE--RE  123 (190)
T ss_pred             EEEEEECCCchhhHHHHHHHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCC--EEEEEEChhcccc--Cc
Confidence            35566777743211111   1356888999998765321          0001   12344  5789999999654  22


Q ss_pred             H--HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          109 L--AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       109 l--~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +  +...+..+..+  .+++++||++|.|++++|++++
T Consensus       124 v~~~~~~~~~~~~~--~~~~e~SAk~~~~v~~l~~~l~  159 (190)
T cd04144         124 VSTEEGAALARRLG--CEFIEASAKTNVNVERAFYTLV  159 (190)
T ss_pred             cCHHHHHHHHHHhC--CEEEEecCCCCCCHHHHHHHHH
Confidence            2  23334444333  5899999999999999999876

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.

>PRK14845 translation initiation factor IF-2; Provisional

Probab=97.58  E-value=0.00024  Score=66.34  Aligned_cols=99  Identities=18%  Similarity=0.170  Sum_probs=60.1

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchh--------
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIG--------  106 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~--------  106 (148)
                      |-+.|+.|.|..-...+   .-..+|..+.|+|+..+...+.      .....++  -++++||+|+.+...        
T Consensus       526 p~i~fiDTPGhe~F~~lr~~g~~~aDivlLVVDa~~Gi~~qT~e~I~~lk~~~iP--iIVViNKiDL~~~~~~~~~~~~~  603 (1049)
T PRK14845        526 PGLLFIDTPGHEAFTSLRKRGGSLADLAVLVVDINEGFKPQTIEAINILRQYKTP--FVVAANKIDLIPGWNISEDEPFL  603 (1049)
T ss_pred             CcEEEEECCCcHHHHHHHHhhcccCCEEEEEEECcccCCHhHHHHHHHHHHcCCC--EEEEEECCCCccccccccchhhh
Confidence            45899999995321111   1135799999999987533111      1112344  699999999974200        


Q ss_pred             --------hhHHHHHHH-------H-------------HhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          107 --------ADLAVMERD-------A-------------LRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       107 --------~~l~~~~~~-------i-------------~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                              ..++.+...       +             +......+++++||+||+|+++|+.++.
T Consensus       604 ~~~~~q~~~~~~el~~~l~~v~~~L~~~G~~~e~~~~~~d~~~~v~iVpVSA~tGeGId~Ll~~l~  669 (1049)
T PRK14845        604 LNFNEQDQHALTELEIKLYELIGKLYELGFDADRFDRVQDFTRTVAIVPVSAKTGEGIPELLMMVA  669 (1049)
T ss_pred             hhhhhhHHHHHHHHHHHHHHHhhHHHhcCcchhhhhhhhhcCCCceEEEEEcCCCCCHHHHHHHHH
Confidence                    011112111       1             1123467999999999999999998653

>PRK05433 GTP-binding protein LepA; Provisional

Probab=97.57  E-value=0.00031  Score=62.24  Aligned_cols=98  Identities=18%  Similarity=0.135  Sum_probs=61.9

Q ss_pred             CCCEEEEecCCceeee-ee--ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhHHHHH
Q 032030           43 KADLLLCESGGDNLAA-NF--SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADLAVME  113 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~-~~--~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~  113 (148)
                      .+.+-++.|.|..... ..  .-..+|..++|+|+.++...+.      .....++  -++|+||+|+.+.  . .+.+.
T Consensus        73 ~~~lnLiDTPGh~dF~~~v~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~~~~lp--iIvViNKiDl~~a--~-~~~v~  147 (600)
T PRK05433         73 TYILNLIDTPGHVDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALENDLE--IIPVLNKIDLPAA--D-PERVK  147 (600)
T ss_pred             cEEEEEEECCCcHHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHHCCCC--EEEEEECCCCCcc--c-HHHHH
Confidence            3456788888864210 00  1135688999999988754211      1112344  5899999999754  2 22333


Q ss_pred             HHHHhcC--CCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          114 RDALRMR--DGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       114 ~~i~~~n--p~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +.+++..  +..+++++||++|.|+++|++++..
T Consensus       148 ~ei~~~lg~~~~~vi~iSAktG~GI~~Ll~~I~~  181 (600)
T PRK05433        148 QEIEDVIGIDASDAVLVSAKTGIGIEEVLEAIVE  181 (600)
T ss_pred             HHHHHHhCCCcceEEEEecCCCCCHHHHHHHHHH
Confidence            3333322  2246899999999999999998753

>cd01873 RhoBTB RhoBTB subfamily

Probab=97.55  E-value=0.00015  Score=55.12  Aligned_cols=97  Identities=18%  Similarity=0.103  Sum_probs=58.5

Q ss_pred             CCEEEEecCCceee-eeeccccCceEEEEEeCCCCCCcc---c-c------CCCCcceeeEEEEecCCCCCch-------
Q 032030           44 ADLLLCESGGDNLA-ANFSRELADYIIYIIDVSGGDKIP---R-K------GGPGITQADLLVINKTDLASAI-------  105 (148)
Q Consensus        44 ~D~IliEtsG~~~~-~~~~~~~~d~~i~vvDa~~~~~~~---~-~------~~~qi~~ADivViNK~DL~~~~-------  105 (148)
                      +.+.+..|.|.-.. ....-..+|.++.+.|......+.   . .      ..+..+  -++|.||+||.+..       
T Consensus        66 v~l~iwDTaG~~~~~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~~~~p--iilvgNK~DL~~~~~~~~~~~  143 (195)
T cd01873          66 VSLRLWDTFGDHDKDRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFCPRVP--VILVGCKLDLRYADLDEVNRA  143 (195)
T ss_pred             EEEEEEeCCCChhhhhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhCCCCC--EEEEEEchhccccccchhhhc
Confidence            44555666664211 011113578889999987653211   0 0      112333  58999999996410       


Q ss_pred             ------------hhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          106 ------------GADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       106 ------------~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                                  .-..+..++..++.+  ++.+.|||++|.|++++|+.++
T Consensus       144 ~~~~~~~~~~~~~V~~~e~~~~a~~~~--~~~~E~SAkt~~~V~e~F~~~~  192 (195)
T cd01873         144 RRPLARPIKNADILPPETGRAVAKELG--IPYYETSVVTQFGVKDVFDNAI  192 (195)
T ss_pred             ccccccccccCCccCHHHHHHHHHHhC--CEEEEcCCCCCCCHHHHHHHHH
Confidence                        012234555555443  5899999999999999998875

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.

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

Probab=97.55  E-value=0.00014  Score=55.92  Aligned_cols=49  Identities=24%  Similarity=0.207  Sum_probs=38.7

Q ss_pred             eEEEEecCCCCCchhhhHHHHH--HHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030           92 DLLVINKTDLASAIGADLAVME--RDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus        92 DivViNK~DL~~~~~~~l~~~~--~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      -++|.||.||++.  .+....+  ...+++|  +..+.|||++|+|+.++|..++
T Consensus       131 I~LVGnKtDL~dk--rqvs~eEg~~kAkel~--a~f~etsak~g~NVk~lFrrIa  181 (221)
T KOG0094|consen  131 IFLVGNKTDLSDK--RQVSIEEGERKAKELN--AEFIETSAKAGENVKQLFRRIA  181 (221)
T ss_pred             EEEEcccccccch--hhhhHHHHHHHHHHhC--cEEEEecccCCCCHHHHHHHHH
Confidence            3789999999998  6654433  4445554  6889999999999999998865

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=97.54  E-value=0.00025  Score=52.33  Aligned_cols=77  Identities=18%  Similarity=0.069  Sum_probs=49.4

Q ss_pred             cCceEEEEEeCCCCCCc---c----c---c-CCCCcceeeEEEEecCCCCCchhhhHH----HHHHHHHhcCCCCcEEEE
Q 032030           64 LADYIIYIIDVSGGDKI---P----R---K-GGPGITQADLLVINKTDLASAIGADLA----VMERDALRMRDGGPFIFA  128 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~---~----~---~-~~~qi~~ADivViNK~DL~~~~~~~l~----~~~~~i~~~np~a~vi~t  128 (148)
                      .+|.++.|.|+......   .    .   . .+...+  -++|.||+|+.+.  .+.+    ...+..++.  ..+++.+
T Consensus        72 ~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~--iilVgnK~Dl~~~--~~~~~~~~~~~~~~~~~--~~~~~e~  145 (170)
T cd04108          72 GAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVL--LFLVGTKKDLSSP--AQYALMEQDAIKLAAEM--QAEYWSV  145 (170)
T ss_pred             CCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCe--EEEEEEChhcCcc--ccccccHHHHHHHHHHc--CCeEEEE
Confidence            57889999999764221   1    1   0 111122  4799999999765  3321    222333332  3688999


Q ss_pred             EecCCCCHHHHHHhhhhh
Q 032030          129 QVGWVIGIIFTLSITHYI  146 (148)
Q Consensus       129 Sa~~g~gi~~l~~~~~~~  146 (148)
                      ||++|.|++++|+.++-.
T Consensus       146 Sa~~g~~v~~lf~~l~~~  163 (170)
T cd04108         146 SALSGENVREFFFRVAAL  163 (170)
T ss_pred             ECCCCCCHHHHHHHHHHH
Confidence            999999999999887643

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

>PLN03118 Rab family protein; Provisional

Probab=97.54  E-value=0.00014  Score=55.44  Aligned_cols=95  Identities=18%  Similarity=0.109  Sum_probs=57.5

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCccc----------cCC--CCcceeeEEEEecCCCCCchhhh
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPR----------KGG--PGITQADLLVINKTDLASAIGAD  108 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~~----------~~~--~qi~~ADivViNK~DL~~~~~~~  108 (148)
                      +.+.++.|.|.--...+   .-..+|.++.|+|....+.+..          .+.  ...+  -++|.||+|+...  ..
T Consensus        62 ~~l~l~Dt~G~~~~~~~~~~~~~~~d~~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~--~ilv~NK~Dl~~~--~~  137 (211)
T PLN03118         62 LKLTIWDTAGQERFRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCV--KMLVGNKVDRESE--RD  137 (211)
T ss_pred             EEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCC--EEEEEECcccccc--Cc
Confidence            34556666664211111   0124688899999876532110          011  1223  5899999999764  32


Q ss_pred             H--HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          109 L--AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       109 l--~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +  +...+..+.  ...+++++||++|.|++++|+++.
T Consensus       138 i~~~~~~~~~~~--~~~~~~e~SAk~~~~v~~l~~~l~  173 (211)
T PLN03118        138 VSREEGMALAKE--HGCLFLECSAKTRENVEQCFEELA  173 (211)
T ss_pred             cCHHHHHHHHHH--cCCEEEEEeCCCCCCHHHHHHHHH
Confidence            2  333344443  346799999999999999999876

>PRK11058 GTPase HflX; Provisional

Probab=97.53  E-value=0.00036  Score=59.46  Aligned_cols=92  Identities=16%  Similarity=0.189  Sum_probs=56.6

Q ss_pred             CEEEEecCCce-e-e----eeec-----cccCceEEEEEeCCCCCCcc---------cc-CCCCcceeeEEEEecCCCCC
Q 032030           45 DLLLCESGGDN-L-A----ANFS-----RELADYIIYIIDVSGGDKIP---------RK-GGPGITQADLLVINKTDLAS  103 (148)
Q Consensus        45 D~IliEtsG~~-~-~----~~~~-----~~~~d~~i~vvDa~~~~~~~---------~~-~~~qi~~ADivViNK~DL~~  103 (148)
                      .++++.|+|.- . +    ..|.     -..+|.++.|+|+.+.....         .. .....+  -++|+||+|+.+
T Consensus       246 ~~~l~DTaG~~r~lp~~lve~f~~tl~~~~~ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~~p--vIiV~NKiDL~~  323 (426)
T PRK11058        246 ETVLADTVGFIRHLPHDLVAAFKATLQETRQATLLLHVVDAADVRVQENIEAVNTVLEEIDAHEIP--TLLVMNKIDMLD  323 (426)
T ss_pred             eEEEEecCcccccCCHHHHHHHHHHHHHhhcCCEEEEEEeCCCccHHHHHHHHHHHHHHhccCCCC--EEEEEEcccCCC
Confidence            56888999962 1 1    1121     13579999999998753211         00 111234  689999999976


Q ss_pred             chhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          104 AIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       104 ~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .  .. ..+. ... .+ ...++++||++|.|+++|++++.
T Consensus       324 ~--~~-~~~~-~~~-~~-~~~~v~ISAktG~GIdeL~e~I~  358 (426)
T PRK11058        324 D--FE-PRID-RDE-EN-KPIRVWLSAQTGAGIPLLFQALT  358 (426)
T ss_pred             c--hh-HHHH-HHh-cC-CCceEEEeCCCCCCHHHHHHHHH
Confidence            4  22 1111 111 11 11258899999999999998875

>cd04177 RSR1 RSR1 subgroup

Probab=97.53  E-value=0.00024  Score=51.81  Aligned_cols=98  Identities=14%  Similarity=0.086  Sum_probs=58.2

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCc----------cc-cCCCCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKI----------PR-KGGPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~----------~~-~~~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      ..+-++++.|......+.   -..++..+.++|......+          .. ......|  -+++.||.|+.+.-....
T Consensus        49 ~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv~~~~~~~s~~~~~~~~~~i~~~~~~~~~p--iiiv~nK~D~~~~~~~~~  126 (168)
T cd04177          49 CDLEILDTAGTEQFTAMRELYIKSGQGFLLVYSVTSEASLNELGELREQVLRIKDSDNVP--MVLVGNKADLEDDRQVSR  126 (168)
T ss_pred             EEEEEEeCCCcccchhhhHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCC--EEEEEEChhccccCccCH
Confidence            445677788753211111   1245777888887654321          00 0112344  478999999976411122


Q ss_pred             HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          110 AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       110 ~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +......+. ....+++++||++|.|++++|+++.
T Consensus       127 ~~~~~~~~~-~~~~~~~~~SA~~~~~i~~~f~~i~  160 (168)
T cd04177         127 EDGVSLSQQ-WGNVPFYETSARKRTNVDEVFIDLV  160 (168)
T ss_pred             HHHHHHHHH-cCCceEEEeeCCCCCCHHHHHHHHH
Confidence            233333333 2347899999999999999999886

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

>PTZ00369 Ras-like protein; Provisional

Probab=97.53  E-value=0.00013  Score=54.58  Aligned_cols=97  Identities=15%  Similarity=0.118  Sum_probs=57.8

Q ss_pred             EEEEecCCceeeeee---ccccCceEEEEEeCCCCCC---cc-------cc-CCCCcceeeEEEEecCCCCCchhhhHHH
Q 032030           46 LLLCESGGDNLAANF---SRELADYIIYIIDVSGGDK---IP-------RK-GGPGITQADLLVINKTDLASAIGADLAV  111 (148)
Q Consensus        46 ~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~---~~-------~~-~~~qi~~ADivViNK~DL~~~~~~~l~~  111 (148)
                      +-+.+|.|......+   .-..+|.+++++|....+.   ..       .. ....++  -++|.||+|+.+...-..+.
T Consensus        55 l~i~Dt~G~~~~~~l~~~~~~~~d~iilv~D~s~~~s~~~~~~~~~~i~~~~~~~~~p--iiiv~nK~Dl~~~~~i~~~~  132 (189)
T PTZ00369         55 LDILDTAGQEEYSAMRDQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVP--MILVGNKCDLDSERQVSTGE  132 (189)
T ss_pred             EEEEeCCCCccchhhHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC--EEEEEECcccccccccCHHH
Confidence            335667775322111   1135688899999876532   11       10 112344  48899999986540012223


Q ss_pred             HHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhhh
Q 032030          112 MERDALRMRDGGPFIFAQVGWVIGIIFTLSITHYI  146 (148)
Q Consensus       112 ~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~~  146 (148)
                      ..+..+..  ..+++.+||++|.|++++|++++..
T Consensus       133 ~~~~~~~~--~~~~~e~Sak~~~gi~~~~~~l~~~  165 (189)
T PTZ00369        133 GQELAKSF--GIPFLETSAKQRVNVDEAFYELVRE  165 (189)
T ss_pred             HHHHHHHh--CCEEEEeeCCCCCCHHHHHHHHHHH
Confidence            33333433  3589999999999999999998643

>cd01870 RhoA_like RhoA-like subfamily

Probab=97.53  E-value=0.00023  Score=51.90  Aligned_cols=98  Identities=16%  Similarity=0.190  Sum_probs=58.4

Q ss_pred             CCCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCc---cc-------cCCCCcceeeEEEEecCCCCCchhhhH
Q 032030           43 KADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKI---PR-------KGGPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~---~~-------~~~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      .+.+.+.+|.|.-....+.   -..+|.++.+.|....+.+   ..       ...+.++  -++|.||+|+.+.  ...
T Consensus        48 ~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~~~~~~~s~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~--~~~  123 (175)
T cd01870          48 QVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVP--IILVGNKKDLRND--EHT  123 (175)
T ss_pred             EEEEEEEeCCCchhhhhccccccCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCC--EEEEeeChhcccC--hhh
Confidence            3567788888853211111   1346778877887643221   10       0112444  5899999998764  221


Q ss_pred             --------------HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          110 --------------AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       110 --------------~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                                    ...++..+.. ...+++++||++|.|++++|++++-
T Consensus       124 ~~~i~~~~~~~v~~~~~~~~~~~~-~~~~~~~~Sa~~~~~v~~lf~~l~~  172 (175)
T cd01870         124 RRELAKMKQEPVKPEEGRDMANKI-GAFGYMECSAKTKEGVREVFEMATR  172 (175)
T ss_pred             hhhhhhccCCCccHHHHHHHHHHc-CCcEEEEeccccCcCHHHHHHHHHH
Confidence                          1222223322 2347899999999999999998863

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

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=97.52  E-value=0.00016  Score=60.08  Aligned_cols=77  Identities=23%  Similarity=0.153  Sum_probs=49.7

Q ss_pred             cCceEEEEEeCCCCCCc--ccc--CCCCcceeeEEEEecCCCCCchhh-hHHHHHHH----HHhcCC-CCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKI--PRK--GGPGITQADLLVINKTDLASAIGA-DLAVMERD----ALRMRD-GGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~--~~~--~~~qi~~ADivViNK~DL~~~~~~-~l~~~~~~----i~~~np-~a~vi~tSa~~g  133 (148)
                      .++.++.|+|+...+..  +..  .....+  -++|+||+||.+.  . ..+++.++    .++.+- ...++.+||++|
T Consensus        63 ~~~~Il~VvD~~d~~~s~~~~l~~~~~~~p--iilV~NK~DLl~k--~~~~~~~~~~l~~~~k~~g~~~~~i~~vSAk~g  138 (360)
T TIGR03597        63 SNALIVYVVDIFDFEGSLIPELKRFVGGNP--VLLVGNKIDLLPK--SVNLSKIKEWMKKRAKELGLKPVDIILVSAKKG  138 (360)
T ss_pred             CCcEEEEEEECcCCCCCccHHHHHHhCCCC--EEEEEEchhhCCC--CCCHHHHHHHHHHHHHHcCCCcCcEEEecCCCC
Confidence            56788999998765431  111  111233  5899999999864  2 22334433    443331 236899999999


Q ss_pred             CCHHHHHHhhh
Q 032030          134 IGIIFTLSITH  144 (148)
Q Consensus       134 ~gi~~l~~~~~  144 (148)
                      .|++++++.+.
T Consensus       139 ~gv~eL~~~l~  149 (360)
T TIGR03597       139 NGIDELLDKIK  149 (360)
T ss_pred             CCHHHHHHHHH
Confidence            99999998874

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.

>cd01868 Rab11_like Rab11-like

Probab=97.52  E-value=0.00015  Score=52.49  Aligned_cols=77  Identities=18%  Similarity=0.061  Sum_probs=49.4

Q ss_pred             cCceEEEEEeCCCCCCcc---cc-------CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKIP---RK-------GGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~---~~-------~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      .++.++++.|+.+.....   ..       .+..++  -++|.||+|+.+.-....+......+.  ...+++++||++|
T Consensus        75 ~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p--i~vv~nK~Dl~~~~~~~~~~~~~~~~~--~~~~~~~~Sa~~~  150 (165)
T cd01868          75 GAVGALLVYDITKKQTFENVERWLKELRDHADSNIV--IMLVGNKSDLRHLRAVPTEEAKAFAEK--NGLSFIETSALDG  150 (165)
T ss_pred             CCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCe--EEEEEECccccccccCCHHHHHHHHHH--cCCEEEEEECCCC
Confidence            467789999987542211   00       111233  578999999975410122344444443  3468999999999


Q ss_pred             CCHHHHHHhhh
Q 032030          134 IGIIFTLSITH  144 (148)
Q Consensus       134 ~gi~~l~~~~~  144 (148)
                      .|++++++++.
T Consensus       151 ~~v~~l~~~l~  161 (165)
T cd01868         151 TNVEEAFKQLL  161 (165)
T ss_pred             CCHHHHHHHHH
Confidence            99999999875

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

>PRK03003 GTP-binding protein Der; Reviewed

Probab=97.52  E-value=0.00028  Score=60.59  Aligned_cols=94  Identities=17%  Similarity=0.107  Sum_probs=57.3

Q ss_pred             CCEEEEecCCceee-----eee------ccccCceEEEEEeCCCCCCcc-----c-cCCCCcceeeEEEEecCCCCCchh
Q 032030           44 ADLLLCESGGDNLA-----ANF------SRELADYIIYIIDVSGGDKIP-----R-KGGPGITQADLLVINKTDLASAIG  106 (148)
Q Consensus        44 ~D~IliEtsG~~~~-----~~~------~~~~~d~~i~vvDa~~~~~~~-----~-~~~~qi~~ADivViNK~DL~~~~~  106 (148)
                      ..+.++.|.|.-..     ..+      .-..+|.+++|+|+..+....     . ......+  -++|+||+|+...  
T Consensus        86 ~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~aD~il~VvD~~~~~s~~~~~i~~~l~~~~~p--iilV~NK~Dl~~~--  161 (472)
T PRK03003         86 RRFTVVDTGGWEPDAKGLQASVAEQAEVAMRTADAVLFVVDATVGATATDEAVARVLRRSGKP--VILAANKVDDERG--  161 (472)
T ss_pred             cEEEEEeCCCcCCcchhHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCC--EEEEEECccCCcc--
Confidence            34667888885310     001      113579999999998763311     1 1112344  7999999999754  


Q ss_pred             hhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          107 ADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       107 ~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ..  ...+... .. ....+++||++|.|++++++++.-
T Consensus       162 ~~--~~~~~~~-~g-~~~~~~iSA~~g~gi~eL~~~i~~  196 (472)
T PRK03003        162 EA--DAAALWS-LG-LGEPHPVSALHGRGVGDLLDAVLA  196 (472)
T ss_pred             ch--hhHHHHh-cC-CCCeEEEEcCCCCCcHHHHHHHHh
Confidence            21  1222222 22 223479999999999999998753

>cd01874 Cdc42 Cdc42 subfamily

Probab=97.51  E-value=0.00016  Score=53.61  Aligned_cols=96  Identities=15%  Similarity=0.071  Sum_probs=59.1

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc---c-------cCCCCcceeeEEEEecCCCCCchhhhH-
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP---R-------KGGPGITQADLLVINKTDLASAIGADL-  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~---~-------~~~~qi~~ADivViNK~DL~~~~~~~l-  109 (148)
                      +.+-+.+++|.-....+.   -..+|.++++.|......+.   .       ...+.+|  -++|.||+|+.+.  .++ 
T Consensus        49 ~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~w~~~i~~~~~~~p--iilvgnK~Dl~~~--~~~~  124 (175)
T cd01874          49 YTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTP--FLLVGTQIDLRDD--PSTI  124 (175)
T ss_pred             EEEEEEECCCccchhhhhhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC--EEEEEECHhhhhC--hhhH
Confidence            556677777754221111   13568889999987653211   0       1122345  5899999999754  321 


Q ss_pred             -------------HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          110 -------------AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       110 -------------~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                                   +...+..++ .+..+++++||++|.|++++|+.++
T Consensus       125 ~~l~~~~~~~v~~~~~~~~a~~-~~~~~~~e~SA~tg~~v~~~f~~~~  171 (175)
T cd01874         125 EKLAKNKQKPITPETGEKLARD-LKAVKYVECSALTQKGLKNVFDEAI  171 (175)
T ss_pred             HHhhhccCCCcCHHHHHHHHHH-hCCcEEEEecCCCCCCHHHHHHHHH
Confidence                         112222322 3346899999999999999998875

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

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=97.50  E-value=0.00019  Score=65.24  Aligned_cols=97  Identities=18%  Similarity=0.132  Sum_probs=62.6

Q ss_pred             CCCEEEEecCCceee----e--eec---------cccCceEEEEEeCCCCCCcc----ccCCCCcceeeEEEEecCCCCC
Q 032030           43 KADLLLCESGGDNLA----A--NFS---------RELADYIIYIIDVSGGDKIP----RKGGPGITQADLLVINKTDLAS  103 (148)
Q Consensus        43 ~~D~IliEtsG~~~~----~--~~~---------~~~~d~~i~vvDa~~~~~~~----~~~~~qi~~ADivViNK~DL~~  103 (148)
                      +.++.++.+.|.-..    .  +..         ....|.++.|+|+.+.+...    ......++  -++++||+|+..
T Consensus        49 ~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~~l~~~~aD~vI~VvDat~ler~l~l~~ql~e~giP--vIvVlNK~Dl~~  126 (772)
T PRK09554         49 DHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLLINVVDASNLERNLYLTLQLLELGIP--CIVALNMLDIAE  126 (772)
T ss_pred             ceEEEEEECCCccccccccccccHHHHHHHHHHhccCCCEEEEEecCCcchhhHHHHHHHHHcCCC--EEEEEEchhhhh
Confidence            457888999996321    0  100         12468999999998765421    11122355  799999999975


Q ss_pred             chhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          104 AIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       104 ~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .  .....-.+.+++.. +.|++++||++|.|++++.+.+.
T Consensus       127 ~--~~i~id~~~L~~~L-G~pVvpiSA~~g~GIdeL~~~I~  164 (772)
T PRK09554        127 K--QNIRIDIDALSARL-GCPVIPLVSTRGRGIEALKLAID  164 (772)
T ss_pred             c--cCcHHHHHHHHHHh-CCCEEEEEeecCCCHHHHHHHHH
Confidence            4  33322223333322 36899999999999999998764

>COG1160 Predicted GTPases [General function prediction only]

Probab=97.50  E-value=0.00032  Score=59.81  Aligned_cols=95  Identities=21%  Similarity=0.181  Sum_probs=65.9

Q ss_pred             cCCCEEEEecCCceee--eee----------ccccCceEEEEEeCCCCCC-----ccc-cCCCCcceeeEEEEecCCCCC
Q 032030           42 FKADLLLCESGGDNLA--ANF----------SRELADYIIYIIDVSGGDK-----IPR-KGGPGITQADLLVINKTDLAS  103 (148)
Q Consensus        42 ~~~D~IliEtsG~~~~--~~~----------~~~~~d~~i~vvDa~~~~~-----~~~-~~~~qi~~ADivViNK~DL~~  103 (148)
                      .+..+.+|.|-|+-..  ..+          .-..+|.+++|||+..|..     +.. ..+...+  -++|+||+|-..
T Consensus        49 ~~~~f~lIDTgGl~~~~~~~l~~~i~~Qa~~Ai~eADvilfvVD~~~Git~~D~~ia~~Lr~~~kp--viLvvNK~D~~~  126 (444)
T COG1160          49 LGREFILIDTGGLDDGDEDELQELIREQALIAIEEADVILFVVDGREGITPADEEIAKILRRSKKP--VILVVNKIDNLK  126 (444)
T ss_pred             cCceEEEEECCCCCcCCchHHHHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhcCCC--EEEEEEcccCch
Confidence            3677999999998521  111          1135899999999998743     111 1222355  799999999764


Q ss_pred             chhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          104 AIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       104 ~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .  +  +..-+++.  .-..+++++||..|.|+.+|++.+.
T Consensus       127 ~--e--~~~~efys--lG~g~~~~ISA~Hg~Gi~dLld~v~  161 (444)
T COG1160         127 A--E--ELAYEFYS--LGFGEPVPISAEHGRGIGDLLDAVL  161 (444)
T ss_pred             h--h--hhHHHHHh--cCCCCceEeehhhccCHHHHHHHHH
Confidence            4  3  24555555  3456779999999999999998864

>cd01871 Rac1_like Rac1-like subfamily

Probab=97.49  E-value=0.00022  Score=52.86  Aligned_cols=98  Identities=12%  Similarity=0.063  Sum_probs=59.3

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCccc----------cCCCCcceeeEEEEecCCCCCchhhhH-
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIPR----------KGGPGITQADLLVINKTDLASAIGADL-  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~~----------~~~~qi~~ADivViNK~DL~~~~~~~l-  109 (148)
                      ..+.+.+|.|......+.   -..+|.+|+|.|....+.+..          ...+.++  -++|.||+||.+.- ... 
T Consensus        49 ~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~p--iilvgnK~Dl~~~~-~~~~  125 (174)
T cd01871          49 VNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTP--IILVGTKLDLRDDK-DTIE  125 (174)
T ss_pred             EEEEEEECCCchhhhhhhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC--EEEEeeChhhccCh-hhHH
Confidence            455677777753211111   135788999999876532110          1112344  68899999996430 111 


Q ss_pred             ------------HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          110 ------------AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       110 ------------~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                                  +...+..++.+ ..+++++||++|.|++++|+.++-
T Consensus       126 ~~~~~~~~~v~~~~~~~~~~~~~-~~~~~e~Sa~~~~~i~~~f~~l~~  172 (174)
T cd01871         126 KLKEKKLTPITYPQGLAMAKEIG-AVKYLECSALTQKGLKTVFDEAIR  172 (174)
T ss_pred             HHhhccCCCCCHHHHHHHHHHcC-CcEEEEecccccCCHHHHHHHHHH
Confidence                        22233344333 358899999999999999998763

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

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=97.48  E-value=0.00041  Score=60.01  Aligned_cols=96  Identities=15%  Similarity=0.167  Sum_probs=61.7

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcccc------CCCCcceeeEEEEecCCCCCchhhhHHHHHH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPRK------GGPGITQADLLVINKTDLASAIGADLAVMER  114 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~~~------~~~qi~~ADivViNK~DL~~~~~~~l~~~~~  114 (148)
                      +-+.||.|.|=.-...+   .....|..+.||++.+|-.-|..      .....|  =+|.+||+|..+.   .-.++..
T Consensus        55 ~~itFiDTPGHeAFt~mRaRGa~vtDIaILVVa~dDGv~pQTiEAI~hak~a~vP--~iVAiNKiDk~~~---np~~v~~  129 (509)
T COG0532          55 PGITFIDTPGHEAFTAMRARGASVTDIAILVVAADDGVMPQTIEAINHAKAAGVP--IVVAINKIDKPEA---NPDKVKQ  129 (509)
T ss_pred             ceEEEEcCCcHHHHHHHHhcCCccccEEEEEEEccCCcchhHHHHHHHHHHCCCC--EEEEEecccCCCC---CHHHHHH
Confidence            44566666663211111   12467889999999888543221      122455  5899999999853   3444444


Q ss_pred             HHH-------hcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          115 DAL-------RMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       115 ~i~-------~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .+.       ++.....++++||++|+|+++|++.+.
T Consensus       130 el~~~gl~~E~~gg~v~~VpvSA~tg~Gi~eLL~~il  166 (509)
T COG0532         130 ELQEYGLVPEEWGGDVIFVPVSAKTGEGIDELLELIL  166 (509)
T ss_pred             HHHHcCCCHhhcCCceEEEEeeccCCCCHHHHHHHHH
Confidence            333       233457899999999999999998764

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=97.46  E-value=0.00035  Score=51.11  Aligned_cols=96  Identities=14%  Similarity=0.096  Sum_probs=59.9

Q ss_pred             CCEEEEecCCceee-eeec---cccCceEEEEEeCCCCCCcc---c--------cCCCCcceeeEEEEecCCCCCchhhh
Q 032030           44 ADLLLCESGGDNLA-ANFS---RELADYIIYIIDVSGGDKIP---R--------KGGPGITQADLLVINKTDLASAIGAD  108 (148)
Q Consensus        44 ~D~IliEtsG~~~~-~~~~---~~~~d~~i~vvDa~~~~~~~---~--------~~~~qi~~ADivViNK~DL~~~~~~~  108 (148)
                      +.+-+.++.|.--. ..+.   -..+|.+++++|+.......   .        .....+|  -++|.||+|+...  .+
T Consensus        51 ~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p--~iiv~nK~Dl~~~--~~  126 (170)
T cd04115          51 IKVQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEVP--RILVGNKCDLREQ--IQ  126 (170)
T ss_pred             EEEEEEeCCChHHHHHhhHHHhhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcCCCCCC--EEEEEECccchhh--cC
Confidence            55667777774211 1111   13468889999997653211   0        0123455  6999999999754  32


Q ss_pred             H--HHHHHHHHhcCCCCcEEEEEecC---CCCHHHHHHhhhh
Q 032030          109 L--AVMERDALRMRDGGPFIFAQVGW---VIGIIFTLSITHY  145 (148)
Q Consensus       109 l--~~~~~~i~~~np~a~vi~tSa~~---g~gi~~l~~~~~~  145 (148)
                      +  +...+..+..  ..+++.+||++   +.+++++|..++.
T Consensus       127 ~~~~~~~~~~~~~--~~~~~e~Sa~~~~~~~~i~~~f~~l~~  166 (170)
T cd04115         127 VPTDLAQRFADAH--SMPLFETSAKDPSENDHVEAIFMTLAH  166 (170)
T ss_pred             CCHHHHHHHHHHc--CCcEEEEeccCCcCCCCHHHHHHHHHH
Confidence            1  2333333332  37899999999   8999999988764

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

>cd04118 Rab24 Rab24 subfamily

Probab=97.46  E-value=0.00035  Score=52.09  Aligned_cols=77  Identities=12%  Similarity=-0.077  Sum_probs=49.7

Q ss_pred             cCceEEEEEeCCCCCCcc------c---cCCCCcceeeEEEEecCCCCCchh--h--hHHHHHHHHHhcCCCCcEEEEEe
Q 032030           64 LADYIIYIIDVSGGDKIP------R---KGGPGITQADLLVINKTDLASAIG--A--DLAVMERDALRMRDGGPFIFAQV  130 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~------~---~~~~qi~~ADivViNK~DL~~~~~--~--~l~~~~~~i~~~np~a~vi~tSa  130 (148)
                      .+|.+++|+|......+.      .   ...+..+  -++|.||+|+.+...  .  ..+.+.+..+.  ...+++++||
T Consensus        73 ~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~p--iilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~--~~~~~~~~Sa  148 (193)
T cd04118          73 GAKAAIVCYDLTDSSSFERAKFWVKELQNLEEHCK--IYLCGTKSDLIEQDRSLRQVDFHDVQDFADE--IKAQHFETSS  148 (193)
T ss_pred             CCCEEEEEEECCCHHHHHHHHHHHHHHHhcCCCCC--EEEEEEcccccccccccCccCHHHHHHHHHH--cCCeEEEEeC
Confidence            578889999987653211      1   0112234  689999999975410  0  11233333333  2468999999


Q ss_pred             cCCCCHHHHHHhhh
Q 032030          131 GWVIGIIFTLSITH  144 (148)
Q Consensus       131 ~~g~gi~~l~~~~~  144 (148)
                      ++|.|+++++++++
T Consensus       149 ~~~~gv~~l~~~i~  162 (193)
T cd04118         149 KTGQNVDELFQKVA  162 (193)
T ss_pred             CCCCCHHHHHHHHH
Confidence            99999999999876

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

>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=97.46  E-value=0.0002  Score=58.70  Aligned_cols=102  Identities=19%  Similarity=0.188  Sum_probs=64.8

Q ss_pred             hcCCCEEEEecCCceee---------eee------ccccCceEEEEEeCCCCCC--cccc-----CCCCcceeeEEEEec
Q 032030           41 LFKADLLLCESGGDNLA---------ANF------SRELADYIIYIIDVSGGDK--IPRK-----GGPGITQADLLVINK   98 (148)
Q Consensus        41 ~~~~D~IliEtsG~~~~---------~~~------~~~~~d~~i~vvDa~~~~~--~~~~-----~~~qi~~ADivViNK   98 (148)
                      ...--+||..|.|+...         ..+      ....+|.+++++|+...-.  -+..     .-.+++  .++|+||
T Consensus       117 s~eTQlvf~DTPGlvs~~~~r~~~l~~s~lq~~~~a~q~AD~vvVv~Das~tr~~l~p~vl~~l~~ys~ip--s~lvmnk  194 (379)
T KOG1423|consen  117 SGETQLVFYDTPGLVSKKMHRRHHLMMSVLQNPRDAAQNADCVVVVVDASATRTPLHPRVLHMLEEYSKIP--SILVMNK  194 (379)
T ss_pred             cCceEEEEecCCcccccchhhhHHHHHHhhhCHHHHHhhCCEEEEEEeccCCcCccChHHHHHHHHHhcCC--ceeeccc
Confidence            34678999999998421         011      1135799999999985211  1211     113566  7999999


Q ss_pred             CCCCCchh-----------hhHHHHHHHHHhcCCCCc----------------EEEEEecCCCCHHHHHHhhh
Q 032030           99 TDLASAIG-----------ADLAVMERDALRMRDGGP----------------FIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus        99 ~DL~~~~~-----------~~l~~~~~~i~~~np~a~----------------vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +|...+..           .++....-.+++....+|                ||.+||++|.|++++-+++.
T Consensus       195 id~~k~k~~Ll~l~~~Lt~g~l~~~kl~v~~~f~~~p~~~~~~~~~gwshfe~vF~vSaL~G~GikdlkqyLm  267 (379)
T KOG1423|consen  195 IDKLKQKRLLLNLKDLLTNGELAKLKLEVQEKFTDVPSDEKWRTICGWSHFERVFMVSALYGEGIKDLKQYLM  267 (379)
T ss_pred             hhcchhhhHHhhhHHhccccccchhhhhHHHHhccCCcccccccccCcccceeEEEEecccccCHHHHHHHHH
Confidence            99755411           233333334444444444                99999999999999998864

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=97.46  E-value=0.0005  Score=58.42  Aligned_cols=97  Identities=14%  Similarity=0.094  Sum_probs=62.5

Q ss_pred             CEEEEecCCceee-eeec--cccCceEEEEEeCCCCCCcccc------CCCCcceeeEEEEecCCCCCchhhhHHHHHHH
Q 032030           45 DLLLCESGGDNLA-ANFS--RELADYIIYIIDVSGGDKIPRK------GGPGITQADLLVINKTDLASAIGADLAVMERD  115 (148)
Q Consensus        45 D~IliEtsG~~~~-~~~~--~~~~d~~i~vvDa~~~~~~~~~------~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~  115 (148)
                      =.-||++.|=.-- .++.  -...|+.+++|++.+|.+.+..      .--+++. -++|+||+|++++  ++++...+.
T Consensus        51 ~~~fIDvpgh~~~i~~miag~~~~d~alLvV~~deGl~~qtgEhL~iLdllgi~~-giivltk~D~~d~--~r~e~~i~~  127 (447)
T COG3276          51 VMGFIDVPGHPDFISNLLAGLGGIDYALLVVAADEGLMAQTGEHLLILDLLGIKN-GIIVLTKADRVDE--ARIEQKIKQ  127 (447)
T ss_pred             ceEEeeCCCcHHHHHHHHhhhcCCceEEEEEeCccCcchhhHHHHHHHHhcCCCc-eEEEEeccccccH--HHHHHHHHH
Confidence            3456777773210 0110  1256788999999877553210      0012220 2899999999998  777655544


Q ss_pred             HHh-c-CCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          116 ALR-M-RDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       116 i~~-~-np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +.+ . .+.++++++|+++|.|+++|-+.+.
T Consensus       128 Il~~l~l~~~~i~~~s~~~g~GI~~Lk~~l~  158 (447)
T COG3276         128 ILADLSLANAKIFKTSAKTGRGIEELKNELI  158 (447)
T ss_pred             HHhhcccccccccccccccCCCHHHHHHHHH
Confidence            432 1 4788999999999999999987764

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=97.46  E-value=0.00017  Score=59.49  Aligned_cols=80  Identities=19%  Similarity=0.187  Sum_probs=54.4

Q ss_pred             cCceEEEEEeCCCCCCccccCC-----C--CcceeeEEEEecCCCCCchh--hhHHHHHHHHHh-cCCCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKIPRKGG-----P--GITQADLLVINKTDLASAIG--ADLAVMERDALR-MRDGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~~~~-----~--qi~~ADivViNK~DL~~~~~--~~l~~~~~~i~~-~np~a~vi~tSa~~g  133 (148)
                      +-|..+.|+.|.+.-..|+-..     .  .++ --++|-||+||++...  +..+++.++++. +-.++||+++||..+
T Consensus       109 lMDgAlLvIaANEpcPQPQT~EHl~AleIigik-~iiIvQNKIDlV~~E~AlE~y~qIk~FvkGt~Ae~aPIIPiSA~~~  187 (415)
T COG5257         109 LMDGALLVIAANEPCPQPQTREHLMALEIIGIK-NIIIVQNKIDLVSRERALENYEQIKEFVKGTVAENAPIIPISAQHK  187 (415)
T ss_pred             hhcceEEEEecCCCCCCCchHHHHHHHhhhccc-eEEEEecccceecHHHHHHHHHHHHHHhcccccCCCceeeehhhhc
Confidence            3466688888877643332111     0  122 1377889999999721  233567777873 446789999999999


Q ss_pred             CCHHHHHHhhh
Q 032030          134 IGIIFTLSITH  144 (148)
Q Consensus       134 ~gi~~l~~~~~  144 (148)
                      .|++.|++++.
T Consensus       188 ~NIDal~e~i~  198 (415)
T COG5257         188 ANIDALIEAIE  198 (415)
T ss_pred             cCHHHHHHHHH
Confidence            99999998764

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=97.45  E-value=0.00052  Score=60.71  Aligned_cols=98  Identities=19%  Similarity=0.103  Sum_probs=59.6

Q ss_pred             CEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchh---------
Q 032030           45 DLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIG---------  106 (148)
Q Consensus        45 D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~---------  106 (148)
                      .+.|+.|.|---...+   .-..+|..++|+|+.++...+.      .....++  -++++||+|+.+...         
T Consensus        70 ~l~~iDTpG~e~f~~l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i~~l~~~~vp--iIVv~NK~Dl~~~~~~~~~~~f~e  147 (590)
T TIGR00491        70 GLLFIDTPGHEAFTNLRKRGGALADLAILIVDINEGFKPQTQEALNILRMYKTP--FVVAANKIDRIPGWRSHEGRPFME  147 (590)
T ss_pred             cEEEEECCCcHhHHHHHHHHHhhCCEEEEEEECCcCCCHhHHHHHHHHHHcCCC--EEEEEECCCccchhhhccCchHHH
Confidence            3778889885211111   1146789999999987633111      1112344  589999999974200         


Q ss_pred             ---hhHHHH-----------HHHHH-------------hcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          107 ---ADLAVM-----------ERDAL-------------RMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       107 ---~~l~~~-----------~~~i~-------------~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                         .+-+.+           ...+.             +.....+++++||+||+|+++|++++.
T Consensus       148 ~sak~~~~v~~~~~~~~~~lv~~l~~~G~~~e~~~~i~~~~~~v~iVpVSA~tGeGideLl~~l~  212 (590)
T TIGR00491       148 SFSKQEIQVQQNLDTKVYNLVIKLHEEGFEAERFDRVTDFTKTVAIIPISAITGEGIPELLTMLA  212 (590)
T ss_pred             HHHhhhHHHHHHHHHHHHHHHHHHHhcCccHHhhhhhhhcCCCceEEEeecCCCCChhHHHHHHH
Confidence               000011           11111             234568999999999999999998764

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.

>PRK13796 GTPase YqeH; Provisional

Probab=97.45  E-value=0.00031  Score=58.62  Aligned_cols=75  Identities=16%  Similarity=0.042  Sum_probs=47.9

Q ss_pred             ceEEEEEeCCCCCCc--ccc--CCCCcceeeEEEEecCCCCCchhh-hHHHHHHHH----HhcC-CCCcEEEEEecCCCC
Q 032030           66 DYIIYIIDVSGGDKI--PRK--GGPGITQADLLVINKTDLASAIGA-DLAVMERDA----LRMR-DGGPFIFAQVGWVIG  135 (148)
Q Consensus        66 d~~i~vvDa~~~~~~--~~~--~~~qi~~ADivViNK~DL~~~~~~-~l~~~~~~i----~~~n-p~a~vi~tSa~~g~g  135 (148)
                      ..++.|+|+.+....  +..  +....+  -++|+||+||.+.  . ..+++.+++    +..+ +..+++.+||++|.|
T Consensus        71 ~lIv~VVD~~D~~~s~~~~L~~~~~~kp--viLViNK~DLl~~--~~~~~~i~~~l~~~~k~~g~~~~~v~~vSAk~g~g  146 (365)
T PRK13796         71 ALVVNVVDIFDFNGSWIPGLHRFVGNNP--VLLVGNKADLLPK--SVKKNKVKNWLRQEAKELGLRPVDVVLISAQKGHG  146 (365)
T ss_pred             cEEEEEEECccCCCchhHHHHHHhCCCC--EEEEEEchhhCCC--ccCHHHHHHHHHHHHHhcCCCcCcEEEEECCCCCC
Confidence            377999998765431  111  112233  5899999999864  2 223343332    3222 224789999999999


Q ss_pred             HHHHHHhhh
Q 032030          136 IIFTLSITH  144 (148)
Q Consensus       136 i~~l~~~~~  144 (148)
                      ++++++.+.
T Consensus       147 I~eL~~~I~  155 (365)
T PRK13796        147 IDELLEAIE  155 (365)
T ss_pred             HHHHHHHHH
Confidence            999998873

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=97.40  E-value=0.00039  Score=58.82  Aligned_cols=96  Identities=16%  Similarity=0.142  Sum_probs=56.1

Q ss_pred             CCCEEEEecCCceee--eee-ccccCceEEEEEeCCCCC---Ccccc----CCCCcce-eeEEEEecCCCCCchhhhH--
Q 032030           43 KADLLLCESGGDNLA--ANF-SRELADYIIYIIDVSGGD---KIPRK----GGPGITQ-ADLLVINKTDLASAIGADL--  109 (148)
Q Consensus        43 ~~D~IliEtsG~~~~--~~~-~~~~~d~~i~vvDa~~~~---~~~~~----~~~qi~~-ADivViNK~DL~~~~~~~l--  109 (148)
                      +..+.++.|.|---.  ..+ .-..+|..++|+|+..++   ..+..    ....+.. --++++||+|+.+...+.+  
T Consensus        84 ~~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~~~~~~~~~~iIVviNK~Dl~~~~~~~~~~  163 (426)
T TIGR00483        84 KYEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHAFLARTLGINQLIVAINKMDSVNYDEEEFEA  163 (426)
T ss_pred             CeEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHHHHHHHcCCCeEEEEEEChhccCccHHHHHH
Confidence            466788888884210  000 113578999999998772   11110    0001111 1467899999985311333  


Q ss_pred             --HHHHHHHHhcC---CCCcEEEEEecCCCCHHH
Q 032030          110 --AVMERDALRMR---DGGPFIFAQVGWVIGIIF  138 (148)
Q Consensus       110 --~~~~~~i~~~n---p~a~vi~tSa~~g~gi~~  138 (148)
                        +++.+.++...   ...+++++||++|.|+++
T Consensus       164 ~~~ei~~~~~~~g~~~~~~~~i~iSA~~g~ni~~  197 (426)
T TIGR00483       164 IKKEVSNLIKKVGYNPDTVPFIPISAWNGDNVIK  197 (426)
T ss_pred             HHHHHHHHHHHcCCCcccceEEEeeccccccccc
Confidence              33444555433   246899999999999986

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.

>cd04111 Rab39 Rab39 subfamily

Probab=97.38  E-value=0.00045  Score=52.96  Aligned_cols=97  Identities=13%  Similarity=0.062  Sum_probs=57.1

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc---c-------cC-CCCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP---R-------KG-GPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~---~-------~~-~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      +.+.+.+++|.-.....   .-..+|.++++.|......+.   .       .. +...+  -++|.||+|+.+.-....
T Consensus        52 ~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~--iilvgNK~Dl~~~~~v~~  129 (211)
T cd04111          52 IKLQLWDTAGQERFRSITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHRPV--FILVGHKCDLESQRQVTR  129 (211)
T ss_pred             EEEEEEeCCcchhHHHHHHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCe--EEEEEEccccccccccCH
Confidence            44566677774211000   013468889999987653210   0       00 11122  367889999976400112


Q ss_pred             HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          110 AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       110 ~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +...+..+..+  .+++.+||++|.|++++|++++
T Consensus       130 ~~~~~~~~~~~--~~~~e~Sak~g~~v~e~f~~l~  162 (211)
T cd04111         130 EEAEKLAKDLG--MKYIETSARTGDNVEEAFELLT  162 (211)
T ss_pred             HHHHHHHHHhC--CEEEEEeCCCCCCHHHHHHHHH
Confidence            33444444333  7899999999999999999876

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.

>cd04103 Centaurin_gamma Centaurin gamma

Probab=97.37  E-value=0.00032  Score=51.32  Aligned_cols=78  Identities=8%  Similarity=0.047  Sum_probs=49.0

Q ss_pred             cCceEEEEEeCCCCCCccc---------cC--CCCcceeeEEEEecCCCCCchhhhH--HHHHHHHHhcCCCCcEEEEEe
Q 032030           64 LADYIIYIIDVSGGDKIPR---------KG--GPGITQADLLVINKTDLASAIGADL--AVMERDALRMRDGGPFIFAQV  130 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~---------~~--~~qi~~ADivViNK~DL~~~~~~~l--~~~~~~i~~~np~a~vi~tSa  130 (148)
                      .+|.++.|.|......+..         ..  .+.++  -++|.||.||...-..++  +..++..++ ....++++|||
T Consensus        65 ~~~~~ilv~d~~~~~sf~~~~~~~~~i~~~~~~~~~p--iilvgnK~Dl~~~~~~~v~~~~~~~~~~~-~~~~~~~e~SA  141 (158)
T cd04103          65 WVDAVIFVFSLENEASFQTVYNLYHQLSSYRNISEIP--LILVGTQDAISESNPRVIDDARARQLCAD-MKRCSYYETCA  141 (158)
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC--EEEEeeHHHhhhcCCcccCHHHHHHHHHH-hCCCcEEEEec
Confidence            4678899999876532211         01  13345  479999999843100212  122333332 23468999999


Q ss_pred             cCCCCHHHHHHhhh
Q 032030          131 GWVIGIIFTLSITH  144 (148)
Q Consensus       131 ~~g~gi~~l~~~~~  144 (148)
                      ++|.|++++|..++
T Consensus       142 k~~~~i~~~f~~~~  155 (158)
T cd04103         142 TYGLNVERVFQEAA  155 (158)
T ss_pred             CCCCCHHHHHHHHH
Confidence            99999999999876

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.

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=97.37  E-value=0.00031  Score=59.24  Aligned_cols=95  Identities=18%  Similarity=0.201  Sum_probs=56.8

Q ss_pred             CCCEEEEecCCceee-eee--ccccCceEEEEEeCCCCCCcccc------CCCCcceeeEEEEecCCCCCchhhhHHHHH
Q 032030           43 KADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDKIPRK------GGPGITQADLLVINKTDLASAIGADLAVME  113 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~~~~~------~~~qi~~ADivViNK~DL~~~~~~~l~~~~  113 (148)
                      +..+.|+.|.|.... ...  .-..+|..+.|+|+..+..-+..      ...+++ --++++||+|+.+.-.+.++.+.
T Consensus        79 ~~~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~qt~~~~~~~~~~~~~-~iivviNK~D~~~~~~~~~~~i~  157 (406)
T TIGR02034        79 KRKFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQTRRHSYIASLLGIR-HVVLAVNKMDLVDYDEEVFENIK  157 (406)
T ss_pred             CeEEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCCccccHHHHHHHHHcCCC-cEEEEEEecccccchHHHHHHHH
Confidence            446788888884310 000  12367899999999877432210      011222 13679999999864113333344


Q ss_pred             HHH----HhcC-CCCcEEEEEecCCCCHHH
Q 032030          114 RDA----LRMR-DGGPFIFAQVGWVIGIIF  138 (148)
Q Consensus       114 ~~i----~~~n-p~a~vi~tSa~~g~gi~~  138 (148)
                      +.+    +... ...+++++||++|.|+++
T Consensus       158 ~~~~~~~~~~~~~~~~iipiSA~~g~ni~~  187 (406)
T TIGR02034       158 KDYLAFAEQLGFRDVTFIPLSALKGDNVVS  187 (406)
T ss_pred             HHHHHHHHHcCCCCccEEEeecccCCCCcc
Confidence            433    3322 346899999999999875

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).

>cd04133 Rop_like Rop subfamily

Probab=97.36  E-value=0.00029  Score=52.75  Aligned_cols=99  Identities=14%  Similarity=0.085  Sum_probs=58.4

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCccc----------cCCCCcceeeEEEEecCCCCCchh----
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIPR----------KGGPGITQADLLVINKTDLASAIG----  106 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~~----------~~~~qi~~ADivViNK~DL~~~~~----  106 (148)
                      +.+-+..|.|.--...+.   -..+|.++.+.|......+..          ...+.++  -++|.||+||.+.-.    
T Consensus        49 v~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilvyd~~~~~Sf~~~~~~w~~~i~~~~~~~p--iilvgnK~Dl~~~~~~~~~  126 (176)
T cd04133          49 VNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLISRASYENVLKKWVPELRHYAPNVP--IVLVGTKLDLRDDKQYLAD  126 (176)
T ss_pred             EEEEEEECCCCccccccchhhcCCCcEEEEEEEcCCHHHHHHHHHHHHHHHHHhCCCCC--EEEEEeChhhccChhhhhh
Confidence            445566666643211111   125688899999875432210          1122344  589999999965300    


Q ss_pred             ------hhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          107 ------ADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       107 ------~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                            -..++..+..++.+ ..+.+.|||++|.|++++|+.++=
T Consensus       127 ~~~~~~v~~~~~~~~a~~~~-~~~~~E~SAk~~~nV~~~F~~~~~  170 (176)
T cd04133         127 HPGASPITTAQGEELRKQIG-AAAYIECSSKTQQNVKAVFDAAIK  170 (176)
T ss_pred             ccCCCCCCHHHHHHHHHHcC-CCEEEECCCCcccCHHHHHHHHHH
Confidence                  11233444444332 236899999999999999998763

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,

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=97.35  E-value=0.0034  Score=51.04  Aligned_cols=108  Identities=15%  Similarity=0.116  Sum_probs=65.9

Q ss_pred             HHHHhhhh--cCCCEEEEecCCceeeeeecc-----------ccCceEEEEEeCCCCCC---c--------cccCCCCcc
Q 032030           34 PLEELSNL--FKADLLLCESGGDNLAANFSR-----------ELADYIIYIIDVSGGDK---I--------PRKGGPGIT   89 (148)
Q Consensus        34 al~~l~~~--~~~D~IliEtsG~~~~~~~~~-----------~~~d~~i~vvDa~~~~~---~--------~~~~~~qi~   89 (148)
                      .+.++.++  ..+||++|.|.|-.-+.+.+.           ..--.++.+||..+...   +        ...++..+|
T Consensus       104 qv~~~iek~~~~~~~~liDTPGQIE~FtWSAsGsIIte~lass~ptvv~YvvDt~rs~~p~tFMSNMlYAcSilyktklp  183 (366)
T KOG1532|consen  104 QVIELIEKRAEEFDYVLIDTPGQIEAFTWSASGSIITETLASSFPTVVVYVVDTPRSTSPTTFMSNMLYACSILYKTKLP  183 (366)
T ss_pred             HHHHHHHHhhcccCEEEEcCCCceEEEEecCCccchHhhHhhcCCeEEEEEecCCcCCCchhHHHHHHHHHHHHHhccCC
Confidence            34444443  369999999999532211111           11123588999765421   0        112345667


Q ss_pred             eeeEEEEecCCCCCchh-----hhHHHHHHHHH-------------------hcCCCCcEEEEEecCCCCHHHHHHhh
Q 032030           90 QADLLVINKTDLASAIG-----ADLAVMERDAL-------------------RMRDGGPFIFAQVGWVIGIIFTLSIT  143 (148)
Q Consensus        90 ~ADivViNK~DL~~~~~-----~~l~~~~~~i~-------------------~~np~a~vi~tSa~~g~gi~~l~~~~  143 (148)
                        =++|.||+|+.+...     .+.++.++.+.                   +...+.+.+-+|+.||.|.+++|..+
T Consensus       184 --~ivvfNK~Dv~d~~fa~eWm~DfE~FqeAl~~~~~~y~s~l~~SmSL~leeFY~~lrtv~VSs~tG~G~ddf~~av  259 (366)
T KOG1532|consen  184 --FIVVFNKTDVSDSEFALEWMTDFEAFQEALNEAESSYMSNLTRSMSLMLEEFYRSLRTVGVSSVTGEGFDDFFTAV  259 (366)
T ss_pred             --eEEEEecccccccHHHHHHHHHHHHHHHHHHhhccchhHHhhhhHHHHHHHHHhhCceEEEecccCCcHHHHHHHH
Confidence              699999999987511     11223333332                   34456788999999999999999765

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=97.35  E-value=0.00026  Score=54.68  Aligned_cols=75  Identities=11%  Similarity=-0.041  Sum_probs=49.2

Q ss_pred             cCceEEEEEeCCCCCCcc---c------cCCCCcceeeEEEEecCCCCCchhhhH-HHHHHHHHhcCCCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKIP---R------KGGPGITQADLLVINKTDLASAIGADL-AVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~---~------~~~~qi~~ADivViNK~DL~~~~~~~l-~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      .+|.+|+|+|......+.   .      ...+.++  -++|.||+|+...  ... +.+ +..+.  .+.+.+.+||++|
T Consensus        85 ~~~~~ilvfD~~~~~s~~~i~~w~~~i~~~~~~~p--iilvgNK~Dl~~~--~v~~~~~-~~~~~--~~~~~~e~SAk~~  157 (219)
T PLN03071         85 HGQCAIIMFDVTARLTYKNVPTWHRDLCRVCENIP--IVLCGNKVDVKNR--QVKAKQV-TFHRK--KNLQYYEISAKSN  157 (219)
T ss_pred             cccEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCc--EEEEEEchhhhhc--cCCHHHH-HHHHh--cCCEEEEcCCCCC
Confidence            457789999987653211   0      1122344  6999999999653  211 122 33332  3467899999999


Q ss_pred             CCHHHHHHhhhh
Q 032030          134 IGIIFTLSITHY  145 (148)
Q Consensus       134 ~gi~~l~~~~~~  145 (148)
                      .|++++|++++-
T Consensus       158 ~~i~~~f~~l~~  169 (219)
T PLN03071        158 YNFEKPFLYLAR  169 (219)
T ss_pred             CCHHHHHHHHHH
Confidence            999999998863

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=97.33  E-value=0.0007  Score=60.99  Aligned_cols=93  Identities=19%  Similarity=0.113  Sum_probs=58.5

Q ss_pred             CCEEEEecCCceee-----eee------ccccCceEEEEEeCCCCCCc-----cc-cCCCCcceeeEEEEecCCCCCchh
Q 032030           44 ADLLLCESGGDNLA-----ANF------SRELADYIIYIIDVSGGDKI-----PR-KGGPGITQADLLVINKTDLASAIG  106 (148)
Q Consensus        44 ~D~IliEtsG~~~~-----~~~------~~~~~d~~i~vvDa~~~~~~-----~~-~~~~qi~~ADivViNK~DL~~~~~  106 (148)
                      ..+.++.|.|....     ..+      .-..+|.+++|+|+..+...     .. ......+  -++|+||+|+...  
T Consensus       323 ~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~aD~iL~VvDa~~~~~~~d~~i~~~Lr~~~~p--vIlV~NK~D~~~~--  398 (712)
T PRK09518        323 TDFKLVDTGGWEADVEGIDSAIASQAQIAVSLADAVVFVVDGQVGLTSTDERIVRMLRRAGKP--VVLAVNKIDDQAS--  398 (712)
T ss_pred             EEEEEEeCCCcCCCCccHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHhcCCC--EEEEEECcccccc--
Confidence            45678888885321     001      11357999999999875321     11 1123445  6999999998754  


Q ss_pred             hhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          107 ADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       107 ~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ..  ...+.++.  ....++++||++|.|++++++++.
T Consensus       399 ~~--~~~~~~~l--g~~~~~~iSA~~g~GI~eLl~~i~  432 (712)
T PRK09518        399 EY--DAAEFWKL--GLGEPYPISAMHGRGVGDLLDEAL  432 (712)
T ss_pred             hh--hHHHHHHc--CCCCeEEEECCCCCCchHHHHHHH
Confidence            32  22233331  223458999999999999998875

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=97.33  E-value=0.00036  Score=50.59  Aligned_cols=97  Identities=18%  Similarity=0.116  Sum_probs=59.4

Q ss_pred             CEEEEecCCceee--eee--ccccCceEEEEEeCCCCCCcc----------ccC--CCCcceeeEEEEecCCCCCchhhh
Q 032030           45 DLLLCESGGDNLA--ANF--SRELADYIIYIIDVSGGDKIP----------RKG--GPGITQADLLVINKTDLASAIGAD  108 (148)
Q Consensus        45 D~IliEtsG~~~~--~~~--~~~~~d~~i~vvDa~~~~~~~----------~~~--~~qi~~ADivViNK~DL~~~~~~~  108 (148)
                      .+-++++.|....  ...  .-..+|.+++++|+.+...+.          ...  ...+|  -++|.||+|+...-.-.
T Consensus        48 ~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~~~v~  125 (165)
T cd04146          48 SLEILDTAGQQQADTEQLERSIRWADGFVLVYSITDRSSFDEISQLKQLIREIKKRDREIP--VILVGNKADLLHYRQVS  125 (165)
T ss_pred             EEEEEECCCCcccccchHHHHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCC--EEEEEECCchHHhCccC
Confidence            4557788885421  100  112578899999997763211          111  22455  58999999986430012


Q ss_pred             HHHHHHHHHhcCCCCcEEEEEecCC-CCHHHHHHhhhh
Q 032030          109 LAVMERDALRMRDGGPFIFAQVGWV-IGIIFTLSITHY  145 (148)
Q Consensus       109 l~~~~~~i~~~np~a~vi~tSa~~g-~gi~~l~~~~~~  145 (148)
                      .+...+..+..+  .+++++||++| .|++++|+.++-
T Consensus       126 ~~~~~~~~~~~~--~~~~e~Sa~~~~~~v~~~f~~l~~  161 (165)
T cd04146         126 TEEGEKLASELG--CLFFEVSAAEDYDGVHSVFHELCR  161 (165)
T ss_pred             HHHHHHHHHHcC--CEEEEeCCCCCchhHHHHHHHHHH
Confidence            223344444433  68999999999 599999998863

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

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=97.29  E-value=0.00041  Score=59.75  Aligned_cols=96  Identities=18%  Similarity=0.175  Sum_probs=58.7

Q ss_pred             CCCEEEEecCCceee-eee--ccccCceEEEEEeCCCCCCcccc------CCCCcceeeEEEEecCCCCCchhhhHHHHH
Q 032030           43 KADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDKIPRK------GGPGITQADLLVINKTDLASAIGADLAVME  113 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~~~~~------~~~qi~~ADivViNK~DL~~~~~~~l~~~~  113 (148)
                      +..++||.|.|---. ...  .-..+|..++|+|+..+..-+..      ....++ --++++||+|+.+.-...++.+.
T Consensus       106 ~~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G~~~qt~~~~~l~~~lg~~-~iIvvvNKiD~~~~~~~~~~~i~  184 (474)
T PRK05124        106 KRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQTRRHSFIATLLGIK-HLVVAVNKMDLVDYSEEVFERIR  184 (474)
T ss_pred             CcEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccccchHHHHHHHHhCCC-ceEEEEEeeccccchhHHHHHHH
Confidence            456889999994210 000  12467999999999877432110      001122 13679999999853113344555


Q ss_pred             HHHHh----c--CCCCcEEEEEecCCCCHHHH
Q 032030          114 RDALR----M--RDGGPFIFAQVGWVIGIIFT  139 (148)
Q Consensus       114 ~~i~~----~--np~a~vi~tSa~~g~gi~~l  139 (148)
                      +.++.    .  .+..+++++||++|.|++++
T Consensus       185 ~~l~~~~~~~~~~~~~~iipvSA~~g~ni~~~  216 (474)
T PRK05124        185 EDYLTFAEQLPGNLDIRFVPLSALEGDNVVSQ  216 (474)
T ss_pred             HHHHHHHHhcCCCCCceEEEEEeecCCCcccc
Confidence            44432    2  35689999999999998763

>cd01875 RhoG RhoG subfamily

Probab=97.28  E-value=0.00049  Score=51.74  Aligned_cols=76  Identities=17%  Similarity=0.114  Sum_probs=49.1

Q ss_pred             cCceEEEEEeCCCCCCc---c-cc------CCCCcceeeEEEEecCCCCCchhhh-H-------------HHHHHHHHhc
Q 032030           64 LADYIIYIIDVSGGDKI---P-RK------GGPGITQADLLVINKTDLASAIGAD-L-------------AVMERDALRM  119 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~---~-~~------~~~qi~~ADivViNK~DL~~~~~~~-l-------------~~~~~~i~~~  119 (148)
                      .+|.++++.|......+   . ..      ..+.++  -++|.||.||.+.  .. .             ++..+..++.
T Consensus        74 ~a~~~ilvydit~~~Sf~~~~~~w~~~i~~~~~~~p--iilvgNK~DL~~~--~~~~~~~~~~~~~~v~~~~~~~~a~~~  149 (191)
T cd01875          74 QTNVFIICFSIASPSSYENVRHKWHPEVCHHCPNVP--ILLVGTKKDLRND--ADTLKKLKEQGQAPITPQQGGALAKQI  149 (191)
T ss_pred             CCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCC--EEEEEeChhhhcC--hhhHHHHhhccCCCCCHHHHHHHHHHc
Confidence            57888999998765321   1 01      113455  5899999999654  21 1             1222233322


Q ss_pred             CCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          120 RDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       120 np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      + ..+++.+||++|.|++++|++++
T Consensus       150 ~-~~~~~e~SAk~g~~v~e~f~~l~  173 (191)
T cd01875         150 H-AVKYLECSALNQDGVKEVFAEAV  173 (191)
T ss_pred             C-CcEEEEeCCCCCCCHHHHHHHHH
Confidence            2 24789999999999999999876

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

>PRK12736 elongation factor Tu; Reviewed

Probab=97.27  E-value=0.0015  Score=54.94  Aligned_cols=97  Identities=15%  Similarity=0.161  Sum_probs=58.1

Q ss_pred             CCCEEEEecCCcee--eeee-ccccCceEEEEEeCCCCCCccc------cCCCCcceee-EEEEecCCCCCchhhhH-H-
Q 032030           43 KADLLLCESGGDNL--AANF-SRELADYIIYIIDVSGGDKIPR------KGGPGITQAD-LLVINKTDLASAIGADL-A-  110 (148)
Q Consensus        43 ~~D~IliEtsG~~~--~~~~-~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~AD-ivViNK~DL~~~~~~~l-~-  110 (148)
                      +..+.++.|.|---  .... .-..+|..++|+|+..+..-+.      .....++  - ++++||+|+++.  +++ + 
T Consensus        74 ~~~i~~iDtPGh~~f~~~~~~~~~~~d~~llVvd~~~g~~~~t~~~~~~~~~~g~~--~~IvviNK~D~~~~--~~~~~~  149 (394)
T PRK12736         74 KRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLARQVGVP--YLVVFLNKVDLVDD--EELLEL  149 (394)
T ss_pred             CcEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCchhHHHHHHHHHHcCCC--EEEEEEEecCCcch--HHHHHH
Confidence            45678899999421  1001 1135799999999987633111      0011122  3 578999999854  332 2 


Q ss_pred             ---HHHHHHHhcC---CCCcEEEEEecCCC--------CHHHHHHhh
Q 032030          111 ---VMERDALRMR---DGGPFIFAQVGWVI--------GIIFTLSIT  143 (148)
Q Consensus       111 ---~~~~~i~~~n---p~a~vi~tSa~~g~--------gi~~l~~~~  143 (148)
                         ++.+.++...   ...|++++||++|.        ++++|++.+
T Consensus       150 i~~~i~~~l~~~~~~~~~~~ii~vSa~~g~~~~~~~~~~i~~Ll~~l  196 (394)
T PRK12736        150 VEMEVRELLSEYDFPGDDIPVIRGSALKALEGDPKWEDAIMELMDAV  196 (394)
T ss_pred             HHHHHHHHHHHhCCCcCCccEEEeeccccccCCCcchhhHHHHHHHH
Confidence               3444444443   24799999999983        567777665

>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=97.27  E-value=0.00051  Score=53.74  Aligned_cols=44  Identities=20%  Similarity=0.049  Sum_probs=34.3

Q ss_pred             eEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030           92 DLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus        92 DivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      -++|.||+|+.+.  .+.+.   ..+  .  .+++++||++|.|++++++.+.
T Consensus       179 ~iiV~NK~Dl~~~--~~~~~---~~~--~--~~~~~~SA~~g~gi~~l~~~i~  222 (233)
T cd01896         179 CLYVYNKIDLISI--EELDL---LAR--Q--PNSVVISAEKGLNLDELKERIW  222 (233)
T ss_pred             EEEEEECccCCCH--HHHHH---Hhc--C--CCEEEEcCCCCCCHHHHHHHHH
Confidence            5799999999887  65552   221  2  3589999999999999998765

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.

>KOG0072 consensus GTP-binding ADP-ribosylation factor-like protein ARL1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.22  E-value=0.00056  Score=50.55  Aligned_cols=79  Identities=18%  Similarity=0.160  Sum_probs=51.3

Q ss_pred             cCceEEEEEeCCCCCCccc--------cCCCCcceee-EEEEecCCCCCchhhhHHHHHHHH--Hhc-CCCCcEEEEEec
Q 032030           64 LADYIIYIIDVSGGDKIPR--------KGGPGITQAD-LLVINKTDLASAIGADLAVMERDA--LRM-RDGGPFIFAQVG  131 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~--------~~~~qi~~AD-ivViNK~DL~~~~~~~l~~~~~~i--~~~-np~a~vi~tSa~  131 (148)
                      ..|.+|+|||..+.+.+..        ...+.+..|- +++.||.|....  -...++...+  .++ +..-.|+.+||.
T Consensus        85 dt~avIyVVDssd~dris~a~~el~~mL~E~eLq~a~llv~anKqD~~~~--~t~~E~~~~L~l~~Lk~r~~~Iv~tSA~  162 (182)
T KOG0072|consen   85 DTDAVIYVVDSSDRDRISIAGVELYSMLQEEELQHAKLLVFANKQDYSGA--LTRSEVLKMLGLQKLKDRIWQIVKTSAV  162 (182)
T ss_pred             ccceEEEEEeccchhhhhhhHHHHHHHhccHhhcCceEEEEeccccchhh--hhHHHHHHHhChHHHhhheeEEEeeccc
Confidence            4577899999987765311        1123444454 677899998665  2222222211  111 334689999999


Q ss_pred             CCCCHHHHHHhhh
Q 032030          132 WVIGIIFTLSITH  144 (148)
Q Consensus       132 ~g~gi~~l~~~~~  144 (148)
                      +|+|+++..+|++
T Consensus       163 kg~Gld~~~DWL~  175 (182)
T KOG0072|consen  163 KGEGLDPAMDWLQ  175 (182)
T ss_pred             cccCCcHHHHHHH
Confidence            9999999999986

>cd04129 Rho2 Rho2 subfamily

Probab=97.19  E-value=0.00049  Score=51.38  Aligned_cols=98  Identities=17%  Similarity=0.135  Sum_probs=56.8

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCccc----------cCCCCcceeeEEEEecCCCCCchh----
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPR----------KGGPGITQADLLVINKTDLASAIG----  106 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~~----------~~~~qi~~ADivViNK~DL~~~~~----  106 (148)
                      .++.+.++.|......+   .-..+|.++.+.|....+.+..          ...+.++  -++|.||+|+.+...    
T Consensus        49 ~~l~i~Dt~g~~~~~~~~~~~~~~a~~~llv~~i~~~~s~~~~~~~~~~~i~~~~~~~p--iilvgnK~Dl~~~~~~~~~  126 (187)
T cd04129          49 VQLALWDTAGQEEYERLRPLSYSKAHVILIGFAVDTPDSLENVRTKWIEEVRRYCPNVP--VILVGLKKDLRQDAVAKEE  126 (187)
T ss_pred             EEEEEEECCCChhccccchhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC--EEEEeeChhhhhCcccccc
Confidence            44566777775321111   1134577787788765432110          1112344  699999999854200    


Q ss_pred             ------hhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          107 ------ADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       107 ------~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                            ...+...+..++. ...+++.+||++|.|++++|++++
T Consensus       127 ~~~~~~~~~~~~~~~~~~~-~~~~~~e~Sa~~~~~v~~~f~~l~  169 (187)
T cd04129         127 YRTQRFVPIQQGKRVAKEI-GAKKYMECSALTGEGVDDVFEAAT  169 (187)
T ss_pred             cccCCcCCHHHHHHHHHHh-CCcEEEEccCCCCCCHHHHHHHHH
Confidence                  0112233333332 224789999999999999999886

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).

>PRK10218 GTP-binding protein; Provisional

Probab=97.19  E-value=0.0014  Score=58.22  Aligned_cols=100  Identities=14%  Similarity=0.096  Sum_probs=62.5

Q ss_pred             CCCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCc-hhhhHHHH
Q 032030           43 KADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASA-IGADLAVM  112 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~-~~~~l~~~  112 (148)
                      +..+.++.|.|.......   .-..+|..++|+|+..+...+.      .....++  -++++||+|+.+. ....++.+
T Consensus        67 ~~~inliDTPG~~df~~~v~~~l~~aDg~ILVVDa~~G~~~qt~~~l~~a~~~gip--~IVviNKiD~~~a~~~~vl~ei  144 (607)
T PRK10218         67 DYRINIVDTPGHADFGGEVERVMSMVDSVLLVVDAFDGPMPQTRFVTKKAFAYGLK--PIVVINKVDRPGARPDWVVDQV  144 (607)
T ss_pred             CEEEEEEECCCcchhHHHHHHHHHhCCEEEEEEecccCccHHHHHHHHHHHHcCCC--EEEEEECcCCCCCchhHHHHHH
Confidence            456678888886432100   1135788999999988743211      1122455  4999999998653 11333444


Q ss_pred             HHHHHhcC-----CCCcEEEEEecCCC----------CHHHHHHhhh
Q 032030          113 ERDALRMR-----DGGPFIFAQVGWVI----------GIIFTLSITH  144 (148)
Q Consensus       113 ~~~i~~~n-----p~a~vi~tSa~~g~----------gi~~l~~~~~  144 (148)
                      .+.+..+.     -..||+++||++|.          |+.+|++.+.
T Consensus       145 ~~l~~~l~~~~~~~~~PVi~~SA~~G~~~~~~~~~~~~i~~Lld~Ii  191 (607)
T PRK10218        145 FDLFVNLDATDEQLDFPIVYASALNGIAGLDHEDMAEDMTPLYQAIV  191 (607)
T ss_pred             HHHHhccCccccccCCCEEEeEhhcCcccCCccccccchHHHHHHHH
Confidence            44443211     23689999999998          6889987654

>cd04167 Snu114p Snu114p subfamily

Probab=97.19  E-value=0.00033  Score=53.61  Aligned_cols=91  Identities=18%  Similarity=0.124  Sum_probs=55.9

Q ss_pred             CCCEEEEecCCceeee--ee-ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCC-------Cchh
Q 032030           43 KADLLLCESGGDNLAA--NF-SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLA-------SAIG  106 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~--~~-~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~-------~~~~  106 (148)
                      ++.+.++.|.|.....  .. .-..+|.+++|+|+.++.....      ....++  ..++|+||+|++       +.  
T Consensus        70 ~~~i~iiDtpG~~~f~~~~~~~~~~aD~~llVvD~~~~~~~~~~~~~~~~~~~~~--p~iiviNK~D~~~~~~~l~~~--  145 (213)
T cd04167          70 SYLFNIIDTPGHVNFMDEVAAALRLSDGVVLVVDVVEGVTSNTERLIRHAILEGL--PIVLVINKIDRLILELKLPPN--  145 (213)
T ss_pred             EEEEEEEECCCCcchHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHcCC--CEEEEEECcccCcccccCCHH--
Confidence            3567788888864210  00 1236789999999987653211      111233  489999999986       23  


Q ss_pred             hhHHHHHHHHHhcCCCC------------c----EEEEEecCCCCHH
Q 032030          107 ADLAVMERDALRMRDGG------------P----FIFAQVGWVIGII  137 (148)
Q Consensus       107 ~~l~~~~~~i~~~np~a------------~----vi~tSa~~g~gi~  137 (148)
                      +.++++.+.++++|+.+            |    |++.|++.+-+..
T Consensus       146 ~~~~~l~~~i~~~n~~~~~~~~~~~~~~~p~~~nv~~~s~~~~w~~~  192 (213)
T cd04167         146 DAYFKLRHIIDEVNNIIASFSTTLSFLFSPENGNVCFASSKFGFCFT  192 (213)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcCCCceEeccCCCeEEEEecCCCeEEe
Confidence            44456666666555433            2    6778888775554

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.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=97.19  E-value=0.0011  Score=55.65  Aligned_cols=94  Identities=22%  Similarity=0.165  Sum_probs=60.5

Q ss_pred             CCCEEEEecCCceee-----eee------ccccCceEEEEEeCCCCCCcc-----c-cCCCCcceeeEEEEecCCCCCch
Q 032030           43 KADLLLCESGGDNLA-----ANF------SRELADYIIYIIDVSGGDKIP-----R-KGGPGITQADLLVINKTDLASAI  105 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-----~~~------~~~~~d~~i~vvDa~~~~~~~-----~-~~~~qi~~ADivViNK~DL~~~~  105 (148)
                      +..+.++.|.|....     ..+      .-..+|.+++|+|+..+....     . ......+  -++|+||+|+.+. 
T Consensus        46 ~~~~~liDTpG~~~~~~~~~~~~~~~~~~~~~~ad~vl~vvD~~~~~~~~d~~i~~~l~~~~~p--iilVvNK~D~~~~-  122 (429)
T TIGR03594        46 GREFILIDTGGIEEDDDGLDKQIREQAEIAIEEADVILFVVDGREGLTPEDEEIAKWLRKSGKP--VILVANKIDGKKE-  122 (429)
T ss_pred             CeEEEEEECCCCCCcchhHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCHHHHHHHHHHHHhCCC--EEEEEECccCCcc-
Confidence            456889999996321     001      113578999999998763311     1 1111233  6899999999875 


Q ss_pred             hhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          106 GADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       106 ~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                       ..  ...+.. . ....+++++||++|.|++++++++.
T Consensus       123 -~~--~~~~~~-~-lg~~~~~~vSa~~g~gv~~ll~~i~  156 (429)
T TIGR03594       123 -DA--VAAEFY-S-LGFGEPIPISAEHGRGIGDLLDAIL  156 (429)
T ss_pred             -cc--cHHHHH-h-cCCCCeEEEeCCcCCChHHHHHHHH
Confidence             32  122222 2 2334789999999999999999875

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.

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=97.19  E-value=0.0012  Score=55.92  Aligned_cols=95  Identities=16%  Similarity=0.086  Sum_probs=55.8

Q ss_pred             CCCEEEEecCCceee-eee--ccccCceEEEEEeCCC--CCCccc-c---C--CCCcceeeEEEEecCCCCCchhhhH--
Q 032030           43 KADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSG--GDKIPR-K---G--GPGITQADLLVINKTDLASAIGADL--  109 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~--~~~~~~-~---~--~~qi~~ADivViNK~DL~~~~~~~l--  109 (148)
                      +..+.|+.|.|.-.. ...  .-..+|..++|+|+..  +..-+. .   .  ....+ --++++||+|+.+.-.+.+  
T Consensus        83 ~~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~~~~-~iivviNK~Dl~~~~~~~~~~  161 (425)
T PRK12317         83 KYYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLARTLGIN-QLIVAINKMDAVNYDEKRYEE  161 (425)
T ss_pred             CeEEEEEECCCcccchhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHHcCCC-eEEEEEEccccccccHHHHHH
Confidence            567888999995311 111  1135799999999986  321110 0   0  01111 1477999999986311222  


Q ss_pred             --HHHHHHHHhcC--C-CCcEEEEEecCCCCHHH
Q 032030          110 --AVMERDALRMR--D-GGPFIFAQVGWVIGIIF  138 (148)
Q Consensus       110 --~~~~~~i~~~n--p-~a~vi~tSa~~g~gi~~  138 (148)
                        +++.+.++...  + ..+++++||++|.|+++
T Consensus       162 ~~~~i~~~l~~~g~~~~~~~ii~iSA~~g~gi~~  195 (425)
T PRK12317        162 VKEEVSKLLKMVGYKPDDIPFIPVSAFEGDNVVK  195 (425)
T ss_pred             HHHHHHHHHHhhCCCcCcceEEEeecccCCCccc
Confidence              23444444332  1 36899999999999986

>PRK00093 GTP-binding protein Der; Reviewed

Probab=97.18  E-value=0.0014  Score=55.35  Aligned_cols=95  Identities=20%  Similarity=0.137  Sum_probs=60.6

Q ss_pred             CCCEEEEecCCceee-e----ee------ccccCceEEEEEeCCCCCCcc-----c-cCCCCcceeeEEEEecCCCCCch
Q 032030           43 KADLLLCESGGDNLA-A----NF------SRELADYIIYIIDVSGGDKIP-----R-KGGPGITQADLLVINKTDLASAI  105 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-~----~~------~~~~~d~~i~vvDa~~~~~~~-----~-~~~~qi~~ADivViNK~DL~~~~  105 (148)
                      +..+.++.|.|.... .    .+      .-..+|.+++|+|+..+....     . ......+  -++|+||+|+.+. 
T Consensus        48 ~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~vvd~~~~~~~~~~~~~~~l~~~~~p--iilv~NK~D~~~~-  124 (435)
T PRK00093         48 GREFILIDTGGIEPDDDGFEKQIREQAELAIEEADVILFVVDGRAGLTPADEEIAKILRKSNKP--VILVVNKVDGPDE-  124 (435)
T ss_pred             CcEEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCc--EEEEEECccCccc-
Confidence            577899999997531 0    01      113579999999998753311     0 1111234  6999999997653 


Q ss_pred             hhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          106 GADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       106 ~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                       .  +...+..+ + ...+++++||++|.|++++++++..
T Consensus       125 -~--~~~~~~~~-l-g~~~~~~iSa~~g~gv~~l~~~I~~  159 (435)
T PRK00093        125 -E--ADAYEFYS-L-GLGEPYPISAEHGRGIGDLLDAILE  159 (435)
T ss_pred             -h--hhHHHHHh-c-CCCCCEEEEeeCCCCHHHHHHHHHh
Confidence             2  12233322 2 2235789999999999999988753

>PRK00049 elongation factor Tu; Reviewed

Probab=97.18  E-value=0.0014  Score=55.14  Aligned_cols=98  Identities=14%  Similarity=0.178  Sum_probs=59.2

Q ss_pred             CCCEEEEecCCcee--eeee-ccccCceEEEEEeCCCCCCccc------cCCCCcceeeE-EEEecCCCCCchhhh-HH-
Q 032030           43 KADLLLCESGGDNL--AANF-SRELADYIIYIIDVSGGDKIPR------KGGPGITQADL-LVINKTDLASAIGAD-LA-  110 (148)
Q Consensus        43 ~~D~IliEtsG~~~--~~~~-~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADi-vViNK~DL~~~~~~~-l~-  110 (148)
                      +..++|+.|.|..-  .... .-..+|..++|+|+..+..-+.      .....++  -+ +++||+|+++.  .+ .+ 
T Consensus        74 ~~~i~~iDtPG~~~f~~~~~~~~~~aD~~llVVDa~~g~~~qt~~~~~~~~~~g~p--~iiVvvNK~D~~~~--~~~~~~  149 (396)
T PRK00049         74 KRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVP--YIVVFLNKCDMVDD--EELLEL  149 (396)
T ss_pred             CeEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCCCchHHHHHHHHHHHcCCC--EEEEEEeecCCcch--HHHHHH
Confidence            45688999999631  0000 1246799999999987643211      0111333  34 47999999864  33 22 


Q ss_pred             ---HHHHHHHhcC---CCCcEEEEEecCCC----------CHHHHHHhhh
Q 032030          111 ---VMERDALRMR---DGGPFIFAQVGWVI----------GIIFTLSITH  144 (148)
Q Consensus       111 ---~~~~~i~~~n---p~a~vi~tSa~~g~----------gi~~l~~~~~  144 (148)
                         ++.+.++...   ...|++++||++|.          |++.|++.+.
T Consensus       150 ~~~~i~~~l~~~~~~~~~~~iv~iSa~~g~~~~~~~~w~~~~~~ll~~l~  199 (396)
T PRK00049        150 VEMEVRELLSKYDFPGDDTPIIRGSALKALEGDDDEEWEKKILELMDAVD  199 (396)
T ss_pred             HHHHHHHHHHhcCCCccCCcEEEeecccccCCCCcccccccHHHHHHHHH
Confidence               3444444322   35899999999875          5667776654

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=97.18  E-value=0.00085  Score=50.31  Aligned_cols=51  Identities=22%  Similarity=0.208  Sum_probs=34.2

Q ss_pred             ceEEEEEeCCCCCCc-----ccc---CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcC
Q 032030           66 DYIIYIIDVSGGDKI-----PRK---GGPGITQADLLVINKTDLASAIGADLAVMERDALRMR  120 (148)
Q Consensus        66 d~~i~vvDa~~~~~~-----~~~---~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~n  120 (148)
                      |.++.|+|+..+...     ...   .....+  -++|+||+||+++  ..+....+.+++..
T Consensus         1 DvVl~VvDar~p~~~~~~~i~~~~~l~~~~kp--~IlVlNK~DL~~~--~~l~~~~~~~~~~~   59 (172)
T cd04178           1 DVILEVLDARDPLGCRCPQVEEAVLQAGGNKK--LVLVLNKIDLVPK--ENVEKWLKYLRREF   59 (172)
T ss_pred             CEEEEEEECCCCCCCCCHHHHHHHHhccCCCC--EEEEEehhhcCCH--HHHHHHHHHHHhhC
Confidence            678999999765321     111   112334  6999999999988  77777777776544

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

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=97.13  E-value=0.0016  Score=57.83  Aligned_cols=95  Identities=19%  Similarity=0.173  Sum_probs=56.8

Q ss_pred             CCCEEEEecCCcee-eeee--ccccCceEEEEEeCCCCCCccc----cC--CCCcceeeEEEEecCCCCCchhhhHHHHH
Q 032030           43 KADLLLCESGGDNL-AANF--SRELADYIIYIIDVSGGDKIPR----KG--GPGITQADLLVINKTDLASAIGADLAVME  113 (148)
Q Consensus        43 ~~D~IliEtsG~~~-~~~~--~~~~~d~~i~vvDa~~~~~~~~----~~--~~qi~~ADivViNK~DL~~~~~~~l~~~~  113 (148)
                      +..++|+.|.|.-- ....  .-..+|..++|+|+..+..-+.    ..  ...++ --++++||+|+++...+.++.+.
T Consensus       103 ~~~~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~g~~~~t~e~~~~~~~~~~~-~iivvvNK~D~~~~~~~~~~~i~  181 (632)
T PRK05506        103 KRKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQTRRHSFIASLLGIR-HVVLAVNKMDLVDYDQEVFDEIV  181 (632)
T ss_pred             CceEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCccccCHHHHHHHHHhCCC-eEEEEEEecccccchhHHHHHHH
Confidence            45678999999531 0001  1246789999999987643211    00  01111 13678999999853113344444


Q ss_pred             HHH----HhcC-CCCcEEEEEecCCCCHHH
Q 032030          114 RDA----LRMR-DGGPFIFAQVGWVIGIIF  138 (148)
Q Consensus       114 ~~i----~~~n-p~a~vi~tSa~~g~gi~~  138 (148)
                      +.+    ++.. +..+++++||++|.|+++
T Consensus       182 ~~i~~~~~~~~~~~~~iipiSA~~g~ni~~  211 (632)
T PRK05506        182 ADYRAFAAKLGLHDVTFIPISALKGDNVVT  211 (632)
T ss_pred             HHHHHHHHHcCCCCccEEEEecccCCCccc
Confidence            333    3322 457899999999999874

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=97.11  E-value=0.00048  Score=61.19  Aligned_cols=96  Identities=18%  Similarity=0.149  Sum_probs=63.6

Q ss_pred             CCCEEEEecCCce-e-eee--------e-ccccCceEEEEEeCCCCCCc----cccCCCCcceeeEEEEecCCCCCchh-
Q 032030           43 KADLLLCESGGDN-L-AAN--------F-SRELADYIIYIIDVSGGDKI----PRKGGPGITQADLLVINKTDLASAIG-  106 (148)
Q Consensus        43 ~~D~IliEtsG~~-~-~~~--------~-~~~~~d~~i~vvDa~~~~~~----~~~~~~qi~~ADivViNK~DL~~~~~-  106 (148)
                      +-++=+|.-.|.- + +.+        | -....|.+|.|+||.+-+.-    .+...-.++  -++++|++|.+...+ 
T Consensus        49 ~~~i~ivDLPG~YSL~~~S~DE~Var~~ll~~~~D~ivnVvDAtnLeRnLyltlQLlE~g~p--~ilaLNm~D~A~~~Gi  126 (653)
T COG0370          49 GHEIEIVDLPGTYSLTAYSEDEKVARDFLLEGKPDLIVNVVDATNLERNLYLTLQLLELGIP--MILALNMIDEAKKRGI  126 (653)
T ss_pred             CceEEEEeCCCcCCCCCCCchHHHHHHHHhcCCCCEEEEEcccchHHHHHHHHHHHHHcCCC--eEEEeccHhhHHhcCC
Confidence            4556677777752 1 101        1 12356999999999887541    122222344  699999999876522 


Q ss_pred             -hhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          107 -ADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       107 -~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                       -+.+++++.+.     .||++|||++|.|++++.+....
T Consensus       127 ~ID~~~L~~~LG-----vPVv~tvA~~g~G~~~l~~~i~~  161 (653)
T COG0370         127 RIDIEKLSKLLG-----VPVVPTVAKRGEGLEELKRAIIE  161 (653)
T ss_pred             cccHHHHHHHhC-----CCEEEEEeecCCCHHHHHHHHHH
Confidence             23345555554     79999999999999999987653

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=97.09  E-value=0.00088  Score=50.34  Aligned_cols=79  Identities=15%  Similarity=0.107  Sum_probs=50.4

Q ss_pred             cCceEEEEEeCCCCCCccc----c------CCCCcceeeEEEEecCCCCCchh------------hhHHHHHHHHHhcCC
Q 032030           64 LADYIIYIIDVSGGDKIPR----K------GGPGITQADLLVINKTDLASAIG------------ADLAVMERDALRMRD  121 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~----~------~~~qi~~ADivViNK~DL~~~~~------------~~l~~~~~~i~~~np  121 (148)
                      .+|.++.+.|......+..    .      ..+..+  -++|.||+||.+...            -..++.++..++.+ 
T Consensus        76 ~ad~~ilvyDit~~~Sf~~~~~~w~~~i~~~~~~~p--iilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~-  152 (182)
T cd04172          76 DSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTK--MLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGANMAKQIG-  152 (182)
T ss_pred             CCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCC--EEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHHHHHHHcC-
Confidence            5688899999876533211    1      112344  589999999864100            11234445555432 


Q ss_pred             CCcEEEEEecCCCC-HHHHHHhhhh
Q 032030          122 GGPFIFAQVGWVIG-IIFTLSITHY  145 (148)
Q Consensus       122 ~a~vi~tSa~~g~g-i~~l~~~~~~  145 (148)
                      -.+.+.+||++|.| ++++|+..+-
T Consensus       153 ~~~~~E~SAk~~~n~v~~~F~~~~~  177 (182)
T cd04172         153 AATYIECSALQSENSVRDIFHVATL  177 (182)
T ss_pred             CCEEEECCcCCCCCCHHHHHHHHHH
Confidence            24899999999998 9999987654

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

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=97.08  E-value=0.0019  Score=57.27  Aligned_cols=100  Identities=15%  Similarity=0.120  Sum_probs=61.4

Q ss_pred             CCCEEEEecCCceeee-ee--ccccCceEEEEEeCCCCCCcc------ccCCCCcceeeEEEEecCCCCCc-hhhhHHHH
Q 032030           43 KADLLLCESGGDNLAA-NF--SRELADYIIYIIDVSGGDKIP------RKGGPGITQADLLVINKTDLASA-IGADLAVM  112 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~-~~--~~~~~d~~i~vvDa~~~~~~~------~~~~~qi~~ADivViNK~DL~~~-~~~~l~~~  112 (148)
                      +..+-++.|.|-.... ..  .-..+|..+.|+|+..+...+      ......++  -++++||+|+.+. ....++.+
T Consensus        63 ~~kinlIDTPGh~DF~~ev~~~l~~aD~alLVVDa~~G~~~qT~~~l~~a~~~~ip--~IVviNKiD~~~a~~~~v~~ei  140 (594)
T TIGR01394        63 GTKINIVDTPGHADFGGEVERVLGMVDGVLLLVDASEGPMPQTRFVLKKALELGLK--PIVVINKIDRPSARPDEVVDEV  140 (594)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHhCCEEEEEEeCCCCCcHHHHHHHHHHHHCCCC--EEEEEECCCCCCcCHHHHHHHH
Confidence            3456677777753210 00  013578899999998775311      11122455  4999999999654 11223445


Q ss_pred             HHHHHhcC-----CCCcEEEEEecCCC----------CHHHHHHhhh
Q 032030          113 ERDALRMR-----DGGPFIFAQVGWVI----------GIIFTLSITH  144 (148)
Q Consensus       113 ~~~i~~~n-----p~a~vi~tSa~~g~----------gi~~l~~~~~  144 (148)
                      .+.+.++.     -..|++++||++|.          |+++|++.+.
T Consensus       141 ~~l~~~~g~~~e~l~~pvl~~SA~~g~~~~~~~~~~~gi~~Lld~Iv  187 (594)
T TIGR01394       141 FDLFAELGADDEQLDFPIVYASGRAGWASLDLDDPSDNMAPLFDAIV  187 (594)
T ss_pred             HHHHHhhccccccccCcEEechhhcCcccccCcccccCHHHHHHHHH
Confidence            55544322     13589999999995          7999988764

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.

>TIGR00485 EF-Tu translation elongation factor TU

Probab=97.08  E-value=0.0018  Score=54.33  Aligned_cols=87  Identities=13%  Similarity=0.140  Sum_probs=51.0

Q ss_pred             CCEEEEecCCceee--eee-ccccCceEEEEEeCCCCCCccc------cCCCCcceeeE-EEEecCCCCCchhhhH-H--
Q 032030           44 ADLLLCESGGDNLA--ANF-SRELADYIIYIIDVSGGDKIPR------KGGPGITQADL-LVINKTDLASAIGADL-A--  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~--~~~-~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADi-vViNK~DL~~~~~~~l-~--  110 (148)
                      ..+.|+.|.|---.  ..+ .-..+|..+.|+|+..+...+.      .....++  -+ +++||+|++++  .+. +  
T Consensus        75 ~~~~liDtpGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~qt~e~l~~~~~~gi~--~iIvvvNK~Dl~~~--~~~~~~~  150 (394)
T TIGR00485        75 RHYAHVDCPGHADYVKNMITGAAQMDGAILVVSATDGPMPQTREHILLARQVGVP--YIVVFLNKCDMVDD--EELLELV  150 (394)
T ss_pred             EEEEEEECCchHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCC--EEEEEEEecccCCH--HHHHHHH
Confidence            34677788874210  001 1124688999999988643211      0111233  34 57999999875  332 2  


Q ss_pred             --HHHHHHHhcC-C--CCcEEEEEecCCC
Q 032030          111 --VMERDALRMR-D--GGPFIFAQVGWVI  134 (148)
Q Consensus       111 --~~~~~i~~~n-p--~a~vi~tSa~~g~  134 (148)
                        ++.+.++... +  ..|++++||++|.
T Consensus       151 ~~~i~~~l~~~~~~~~~~~ii~vSa~~g~  179 (394)
T TIGR00485       151 EMEVRELLSEYDFPGDDTPIIRGSALKAL  179 (394)
T ss_pred             HHHHHHHHHhcCCCccCccEEECcccccc
Confidence              3555555443 2  2799999999875

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.

>COG1162 Predicted GTPases [General function prediction only]

Probab=97.07  E-value=0.0011  Score=54.05  Aligned_cols=95  Identities=20%  Similarity=0.220  Sum_probs=59.8

Q ss_pred             CCEEEEecCC---cee---e--eee-cccc--CceEEEEEeCCCCCCccc---c-----CCCCcceeeEEEEecCCCCCc
Q 032030           44 ADLLLCESGG---DNL---A--ANF-SREL--ADYIIYIIDVSGGDKIPR---K-----GGPGITQADLLVINKTDLASA  104 (148)
Q Consensus        44 ~D~IliEtsG---~~~---~--~~~-~~~~--~d~~i~vvDa~~~~~~~~---~-----~~~qi~~ADivViNK~DL~~~  104 (148)
                      =|++.+|..-   ...   +  ..+ .|..  .|-.+.|+.+.+++--..   +     ....+.  -+|++||+||+++
T Consensus        48 GD~V~~~~~~~~g~I~~i~~Rkn~L~Rp~v~n~d~~iiIvs~~~P~~~~~~ldR~Lv~ae~~gi~--pvIvlnK~DL~~~  125 (301)
T COG1162          48 GDRVVFEDENNNGVIEKILPRKNVLIRPPVANNDQAIIVVSLVDPDFNTNLLDRYLVLAEAGGIE--PVIVLNKIDLLDD  125 (301)
T ss_pred             cCeEEEecCCCcceEEEEecccCceeCCcccccceEEEEEeccCCCCCHHHHHHHHHHHHHcCCc--EEEEEEccccCcc
Confidence            4888888884   321   1  122 2222  344577777766542111   0     112333  4999999999998


Q ss_pred             hhhhHHH--HHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          105 IGADLAV--MERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       105 ~~~~l~~--~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                        ++.+.  .....+  +-..+++.+|++++.|+++|.+++.
T Consensus       126 --~~~~~~~~~~~y~--~~gy~v~~~s~~~~~~~~~l~~~l~  163 (301)
T COG1162         126 --EEAAVKELLREYE--DIGYPVLFVSAKNGDGLEELAELLA  163 (301)
T ss_pred             --hHHHHHHHHHHHH--hCCeeEEEecCcCcccHHHHHHHhc
Confidence              66553  333333  3557999999999999999988764

>PRK12735 elongation factor Tu; Reviewed

Probab=97.06  E-value=0.0019  Score=54.36  Aligned_cols=98  Identities=12%  Similarity=0.152  Sum_probs=59.1

Q ss_pred             CCCEEEEecCCcee--eeee-ccccCceEEEEEeCCCCCCccc------cCCCCcceeeE-EEEecCCCCCchhhhH-H-
Q 032030           43 KADLLLCESGGDNL--AANF-SRELADYIIYIIDVSGGDKIPR------KGGPGITQADL-LVINKTDLASAIGADL-A-  110 (148)
Q Consensus        43 ~~D~IliEtsG~~~--~~~~-~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADi-vViNK~DL~~~~~~~l-~-  110 (148)
                      +.-+.|+.|.|.--  .... .-..+|..++|+|+..+...+.      .....++  -+ +++||+|+.+.  +++ + 
T Consensus        74 ~~~i~~iDtPGh~~f~~~~~~~~~~aD~~llVvda~~g~~~qt~e~l~~~~~~gi~--~iivvvNK~Dl~~~--~~~~~~  149 (396)
T PRK12735         74 NRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVP--YIVVFLNKCDMVDD--EELLEL  149 (396)
T ss_pred             CcEEEEEECCCHHHHHHHHHhhhccCCEEEEEEECCCCCchhHHHHHHHHHHcCCC--eEEEEEEecCCcch--HHHHHH
Confidence            34578999999531  0000 1135789999999987643211      0112344  34 47999999854  332 2 


Q ss_pred             ---HHHHHHHhcC-C--CCcEEEEEecCCC----------CHHHHHHhhh
Q 032030          111 ---VMERDALRMR-D--GGPFIFAQVGWVI----------GIIFTLSITH  144 (148)
Q Consensus       111 ---~~~~~i~~~n-p--~a~vi~tSa~~g~----------gi~~l~~~~~  144 (148)
                         ++.+.++... +  ..+++++||++|.          ++++|++.+.
T Consensus       150 ~~~ei~~~l~~~~~~~~~~~ii~~Sa~~g~n~~~~~~w~~~~~~Ll~~l~  199 (396)
T PRK12735        150 VEMEVRELLSKYDFPGDDTPIIRGSALKALEGDDDEEWEAKILELMDAVD  199 (396)
T ss_pred             HHHHHHHHHHHcCCCcCceeEEecchhccccCCCCCcccccHHHHHHHHH
Confidence               3444444332 2  4799999999984          6777777654

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=97.03  E-value=0.0014  Score=51.48  Aligned_cols=78  Identities=15%  Similarity=0.069  Sum_probs=50.6

Q ss_pred             cCceEEEEEeCCCCCCccc----c------CCCCcceeeEEEEecCCCCCchh------------hhHHHHHHHHHhcCC
Q 032030           64 LADYIIYIIDVSGGDKIPR----K------GGPGITQADLLVINKTDLASAIG------------ADLAVMERDALRMRD  121 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~----~------~~~qi~~ADivViNK~DL~~~~~------------~~l~~~~~~i~~~np  121 (148)
                      .+|.++.|.|......+..    +      ..+..+  -++|.||+||.+...            -..++.+++.++.+ 
T Consensus        84 ~ad~vIlVyDit~~~Sf~~~~~~w~~~i~~~~~~~p--iilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e~~~~a~~~~-  160 (232)
T cd04174          84 DSDAVLLCFDISRPETVDSALKKWKAEIMDYCPSTR--ILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCALAKQLG-  160 (232)
T ss_pred             CCcEEEEEEECCChHHHHHHHHHHHHHHHHhCCCCC--EEEEEECcccccccchhhhhccccCCcCCHHHHHHHHHHcC-
Confidence            5788899999876543211    0      112333  489999999953100            12234555555543 


Q ss_pred             CC-cEEEEEecCCC-CHHHHHHhhhh
Q 032030          122 GG-PFIFAQVGWVI-GIIFTLSITHY  145 (148)
Q Consensus       122 ~a-~vi~tSa~~g~-gi~~l~~~~~~  145 (148)
                       + +.+.|||++|. |++++|..++-
T Consensus       161 -~~~~~EtSAktg~~~V~e~F~~~~~  185 (232)
T cd04174         161 -AEVYLECSAFTSEKSIHSIFRSASL  185 (232)
T ss_pred             -CCEEEEccCCcCCcCHHHHHHHHHH
Confidence             4 68899999998 89999988753

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.

>COG0218 Predicted GTPase [General function prediction only]

Probab=97.03  E-value=0.0038  Score=48.14  Aligned_cols=74  Identities=14%  Similarity=0.029  Sum_probs=50.6

Q ss_pred             eEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHH-hcC--CCCc--EEEEEecCCCC
Q 032030           67 YIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADLAVMERDAL-RMR--DGGP--FIFAQVGWVIG  135 (148)
Q Consensus        67 ~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~-~~n--p~a~--vi~tSa~~g~g  135 (148)
                      .++.++|+.++.....      .....++  -+||+||+|.++.  .+..+....++ .+.  |...  ++.+|+.++.|
T Consensus       109 ~vvlliD~r~~~~~~D~em~~~l~~~~i~--~~vv~tK~DKi~~--~~~~k~l~~v~~~l~~~~~~~~~~~~~ss~~k~G  184 (200)
T COG0218         109 GVVLLIDARHPPKDLDREMIEFLLELGIP--VIVVLTKADKLKK--SERNKQLNKVAEELKKPPPDDQWVVLFSSLKKKG  184 (200)
T ss_pred             EEEEEEECCCCCcHHHHHHHHHHHHcCCC--eEEEEEccccCCh--hHHHHHHHHHHHHhcCCCCccceEEEEecccccC
Confidence            3588999998865311      1122344  7999999999997  66655444454 222  3223  88899999999


Q ss_pred             HHHHHHhhh
Q 032030          136 IIFTLSITH  144 (148)
Q Consensus       136 i~~l~~~~~  144 (148)
                      ++++.+.+.
T Consensus       185 i~~l~~~i~  193 (200)
T COG0218         185 IDELKAKIL  193 (200)
T ss_pred             HHHHHHHHH
Confidence            999987764

>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=97.02  E-value=0.0013  Score=50.83  Aligned_cols=75  Identities=20%  Similarity=0.134  Sum_probs=51.5

Q ss_pred             cCceEEEEEeCCCCCC---c-------cccCCCCcceeeEEEEecCCCCCchhhhH--HHHHHHHHhcCCCCcEEEEEec
Q 032030           64 LADYIIYIIDVSGGDK---I-------PRKGGPGITQADLLVINKTDLASAIGADL--AVMERDALRMRDGGPFIFAQVG  131 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~---~-------~~~~~~qi~~ADivViNK~DL~~~~~~~l--~~~~~~i~~~np~a~vi~tSa~  131 (148)
                      .++.++.|+|......   +       ....++..+  -++|.||+|+.++  .++  ++-++..++.  +.+.+.||||
T Consensus        84 gA~gi~LvyDitne~Sfeni~~W~~~I~e~a~~~v~--~~LvGNK~D~~~~--R~V~~e~ge~lA~e~--G~~F~EtSAk  157 (207)
T KOG0078|consen   84 GAMGILLVYDITNEKSFENIRNWIKNIDEHASDDVV--KILVGNKCDLEEK--RQVSKERGEALAREY--GIKFFETSAK  157 (207)
T ss_pred             hcCeeEEEEEccchHHHHHHHHHHHHHHhhCCCCCc--EEEeecccccccc--ccccHHHHHHHHHHh--CCeEEEcccc
Confidence            4566788888765321   1       111122344  5999999999874  322  4566666654  6899999999


Q ss_pred             CCCCHHHHHHhhh
Q 032030          132 WVIGIIFTLSITH  144 (148)
Q Consensus       132 ~g~gi~~l~~~~~  144 (148)
                      +|.|+++.|-.++
T Consensus       158 ~~~NI~eaF~~La  170 (207)
T KOG0078|consen  158 TNFNIEEAFLSLA  170 (207)
T ss_pred             CCCCHHHHHHHHH
Confidence            9999999987765

>PRK04004 translation initiation factor IF-2; Validated

Probab=96.99  E-value=0.0017  Score=57.51  Aligned_cols=98  Identities=17%  Similarity=0.130  Sum_probs=58.5

Q ss_pred             CEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc------ccCCCCcceeeEEEEecCCCCCchh---------
Q 032030           45 DLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP------RKGGPGITQADLLVINKTDLASAIG---------  106 (148)
Q Consensus        45 D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~------~~~~~qi~~ADivViNK~DL~~~~~---------  106 (148)
                      .+.|+.|.|..-...+.   -..+|..++|+|+..+...+      ......++  -++++||+|+.+...         
T Consensus        72 ~i~~iDTPG~e~f~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~~~~~~~vp--iIvviNK~D~~~~~~~~~~~~~~e  149 (586)
T PRK04004         72 GLLFIDTPGHEAFTNLRKRGGALADIAILVVDINEGFQPQTIEAINILKRRKTP--FVVAANKIDRIPGWKSTEDAPFLE  149 (586)
T ss_pred             CEEEEECCChHHHHHHHHHhHhhCCEEEEEEECCCCCCHhHHHHHHHHHHcCCC--EEEEEECcCCchhhhhhcCchHHH
Confidence            36889999864211111   13578899999998753211      01112344  589999999863200         


Q ss_pred             ----------hh----HHHHHHHHH-------------hcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          107 ----------AD----LAVMERDAL-------------RMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       107 ----------~~----l~~~~~~i~-------------~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                                ..    +.++...+.             ++....+++++||++|.|+++|++.+.
T Consensus       150 ~~~~~~~~v~~~f~~~l~ev~~~L~~~g~~~e~~~~~~~~~~~v~ivpiSA~tGeGi~dLl~~i~  214 (586)
T PRK04004        150 SIEKQSQRVQQELEEKLYELIGQLSELGFSADRFDRVKDFTKTVAIVPVSAKTGEGIPDLLMVLA  214 (586)
T ss_pred             HHhhhhHHHHHHHHHHHHHHHHHHHhcCCChhhhhhhhccCCCceEeeccCCCCCChHHHHHHHH
Confidence                      00    011112222             122457899999999999999987753

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=96.97  E-value=0.0018  Score=53.64  Aligned_cols=52  Identities=15%  Similarity=0.080  Sum_probs=39.5

Q ss_pred             eEEEEecCC-CCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030           92 DLLVINKTD-LASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus        92 DivViNK~D-L~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      -+||+||+| ..++  ++++.+.+.+.+.......+++||.++.|+++|+..+.-
T Consensus       278 ~ivv~NKiD~~~~~--e~~~~~~~~l~~~~~~~~~~~ISa~t~~g~~~L~~~~~~  330 (369)
T COG0536         278 RIVVLNKIDLPLDE--EELEELKKALAEALGWEVFYLISALTREGLDELLRALAE  330 (369)
T ss_pred             eEEEEeccCCCcCH--HHHHHHHHHHHHhcCCCcceeeehhcccCHHHHHHHHHH
Confidence            489999999 5555  677777777776554444444999999999999877654

>cd04131 Rnd Rnd subfamily

Probab=96.97  E-value=0.0013  Score=49.04  Aligned_cols=99  Identities=16%  Similarity=0.108  Sum_probs=58.4

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCccc----c------CCCCcceeeEEEEecCCCCCchh----
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIPR----K------GGPGITQADLLVINKTDLASAIG----  106 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~~----~------~~~qi~~ADivViNK~DL~~~~~----  106 (148)
                      +.+-+.+|.|.-....+.   -..+|.++.+.|......+..    .      ..+..+  -++|.||+||.+...    
T Consensus        49 ~~l~iwDt~G~~~~~~~~~~~~~~a~~~ilvfdit~~~Sf~~~~~~w~~~i~~~~~~~~--iilVgnK~DL~~~~~~~~~  126 (178)
T cd04131          49 IELSLWDTSGSPYYDNVRPLCYPDSDAVLICFDISRPETLDSVLKKWRGEIQEFCPNTK--VLLVGCKTDLRTDLSTLME  126 (178)
T ss_pred             EEEEEEECCCchhhhhcchhhcCCCCEEEEEEECCChhhHHHHHHHHHHHHHHHCCCCC--EEEEEEChhhhcChhHHHH
Confidence            455566777742111111   135688899999876543211    1      112344  588999999954100    


Q ss_pred             --------hhHHHHHHHHHhcCCCCcEEEEEecCCCC-HHHHHHhhhh
Q 032030          107 --------ADLAVMERDALRMRDGGPFIFAQVGWVIG-IIFTLSITHY  145 (148)
Q Consensus       107 --------~~l~~~~~~i~~~np~a~vi~tSa~~g~g-i~~l~~~~~~  145 (148)
                              -..++..+..++.+ -.+.+.+||++|+| ++++|...+.
T Consensus       127 ~~~~~~~~v~~~e~~~~a~~~~-~~~~~E~SA~~~~~~v~~~F~~~~~  173 (178)
T cd04131         127 LSHQRQAPVSYEQGCAIAKQLG-AEIYLECSAFTSEKSVRDIFHVATM  173 (178)
T ss_pred             HHhcCCCCCCHHHHHHHHHHhC-CCEEEECccCcCCcCHHHHHHHHHH
Confidence                    11123444444332 23789999999995 9999988765

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.

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=96.96  E-value=0.0011  Score=56.70  Aligned_cols=94  Identities=16%  Similarity=0.123  Sum_probs=54.9

Q ss_pred             CCCEEEEecCCceee--eee-ccccCceEEEEEeCCCCCC-------ccc-c-----CCCCcceee-EEEEecCCC--CC
Q 032030           43 KADLLLCESGGDNLA--ANF-SRELADYIIYIIDVSGGDK-------IPR-K-----GGPGITQAD-LLVINKTDL--AS  103 (148)
Q Consensus        43 ~~D~IliEtsG~~~~--~~~-~~~~~d~~i~vvDa~~~~~-------~~~-~-----~~~qi~~AD-ivViNK~DL--~~  103 (148)
                      +..+.||.|.|-.-.  ... .-..+|..+.|+|+..|..       .+. .     ....++  . ++++||.|+  ++
T Consensus        84 ~~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~~gi~--~iiv~vNKmD~~~~~  161 (446)
T PTZ00141         84 KYYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAFTLGVK--QMIVCINKMDDKTVN  161 (446)
T ss_pred             CeEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHHHcCCC--eEEEEEEccccccch
Confidence            456778888884310  000 1236789999999988741       010 0     001222  4 589999994  32


Q ss_pred             chhhhHHHHHHHHHh----c--CC-CCcEEEEEecCCCCHHH
Q 032030          104 AIGADLAVMERDALR----M--RD-GGPFIFAQVGWVIGIIF  138 (148)
Q Consensus       104 ~~~~~l~~~~~~i~~----~--np-~a~vi~tSa~~g~gi~~  138 (148)
                      .-.+.++.+.+.+++    .  ++ ..+++++|+.+|.|+.+
T Consensus       162 ~~~~~~~~i~~~i~~~l~~~g~~~~~~~~ipiSa~~g~ni~~  203 (446)
T PTZ00141        162 YSQERYDEIKKEVSAYLKKVGYNPEKVPFIPISGWQGDNMIE  203 (446)
T ss_pred             hhHHHHHHHHHHHHHHHHhcCCCcccceEEEeecccCCCccc
Confidence            211444444444433    2  22 47899999999999863

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=96.91  E-value=0.0017  Score=50.54  Aligned_cols=98  Identities=12%  Similarity=0.084  Sum_probs=56.3

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCccc----c------CCCCcceeeEEEEecCCCCCchh----
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIPR----K------GGPGITQADLLVINKTDLASAIG----  106 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~~----~------~~~qi~~ADivViNK~DL~~~~~----  106 (148)
                      +.+-+.+|+|......+.   -..+|.++++.|....+.+..    .      ..+.++  -++|.||+||.+...    
T Consensus        49 v~L~iwDt~G~e~~~~l~~~~~~~~d~illvfdis~~~Sf~~i~~~w~~~~~~~~~~~p--iiLVgnK~DL~~~~~~~~~  126 (222)
T cd04173          49 IELNMWDTSGSSYYDNVRPLAYPDSDAVLICFDISRPETLDSVLKKWQGETQEFCPNAK--VVLVGCKLDMRTDLATLRE  126 (222)
T ss_pred             EEEEEEeCCCcHHHHHHhHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCC--EEEEEECcccccchhhhhh
Confidence            445556666642111111   136788999999877643211    1      112344  588999999965300    


Q ss_pred             --------hhHHHHHHHHHhcCCCCcEEEEEecCCCC-HHHHHHhhh
Q 032030          107 --------ADLAVMERDALRMRDGGPFIFAQVGWVIG-IIFTLSITH  144 (148)
Q Consensus       107 --------~~l~~~~~~i~~~np~a~vi~tSa~~g~g-i~~l~~~~~  144 (148)
                              -..++..+..++ ..-.+.+.+||+++.+ ++++|...+
T Consensus       127 ~~~~~~~pIs~e~g~~~ak~-~~~~~y~E~SAk~~~~~V~~~F~~~~  172 (222)
T cd04173         127 LSKQRLIPVTHEQGTVLAKQ-VGAVSYVECSSRSSERSVRDVFHVAT  172 (222)
T ss_pred             hhhccCCccCHHHHHHHHHH-cCCCEEEEcCCCcCCcCHHHHHHHHH
Confidence                    011223333333 2234899999999985 999998754

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

>cd01882 BMS1 Bms1

Probab=96.90  E-value=0.0029  Score=49.19  Aligned_cols=69  Identities=17%  Similarity=0.159  Sum_probs=43.3

Q ss_pred             ccCceEEEEEeCCCCCCccc-----cC-CCCcceeeE-EEEecCCCCCchhhhHHHHHHHH-----HhcCCCCcEEEEEe
Q 032030           63 ELADYIIYIIDVSGGDKIPR-----KG-GPGITQADL-LVINKTDLASAIGADLAVMERDA-----LRMRDGGPFIFAQV  130 (148)
Q Consensus        63 ~~~d~~i~vvDa~~~~~~~~-----~~-~~qi~~ADi-vViNK~DL~~~~~~~l~~~~~~i-----~~~np~a~vi~tSa  130 (148)
                      ..+|.+++++|+..+.....     .. ...++  .+ +|+||+|+.+.. ..++++.+.+     ++..++.+|+++||
T Consensus       102 k~aDvVllviDa~~~~~~~~~~i~~~l~~~g~p--~vi~VvnK~D~~~~~-~~~~~~~~~l~~~~~~~~~~~~ki~~iSa  178 (225)
T cd01882         102 KVADLVLLLIDASFGFEMETFEFLNILQVHGFP--RVMGVLTHLDLFKKN-KTLRKTKKRLKHRFWTEVYQGAKLFYLSG  178 (225)
T ss_pred             HhcCEEEEEEecCcCCCHHHHHHHHHHHHcCCC--eEEEEEeccccCCcH-HHHHHHHHHHHHHHHHhhCCCCcEEEEee
Confidence            35789999999987643211     00 11223  34 499999998540 2344444333     34568999999999


Q ss_pred             cCCC
Q 032030          131 GWVI  134 (148)
Q Consensus       131 ~~g~  134 (148)
                      ++..
T Consensus       179 ~~~~  182 (225)
T cd01882         179 IVHG  182 (225)
T ss_pred             ccCC
Confidence            9864

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.

>PRK14974 cell division protein FtsY; Provisional

Probab=96.90  E-value=0.0031  Score=52.26  Aligned_cols=93  Identities=20%  Similarity=0.245  Sum_probs=59.7

Q ss_pred             hhcCCCEEEEecCCceee-eeecc--------ccCceEEEEEeCCCCCCccc--cCCCCcceeeEEEEecCCCCCchhhh
Q 032030           40 NLFKADLLLCESGGDNLA-ANFSR--------ELADYIIYIIDVSGGDKIPR--KGGPGITQADLLVINKTDLASAIGAD  108 (148)
Q Consensus        40 ~~~~~D~IliEtsG~~~~-~~~~~--------~~~d~~i~vvDa~~~~~~~~--~~~~qi~~ADivViNK~DL~~~~~~~  108 (148)
                      ...++|+|+|+|.|.... ..+..        ...|.++.|+|+..+.+...  ..-.+.-..|-+++||.|.....+.-
T Consensus       219 ~~~~~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~d~~~~a~~f~~~~~~~giIlTKlD~~~~~G~~  298 (336)
T PRK14974        219 KARGIDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAGNDAVEQAREFNEAVGIDGVILTKVDADAKGGAA  298 (336)
T ss_pred             HhCCCCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccchhHHHHHHHHHhcCCCCEEEEeeecCCCCccHH
Confidence            345799999999998642 11100        12466789999987754321  11111223489999999998775554


Q ss_pred             HHHHHHHHHhcCCCCcEEEEEecCCCCHHHHH
Q 032030          109 LAVMERDALRMRDGGPFIFAQVGWVIGIIFTL  140 (148)
Q Consensus       109 l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~  140 (148)
                      +.....      -+.||.+++  +|++++.|.
T Consensus       299 ls~~~~------~~~Pi~~i~--~Gq~v~Dl~  322 (336)
T PRK14974        299 LSIAYV------IGKPILFLG--VGQGYDDLI  322 (336)
T ss_pred             HHHHHH------HCcCEEEEe--CCCChhhcc
Confidence            444332      257898988  689888775

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

Probab=96.88  E-value=0.001  Score=49.92  Aligned_cols=77  Identities=18%  Similarity=0.137  Sum_probs=52.3

Q ss_pred             cCceEEEEEeCCCCCCccccC------C--CCcceeeEEEEecCCCCCchhhhH--HHHHHHHHhcCCCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKIPRKG------G--PGITQADLLVINKTDLASAIGADL--AVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~~~------~--~qi~~ADivViNK~DL~~~~~~~l--~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      ..+-.+.|.|.+..+.+++.+      .  ..-+.+-+||.||+||-.+  ..+  +..+++.+  --+|..+.|||+.+
T Consensus        85 gSnGalLVyDITDrdSFqKVKnWV~Elr~mlGnei~l~IVGNKiDLEee--R~Vt~qeAe~YAe--svGA~y~eTSAk~N  160 (218)
T KOG0088|consen   85 GSNGALLVYDITDRDSFQKVKNWVLELRTMLGNEIELLIVGNKIDLEEE--RQVTRQEAEAYAE--SVGALYMETSAKDN  160 (218)
T ss_pred             CCCceEEEEeccchHHHHHHHHHHHHHHHHhCCeeEEEEecCcccHHHh--hhhhHHHHHHHHH--hhchhheecccccc
Confidence            345568888887765433211      1  1235567999999999655  433  23445555  35678899999999


Q ss_pred             CCHHHHHHhhh
Q 032030          134 IGIIFTLSITH  144 (148)
Q Consensus       134 ~gi~~l~~~~~  144 (148)
                      +|++++|+.+.
T Consensus       161 ~Gi~elFe~Lt  171 (218)
T KOG0088|consen  161 VGISELFESLT  171 (218)
T ss_pred             cCHHHHHHHHH
Confidence            99999998764

>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=96.88  E-value=0.0042  Score=54.47  Aligned_cols=76  Identities=12%  Similarity=0.090  Sum_probs=53.7

Q ss_pred             cCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHH-------HhcCCCCcEEEEEe
Q 032030           64 LADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADLAVMERDA-------LRMRDGGPFIFAQV  130 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i-------~~~np~a~vi~tSa  130 (148)
                      ..|.++.||-+..|-.-+.      .+..+.|  -+|.+||+|...   +..+++.+.+       +.+..+.+++++||
T Consensus       224 vtDIvVLVVAadDGVmpQT~EaIkhAk~A~Vp--iVvAinKiDkp~---a~pekv~~eL~~~gi~~E~~GGdVQvipiSA  298 (683)
T KOG1145|consen  224 VTDIVVLVVAADDGVMPQTLEAIKHAKSANVP--IVVAINKIDKPG---ANPEKVKRELLSQGIVVEDLGGDVQVIPISA  298 (683)
T ss_pred             cccEEEEEEEccCCccHhHHHHHHHHHhcCCC--EEEEEeccCCCC---CCHHHHHHHHHHcCccHHHcCCceeEEEeec
Confidence            3577788888776633211      1223566  689999999764   4556655544       45667889999999


Q ss_pred             cCCCCHHHHHHhhh
Q 032030          131 GWVIGIIFTLSITH  144 (148)
Q Consensus       131 ~~g~gi~~l~~~~~  144 (148)
                      ++|.|++.|.+.+.
T Consensus       299 l~g~nl~~L~eail  312 (683)
T KOG1145|consen  299 LTGENLDLLEEAIL  312 (683)
T ss_pred             ccCCChHHHHHHHH
Confidence            99999999988764

>PLN00043 elongation factor 1-alpha; Provisional

Probab=96.88  E-value=0.004  Score=53.39  Aligned_cols=92  Identities=17%  Similarity=0.120  Sum_probs=51.8

Q ss_pred             CCEEEEecCCceee-ee-e-ccccCceEEEEEeCCCCCC-----c-cc--cC-----CCCcceee-EEEEecCCCCCc--
Q 032030           44 ADLLLCESGGDNLA-AN-F-SRELADYIIYIIDVSGGDK-----I-PR--KG-----GPGITQAD-LLVINKTDLASA--  104 (148)
Q Consensus        44 ~D~IliEtsG~~~~-~~-~-~~~~~d~~i~vvDa~~~~~-----~-~~--~~-----~~qi~~AD-ivViNK~DL~~~--  104 (148)
                      .-+-+|.|.|-... .. . .-..+|..+.|+|+..+.-     . ..  .+     ...++  - ++++||+|+.+.  
T Consensus        85 ~~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~G~~e~g~~~~~qT~eh~~~~~~~gi~--~iIV~vNKmD~~~~~~  162 (447)
T PLN00043         85 YYCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTGGFEAGISKDGQTREHALLAFTLGVK--QMICCCNKMDATTPKY  162 (447)
T ss_pred             EEEEEEECCCHHHHHHHHHhhhhhccEEEEEEEcccCceecccCCCchHHHHHHHHHHcCCC--cEEEEEEcccCCchhh
Confidence            34566677773210 00 0 1135788999999987521     0 00  00     01222  3 667999998731  


Q ss_pred             hhhh----HHHHHHHHHhcC--C-CCcEEEEEecCCCCHH
Q 032030          105 IGAD----LAVMERDALRMR--D-GGPFIFAQVGWVIGII  137 (148)
Q Consensus       105 ~~~~----l~~~~~~i~~~n--p-~a~vi~tSa~~g~gi~  137 (148)
                      ..+.    .+++.+.+++..  + ..+++++||++|.|+.
T Consensus       163 ~~~~~~~i~~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni~  202 (447)
T PLN00043        163 SKARYDEIVKEVSSYLKKVGYNPDKIPFVPISGFEGDNMI  202 (447)
T ss_pred             hHHHHHHHHHHHHHHHHHcCCCcccceEEEEecccccccc
Confidence            0022    344555555433  2 4789999999999985

>KOG1424 consensus Predicted GTP-binding protein MMR1 [General function prediction only]

Probab=96.86  E-value=0.0017  Score=56.28  Aligned_cols=65  Identities=17%  Similarity=0.137  Sum_probs=47.1

Q ss_pred             cCceEEEEEeCCCCCC-----ccccCCCCcc-eeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecC
Q 032030           64 LADYIIYIIDVSGGDK-----IPRKGGPGIT-QADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGW  132 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~-----~~~~~~~qi~-~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~  132 (148)
                      ..|.+|-+|||.+..-     +-...++.-+ .+.++++||+||+++  ++...-.++.+..|  .++++-||.-
T Consensus       174 rSDivvqIVDARnPllfr~~dLe~Yvke~d~~K~~~LLvNKaDLl~~--~qr~aWa~YF~~~n--i~~vf~SA~~  244 (562)
T KOG1424|consen  174 RSDIVVQIVDARNPLLFRSPDLEDYVKEVDPSKANVLLVNKADLLPP--EQRVAWAEYFRQNN--IPVVFFSALA  244 (562)
T ss_pred             hcceEEEEeecCCccccCChhHHHHHhccccccceEEEEehhhcCCH--HHHHHHHHHHHhcC--ceEEEEeccc
Confidence            5699999999987632     2112223333 457999999999999  87777777777655  7888888874

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

Probab=96.79  E-value=0.00056  Score=51.79  Aligned_cols=76  Identities=24%  Similarity=0.244  Sum_probs=53.4

Q ss_pred             cCceEEEEEeCCCCCCcccc-----------CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHH--hcC--CCCcEEEE
Q 032030           64 LADYIIYIIDVSGGDKIPRK-----------GGPGITQADLLVINKTDLASAIGADLAVMERDAL--RMR--DGGPFIFA  128 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~~-----------~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~--~~n--p~a~vi~t  128 (148)
                      +++.+++++|+...+.++..           .....|  -+++.||.|+.+.  .+.+.+.....  +.+  |..++.++
T Consensus        92 ~~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p--~L~lankqd~q~~--~~~~El~~~~~~~e~~~~rd~~~~pv  167 (197)
T KOG0076|consen   92 LAHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAP--VLVLANKQDLQNA--MEAAELDGVFGLAELIPRRDNPFQPV  167 (197)
T ss_pred             HhceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCc--hhhhcchhhhhhh--hhHHHHHHHhhhhhhcCCccCccccc
Confidence            45778999999886543211           112344  5888999999887  55555555444  444  56799999


Q ss_pred             EecCCCCHHHHHHhh
Q 032030          129 QVGWVIGIIFTLSIT  143 (148)
Q Consensus       129 Sa~~g~gi~~l~~~~  143 (148)
                      ||.+|+|+++=..|+
T Consensus       168 Sal~gegv~egi~w~  182 (197)
T KOG0076|consen  168 SALTGEGVKEGIEWL  182 (197)
T ss_pred             hhhhcccHHHHHHHH
Confidence            999999998877664

>CHL00071 tufA elongation factor Tu

Probab=96.78  E-value=0.0043  Score=52.42  Aligned_cols=90  Identities=11%  Similarity=0.120  Sum_probs=53.4

Q ss_pred             CCCEEEEecCCcee--eeee-ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhH----
Q 032030           43 KADLLLCESGGDNL--AANF-SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADL----  109 (148)
Q Consensus        43 ~~D~IliEtsG~~~--~~~~-~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l----  109 (148)
                      +.-+.|+.|.|...  ...+ .-..+|..++|+|+..+..-+.      .....++ --++++||+|+++.  .++    
T Consensus        74 ~~~~~~iDtPGh~~~~~~~~~~~~~~D~~ilVvda~~g~~~qt~~~~~~~~~~g~~-~iIvvvNK~D~~~~--~~~~~~~  150 (409)
T CHL00071         74 NRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTKEHILLAKQVGVP-NIVVFLNKEDQVDD--EELLELV  150 (409)
T ss_pred             CeEEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCC-EEEEEEEccCCCCH--HHHHHHH
Confidence            34578889998431  0001 1135799999999987643110      0011222 02578999999875  332    


Q ss_pred             -HHHHHHHHhcC--C-CCcEEEEEecCCCC
Q 032030          110 -AVMERDALRMR--D-GGPFIFAQVGWVIG  135 (148)
Q Consensus       110 -~~~~~~i~~~n--p-~a~vi~tSa~~g~g  135 (148)
                       +++.+.++...  + ..|++++||++|.+
T Consensus       151 ~~~l~~~l~~~~~~~~~~~ii~~Sa~~g~n  180 (409)
T CHL00071        151 ELEVRELLSKYDFPGDDIPIVSGSALLALE  180 (409)
T ss_pred             HHHHHHHHHHhCCCCCcceEEEcchhhccc
Confidence             24555555433  2 37999999999863

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

Probab=96.71  E-value=0.0032  Score=45.11  Aligned_cols=98  Identities=15%  Similarity=0.144  Sum_probs=60.0

Q ss_pred             CCCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCc---c-------ccCCCCcceeeEEEEecCCCCCchhhhH
Q 032030           43 KADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKI---P-------RKGGPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~---~-------~~~~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      .+.+-+.+++|......+   .-...|.++.+.|......+   .       ...+...+  -+++.||.|+.+.-.-..
T Consensus        47 ~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ii~fd~~~~~S~~~~~~~~~~i~~~~~~~~~--iivvg~K~D~~~~~~v~~  124 (162)
T PF00071_consen   47 PVNLEIWDTSGQERFDSLRDIFYRNSDAIIIVFDVTDEESFENLKKWLEEIQKYKPEDIP--IIVVGNKSDLSDEREVSV  124 (162)
T ss_dssp             EEEEEEEEETTSGGGHHHHHHHHTTESEEEEEEETTBHHHHHTHHHHHHHHHHHSTTTSE--EEEEEETTTGGGGSSSCH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc--ceeeeccccccccccchh
Confidence            344555666664211111   01346778888887654221   1       11121234  588889999987311233


Q ss_pred             HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          110 AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       110 ~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +..++..++.+  .+.+.+||+++.|+.++|..+.
T Consensus       125 ~~~~~~~~~~~--~~~~e~Sa~~~~~v~~~f~~~i  157 (162)
T PF00071_consen  125 EEAQEFAKELG--VPYFEVSAKNGENVKEIFQELI  157 (162)
T ss_dssp             HHHHHHHHHTT--SEEEEEBTTTTTTHHHHHHHHH
T ss_pred             hHHHHHHHHhC--CEEEEEECCCCCCHHHHHHHHH
Confidence            46666777655  8999999999999999998764

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 ....

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=96.69  E-value=0.0056  Score=51.22  Aligned_cols=94  Identities=18%  Similarity=0.233  Sum_probs=56.6

Q ss_pred             CCCEEEEecCCceee-eee--ccccCceEEEEEeCCCCCCccccCC------CCcceeeEEEEecCCCCCchhhhHHHHH
Q 032030           43 KADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDKIPRKGG------PGITQADLLVINKTDLASAIGADLAVME  113 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~~~~~~~------~qi~~ADivViNK~DL~~~~~~~l~~~~  113 (148)
                      +=++|+..|.|--+. -.+  ...-+|+.|.+|||..|---+.+..      -.+++ -++.+||+||+++-.+..+++.
T Consensus        85 KRkFIiADTPGHeQYTRNMaTGASTadlAIlLVDAR~Gvl~QTrRHs~I~sLLGIrh-vvvAVNKmDLvdy~e~~F~~I~  163 (431)
T COG2895          85 KRKFIIADTPGHEQYTRNMATGASTADLAILLVDARKGVLEQTRRHSFIASLLGIRH-VVVAVNKMDLVDYSEEVFEAIV  163 (431)
T ss_pred             cceEEEecCCcHHHHhhhhhcccccccEEEEEEecchhhHHHhHHHHHHHHHhCCcE-EEEEEeeecccccCHHHHHHHH
Confidence            346788888885432 111  1234688899999988732111100      01221 4788999999997333444444


Q ss_pred             HHH----HhcC-CCCcEEEEEecCCCCHH
Q 032030          114 RDA----LRMR-DGGPFIFAQVGWVIGII  137 (148)
Q Consensus       114 ~~i----~~~n-p~a~vi~tSa~~g~gi~  137 (148)
                      +..    +++. .....+|+||+.|.|+-
T Consensus       164 ~dy~~fa~~L~~~~~~~IPiSAl~GDNV~  192 (431)
T COG2895         164 ADYLAFAAQLGLKDVRFIPISALLGDNVV  192 (431)
T ss_pred             HHHHHHHHHcCCCcceEEechhccCCccc
Confidence            333    3333 33477999999999874

>KOG2484 consensus GTPase [General function prediction only]

Probab=96.63  E-value=0.0048  Score=52.12  Aligned_cols=57  Identities=16%  Similarity=0.045  Sum_probs=41.8

Q ss_pred             cCceEEEEEeCCCCCCccc------c--CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCc
Q 032030           64 LADYIIYIIDVSGGDKIPR------K--GGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGP  124 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~------~--~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~  124 (148)
                      ..|+++.|+||..+....-      .  .++.-.  =++|+||+||++.  +.+++-..+++...|..+
T Consensus       146 ~sDVVleVlDARDPlgtR~~~vE~~V~~~~gnKk--LILVLNK~DLVPr--Ev~e~Wl~YLr~~~ptv~  210 (435)
T KOG2484|consen  146 ASDVVLEVLDARDPLGTRCPEVEEAVLQAHGNKK--LILVLNKIDLVPR--EVVEKWLVYLRREGPTVA  210 (435)
T ss_pred             hhheEEEeeeccCCCCCCChhHHHHHHhccCCce--EEEEeehhccCCH--HHHHHHHHHHHhhCCcce
Confidence            5699999999987754210      1  111112  4899999999999  998988899998777654

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=96.63  E-value=0.0071  Score=49.67  Aligned_cols=92  Identities=16%  Similarity=0.185  Sum_probs=56.7

Q ss_pred             hcCCCEEEEecCCceee-e--------------eeccccCceEEEEEeCCCCCCccccCCC--CcceeeEEEEecCCCCC
Q 032030           41 LFKADLLLCESGGDNLA-A--------------NFSRELADYIIYIIDVSGGDKIPRKGGP--GITQADLLVINKTDLAS  103 (148)
Q Consensus        41 ~~~~D~IliEtsG~~~~-~--------------~~~~~~~d~~i~vvDa~~~~~~~~~~~~--qi~~ADivViNK~DL~~  103 (148)
                      ..++|+|+|+|.|.... .              ...+...+..+.|+|+..+.+.......  ..-..+-+++||.|...
T Consensus       194 ~~~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g~~~~~~a~~f~~~~~~~giIlTKlD~t~  273 (318)
T PRK10416        194 ARGIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQNALSQAKAFHEAVGLTGIILTKLDGTA  273 (318)
T ss_pred             hCCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCChHHHHHHHHHHhhCCCCEEEEECCCCCC
Confidence            45899999999998531 0              0112234567899999876432111111  11124689999999776


Q ss_pred             chhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHH
Q 032030          104 AIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTL  140 (148)
Q Consensus       104 ~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~  140 (148)
                      ..+.-+..    ....  +.||..++  +|++++.|-
T Consensus       274 ~~G~~l~~----~~~~--~~Pi~~v~--~Gq~~~Dl~  302 (318)
T PRK10416        274 KGGVVFAI----ADEL--GIPIKFIG--VGEGIDDLQ  302 (318)
T ss_pred             CccHHHHH----HHHH--CCCEEEEe--CCCChhhCc
Confidence            53333333    3322  57999998  578887764

>PLN03127 Elongation factor Tu; Provisional

Probab=96.58  E-value=0.0048  Score=52.89  Aligned_cols=97  Identities=14%  Similarity=0.177  Sum_probs=55.4

Q ss_pred             CCEEEEecCCceee-e-ee-ccccCceEEEEEeCCCCCCccc------cCCCCcceee-EEEEecCCCCCchhhhH-HHH
Q 032030           44 ADLLLCESGGDNLA-A-NF-SRELADYIIYIIDVSGGDKIPR------KGGPGITQAD-LLVINKTDLASAIGADL-AVM  112 (148)
Q Consensus        44 ~D~IliEtsG~~~~-~-~~-~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~AD-ivViNK~DL~~~~~~~l-~~~  112 (148)
                      .-++||.|.|.--. . .. .-..+|..++|+|+..+..-+.      .....++  . ++++||+|+++.  .++ +.+
T Consensus       124 ~~i~~iDtPGh~~f~~~~~~g~~~aD~allVVda~~g~~~qt~e~l~~~~~~gip--~iIvviNKiDlv~~--~~~~~~i  199 (447)
T PLN03127        124 RHYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQTKEHILLARQVGVP--SLVVFLNKVDVVDD--EELLELV  199 (447)
T ss_pred             eEEEEEECCCccchHHHHHHHHhhCCEEEEEEECCCCCchhHHHHHHHHHHcCCC--eEEEEEEeeccCCH--HHHHHHH
Confidence            45788999996321 0 00 1134799999999987642111      0111233  3 578999999864  332 233


Q ss_pred             HHHHHhc----C---CCCcEEEEEec---CCCC-------HHHHHHhhh
Q 032030          113 ERDALRM----R---DGGPFIFAQVG---WVIG-------IIFTLSITH  144 (148)
Q Consensus       113 ~~~i~~~----n---p~a~vi~tSa~---~g~g-------i~~l~~~~~  144 (148)
                      .+.+++.    .   ...|+++.||.   +|.|       +.+|++.+.
T Consensus       200 ~~~i~~~l~~~~~~~~~vpiip~Sa~sa~~g~n~~~~~~~i~~Ll~~l~  248 (447)
T PLN03127        200 EMELRELLSFYKFPGDEIPIIRGSALSALQGTNDEIGKNAILKLMDAVD  248 (447)
T ss_pred             HHHHHHHHHHhCCCCCcceEEEeccceeecCCCcccccchHHHHHHHHH
Confidence            3233221    1   24688888875   4555       677777654

>cd01899 Ygr210 Ygr210 subfamily

Probab=96.52  E-value=0.0045  Score=50.88  Aligned_cols=45  Identities=9%  Similarity=-0.004  Sum_probs=34.8

Q ss_pred             eEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHH
Q 032030           92 DLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLS  141 (148)
Q Consensus        92 DivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~  141 (148)
                      -++|+||+|+.+.  .+..   +.++...+..+++++||+.+.++++|.+
T Consensus       217 vI~VlNK~Dl~~~--~~~~---~~l~~~~~~~~iI~iSA~~e~~L~~L~~  261 (318)
T cd01899         217 MVIAANKADIPDA--ENNI---SKLRLKYPDEIVVPTSAEAELALRRAAK  261 (318)
T ss_pred             EEEEEEHHHccCh--HHHH---HHHHhhCCCCeEEEEeCcccccHHHHHH
Confidence            5799999998765  4432   2444445678899999999999999986

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.

>COG1161 Predicted GTPases [General function prediction only]

Probab=96.46  E-value=0.0076  Score=49.51  Aligned_cols=72  Identities=19%  Similarity=0.071  Sum_probs=49.0

Q ss_pred             cCceEEEEEeCCCCCCcccc----CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHH
Q 032030           64 LADYIIYIIDVSGGDKIPRK----GGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFT  139 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~~----~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l  139 (148)
                      ..|.++-|+|+..+......    .....+  .++|+||+||++.  ..+++-.+.+.+.+ ....+.++++++.+...+
T Consensus        34 ~~d~vvevvDar~P~~s~~~~l~~~v~~k~--~i~vlNK~DL~~~--~~~~~W~~~~~~~~-~~~~~~v~~~~~~~~~~i  108 (322)
T COG1161          34 SVDVVVEVVDARDPLGTRNPELERIVKEKP--KLLVLNKADLAPK--EVTKKWKKYFKKEE-GIKPIFVSAKSRQGGKKI  108 (322)
T ss_pred             cCCEEEEEEeccccccccCccHHHHHccCC--cEEEEehhhcCCH--HHHHHHHHHHHhcC-CCccEEEEeecccCccch
Confidence            46888999999877543211    111222  3999999999998  77777766666554 344567777777777666


Q ss_pred             H
Q 032030          140 L  140 (148)
Q Consensus       140 ~  140 (148)
                      .
T Consensus       109 ~  109 (322)
T COG1161         109 R  109 (322)
T ss_pred             H
Confidence            5

>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]

Probab=96.43  E-value=0.015  Score=48.87  Aligned_cols=100  Identities=16%  Similarity=0.170  Sum_probs=59.4

Q ss_pred             cCCCEEEEecCCcee-eeee--ccccCceEEEEEeCCCCCCccc---cC-CCCcceeeEEEEecCCCCCchhhh----HH
Q 032030           42 FKADLLLCESGGDNL-AANF--SRELADYIIYIIDVSGGDKIPR---KG-GPGITQADLLVINKTDLASAIGAD----LA  110 (148)
Q Consensus        42 ~~~D~IliEtsG~~~-~~~~--~~~~~d~~i~vvDa~~~~~~~~---~~-~~qi~~ADivViNK~DL~~~~~~~----l~  110 (148)
                      .+..+-+|...|-+- .-+.  ....-|+.+.|+|+..|.+.+.   .. ...+----+||+||+|+.++  .+    ++
T Consensus        68 e~lq~tlvDCPGHasLIRtiiggaqiiDlm~lviDv~kG~QtQtAEcLiig~~~c~klvvvinkid~lpE--~qr~ski~  145 (522)
T KOG0461|consen   68 EQLQFTLVDCPGHASLIRTIIGGAQIIDLMILVIDVQKGKQTQTAECLIIGELLCKKLVVVINKIDVLPE--NQRASKIE  145 (522)
T ss_pred             ccceeEEEeCCCcHHHHHHHHhhhheeeeeeEEEehhcccccccchhhhhhhhhccceEEEEeccccccc--hhhhhHHH
Confidence            356666777777541 1111  1234577899999987755322   11 11111114899999998876  33    33


Q ss_pred             HHHHH----HHh--cCCCCcEEEEEecCC----CCHHHHHHhh
Q 032030          111 VMERD----ALR--MRDGGPFIFAQVGWV----IGIIFTLSIT  143 (148)
Q Consensus       111 ~~~~~----i~~--~np~a~vi~tSa~~g----~gi~~l~~~~  143 (148)
                      +..+.    ++.  ...++||+++||+.|    +++.+|.+.+
T Consensus       146 k~~kk~~KtLe~t~f~g~~PI~~vsa~~G~~~~~~i~eL~e~l  188 (522)
T KOG0461|consen  146 KSAKKVRKTLESTGFDGNSPIVEVSAADGYFKEEMIQELKEAL  188 (522)
T ss_pred             HHHHHHHHHHHhcCcCCCCceeEEecCCCccchhHHHHHHHHH
Confidence            33333    331  234589999999999    7887776654

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=96.41  E-value=0.0077  Score=45.84  Aligned_cols=76  Identities=13%  Similarity=-0.046  Sum_probs=47.8

Q ss_pred             cCceEEEEEeCCCCCCccc---------cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCC
Q 032030           64 LADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVI  134 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~---------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~  134 (148)
                      .++.++.+.|......+..         .....++  -+++.||+|+.+.  ....+..+..+.  .+.+.+++||++|.
T Consensus        81 ~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~--i~lv~nK~Dl~~~--~~~~~~~~~~~~--~~~~~~e~Sa~~~~  154 (215)
T PTZ00132         81 KGQCAIIMFDVTSRITYKNVPNWHRDIVRVCENIP--IVLVGNKVDVKDR--QVKARQITFHRK--KNLQYYDISAKSNY  154 (215)
T ss_pred             cCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCC--EEEEEECccCccc--cCCHHHHHHHHH--cCCEEEEEeCCCCC
Confidence            3567788888765422100         0112344  4678999999754  322233333333  23578999999999


Q ss_pred             CHHHHHHhhhh
Q 032030          135 GIIFTLSITHY  145 (148)
Q Consensus       135 gi~~l~~~~~~  145 (148)
                      |+++.+.+++.
T Consensus       155 ~v~~~f~~ia~  165 (215)
T PTZ00132        155 NFEKPFLWLAR  165 (215)
T ss_pred             CHHHHHHHHHH
Confidence            99999988774

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=96.41  E-value=0.006  Score=50.43  Aligned_cols=43  Identities=21%  Similarity=0.144  Sum_probs=35.2

Q ss_pred             eEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhh
Q 032030           92 DLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSIT  143 (148)
Q Consensus        92 DivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~  143 (148)
                      -++|+||+|+.+.  ++++.+.+..       +.+++||+++.|+++|.+.+
T Consensus       242 ~l~v~NKiD~~~~--e~~~~l~~~~-------~~v~isa~~~~nld~L~e~i  284 (365)
T COG1163         242 ALYVVNKIDLPGL--EELERLARKP-------NSVPISAKKGINLDELKERI  284 (365)
T ss_pred             eEEEEecccccCH--HHHHHHHhcc-------ceEEEecccCCCHHHHHHHH
Confidence            6899999999998  7666665433       67999999999999987754

>COG2229 Predicted GTPase [General function prediction only]

Probab=96.37  E-value=0.027  Score=42.93  Aligned_cols=76  Identities=20%  Similarity=-0.011  Sum_probs=56.1

Q ss_pred             CceEEEEEeCCCCCCccc-----cC--CCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHH
Q 032030           65 ADYIIYIIDVSGGDKIPR-----KG--GPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGII  137 (148)
Q Consensus        65 ~d~~i~vvDa~~~~~~~~-----~~--~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~  137 (148)
                      +...|++||.+.+.....     ..  ...++  -+|.+||.||.+.  .--+++.+.+...+-+.|++.++|.++.|+.
T Consensus        92 a~gaivlVDss~~~~~~a~~ii~f~~~~~~ip--~vVa~NK~DL~~a--~ppe~i~e~l~~~~~~~~vi~~~a~e~~~~~  167 (187)
T COG2229          92 AVGAIVLVDSSRPITFHAEEIIDFLTSRNPIP--VVVAINKQDLFDA--LPPEKIREALKLELLSVPVIEIDATEGEGAR  167 (187)
T ss_pred             cceEEEEEecCCCcchHHHHHHHHHhhccCCC--EEEEeeccccCCC--CCHHHHHHHHHhccCCCceeeeecccchhHH
Confidence            444589999887755310     00  11144  5899999999988  6667888888866667899999999999998


Q ss_pred             HHHHhhh
Q 032030          138 FTLSITH  144 (148)
Q Consensus       138 ~l~~~~~  144 (148)
                      +-++.+.
T Consensus       168 ~~L~~ll  174 (187)
T COG2229         168 DQLDVLL  174 (187)
T ss_pred             HHHHHHH
Confidence            8877654

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=96.33  E-value=0.015  Score=49.83  Aligned_cols=70  Identities=20%  Similarity=0.086  Sum_probs=43.8

Q ss_pred             cCceEEEEEeCCCCCCccc-----cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHH
Q 032030           64 LADYIIYIIDVSGGDKIPR-----KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIF  138 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~-----~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~  138 (148)
                      .+|.+++|+|+........     ......+  -++|+||+|+...  . .+   +..+.  ...+++.+||++ .|+++
T Consensus       282 ~aD~il~V~D~s~~~s~~~~~l~~~~~~~~p--iIlV~NK~Dl~~~--~-~~---~~~~~--~~~~~~~vSak~-~gI~~  350 (442)
T TIGR00450       282 QADLVIYVLDASQPLTKDDFLIIDLNKSKKP--FILVLNKIDLKIN--S-LE---FFVSS--KVLNSSNLSAKQ-LKIKA  350 (442)
T ss_pred             hCCEEEEEEECCCCCChhHHHHHHHhhCCCC--EEEEEECccCCCc--c-hh---hhhhh--cCCceEEEEEec-CCHHH
Confidence            4688999999876543110     1111233  5899999999754  2 22   22222  235789999997 68888


Q ss_pred             HHHhhh
Q 032030          139 TLSITH  144 (148)
Q Consensus       139 l~~~~~  144 (148)
                      +++.+.
T Consensus       351 ~~~~L~  356 (442)
T TIGR00450       351 LVDLLT  356 (442)
T ss_pred             HHHHHH
Confidence            876653

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.

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

Probab=96.29  E-value=0.0054  Score=47.20  Aligned_cols=78  Identities=18%  Similarity=0.085  Sum_probs=50.0

Q ss_pred             cCceEEEEEeCCCCCCc---cc-------cCCCCcceeeEEEEecCCCCCchhhhH--HHHHHHHHhcCCCCcEEEEEec
Q 032030           64 LADYIIYIIDVSGGDKI---PR-------KGGPGITQADLLVINKTDLASAIGADL--AVMERDALRMRDGGPFIFAQVG  131 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~---~~-------~~~~qi~~ADivViNK~DL~~~~~~~l--~~~~~~i~~~np~a~vi~tSa~  131 (148)
                      .++.+|+|.|.+....+   +.       ...+.++  -++|.||+|+.+.  ...  +..+++..+ ++-.++++||||
T Consensus        81 ~ahGii~vyDiT~~~SF~~v~~Wi~Ei~~~~~~~v~--~lLVGNK~Dl~~~--~~v~~~~a~~fa~~-~~~~~f~ETSAK  155 (205)
T KOG0084|consen   81 GAHGIIFVYDITKQESFNNVKRWIQEIDRYASENVP--KLLVGNKCDLTEK--RVVSTEEAQEFADE-LGIPIFLETSAK  155 (205)
T ss_pred             CCCeEEEEEEcccHHHhhhHHHHHHHhhhhccCCCC--eEEEeeccccHhh--eecCHHHHHHHHHh-cCCcceeecccC
Confidence            35667888887654221   11       1112333  5999999999776  333  234444443 343449999999


Q ss_pred             CCCCHHHHHHhhhhh
Q 032030          132 WVIGIIFTLSITHYI  146 (148)
Q Consensus       132 ~g~gi~~l~~~~~~~  146 (148)
                      ++.++++.|..++..
T Consensus       156 ~~~NVe~~F~~la~~  170 (205)
T KOG0084|consen  156 DSTNVEDAFLTLAKE  170 (205)
T ss_pred             CccCHHHHHHHHHHH
Confidence            999999999887653

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=96.27  E-value=0.019  Score=48.67  Aligned_cols=78  Identities=13%  Similarity=0.143  Sum_probs=49.4

Q ss_pred             CceEEEEEeCCCCCCcccc-C-C--CCcceeeEEEEecCCCCCchhhhHHHHHHHHHh----------------------
Q 032030           65 ADYIIYIIDVSGGDKIPRK-G-G--PGITQADLLVINKTDLASAIGADLAVMERDALR----------------------  118 (148)
Q Consensus        65 ~d~~i~vvDa~~~~~~~~~-~-~--~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~----------------------  118 (148)
                      .|+.+.+|-|..|.....+ + .  -.+++-.+++++|+|+++.  +.+..+.+.+.+                      
T Consensus       227 ~dYglLvVaAddG~~~~tkEHLgi~~a~~lPviVvvTK~D~~~d--dr~~~v~~ei~~~Lk~v~Rip~~vk~~~d~v~aa  304 (527)
T COG5258         227 VDYGLLVVAADDGVTKMTKEHLGIALAMELPVIVVVTKIDMVPD--DRFQGVVEEISALLKRVGRIPLIVKDTDDVVLAA  304 (527)
T ss_pred             cceEEEEEEccCCcchhhhHhhhhhhhhcCCEEEEEEecccCcH--HHHHHHHHHHHHHHHHhcccceeeeccchhHHhh
Confidence            4666666666665443111 1 0  1233348999999999987  655544333321                      


Q ss_pred             ----cCC-CCcEEEEEecCCCCHHHHHHhhh
Q 032030          119 ----MRD-GGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       119 ----~np-~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                          .|. -+|||.||+.||.|++-|.+++.
T Consensus       305 ~a~k~~~~vvPi~~tSsVTg~GldlL~e~f~  335 (527)
T COG5258         305 KAMKAGRGVVPIFYTSSVTGEGLDLLDEFFL  335 (527)
T ss_pred             hhhhcCCceEEEEEEecccCccHHHHHHHHH
Confidence                122 36899999999999988877654

>PLN03126 Elongation factor Tu; Provisional

Probab=96.23  E-value=0.019  Score=49.67  Aligned_cols=88  Identities=15%  Similarity=0.165  Sum_probs=51.3

Q ss_pred             CCCEEEEecCCceee-ee-e-ccccCceEEEEEeCCCCCCccc------cCCCCcceee-EEEEecCCCCCchhhh-HH-
Q 032030           43 KADLLLCESGGDNLA-AN-F-SRELADYIIYIIDVSGGDKIPR------KGGPGITQAD-LLVINKTDLASAIGAD-LA-  110 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-~~-~-~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~AD-ivViNK~DL~~~~~~~-l~-  110 (148)
                      +..+.+|.+.|-... .+ . .-..+|..+.|+|+..+...+.      .....++  - ++++||+|+.+.  ++ .+ 
T Consensus       143 ~~~i~liDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~~qt~e~~~~~~~~gi~--~iIvvvNK~Dl~~~--~~~~~~  218 (478)
T PLN03126        143 NRHYAHVDCPGHADYVKNMITGAAQMDGAILVVSGADGPMPQTKEHILLAKQVGVP--NMVVFLNKQDQVDD--EELLEL  218 (478)
T ss_pred             CcEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCC--eEEEEEecccccCH--HHHHHH
Confidence            345677777774210 00 0 1135688999999987743211      0011222  2 568999999875  33 22 


Q ss_pred             ---HHHHHHHhc--C-CCCcEEEEEecCCC
Q 032030          111 ---VMERDALRM--R-DGGPFIFAQVGWVI  134 (148)
Q Consensus       111 ---~~~~~i~~~--n-p~a~vi~tSa~~g~  134 (148)
                         ++.+.++..  + .+.|++++||.+|.
T Consensus       219 i~~~i~~~l~~~g~~~~~~~~vp~Sa~~g~  248 (478)
T PLN03126        219 VELEVRELLSSYEFPGDDIPIISGSALLAL  248 (478)
T ss_pred             HHHHHHHHHHhcCCCcCcceEEEEEccccc
Confidence               344555543  2 26899999998874

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

Probab=96.21  E-value=0.0028  Score=48.61  Aligned_cols=48  Identities=21%  Similarity=0.117  Sum_probs=37.4

Q ss_pred             EEEEecCCCCCchhhhH--HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030           93 LLVINKTDLASAIGADL--AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus        93 ivViNK~DL~~~~~~~l--~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +++.||+||...  .++  ++-+++.++  .......|||+|++|++|.|..++
T Consensus       115 mLiGNKsDL~~r--R~Vs~EEGeaFA~e--hgLifmETSakt~~~VEEaF~nta  164 (216)
T KOG0098|consen  115 MLIGNKSDLEAR--REVSKEEGEAFARE--HGLIFMETSAKTAENVEEAFINTA  164 (216)
T ss_pred             EEEcchhhhhcc--ccccHHHHHHHHHH--cCceeehhhhhhhhhHHHHHHHHH
Confidence            677899999876  433  456677775  556778999999999999986553

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=96.17  E-value=0.025  Score=45.43  Aligned_cols=91  Identities=15%  Similarity=0.165  Sum_probs=57.2

Q ss_pred             hcCCCEEEEecCCceee-ee--------------eccccCceEEEEEeCCCCCCccc---cCCCCcceeeEEEEecCCCC
Q 032030           41 LFKADLLLCESGGDNLA-AN--------------FSRELADYIIYIIDVSGGDKIPR---KGGPGITQADLLVINKTDLA  102 (148)
Q Consensus        41 ~~~~D~IliEtsG~~~~-~~--------------~~~~~~d~~i~vvDa~~~~~~~~---~~~~qi~~ADivViNK~DL~  102 (148)
                      ..++|+|+|.|.|.... +.              +.+...|..+.|+|+..+.+...   .+...+ ..+-+++||.|..
T Consensus       152 ~~~~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~f~~~~-~~~g~IlTKlDe~  230 (272)
T TIGR00064       152 ARNIDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTGQNALEQAKVFNEAV-GLTGIILTKLDGT  230 (272)
T ss_pred             HCCCCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCCHHHHHHHHHHHhhC-CCCEEEEEccCCC
Confidence            45899999999998631 00              11223677899999976643111   111111 2479999999998


Q ss_pred             CchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHH
Q 032030          103 SAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTL  140 (148)
Q Consensus       103 ~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~  140 (148)
                      ...+.-+.....    .  +.|+..++  +|++++.|-
T Consensus       231 ~~~G~~l~~~~~----~--~~Pi~~~~--~Gq~~~dl~  260 (272)
T TIGR00064       231 AKGGIILSIAYE----L--KLPIKFIG--VGEKIDDLA  260 (272)
T ss_pred             CCccHHHHHHHH----H--CcCEEEEe--CCCChHhCc
Confidence            775544433332    1  47888888  578887764

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.

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

Probab=95.87  E-value=0.0071  Score=45.00  Aligned_cols=75  Identities=15%  Similarity=0.104  Sum_probs=50.1

Q ss_pred             ceEEEEEeCCCCCCccc---cC------CCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCH
Q 032030           66 DYIIYIIDVSGGDKIPR---KG------GPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGI  136 (148)
Q Consensus        66 d~~i~vvDa~~~~~~~~---~~------~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi  136 (148)
                      +.+++|.|.++++.+..   .+      -+.++  -++|.||.|+.+.  ..+..-..+--+..-+.+.|.||||+.+++
T Consensus        82 hgv~vVYDVTn~ESF~Nv~rWLeei~~ncdsv~--~vLVGNK~d~~~R--rvV~t~dAr~~A~~mgie~FETSaKe~~Nv  157 (198)
T KOG0079|consen   82 HGVIVVYDVTNGESFNNVKRWLEEIRNNCDSVP--KVLVGNKNDDPER--RVVDTEDARAFALQMGIELFETSAKENENV  157 (198)
T ss_pred             ceEEEEEECcchhhhHhHHHHHHHHHhcCcccc--ceecccCCCCccc--eeeehHHHHHHHHhcCchheehhhhhcccc
Confidence            45688889988765321   11      12233  6999999999876  433322222233456678999999999999


Q ss_pred             HHHHHhhh
Q 032030          137 IFTLSITH  144 (148)
Q Consensus       137 ~~l~~~~~  144 (148)
                      ++.|.-++
T Consensus       158 E~mF~cit  165 (198)
T KOG0079|consen  158 EAMFHCIT  165 (198)
T ss_pred             hHHHHHHH
Confidence            99986554

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

Probab=95.84  E-value=0.018  Score=44.16  Aligned_cols=57  Identities=7%  Similarity=-0.011  Sum_probs=40.3

Q ss_pred             CCcceeeEEEEecCCCCCchh-h-hHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030           86 PGITQADLLVINKTDLASAIG-A-DLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus        86 ~qi~~ADivViNK~DL~~~~~-~-~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ..+|  =+|+.||+|+-+.-+ . ...+..++. +-+.+.|.|.||||.+.|+++-|...+.
T Consensus       117 e~FP--FVilGNKiD~~~~~~r~VS~~~Aq~WC-~s~gnipyfEtSAK~~~NV~~AFe~ia~  175 (210)
T KOG0394|consen  117 ETFP--FVILGNKIDVDGGKSRQVSEKKAQTWC-KSKGNIPYFETSAKEATNVDEAFEEIAR  175 (210)
T ss_pred             Cccc--EEEEcccccCCCCccceeeHHHHHHHH-HhcCCceeEEecccccccHHHHHHHHHH
Confidence            4566  489999999965200 1 112344444 4567899999999999999999887654

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=95.81  E-value=0.02  Score=45.87  Aligned_cols=88  Identities=10%  Similarity=-0.034  Sum_probs=52.6

Q ss_pred             CCCEEEEecCCceee--eee-ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCc-hhhhHHHH
Q 032030           43 KADLLLCESGGDNLA--ANF-SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASA-IGADLAVM  112 (148)
Q Consensus        43 ~~D~IliEtsG~~~~--~~~-~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~-~~~~l~~~  112 (148)
                      +..+.++.|.|....  ... .-..+|..++|+|+..+...+.      ....+++  -++++||+|+.+. ....++.+
T Consensus        63 ~~~i~liDTPG~~df~~~~~~~l~~aD~ailVVDa~~g~~~~t~~~~~~~~~~~~p--~ivviNK~D~~~a~~~~~~~~l  140 (270)
T cd01886          63 DHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVAGVEPQTETVWRQADRYNVP--RIAFVNKMDRTGADFFRVVEQI  140 (270)
T ss_pred             CEEEEEEECCCcHHHHHHHHHHHHHcCEEEEEEECCCCCCHHHHHHHHHHHHcCCC--EEEEEECCCCCCCCHHHHHHHH
Confidence            567888999996421  000 1135688999999988754211      1122455  5899999999753 11123344


Q ss_pred             HHHHHhcCCCCcEEEEEecCC
Q 032030          113 ERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus       113 ~~~i~~~np~a~vi~tSa~~g  133 (148)
                      ++.+. ..+...++|+|++.+
T Consensus       141 ~~~l~-~~~~~~~~Pisa~~~  160 (270)
T cd01886         141 REKLG-ANPVPLQLPIGEEDD  160 (270)
T ss_pred             HHHhC-CCceEEEeccccCCC
Confidence            44432 345567788988754

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

>KOG0395 consensus Ras-related GTPase [General function prediction only]

Probab=95.80  E-value=0.018  Score=44.05  Aligned_cols=77  Identities=19%  Similarity=0.104  Sum_probs=47.5

Q ss_pred             CceEEEEEeCCCCCC----------ccc-cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCC
Q 032030           65 ADYIIYIIDVSGGDK----------IPR-KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        65 ~d~~i~vvDa~~~~~----------~~~-~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      .|.++.|.+.....-          +.. .-...+|  -++|.||+||...=.-..+...+..+  ....+.+.+||+..
T Consensus        75 ~~gF~lVysitd~~SF~~~~~l~~~I~r~~~~~~~P--ivlVGNK~Dl~~~R~V~~eeg~~la~--~~~~~f~E~Sak~~  150 (196)
T KOG0395|consen   75 GDGFLLVYSITDRSSFEEAKQLREQILRVKGRDDVP--IILVGNKCDLERERQVSEEEGKALAR--SWGCAFIETSAKLN  150 (196)
T ss_pred             CcEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCC--EEEEEEcccchhccccCHHHHHHHHH--hcCCcEEEeeccCC
Confidence            466677777655421          100 1112445  79999999998730012223333333  34456999999999


Q ss_pred             CCHHHHHHhhhh
Q 032030          134 IGIIFTLSITHY  145 (148)
Q Consensus       134 ~gi~~l~~~~~~  145 (148)
                      .+++++|..+..
T Consensus       151 ~~v~~~F~~L~r  162 (196)
T KOG0395|consen  151 YNVDEVFYELVR  162 (196)
T ss_pred             cCHHHHHHHHHH
Confidence            999999987654

>cd04168 TetM_like Tet(M)-like subfamily

Probab=95.71  E-value=0.041  Score=43.15  Aligned_cols=59  Identities=20%  Similarity=0.215  Sum_probs=37.2

Q ss_pred             CCCEEEEecCCceeee-ee--ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCC
Q 032030           43 KADLLLCESGGDNLAA-NF--SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLAS  103 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~-~~--~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~  103 (148)
                      +..+.++.|.|..... ..  .-..+|..++|+|+..+...+.      .....++  -++++||+|+..
T Consensus        63 ~~~i~liDTPG~~~f~~~~~~~l~~aD~~IlVvd~~~g~~~~~~~~~~~~~~~~~P--~iivvNK~D~~~  130 (237)
T cd04168          63 DTKVNLIDTPGHMDFIAEVERSLSVLDGAILVISAVEGVQAQTRILWRLLRKLNIP--TIIFVNKIDRAG  130 (237)
T ss_pred             CEEEEEEeCCCccchHHHHHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHHcCCC--EEEEEECccccC
Confidence            5678888898864310 00  1135688999999987743210      1122455  489999999874

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.

>PRK12740 elongation factor G; Reviewed

Probab=95.71  E-value=0.029  Score=50.19  Aligned_cols=60  Identities=18%  Similarity=0.200  Sum_probs=38.7

Q ss_pred             CCCEEEEecCCceee--eee-ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCc
Q 032030           43 KADLLLCESGGDNLA--ANF-SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASA  104 (148)
Q Consensus        43 ~~D~IliEtsG~~~~--~~~-~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~  104 (148)
                      ++++.+|.|.|..-.  ... .-..+|.++.++|+..+.....      ....+++  -++|+||+|+...
T Consensus        59 ~~~i~liDtPG~~~~~~~~~~~l~~aD~vllvvd~~~~~~~~~~~~~~~~~~~~~p--~iiv~NK~D~~~~  127 (668)
T PRK12740         59 GHKINLIDTPGHVDFTGEVERALRVLDGAVVVVCAVGGVEPQTETVWRQAEKYGVP--RIIFVNKMDRAGA  127 (668)
T ss_pred             CEEEEEEECCCcHHHHHHHHHHHHHhCeEEEEEeCCCCcCHHHHHHHHHHHHcCCC--EEEEEECCCCCCC
Confidence            678999999996421  000 1135799999999987754211      1112344  6899999998753

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=95.60  E-value=0.05  Score=46.23  Aligned_cols=74  Identities=19%  Similarity=0.125  Sum_probs=44.5

Q ss_pred             cCceEEEEEeCCCCCCccc-cCCCC------------cceeeEEEEecCCCCCchhhhHHHHHHHH----H--hcCC-CC
Q 032030           64 LADYIIYIIDVSGGDKIPR-KGGPG------------ITQADLLVINKTDLASAIGADLAVMERDA----L--RMRD-GG  123 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~-~~~~q------------i~~ADivViNK~DL~~~~~~~l~~~~~~i----~--~~np-~a  123 (148)
                      -+|..|+|||+..++-=.. ...+|            +. -=++++||.|+++.-.+..+++...+    +  ..+| +.
T Consensus       108 qAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~tlGi~-~lIVavNKMD~v~wde~rf~ei~~~v~~l~k~~G~~~~~v  186 (428)
T COG5256         108 QADVAVLVVDARDGEFEAGFGVGGQTREHAFLARTLGIK-QLIVAVNKMDLVSWDEERFEEIVSEVSKLLKMVGYNPKDV  186 (428)
T ss_pred             hccEEEEEEECCCCccccccccCCchhHHHHHHHhcCCc-eEEEEEEcccccccCHHHHHHHHHHHHHHHHHcCCCccCC
Confidence            3677899999987731000 00011            11 13889999999985223334333322    2  2344 47


Q ss_pred             cEEEEEecCCCCHHH
Q 032030          124 PFIFAQVGWVIGIIF  138 (148)
Q Consensus       124 ~vi~tSa~~g~gi~~  138 (148)
                      +++|+|+.+|.|+.+
T Consensus       187 ~FIPiSg~~G~Nl~~  201 (428)
T COG5256         187 PFIPISGFKGDNLTK  201 (428)
T ss_pred             eEEecccccCCcccc
Confidence            899999999999854

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

Probab=95.43  E-value=0.024  Score=42.48  Aligned_cols=69  Identities=14%  Similarity=0.175  Sum_probs=45.3

Q ss_pred             EEEEEeCCCCCCccc----------cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHH
Q 032030           68 IIYIIDVSGGDKIPR----------KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGII  137 (148)
Q Consensus        68 ~i~vvDa~~~~~~~~----------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~  137 (148)
                      .+.|.|++..+.+..          ..++.  .+.+++.||.||-.+  .++..++..--..-.+.-.+.|||+||++++
T Consensus        85 AlLVYD~TsrdsfnaLtnWL~DaR~lAs~n--IvviL~GnKkDL~~~--R~VtflEAs~FaqEnel~flETSa~TGeNVE  160 (214)
T KOG0086|consen   85 ALLVYDITSRDSFNALTNWLTDARTLASPN--IVVILCGNKKDLDPE--REVTFLEASRFAQENELMFLETSALTGENVE  160 (214)
T ss_pred             eEEEEeccchhhHHHHHHHHHHHHhhCCCc--EEEEEeCChhhcChh--hhhhHHHHHhhhcccceeeeeecccccccHH
Confidence            377788876643211          11222  236788899999887  6666555443333345577889999999999


Q ss_pred             HHH
Q 032030          138 FTL  140 (148)
Q Consensus       138 ~l~  140 (148)
                      |-|
T Consensus       161 EaF  163 (214)
T KOG0086|consen  161 EAF  163 (214)
T ss_pred             HHH
Confidence            876

>KOG0073 consensus GTP-binding ADP-ribosylation factor-like protein ARL2 [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]

Probab=95.41  E-value=0.025  Score=42.64  Aligned_cols=79  Identities=15%  Similarity=0.126  Sum_probs=51.2

Q ss_pred             cCceEEEEEeCCCCCCcc-------c-cCCCCcce-eeEEEEecCCCCCchhhhHHHHH--HHHHhc--CCCCcEEEEEe
Q 032030           64 LADYIIYIIDVSGGDKIP-------R-KGGPGITQ-ADLLVINKTDLASAIGADLAVME--RDALRM--RDGGPFIFAQV  130 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~-------~-~~~~qi~~-ADivViNK~DL~~~~~~~l~~~~--~~i~~~--np~a~vi~tSa  130 (148)
                      ..|..|+|+|.......+       . ...+++.. +-+|+.||.|+.+.  -..+.+.  -.++++  -.+-+++.+||
T Consensus        83 stdglIwvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~~--l~~~~i~~~~~L~~l~ks~~~~l~~cs~  160 (185)
T KOG0073|consen   83 STDGLIWVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLPGA--LSLEEISKALDLEELAKSHHWRLVKCSA  160 (185)
T ss_pred             ccCeEEEEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCccc--cCHHHHHHhhCHHHhccccCceEEEEec
Confidence            356679999986543211       1 12345555 46899999999876  3333433  223344  24569999999


Q ss_pred             cCCCCHHHHHHhhh
Q 032030          131 GWVIGIIFTLSITH  144 (148)
Q Consensus       131 ~~g~gi~~l~~~~~  144 (148)
                      .+|+++.+=++|+.
T Consensus       161 ~tge~l~~gidWL~  174 (185)
T KOG0073|consen  161 VTGEDLLEGIDWLC  174 (185)
T ss_pred             cccccHHHHHHHHH
Confidence            99999888777763

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=95.34  E-value=0.038  Score=41.76  Aligned_cols=100  Identities=12%  Similarity=-0.013  Sum_probs=56.6

Q ss_pred             CCCEEEEecCCceee----eee----ccccCceEEEEEeCCCCCCcc----c-cCCCCcceeeEEEEecCCCCCchh---
Q 032030           43 KADLLLCESGGDNLA----ANF----SRELADYIIYIIDVSGGDKIP----R-KGGPGITQADLLVINKTDLASAIG---  106 (148)
Q Consensus        43 ~~D~IliEtsG~~~~----~~~----~~~~~d~~i~vvDa~~~~~~~----~-~~~~qi~~ADivViNK~DL~~~~~---  106 (148)
                      .+++.+++|.|..-.    ..+    .-...|.++++.+.. .....    . ......+  -++|+||+|+..+..   
T Consensus        51 ~~~l~l~DtpG~~~~~~~~~~~l~~~~~~~~d~~l~v~~~~-~~~~d~~~~~~l~~~~~~--~ilV~nK~D~~~~~~~~~  127 (197)
T cd04104          51 FPNVTLWDLPGIGSTAFPPDDYLEEMKFSEYDFFIIISSTR-FSSNDVKLAKAIQCMGKK--FYFVRTKVDRDLSNEQRS  127 (197)
T ss_pred             CCCceEEeCCCCCcccCCHHHHHHHhCccCcCEEEEEeCCC-CCHHHHHHHHHHHHhCCC--EEEEEecccchhhhhhcc
Confidence            357889999997521    111    112357777765432 22110    0 0111223  489999999964300   


Q ss_pred             --------hhHHHHHHHHHhcC-----CCCcEEEEEec--CCCCHHHHHHhhhh
Q 032030          107 --------ADLAVMERDALRMR-----DGGPFIFAQVG--WVIGIIFTLSITHY  145 (148)
Q Consensus       107 --------~~l~~~~~~i~~~n-----p~a~vi~tSa~--~g~gi~~l~~~~~~  145 (148)
                              .-++.+++.+.+..     +..+|+.+|+.  ++.|+..|.+.+..
T Consensus       128 ~~~~~~~~~~l~~i~~~~~~~~~~~~~~~p~v~~vS~~~~~~~~~~~l~~~~~~  181 (197)
T cd04104         128 KPRSFNREQVLQEIRDNCLENLQEAGVSEPPVFLVSNFDPSDYDFPKLRETLLK  181 (197)
T ss_pred             ccccccHHHHHHHHHHHHHHHHHHcCCCCCCEEEEeCCChhhcChHHHHHHHHH
Confidence                    12334444444222     45699999998  57899999877653

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

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=95.33  E-value=0.09  Score=45.68  Aligned_cols=99  Identities=14%  Similarity=0.162  Sum_probs=58.5

Q ss_pred             CCCEEEEecCCceee-eee--ccccCceEEEEEeCCCCCCccccC------CCCcceeeEEEEecCCCCCc-hhhhHHHH
Q 032030           43 KADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDKIPRKG------GPGITQADLLVINKTDLASA-IGADLAVM  112 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~~~~~~------~~qi~~ADivViNK~DL~~~-~~~~l~~~  112 (148)
                      +.-+=+|.|.|-|.. -..  .-..+|-++.+|||.+|+.-+.++      ...++  -|+|+||+|..+. .+..++++
T Consensus        67 ~~~INIvDTPGHADFGGEVERvl~MVDgvlLlVDA~EGpMPQTrFVlkKAl~~gL~--PIVVvNKiDrp~Arp~~Vvd~v  144 (603)
T COG1217          67 GTRINIVDTPGHADFGGEVERVLSMVDGVLLLVDASEGPMPQTRFVLKKALALGLK--PIVVINKIDRPDARPDEVVDEV  144 (603)
T ss_pred             CeEEEEecCCCcCCccchhhhhhhhcceEEEEEEcccCCCCchhhhHHHHHHcCCC--cEEEEeCCCCCCCCHHHHHHHH
Confidence            344456677775532 011  124678899999999997533221      11233  5999999999775 11223333


Q ss_pred             HHHHHhcCC-----CCcEEEEEecCCC----------CHHHHHHhh
Q 032030          113 ERDALRMRD-----GGPFIFAQVGWVI----------GIIFTLSIT  143 (148)
Q Consensus       113 ~~~i~~~np-----~a~vi~tSa~~g~----------gi~~l~~~~  143 (148)
                      -...-++..     +-|++..|++.|.          ++..||+.+
T Consensus       145 fDLf~~L~A~deQLdFPivYAS~~~G~a~~~~~~~~~~m~pLfe~I  190 (603)
T COG1217         145 FDLFVELGATDEQLDFPIVYASARNGTASLDPEDEADDMAPLFETI  190 (603)
T ss_pred             HHHHHHhCCChhhCCCcEEEeeccCceeccCccccccchhHHHHHH
Confidence            333333332     3589999998753          466666654

>PRK00007 elongation factor G; Reviewed

Probab=95.30  E-value=0.025  Score=50.95  Aligned_cols=86  Identities=12%  Similarity=-0.007  Sum_probs=52.8

Q ss_pred             CCCEEEEecCCceee--eee-ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhHHHHH
Q 032030           43 KADLLLCESGGDNLA--ANF-SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADLAVME  113 (148)
Q Consensus        43 ~~D~IliEtsG~~~~--~~~-~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~  113 (148)
                      +.-+.||.|.|....  ... .-..+|..++|+|+..+...+.      .....++  -++++||+|+.++  . ..++.
T Consensus        74 ~~~~~liDTPG~~~f~~ev~~al~~~D~~vlVvda~~g~~~qt~~~~~~~~~~~~p--~iv~vNK~D~~~~--~-~~~~~  148 (693)
T PRK00007         74 DHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVGGVEPQSETVWRQADKYKVP--RIAFVNKMDRTGA--D-FYRVV  148 (693)
T ss_pred             CeEEEEEeCCCcHHHHHHHHHHHHHcCEEEEEEECCCCcchhhHHHHHHHHHcCCC--EEEEEECCCCCCC--C-HHHHH
Confidence            456788888885321  000 1135688999999988754221      1122455  5899999999875  3 44444


Q ss_pred             HHHHhcC---CCCcEEEEEecCC
Q 032030          114 RDALRMR---DGGPFIFAQVGWV  133 (148)
Q Consensus       114 ~~i~~~n---p~a~vi~tSa~~g  133 (148)
                      +.+++..   +.+.++++|++++
T Consensus       149 ~~i~~~l~~~~~~~~ipisa~~~  171 (693)
T PRK00007        149 EQIKDRLGANPVPIQLPIGAEDD  171 (693)
T ss_pred             HHHHHHhCCCeeeEEecCccCCc
Confidence            4554333   3367788888776

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

Probab=95.29  E-value=0.059  Score=40.13  Aligned_cols=77  Identities=22%  Similarity=0.216  Sum_probs=51.3

Q ss_pred             cCceEEEEEeCCCCCCccc--------cCCC---CcceeeEEEEecCCCCCchhhhHHHHHHHHH--hcC-CCCcEEEEE
Q 032030           64 LADYIIYIIDVSGGDKIPR--------KGGP---GITQADLLVINKTDLASAIGADLAVMERDAL--RMR-DGGPFIFAQ  129 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~--------~~~~---qi~~ADivViNK~DL~~~~~~~l~~~~~~i~--~~n-p~a~vi~tS  129 (148)
                      .++.++++|||.+.+.+..        ...+   .+|  -+|+.||.|+.++.+.  ..+.+.+-  .+. ...--|.+|
T Consensus        88 ~v~aivY~VDaad~~k~~~sr~EL~~LL~k~~l~gip--~LVLGnK~d~~~AL~~--~~li~rmgL~sitdREvcC~siS  163 (186)
T KOG0075|consen   88 GVSAIVYVVDAADPDKLEASRSELHDLLDKPSLTGIP--LLVLGNKIDLPGALSK--IALIERMGLSSITDREVCCFSIS  163 (186)
T ss_pred             cCcEEEEEeecCCcccchhhHHHHHHHhcchhhcCCc--EEEecccccCcccccH--HHHHHHhCccccccceEEEEEEE
Confidence            4577899999988655322        1222   355  7899999999987333  34444332  221 223447899


Q ss_pred             ecCCCCHHHHHHhhh
Q 032030          130 VGWVIGIIFTLSITH  144 (148)
Q Consensus       130 a~~g~gi~~l~~~~~  144 (148)
                      +++..+++.+.+|+.
T Consensus       164 cke~~Nid~~~~Wli  178 (186)
T KOG0075|consen  164 CKEKVNIDITLDWLI  178 (186)
T ss_pred             EcCCccHHHHHHHHH
Confidence            999999999999874

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=95.24  E-value=0.071  Score=43.94  Aligned_cols=65  Identities=15%  Similarity=0.162  Sum_probs=41.3

Q ss_pred             ceEEEEEeCCCCCCccc----cCCCCcce-eeEEEEecCCCCCchhhhH-HHHHHHHHh----c-CC--CCcEEEEEecC
Q 032030           66 DYIIYIIDVSGGDKIPR----KGGPGITQ-ADLLVINKTDLASAIGADL-AVMERDALR----M-RD--GGPFIFAQVGW  132 (148)
Q Consensus        66 d~~i~vvDa~~~~~~~~----~~~~qi~~-ADivViNK~DL~~~~~~~l-~~~~~~i~~----~-np--~a~vi~tSa~~  132 (148)
                      |..|.||.|..|+.-+.    ++..|.-. .-++++||+|+++.  .++ +.++..+|+    . +|  ..||+.-||++
T Consensus       100 DgAILVVsA~dGpmPqTrEHiLlarqvGvp~ivvflnK~Dmvdd--~ellelVemEvreLLs~y~f~gd~~Pii~gSal~  177 (394)
T COG0050         100 DGAILVVAATDGPMPQTREHILLARQVGVPYIVVFLNKVDMVDD--EELLELVEMEVRELLSEYGFPGDDTPIIRGSALK  177 (394)
T ss_pred             CccEEEEEcCCCCCCcchhhhhhhhhcCCcEEEEEEecccccCc--HHHHHHHHHHHHHHHHHcCCCCCCcceeechhhh
Confidence            44599999988865322    22334332 35889999999985  444 444444443    2 24  67999999875

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=95.24  E-value=0.036  Score=43.20  Aligned_cols=58  Identities=22%  Similarity=0.208  Sum_probs=36.9

Q ss_pred             CCCEEEEecCCceeee-ee--ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCC
Q 032030           43 KADLLLCESGGDNLAA-NF--SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLA  102 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~-~~--~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~  102 (148)
                      ++-+.++.|.|..... ..  .-..+|..+.|+|+..+...+.      .....++  -++++||+|+.
T Consensus        72 ~~~i~iiDTPG~~~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t~~~l~~~~~~~~p--~ilviNKiD~~  138 (222)
T cd01885          72 EYLINLIDSPGHVDFSSEVTAALRLCDGALVVVDAVEGVCVQTETVLRQALKERVK--PVLVINKIDRL  138 (222)
T ss_pred             ceEEEEECCCCccccHHHHHHHHHhcCeeEEEEECCCCCCHHHHHHHHHHHHcCCC--EEEEEECCCcc
Confidence            4556788888864310 00  1236788999999988754221      1122344  58999999986

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

>PRK13351 elongation factor G; Reviewed

Probab=95.23  E-value=0.059  Score=48.41  Aligned_cols=60  Identities=23%  Similarity=0.230  Sum_probs=37.1

Q ss_pred             CCCEEEEecCCceee-ee-e-ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCc
Q 032030           43 KADLLLCESGGDNLA-AN-F-SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASA  104 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-~~-~-~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~  104 (148)
                      +..+.++.|.|.... .. . .-..+|..++|+|+..+.....      .....++  -++++||+|+...
T Consensus        72 ~~~i~liDtPG~~df~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~~~~~~~~~p--~iiviNK~D~~~~  140 (687)
T PRK13351         72 NHRINLIDTPGHIDFTGEVERSLRVLDGAVVVFDAVTGVQPQTETVWRQADRYGIP--RLIFINKMDRVGA  140 (687)
T ss_pred             CEEEEEEECCCcHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhcCCC--EEEEEECCCCCCC
Confidence            456777888885321 00 0 1135788999999987754211      1122455  5899999998764

>KOG0466 consensus Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=95.17  E-value=0.031  Score=46.25  Aligned_cols=52  Identities=15%  Similarity=0.126  Sum_probs=40.3

Q ss_pred             eEEEEecCCCCCchh--hhHHHHHHHHHhcC-CCCcEEEEEecCCCCHHHHHHhh
Q 032030           92 DLLVINKTDLASAIG--ADLAVMERDALRMR-DGGPFIFAQVGWVIGIIFTLSIT  143 (148)
Q Consensus        92 DivViNK~DL~~~~~--~~l~~~~~~i~~~n-p~a~vi~tSa~~g~gi~~l~~~~  143 (148)
                      -+++-||+||..+-.  ++.+.+.++++.-+ .++|++++||.-+.+++-+.+++
T Consensus       182 iiilQNKiDli~e~~A~eq~e~I~kFi~~t~ae~aPiiPisAQlkyNId~v~eyi  236 (466)
T KOG0466|consen  182 IIILQNKIDLIKESQALEQHEQIQKFIQGTVAEGAPIIPISAQLKYNIDVVCEYI  236 (466)
T ss_pred             EEEEechhhhhhHHHHHHHHHHHHHHHhccccCCCceeeehhhhccChHHHHHHH
Confidence            367889999988611  23456778887544 67899999999999999998864

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

Probab=94.98  E-value=0.025  Score=42.06  Aligned_cols=51  Identities=20%  Similarity=0.031  Sum_probs=39.0

Q ss_pred             eEEEEecCCCCCchhhhH--HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhhh
Q 032030           92 DLLVINKTDLASAIGADL--AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHYI  146 (148)
Q Consensus        92 DivViNK~DL~~~~~~~l--~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~~  146 (148)
                      .++|.||+|+-++  ..+  ++.+..+.++.  -+.|.+|||.+.+++.+|+.+.-+
T Consensus       129 vilvgnKCDmd~e--Rvis~e~g~~l~~~LG--fefFEtSaK~NinVk~~Fe~lv~~  181 (193)
T KOG0093|consen  129 VILVGNKCDMDSE--RVISHERGRQLADQLG--FEFFETSAKENINVKQVFERLVDI  181 (193)
T ss_pred             EEEEecccCCccc--eeeeHHHHHHHHHHhC--hHHhhhcccccccHHHHHHHHHHH
Confidence            6899999999876  332  45556665443  488999999999999999887543

>COG1084 Predicted GTPase [General function prediction only]

Probab=94.96  E-value=0.037  Score=45.79  Aligned_cols=96  Identities=18%  Similarity=0.090  Sum_probs=61.5

Q ss_pred             CCEEEEecCCcee-e-ee--------e--ccccCceEEEEEeCCCCCCccc-----cC---CCCcceeeEEEEecCCCCC
Q 032030           44 ADLLLCESGGDNL-A-AN--------F--SRELADYIIYIIDVSGGDKIPR-----KG---GPGITQADLLVINKTDLAS  103 (148)
Q Consensus        44 ~D~IliEtsG~~~-~-~~--------~--~~~~~d~~i~vvDa~~~~~~~~-----~~---~~qi~~ADivViNK~DL~~  103 (148)
                      +-|=+|.|.|+.. + +.        .  -.++.+.+++++|++..-....     ++   .+-+..--++|+||+|+++
T Consensus       215 ~R~QvIDTPGlLDRPl~ErN~IE~qAi~AL~hl~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f~~p~v~V~nK~D~~~  294 (346)
T COG1084         215 LRIQVIDTPGLLDRPLEERNEIERQAILALRHLAGVILFLFDPSETCGYSLEEQISLLEEIKELFKAPIVVVINKIDIAD  294 (346)
T ss_pred             ceEEEecCCcccCCChHHhcHHHHHHHHHHHHhcCeEEEEEcCccccCCCHHHHHHHHHHHHHhcCCCeEEEEecccccc
Confidence            3566889999853 1 00        0  1357888999999986533211     11   1123322689999999999


Q ss_pred             chhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHh
Q 032030          104 AIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSI  142 (148)
Q Consensus       104 ~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~  142 (148)
                      .  +.+++++..+....-. .....++.++.+.+.+-..
T Consensus       295 ~--e~~~~~~~~~~~~~~~-~~~~~~~~~~~~~d~~~~~  330 (346)
T COG1084         295 E--EKLEEIEASVLEEGGE-EPLKISATKGCGLDKLREE  330 (346)
T ss_pred             h--hHHHHHHHHHHhhccc-cccceeeeehhhHHHHHHH
Confidence            8  8888888776543322 2356677778888876544

>TIGR00484 EF-G translation elongation factor EF-G

Probab=94.90  E-value=0.054  Score=48.77  Aligned_cols=87  Identities=11%  Similarity=0.055  Sum_probs=53.1

Q ss_pred             CCCEEEEecCCceeee-ee--ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhHHHHH
Q 032030           43 KADLLLCESGGDNLAA-NF--SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADLAVME  113 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~-~~--~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~  113 (148)
                      +.-+.++.|.|..... ..  .-...|..++|+|+..+...+.      ....+++  -++++||+|+...  . .+++.
T Consensus        74 ~~~i~liDTPG~~~~~~~~~~~l~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~~p--~ivviNK~D~~~~--~-~~~~~  148 (689)
T TIGR00484        74 GHRINIIDTPGHVDFTVEVERSLRVLDGAVAVLDAVGGVQPQSETVWRQANRYEVP--RIAFVNKMDKTGA--N-FLRVV  148 (689)
T ss_pred             CeEEEEEECCCCcchhHHHHHHHHHhCEEEEEEeCCCCCChhHHHHHHHHHHcCCC--EEEEEECCCCCCC--C-HHHHH
Confidence            4567888888875310 00  1135688999999987643211      1122455  5899999999865  3 34444


Q ss_pred             HHHHhc---CCCCcEEEEEecCCC
Q 032030          114 RDALRM---RDGGPFIFAQVGWVI  134 (148)
Q Consensus       114 ~~i~~~---np~a~vi~tSa~~g~  134 (148)
                      +.+++.   ++...+++.|+++++
T Consensus       149 ~~i~~~l~~~~~~~~ipis~~~~~  172 (689)
T TIGR00484       149 NQIKQRLGANAVPIQLPIGAEDNF  172 (689)
T ss_pred             HHHHHHhCCCceeEEeccccCCCc
Confidence            444433   333457888887664

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.

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

Probab=94.80  E-value=0.02  Score=42.71  Aligned_cols=50  Identities=16%  Similarity=0.060  Sum_probs=36.1

Q ss_pred             eEEEEecCCCCCchhhhHH-HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030           92 DLLVINKTDLASAIGADLA-VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus        92 DivViNK~DL~~~~~~~l~-~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      -++|.||+|+.+.  .++. ++-+...+. .+.-.+.|||++..+++.||..++
T Consensus       115 kilvgnk~d~~dr--revp~qigeefs~~-qdmyfletsakea~nve~lf~~~a  165 (213)
T KOG0095|consen  115 KILVGNKIDLADR--REVPQQIGEEFSEA-QDMYFLETSAKEADNVEKLFLDLA  165 (213)
T ss_pred             EEeeccccchhhh--hhhhHHHHHHHHHh-hhhhhhhhcccchhhHHHHHHHHH
Confidence            4999999999887  5543 333333332 344567899999999999997765

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

Probab=94.79  E-value=0.048  Score=41.25  Aligned_cols=49  Identities=22%  Similarity=0.164  Sum_probs=36.8

Q ss_pred             eEEEEecCCCCCchhhhH--HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030           92 DLLVINKTDLASAIGADL--AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus        92 DivViNK~DL~~~~~~~l--~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      =++|..|+||.+.  .++  ++.++..+  .-+...+.|||++|.|+++-|..++
T Consensus       119 FlLVGhKsDL~Sq--RqVt~EEaEklAa--~hgM~FVETSak~g~NVeEAF~mla  169 (213)
T KOG0091|consen  119 FLLVGHKSDLQSQ--RQVTAEEAEKLAA--SHGMAFVETSAKNGCNVEEAFDMLA  169 (213)
T ss_pred             EEEeccccchhhh--ccccHHHHHHHHH--hcCceEEEecccCCCcHHHHHHHHH
Confidence            3788999999887  544  23444443  4567899999999999999887665

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=94.77  E-value=0.13  Score=45.18  Aligned_cols=59  Identities=17%  Similarity=0.146  Sum_probs=36.2

Q ss_pred             CCCEEEEecCCceee-e-ee-ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCC
Q 032030           43 KADLLLCESGGDNLA-A-NF-SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLAS  103 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-~-~~-~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~  103 (148)
                      +..+-++.|.|.... . +. .-..+|..++|+|+..+...+.      .....++  -++++||+|+..
T Consensus        78 ~~~inliDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~~~~iP--iiv~iNK~D~~~  145 (526)
T PRK00741         78 DCLINLLDTPGHEDFSEDTYRTLTAVDSALMVIDAAKGVEPQTRKLMEVCRLRDTP--IFTFINKLDRDG  145 (526)
T ss_pred             CEEEEEEECCCchhhHHHHHHHHHHCCEEEEEEecCCCCCHHHHHHHHHHHhcCCC--EEEEEECCcccc
Confidence            455777888885321 0 00 0125788999999987643210      0112455  699999999865

>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=94.73  E-value=0.013  Score=44.91  Aligned_cols=52  Identities=17%  Similarity=0.206  Sum_probs=39.9

Q ss_pred             CcceeeEEEEecCCCCCchhhhHH--HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030           87 GITQADLLVINKTDLASAIGADLA--VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus        87 qi~~ADivViNK~DL~~~~~~~l~--~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .||  -++|-||+||++.  ....  .++...+.++  .+++++|+++..|+...|.+++
T Consensus       124 ~IP--tV~vqNKIDlved--s~~~~~evE~lak~l~--~RlyRtSvked~NV~~vF~YLa  177 (246)
T KOG4252|consen  124 RIP--TVFVQNKIDLVED--SQMDKGEVEGLAKKLH--KRLYRTSVKEDFNVMHVFAYLA  177 (246)
T ss_pred             cCC--eEEeeccchhhHh--hhcchHHHHHHHHHhh--hhhhhhhhhhhhhhHHHHHHHH
Confidence            567  7999999999987  5443  3445555444  5779999999999999998875

>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=94.68  E-value=0.036  Score=43.65  Aligned_cols=99  Identities=16%  Similarity=0.087  Sum_probs=47.7

Q ss_pred             CCCEEEEecCCcee-----------eeeeccccCceEEEEEeCCCCCCcccc-----------CCCCcceeeEEEEecCC
Q 032030           43 KADLLLCESGGDNL-----------AANFSRELADYIIYIIDVSGGDKIPRK-----------GGPGITQADLLVINKTD  100 (148)
Q Consensus        43 ~~D~IliEtsG~~~-----------~~~~~~~~~d~~i~vvDa~~~~~~~~~-----------~~~qi~~ADivViNK~D  100 (148)
                      +-+++++-|.|=.-           ...+.....-..++++|+....+....           .+-.+|  -+.|+||+|
T Consensus        90 ~~~y~l~DtPGQiElf~~~~~~~~i~~~L~~~~~~~~v~LvD~~~~~~~~~f~s~~L~s~s~~~~~~lP--~vnvlsK~D  167 (238)
T PF03029_consen   90 EDDYLLFDTPGQIELFTHSDSGRKIVERLQKNGRLVVVFLVDSSFCSDPSKFVSSLLLSLSIMLRLELP--HVNVLSKID  167 (238)
T ss_dssp             H-SEEEEE--SSHHHHHHSHHHHHHHHTSSS----EEEEEE-GGG-SSHHHHHHHHHHHHHHHHHHTSE--EEEEE--GG
T ss_pred             CCcEEEEeCCCCEEEEEechhHHHHHHHHhhhcceEEEEEEecccccChhhHHHHHHHHHHHHhhCCCC--EEEeeeccC
Confidence            34999999999421           011111122335999998765431110           011344  799999999


Q ss_pred             CCCch-h---------hhH--------H----HHHHHHHhcCCCC-cEEEEEecCCCCHHHHHHhhh
Q 032030          101 LASAI-G---------ADL--------A----VMERDALRMRDGG-PFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       101 L~~~~-~---------~~l--------~----~~~~~i~~~np~a-~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +.++. .         ..+        .    .+.+.+... ... ++++.|++++.|+++|+..+.
T Consensus       168 l~~~~~~~~l~~~~d~~~l~~~~~~~~~~l~~~i~~~l~~~-~~~~~f~pls~~~~~~~~~L~~~id  233 (238)
T PF03029_consen  168 LLSKYLEFILEWFEDPDSLEDLLESDYKKLNEEIAELLDDF-GLVIRFIPLSSKDGEGMEELLAAID  233 (238)
T ss_dssp             GS-HHHHHHHHHHHSHHHHHHHHHT-HHHHHHHHHHHCCCC-SSS---EE-BTTTTTTHHHHHHHHH
T ss_pred             cccchhHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHhhc-CCCceEEEEECCChHHHHHHHHHHH
Confidence            99820 0         000        1    222222222 334 899999999999999998764

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PRK12739 elongation factor G; Reviewed

Probab=94.62  E-value=0.057  Score=48.65  Aligned_cols=87  Identities=11%  Similarity=-0.008  Sum_probs=52.5

Q ss_pred             CCCEEEEecCCceee--eee-ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhHHHHH
Q 032030           43 KADLLLCESGGDNLA--ANF-SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADLAVME  113 (148)
Q Consensus        43 ~~D~IliEtsG~~~~--~~~-~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~  113 (148)
                      +..+.++.|.|....  ... .-..+|..++|+|+..+...+.      ....+++  -++++||+|+.+.  . ...+.
T Consensus        72 ~~~i~liDTPG~~~f~~e~~~al~~~D~~ilVvDa~~g~~~qt~~i~~~~~~~~~p--~iv~iNK~D~~~~--~-~~~~~  146 (691)
T PRK12739         72 GHRINIIDTPGHVDFTIEVERSLRVLDGAVAVFDAVSGVEPQSETVWRQADKYGVP--RIVFVNKMDRIGA--D-FFRSV  146 (691)
T ss_pred             CEEEEEEcCCCHHHHHHHHHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHHcCCC--EEEEEECCCCCCC--C-HHHHH
Confidence            456778888885311  111 1135688999999988754211      1123455  4899999999865  3 44444


Q ss_pred             HHHHhcC---CCCcEEEEEecCCC
Q 032030          114 RDALRMR---DGGPFIFAQVGWVI  134 (148)
Q Consensus       114 ~~i~~~n---p~a~vi~tSa~~g~  134 (148)
                      +.+++..   +...++++|+.+++
T Consensus       147 ~~i~~~l~~~~~~~~iPis~~~~f  170 (691)
T PRK12739        147 EQIKDRLGANAVPIQLPIGAEDDF  170 (691)
T ss_pred             HHHHHHhCCCceeEEecccccccc
Confidence            5554433   33456778887654

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

Probab=94.56  E-value=0.018  Score=42.18  Aligned_cols=75  Identities=20%  Similarity=0.121  Sum_probs=44.5

Q ss_pred             cCceEEEEEeCCCCC---CccccCC-----CCcceeeEEEEecCCCCCchhhhH--HHHHHHHHhcCCCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGD---KIPRKGG-----PGITQADLLVINKTDLASAIGADL--AVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~---~~~~~~~-----~qi~~ADivViNK~DL~~~~~~~l--~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      .+|..+.+.|..+.-   ..+....     .+=..|-.++.||+|++.+  ..+  +.-++..++  -+.|+..|||+||
T Consensus        70 da~allllydiankasfdn~~~wlsei~ey~k~~v~l~llgnk~d~a~e--r~v~~ddg~kla~~--y~ipfmetsaktg  145 (192)
T KOG0083|consen   70 DADALLLLYDIANKASFDNCQAWLSEIHEYAKEAVALMLLGNKCDLAHE--RAVKRDDGEKLAEA--YGIPFMETSAKTG  145 (192)
T ss_pred             ccceeeeeeecccchhHHHHHHHHHHHHHHHHhhHhHhhhccccccchh--hccccchHHHHHHH--HCCCceecccccc
Confidence            467778888876542   2222111     1334446789999999874  211  122222222  2368899999999


Q ss_pred             CCHHHHHHh
Q 032030          134 IGIIFTLSI  142 (148)
Q Consensus       134 ~gi~~l~~~  142 (148)
                      .+++.-|-.
T Consensus       146 ~nvd~af~~  154 (192)
T KOG0083|consen  146 FNVDLAFLA  154 (192)
T ss_pred             ccHhHHHHH
Confidence            999865543

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

Probab=94.24  E-value=0.085  Score=39.81  Aligned_cols=49  Identities=18%  Similarity=0.116  Sum_probs=34.2

Q ss_pred             e-EEEEecCCCCCchhhhHH--HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030           92 D-LLVINKTDLASAIGADLA--VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus        92 D-ivViNK~DL~~~~~~~l~--~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      | ++..||+||.+.  ..+.  +..+..+  .-+.|.|.|||-+|.++++-++.+.
T Consensus       126 DivlcGNK~DL~~~--R~Vs~~qa~~La~--kyglPYfETSA~tg~Nv~kave~Ll  177 (219)
T KOG0081|consen  126 DIVLCGNKADLEDQ--RVVSEDQAAALAD--KYGLPYFETSACTGTNVEKAVELLL  177 (219)
T ss_pred             CEEEEcCccchhhh--hhhhHHHHHHHHH--HhCCCeeeeccccCcCHHHHHHHHH
Confidence            5 556799999876  4432  2333333  2357999999999999998776553

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

Probab=94.23  E-value=0.19  Score=38.23  Aligned_cols=78  Identities=21%  Similarity=0.218  Sum_probs=48.8

Q ss_pred             CceEEEEEeCCCCCCccc-------c-CCCCccee-eEEEEecCCCCCchhhhHHHHHHHH--HhcCCC-CcEEEEEecC
Q 032030           65 ADYIIYIIDVSGGDKIPR-------K-GGPGITQA-DLLVINKTDLASAIGADLAVMERDA--LRMRDG-GPFIFAQVGW  132 (148)
Q Consensus        65 ~d~~i~vvDa~~~~~~~~-------~-~~~qi~~A-DivViNK~DL~~~~~~~l~~~~~~i--~~~np~-a~vi~tSa~~  132 (148)
                      .+.+|+|||....+.+..       . ..+.+..| -++.-||-|+...+.  ..++.+.+  +++.++ -.+..++|.+
T Consensus        85 t~~lIfVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~als--~~ei~~~L~l~~l~~~~w~iq~~~a~~  162 (181)
T KOG0070|consen   85 TQGLIFVVDSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQDLPGALS--AAEITNKLGLHSLRSRNWHIQSTCAIS  162 (181)
T ss_pred             CcEEEEEEeCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechhhccccCC--HHHHHhHhhhhccCCCCcEEeeccccc
Confidence            355699999987654211       0 11122222 477889999987633  23333333  233333 3678899999


Q ss_pred             CCCHHHHHHhhh
Q 032030          133 VIGIIFTLSITH  144 (148)
Q Consensus       133 g~gi~~l~~~~~  144 (148)
                      |+|+.|-++|+.
T Consensus       163 G~GL~egl~wl~  174 (181)
T KOG0070|consen  163 GEGLYEGLDWLS  174 (181)
T ss_pred             cccHHHHHHHHH
Confidence            999999998874

>PRK09602 translation-associated GTPase; Reviewed

Probab=94.21  E-value=0.068  Score=45.21  Aligned_cols=41  Identities=15%  Similarity=0.052  Sum_probs=29.6

Q ss_pred             eEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHH
Q 032030           92 DLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIF  138 (148)
Q Consensus        92 DivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~  138 (148)
                      -++|+||+|+.+.  .+  .+. .+.+. +..+++++||+.+.++++
T Consensus       220 vI~VlNK~D~~~~--~~--~l~-~i~~~-~~~~vvpISA~~e~~l~~  260 (396)
T PRK09602        220 MVIAANKADLPPA--EE--NIE-RLKEE-KYYIVVPTSAEAELALRR  260 (396)
T ss_pred             EEEEEEchhcccc--hH--HHH-HHHhc-CCCcEEEEcchhhhhHHH
Confidence            5799999998753  22  122 22222 677899999999999988

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=93.97  E-value=0.055  Score=42.83  Aligned_cols=91  Identities=18%  Similarity=0.149  Sum_probs=51.9

Q ss_pred             CCCEEEEecCCceee--eee-ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhHHHHH
Q 032030           43 KADLLLCESGGDNLA--ANF-SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADLAVME  113 (148)
Q Consensus        43 ~~D~IliEtsG~~~~--~~~-~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~  113 (148)
                      +.++.++.|.|..-.  ... .-..+|.+++|+|+..+.....      .....++  -++++||+|+...   ..+...
T Consensus        63 ~~~i~liDtPG~~~f~~~~~~~l~~aD~~i~Vvd~~~g~~~~~~~~~~~~~~~~~p--~iivvNK~D~~~~---~~~~~~  137 (268)
T cd04170          63 GHKINLIDTPGYADFVGETRAALRAADAALVVVSAQSGVEVGTEKLWEFADEAGIP--RIIFINKMDRERA---DFDKTL  137 (268)
T ss_pred             CEEEEEEECcCHHHHHHHHHHHHHHCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCC--EEEEEECCccCCC---CHHHHH
Confidence            567888999986410  000 0135789999999988754211      0112344  6899999999865   334445


Q ss_pred             HHHHhcCCCCcEEEEE--ecCCCCHHHH
Q 032030          114 RDALRMRDGGPFIFAQ--VGWVIGIIFT  139 (148)
Q Consensus       114 ~~i~~~np~a~vi~tS--a~~g~gi~~l  139 (148)
                      +.+++... .++++++  .++|.++..+
T Consensus       138 ~~l~~~~~-~~~~~~~ip~~~~~~~~~~  164 (268)
T cd04170         138 AALQEAFG-RPVVPLQLPIGEGDDFKGV  164 (268)
T ss_pred             HHHHHHhC-CCeEEEEecccCCCceeEE
Confidence            55554332 2344443  4555554433

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

>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]

Probab=93.86  E-value=0.11  Score=47.46  Aligned_cols=99  Identities=15%  Similarity=0.093  Sum_probs=59.5

Q ss_pred             CCCEEEEecCCceee---eeeccccCceEEEEEeCCCCCCcccc------CCCCcceeeEEEEecCCCCC----------
Q 032030           43 KADLLLCESGGDNLA---ANFSRELADYIIYIIDVSGGDKIPRK------GGPGITQADLLVINKTDLAS----------  103 (148)
Q Consensus        43 ~~D~IliEtsG~~~~---~~~~~~~~d~~i~vvDa~~~~~~~~~------~~~qi~~ADivViNK~DL~~----------  103 (148)
                      -|-.++|-|.|---.   -+....+.|+.|.|||..+|.+.+..      .....+  =+|.+||+|+.=          
T Consensus       539 vPg~lvIdtpghEsFtnlRsrgsslC~~aIlvvdImhGlepqtiESi~lLR~rktp--FivALNKiDRLYgwk~~p~~~i  616 (1064)
T KOG1144|consen  539 VPGLLVIDTPGHESFTNLRSRGSSLCDLAILVVDIMHGLEPQTIESINLLRMRKTP--FIVALNKIDRLYGWKSCPNAPI  616 (1064)
T ss_pred             CCeeEEecCCCchhhhhhhhccccccceEEEEeehhccCCcchhHHHHHHHhcCCC--eEEeehhhhhhcccccCCCchH
Confidence            477899999994211   11223578999999999999654321      112345  378999999621          


Q ss_pred             -------------chhhhHHHHHHHHH--hcC-----------CCCcEEEEEecCCCCHHHHHHhh
Q 032030          104 -------------AIGADLAVMERDAL--RMR-----------DGGPFIFAQVGWVIGIIFTLSIT  143 (148)
Q Consensus       104 -------------~~~~~l~~~~~~i~--~~n-----------p~a~vi~tSa~~g~gi~~l~~~~  143 (148)
                                   +|...+..+.-.+.  .+|           ...-++||||.+|+|+..|+-++
T Consensus       617 ~~~lkkQ~k~v~~EF~~R~~~ii~efaEQgLN~~LyykNk~~~~~vsiVPTSA~sGeGipdLl~ll  682 (1064)
T KOG1144|consen  617 VEALKKQKKDVQNEFKERLNNIIVEFAEQGLNAELYYKNKEMGETVSIVPTSAISGEGIPDLLLLL  682 (1064)
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHHHHHHHcccchhheeecccccceEEeeecccccCCCcHHHHHHH
Confidence                         00011111111111  111           12467999999999999997655

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

Probab=93.23  E-value=0.1  Score=40.65  Aligned_cols=48  Identities=19%  Similarity=0.023  Sum_probs=34.5

Q ss_pred             eEEEEecCCCCCchhhh--HHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhh
Q 032030           92 DLLVINKTDLASAIGAD--LAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSIT  143 (148)
Q Consensus        92 DivViNK~DL~~~~~~~--l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~  143 (148)
                      -.+|.||+||...  ..  .+......+  .....++.|||+.+.++++.|+.+
T Consensus       122 imLvGNK~DL~~l--raV~te~~k~~Ae--~~~l~f~EtSAl~~tNVe~aF~~~  171 (222)
T KOG0087|consen  122 IMLVGNKSDLNHL--RAVPTEDGKAFAE--KEGLFFLETSALDATNVEKAFERV  171 (222)
T ss_pred             EEEeecchhhhhc--cccchhhhHhHHH--hcCceEEEecccccccHHHHHHHH
Confidence            5889999999763  11  123333333  455788999999999999988655

>KOG2485 consensus Conserved ATP/GTP binding protein [General function prediction only]

Probab=93.01  E-value=0.15  Score=41.97  Aligned_cols=79  Identities=18%  Similarity=0.068  Sum_probs=47.4

Q ss_pred             ccCceEEEEEeCCCCCC-----ccccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEE-EEecCCCCH
Q 032030           63 ELADYIIYIIDVSGGDK-----IPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIF-AQVGWVIGI  136 (148)
Q Consensus        63 ~~~d~~i~vvDa~~~~~-----~~~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~-tSa~~g~gi  136 (148)
                      ...|.+|-|-||.-+..     ++...+..-   -+||+||.||+++  .+...+.+.++..+-.-.++. ++.....++
T Consensus        45 ~~~D~iiEvrDaRiPLssrn~~~~~~~~~k~---riiVlNK~DLad~--~~~k~~iq~~~~~~~~~~~~~~c~~~~~~~v  119 (335)
T KOG2485|consen   45 PLVDCIIEVRDARIPLSSRNELFQDFLPPKP---RIIVLNKMDLADP--KEQKKIIQYLEWQNLESYIKLDCNKDCNKQV  119 (335)
T ss_pred             ccccEEEEeeccccCCccccHHHHHhcCCCc---eEEEEecccccCc--hhhhHHHHHHHhhcccchhhhhhhhhhhhcc
Confidence            36789999999865422     122222222   4999999999998  777788888776543332222 222223346


Q ss_pred             HHHHHhhhhh
Q 032030          137 IFTLSITHYI  146 (148)
Q Consensus       137 ~~l~~~~~~~  146 (148)
                      ..++..+.++
T Consensus       120 ~~l~~il~~~  129 (335)
T KOG2485|consen  120 SPLLKILTIL  129 (335)
T ss_pred             ccHHHHHHHH
Confidence            6666555443

>PF08438 MMR_HSR1_C: GTPase of unknown function C-terminal; InterPro: IPR013646 This domain is found at the C terminus of IPR002917 from INTERPRO in archaeal and eukaryotic GTP-binding proteins

Probab=92.62  E-value=0.085  Score=36.94  Aligned_cols=32  Identities=19%  Similarity=0.249  Sum_probs=18.3

Q ss_pred             EEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEec
Q 032030           95 VINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVG  131 (148)
Q Consensus        95 ViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~  131 (148)
                      +.||+|+... .+.+++    +++..|+.+++++||.
T Consensus         1 AaNK~D~~~a-~~ni~k----l~~~~~~~~vVp~SA~   32 (109)
T PF08438_consen    1 AANKADLPAA-DENIEK----LKEKYPDEPVVPTSAA   32 (109)
T ss_dssp             EEE-GGG-S--HHHHHH----HHHHHTT-EEEEE-HH
T ss_pred             CCcccccccc-HhHHHH----HHHhCCCCceeeccHH
Confidence            5799998433 144444    4444588999999996

; PDB: 1WXQ_A.

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

Probab=92.44  E-value=0.21  Score=37.01  Aligned_cols=47  Identities=21%  Similarity=0.081  Sum_probs=33.5

Q ss_pred             eEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHH
Q 032030           92 DLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTL  140 (148)
Q Consensus        92 DivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~  140 (148)
                      -+++.||.||-++-+-..++..++.+  ..+.-++..||++|.+++.-|
T Consensus       119 i~lignkadle~qrdv~yeeak~fae--engl~fle~saktg~nvedaf  165 (215)
T KOG0097|consen  119 IFLIGNKADLESQRDVTYEEAKEFAE--ENGLMFLEASAKTGQNVEDAF  165 (215)
T ss_pred             EEEecchhhhhhcccCcHHHHHHHHh--hcCeEEEEecccccCcHHHHH
Confidence            57889999997762222245555554  355678899999999998765

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

Probab=92.01  E-value=0.34  Score=35.86  Aligned_cols=75  Identities=19%  Similarity=0.120  Sum_probs=48.4

Q ss_pred             EEEEEeCCCCCCccc--------cCCCCcceee-EEEEecCCCCCchhhhHHHHHHHHH---hcCCCCcEEEEEecCCCC
Q 032030           68 IIYIIDVSGGDKIPR--------KGGPGITQAD-LLVINKTDLASAIGADLAVMERDAL---RMRDGGPFIFAQVGWVIG  135 (148)
Q Consensus        68 ~i~vvDa~~~~~~~~--------~~~~qi~~AD-ivViNK~DL~~~~~~~l~~~~~~i~---~~np~a~vi~tSa~~g~g  135 (148)
                      +|+|+|+...+++..        ...+++..+- +|+-||-|+.++  -.-.++..+++   ..+..=-+.+++|.+|.|
T Consensus        88 lIFV~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~A--~~pqei~d~leLe~~r~~~W~vqp~~a~~gdg  165 (180)
T KOG0071|consen   88 LIFVVDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLPDA--MKPQEIQDKLELERIRDRNWYVQPSCALSGDG  165 (180)
T ss_pred             EEEEEeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCcccccc--cCHHHHHHHhccccccCCccEeeccccccchh
Confidence            499999877655311        1223555444 566799999887  44445554442   112223578999999999


Q ss_pred             HHHHHHhhh
Q 032030          136 IIFTLSITH  144 (148)
Q Consensus       136 i~~l~~~~~  144 (148)
                      +.+=+.|+.
T Consensus       166 L~eglswls  174 (180)
T KOG0071|consen  166 LKEGLSWLS  174 (180)
T ss_pred             HHHHHHHHH
Confidence            988887763

>KOG0460 consensus Mitochondrial translation elongation factor Tu [Translation, ribosomal structure and biogenesis]

Probab=90.83  E-value=0.41  Score=40.30  Aligned_cols=62  Identities=19%  Similarity=0.244  Sum_probs=39.2

Q ss_pred             EEEEEeCCCCCCccc----cCCCCcceee-EEEEecCCCC-CchhhhHHHHHHHHHhcC-------CCCcEEEEEec
Q 032030           68 IIYIIDVSGGDKIPR----KGGPGITQAD-LLVINKTDLA-SAIGADLAVMERDALRMR-------DGGPFIFAQVG  131 (148)
Q Consensus        68 ~i~vvDa~~~~~~~~----~~~~qi~~AD-ivViNK~DL~-~~~~~~l~~~~~~i~~~n-------p~a~vi~tSa~  131 (148)
                      .|.||.+..|+.-+.    ++..|+-.-+ ++.+||+|++ ++  +.++-++-.+|++.       ...||+.-||+
T Consensus       144 aILVVaatDG~MPQTrEHlLLArQVGV~~ivvfiNKvD~V~d~--e~leLVEmE~RElLse~gf~Gd~~PvI~GSAL  218 (449)
T KOG0460|consen  144 AILVVAATDGPMPQTREHLLLARQVGVKHIVVFINKVDLVDDP--EMLELVEMEIRELLSEFGFDGDNTPVIRGSAL  218 (449)
T ss_pred             eEEEEEcCCCCCcchHHHHHHHHHcCCceEEEEEecccccCCH--HHHHHHHHHHHHHHHHcCCCCCCCCeeecchh
Confidence            488899988854321    1122332223 6779999999 55  66666665555432       45799998875

>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=90.44  E-value=0.56  Score=34.30  Aligned_cols=63  Identities=13%  Similarity=0.190  Sum_probs=39.4

Q ss_pred             hcCCCEEEEecCCceee-----ee---ecc-ccCceEEEEEeCCCCCCccc---cCCCCcceeeEEEEecCCCCCc
Q 032030           41 LFKADLLLCESGGDNLA-----AN---FSR-ELADYIIYIIDVSGGDKIPR---KGGPGITQADLLVINKTDLASA  104 (148)
Q Consensus        41 ~~~~D~IliEtsG~~~~-----~~---~~~-~~~d~~i~vvDa~~~~~~~~---~~~~qi~~ADivViNK~DL~~~  104 (148)
                      ..++|+|+|++.|....     ..   +.+ ...+..++|+|+....+...   .+..+.. .+.+++||.|....
T Consensus        80 ~~~~d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~~~~~~~~~~~~~~~~~~-~~~viltk~D~~~~  154 (173)
T cd03115          80 EENFDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTGQDAVNQAKAFNEALG-ITGVILTKLDGDAR  154 (173)
T ss_pred             hCCCCEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECCCChHHHHHHHHHHhhCC-CCEEEEECCcCCCC
Confidence            45899999999998521     11   111 12577799999865433211   1111223 47999999998876

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.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=90.11  E-value=1.4  Score=37.84  Aligned_cols=89  Identities=19%  Similarity=0.219  Sum_probs=52.1

Q ss_pred             cCCCEEEEecCCceee-----eee----ccccCceEEEEEeCCCCCCc---cccCCCCcceeeEEEEecCCCCCchhhhH
Q 032030           42 FKADLLLCESGGDNLA-----ANF----SRELADYIIYIIDVSGGDKI---PRKGGPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        42 ~~~D~IliEtsG~~~~-----~~~----~~~~~d~~i~vvDa~~~~~~---~~~~~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      .++|+|||.|.|-...     ..+    .....+.+++|+|+..+.+.   ...+...+ .-+-+++||.|.....+.-+
T Consensus       181 ~~~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~Gq~a~~~a~~F~~~~-~~~g~IlTKlD~~argG~aL  259 (429)
T TIGR01425       181 ENFDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAAEAQAKAFKDSV-DVGSVIITKLDGHAKGGGAL  259 (429)
T ss_pred             CCCCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccChhHHHHHHHHHhcc-CCcEEEEECccCCCCccHHh
Confidence            4899999999997532     111    01123567999999877432   11121111 12689999999876533332


Q ss_pred             HHHHHHHHhcCCCCcEEEEEecCCCCHHHH
Q 032030          110 AVMERDALRMRDGGPFIFAQVGWVIGIIFT  139 (148)
Q Consensus       110 ~~~~~~i~~~np~a~vi~tSa~~g~gi~~l  139 (148)
                      ..    ...  -+.||.+++  +|+.++.+
T Consensus       260 s~----~~~--t~~PI~fig--~Ge~v~Dl  281 (429)
T TIGR01425       260 SA----VAA--TKSPIIFIG--TGEHIDDF  281 (429)
T ss_pred             hh----HHH--HCCCeEEEc--CCCChhhc
Confidence            22    221  346777777  46777665

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.

>PF02606 LpxK: Tetraacyldisaccharide-1-P 4'-kinase; InterPro: IPR003758 Tetraacyldisaccharide 4'-kinase phosphorylates the 4'-position of a tetraacyldisaccharide 1-phosphate precursor (DS-1-P) of lipid A, but the enzyme has not yet been purified because of instability []

Probab=90.02  E-value=2.7  Score=34.70  Aligned_cols=64  Identities=19%  Similarity=0.278  Sum_probs=40.1

Q ss_pred             HHHHhhhhcCCCEEEEecCCceeeeee-c-cccCceEEEEEeCCCCCC----ccc-cC---CCCcceeeEEEEecCCCCC
Q 032030           34 PLEELSNLFKADLLLCESGGDNLAANF-S-RELADYIIYIIDVSGGDK----IPR-KG---GPGITQADLLVINKTDLAS  103 (148)
Q Consensus        34 al~~l~~~~~~D~IliEtsG~~~~~~~-~-~~~~d~~i~vvDa~~~~~----~~~-~~---~~qi~~ADivViNK~DL~~  103 (148)
                      +...+.++.++|+|+..       .-| + ....|+-|+++|+.++..    +|. .+   ...+..||++++||.+...
T Consensus       119 ~~~~~~~~~~~dviilD-------DGfQh~~L~rDl~Ivl~D~~~~~gng~lLPaG~LREp~~~l~rAD~vi~~~~~~~~  191 (326)
T PF02606_consen  119 AARAALKEFPADVIILD-------DGFQHRRLKRDLDIVLVDADRPFGNGFLLPAGPLREPLSALKRADAVIVTGCDASD  191 (326)
T ss_pred             HHHHHHHHCCCCEEEEc-------CCcccccccCCcEEEEEeCCCCCcCCccCCCCcccCChhHhCcccEEEEcCCCcch
Confidence            44445555568877732       112 1 123577799999866532    233 11   2379999999999999865


Q ss_pred             c
Q 032030          104 A  104 (148)
Q Consensus       104 ~  104 (148)
                      .
T Consensus       192 ~  192 (326)
T PF02606_consen  192 P  192 (326)
T ss_pred             h
Confidence            5

This enzyme is involved in the synthesis of lipid A portion of the bacterial lipopolysaccharide layer (LPS).; GO: 0005524 ATP binding, 0009029 tetraacyldisaccharide 4'-kinase activity, 0009245 lipid A biosynthetic process

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

Probab=89.51  E-value=0.23  Score=37.59  Aligned_cols=51  Identities=20%  Similarity=-0.014  Sum_probs=35.8

Q ss_pred             eEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030           92 DLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus        92 DivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      -.+|.||+|.-++-.-..++-.++.|+  ..+-++.+||++.+|+..-|+.+.
T Consensus       120 kmlVgNKiDkes~R~V~reEG~kfAr~--h~~LFiE~SAkt~~~V~~~Feelv  170 (209)
T KOG0080|consen  120 KMLVGNKIDKESERVVDREEGLKFARK--HRCLFIECSAKTRENVQCCFEELV  170 (209)
T ss_pred             HhhhcccccchhcccccHHHHHHHHHh--hCcEEEEcchhhhccHHHHHHHHH
Confidence            489999999765411223345556664  446889999999999988887653

>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]

Probab=89.05  E-value=0.63  Score=40.61  Aligned_cols=82  Identities=23%  Similarity=0.137  Sum_probs=46.2

Q ss_pred             cCceEEEEEeCCCCCC---cc--ccC-----------CCCcceeeEEEEecCCCCCchhhhHHH-HHHHHH-hcCCCCcE
Q 032030           64 LADYIIYIIDVSGGDK---IP--RKG-----------GPGITQADLLVINKTDLASAIGADLAV-MERDAL-RMRDGGPF  125 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~---~~--~~~-----------~~qi~~ADivViNK~DL~~~~~~~l~~-~~~~i~-~~np~a~v  125 (148)
                      .+|++++|+||.+.+.   ..  ...           +..-..=-+++.||+|+.++... ... ...+.. ...+.-++
T Consensus       348 ~advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~~~~-~~~~~~~~~~~~~~~~~~i  426 (531)
T KOG1191|consen  348 RADVILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSKIPE-MTKIPVVYPSAEGRSVFPI  426 (531)
T ss_pred             hcCEEEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCcccc-ccCCceeccccccCcccce
Confidence            4689999999955421   10  000           00111124899999999876111 111 001111 22234444


Q ss_pred             EE-EEecCCCCHHHHHHhhhhh
Q 032030          126 IF-AQVGWVIGIIFTLSITHYI  146 (148)
Q Consensus       126 i~-tSa~~g~gi~~l~~~~~~~  146 (148)
                      +. +|++|++|++.|.+.+.=+
T Consensus       427 ~~~vs~~tkeg~~~L~~all~~  448 (531)
T KOG1191|consen  427 VVEVSCTTKEGCERLSTALLNI  448 (531)
T ss_pred             EEEeeechhhhHHHHHHHHHHH
Confidence            44 9999999999998776533

>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.01  E-value=2.3  Score=33.47  Aligned_cols=20  Identities=20%  Similarity=-0.195  Sum_probs=15.9

Q ss_pred             cEEEEEecCCCCHHHHHHhhh
Q 032030          124 PFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       124 ~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .+.++|+++| ++++|-+|+.
T Consensus       216 ~F~e~S~~~~-~i~~~~~wi~  235 (238)
T KOG0090|consen  216 TFAEASAKTG-EIDQWESWIR  235 (238)
T ss_pred             EEeecccCcC-ChHHHHHHHH
Confidence            4677888866 8999998875

>KOG2423 consensus Nucleolar GTPase [General function prediction only]

Probab=88.78  E-value=1.5  Score=37.70  Aligned_cols=75  Identities=16%  Similarity=0.086  Sum_probs=42.1

Q ss_pred             CceEEEEEeCCCCCCcc-----ccCCCCccee-eEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHH
Q 032030           65 ADYIIYIIDVSGGDKIP-----RKGGPGITQA-DLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIF  138 (148)
Q Consensus        65 ~d~~i~vvDa~~~~~~~-----~~~~~qi~~A-DivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~  138 (148)
                      .|++|-|+||..+....     ..+...-++- =+.|+||+||++-  -...+-...+.+..|...++ .|-...+|=..
T Consensus       214 SDVvvqVlDARDPmGTrc~~ve~ylkke~phKHli~vLNKvDLVPt--wvt~~Wv~~lSkeyPTiAfH-Asi~nsfGKga  290 (572)
T KOG2423|consen  214 SDVVVQVLDARDPMGTRCKHVEEYLKKEKPHKHLIYVLNKVDLVPT--WVTAKWVRHLSKEYPTIAFH-ASINNSFGKGA  290 (572)
T ss_pred             cceeEEeeeccCCcccccHHHHHHHhhcCCcceeEEEeeccccccH--HHHHHHHHHHhhhCcceeee-hhhcCccchhH
Confidence            58889999998765421     0011111111 3889999999986  44444455555666655432 33344555555


Q ss_pred             HHHh
Q 032030          139 TLSI  142 (148)
Q Consensus       139 l~~~  142 (148)
                      |++.
T Consensus       291 lI~l  294 (572)
T KOG2423|consen  291 LIQL  294 (572)
T ss_pred             HHHH
Confidence            5443

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

Probab=87.91  E-value=0.75  Score=34.91  Aligned_cols=60  Identities=22%  Similarity=0.241  Sum_probs=35.5

Q ss_pred             CCCEEEEecCCceee----eeeccccCceEEEEEeCCCCC-Cccc-------------cCCCCcceeeEEEEecCCCCCc
Q 032030           43 KADLLLCESGGDNLA----ANFSRELADYIIYIIDVSGGD-KIPR-------------KGGPGITQADLLVINKTDLASA  104 (148)
Q Consensus        43 ~~D~IliEtsG~~~~----~~~~~~~~d~~i~vvDa~~~~-~~~~-------------~~~~qi~~ADivViNK~DL~~~  104 (148)
                      +..+-++.+.|..-.    ....+...+.+|+|+|+.... ....             ...+.++  -+++.||.|+...
T Consensus        47 ~~~~~l~D~pG~~~~~~~~~~~~~~~~~~vV~VvD~~~~~~~~~~~~~~l~~il~~~~~~~~~~p--vliv~NK~Dl~~a  124 (203)
T cd04105          47 GKKFRLVDVPGHPKLRDKLLETLKNSAKGIVFVVDSATFQKNLKDVAEFLYDILTDLEKVKNKIP--VLIACNKQDLFTA  124 (203)
T ss_pred             CceEEEEECCCCHHHHHHHHHHHhccCCEEEEEEECccchhHHHHHHHHHHHHHHHHhhccCCCC--EEEEecchhhccc
Confidence            456778888885311    111111238899999998762 2100             1113444  6899999998764

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

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=87.64  E-value=0.34  Score=38.56  Aligned_cols=79  Identities=20%  Similarity=0.289  Sum_probs=43.3

Q ss_pred             cCCCeeeeeccchhhchHHHHHhhhhcCCCEEEEecC-Cceeeeeec---cccCceEEEEEeCCCCC-Cccc---cCCCC
Q 032030           16 TGGCPHAAIREDISINLGPLEELSNLFKADLLLCESG-GDNLAANFS---RELADYIIYIIDVSGGD-KIPR---KGGPG   87 (148)
Q Consensus        16 ~nGcicc~i~~dl~~~~~al~~l~~~~~~D~IliEts-G~~~~~~~~---~~~~d~~i~vvDa~~~~-~~~~---~~~~q   87 (148)
                      ..||-|-     ....++.+.+-+.....|+|++.|= |+   ..|.   ...+|.++.|+|++.-. .+..   .....
T Consensus       111 GeGC~Cp-----~~allR~~l~~l~~~~~e~VivDtEAGi---EHfgRg~~~~vD~vivVvDpS~~sl~taeri~~L~~e  182 (255)
T COG3640         111 GEGCACP-----MNALLRRLLRHLILNRYEVVIVDTEAGI---EHFGRGTIEGVDLVIVVVDPSYKSLRTAERIKELAEE  182 (255)
T ss_pred             CCcccch-----HHHHHHHHHHHHhcccCcEEEEecccch---hhhccccccCCCEEEEEeCCcHHHHHHHHHHHHHHHH
Confidence            5689884     1111333333233346999998873 32   2332   25789999999986531 1111   01111


Q ss_pred             cc-eeeEEEEecCCCC
Q 032030           88 IT-QADLLVINKTDLA  102 (148)
Q Consensus        88 i~-~ADivViNK~DL~  102 (148)
                      +. .=-.+|+||+|--
T Consensus       183 lg~k~i~~V~NKv~e~  198 (255)
T COG3640         183 LGIKRIFVVLNKVDEE  198 (255)
T ss_pred             hCCceEEEEEeeccch
Confidence            11 1147999999954

>KOG3883 consensus Ras family small GTPase [Signal transduction mechanisms]

Probab=87.27  E-value=1.6  Score=32.83  Aligned_cols=76  Identities=14%  Similarity=0.057  Sum_probs=48.5

Q ss_pred             cCceEEEEEeCCCCCCccc---------cCCCCcceeeEEEEecCCCCCchhhhHH--HHHHHHHhcCCCCcEEEEEecC
Q 032030           64 LADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADLA--VMERDALRMRDGGPFIFAQVGW  132 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~---------~~~~qi~~ADivViNK~DL~~~~~~~l~--~~~~~i~~~np~a~vi~tSa~~  132 (148)
                      .+|.++.|.++...+.++.         +....-+..-+++-||.|+..+  .+..  ....+.+  ....+.+.++|..
T Consensus        84 ~aDafVLVYs~~d~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~~p--~~vd~d~A~~Wa~--rEkvkl~eVta~d  159 (198)
T KOG3883|consen   84 FADAFVLVYSPMDPESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRAEP--REVDMDVAQIWAK--REKVKLWEVTAMD  159 (198)
T ss_pred             cCceEEEEecCCCHHHHHHHHHHHHHHhhccccccccEEEEechhhcccc--hhcCHHHHHHHHh--hhheeEEEEEecc
Confidence            5688889888876643211         2234556668999999999887  5443  3333333  4557889999987


Q ss_pred             CCCHHHHHHhh
Q 032030          133 VIGIIFTLSIT  143 (148)
Q Consensus       133 g~gi~~l~~~~  143 (148)
                      ...+-+-|-++
T Consensus       160 R~sL~epf~~l  170 (198)
T KOG3883|consen  160 RPSLYEPFTYL  170 (198)
T ss_pred             chhhhhHHHHH
Confidence            66655544433

>TIGR03172 probable selenium-dependent hydroxylase accessory protein YqeC

Probab=87.26  E-value=5.8  Score=31.26  Aligned_cols=41  Identities=17%  Similarity=0.367  Sum_probs=24.0

Q ss_pred             HHHHhhhhcCCCEEEEecCCcee-----eee---eccccCceEEEEEeC
Q 032030           34 PLEELSNLFKADLLLCESGGDNL-----AAN---FSRELADYIIYIIDV   74 (148)
Q Consensus        34 al~~l~~~~~~D~IliEtsG~~~-----~~~---~~~~~~d~~i~vvDa   74 (148)
                      .+.++.+...+|+||||+=|.--     ++.   ..|...+.+|.|+..
T Consensus        88 ~l~~l~~~~~~D~vLVEADGAk~~PlKaP~~~EPVIP~~t~~VI~V~gl  136 (232)
T TIGR03172        88 TVDDLSDFQHFDVILVEADGAKCRPLKAPSDHEPVIPKSSTTVIGVAGI  136 (232)
T ss_pred             HHHHHHhccCCCEEEEECCCcCCCcccCCCCCCCccCCCCCEEEEEeCH
Confidence            34444433347999999999731     111   124456777776654

This uncharacterized protein family includes YqeC from Escherichia coli. A phylogenetic profiling analysis shows correlation with SelD, the selenium donor protein, even in species where SelD contributes to neither selenocysteine nor selenouridine biosynthesis. Instead, this family, and families TIGR03309 and TIGR03310 appear to mark selenium-dependent molybdenum hydroxylase maturation systems.

>TIGR00503 prfC peptide chain release factor 3

Probab=87.25  E-value=1.6  Score=38.31  Aligned_cols=59  Identities=15%  Similarity=0.160  Sum_probs=36.8

Q ss_pred             CCCEEEEecCCceee-e-ee-ccccCceEEEEEeCCCCCCcc--c----cCCCCcceeeEEEEecCCCCC
Q 032030           43 KADLLLCESGGDNLA-A-NF-SRELADYIIYIIDVSGGDKIP--R----KGGPGITQADLLVINKTDLAS  103 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-~-~~-~~~~~d~~i~vvDa~~~~~~~--~----~~~~qi~~ADivViNK~DL~~  103 (148)
                      +..+.++.|.|.... . .. .-..+|..++|+|+..+...+  .    .....++  -++++||+|+..
T Consensus        79 ~~~inliDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~~~~~P--iivviNKiD~~~  146 (527)
T TIGR00503        79 DCLVNLLDTPGHEDFSEDTYRTLTAVDNCLMVIDAAKGVETRTRKLMEVTRLRDTP--IFTFMNKLDRDI  146 (527)
T ss_pred             CeEEEEEECCChhhHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHhcCCC--EEEEEECccccC
Confidence            567778888886311 1 00 013578999999998764311  0    0112345  689999999964

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.

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=87.11  E-value=2.6  Score=33.93  Aligned_cols=95  Identities=17%  Similarity=0.183  Sum_probs=54.4

Q ss_pred             HHHHHhhhhcCCCEEEEecCCceee--e------ee-ccccCceEEEEEeCCCCC-Cc---cccCCCCcceeeEEEEecC
Q 032030           33 GPLEELSNLFKADLLLCESGGDNLA--A------NF-SRELADYIIYIIDVSGGD-KI---PRKGGPGITQADLLVINKT   99 (148)
Q Consensus        33 ~al~~l~~~~~~D~IliEtsG~~~~--~------~~-~~~~~d~~i~vvDa~~~~-~~---~~~~~~qi~~ADivViNK~   99 (148)
                      +++.++....++|+|+|.|.|-...  .      .+ .....+..+.|+|+.... +.   ...+..  -.-|-++++|.
T Consensus       144 ~~l~~l~~~~~~D~ViIDt~Gr~~~~~~~l~el~~~~~~~~~~~~~LVl~a~~~~~d~~~~~~~f~~--~~~~~~I~TKl  221 (270)
T PRK06731        144 RALTYFKEEARVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKSKDMIEIITNFKD--IHIDGIVFTKF  221 (270)
T ss_pred             HHHHHHHhcCCCCEEEEECCCCCcCCHHHHHHHHHHHhhhCCCeEEEEEcCccCHHHHHHHHHHhCC--CCCCEEEEEee
Confidence            3444443334799999999997631  0      11 111234568889986543 22   112222  22379999999


Q ss_pred             CCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHH
Q 032030          100 DLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGII  137 (148)
Q Consensus       100 DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~  137 (148)
                      |-....+.-+.    ...+  -+.|+..++-  |+++.
T Consensus       222 Det~~~G~~l~----~~~~--~~~Pi~~it~--Gq~vp  251 (270)
T PRK06731        222 DETASSGELLK----IPAV--SSAPIVLMTD--GQDVK  251 (270)
T ss_pred             cCCCCccHHHH----HHHH--HCcCEEEEeC--CCCCC
Confidence            98876444322    2222  3468888774  56654

>cd04169 RF3 RF3 subfamily

Probab=87.06  E-value=2.2  Score=34.05  Aligned_cols=60  Identities=20%  Similarity=0.214  Sum_probs=37.8

Q ss_pred             CCCEEEEecCCceee--eee-ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCc
Q 032030           43 KADLLLCESGGDNLA--ANF-SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASA  104 (148)
Q Consensus        43 ~~D~IliEtsG~~~~--~~~-~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~  104 (148)
                      +..+.++.|.|....  ... .-..+|..++|+|+..+.....      ....+++  -++++||+|+...
T Consensus        70 ~~~i~liDTPG~~df~~~~~~~l~~aD~~IlVvda~~g~~~~~~~i~~~~~~~~~P--~iivvNK~D~~~a  138 (267)
T cd04169          70 DCVINLLDTPGHEDFSEDTYRTLTAVDSAVMVIDAAKGVEPQTRKLFEVCRLRGIP--IITFINKLDREGR  138 (267)
T ss_pred             CEEEEEEECCCchHHHHHHHHHHHHCCEEEEEEECCCCccHHHHHHHHHHHhcCCC--EEEEEECCccCCC
Confidence            577888899996421  011 0124788999999987643211      0112455  6899999998765

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.

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=87.00  E-value=2.8  Score=36.00  Aligned_cols=111  Identities=18%  Similarity=0.210  Sum_probs=60.4

Q ss_pred             cCCCeeeeeccchhhchHHHHHhhhhcCCCEEEEecCCceee---------eeeccccCceEEEEEeCCCCC-Cc---cc
Q 032030           16 TGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLA---------ANFSRELADYIIYIIDVSGGD-KI---PR   82 (148)
Q Consensus        16 ~nGcicc~i~~dl~~~~~al~~l~~~~~~D~IliEtsG~~~~---------~~~~~~~~d~~i~vvDa~~~~-~~---~~   82 (148)
                      ..|++....++.. ....++..+....++|+|||.|.|...-         ..+....-+.++.|+|+.... +.   ..
T Consensus       294 ~lgipv~v~~d~~-~L~~aL~~lk~~~~~DvVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLVLsATtk~~d~~~i~~  372 (436)
T PRK11889        294 TIGFEVIAVRDEA-AMTRALTYFKEEARVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKSKDMIEIIT  372 (436)
T ss_pred             hcCCcEEecCCHH-HHHHHHHHHHhccCCCEEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEEECCccChHHHHHHHH
Confidence            4577765554322 2234454443333799999999998531         111111234567778886442 21   11


Q ss_pred             cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHH
Q 032030           83 KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGII  137 (148)
Q Consensus        83 ~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~  137 (148)
                      .+..  -.-|-++++|.|-....+.-+    .....  -+.|+..++.  |+++.
T Consensus       373 ~F~~--~~idglI~TKLDET~k~G~iL----ni~~~--~~lPIsyit~--GQ~VP  417 (436)
T PRK11889        373 NFKD--IHIDGIVFTKFDETASSGELL----KIPAV--SSAPIVLMTD--GQDVK  417 (436)
T ss_pred             HhcC--CCCCEEEEEcccCCCCccHHH----HHHHH--HCcCEEEEeC--CCCCC
Confidence            1221  123799999999887644432    23332  2467777774  56554

>KOG3905 consensus Dynein light intermediate chain [Cell motility]

Probab=86.89  E-value=1.5  Score=36.78  Aligned_cols=52  Identities=19%  Similarity=0.237  Sum_probs=40.5

Q ss_pred             eEEEEecCCCCCc-------hhhhHHHHHHHHHhc--CCCCcEEEEEecCCCCHHHHHHhh
Q 032030           92 DLLVINKTDLASA-------IGADLAVMERDALRM--RDGGPFIFAQVGWVIGIIFTLSIT  143 (148)
Q Consensus        92 DivViNK~DL~~~-------~~~~l~~~~~~i~~~--np~a~vi~tSa~~g~gi~~l~~~~  143 (148)
                      -+||++|+|.++-       -++..+.+...+|+.  .-++..+.||+|+..|++-|..++
T Consensus       225 vlVV~TK~D~~s~leke~eyrDehfdfiq~~lRkFCLr~GaaLiyTSvKE~KNidllyKYi  285 (473)
T KOG3905|consen  225 VLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLRKFCLRYGAALIYTSVKETKNIDLLYKYI  285 (473)
T ss_pred             EEEEEeccchhhHhhhcchhhHHHHHHHHHHHHHHHHHcCceeEEeecccccchHHHHHHH
Confidence            7899999998552       225666788888754  367899999999999999887654

>TIGR00959 ffh signal recognition particle protein

Probab=86.25  E-value=1.7  Score=37.34  Aligned_cols=91  Identities=18%  Similarity=0.114  Sum_probs=50.7

Q ss_pred             hhcCCCEEEEecCCceee-----e---eecc-ccCceEEEEEeCCCCCCcc---ccCCCCcceeeEEEEecCCCCCchhh
Q 032030           40 NLFKADLLLCESGGDNLA-----A---NFSR-ELADYIIYIIDVSGGDKIP---RKGGPGITQADLLVINKTDLASAIGA  107 (148)
Q Consensus        40 ~~~~~D~IliEtsG~~~~-----~---~~~~-~~~d~~i~vvDa~~~~~~~---~~~~~qi~~ADivViNK~DL~~~~~~  107 (148)
                      ...++|+|+|.|.|....     .   .+.. ...+.+++|+|+..+.+..   ..+...+. -+-+++||.|-....+.
T Consensus       179 ~~~~~DvVIIDTaGr~~~d~~l~~eL~~i~~~~~p~e~lLVvda~tgq~~~~~a~~f~~~v~-i~giIlTKlD~~~~~G~  257 (428)
T TIGR00959       179 KENGFDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMTGQDAVNTAKTFNERLG-LTGVVLTKLDGDARGGA  257 (428)
T ss_pred             HhcCCCEEEEeCCCccccCHHHHHHHHHHHHhhCCceEEEEEeccchHHHHHHHHHHHhhCC-CCEEEEeCccCcccccH
Confidence            345799999999996421     1   1111 1235678999987664321   11112222 25888999996554222


Q ss_pred             hHHHHHHHHHhcCCCCcEEEEEecCCCCHHHH
Q 032030          108 DLAVMERDALRMRDGGPFIFAQVGWVIGIIFT  139 (148)
Q Consensus       108 ~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l  139 (148)
                          +.......  +.||.+++.  |+.++.+
T Consensus       258 ----~lsi~~~~--~~PI~fi~~--Ge~i~dl  281 (428)
T TIGR00959       258 ----ALSVRSVT--GKPIKFIGV--GEKIDDL  281 (428)
T ss_pred             ----HHHHHHHH--CcCEEEEeC--CCChhhC
Confidence                33333332  267777764  5656544

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.

>KOG1490 consensus GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]

Probab=86.24  E-value=0.59  Score=41.08  Aligned_cols=92  Identities=14%  Similarity=0.111  Sum_probs=52.9

Q ss_pred             CEEEEecCCcee-e---------eee--ccccCceEEEEEeCCCCCCc-----cccCCC---Cc-ceeeEEEEecCCCCC
Q 032030           45 DLLLCESGGDNL-A---------ANF--SRELADYIIYIIDVSGGDKI-----PRKGGP---GI-TQADLLVINKTDLAS  103 (148)
Q Consensus        45 D~IliEtsG~~~-~---------~~~--~~~~~d~~i~vvDa~~~~~~-----~~~~~~---qi-~~ADivViNK~DL~~  103 (148)
                      -|-+|.|.|+.. +         .++  ..++.-.+++++|-++--..     ..++..   -| ..--++|+||+|+..
T Consensus       216 rwQViDTPGILD~plEdrN~IEmqsITALAHLraaVLYfmDLSe~CGySva~QvkLfhsIKpLFaNK~~IlvlNK~D~m~  295 (620)
T KOG1490|consen  216 RWQVIDTPGILDRPEEDRNIIEMQIITALAHLRSAVLYFMDLSEMCGYSVAAQVKLYHSIKPLFANKVTILVLNKIDAMR  295 (620)
T ss_pred             eeeecCCccccCcchhhhhHHHHHHHHHHHHhhhhheeeeechhhhCCCHHHHHHHHHHhHHHhcCCceEEEeecccccC
Confidence            467788888752 1         000  11333446888887653221     011111   11 111599999999987


Q ss_pred             chhhhHH----HHHHHHHhcCCCCcEEEEEecCCCCHHHH
Q 032030          104 AIGADLA----VMERDALRMRDGGPFIFAQVGWVIGIIFT  139 (148)
Q Consensus       104 ~~~~~l~----~~~~~i~~~np~a~vi~tSa~~g~gi~~l  139 (148)
                      +  +++.    ++.+.+.+ -+..+|+.+|..+.+|+-++
T Consensus       296 ~--edL~~~~~~ll~~~~~-~~~v~v~~tS~~~eegVm~V  332 (620)
T KOG1490|consen  296 P--EDLDQKNQELLQTIID-DGNVKVVQTSCVQEEGVMDV  332 (620)
T ss_pred             c--cccCHHHHHHHHHHHh-ccCceEEEecccchhceeeH
Confidence            7  5443    34444432 24479999999999998654

>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]

Probab=86.16  E-value=0.97  Score=40.11  Aligned_cols=74  Identities=20%  Similarity=0.103  Sum_probs=42.8

Q ss_pred             CceEEEEEeCCCCCCccc-cCCCCc-----------ceeeEEEEecCCCCCchhhhHHH----HHHHHHhcC----CCCc
Q 032030           65 ADYIIYIIDVSGGDKIPR-KGGPGI-----------TQADLLVINKTDLASAIGADLAV----MERDALRMR----DGGP  124 (148)
Q Consensus        65 ~d~~i~vvDa~~~~~~~~-~~~~qi-----------~~ADivViNK~DL~~~~~~~l~~----~~~~i~~~n----p~a~  124 (148)
                      +|..+.|||+..+.--.. ...+|.           -.-=+|++||.|+++--....+.    +..++++..    +...
T Consensus       279 aD~avLvvd~s~~~FE~gfd~~gQtrEha~llr~Lgi~qlivaiNKmD~V~Wsq~RF~eIk~~l~~fL~~~~gf~es~v~  358 (603)
T KOG0458|consen  279 ADVAVLVVDASTGEFESGFDPGGQTREHALLLRSLGISQLIVAINKMDLVSWSQDRFEEIKNKLSSFLKESCGFKESSVK  358 (603)
T ss_pred             cceEEEEEECCcchhhhccCCCCchHHHHHHHHHcCcceEEEEeecccccCccHHHHHHHHHHHHHHHHHhcCcccCCcc
Confidence            577789999876521000 011111           01147899999999852233333    334442211    4458


Q ss_pred             EEEEEecCCCCHHH
Q 032030          125 FIFAQVGWVIGIIF  138 (148)
Q Consensus       125 vi~tSa~~g~gi~~  138 (148)
                      .+|+|+.+|+|+-.
T Consensus       359 FIPiSGl~GeNL~k  372 (603)
T KOG0458|consen  359 FIPISGLSGENLIK  372 (603)
T ss_pred             eEecccccCCcccc
Confidence            99999999999853

>PRK10867 signal recognition particle protein; Provisional

Probab=85.98  E-value=1.8  Score=37.18  Aligned_cols=114  Identities=15%  Similarity=0.065  Sum_probs=58.6

Q ss_pred             CCCeeeeec--cchhhchHHHHHhhhhcCCCEEEEecCCceee-e-------eecc-ccCceEEEEEeCCCCCCcc---c
Q 032030           17 GGCPHAAIR--EDISINLGPLEELSNLFKADLLLCESGGDNLA-A-------NFSR-ELADYIIYIIDVSGGDKIP---R   82 (148)
Q Consensus        17 nGcicc~i~--~dl~~~~~al~~l~~~~~~D~IliEtsG~~~~-~-------~~~~-~~~d~~i~vvDa~~~~~~~---~   82 (148)
                      .|.+.....  .+.........+.....++|+|+|.|.|.... .       .+.. ...+.+++|+|+..+.+..   .
T Consensus       155 ~gv~v~~~~~~~dp~~i~~~a~~~a~~~~~DvVIIDTaGrl~~d~~lm~eL~~i~~~v~p~evllVlda~~gq~av~~a~  234 (433)
T PRK10867        155 IGVPVFPSGDGQDPVDIAKAALEEAKENGYDVVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMTGQDAVNTAK  234 (433)
T ss_pred             cCCeEEecCCCCCHHHHHHHHHHHHHhcCCCEEEEeCCCCcccCHHHHHHHHHHHHhhCCCeEEEEEecccHHHHHHHHH
Confidence            455544432  23333222222333445799999999996421 1       1110 1124568999987653321   1


Q ss_pred             cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHH
Q 032030           83 KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFT  139 (148)
Q Consensus        83 ~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l  139 (148)
                      .+...++ -+-+|+||.|-....+.    +.......  +.||.+++.  |++++.|
T Consensus       235 ~F~~~~~-i~giIlTKlD~~~rgG~----alsi~~~~--~~PI~fig~--Ge~v~DL  282 (433)
T PRK10867        235 AFNEALG-LTGVILTKLDGDARGGA----ALSIRAVT--GKPIKFIGT--GEKLDDL  282 (433)
T ss_pred             HHHhhCC-CCEEEEeCccCcccccH----HHHHHHHH--CcCEEEEeC--CCccccC
Confidence            1112222 25789999997554222    22223322  367777764  5665544

>KOG1143 consensus Predicted translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=84.94  E-value=2.4  Score=36.38  Aligned_cols=77  Identities=12%  Similarity=0.115  Sum_probs=45.9

Q ss_pred             ceEEEEEeCCCCCCccc-c-----CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHh---------------------
Q 032030           66 DYIIYIIDVSGGDKIPR-K-----GGPGITQADLLVINKTDLASAIGADLAVMERDALR---------------------  118 (148)
Q Consensus        66 d~~i~vvDa~~~~~~~~-~-----~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~---------------------  118 (148)
                      |+...||.|..|-.+.. .     ..-.+|  =+++++|+||.++  ..+++..+.+..                     
T Consensus       276 h~A~LvVsA~~Gi~~tTrEHLgl~~AL~iP--fFvlvtK~Dl~~~--~~~~~tv~~l~nll~~~Gc~kvp~~Vt~~ddAv  351 (591)
T KOG1143|consen  276 HFACLVVSADRGITWTTREHLGLIAALNIP--FFVLVTKMDLVDR--QGLKKTVKDLSNLLAKAGCTKVPKRVTTKDDAV  351 (591)
T ss_pred             ceEEEEEEcCCCCccccHHHHHHHHHhCCC--eEEEEEeeccccc--hhHHHHHHHHHHHHhhcCccccceEeechHHHH
Confidence            44577777776643311 1     111345  4899999999987  444433322211                     


Q ss_pred             -----c-CC-CCcEEEEEecCCCCHHHHHHhhhhhc
Q 032030          119 -----M-RD-GGPFIFAQVGWVIGIIFTLSITHYIV  147 (148)
Q Consensus       119 -----~-np-~a~vi~tSa~~g~gi~~l~~~~~~~~  147 (148)
                           . -+ -.|||.+|..+|+|+.-| ..+.|+.
T Consensus       352 ~Aaq~~~s~nivPif~vSsVsGegl~ll-~~fLn~L  386 (591)
T KOG1143|consen  352 KAAQELCSGNIVPIFAVSSVSGEGLRLL-RTFLNCL  386 (591)
T ss_pred             HHHHHhccCCceeEEEEeecCccchhHH-HHHHhhc
Confidence                 1 12 258999999999999754 4444443

>PRK07560 elongation factor EF-2; Reviewed

Probab=84.29  E-value=2.5  Score=38.47  Aligned_cols=57  Identities=19%  Similarity=0.141  Sum_probs=35.4

Q ss_pred             CCEEEEecCCceee-eee--ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCC
Q 032030           44 ADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLA  102 (148)
Q Consensus        44 ~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~  102 (148)
                      +-+.||.|.|.... ...  .-..+|..++|+|+..+...+.      .....++  -++++||+|+.
T Consensus        87 ~~i~liDtPG~~df~~~~~~~l~~~D~avlVvda~~g~~~~t~~~~~~~~~~~~~--~iv~iNK~D~~  152 (731)
T PRK07560         87 YLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVDAVEGVMPQTETVLRQALRERVK--PVLFINKVDRL  152 (731)
T ss_pred             EEEEEEcCCCccChHHHHHHHHHhcCEEEEEEECCCCCCccHHHHHHHHHHcCCC--eEEEEECchhh
Confidence            44678888886431 111  1135788999999988754211      0112345  38999999986

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=84.25  E-value=1.2  Score=41.19  Aligned_cols=37  Identities=24%  Similarity=0.349  Sum_probs=26.7

Q ss_pred             cCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCC
Q 032030           64 LADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLA  102 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~  102 (148)
                      .+|..+.|+|+..|...+.      ....+++  -++++||+|+.
T Consensus       121 ~~D~ailVvda~~Gv~~~t~~~~~~~~~~~~p--~i~~iNK~D~~  163 (843)
T PLN00116        121 ITDGALVVVDCIEGVCVQTETVLRQALGERIR--PVLTVNKMDRC  163 (843)
T ss_pred             hcCEEEEEEECCCCCcccHHHHHHHHHHCCCC--EEEEEECCccc
Confidence            5688899999998854321      1123455  59999999998

>PTZ00416 elongation factor 2; Provisional

Probab=81.64  E-value=2  Score=39.75  Aligned_cols=57  Identities=23%  Similarity=0.162  Sum_probs=36.6

Q ss_pred             CCEEEEecCCceee--eee-ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCC
Q 032030           44 ADLLLCESGGDNLA--ANF-SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLA  102 (148)
Q Consensus        44 ~D~IliEtsG~~~~--~~~-~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~  102 (148)
                      .-+.|+.|.|....  ... .-..+|..++|+|+..+...+.      ....+++  -++++||+|+.
T Consensus        92 ~~i~liDtPG~~~f~~~~~~al~~~D~ailVvda~~g~~~~t~~~~~~~~~~~~p--~iv~iNK~D~~  157 (836)
T PTZ00416         92 FLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQTETVLRQALQERIR--PVLFINKVDRA  157 (836)
T ss_pred             eEEEEEcCCCHHhHHHHHHHHHhcCCeEEEEEECCCCcCccHHHHHHHHHHcCCC--EEEEEEChhhh
Confidence            34678889986421  111 1145789999999988754321      1122344  69999999997

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

Probab=80.89  E-value=3.1  Score=31.10  Aligned_cols=50  Identities=20%  Similarity=0.046  Sum_probs=31.3

Q ss_pred             eEEEEecCCCCCchhhh--------------HHHHHHHHHhc-CCCCcEEEEEec--CCCCHHHHHHhh
Q 032030           92 DLLVINKTDLASAIGAD--------------LAVMERDALRM-RDGGPFIFAQVG--WVIGIIFTLSIT  143 (148)
Q Consensus        92 DivViNK~DL~~~~~~~--------------l~~~~~~i~~~-np~a~vi~tSa~--~g~gi~~l~~~~  143 (148)
                      -++|.||+||.+.  ..              ........... ......+.+|++  ++.++.+++...
T Consensus       114 iilv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~v~~~~~~~  180 (219)
T COG1100         114 ILLVGNKIDLFDE--QSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLETSAKSLTGPNVNELFKEL  180 (219)
T ss_pred             EEEEecccccccc--hhHHHHHHhhhhcCcchhhhHhHHhhhhhcccceeEeecccCCCcCHHHHHHHH
Confidence            6999999999876  32              11111111111 112237899999  999999887654

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=80.87  E-value=5.4  Score=29.11  Aligned_cols=74  Identities=18%  Similarity=0.076  Sum_probs=43.1

Q ss_pred             hcCCCEEEEecCCceeeeeec-cccCceEEEEEeCCCCCC--cc---c-cCCCCcceeeEEEEecCCCCCchhhhHHHHH
Q 032030           41 LFKADLLLCESGGDNLAANFS-RELADYIIYIIDVSGGDK--IP---R-KGGPGITQADLLVINKTDLASAIGADLAVME  113 (148)
Q Consensus        41 ~~~~D~IliEtsG~~~~~~~~-~~~~d~~i~vvDa~~~~~--~~---~-~~~~qi~~ADivViNK~DL~~~~~~~l~~~~  113 (148)
                      ..++|+|+|.+.|........ -..+|.++.++.+....-  ..   . ......+  -.+|+||+|..+.   ..+.++
T Consensus        90 ~~~~d~viiDtpp~~~~~~~~~l~~aD~vliv~~~~~~~~~~~~~~~~~l~~~~~~--~~vV~N~~~~~~~---~~~~~~  164 (179)
T cd03110          90 AEGAELIIIDGPPGIGCPVIASLTGADAALLVTEPTPSGLHDLERAVELVRHFGIP--VGVVINKYDLNDE---IAEEIE  164 (179)
T ss_pred             hcCCCEEEEECcCCCcHHHHHHHHcCCEEEEEecCCcccHHHHHHHHHHHHHcCCC--EEEEEeCCCCCcc---hHHHHH
Confidence            368999999999653221111 135788888888765421  00   0 0111233  3699999997654   234556


Q ss_pred             HHHHhc
Q 032030          114 RDALRM  119 (148)
Q Consensus       114 ~~i~~~  119 (148)
                      +.+++.
T Consensus       165 ~~~~~~  170 (179)
T cd03110         165 DYCEEE  170 (179)
T ss_pred             HHHHHc
Confidence            666654

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=80.47  E-value=3  Score=32.88  Aligned_cols=27  Identities=15%  Similarity=-0.062  Sum_probs=22.8

Q ss_pred             CCCCcEEEEEecCCCCHHHHHHhhhhh
Q 032030          120 RDGGPFIFAQVGWVIGIIFTLSITHYI  146 (148)
Q Consensus       120 np~a~vi~tSa~~g~gi~~l~~~~~~~  146 (148)
                      ..-.||+..||+++.|+++|++.+.-.
T Consensus       238 ~~~~pv~~gSa~~~~G~~~ll~~~~~~  264 (268)
T cd04170         238 GLLVPVLCGSALTNIGVRELLDALVHL  264 (268)
T ss_pred             CCEEEEEEeeCCCCcCHHHHHHHHHHh
Confidence            455699999999999999999987643

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

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	148
2hf9_A	226	Crystal Structure Of Hypb From Methanocaldococcus J		9e-08
2hf8_A	226	Crystal Structure Of Hypb From Methanocaldococcus J		5e-07
2wsm_A	221	Crystal Structure Of Hydrogenase Maturation Factor		3e-05

>pdb|2HF9|A Chain A, Crystal Structure Of Hypb From Methanocaldococcus Jannaschii In The Triphosphate Form Length = 226

Iteration: 1
 Score = 52.4 bits (124), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 39/87 (44%), Positives = 52/87 (59%), Gaps = 5/87 (5%)
Query: 35  LEELSNLFKADLLLCESGGDNLA-ANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ-AD 92
           LE+L NL + DLL  E+ G+ +  A+F       I+ I    G D I +   PGI + AD
Sbjct: 111 LEDL-NLDEIDLLFIENVGNLICPADFDLGTHKRIVVISTTEGDDTIEKH--PGIMKTAD 167
Query: 93  LLVINKTDLASAIGADLAVMERDALRM 119
           L+VINK DLA A+GAD+  ME DA R+
Sbjct: 168 LIVINKIDLADAVGADIKKMENDAKRI 194

>pdb|2HF8|A Chain A, Crystal Structure Of Hypb From Methanocaldococcus Jannaschii In The Triphosphate Form, In Complex With Zinc Length = 226

Iteration: 1
 Score = 49.7 bits (117), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 38/87 (43%), Positives = 51/87 (58%), Gaps = 5/87 (5%)
Query: 35  LEELSNLFKADLLLCESGGDNLA-ANFSRELADYIIYIIDVSGGDKIPRKGGPGITQ-AD 92
           LE+L NL + DLL  E+ G+ +  A+F       I+ I    G D I +   PGI + AD
Sbjct: 111 LEDL-NLDEIDLLFIENVGNLICPADFDLGTHKRIVVISTTEGDDTIEKH--PGIXKTAD 167
Query: 93  LLVINKTDLASAIGADLAVMERDALRM 119
           L+VINK DLA A+GAD+   E DA R+
Sbjct: 168 LIVINKIDLADAVGADIKKXENDAKRI 194

>pdb|2WSM|A Chain A, Crystal Structure Of Hydrogenase Maturation Factor Hypb From Archaeoglobus Fulgidus Length = 221

Iteration: 1
 Score = 44.3 bits (103), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 31/80 (38%), Positives = 43/80 (53%), Gaps = 2/80 (2%)
Query: 38  LSNLFKADLLLCESGGDNLAANFSRELAD-YIIYIIDVSGGDKIPRKGGPGITQADLLVI 96
           L      DLLL E+ G NL      +L + Y + ++ V+ GD +  K       ADL+VI
Sbjct: 103 LKKFSDCDLLLIENVG-NLICPVDFDLGENYRVVMVSVTEGDDVVEKHPEIFRVADLIVI 161
Query: 97  NKTDLASAIGADLAVMERDA 116
           NK  LA A+GAD+  M+ DA
Sbjct: 162 NKVALAEAVGADVEKMKADA 181

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	148
2hf9_A	226	Probable hydrogenase nickel incorporation protein	4e-53
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	8e-51

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A* Length = 226

 Score =  166 bits (423), Expect = 4e-53
 Identities = 40/130 (30%), Positives = 60/130 (46%), Gaps = 9/130 (6%)

Query: 1   MRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANF 60
            ++GA    ++  + TG   H     D  +    LE+L NL + DLL  E+ G+ +    
Sbjct: 85  EKHGA----KVVPLNTGKECHL----DAHLVGHALEDL-NLDEIDLLFIENVGNLICPAD 135

Query: 61  SRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMR 120
                   I +I  + GD    K    +  ADL+VINK DLA A+GAD+  ME DA R+ 
Sbjct: 136 FDLGTHKRIVVISTTEGDDTIEKHPGIMKTADLIVINKIDLADAVGADIKKMENDAKRIN 195

Query: 121 DGGPFIFAQV 130
                +   +
Sbjct: 196 PDAEVVLLSL 205

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus} Length = 221

 Score =  160 bits (407), Expect = 8e-51
 Identities = 37/130 (28%), Positives = 58/130 (44%), Gaps = 11/130 (8%)

Query: 1   MRNGALPEERIRAVETGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANF 60
            R G     +  A+ TG   H     D  +    L++ S+    DLLL E+ G+ +    
Sbjct: 77  RRFGI----KAEAISTGKECHL----DAHMIYHRLKKFSDC---DLLLIENVGNLICPVD 125

Query: 61  SRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMR 120
                +Y + ++ V+ GD +  K       ADL+VINK  LA A+GAD+  M+ DA  + 
Sbjct: 126 FDLGENYRVVMVSVTEGDDVVEKHPEIFRVADLIVINKVALAEAVGADVEKMKADAKLIN 185

Query: 121 DGGPFIFAQV 130
                I   +
Sbjct: 186 PRAKIIEMDL 195

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	148
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.55
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	99.49
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	99.46
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	99.4
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	99.4
2hf9_A	226	Probable hydrogenase nickel incorporation protein	99.38
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	99.34
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	98.97
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	98.79
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	98.68
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	98.51
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	98.48
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	98.47
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	98.45
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	98.43
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	98.42
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	98.4
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	98.37
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	98.37
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	98.37
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	98.35
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	98.34
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	98.34
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	98.34
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	98.3
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	98.29
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	98.28
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	98.28
1wb1_A	482	Translation elongation factor SELB; selenocysteine	98.28
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	98.28
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	98.27
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	98.27
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	98.26
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	98.25
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	98.24
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	98.24
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	98.23
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	98.23
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	98.23
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	98.23
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	98.22
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	98.22
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	98.21
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	98.21
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	98.21
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	98.21
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	98.2
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	98.18
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	98.17
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	98.16
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	98.14
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	98.14
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	98.14
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	98.13
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	98.12
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	98.1
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	98.1
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	98.08
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	98.07
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	98.06
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	98.06
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	98.06
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	98.05
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	98.05
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	98.03
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	98.03
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.03
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	98.02
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.02
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	98.01
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	98.01
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	98.01
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	98.0
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	98.0
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	98.0
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	97.99
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	97.99
2fh5_B	214	SR-beta, signal recognition particle receptor beta	97.98
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	97.97
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	97.97
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	97.97
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	97.97
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	97.96
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	97.96
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	97.95
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	97.95
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	97.94
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	97.93
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	97.92
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	97.9
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	97.9
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	97.89
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	97.89
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	97.89
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	97.88
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	97.87
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	97.86
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	97.86
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	97.86
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	97.85
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	97.84
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	97.84
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	97.83
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	97.83
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	97.82
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	97.82
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	97.8
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	97.8
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	97.8
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	97.79
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	97.79
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	97.78
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	97.78
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	97.77
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	97.77
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	97.76
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	96.96
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	97.76
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	97.75
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	97.74
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	97.71
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	97.71
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	97.7
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	97.7
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	97.7
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	97.69
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	97.69
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	97.68
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	97.68
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	97.67
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	97.67
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	97.66
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	97.66
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	97.65
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	97.64
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	97.62
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	97.61
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	97.61
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	97.61
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	97.6
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	97.6
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	97.57
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	97.57
3llu_A	196	RAS-related GTP-binding protein C; structural geno	97.57
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	97.54
2wji_A	165	Ferrous iron transport protein B homolog; membrane	97.53
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	97.52
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	97.51
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	97.51
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	97.5
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	97.5
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	97.49
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	97.49
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	97.48
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	97.47
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	97.45
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	97.44
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	97.43
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	97.39
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	97.35
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	97.29
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	97.28
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	97.26
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	97.23
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	97.21
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	97.21
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	97.21
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	97.2
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	97.17
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	97.16
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	97.12
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	97.1
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	97.1
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	97.07
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	97.07
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	97.06
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	97.02
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	97.01
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	97.01
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	97.0
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	96.98
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	96.97
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	96.97
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	96.89
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	96.81
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	96.8
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	96.76
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	96.71
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	96.63
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	96.63
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	96.62
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	96.59
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	96.49
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	96.24
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	96.23
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	96.15
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	96.13
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	95.97
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	95.87
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	95.35
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	95.16
1nrj_B	218	SR-beta, signal recognition particle receptor beta	95.11
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	94.7
1wxq_A	397	GTP-binding protein; structural genomics, riken st	94.64
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	94.61
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	94.58
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	94.11
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	93.97
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	93.92
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	92.57
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	92.57
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	91.32
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	91.12
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	90.84
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	90.24
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	86.28
2ged_A	193	SR-beta, signal recognition particle receptor beta	86.28
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	86.1
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	80.31
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	80.15

>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=99.55  E-value=1.5e-14  Score=117.81  Aligned_cols=136  Identities=13%  Similarity=0.120  Sum_probs=83.2

Q ss_pred             CCCChhhhhhhhhc------------CCCeeeeeccchhhchHHHHHhhhhcCCCEEEEecCCceeeeeeccccCceEEE
Q 032030            3 NGALPEERIRAVET------------GGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIY   70 (148)
Q Consensus         3 ~~~~~~~~~~~~~~------------nGcicc~i~~dl~~~~~al~~l~~~~~~D~IliEtsG~~~~~~~~~~~~d~~i~   70 (148)
                      .|++.++++++...            ++|.|+.+....   .+++ ......++|++||+|+|+.......-..+|.+++
T Consensus       123 ~g~~l~d~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~t---~d~i-~~~~~~~~~~iiiDTpGi~~~~~~~~~~aD~vl~  198 (355)
T 3p32_A          123 GGSILGDKTRMARLAVHPNAYIRPSPTSGTLGGVTRAT---RETV-VLLEAAGFDVILIETVGVGQSEVAVANMVDTFVL  198 (355)
T ss_dssp             ----------CHHHHTCTTEEEECCC--CCHHHHHHHH---HHHH-HHHHHTTCCEEEEEECSCSSHHHHHHTTCSEEEE
T ss_pred             cchhccchhhHHhhccCCCeeEEECCCCccccchhHHH---HHHH-HHHhhCCCCEEEEeCCCCCcHHHHHHHhCCEEEE
Confidence            46777788776543            344444322111   2334 3444568999999999976542222257899999


Q ss_pred             EEeCCCCCCccccCCCCcceeeEEEEecCCCCCchhhhHHH----HHHHHHhcC-----CCCcEEEEEecCCCCHHHHHH
Q 032030           71 IIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAV----MERDALRMR-----DGGPFIFAQVGWVIGIIFTLS  141 (148)
Q Consensus        71 vvDa~~~~~~~~~~~~qi~~ADivViNK~DL~~~~~~~l~~----~~~~i~~~n-----p~a~vi~tSa~~g~gi~~l~~  141 (148)
                      |+|+..++..+......++.++++|+||+|+.+.  ...+.    +.+.++..+     ...|++++||++|.|+++|++
T Consensus       199 V~d~~~~~~~~~l~~~~~~~p~ivVlNK~Dl~~~--~~~~~~~~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~Gi~~L~~  276 (355)
T 3p32_A          199 LTLARTGDQLQGIKKGVLELADIVVVNKADGEHH--KEARLAARELSAAIRLIYPREALWRPPVLTMSAVEGRGLAELWD  276 (355)
T ss_dssp             EEESSTTCTTTTCCTTSGGGCSEEEEECCCGGGH--HHHHHHHHHHHHHHHHHSTTCCSCCCCEEEEBGGGTBSHHHHHH
T ss_pred             EECCCCCccHHHHHHhHhhcCCEEEEECCCCcCh--hHHHHHHHHHHHHHhhccccccCCCCceEEEEcCCCCCHHHHHH
Confidence            9999877665444444566789999999999866  44433    333333333     257899999999999999998


Q ss_pred             hhh
Q 032030          142 ITH  144 (148)
Q Consensus       142 ~~~  144 (148)
                      ++.
T Consensus       277 ~i~  279 (355)
T 3p32_A          277 TVE  279 (355)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            763

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=99.49  E-value=7.4e-14  Score=113.76  Aligned_cols=135  Identities=18%  Similarity=0.149  Sum_probs=70.6

Q ss_pred             CCChhhhhhhhh------------cCCCeeeeeccchhhchHHHHHhhhhcCCCEEEEecCCceeeeeeccccCceEEEE
Q 032030            4 GALPEERIRAVE------------TGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYI   71 (148)
Q Consensus         4 ~~~~~~~~~~~~------------~nGcicc~i~~dl~~~~~al~~l~~~~~~D~IliEtsG~~~~~~~~~~~~d~~i~v   71 (148)
                      |++.+++.|+..            .++|.||+.-.+.   .+++. ++...++|++|+||+|+..........+|.+++|
T Consensus       119 g~~l~d~~rm~~~~~~~~~~v~~~~~~~~lgg~tr~~---~~~~~-~~~~~~~~~iliDT~Gi~~~~~~l~~~~d~vl~V  194 (349)
T 2www_A          119 GSLLGDKTRMTELSRDMNAYIRPSPTRGTLGGVTRTT---NEAIL-LCEGAGYDIILIETVGVGQSEFAVADMVDMFVLL  194 (349)
T ss_dssp             ----------CCSTTCTTEEEECC---------CTTH---HHHHH-HHHHTTCSEEEEECCCC--CHHHHHTTCSEEEEE
T ss_pred             cchhchHHHHHHhcCCCCEEEEecCCccccccchHHH---HHHHH-hhccCCCCEEEEECCCcchhhhhHHhhCCEEEEE
Confidence            667677766532            2356665443333   33333 2334689999999999764321113568999999


Q ss_pred             EeCCCCCCccccCCCCcceeeEEEEecCCCCCchhhhH----HHHHHHHHhcCC-----CCcEEEEEecCCCCHHHHHHh
Q 032030           72 IDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADL----AVMERDALRMRD-----GGPFIFAQVGWVIGIIFTLSI  142 (148)
Q Consensus        72 vDa~~~~~~~~~~~~qi~~ADivViNK~DL~~~~~~~l----~~~~~~i~~~np-----~a~vi~tSa~~g~gi~~l~~~  142 (148)
                      +|+..++..+......++.++++|+||+|+.+.  ...    +.+.+.++..+|     ..+++++||++|.|+++|+++
T Consensus       195 ~d~~~~~~~~~i~~~il~~~~ivVlNK~Dl~~~--~~~~~~~~~l~~~l~~~~~~a~~~~~~vi~iSA~~g~Gi~~L~~~  272 (349)
T 2www_A          195 LPPAGGDELQGIKRGIIEMADLVAVTKSDGDLI--VPARRIQAEYVSALKLLRKRSQVWKPKVIRISARSGEGISEMWDK  272 (349)
T ss_dssp             ECCC------------CCSCSEEEECCCSGGGH--HHHHHHHHHHHHHHTTCC-----CCCEEEECCTTTCTTHHHHHHH
T ss_pred             EcCCcchhHHHhHHHHHhcCCEEEEeeecCCCc--hhHHHHHHHHHHHHHhcCccccCCCceEEEEecCCCCCHHHHHHH
Confidence            999876543322223455679999999999865  332    334444443444     468999999999999999988


Q ss_pred             hh
Q 032030          143 TH  144 (148)
Q Consensus       143 ~~  144 (148)
                      +.
T Consensus       273 I~  274 (349)
T 2www_A          273 MK  274 (349)
T ss_dssp             HH
T ss_pred             HH
Confidence            74

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=99.46  E-value=1.9e-14  Score=108.17  Aligned_cols=121  Identities=27%  Similarity=0.305  Sum_probs=82.4

Q ss_pred             CCCeeeeeccchhhchHHHHHhhhhcCCCEEEEecCCcee-eeeeccccCceEEEEEeCCCCCCccccCCCCcceeeEEE
Q 032030           17 GGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNL-AANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLV   95 (148)
Q Consensus        17 nGcicc~i~~dl~~~~~al~~l~~~~~~D~IliEtsG~~~-~~~~~~~~~d~~i~vvDa~~~~~~~~~~~~qi~~ADivV   95 (148)
                      +||.||...+.+..   .+.   ...++|++++||+|... +..+. ...+..++|+|+..+.........+...++++|
T Consensus        88 ~~~~~~~~~~~~~~---~~~---~~~~~d~iiidt~G~~~~~~~~~-~~~~~~i~vvd~~~~~~~~~~~~~~~~~~~iiv  160 (221)
T 2wsm_A           88 TGKECHLDAHMIYH---RLK---KFSDCDLLLIENVGNLICPVDFD-LGENYRVVMVSVTEGDDVVEKHPEIFRVADLIV  160 (221)
T ss_dssp             CTTCSSCCHHHHHT---TGG---GGTTCSEEEEEEEEBSSGGGGCC-CSCSEEEEEEEGGGCTTHHHHCHHHHHTCSEEE
T ss_pred             CCceeecccHHHHH---HHH---hcCCCCEEEEeCCCCCCCCchhc-cccCcEEEEEeCCCcchhhhhhhhhhhcCCEEE
Confidence            67777644332211   111   23479999999999522 22221 235678999999877543222222345668999


Q ss_pred             EecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030           96 INKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus        96 iNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +||+|+.+....+.+.+.+.+++.+|.++++++||++|.|++++++++.
T Consensus       161 ~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~i~~~Sa~~g~gi~~l~~~l~  209 (221)
T 2wsm_A          161 INKVALAEAVGADVEKMKADAKLINPRAKIIEMDLKTGKGFEEWIDFLR  209 (221)
T ss_dssp             EECGGGHHHHTCCHHHHHHHHHHHCTTSEEEECBTTTTBTHHHHHHHHH
T ss_pred             EecccCCcchhhHHHHHHHHHHHhCCCCeEEEeecCCCCCHHHHHHHHH
Confidence            9999997531125677888888888889999999999999999999875

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=99.40  E-value=8.4e-13  Score=107.10  Aligned_cols=138  Identities=14%  Similarity=0.151  Sum_probs=85.8

Q ss_pred             CCChhhhhhh----hhcCCCe-----eeeeccchhhchHHHHHhhhhcCCCEEEEecCCceeeeeeccccCceEEEEEeC
Q 032030            4 GALPEERIRA----VETGGCP-----HAAIREDISINLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDV   74 (148)
Q Consensus         4 ~~~~~~~~~~----~~~nGci-----cc~i~~dl~~~~~al~~l~~~~~~D~IliEtsG~~~~~~~~~~~~d~~i~vvDa   74 (148)
                      |++.+.|.++    ++.++++     ||++.+...+..+++. +....++|++||||+|+.....-....+|.+++++|+
T Consensus       100 ~~~~~~~~~i~~v~q~~~~~~~~~~~~~~l~G~tr~~~e~~~-~~~~~~~~~iliDT~Gi~~~~~~v~~~~d~vl~v~d~  178 (337)
T 2qm8_A          100 GSILGDKTRMARLAIDRNAFIRPSPSSGTLGGVAAKTRETML-LCEAAGFDVILVETVGVGQSETAVADLTDFFLVLMLP  178 (337)
T ss_dssp             CCSSCCGGGSTTGGGCTTEEEECCCCCSSHHHHHHHHHHHHH-HHHHTTCCEEEEEECSSSSCHHHHHTTSSEEEEEECS
T ss_pred             cchHHHhhhheeeccCcccccccCcccccccchHHHHHHHHH-HHhcCCCCEEEEECCCCCcchhhHHhhCCEEEEEEcC
Confidence            3444444433    3355555     4555554444444442 3445689999999999875421123578999999998


Q ss_pred             CCCCCccccCCCCcceeeEEEEecCCCCCchhhh-----HHHHHHHHHhcCC-----CCcEEEEEecCCCCHHHHHHhhh
Q 032030           75 SGGDKIPRKGGPGITQADLLVINKTDLASAIGAD-----LAVMERDALRMRD-----GGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus        75 ~~~~~~~~~~~~qi~~ADivViNK~DL~~~~~~~-----l~~~~~~i~~~np-----~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ..+++.........+.++++++||+|+.+.  ..     .+++...+.-.+|     ..+++++||++|.|+++|++.+.
T Consensus       179 ~~~~~~~~i~~~i~~~~~ivvlNK~Dl~~~--~~~s~~~~~~l~~a~~l~~~~~~~~~~~vl~~Sal~g~gi~~L~~~I~  256 (337)
T 2qm8_A          179 GAGDELQGIKKGIFELADMIAVNKADDGDG--ERRASAAASEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIE  256 (337)
T ss_dssp             CC------CCTTHHHHCSEEEEECCSTTCC--HHHHHHHHHHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHH
T ss_pred             CCcccHHHHHHHHhccccEEEEEchhccCc--hhHHHHHHHHHHHHHHhccccccCCCCCEEEEeCCCCCCHHHHHHHHH
Confidence            766543322233346679999999998764  32     2333333333443     46899999999999999998764

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=99.40  E-value=5.2e-14  Score=113.13  Aligned_cols=119  Identities=22%  Similarity=0.283  Sum_probs=85.3

Q ss_pred             cCCCeeeeeccchhhchHHHHHhh---hhcC--CCEEEEecCCceeee----ee--cc-----ccCceEEEEEeCCCCCC
Q 032030           16 TGGCPHAAIREDISINLGPLEELS---NLFK--ADLLLCESGGDNLAA----NF--SR-----ELADYIIYIIDVSGGDK   79 (148)
Q Consensus        16 ~nGcicc~i~~dl~~~~~al~~l~---~~~~--~D~IliEtsG~~~~~----~~--~~-----~~~d~~i~vvDa~~~~~   79 (148)
                      +|||+||++++++...   +..+.   +...  +|++++|++|++.+.    .+  .+     ...+.+++++|+.+..+
T Consensus        61 ~~gCicc~~~~~~~~~---l~~l~~~~q~~~~~~~~~v~E~~~l~~p~~~~~~~~~~~~~~~~~~l~~~l~~vd~~~~~~  137 (318)
T 1nij_A           61 TNGCICCSRSNELEDA---LLDLLDNLDKGNIQFDRLVIECTGMADPGPIIQTFFSHEVLCQRYLLDGVIALVDAVHADE  137 (318)
T ss_dssp             TTSCEEECTTSCHHHH---HHHHHHHHHHTSCCCSEEEEEEETTCCHHHHHHHHHHSHHHHHHEEEEEEEEEEETTTHHH
T ss_pred             CCCceEEcccHHHHHH---HHHHHhHHhcCCCCCCEEEEeCCCCCCHHHHHHHHhcCccccCeEEECCEEEEEEHHHHHH
Confidence            5999999999998554   44442   3333  599999999987432    22  11     12355689999876543


Q ss_pred             cccc---CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHh
Q 032030           80 IPRK---GGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSI  142 (148)
Q Consensus        80 ~~~~---~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~  142 (148)
                      ....   ...|...||++++||.|+.++  .  +++.+.++++||.+.|+.+|.. ...++.+++.
T Consensus       138 ~~~~ls~g~~Q~~~ad~ill~k~dl~de--~--~~l~~~l~~l~~~~~ii~~sh~-~~~~~~l~~~  198 (318)
T 1nij_A          138 QMNQFTIAQSQVGYADRILLTKTDVAGE--A--EKLHERLARINARAPVYTVTHG-DIDLGLLFNT  198 (318)
T ss_dssp             HHHHCHHHHHHHHTCSEEEEECTTTCSC--T--HHHHHHHHHHCSSSCEEECCSS-CCCGGGGSCC
T ss_pred             HHhhchHHHHHHHhCCEEEEECcccCCH--H--HHHHHHHHHhCCCCeEEEeccc-CCCHHHHhCC
Confidence            2111   124788999999999999977  5  7888889999999999999975 5677766653

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=99.38  E-value=2.2e-13  Score=102.59  Aligned_cols=123  Identities=32%  Similarity=0.363  Sum_probs=83.8

Q ss_pred             CCCeeeeeccchhhchHHHHHhhhhcCCCEEEEecCCcee-eeeeccccCceEEEEEeCCCCCCccccCCCCcceeeEEE
Q 032030           17 GGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNL-AANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLV   95 (148)
Q Consensus        17 nGcicc~i~~dl~~~~~al~~l~~~~~~D~IliEtsG~~~-~~~~~~~~~d~~i~vvDa~~~~~~~~~~~~qi~~ADivV   95 (148)
                      +||.||.-..|.   .+.+..+ ...++|++++|++|... ...|. ...+..+.++|+..+...+..+..++..++++|
T Consensus        96 ~~~~~~l~~~~~---~~~~~~l-~~~~~d~~~id~~g~i~~~~s~~-~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~iiv  170 (226)
T 2hf9_A           96 TGKECHLDAHLV---GHALEDL-NLDEIDLLFIENVGNLICPADFD-LGTHKRIVVISTTEGDDTIEKHPGIMKTADLIV  170 (226)
T ss_dssp             CTTCSSCCHHHH---HHHHTTS-CGGGCSEEEEECCSCSSGGGGCC-CSCSEEEEEEEGGGCTTTTTTCHHHHTTCSEEE
T ss_pred             CCceEeccHHHH---HHHHHHH-hcCCCCEEEEeCCCCccCcchhh-hccCcEEEEEecCcchhhHhhhhhHhhcCCEEE
Confidence            588876433332   2223222 23478999999999633 23342 334555788887655544433334566779999


Q ss_pred             EecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030           96 INKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus        96 iNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +||+|+.+.-....+.+.+.+++.++.++++++||++|.|++++++++.
T Consensus       171 ~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~  219 (226)
T 2hf9_A          171 INKIDLADAVGADIKKMENDAKRINPDAEVVLLSLKTMEGFDKVLEFIE  219 (226)
T ss_dssp             EECGGGHHHHTCCHHHHHHHHHHHCTTSEEEECCTTTCTTHHHHHHHHH
T ss_pred             EeccccCchhHHHHHHHHHHHHHhCCCCeEEEEEecCCCCHHHHHHHHH
Confidence            9999997541124667778888888889999999999999999999875

>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=99.34  E-value=1.6e-12  Score=105.42  Aligned_cols=138  Identities=17%  Similarity=0.123  Sum_probs=78.2

Q ss_pred             CCChhhhhhhh----hcCCCeeeeeccchhh-----chHHHHHhhhhcCCCEEEEecCCceeeeeeccccCceEEEEEeC
Q 032030            4 GALPEERIRAV----ETGGCPHAAIREDISI-----NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDV   74 (148)
Q Consensus         4 ~~~~~~~~~~~----~~nGcicc~i~~dl~~-----~~~al~~l~~~~~~D~IliEtsG~~~~~~~~~~~~d~~i~vvDa   74 (148)
                      |++.+++.++.    ..++|+||...+++..     ..+.+. .....+++++||+|.|...........+|.+++|+|+
T Consensus       101 ~~il~d~~~~~~~~~~~~~~i~~~~~~~~l~g~~~~~~~~~~-~~~~~~~~i~liDTpG~~~~~~~~~~~aD~vl~Vvd~  179 (341)
T 2p67_A          101 GSILGDKTRMNDLARAEAAFIRPVPSSGHLGGASQRARELML-LCEAAGYDVVIVETVGVGQSETEVARMVDCFISLQIA  179 (341)
T ss_dssp             ----------CTTTTCTTEEEEEECC-----CHHHHHHHHHH-HHHHTTCSEEEEEEECCTTHHHHHHTTCSEEEEEECC
T ss_pred             cceecccchHHhhccCCCceeecCccccccchhHHHHHHHHH-HhhccCCCEEEEeCCCccchHHHHHHhCCEEEEEEeC
Confidence            55555555542    2588999866443221     122221 2224589999999999764322123578999999999


Q ss_pred             CCCCCccccCCCCcceeeEEEEecCCCCCchhhhHHH----HHHHHHhcCC-----CCcEEEEEecCCCCHHHHHHhhh
Q 032030           75 SGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAV----MERDALRMRD-----GGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus        75 ~~~~~~~~~~~~qi~~ADivViNK~DL~~~~~~~l~~----~~~~i~~~np-----~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ..++..+.....+....+++|+||+|+.+.  .....    +.+.++..++     ..+++++||++|.|+++|++++.
T Consensus       180 ~~~~~~~~l~~~~~~~p~ivv~NK~Dl~~~--~~~~~~~~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~gi~~L~~~l~  256 (341)
T 2p67_A          180 GGGDDLQGIKKGLMEVADLIVINKDDGDNH--TNVAIARHMYESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAII  256 (341)
T ss_dssp             ------CCCCHHHHHHCSEEEECCCCTTCH--HHHHHHHHHHHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHH
T ss_pred             CccHHHHHHHHhhhcccCEEEEECCCCCCh--HHHHHHHHHHHHHHHhccccccCCCCcEEEeeCCCCCCHHHHHHHHH
Confidence            776543222112234568999999999876  44443    3333333343     46899999999999999998764

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=98.97  E-value=8e-11  Score=90.46  Aligned_cols=100  Identities=14%  Similarity=0.072  Sum_probs=65.4

Q ss_pred             CCCEEEEecCCceeeeee---------ccccCceEEEEEeCCCCCCcccc---------CCCCcceeeEEEEecCCCCCc
Q 032030           43 KADLLLCESGGDNLAANF---------SRELADYIIYIIDVSGGDKIPRK---------GGPGITQADLLVINKTDLASA  104 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~---------~~~~~d~~i~vvDa~~~~~~~~~---------~~~qi~~ADivViNK~DL~~~  104 (148)
                      ++|+++++|.|..-....         .-.. +.+++++|+.........         ...+.....++|+||+|+.+.
T Consensus       108 ~~d~iiiDtpG~~~~~~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~~~~~~p~~iv~NK~D~~~~  186 (262)
T 1yrb_A          108 ENDYVLIDTPGQMETFLFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLIDLRLGATTIPALNKVDLLSE  186 (262)
T ss_dssp             HCSEEEEECCSSHHHHHHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHHHHHTSCEEEEECCGGGCCH
T ss_pred             cCCEEEEeCCCccchhhhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHhcccCCCeEEEEeccccccc
Confidence            589999999997532110         0123 677999998655331110         001123347999999999876


Q ss_pred             hhhhHHHHHHH----------------------------HHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          105 IGADLAVMERD----------------------------ALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       105 ~~~~l~~~~~~----------------------------i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                        .+.+.+.+.                            +++.++..+++++||++|.|+++|++++.-
T Consensus       187 --~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~i~~  253 (262)
T 1yrb_A          187 --EEKERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYE  253 (262)
T ss_dssp             --HHHHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHH
T ss_pred             --ccHHHHHHHHhChHHHHHHHhccccccchhHhHHHHHHHHhcCcccceEEEecCcccHHHHHHHHHH
Confidence              443333322                            245566678999999999999999998753

>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=98.79  E-value=6.3e-09  Score=82.94  Aligned_cols=99  Identities=16%  Similarity=0.108  Sum_probs=70.4

Q ss_pred             CCCEEEEecCCceeee-------ee------ccccCceEEEEEeCCCCCCc-------cccCCCCcceeeEEEEecCCCC
Q 032030           43 KADLLLCESGGDNLAA-------NF------SRELADYIIYIIDVSGGDKI-------PRKGGPGITQADLLVINKTDLA  102 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~-------~~------~~~~~d~~i~vvDa~~~~~~-------~~~~~~qi~~ADivViNK~DL~  102 (148)
                      +..++|+.|.|.....       .+      .-..+|.+++|+|+..+...       .......++  .++|+||+|+.
T Consensus        58 ~~~i~lvDTPG~~~~~~~~~l~~~~~~~~~~~l~~aD~il~VvD~~~~~~~~~~~~~~~~l~~~~~p--vilV~NK~Dl~  135 (308)
T 3iev_A           58 EAQIIFLDTPGIYEPKKSDVLGHSMVEIAKQSLEEADVILFMIDATEGWRPRDEEIYQNFIKPLNKP--VIVVINKIDKI  135 (308)
T ss_dssp             TEEEEEEECCCCCCCCTTCHHHHHHHHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHTGGGCCC--EEEEEECGGGS
T ss_pred             CCeEEEEECcCCCccccchhHHHHHHHHHHHHhhcCCEEEEEEeCCCCCCchhHHHHHHHHHhcCCC--EEEEEECccCC
Confidence            5679999999974321       00      11357999999999876431       111111233  79999999998


Q ss_pred             -CchhhhHHHHHHHHHhcC-CCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          103 -SAIGADLAVMERDALRMR-DGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       103 -~~~~~~l~~~~~~i~~~n-p~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                       +.  ..+....+.+++.. +..+++++||++|.|++++++++.-
T Consensus       136 ~~~--~~~~~~~~~l~~~~~~~~~i~~vSA~~g~gv~~L~~~l~~  178 (308)
T 3iev_A          136 GPA--KNVLPLIDEIHKKHPELTEIVPISALKGANLDELVKTILK  178 (308)
T ss_dssp             SSG--GGGHHHHHHHHHHCTTCCCEEECBTTTTBSHHHHHHHHHH
T ss_pred             CCH--HHHHHHHHHHHHhccCCCeEEEEeCCCCCCHHHHHHHHHH
Confidence             66  55666666666555 6789999999999999999998753

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=98.68  E-value=3.6e-08  Score=73.42  Aligned_cols=99  Identities=10%  Similarity=-0.008  Sum_probs=66.4

Q ss_pred             CCCEEEEecCCceee--------------eee--ccccCceEEEEEeCCCCCCcc-----c-cCCCCcceeeEEEEecCC
Q 032030           43 KADLLLCESGGDNLA--------------ANF--SRELADYIIYIIDVSGGDKIP-----R-KGGPGITQADLLVINKTD  100 (148)
Q Consensus        43 ~~D~IliEtsG~~~~--------------~~~--~~~~~d~~i~vvDa~~~~~~~-----~-~~~~qi~~ADivViNK~D  100 (148)
                      +..+.++.|.|....              ..+  .....|.+++|+|+.++....     . ......+  -++|+||+|
T Consensus        78 ~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~d~~~~~~~~~~~~~~~l~~~~~p--~i~v~nK~D  155 (223)
T 4dhe_A           78 EPVAHLVDLPGYGYAEVPGAAKAHWEQLLSSYLQTRPQLCGMILMMDARRPLTELDRRMIEWFAPTGKP--IHSLLTKCD  155 (223)
T ss_dssp             SCSEEEEECCCCCSSCCCSTHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHGGGCCC--EEEEEECGG
T ss_pred             CCcEEEEcCCCCCcccCChhhHHHHHHHHHHHHhcCcCcCEEEEEEeCCCCCCHHHHHHHHHHHhcCCC--EEEEEeccc
Confidence            467889999995321              001  012367799999998753310     1 1112334  799999999


Q ss_pred             CCCchhhhHH----HHHHHHHhc-----CCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          101 LASAIGADLA----VMERDALRM-----RDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       101 L~~~~~~~l~----~~~~~i~~~-----np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +.+.  .+++    .+.+.++..     .+..+++++||++|.|++++++++.-
T Consensus       156 l~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~  207 (223)
T 4dhe_A          156 KLTR--QESINALRATQKSLDAYRDAGYAGKLTVQLFSALKRTGLDDAHALIES  207 (223)
T ss_dssp             GSCH--HHHHHHHHHHHHHHHHHHHHTCCSCEEEEEEBTTTTBSHHHHHHHHHH
T ss_pred             cCCh--hhHHHHHHHHHHHHHhhhhcccCCCCeEEEeecCCCcCHHHHHHHHHH
Confidence            9987  5543    344455443     46789999999999999999998753

>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=98.51  E-value=3.1e-07  Score=67.78  Aligned_cols=98  Identities=12%  Similarity=0.015  Sum_probs=62.4

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc-------cc----CCCCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP-------RK----GGPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~-------~~----~~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      ..+.++.|.|........   -..+|.+++|+|+.....+.       ..    ....++  -++|+||+|+.+.  ...
T Consensus        69 ~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~p--iilv~NK~Dl~~~--~~~  144 (198)
T 1f6b_A           69 MTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVP--ILILGNKIDRPEA--ISE  144 (198)
T ss_dssp             EEEEEEEECC----CCGGGGGGGGCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSC--EEEEEECTTSTTC--CCH
T ss_pred             EEEEEEECCCcHhhHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCc--EEEEEECCCcccc--CCH
Confidence            455566666643211111   12578899999998764211       00    012344  5999999999875  445


Q ss_pred             HHHHHHHHhcC---------------CCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          110 AVMERDALRMR---------------DGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       110 ~~~~~~i~~~n---------------p~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +++.+.++...               ...+++++||++|.|++++++++.-
T Consensus       145 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~  195 (198)
T 1f6b_A          145 ERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQ  195 (198)
T ss_dssp             HHHHHHHTCTTTCCCSSCCCTTTCCSCCEEEEECBTTTTBSHHHHHHHHHT
T ss_pred             HHHHHHhCcccccccccccccccccCceEEEEEEECCCCCCHHHHHHHHHH
Confidence            56666665321               3468999999999999999999864

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=98.48  E-value=1.3e-07  Score=68.39  Aligned_cols=99  Identities=13%  Similarity=0.065  Sum_probs=64.4

Q ss_pred             CCCEEEEecCCceee--------------eee--ccccCceEEEEEeCCCCCCcc-----c-cCCCCcceeeEEEEecCC
Q 032030           43 KADLLLCESGGDNLA--------------ANF--SRELADYIIYIIDVSGGDKIP-----R-KGGPGITQADLLVINKTD  100 (148)
Q Consensus        43 ~~D~IliEtsG~~~~--------------~~~--~~~~~d~~i~vvDa~~~~~~~-----~-~~~~qi~~ADivViNK~D  100 (148)
                      +..+.+++|.|....              ..+  .....|.+++|+|+.......     . ......+  -++|+||+|
T Consensus        67 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~p--~i~v~nK~D  144 (195)
T 3pqc_A           67 NSKYYFVDLPGYGYAKVSKKERMLWKRLVEDYFKNRWSLQMVFLLVDGRIPPQDSDLMMVEWMKSLNIP--FTIVLTKMD  144 (195)
T ss_dssp             TTTEEEEECCCBSSSCCCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHTTCC--EEEEEECGG
T ss_pred             CCcEEEEECCCCccccCChhhHHHHHHHHHHHHhcCcCceEEEEEecCCCCCCHHHHHHHHHHHHcCCC--EEEEEEChh
Confidence            346788999995311              001  012348889999987653311     0 0011233  799999999


Q ss_pred             CCCchhhhHHHHHHHHHhcC---CCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          101 LASAIGADLAVMERDALRMR---DGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       101 L~~~~~~~l~~~~~~i~~~n---p~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +.++  .+++...+.+++..   ...+++++||++|.|++++++++.-
T Consensus       145 l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~  190 (195)
T 3pqc_A          145 KVKM--SERAKKLEEHRKVFSKYGEYTIIPTSSVTGEGISELLDLIST  190 (195)
T ss_dssp             GSCG--GGHHHHHHHHHHHHHSSCCSCEEECCTTTCTTHHHHHHHHHH
T ss_pred             cCCh--HHHHHHHHHHHHHHhhcCCCceEEEecCCCCCHHHHHHHHHH
Confidence            9987  66555444444322   3468999999999999999998753

>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=98.47  E-value=5.8e-07  Score=65.15  Aligned_cols=98  Identities=13%  Similarity=0.090  Sum_probs=62.0

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc-------cc--C--CCCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP-------RK--G--GPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~-------~~--~--~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      ..+.++++.|........   -..+|.+++|+|+.....+.       ..  .  ....+  -++|+||+|+.+.  ...
T Consensus        60 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p--iilv~NK~Dl~~~--~~~  135 (187)
T 1zj6_A           60 TRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAG--LLIFANKQDVKEC--MTV  135 (187)
T ss_dssp             EEEEEEECCC----CGGGHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCE--EEEEEECTTSTTC--CCH
T ss_pred             EEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhchhhCCCe--EEEEEECCCCcCC--CCH
Confidence            345566666643211111   13578899999998764311       00  0  12344  6999999999876  445


Q ss_pred             HHHHHHHHhc---CCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          110 AVMERDALRM---RDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       110 ~~~~~~i~~~---np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +++.+.+...   ....+++++||++|.|++++++++.-
T Consensus       136 ~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~  174 (187)
T 1zj6_A          136 AEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMS  174 (187)
T ss_dssp             HHHHHHHTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHH
T ss_pred             HHHHHHhChhhhcCCCcEEEEccCCCCcCHHHHHHHHHH
Confidence            5665555421   23458999999999999999998753

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=98.45  E-value=2.7e-07  Score=67.12  Aligned_cols=99  Identities=15%  Similarity=0.032  Sum_probs=64.4

Q ss_pred             CCCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc-------ccCC-----------CCcceeeEEEEecCCC
Q 032030           43 KADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP-------RKGG-----------PGITQADLLVINKTDL  101 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~-------~~~~-----------~qi~~ADivViNK~DL  101 (148)
                      ...+.+++|.|.-......   -..+|.+++|+|+.....+.       ....           ..++  -++|+||+|+
T Consensus        62 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~p--iilv~NK~Dl  139 (199)
T 4bas_A           62 RVAFTVFDMGGAKKFRGLWETYYDNIDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVP--FLFFANKMDA  139 (199)
T ss_dssp             TEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCC--EEEEEECTTS
T ss_pred             CEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCC--EEEEEECcCC
Confidence            4556677777753211111   13578899999998764311       0001           1333  6999999999


Q ss_pred             CCchhhhHHHHHHHHHh----cCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          102 ASAIGADLAVMERDALR----MRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       102 ~~~~~~~l~~~~~~i~~----~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      .+.  ...+.+.+.+..    .....+++++||++|.|++++++++.-
T Consensus       140 ~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~  185 (199)
T 4bas_A          140 AGA--KTAAELVEILDLTTLMGDHPFVIFASNGLKGTGVHEGFSWLQE  185 (199)
T ss_dssp             TTC--CCHHHHHHHHTHHHHHTTSCEEEEECBTTTTBTHHHHHHHHHH
T ss_pred             CCC--CCHHHHHHHhcchhhccCCeeEEEEeeCCCccCHHHHHHHHHH
Confidence            887  555555544421    235568999999999999999998753

>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=98.43  E-value=8.6e-07  Score=62.63  Aligned_cols=99  Identities=14%  Similarity=0.087  Sum_probs=64.0

Q ss_pred             CCCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc-------cc-CC---CCcceeeEEEEecCCCCCchhhh
Q 032030           43 KADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP-------RK-GG---PGITQADLLVINKTDLASAIGAD  108 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~-------~~-~~---~qi~~ADivViNK~DL~~~~~~~  108 (148)
                      +..+.+++|.|........   -..+|.+++|+|+.....+.       .. ..   ...+  -++|+||+|+.+.  ..
T Consensus        50 ~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~--~~  125 (171)
T 1upt_A           50 NLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAI--LVVFANKQDMEQA--MT  125 (171)
T ss_dssp             TEEEEEEEECCCGGGGGGGGGGCTTCSEEEEEEETTCCTTHHHHHHHHHHHHTCGGGTTCE--EEEEEECTTSTTC--CC
T ss_pred             CEEEEEEECCCChhhhHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhCCCE--EEEEEECCCCcCC--CC
Confidence            3456677777753211111   13578899999998764321       00 11   2344  6999999999886  55


Q ss_pred             HHHHHHHHHh---cCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          109 LAVMERDALR---MRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       109 l~~~~~~i~~---~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      .+.+.+.+..   .....+++++||++|.|++++++++.-
T Consensus       126 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  165 (171)
T 1upt_A          126 SSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVE  165 (171)
T ss_dssp             HHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHhCchhccCCceEEEECcCCCCcCHHHHHHHHHH
Confidence            5555555432   123458999999999999999998764

>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=98.42  E-value=9e-07  Score=63.45  Aligned_cols=97  Identities=14%  Similarity=0.105  Sum_probs=60.4

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc-------ccC----CCCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP-------RKG----GPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~-------~~~----~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      ..+.++++.|........   -..+|.+++|+|+.......       ...    ....+  -++|+||+|+.+.  ...
T Consensus        62 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~--~~~  137 (183)
T 1moz_A           62 LKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAA--LLVFANKQDQPGA--LSA  137 (183)
T ss_dssp             EEEEEEEEC----CCTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCE--EEEEEECTTSTTC--CCH
T ss_pred             EEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHcChhhCCCe--EEEEEECCCCCCC--CCH
Confidence            445666777753211111   12468889999987764321       111    12344  6999999999876  545


Q ss_pred             HHHHHHHHhc---CCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          110 AVMERDALRM---RDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       110 ~~~~~~i~~~---np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +.+.+.+...   ....+++++||++|.|++++++++.
T Consensus       138 ~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  175 (183)
T 1moz_A          138 SEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLI  175 (183)
T ss_dssp             HHHHHHTTTTTCCSSCEEEEEEBGGGTBTHHHHHHHHH
T ss_pred             HHHHHHhCcccccCCceEEEEccCCCCcCHHHHHHHHH
Confidence            5555554321   2334899999999999999999875

>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=98.40  E-value=4.7e-07  Score=65.69  Aligned_cols=98  Identities=13%  Similarity=0.109  Sum_probs=65.2

Q ss_pred             CCEEEEecCCceee--------------eeec--cccCceEEEEEeCCCCCCccc-----c-CCCCcceeeEEEEecCCC
Q 032030           44 ADLLLCESGGDNLA--------------ANFS--RELADYIIYIIDVSGGDKIPR-----K-GGPGITQADLLVINKTDL  101 (148)
Q Consensus        44 ~D~IliEtsG~~~~--------------~~~~--~~~~d~~i~vvDa~~~~~~~~-----~-~~~qi~~ADivViNK~DL  101 (148)
                      ..+.+++|.|....              ..+.  ....|.+++|+|+..+.....     . .....+  -++|+||+|+
T Consensus        69 ~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~p--~i~v~nK~Dl  146 (195)
T 1svi_A           69 DELHFVDVPGYGFAKVSKSEREAWGRMIETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKYYGIP--VIVIATKADK  146 (195)
T ss_dssp             TTEEEEECCCBCCCSSCHHHHHHHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHTTCC--EEEEEECGGG
T ss_pred             CcEEEEECCCCCccccCHHHHHHHHHHHHHHHhhhhcCCEEEEEEECCCCCCHHHHHHHHHHHHcCCC--EEEEEECccc
Confidence            36788999995321              0010  112388899999887643211     0 112334  7999999999


Q ss_pred             CCchhhhHHHHHHHHHh-c--CCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          102 ASAIGADLAVMERDALR-M--RDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       102 ~~~~~~~l~~~~~~i~~-~--np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      .++  .+++...+.+++ +  .+..+++++||++|.|++++++++.-
T Consensus       147 ~~~--~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~  191 (195)
T 1svi_A          147 IPK--GKWDKHAKVVRQTLNIDPEDELILFSSETKKGKDEAWGAIKK  191 (195)
T ss_dssp             SCG--GGHHHHHHHHHHHHTCCTTSEEEECCTTTCTTHHHHHHHHHH
T ss_pred             CCh--HHHHHHHHHHHHHHcccCCCceEEEEccCCCCHHHHHHHHHH
Confidence            987  666554444443 2  35679999999999999999998764

>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=98.37  E-value=8.9e-07  Score=64.80  Aligned_cols=97  Identities=11%  Similarity=0.151  Sum_probs=61.2

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCccc----------cCC----CCcceeeEEEEecCCCCCchh
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPR----------KGG----PGITQADLLVINKTDLASAIG  106 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~~----------~~~----~qi~~ADivViNK~DL~~~~~  106 (148)
                      +.+.++++.|.......   .-..+|.+++|+|+........          ...    ..++  -++|+||+|+.+. .
T Consensus        57 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~-~  133 (207)
T 1vg8_A           57 VTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFP--FVVLGNKIDLENR-Q  133 (207)
T ss_dssp             EEEEEEEECSSGGGSCSCCGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSC--EEEEEECTTSSCC-C
T ss_pred             EEEEEEeCCCcHHHHHhHHHHHhCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcccccCCCCc--EEEEEECCCCccc-c
Confidence            45677888885321111   1135788999999876532100          000    1233  5999999999854 0


Q ss_pred             hhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          107 ADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       107 ~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ...+...+..+ .....+++++||++|.|++++++++.
T Consensus       134 ~~~~~~~~~~~-~~~~~~~~~~Sa~~g~gi~~l~~~l~  170 (207)
T 1vg8_A          134 VATKRAQAWCY-SKNNIPYFETSAKEAINVEQAFQTIA  170 (207)
T ss_dssp             SCHHHHHHHHH-HTTSCCEEECBTTTTBSHHHHHHHHH
T ss_pred             cCHHHHHHHHH-hcCCceEEEEeCCCCCCHHHHHHHHH
Confidence            12234444443 24567899999999999999999875

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=98.37  E-value=1.4e-06  Score=63.01  Aligned_cols=98  Identities=17%  Similarity=0.132  Sum_probs=62.9

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc-------cc-C---CCCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP-------RK-G---GPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~-------~~-~---~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      ..+.+++|.|........   -..+|.+++|+|+.....+.       .. .   ....+  -++|+||+|+.+.  ...
T Consensus        66 ~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~--~~~  141 (189)
T 2x77_A           66 ISFEVWDLGGQTGVRPYWRCYFSDTDAVIYVVDSTDRDRMGVAKHELYALLDEDELRKSL--LLIFANKQDLPDA--ASE  141 (189)
T ss_dssp             EEEEEEEECCSSSSCCCCSSSSTTCCEEEEEEETTCCTTHHHHHHHHHHHHTCSTTTTCE--EEEEEECTTSTTC--CCH
T ss_pred             EEEEEEECCCCHhHHHHHHHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHhhhhcCCCe--EEEEEECCCCcCC--CCH
Confidence            456677777753211111   13568899999998764321       00 1   12344  6999999999876  555


Q ss_pred             HHHHHHHHh---cCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          110 AVMERDALR---MRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       110 ~~~~~~i~~---~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +++.+.+..   .....+++++||++|.|++++++++.-
T Consensus       142 ~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  180 (189)
T 2x77_A          142 AEIAEQLGVSSIMNRTWTIVKSSSKTGDGLVEGMDWLVE  180 (189)
T ss_dssp             HHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHH
T ss_pred             HHHHHHhChhhccCCceEEEEccCCCccCHHHHHHHHHH
Confidence            555554431   123448999999999999999998753

>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=98.37  E-value=5.5e-07  Score=65.92  Aligned_cols=98  Identities=12%  Similarity=0.089  Sum_probs=63.1

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc-------cc----CCCCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP-------RK----GGPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~-------~~----~~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      ..+.++.|.|........   -..+|.+++|+|+.......       ..    .....+  -++|+||+|+.+.  ...
T Consensus        67 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p--iilv~NK~Dl~~~--~~~  142 (190)
T 1m2o_B           67 IKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVP--FVILGNKIDAPNA--VSE  142 (190)
T ss_dssp             EEEEEEECCCSGGGTTSGGGGCTTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCC--EEEEEECTTSTTC--CCH
T ss_pred             EEEEEEECCCCHHHHHHHHHHHhcCCEEEEEEECCChHHHHHHHHHHHHHHcchhhcCCC--EEEEEECCCCcCC--CCH
Confidence            345566666643211111   13568899999998764311       00    012344  5999999999875  445


Q ss_pred             HHHHHHHHhcC----------CCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          110 AVMERDALRMR----------DGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       110 ~~~~~~i~~~n----------p~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +++.+.++...          ...+++++||++|.|++++++++.-
T Consensus       143 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~  188 (190)
T 1m2o_B          143 AELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWLSQ  188 (190)
T ss_dssp             HHHHHHTTCSSCCC---CCSSCCEEEEECBTTTTBSHHHHHHHHHT
T ss_pred             HHHHHHhCCccccccccccccceEEEEEeECCcCCCHHHHHHHHHh
Confidence            56666554321          3468999999999999999998753

>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=98.35  E-value=1.2e-06  Score=63.17  Aligned_cols=97  Identities=13%  Similarity=0.106  Sum_probs=62.3

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc-------cc-C---CCCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP-------RK-G---GPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~-------~~-~---~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      ..+.++++.|.......   .-..+|.+++|+|+.....+.       .. .   ....+  -++|+||+|+.+.  ...
T Consensus        65 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~p--iilv~NK~Dl~~~--~~~  140 (181)
T 2h17_A           65 TRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAG--LLIFANKQDVKEC--MTV  140 (181)
T ss_dssp             EEEEEEEESSSGGGTCGGGGGGTTCCEEEEEEETTCTTTHHHHHHHHHHHHTCGGGTTCE--EEEEEECTTSTTC--CCH
T ss_pred             EEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhCCCe--EEEEEECCCcccC--CCH
Confidence            45667777775321111   113568899999998764321       00 1   12344  5899999999876  444


Q ss_pred             HHHHHHHHh---cCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          110 AVMERDALR---MRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       110 ~~~~~~i~~---~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +.+.+.+..   .....+++++||++|.|++++++++.
T Consensus       141 ~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~  178 (181)
T 2h17_A          141 AEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMM  178 (181)
T ss_dssp             HHHHHHTTGGGCCSSCEEEEECBTTTTBTHHHHHHHHH
T ss_pred             HHHHHHhCcccccCCceEEEEccCCCCcCHHHHHHHHH
Confidence            555554421   12344899999999999999999875

>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=98.34  E-value=1.5e-06  Score=62.74  Aligned_cols=96  Identities=16%  Similarity=0.086  Sum_probs=63.2

Q ss_pred             CEEEEecCCceeeeeec---cccCceEEEEEeCCCCC------C---ccc------cCCCCcceeeEEEEecCCCCCchh
Q 032030           45 DLLLCESGGDNLAANFS---RELADYIIYIIDVSGGD------K---IPR------KGGPGITQADLLVINKTDLASAIG  106 (148)
Q Consensus        45 D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~------~---~~~------~~~~qi~~ADivViNK~DL~~~~~  106 (148)
                      .+.++.|.|.-....+.   -..+|.+++|+|+..+.      .   +..      .....++  -++|+||+|+.+.  
T Consensus        75 ~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~p--iilv~NK~Dl~~~--  150 (198)
T 3t1o_A           75 RFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGLTLDDVP--IVIQVNKRDLPDA--  150 (198)
T ss_dssp             EEEEEECCSCCSCSHHHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTTCCTTSSC--EEEEEECTTSTTC--
T ss_pred             EEEEEeCCChHHHHHHHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhccccCCCC--EEEEEEchhcccc--
Confidence            45667777743211111   13578899999997431      0   100      0113444  6899999999887  


Q ss_pred             hhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          107 ADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       107 ~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ...+.+.+..+..+ ..+++++||++|.|++++++++.-
T Consensus       151 ~~~~~~~~~~~~~~-~~~~~~~Sa~~~~gv~~l~~~l~~  188 (198)
T 3t1o_A          151 LPVEMVRAVVDPEG-KFPVLEAVATEGKGVFETLKEVSR  188 (198)
T ss_dssp             CCHHHHHHHHCTTC-CSCEEECBGGGTBTHHHHHHHHHH
T ss_pred             cCHHHHHHHHHhcC-CceEEEEecCCCcCHHHHHHHHHH
Confidence            66667777776432 238999999999999999998763

>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=98.34  E-value=1.3e-06  Score=63.34  Aligned_cols=99  Identities=15%  Similarity=0.092  Sum_probs=65.6

Q ss_pred             CCCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc-------c--cCC----CCcceeeEEEEecCCCCCchh
Q 032030           43 KADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP-------R--KGG----PGITQADLLVINKTDLASAIG  106 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~-------~--~~~----~qi~~ADivViNK~DL~~~~~  106 (148)
                      +..+.++++.|.......   .-..+|.+++|+|+.....+.       .  ...    ...+  -++|+||+|+.+.  
T Consensus        66 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~--  141 (190)
T 2h57_A           66 SLSFTVFDMSGQGRYRNLWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIP--ILFFANKMDLRDA--  141 (190)
T ss_dssp             SCEEEEEEECCSTTTGGGGGGGGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCC--EEEEEECTTSTTC--
T ss_pred             CEEEEEEECCCCHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhccCCCe--EEEEEeCcCcccC--
Confidence            356778888885321111   113578899999997652210       0  000    2334  6899999999876  


Q ss_pred             hhHHHHHHHHH--hcC-CCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          107 ADLAVMERDAL--RMR-DGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       107 ~~l~~~~~~i~--~~n-p~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ...+.+.+.++  .+. ...+++++||++|.|++++++++.-
T Consensus       142 ~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  183 (190)
T 2h57_A          142 VTSVKVSQLLCLENIKDKPWHICASDAIKGEGLQEGVDWLQD  183 (190)
T ss_dssp             CCHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHH
T ss_pred             CCHHHHHHHhChhhccCCceEEEEccCCCCcCHHHHHHHHHH
Confidence            55566666663  222 3568999999999999999998764

>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=98.34  E-value=1.6e-06  Score=61.64  Aligned_cols=99  Identities=12%  Similarity=0.088  Sum_probs=59.1

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc----------cc----CCCCcceeeEEEEecCCCCCchh
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP----------RK----GGPGITQADLLVINKTDLASAIG  106 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~----------~~----~~~qi~~ADivViNK~DL~~~~~  106 (148)
                      +.+.++++.|.......   .-..+|.+++|+|+.......          ..    ....++  -++|+||+|+.+...
T Consensus        58 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p--~ilv~nK~Dl~~~~~  135 (182)
T 1ky3_A           58 ATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFP--FVILGNKIDAEESKK  135 (182)
T ss_dssp             EEEEEECCC----------CCSTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCC--EEEEEECTTSCGGGC
T ss_pred             EEEEEEECCCChHhhhhhHHHhhcCCEEEEEEECCChHHHHHHHHHHHHHHHHhcccCcCCCc--EEEEEECCccccccc
Confidence            45677888885321111   113568899999987653210          00    012344  699999999964310


Q ss_pred             -hhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          107 -ADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       107 -~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                       ...+...+..+ ..+..+++++||++|.|++++++++.-
T Consensus       136 ~v~~~~~~~~~~-~~~~~~~~~~Sa~~~~gi~~l~~~l~~  174 (182)
T 1ky3_A          136 IVSEKSAQELAK-SLGDIPLFLTSAKNAINVDTAFEEIAR  174 (182)
T ss_dssp             CSCHHHHHHHHH-HTTSCCEEEEBTTTTBSHHHHHHHHHH
T ss_pred             cCCHHHHHHHHH-hcCCCeEEEEecCCCCCHHHHHHHHHH
Confidence             11233444333 245678999999999999999998753

>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=98.30  E-value=1.2e-06  Score=63.10  Aligned_cols=98  Identities=15%  Similarity=0.104  Sum_probs=63.0

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc-------cc-C---CCCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP-------RK-G---GPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~-------~~-~---~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      ..+.+++|.|.......   .-..+|.+++|+|+.......       .. .   ....+  -++|+||+|+.++  ...
T Consensus        62 ~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~--~~~  137 (186)
T 1ksh_A           62 FKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGAT--LLIFANKQDLPGA--LSC  137 (186)
T ss_dssp             EEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCE--EEEEEECTTSTTC--CCH
T ss_pred             EEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHhChhcCCCc--EEEEEeCccCCCC--CCH
Confidence            44566667665311000   113578899999998764321       00 1   12344  6999999999887  555


Q ss_pred             HHHHHHHHh---cCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          110 AVMERDALR---MRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       110 ~~~~~~i~~---~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +.+.+.+..   .....+++++||++|.|++++++++.-
T Consensus       138 ~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  176 (186)
T 1ksh_A          138 NAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLD  176 (186)
T ss_dssp             HHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHH
T ss_pred             HHHHHHhChhhccCCceEEEEeeCCCCCCHHHHHHHHHH
Confidence            556555431   134568999999999999999998753

>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=98.29  E-value=1.2e-06  Score=64.27  Aligned_cols=98  Identities=11%  Similarity=0.062  Sum_probs=60.1

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCccc-------c-C---CCCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIPR-------K-G---GPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~~-------~-~---~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      ..+.++++.|........   -..+|.+++|+|+.....+..       . .   ....+  -++|+||+|+.+.  ...
T Consensus        73 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~l~~~~~~~~~~~~p--iilv~NK~Dl~~~--~~~  148 (192)
T 2b6h_A           73 ICFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAV--LLVFANKQDMPNA--MPV  148 (192)
T ss_dssp             EEEEEEECC-----CTTHHHHHHTCCEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCE--EEEEEECTTSTTC--CCH
T ss_pred             EEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHhcccccCCCe--EEEEEECCCCCCC--CCH
Confidence            455666666643211111   125788999999987643210       0 0   12344  6999999999876  544


Q ss_pred             HHHHHHHHhc---CCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          110 AVMERDALRM---RDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       110 ~~~~~~i~~~---np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +++.+.+...   ....+++++||++|.|++++++++.-
T Consensus       149 ~~i~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~  187 (192)
T 2b6h_A          149 SELTDKLGLQHLRSRTWYVQATCATQGTGLYDGLDWLSH  187 (192)
T ss_dssp             HHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHHHHH
T ss_pred             HHHHHHhCcccccCCceEEEECcCCCcCCHHHHHHHHHH
Confidence            5555544321   23457999999999999999998764

>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=98.28  E-value=7.2e-07  Score=70.96  Aligned_cols=96  Identities=10%  Similarity=0.013  Sum_probs=65.6

Q ss_pred             CCCEEEEecCCceeee-----ee------ccccCceEEEEEeCCCCCCcc-----c-cCC--CCcceeeEEEEecCCCCC
Q 032030           43 KADLLLCESGGDNLAA-----NF------SRELADYIIYIIDVSGGDKIP-----R-KGG--PGITQADLLVINKTDLAS  103 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~-----~~------~~~~~d~~i~vvDa~~~~~~~-----~-~~~--~qi~~ADivViNK~DL~~  103 (148)
                      +..++|+.|.|...+.     .+      .-..+|.+++|+|+.++....     . ...  +..+  -++|+||+|+.+
T Consensus        54 ~~~l~l~DTpG~~~~~~~l~~~~~~~~~~~l~~ad~il~VvD~~~~~~~~~~~i~~~l~~~~~~~p--~ilV~NK~Dl~~  131 (301)
T 1wf3_A           54 RRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVP--ILLVGNKLDAAK  131 (301)
T ss_dssp             TEEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSEEEEEEETTSCCCHHHHHHHHHHGGGTTTSC--EEEEEECGGGCS
T ss_pred             CcEEEEecCccccchhhHHHHHHHHHHHHHHhcCCEEEEEEECCCCCChHHHHHHHHHHhhcCCCC--EEEEEECcccCC
Confidence            4678899999975321     01      113679999999998763311     0 011  1344  699999999987


Q ss_pred             chhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          104 AIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       104 ~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .  .. + +.+.++++.+..+++++||++|.|++++++++.
T Consensus       132 ~--~~-~-~~~~~~~~~~~~~~~~iSA~~g~gv~~l~~~l~  168 (301)
T 1wf3_A          132 Y--PE-E-AMKAYHELLPEAEPRMLSALDERQVAELKADLL  168 (301)
T ss_dssp             S--HH-H-HHHHHHHTSTTSEEEECCTTCHHHHHHHHHHHH
T ss_pred             c--hH-H-HHHHHHHhcCcCcEEEEeCCCCCCHHHHHHHHH
Confidence            6  54 0 334444445667899999999999999999875

>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=98.28  E-value=1.3e-06  Score=61.40  Aligned_cols=99  Identities=13%  Similarity=0.093  Sum_probs=63.9

Q ss_pred             CCCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCccc-------c-C---CCCcceeeEEEEecCCCCCchhhh
Q 032030           43 KADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPR-------K-G---GPGITQADLLVINKTDLASAIGAD  108 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~~-------~-~---~~qi~~ADivViNK~DL~~~~~~~  108 (148)
                      +..+.++++.|.......   .-..+|.+++|+|+.....+..       . .   ....+  -++|+||+|+.+.  ..
T Consensus        43 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~--~~  118 (164)
T 1r8s_A           43 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAV--LLVFANKQDLPNA--MN  118 (164)
T ss_dssp             SCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCE--EEEEEECTTSTTC--CC
T ss_pred             CEEEEEEEcCCChhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhchhhcCCe--EEEEEECcCCcCC--CC
Confidence            466777888885321111   1135788999999987532110       0 0   12334  6999999999876  44


Q ss_pred             HHHHHHHHHhc---CCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          109 LAVMERDALRM---RDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       109 l~~~~~~i~~~---np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      .+.+.+.....   ....+++++||++|.|++++++++.-
T Consensus       119 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  158 (164)
T 1r8s_A          119 AAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSN  158 (164)
T ss_dssp             HHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHHHHH
T ss_pred             HHHHHHHhCcccccCccEEEEEcccCCCcCHHHHHHHHHH
Confidence            45555444311   13457999999999999999998764

>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=98.28  E-value=7.9e-07  Score=75.09  Aligned_cols=98  Identities=15%  Similarity=0.147  Sum_probs=63.5

Q ss_pred             CCEEEEecCCceee-eee--ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhHHHHH-
Q 032030           44 ADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADLAVME-  113 (148)
Q Consensus        44 ~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~-  113 (148)
                      ..+.++.|.|-... ...  .-..+|..+.|+|+.++..-+.      .....++.  ++++||+|+.++  +.++.+. 
T Consensus        73 ~~i~iiDtPGh~~~~~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l~~~~~~~ip~--IvviNK~Dl~~~--~~~~~~~~  148 (482)
T 1wb1_A           73 YRITLVDAPGHADLIRAVVSAADIIDLALIVVDAKEGPKTQTGEHMLILDHFNIPI--IVVITKSDNAGT--EEIKRTEM  148 (482)
T ss_dssp             EEEEECCCSSHHHHHHHHHHHTTSCCEEEEEEETTTCSCHHHHHHHHHHHHTTCCB--CEEEECTTSSCH--HHHHHHHH
T ss_pred             EEEEEEECCChHHHHHHHHHHHhhCCEEEEEEecCCCccHHHHHHHHHHHHcCCCE--EEEEECCCcccc--hhHHHHHH
Confidence            34666677774311 000  1135799999999988643110      01124553  999999999986  5555444 


Q ss_pred             ---HHHHhc--CCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          114 ---RDALRM--RDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       114 ---~~i~~~--np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                         +.++..  .+..+++++||++|.|+++|++++.-
T Consensus       149 ~l~~~l~~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~  185 (482)
T 1wb1_A          149 IMKSILQSTHNLKNSSIIPISAKTGFGVDELKNLIIT  185 (482)
T ss_dssp             HHHHHHHHSSSGGGCCEEECCTTTCTTHHHHHHHHHH
T ss_pred             HHHHHHhhhcccccceEEEEECcCCCCHHHHHHHHHH
Confidence               444332  23679999999999999999988753

>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=98.28  E-value=6.7e-07  Score=63.15  Aligned_cols=97  Identities=18%  Similarity=0.133  Sum_probs=60.7

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCccc---c-------CCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIPR---K-------GGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~~---~-------~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      +.+.++++.|........   -..+|.+++|+|+........   .       .....+  -++|+||+|+.++-....+
T Consensus        55 ~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~~~~~~~  132 (170)
T 1z08_A           55 VNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEIC--LCIVGNKIDLEKERHVSIQ  132 (170)
T ss_dssp             EEEEEEECCCC-------CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSE--EEEEEECGGGGGGCCSCHH
T ss_pred             EEEEEEECCCcHhhhhhHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCe--EEEEEECcccccccccCHH
Confidence            456777888853211111   135688999999876532110   0       011233  5899999999764112234


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ...+..+..  +.+++++||++|.|++++++++.
T Consensus       133 ~~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~  164 (170)
T 1z08_A          133 EAESYAESV--GAKHYHTSAKQNKGIEELFLDLC  164 (170)
T ss_dssp             HHHHHHHHT--TCEEEEEBTTTTBSHHHHHHHHH
T ss_pred             HHHHHHHHc--CCeEEEecCCCCCCHHHHHHHHH
Confidence            555656544  36899999999999999999875

>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=98.27  E-value=1.9e-06  Score=61.46  Aligned_cols=97  Identities=15%  Similarity=0.140  Sum_probs=59.8

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      +.+.++++.|.......   .-..+|.+++|+|+.......          ......++  -++|+||+|+.++-....+
T Consensus        60 ~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p--iilv~nK~Dl~~~~~~~~~  137 (180)
T 2g6b_A           60 VKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVA--LMLLGNKVDSAHERVVKRE  137 (180)
T ss_dssp             EEEEEEECCCC--------CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE--EEEEEECCSTTSCCCSCHH
T ss_pred             EEEEEEeCCCcHHHHHHHHHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCCc--EEEEEECcccCcccccCHH
Confidence            35667777775321111   113568899999987653210          01112344  6899999999864111233


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ...+..+..  +.+++++||++|.|++++++++.
T Consensus       138 ~~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~  169 (180)
T 2g6b_A          138 DGEKLAKEY--GLPFMETSAKTGLNVDLAFTAIA  169 (180)
T ss_dssp             HHHHHHHHH--TCCEEECCTTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHc--CCeEEEEeCCCCCCHHHHHHHHH
Confidence            444445443  35899999999999999999875

>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=98.27  E-value=1.7e-06  Score=62.06  Aligned_cols=98  Identities=13%  Similarity=0.114  Sum_probs=54.7

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      +.+.++++.|.-......   -..+|.+++|+|+.....+.          ......++  -++|+||+|+.+.-....+
T Consensus        57 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p--iilv~nK~Dl~~~~~v~~~  134 (183)
T 2fu5_C           57 IKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVE--KMILGNKCDVNDKRQVSKE  134 (183)
T ss_dssp             EEEEEEEC---------CCTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCE--EEEEEEC--CCSCCCSCHH
T ss_pred             EEEEEEcCCCChhhhhhHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCC--EEEEEECccCCccCcCCHH
Confidence            567788888853211111   13578899999987753211          00112344  5899999999764111234


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      .+.+..+..+  .+++++||++|.|++++++++.-
T Consensus       135 ~~~~~~~~~~--~~~~~~Sa~~~~~i~~l~~~l~~  167 (183)
T 2fu5_C          135 RGEKLALDYG--IKFMETSAKANINVENAFFTLAR  167 (183)
T ss_dssp             HHHHHHHHHT--CEEEECCC---CCHHHHHHHHHH
T ss_pred             HHHHHHHHcC--CeEEEEeCCCCCCHHHHHHHHHH
Confidence            5555555443  68999999999999999998764

>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=98.26  E-value=6.4e-07  Score=66.44  Aligned_cols=96  Identities=10%  Similarity=0.014  Sum_probs=59.2

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCccc----------cCCCCcceeeEEEEecCCCCCchhhhH-
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPR----------KGGPGITQADLLVINKTDLASAIGADL-  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~~----------~~~~qi~~ADivViNK~DL~~~~~~~l-  109 (148)
                      +.+.++.|.|.......   .-..+|.+++|+|+........          ......+  -++|+||+|+.+.  .+. 
T Consensus        61 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~--~~~~  136 (218)
T 4djt_A           61 IKFNVWDTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAP--IVVCANKIDIKNR--QKIS  136 (218)
T ss_dssp             EEEEEEEECSGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCSSSC--EEEEEECTTCC------CC
T ss_pred             EEEEEEecCCchhhchHHHHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCC--EEEEEECCCCccc--cccC
Confidence            45777788875321111   1134788999999986532110          0111234  6899999999865  322 


Q ss_pred             -HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          110 -AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       110 -~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                       +...+..+  ..+.+++++||++|.|++++++++.-
T Consensus       137 ~~~~~~~~~--~~~~~~~~~Sa~~g~gv~~l~~~l~~  171 (218)
T 4djt_A          137 KKLVMEVLK--GKNYEYFEISAKTAHNFGLPFLHLAR  171 (218)
T ss_dssp             HHHHHHHTT--TCCCEEEEEBTTTTBTTTHHHHHHHH
T ss_pred             HHHHHHHHH--HcCCcEEEEecCCCCCHHHHHHHHHH
Confidence             23333333  34578999999999999999998753

>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=98.25  E-value=1.7e-06  Score=62.83  Aligned_cols=98  Identities=20%  Similarity=0.107  Sum_probs=61.5

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc-------cc-C---CCCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP-------RK-G---GPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~-------~~-~---~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      ..+.++++.|........   -..+|.+++|+|+.....+.       .. .   ...++  -++|+||+|+.+.  .+.
T Consensus        67 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~p--iilv~NK~Dl~~~--~~~  142 (188)
T 1zd9_A           67 VTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIP--VLVLGNKRDLPGA--LDE  142 (188)
T ss_dssp             EEEEEEEECCSHHHHTTHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCC--EEEEEECTTSTTC--CCH
T ss_pred             EEEEEEECCCCHhHHHHHHHHHccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcccCCCC--EEEEEECCCCccC--CCH
Confidence            345566666642110000   13578899999997653211       00 1   12344  6999999999876  444


Q ss_pred             HHHHHHHHhc---CCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          110 AVMERDALRM---RDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       110 ~~~~~~i~~~---np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +++.+.+...   ....+++++||++|.|++++++++.-
T Consensus       143 ~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~  181 (188)
T 1zd9_A          143 KELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQ  181 (188)
T ss_dssp             HHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHH
T ss_pred             HHHHHHhChhhhccCCeeEEEEECCCCCCHHHHHHHHHH
Confidence            4554444321   23458899999999999999998864

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=98.24  E-value=2.4e-06  Score=68.55  Aligned_cols=78  Identities=14%  Similarity=0.054  Sum_probs=54.9

Q ss_pred             cCceEEEEEeCCCCCCccc-------c-C---CCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcC---CCCcEEEEE
Q 032030           64 LADYIIYIIDVSGGDKIPR-------K-G---GPGITQADLLVINKTDLASAIGADLAVMERDALRMR---DGGPFIFAQ  129 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~-------~-~---~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~n---p~a~vi~tS  129 (148)
                      .+|.+++|+|+.....+..       . .   ...++  -++|+||+|+.+.  ...+.+.+.+....   ...+++++|
T Consensus       232 ~ad~vilV~D~~~~~s~~~~~~~~~~~~~~~~~~~~p--iilV~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~vS  307 (329)
T 3o47_A          232 NTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAV--LLVFANKQDLPNA--MNAAEITDKLGLHSLRHRNWYIQATC  307 (329)
T ss_dssp             TEEEEEEEEETTCSSSHHHHHHHHHHHHTCGGGTTCE--EEEEEECTTSTTC--CCHHHHHHHHTCTTCCSSCEEEEECB
T ss_pred             cCCEEEEEEECCchHHHHHHHHHHHHHHhhhccCCCe--EEEEEECccCCcc--cCHHHHHHHhchhhhhcCCCEEEEEE
Confidence            4688999999976543211       0 0   11333  5899999999887  55566666554322   345899999


Q ss_pred             ecCCCCHHHHHHhhhh
Q 032030          130 VGWVIGIIFTLSITHY  145 (148)
Q Consensus       130 a~~g~gi~~l~~~~~~  145 (148)
                      |++|.|++++++++.-
T Consensus       308 Ak~g~gi~el~~~l~~  323 (329)
T 3o47_A          308 ATSGDGLYEGLDWLSN  323 (329)
T ss_dssp             TTTTBTHHHHHHHHHH
T ss_pred             CCCCcCHHHHHHHHHH
Confidence            9999999999998753

>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=98.24  E-value=1.4e-06  Score=63.57  Aligned_cols=98  Identities=15%  Similarity=0.124  Sum_probs=61.8

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      ..+.++++.|.......   .-..+|.+++|+|+.......          ......++  -++|+||+|+.+.-....+
T Consensus        72 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~iilV~d~~~~~s~~~~~~~~~~i~~~~~~~~p--iiiv~NK~Dl~~~~~v~~~  149 (192)
T 2fg5_A           72 HKFLIWDTAGQERFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIV--MAIAGNKCDLSDIREVPLK  149 (192)
T ss_dssp             EEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCTHHHHHHHHHHHHHHHHSCTTCE--EEEEEECGGGGGGCCSCHH
T ss_pred             EEEEEEcCCCchhhHhhhHHhhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCc--EEEEEECcccccccccCHH
Confidence            34566677774211000   013468899999987764211          01112344  6899999999753112345


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      .+.+..++.  +.+++++||++|.|++++++++.-
T Consensus       150 ~~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~~  182 (192)
T 2fg5_A          150 DAKEYAESI--GAIVVETSAKNAINIEELFQGISR  182 (192)
T ss_dssp             HHHHHHHTT--TCEEEECBTTTTBSHHHHHHHHHH
T ss_pred             HHHHHHHHc--CCEEEEEeCCCCcCHHHHHHHHHH
Confidence            566666643  378999999999999999998753

>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=98.23  E-value=2.6e-06  Score=72.00  Aligned_cols=94  Identities=23%  Similarity=0.109  Sum_probs=58.7

Q ss_pred             CCCEEEEecCCceee----ee------e-ccccCceEEEEEeCCCCCCcc---------ccCCCCcceeeEEEEecCCCC
Q 032030           43 KADLLLCESGGDNLA----AN------F-SRELADYIIYIIDVSGGDKIP---------RKGGPGITQADLLVINKTDLA  102 (148)
Q Consensus        43 ~~D~IliEtsG~~~~----~~------~-~~~~~d~~i~vvDa~~~~~~~---------~~~~~qi~~ADivViNK~DL~  102 (148)
                      +..+.++.|.|....    ..      . .-..+|.+++|+|+..+....         .... ..+  .++|+||+|+.
T Consensus       280 g~~l~liDT~G~~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~s~~~~~~~~~~l~~l~-~~p--iIvV~NK~Dl~  356 (476)
T 3gee_A          280 KTMFRLTDTAGLREAGEEIEHEGIRRSRMKMAEADLILYLLDLGTERLDDELTEIRELKAAHP-AAK--FLTVANKLDRA  356 (476)
T ss_dssp             TEEEEEEC--------------------CCCSSCSEEEEEEETTTCSSGGGHHHHHHHHHHCT-TSE--EEEEEECTTSC
T ss_pred             CeEEEEEECCCCCcchhHHHHHHHHHHHhhcccCCEEEEEEECCCCcchhhhHHHHHHHHhcC-CCC--EEEEEECcCCC
Confidence            456889999997421    11      1 123579999999998775421         0111 233  79999999998


Q ss_pred             CchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          103 SAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       103 ~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +.  ...+.  +.+.+. +..+++++||++|.|+++|++++.
T Consensus       357 ~~--~~~~~--~~l~~~-~~~~~i~vSAktg~GI~eL~~~i~  393 (476)
T 3gee_A          357 AN--ADALI--RAIADG-TGTEVIGISALNGDGIDTLKQHMG  393 (476)
T ss_dssp             TT--THHHH--HHHHHH-HTSCEEECBTTTTBSHHHHHHHHT
T ss_pred             Cc--cchhH--HHHHhc-CCCceEEEEECCCCCHHHHHHHHH
Confidence            87  54432  223332 126899999999999999999875

>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=98.23  E-value=1.7e-06  Score=63.49  Aligned_cols=98  Identities=18%  Similarity=0.120  Sum_probs=61.8

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      +.+.++++.|..-....   .-..+|.+++|+|+.......          ......++  -++|+||+|+.+.-....+
T Consensus        57 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~vilv~d~~~~~s~~~~~~~~~~i~~~~~~~~p--iilv~nK~Dl~~~~~~~~~  134 (206)
T 2bcg_Y           57 VKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVL--KLLVGNKCDLKDKRVVEYD  134 (206)
T ss_dssp             EEEEEECCTTTTTTTCCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCE--EEEEEECTTCTTTCCSCHH
T ss_pred             EEEEEEeCCChHHHHHHHHHhccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCC--EEEEEECCCCccccccCHH
Confidence            45677777775311111   113568899999987653211          01122344  5899999999874112233


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ...+..+..  +.+++++||++|.|++++++++.-
T Consensus       135 ~~~~~~~~~--~~~~~~~Sa~~g~gi~~l~~~l~~  167 (206)
T 2bcg_Y          135 VAKEFADAN--KMPFLETSALDSTNVEDAFLTMAR  167 (206)
T ss_dssp             HHHHHHHHT--TCCEEECCTTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHHc--CCeEEEEeCCCCCCHHHHHHHHHH
Confidence            444555443  368999999999999999998753

>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=98.23  E-value=9.2e-07  Score=73.83  Aligned_cols=79  Identities=16%  Similarity=0.117  Sum_probs=56.0

Q ss_pred             cCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcC---CCCcEEEEEecCCC
Q 032030           64 LADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMR---DGGPFIFAQVGWVI  134 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~n---p~a~vi~tSa~~g~  134 (148)
                      .+|.+++|+|+.++..-+.      ......  .-++|+||+|+.+.-....+++.+.+++..   +.++++++||++|.
T Consensus       277 ~ad~~llviD~~~~~~~~~~~~~~~~~~~~~--~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~  354 (456)
T 4dcu_A          277 RSEVVAVVLDGEEGIIEQDKRIAGYAHEAGK--AVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPILFMSALTKK  354 (456)
T ss_dssp             HCSEEEEEEETTTCCCHHHHHHHHHHHHTTC--EEEEEEECGGGSCCCSSHHHHHHHHHHHHCGGGTTSCEEECCTTTCT
T ss_pred             hCCEEEEEEeCCCCcCHHHHHHHHHHHHcCC--CEEEEEEChhcCCCchHHHHHHHHHHHHhcccCCCCCEEEEcCCCCc
Confidence            4688899999987643111      011122  369999999998642234566666776554   36899999999999


Q ss_pred             CHHHHHHhhh
Q 032030          135 GIIFTLSITH  144 (148)
Q Consensus       135 gi~~l~~~~~  144 (148)
                      |++++++++.
T Consensus       355 gv~~l~~~i~  364 (456)
T 4dcu_A          355 RIHTLMPAII  364 (456)
T ss_dssp             TGGGHHHHHH
T ss_pred             CHHHHHHHHH
Confidence            9999998875

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=98.23  E-value=2.1e-06  Score=62.09  Aligned_cols=97  Identities=20%  Similarity=0.196  Sum_probs=59.8

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCc---c-------ccCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKI---P-------RKGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~---~-------~~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      +.+.++++.|.......   .-..+|.+++|+|+......   .       ......++  -++|+||+|+.+.-....+
T Consensus        65 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p--~ilv~nK~Dl~~~~~~~~~  142 (196)
T 3tkl_A           65 IKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVN--KLLVGNKCDLTTKKVVDYT  142 (196)
T ss_dssp             EEEEEEEECCSGGGCTTHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE--EEEEEECTTCTTTCCSCHH
T ss_pred             EEEEEEECCCcHhhhhhHHHHHhhCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCC--EEEEEECcccccccccCHH
Confidence            34556666664211100   01347889999998764321   0       01122344  5899999999865111223


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ...+..+..+  .+++++||++|.|++++|+++.
T Consensus       143 ~~~~~~~~~~--~~~~~~Sa~~g~gv~~l~~~l~  174 (196)
T 3tkl_A          143 TAKEFADSLG--IPFLETSAKNATNVEQSFMTMA  174 (196)
T ss_dssp             HHHHHHHHTT--CCEEEECTTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHcC--CcEEEEeCCCCCCHHHHHHHHH
Confidence            4445555433  6899999999999999998875

>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=98.22  E-value=2.6e-06  Score=61.70  Aligned_cols=78  Identities=17%  Similarity=0.062  Sum_probs=53.3

Q ss_pred             cCceEEEEEeCCCCCCcc-------ccC----CCCcceeeEEEEecCCCCCchhhhHHHHHHHHHh---cCCCCcEEEEE
Q 032030           64 LADYIIYIIDVSGGDKIP-------RKG----GPGITQADLLVINKTDLASAIGADLAVMERDALR---MRDGGPFIFAQ  129 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~-------~~~----~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~---~np~a~vi~tS  129 (148)
                      .+|.+++|+|+.......       ...    ....+  -++|.||+|+.+.  ...+.+.+.+..   .....+++++|
T Consensus        83 ~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p--iilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~S  158 (181)
T 1fzq_A           83 NTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVP--VLIFANKQDLLTA--APASEIAEGLNLHTIRDRVWQIQSCS  158 (181)
T ss_dssp             TCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCC--EEEEEECTTSTTC--CCHHHHHHHTTGGGCCSSCEEEEECC
T ss_pred             CCCEEEEEEECcCHHHHHHHHHHHHHHHhChhhcCCC--EEEEEECcCcccC--CCHHHHHHHhCchhccCCceEEEEcc
Confidence            578899999987653211       011    12344  6899999999876  444455444321   12345799999


Q ss_pred             ecCCCCHHHHHHhhhh
Q 032030          130 VGWVIGIIFTLSITHY  145 (148)
Q Consensus       130 a~~g~gi~~l~~~~~~  145 (148)
                      |++|.|++++++++.-
T Consensus       159 a~~g~gi~~l~~~l~~  174 (181)
T 1fzq_A          159 ALTGEGVQDGMNWVCK  174 (181)
T ss_dssp             TTTCTTHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHH
Confidence            9999999999998864

>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=98.22  E-value=1.6e-06  Score=68.81  Aligned_cols=77  Identities=18%  Similarity=0.126  Sum_probs=52.4

Q ss_pred             cCceEEEEEeCCCCCC-cc---cc----CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCC
Q 032030           64 LADYIIYIIDVSGGDK-IP---RK----GGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIG  135 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~-~~---~~----~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~g  135 (148)
                      .+|.++.|+|+..... ..   ..    ....++  -++|+||+||.+.  .+.++..+..+..+...+++++||++|.|
T Consensus        84 ~ad~vilV~D~~~~~~s~~~l~~~l~~~~~~~~p--iilv~NK~DL~~~--~~v~~~~~~~~~~~~~~~~~~~SAktg~g  159 (301)
T 1u0l_A           84 NVDQVILVVTVKMPETSTYIIDKFLVLAEKNELE--TVMVINKMDLYDE--DDLRKVRELEEIYSGLYPIVKTSAKTGMG  159 (301)
T ss_dssp             SCCEEEEEECSSTTCCCHHHHHHHHHHHHHTTCE--EEEEECCGGGCCH--HHHHHHHHHHHHHTTTSCEEECCTTTCTT
T ss_pred             cCCEEEEEEeCCCCCCCHHHHHHHHHHHHHCCCC--EEEEEeHHHcCCc--hhHHHHHHHHHHHhhhCcEEEEECCCCcC
Confidence            5788999999986541 11   11    112344  5899999999876  55444444444333227899999999999


Q ss_pred             HHHHHHhhh
Q 032030          136 IIFTLSITH  144 (148)
Q Consensus       136 i~~l~~~~~  144 (148)
                      +++++++..
T Consensus       160 v~~lf~~l~  168 (301)
T 1u0l_A          160 IEELKEYLK  168 (301)
T ss_dssp             HHHHHHHHS
T ss_pred             HHHHHHHhc
Confidence            999998753

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=98.21  E-value=1.7e-06  Score=61.65  Aligned_cols=96  Identities=13%  Similarity=0.167  Sum_probs=59.1

Q ss_pred             CEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCc------cccCCCCcceeeEEEEecCCCCCchhhhHHHHHHH
Q 032030           45 DLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKI------PRKGGPGITQADLLVINKTDLASAIGADLAVMERD  115 (148)
Q Consensus        45 D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~------~~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~  115 (148)
                      .+.++.|.|.......   .-..+|.+++|+|+..+...      .......++  -++|+||+|+.+.  . .+++.+.
T Consensus        56 ~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~l~~~~~~~~p--~ilv~nK~Dl~~~--~-~~~~~~~  130 (178)
T 2lkc_A           56 KITFLDTPGHEAFTTMRARGAQVTDIVILVVAADDGVMPQTVEAINHAKAANVP--IIVAINKMDKPEA--N-PDRVMQE  130 (178)
T ss_dssp             EEEESCCCSSSSSSCSCCSSCCCCCEEEEEEETTCCCCHHHHHHHHHHGGGSCC--EEEEEETTTSSCS--C-HHHHHHH
T ss_pred             eEEEEECCCCHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHhCCCC--EEEEEECccCCcC--C-HHHHHHH
Confidence            4556677774211111   11346888999998764221      011112344  6999999999864  2 2334444


Q ss_pred             HHhcCC-------CCcEEEEEecCCCCHHHHHHhhhh
Q 032030          116 ALRMRD-------GGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       116 i~~~np-------~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +++...       ..+++++||++|.|++++++++.-
T Consensus       131 ~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~  167 (178)
T 2lkc_A          131 LMEYNLVPEEWGGDTIFCKLSAKTKEGLDHLLEMILL  167 (178)
T ss_dssp             HTTTTCCBTTTTSSEEEEECCSSSSHHHHHHHHHHHH
T ss_pred             HHhcCcChhHcCCcccEEEEecCCCCCHHHHHHHHHH
Confidence            433221       258999999999999999998764

>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=98.21  E-value=1.5e-06  Score=61.71  Aligned_cols=98  Identities=14%  Similarity=0.072  Sum_probs=61.6

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      +.+.++++.|........   -..+|.+++|+|+.......          .......+  -++|+||+|+.++-....+
T Consensus        64 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~~~~~~~  141 (179)
T 1z0f_A           64 IKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTV--IILIGNKADLEAQRDVTYE  141 (179)
T ss_dssp             EEEEEEECTTGGGTCHHHHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE--EEEEEECTTCGGGCCSCHH
T ss_pred             EEEEEEECCCChHhhhhHHHHhccCCEEEEEEeCcCHHHHHHHHHHHHHHHHhcCCCCc--EEEEEECcccccccccCHH
Confidence            455666777742110000   12468899999987653211          01112334  6899999999754112234


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      .+.+..+..  +.+++++||++|.|++++++++.-
T Consensus       142 ~~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~~  174 (179)
T 1z0f_A          142 EAKQFAEEN--GLLFLEASAKTGENVEDAFLEAAK  174 (179)
T ss_dssp             HHHHHHHHT--TCEEEECCTTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHHc--CCEEEEEeCCCCCCHHHHHHHHHH
Confidence            566666653  468999999999999999998753

>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=98.21  E-value=2.3e-06  Score=62.02  Aligned_cols=98  Identities=15%  Similarity=0.029  Sum_probs=60.6

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc---c-------cCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP---R-------KGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~---~-------~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      ..+.++++.|.......   .-..+|.+++|+|+.......   .       ......+  -++|+||+|+.+.-....+
T Consensus        71 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p--iilv~nK~Dl~~~~~~~~~  148 (189)
T 2gf9_A           71 IKLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQ--VILVGNKCDLEDERVVPAE  148 (189)
T ss_dssp             EEEEEEECCSCCSSCCSGGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE--EEEEEECTTCGGGCCSCHH
T ss_pred             EEEEEEeCCCcHHHhhhHHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCC--EEEEEECcccccccCCCHH
Confidence            45566677774311111   113578899999987653210   0       0112344  5999999999764111223


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ...+..+..+  .+++++||++|.|++++++++.-
T Consensus       149 ~~~~~~~~~~--~~~~~~Sa~~g~gi~~l~~~l~~  181 (189)
T 2gf9_A          149 DGRRLADDLG--FEFFEASAKENINVKQVFERLVD  181 (189)
T ss_dssp             HHHHHHHHHT--CEEEECBTTTTBSHHHHHHHHHH
T ss_pred             HHHHHHHHcC--CeEEEEECCCCCCHHHHHHHHHH
Confidence            4555555443  58999999999999999998753

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=98.21  E-value=1.6e-06  Score=69.00  Aligned_cols=75  Identities=15%  Similarity=0.010  Sum_probs=53.3

Q ss_pred             cCceEEEEEeCCCCC-Ccc---cc----CCCCcceeeEEEEecCCCCCchhhh---HHHHHHHHHhcCCCCcEEEEEecC
Q 032030           64 LADYIIYIIDVSGGD-KIP---RK----GGPGITQADLLVINKTDLASAIGAD---LAVMERDALRMRDGGPFIFAQVGW  132 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~-~~~---~~----~~~qi~~ADivViNK~DL~~~~~~~---l~~~~~~i~~~np~a~vi~tSa~~  132 (148)
                      .+|.++.|+|+.+.+ ...   ..    ....++  -++|+||+||.++  .+   .+...+.+++.  +.+++++||++
T Consensus        79 naD~vliV~d~~~p~~s~~~l~~~l~~~~~~~~~--~ilV~NK~DL~~~--~~v~~~~~~~~~~~~~--g~~~~~~SA~~  152 (302)
T 2yv5_A           79 NVDRVIIVETLKMPEFNNYLLDNMLVVYEYFKVE--PVIVFNKIDLLNE--EEKKELERWISIYRDA--GYDVLKVSAKT  152 (302)
T ss_dssp             SCCEEEEEECSTTTTCCHHHHHHHHHHHHHTTCE--EEEEECCGGGCCH--HHHHHHHHHHHHHHHT--TCEEEECCTTT
T ss_pred             hcCEEEEEEECCCCCCCHHHHHHHHHHHHhCCCC--EEEEEEcccCCCc--cccHHHHHHHHHHHHC--CCeEEEEECCC
Confidence            568899999998754 211   10    112344  5999999999987  53   44555556554  35899999999


Q ss_pred             CCCHHHHHHhhh
Q 032030          133 VIGIIFTLSITH  144 (148)
Q Consensus       133 g~gi~~l~~~~~  144 (148)
                      |.|+++|++.+.
T Consensus       153 g~gi~~L~~~l~  164 (302)
T 2yv5_A          153 GEGIDELVDYLE  164 (302)
T ss_dssp             CTTHHHHHHHTT
T ss_pred             CCCHHHHHhhcc
Confidence            999999998753

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=98.20  E-value=5.7e-07  Score=64.02  Aligned_cols=98  Identities=13%  Similarity=0.084  Sum_probs=61.2

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCccc---------cCCCCcceeeEEEEecCCCCCchhhhHHH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADLAV  111 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~~---------~~~~qi~~ADivViNK~DL~~~~~~~l~~  111 (148)
                      +.+.++++.|.......   .-..+|.+++|+|+........         ...+..+  -++|+||+|+.+.-....+.
T Consensus        58 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~p--~ilv~nK~Dl~~~~~~~~~~  135 (181)
T 3tw8_B           58 VKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNCDDVC--RILVGNKNDDPERKVVETED  135 (181)
T ss_dssp             EEEEEEEETTGGGCSSCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHCTTSE--EEEEEECTTCGGGCCSCHHH
T ss_pred             EEEEEEcCCCchhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCC--EEEEEECCCCchhcccCHHH
Confidence            45677777774321111   1135688999999876532110         0112233  58999999997641112234


Q ss_pred             HHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          112 MERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       112 ~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ..+..+..  +.+++++||++|.|++++++++.-
T Consensus       136 ~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~~  167 (181)
T 3tw8_B          136 AYKFAGQM--GIQLFETSAKENVNVEEMFNCITE  167 (181)
T ss_dssp             HHHHHHHH--TCCEEECBTTTTBSHHHHHHHHHH
T ss_pred             HHHHHHHc--CCeEEEEECCCCCCHHHHHHHHHH
Confidence            44444443  358999999999999999998753

>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=98.18  E-value=2.3e-06  Score=60.22  Aligned_cols=97  Identities=15%  Similarity=0.120  Sum_probs=60.5

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      ..+.+++|.|.-......   -..+|.+++|+|+.......          ....+.++  -++|.||+|+.++-....+
T Consensus        55 ~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~--iilv~nK~Dl~~~~~v~~~  132 (170)
T 1z0j_A           55 HKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIV--VAIAGNKCDLTDVREVMER  132 (170)
T ss_dssp             EEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTSE--EEEEEECTTCGGGCCSCHH
T ss_pred             EEEEEEcCCCchhhhcccHhhCcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCCc--EEEEEECCccccccccCHH
Confidence            456777888853211111   13568899999987653210          01123344  5788899999764111123


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ...+..+..  +.+++++||++|.|++++++++.
T Consensus       133 ~~~~~~~~~--~~~~~~~Sa~~~~~i~~l~~~i~  164 (170)
T 1z0j_A          133 DAKDYADSI--HAIFVETSAKNAININELFIEIS  164 (170)
T ss_dssp             HHHHHHHHT--TCEEEECBTTTTBSHHHHHHHHH
T ss_pred             HHHHHHHHc--CCEEEEEeCCCCcCHHHHHHHHH
Confidence            444444443  36899999999999999999875

>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=98.17  E-value=2.1e-06  Score=61.22  Aligned_cols=98  Identities=16%  Similarity=0.116  Sum_probs=61.2

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      +.+.++++.|.-.....   .-..+|.+++|+|+.....+.          ....+.++  -++|+||+|+.+.-....+
T Consensus        61 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p--~i~v~nK~Dl~~~~~~~~~  138 (181)
T 2efe_B           61 VKFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMV--MALAGNKSDLLDARKVTAE  138 (181)
T ss_dssp             EEEEEEECCCSGGGGGGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCE--EEEEEECTTCTTTCCSCHH
T ss_pred             EEEEEEeCCCChhhhhhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCc--EEEEEECCcccccccCCHH
Confidence            34566777774211111   013478899999987653210          11112344  5899999999764111234


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      .+.+..+..  +.+++++||++|.|++++++++.-
T Consensus       139 ~~~~~~~~~--~~~~~~~Sa~~g~gi~~l~~~l~~  171 (181)
T 2efe_B          139 DAQTYAQEN--GLFFMETSAKTATNVKEIFYEIAR  171 (181)
T ss_dssp             HHHHHHHHT--TCEEEECCSSSCTTHHHHHHHHHH
T ss_pred             HHHHHHHHc--CCEEEEEECCCCCCHHHHHHHHHH
Confidence            555555543  468999999999999999998753

>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=98.16  E-value=2.3e-06  Score=70.29  Aligned_cols=97  Identities=18%  Similarity=0.147  Sum_probs=63.8

Q ss_pred             CCEEEEecCCceee-eee--ccccCceEEEEEeCCCCCCccc-c------C-CCCcceeeEEEEecCCCCCchhhhHHHH
Q 032030           44 ADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDKIPR-K------G-GPGITQADLLVINKTDLASAIGADLAVM  112 (148)
Q Consensus        44 ~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~~~~-~------~-~~qi~~ADivViNK~DL~~~~~~~l~~~  112 (148)
                      ..+.++.|.|-... ...  .-..+|..++|+|+.++...+. .      . ....+  -++|+||+|+.++  .+.+..
T Consensus        75 ~~~~iiDtPGh~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~~~~--iivviNK~Dl~~~--~~~~~~  150 (403)
T 3sjy_A           75 RRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIGVKN--LIIVQNKVDVVSK--EEALSQ  150 (403)
T ss_dssp             EEEEEEECCCCGGGHHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCC--EEEEEECGGGSCH--HHHHHH
T ss_pred             ceEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHcCCCC--EEEEEECccccch--HHHHHH
Confidence            46788899985321 000  1135799999999988742211 0      0 00112  4889999999987  655443


Q ss_pred             HHHH----HhcC-CCCcEEEEEecCCCCHHHHHHhhh
Q 032030          113 ERDA----LRMR-DGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       113 ~~~i----~~~n-p~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .+.+    +..+ ...+++++||++|.|+++|++++.
T Consensus       151 ~~~i~~~l~~~~~~~~~ii~vSA~~g~gi~~L~~~l~  187 (403)
T 3sjy_A          151 YRQIKQFTKGTWAENVPIIPVSALHKINIDSLIEGIE  187 (403)
T ss_dssp             HHHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHH
T ss_pred             HHHHHHHHHhhCCCCCEEEEEECCCCcChHHHHHHHH
Confidence            3333    3323 367999999999999999999875

>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=98.14  E-value=1.6e-06  Score=61.57  Aligned_cols=96  Identities=18%  Similarity=0.157  Sum_probs=59.6

Q ss_pred             CEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc---cc-------CCCCcceeeEEEEecCCCCCchhhhHHH
Q 032030           45 DLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP---RK-------GGPGITQADLLVINKTDLASAIGADLAV  111 (148)
Q Consensus        45 D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~---~~-------~~~qi~~ADivViNK~DL~~~~~~~l~~  111 (148)
                      .+.++++.|........   -..+|.+++|+|+.......   ..       ....++  -++|+||+|+.++-....+.
T Consensus        64 ~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p--iilv~nK~Dl~~~~~~~~~~  141 (179)
T 2y8e_A           64 RLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVI--IMLVGNKTDLSDKRQVSTEE  141 (179)
T ss_dssp             EEEEEEECCSGGGGGGSHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSE--EEEEEECGGGGGGCCSCHHH
T ss_pred             EEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCc--EEEEEECCcccccCcCCHHH
Confidence            45677777743211110   12568899999987642210   00       112333  58999999997541112334


Q ss_pred             HHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          112 MERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       112 ~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ..+..+..+  .+++++||++|.|++++++++.
T Consensus       142 ~~~~~~~~~--~~~~~~Sa~~~~~i~~l~~~l~  172 (179)
T 2y8e_A          142 GERKAKELN--VMFIETSAKAGYNVKQLFRRVA  172 (179)
T ss_dssp             HHHHHHHHT--CEEEEEBTTTTBSHHHHHHHHH
T ss_pred             HHHHHHHcC--CeEEEEeCCCCCCHHHHHHHHH
Confidence            455555443  6899999999999999999875

>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=98.14  E-value=7e-06  Score=65.05  Aligned_cols=98  Identities=11%  Similarity=0.008  Sum_probs=64.5

Q ss_pred             CCCEEEEecCCce-eee-----ee------ccccCceEEEEEeCCCCCCccc-----cCCCCcceeeEEEEecCCCCC-c
Q 032030           43 KADLLLCESGGDN-LAA-----NF------SRELADYIIYIIDVSGGDKIPR-----KGGPGITQADLLVINKTDLAS-A  104 (148)
Q Consensus        43 ~~D~IliEtsG~~-~~~-----~~------~~~~~d~~i~vvDa~~~~~~~~-----~~~~qi~~ADivViNK~DL~~-~  104 (148)
                      +..+.++.|.|.. .+.     .+      .-..+|.+++|+|+........     ......|  .++++||+|+.+ .
T Consensus        55 ~~~i~~iDTpG~~~~~~~~l~~~~~~~~~~~l~~~D~vl~Vvd~~~~~~~~~~i~~~l~~~~~P--~ilvlNK~D~~~~~  132 (301)
T 1ega_A           55 AYQAIYVDTPGLHMEEKRAINRLMNKAASSSIGDVELVIFVVEGTRWTPDDEMVLNKLREGKAP--VILAVNKVDNVQEK  132 (301)
T ss_dssp             TEEEEEESSSSCCHHHHHHHHHHHTCCTTSCCCCEEEEEEEEETTCCCHHHHHHHHHHHSSSSC--EEEEEESTTTCCCH
T ss_pred             CeeEEEEECcCCCccchhhHHHHHHHHHHHHHhcCCEEEEEEeCCCCCHHHHHHHHHHHhcCCC--EEEEEECcccCccH
Confidence            4567889999975 110     01      0135688899999866221110     1112344  799999999987 4


Q ss_pred             hhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          105 IGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       105 ~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                        ..+....+.+.+..+..+++++||++|.|++++++++.
T Consensus       133 --~~~~~~l~~l~~~~~~~~~i~iSA~~g~~v~~l~~~i~  170 (301)
T 1ega_A          133 --ADLLPHLQFLASQMNFLDIVPISAETGLNVDTIAAIVR  170 (301)
T ss_dssp             --HHHHHHHHHHHTTSCCSEEEECCTTTTTTHHHHHHHHH
T ss_pred             --HHHHHHHHHHHHhcCcCceEEEECCCCCCHHHHHHHHH
Confidence              44544445555544556899999999999999999875

>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=98.13  E-value=4.3e-06  Score=62.81  Aligned_cols=98  Identities=12%  Similarity=0.071  Sum_probs=62.5

Q ss_pred             CCEEEEecCCceee----------eee--ccccCceEEEEEeCCCCCCcc--------c-cCC--CCcceeeEEEEecCC
Q 032030           44 ADLLLCESGGDNLA----------ANF--SRELADYIIYIIDVSGGDKIP--------R-KGG--PGITQADLLVINKTD  100 (148)
Q Consensus        44 ~D~IliEtsG~~~~----------~~~--~~~~~d~~i~vvDa~~~~~~~--------~-~~~--~qi~~ADivViNK~D  100 (148)
                      ..+.++.|.|....          ..+  ....+|.+++|+|+.......        . ...  +..+  -++|+||+|
T Consensus        76 ~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~~~~~p--iilv~nK~D  153 (228)
T 2qu8_A           76 NKYQIIDTPGLLDRAFENRNTIEMTTITALAHINGVILFIIDISEQCGLTIKEQINLFYSIKSVFSNKS--IVIGFNKID  153 (228)
T ss_dssp             EEEEEEECTTTTTSCGGGCCHHHHHHHHHHHTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTCC-CCC--EEEEEECGG
T ss_pred             CeEEEEECCCCcCcccchhhhHHHHHHHHhhccccEEEEEEecccccCcchHHHHHHHHHHHHhhcCCc--EEEEEeCcc
Confidence            46788889887210          001  123568899999998753321        0 011  1344  699999999


Q ss_pred             CCCchhhhH-----HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          101 LASAIGADL-----AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       101 L~~~~~~~l-----~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +.+.  .++     +.+.+..+..++..+++++||++|.|++++++++.-
T Consensus       154 l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~  201 (228)
T 2qu8_A          154 KCNM--DSLSIDNKLLIKQILDNVKNPIKFSSFSTLTGVGVEQAKITACE  201 (228)
T ss_dssp             GCC----CCCHHHHHHHHHHHHHCCSCEEEEECCTTTCTTHHHHHHHHHH
T ss_pred             cCCc--hhhHHHHHHHHHHHHHhcCCCceEEEEecccCCCHHHHHHHHHH
Confidence            9865  322     234444444444579999999999999999998763

>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=98.12  E-value=1.8e-06  Score=60.67  Aligned_cols=98  Identities=16%  Similarity=0.158  Sum_probs=60.5

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      +.+.++++.|.......   .-..+|.+++|+|+.......          ....+.++  -++|.||+|+.++-....+
T Consensus        55 ~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~--iilv~nK~Dl~~~~~~~~~  132 (170)
T 1r2q_A           55 VKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIV--IALSGNKADLANKRAVDFQ  132 (170)
T ss_dssp             EEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCE--EEEEEECGGGGGGCCSCHH
T ss_pred             EEEEEEeCCCcHHhhhhhHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCc--EEEEEECccCccccccCHH
Confidence            45666777774211111   013578899999987653210          01122344  5778899999754112234


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ...+..+.  ...+++++||++|.|++++++++.-
T Consensus       133 ~~~~~~~~--~~~~~~~~Sa~~g~gi~~l~~~i~~  165 (170)
T 1r2q_A          133 EAQSYADD--NSLLFMETSAKTSMNVNEIFMAIAK  165 (170)
T ss_dssp             HHHHHHHH--TTCEEEECCTTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHH--cCCeEEEEeCCCCCCHHHHHHHHHH
Confidence            45555554  3468999999999999999998753

>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=98.10  E-value=8.8e-06  Score=60.12  Aligned_cols=78  Identities=13%  Similarity=0.040  Sum_probs=52.5

Q ss_pred             cCceEEEEEeCCCCCCcc-------ccCC----CCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecC
Q 032030           64 LADYIIYIIDVSGGDKIP-------RKGG----PGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGW  132 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~-------~~~~----~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~  132 (148)
                      .+|.+++|+|+.......       ....    ...+  -++|+||+|+.+.-....+.+.+..+..  +.+++++||++
T Consensus       107 ~~d~iilV~D~~~~~s~~~~~~~l~~i~~~~~~~~~p--iilV~NK~Dl~~~~~v~~~~~~~~~~~~--~~~~~~~Sa~~  182 (217)
T 2f7s_A          107 DAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPD--IVLIGNKADLPDQREVNERQARELADKY--GIPYFETSAAT  182 (217)
T ss_dssp             TCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCE--EEEEEECTTCGGGCCSCHHHHHHHHHHT--TCCEEEEBTTT
T ss_pred             CCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCC--EEEEEECCccccccccCHHHHHHHHHHC--CCcEEEEECCC
Confidence            578899999987653210       0110    2344  6899999999764111234555555543  36899999999


Q ss_pred             CCCHHHHHHhhhh
Q 032030          133 VIGIIFTLSITHY  145 (148)
Q Consensus       133 g~gi~~l~~~~~~  145 (148)
                      |.|++++++++.-
T Consensus       183 g~gi~~l~~~l~~  195 (217)
T 2f7s_A          183 GQNVEKAVETLLD  195 (217)
T ss_dssp             TBTHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHH
Confidence            9999999998753

>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=98.10  E-value=1.1e-05  Score=58.19  Aligned_cols=97  Identities=21%  Similarity=0.136  Sum_probs=60.2

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCc-------ccc--C--CCCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKI-------PRK--G--GPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~-------~~~--~--~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      +.+.++++.|........   -..+|.+++|+|+......       ...  .  ...++  -++|+||+|+.+. ....
T Consensus        64 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p--~ilv~nK~Dl~~~-~~~~  140 (195)
T 1x3s_A           64 AKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIV--NMLVGNKIDKENR-EVDR  140 (195)
T ss_dssp             EEEEEEEECSSGGGCCSHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCE--EEEEEECTTSSSC-CSCH
T ss_pred             EEEEEEeCCCchhhhhhhHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCc--EEEEEECCcCccc-ccCH
Confidence            446666777743111110   1357889999998765321       000  1  12333  5899999999653 0122


Q ss_pred             HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          110 AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       110 ~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +...+..+..  +.+++++||++|.|++++++++.-
T Consensus       141 ~~~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~~  174 (195)
T 1x3s_A          141 NEGLKFARKH--SMLFIEASAKTCDGVQCAFEELVE  174 (195)
T ss_dssp             HHHHHHHHHT--TCEEEECCTTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHHHc--CCEEEEecCCCCCCHHHHHHHHHH
Confidence            3455555543  468999999999999999998753

>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=98.08  E-value=8.5e-06  Score=58.80  Aligned_cols=97  Identities=15%  Similarity=0.128  Sum_probs=60.2

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc----------cc-CCCCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP----------RK-GGPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~----------~~-~~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      +++.++++.|.......   .-..+|.+++|+|+.......          .. ....++  -++|+||+|+.+. ....
T Consensus        69 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p--~ilv~nK~Dl~~~-~~~~  145 (190)
T 3con_A           69 CLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVP--MVLVGNKCDLPTR-TVDT  145 (190)
T ss_dssp             EEEEEEECCC-----------CTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCC--EEEEEECTTCSCC-CSCH
T ss_pred             EEEEEEECCChHHHHHHHHHhhCcCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCe--EEEEEECCcCCcc-cCCH
Confidence            55778888885421111   113578889999987653210          00 012344  5899999999763 0223


Q ss_pred             HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          110 AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       110 ~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +.+.+..++.+  .+++++||++|.|++++++++.-
T Consensus       146 ~~~~~~~~~~~--~~~~~~Sa~~~~gi~~l~~~l~~  179 (190)
T 3con_A          146 KQAHELAKSYG--IPFIETSAKTRQGVEDAFYTLVR  179 (190)
T ss_dssp             HHHHHHHHHHT--CCEEECCTTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHHHcC--CeEEEEeCCCCCCHHHHHHHHHH
Confidence            44555555443  58999999999999999998753

>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=98.07  E-value=3.7e-06  Score=60.99  Aligned_cols=78  Identities=17%  Similarity=0.064  Sum_probs=52.3

Q ss_pred             cCceEEEEEeCCCCCCc---c-------ccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKI---P-------RKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~---~-------~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      .+|.+++|+|+......   .       .......+  -++|+||+|+.+.-....+...+..+.  .+.+++++||++|
T Consensus        97 ~~d~vi~v~D~~~~~s~~~~~~~l~~i~~~~~~~~p--iilv~nK~Dl~~~~~~~~~~~~~~~~~--~~~~~~~~Sa~~~  172 (193)
T 2oil_A           97 GAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIV--VMLVGNKSDLSQAREVPTEEARMFAEN--NGLLFLETSALDS  172 (193)
T ss_dssp             TCCEEEEEEETTCHHHHHTHHHHHHHHHTTSCTTCE--EEEEEECGGGGGGCCSCHHHHHHHHHH--TTCEEEEECTTTC
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCe--EEEEEECCCcccccccCHHHHHHHHHH--cCCEEEEEeCCCC
Confidence            46888999998765321   0       01112334  689999999976411223445555553  3468999999999


Q ss_pred             CCHHHHHHhhhh
Q 032030          134 IGIIFTLSITHY  145 (148)
Q Consensus       134 ~gi~~l~~~~~~  145 (148)
                      .|++++++++.-
T Consensus       173 ~gi~~l~~~l~~  184 (193)
T 2oil_A          173 TNVELAFETVLK  184 (193)
T ss_dssp             TTHHHHHHHHHH
T ss_pred             CCHHHHHHHHHH
Confidence            999999998753

>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=98.06  E-value=2.9e-06  Score=60.88  Aligned_cols=98  Identities=13%  Similarity=0.051  Sum_probs=61.2

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCccc----------cCC-CCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPR----------KGG-PGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~~----------~~~-~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      +.+.++++.|.......   .-..+|.+++|+|+........          ... ..++  -++|+||+|+.+.-....
T Consensus        70 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p--iilv~nK~Dl~~~~~~~~  147 (195)
T 3bc1_A           70 IHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPD--IVLCGNKSDLEDQRAVKE  147 (195)
T ss_dssp             EEEEEEEECCSGGGHHHHHHTTTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCC--EEEEEECTTCGGGCCSCH
T ss_pred             EEEEEEeCCCcHHHHHHHHHHHcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC--EEEEEECcccccccccCH
Confidence            35666777775321000   1135788999999876532110          000 2344  699999999976311223


Q ss_pred             HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          110 AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       110 ~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +.+.+..+..+  .+++++||++|.|++++++++.-
T Consensus       148 ~~~~~~~~~~~--~~~~~~Sa~~~~~v~~l~~~l~~  181 (195)
T 3bc1_A          148 EEARELAEKYG--IPYFETSAANGTNISHAIEMLLD  181 (195)
T ss_dssp             HHHHHHHHHHT--CCEEECCTTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHHHcC--CCEEEEECCCCCCHHHHHHHHHH
Confidence            44555555443  58999999999999999998753

>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=98.06  E-value=4.9e-06  Score=60.45  Aligned_cols=97  Identities=15%  Similarity=0.106  Sum_probs=59.6

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCccc----------cCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPR----------KGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~~----------~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      +.+.++++.|.......   .-..+|.+++|+|+........          ......+  -++|+||+|+.+.-....+
T Consensus        70 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~l~~i~~~~~~~~p--iilv~nK~Dl~~~~~v~~~  147 (191)
T 2a5j_A           70 IKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMV--IMLIGNKSDLESRRDVKRE  147 (191)
T ss_dssp             EEEEEECCTTGGGTSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE--EEEEEECTTCGGGCCSCHH
T ss_pred             EEEEEEECCCchhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCC--EEEEEECcccCCccccCHH
Confidence            45566677764211111   1135788999999876532110          0112334  5899999999753011233


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ...+..++.  +.+++++||++|.|++++++++.
T Consensus       148 ~~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~  179 (191)
T 2a5j_A          148 EGEAFAREH--GLIFMETSAKTACNVEEAFINTA  179 (191)
T ss_dssp             HHHHHHHHH--TCEEEEECTTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHc--CCEEEEEeCCCCCCHHHHHHHHH
Confidence            455555543  35899999999999999998875

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=98.06  E-value=2.7e-06  Score=62.12  Aligned_cols=98  Identities=17%  Similarity=0.082  Sum_probs=60.5

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      +.+.++++.|........   -..+|.+++|+|+.......          ......++  -++|+||+|+.+.-....+
T Consensus        75 ~~l~l~Dt~G~~~~~~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~~~~i~~~~~~~~p--iilV~NK~Dl~~~~~v~~~  152 (192)
T 2il1_A           75 IRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAE--LLLVGNKLDCETDREITRQ  152 (192)
T ss_dssp             EEEEEEEECCSGGGHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE--EEEEEECGGGGGGCCSCHH
T ss_pred             EEEEEEeCCCcHHHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCc--EEEEEECcccccccccCHH
Confidence            456666777742110000   12468899999987653211          01122344  6999999999754111223


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ..++..+. ....+++++||++|.|++++++++.
T Consensus       153 ~~~~~~~~-~~~~~~~~~SA~~g~gi~~l~~~l~  185 (192)
T 2il1_A          153 QGEKFAQQ-ITGMRFCEASAKDNFNVDEIFLKLV  185 (192)
T ss_dssp             HHHHHHHT-STTCEEEECBTTTTBSHHHHHHHHH
T ss_pred             HHHHHHHh-cCCCeEEEEeCCCCCCHHHHHHHHH
Confidence            44444443 2457899999999999999999875

>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=98.05  E-value=2e-06  Score=60.55  Aligned_cols=98  Identities=13%  Similarity=0.118  Sum_probs=56.5

Q ss_pred             CCCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc-------c--cC--CCCcceeeEEEEecCCCCCchhhh
Q 032030           43 KADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP-------R--KG--GPGITQADLLVINKTDLASAIGAD  108 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~-------~--~~--~~qi~~ADivViNK~DL~~~~~~~  108 (148)
                      .+.+.+.++.|..-.....   -..+|.++.++|......+.       .  ..  ...++  -++|+||+|+.+.-...
T Consensus        48 ~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p--~ilv~nK~Dl~~~~~~~  125 (166)
T 3q72_A           48 EASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVP--IILVGNKSDLVRSREVS  125 (166)
T ss_dssp             EEEEEEEECC---------------CCEEEEEEETTCHHHHHHHHHHHHHHHHCC---CCC--EEEEEECTTCCSSCCSC
T ss_pred             EEEEEEEECCCCccchhhhhhhhhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC--EEEEEeccccccccccC
Confidence            3455667777753211111   13568889999987543210       0  01  12344  58999999998651122


Q ss_pred             HHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          109 LAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       109 l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .+...+..+..  +.+++++||++|.|++++++++.
T Consensus       126 ~~~~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~  159 (166)
T 3q72_A          126 VDEGRACAVVF--DCKFIETSAALHHNVQALFEGVV  159 (166)
T ss_dssp             HHHHHHHHHHT--TCEEEECBGGGTBSHHHHHHHHH
T ss_pred             HHHHHHHHHHh--CCcEEEeccCCCCCHHHHHHHHH
Confidence            23344444433  36999999999999999999875

>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=98.05  E-value=5.7e-06  Score=58.14  Aligned_cols=97  Identities=18%  Similarity=0.104  Sum_probs=60.2

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCc---c-------ccCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKI---P-------RKGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~---~-------~~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      +.+.++++.|.......   .-..+|.+++|+|+......   .       .......+  -++|+||+|+.+.. ...+
T Consensus        52 ~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p--iilv~nK~Dl~~~~-~~~~  128 (170)
T 1g16_A           52 VKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQ--LLLVGNKSDMETRV-VTAD  128 (170)
T ss_dssp             EEEEEECCTTGGGTSCCCHHHHTTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE--EEEEEECTTCTTCC-SCHH
T ss_pred             EEEEEEeCCCChhhhhhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCc--EEEEEECccCCcCc-cCHH
Confidence            45677777774321111   11346888999998765321   0       01122344  58999999995430 1223


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ...+..++.+  .+++++||++|.|++++++++.-
T Consensus       129 ~~~~~~~~~~--~~~~~~Sa~~~~gv~~l~~~l~~  161 (170)
T 1g16_A          129 QGEALAKELG--IPFIESSAKNDDNVNEIFFTLAK  161 (170)
T ss_dssp             HHHHHHHHHT--CCEEECBTTTTBSHHHHHHHHHH
T ss_pred             HHHHHHHHcC--CeEEEEECCCCCCHHHHHHHHHH
Confidence            4444444433  58999999999999999998753

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=98.03  E-value=1e-06  Score=64.75  Aligned_cols=97  Identities=13%  Similarity=0.037  Sum_probs=59.6

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc-------c--c--CCCCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP-------R--K--GGPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~-------~--~--~~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      +.+.+++|.|.-....+   .-..+|.+++|+|+.......       .  .  ....++  -++|+||+|+.+.-....
T Consensus        72 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p--iilv~nK~Dl~~~~~v~~  149 (201)
T 3oes_A           72 FHLHLVDTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVP--VVLVGNKADLSPEREVQA  149 (201)
T ss_dssp             EEEEEEEECCCCTTCCCCGGGTTTCCEEEEEEETTCHHHHHHHHHHHHHHHC-----CCC--EEEEEECTTCGGGCCSCH
T ss_pred             EEEEEEECCCccchHHHHHHHHhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCC--EEEEEECccCccccccCH
Confidence            44567777774321111   113478899999987643210       0  0  012344  689999999975411122


Q ss_pred             HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          110 AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       110 ~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +...+..+..+  .+++++||++|.|++++|+++.
T Consensus       150 ~~~~~~~~~~~--~~~~~~Sa~~~~~v~~l~~~l~  182 (201)
T 3oes_A          150 VEGKKLAESWG--ATFMESSARENQLTQGIFTKVI  182 (201)
T ss_dssp             HHHHHHHHHHT--CEEEECCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC--CeEEEEeCCCCCCHHHHHHHHH
Confidence            34444444433  5899999999999999998875

>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=98.03  E-value=1.8e-06  Score=61.98  Aligned_cols=97  Identities=13%  Similarity=0.051  Sum_probs=60.7

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      +.+.++++.|.......   .-..+|.+++|+|+.......          ......++  -++|+||+|+.++-....+
T Consensus        59 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~~~~~~~  136 (186)
T 2bme_A           59 VKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIV--IILCGNKKDLDADREVTFL  136 (186)
T ss_dssp             EEEEEEEECCSGGGHHHHHTTSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE--EEEEEECGGGGGGCCSCHH
T ss_pred             EEEEEEeCCCcHHHHHHHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCc--EEEEEECcccccccccCHH
Confidence            45566777774321100   113578899999987653210          01123344  6999999999653112223


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ...+..+.  .+.+++++||++|.|++++++++.
T Consensus       137 ~~~~~~~~--~~~~~~~~Sa~~~~gi~~l~~~l~  168 (186)
T 2bme_A          137 EASRFAQE--NELMFLETSALTGENVEEAFVQCA  168 (186)
T ss_dssp             HHHHHHHH--TTCEEEECCTTTCTTHHHHHHHHH
T ss_pred             HHHHHHHH--cCCEEEEecCCCCCCHHHHHHHHH
Confidence            45555553  347899999999999999999875

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=98.03  E-value=1e-05  Score=63.75  Aligned_cols=75  Identities=15%  Similarity=0.014  Sum_probs=54.2

Q ss_pred             cCceEEEEEeCCCCCCcc--c--cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHH
Q 032030           64 LADYIIYIIDVSGGDKIP--R--KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFT  139 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~--~--~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l  139 (148)
                      .+|.++.|+|+..+....  .  .+-...+  -++|+||+||++.  +..+...+++++.  +.+++++||++|.|++++
T Consensus        23 ~aDvVl~VvDAr~p~~~~~~~l~~~l~~kp--~ilVlNK~DL~~~--~~~~~~~~~~~~~--g~~~i~iSA~~~~gi~~L   96 (282)
T 1puj_A           23 LIDIVYELVDARIPMSSRNPMIEDILKNKP--RIMLLNKADKADA--AVTQQWKEHFENQ--GIRSLSINSVNGQGLNQI   96 (282)
T ss_dssp             GCSEEEEEEETTSTTTTSCHHHHHHCSSSC--EEEEEECGGGSCH--HHHHHHHHHHHTT--TCCEEECCTTTCTTGGGH
T ss_pred             hCCEEEEEEeCCCCCccCCHHHHHHHCCCC--EEEEEECcccCCH--HHHHHHHHHHHhc--CCcEEEEECCCcccHHHH
Confidence            578899999998764321  1  1112334  6999999999987  6666666666532  358999999999999998


Q ss_pred             HHhhh
Q 032030          140 LSITH  144 (148)
Q Consensus       140 ~~~~~  144 (148)
                      ++.+.
T Consensus        97 ~~~i~  101 (282)
T 1puj_A           97 VPASK  101 (282)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            87553

>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=98.02  E-value=5.2e-06  Score=60.68  Aligned_cols=98  Identities=16%  Similarity=0.016  Sum_probs=60.6

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      +.+.++++.|..-....   .-..+|.+++|+|+.......          .......+  -++|+||+|+.+.-....+
T Consensus        57 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p--iilv~nK~Dl~~~~~~~~~  134 (203)
T 1zbd_A           57 IKLQIWDTAGLERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQ--VLLVGNKCDMEDERVVSSE  134 (203)
T ss_dssp             EEEEEEEECCSGGGHHHHHTTGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCSSCE--EEEEEECTTCTTSCCSCHH
T ss_pred             EEEEEEECCCchhhcchHHHhhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCC--EEEEEECcccCcccccCHH
Confidence            44566666664311000   013478899999987653210          00112344  5899999999764112234


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ...+..+..+  .+++++||++|.|++++++++.-
T Consensus       135 ~~~~~~~~~~--~~~~~~Sa~~~~gi~~l~~~l~~  167 (203)
T 1zbd_A          135 RGRQLADHLG--FEFFEASAKDNINVKQTFERLVD  167 (203)
T ss_dssp             HHHHHHHHHT--CEEEECBTTTTBSSHHHHHHHHH
T ss_pred             HHHHHHHHCC--CeEEEEECCCCCCHHHHHHHHHH
Confidence            4555555443  58999999999999999998753

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.02  E-value=2e-05  Score=61.51  Aligned_cols=75  Identities=9%  Similarity=0.038  Sum_probs=53.5

Q ss_pred             cCceEEEEEeCCCCCCccc-cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHh
Q 032030           64 LADYIIYIIDVSGGDKIPR-KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSI  142 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~-~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~  142 (148)
                      .+|.++.|+|+..+..... ... -+..--++|+||+||++.  ...+...+++++.  +.++ .+||++|.|+++|++.
T Consensus        21 ~~D~vl~VvDar~P~~~~~~~l~-ll~k~~iivlNK~DL~~~--~~~~~~~~~~~~~--g~~v-~iSa~~~~gi~~L~~~   94 (262)
T 3cnl_A           21 LVNTVVEVRDARAPFATSAYGVD-FSRKETIILLNKVDIADE--KTTKKWVEFFKKQ--GKRV-ITTHKGEPRKVLLKKL   94 (262)
T ss_dssp             TCSEEEEEEETTSTTTTSCTTSC-CTTSEEEEEEECGGGSCH--HHHHHHHHHHHHT--TCCE-EECCTTSCHHHHHHHH
T ss_pred             hCCEEEEEeeCCCCCcCcChHHH-hcCCCcEEEEECccCCCH--HHHHHHHHHHHHc--CCeE-EEECCCCcCHHHHHHH
Confidence            5789999999976543211 001 112236999999999987  7666666666643  3567 9999999999999987


Q ss_pred             hh
Q 032030          143 TH  144 (148)
Q Consensus       143 ~~  144 (148)
                      +.
T Consensus        95 l~   96 (262)
T 3cnl_A           95 SF   96 (262)
T ss_dssp             CC
T ss_pred             HH
Confidence            64

>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=98.01  E-value=5.6e-06  Score=60.83  Aligned_cols=98  Identities=14%  Similarity=0.073  Sum_probs=60.6

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCccc----------cCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPR----------KGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~~----------~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      +.+.++++.|.......   .-..+|.+++|+|+........          .....++  -++|+||+|+.+.-....+
T Consensus        74 ~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~~~v~~~  151 (200)
T 2o52_A           74 VKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIV--VILCGNKKDLDPEREVTFL  151 (200)
T ss_dssp             EEEEEECCTTHHHHSCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTCTTCE--EEEEEECGGGGGGCCSCHH
T ss_pred             eEEEEEcCCCcHhHHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCc--EEEEEECCCcccccccCHH
Confidence            45666677774211111   0135788999999876532110          0122344  5899999999754111223


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ...+..+.  .+.+++++||++|.|++++++++.-
T Consensus       152 ~~~~~~~~--~~~~~~~~SA~~g~gi~~l~~~l~~  184 (200)
T 2o52_A          152 EASRFAQE--NELMFLETSALTGENVEEAFLKCAR  184 (200)
T ss_dssp             HHHHHHHH--TTCEEEEECTTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHH--cCCEEEEEeCCCCCCHHHHHHHHHH
Confidence            45555554  3468999999999999999998753

>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=98.01  E-value=1.2e-05  Score=68.03  Aligned_cols=95  Identities=14%  Similarity=0.067  Sum_probs=62.5

Q ss_pred             CCEEEEecCCce-eee----ee-------ccccCceEEEEEeCCCCCCccc--c--CCCCcceeeEEEEecCCCCCchhh
Q 032030           44 ADLLLCESGGDN-LAA----NF-------SRELADYIIYIIDVSGGDKIPR--K--GGPGITQADLLVINKTDLASAIGA  107 (148)
Q Consensus        44 ~D~IliEtsG~~-~~~----~~-------~~~~~d~~i~vvDa~~~~~~~~--~--~~~qi~~ADivViNK~DL~~~~~~  107 (148)
                      ..+.++.|.|.- ...    .+       .-..+|.+++|+|+........  .  .....+  -++|+||+|+.+.  .
T Consensus       291 ~~~~l~DTaG~~~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~s~~~~~il~~l~~~p--iivV~NK~DL~~~--~  366 (482)
T 1xzp_A          291 ILFRIVDTAGVRSETNDLVERLGIERTLQEIEKADIVLFVLDASSPLDEEDRKILERIKNKR--YLVVINKVDVVEK--I  366 (482)
T ss_dssp             EEEEEEESSCCCSSCCTTCCCCCHHHHHHHHHHCSEEEEEEETTSCCCHHHHHHHHHHTTSS--EEEEEEECSSCCC--C
T ss_pred             eEEEEEECCCccccchhhHHHHHHHHHHHHhhcccEEEEEecCCCCCCHHHHHHHHHhcCCC--EEEEEECcccccc--c
Confidence            457888898875 221    00       0125789999999877643211  0  001233  6999999999865  3


Q ss_pred             hHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          108 DLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       108 ~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ..+.+.+..   ....+++++||++|.|+++|++++.-
T Consensus       367 ~~~~~~~~~---~~~~~~i~iSAktg~Gi~eL~~~l~~  401 (482)
T 1xzp_A          367 NEEEIKNKL---GTDRHMVKISALKGEGLEKLEESIYR  401 (482)
T ss_dssp             CHHHHHHHH---TCSTTEEEEEGGGTCCHHHHHHHHHH
T ss_pred             CHHHHHHHh---cCCCcEEEEECCCCCCHHHHHHHHHH
Confidence            444444433   23468999999999999999988753

>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=98.01  E-value=1.5e-05  Score=65.49  Aligned_cols=99  Identities=13%  Similarity=0.073  Sum_probs=62.3

Q ss_pred             CCEEEEecCCceee-eee--ccccCceEEEEEeCCCCC-Ccccc--C--CCCcce-eeEEEEecCCCCCchhhhH----H
Q 032030           44 ADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGD-KIPRK--G--GPGITQ-ADLLVINKTDLASAIGADL----A  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~-~~~~~--~--~~qi~~-ADivViNK~DL~~~~~~~l----~  110 (148)
                      ..+.|+.|.|-... ..+  .-..+|..+.|+|+.++. ..+..  .  -..+.. --++++||+|+.++  .+.    +
T Consensus        83 ~~i~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~~~~~~iivviNK~Dl~~~--~~~~~~~~  160 (410)
T 1kk1_A           83 RRVSFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIGQKNIIIAQNKIELVDK--EKALENYR  160 (410)
T ss_dssp             EEEEEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCCCEEEEEECGGGSCH--HHHHHHHH
T ss_pred             cEEEEEECCChHHHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHHHHHHHcCCCcEEEEEECccCCCH--HHHHHHHH
Confidence            45778888885321 111  113569999999998764 21100  0  000111 13688999999986  543    3


Q ss_pred             HHHHHHHhc-CCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          111 VMERDALRM-RDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       111 ~~~~~i~~~-np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ++.+.+++. ....+++++||++|.|+++|++++.
T Consensus       161 ~i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~  195 (410)
T 1kk1_A          161 QIKEFIEGTVAENAPIIPISALHGANIDVLVKAIE  195 (410)
T ss_dssp             HHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHH
T ss_pred             HHHHHHHhcCcCCCeEEEeeCCCCCCHHHHHHHHH
Confidence            444545432 2467999999999999999999875

>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=98.00  E-value=5.8e-06  Score=60.05  Aligned_cols=78  Identities=17%  Similarity=0.015  Sum_probs=51.3

Q ss_pred             cCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      .+|.+++|+|+.....+.          ......++  -++|+||+|+.+.-....+...+..+..  +.+++++||++|
T Consensus        95 ~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p--iilv~nK~Dl~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~  170 (191)
T 3dz8_A           95 GAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQ--VILVGNKCDMEEERVVPTEKGQLLAEQL--GFDFFEASAKEN  170 (191)
T ss_dssp             TCCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE--EEEEEECTTCGGGCCSCHHHHHHHHHHH--TCEEEECBTTTT
T ss_pred             cCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCC--EEEEEECCCCccccccCHHHHHHHHHHc--CCeEEEEECCCC
Confidence            568899999987642210          01112444  5899999999654112223444444443  358999999999


Q ss_pred             CCHHHHHHhhhh
Q 032030          134 IGIIFTLSITHY  145 (148)
Q Consensus       134 ~gi~~l~~~~~~  145 (148)
                      .|++++++++.-
T Consensus       171 ~gi~~l~~~l~~  182 (191)
T 3dz8_A          171 ISVRQAFERLVD  182 (191)
T ss_dssp             BSHHHHHHHHHH
T ss_pred             CCHHHHHHHHHH
Confidence            999999998753

>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=98.00  E-value=2.1e-06  Score=72.32  Aligned_cols=93  Identities=15%  Similarity=0.089  Sum_probs=58.2

Q ss_pred             CCCEEEEecCCceee----ee------e-ccccCceEEEEEeCCCCCCcc-----ccCCCCcceeeEEEEecCCCCCchh
Q 032030           43 KADLLLCESGGDNLA----AN------F-SRELADYIIYIIDVSGGDKIP-----RKGGPGITQADLLVINKTDLASAIG  106 (148)
Q Consensus        43 ~~D~IliEtsG~~~~----~~------~-~~~~~d~~i~vvDa~~~~~~~-----~~~~~qi~~ADivViNK~DL~~~~~  106 (148)
                      +..+.++.|.|.-..    ..      . .-..+|.+++|+|+..+....     .... ..+  .++|+||+|+.+.  
T Consensus       271 g~~v~liDT~G~~~~~~~ve~~gi~~~~~~~~~aD~vl~VvD~s~~~~~~~~~i~~~l~-~~p--iivV~NK~Dl~~~--  345 (462)
T 3geh_A          271 GIPVQVLDTAGIRETSDQVEKIGVERSRQAANTADLVLLTIDAATGWTTGDQEIYEQVK-HRP--LILVMNKIDLVEK--  345 (462)
T ss_dssp             TEEEEECC--------------------CCCCSCSEEEEEEETTTCSCHHHHHHHHHHT-TSC--EEEEEECTTSSCG--
T ss_pred             CEEEEEEECCccccchhHHHHHHHHHHhhhhhcCCEEEEEeccCCCCCHHHHHHHHhcc-CCc--EEEEEECCCCCcc--
Confidence            456789999996321    11      1 113579999999998764321     1011 123  7999999999887  


Q ss_pred             hhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          107 ADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       107 ~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ...+    .++++....+++++||++|.|+++|++++.
T Consensus       346 ~~~~----~~~~~~~~~~~i~iSAktg~Gi~eL~~~i~  379 (462)
T 3geh_A          346 QLIT----SLEYPENITQIVHTAAAQKQGIDSLETAIL  379 (462)
T ss_dssp             GGST----TCCCCTTCCCEEEEBTTTTBSHHHHHHHHH
T ss_pred             hhhH----HHHHhccCCcEEEEECCCCCCHHHHHHHHH
Confidence            5433    233333567899999999999999998875

>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=98.00  E-value=4.4e-06  Score=58.56  Aligned_cols=98  Identities=13%  Similarity=0.057  Sum_probs=61.3

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCc---c-------c-cCCCCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKI---P-------R-KGGPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~---~-------~-~~~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      +.+.++++.|........   -..+|.+++++|+......   .       . ......+  -++|+||+|+.++-....
T Consensus        51 ~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p--iilv~nK~Dl~~~~~~~~  128 (167)
T 1c1y_A           51 CMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVP--MILVGNKCDLEDERVVGK  128 (167)
T ss_dssp             EEEEEEEECSSCSSTTHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCC--EEEEEECTTCGGGCCSCH
T ss_pred             EEEEEEECCChHHHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCcCCCc--EEEEEECccccccccCCH
Confidence            346677787753211111   1246888999998764211   0       0 0122344  589999999976411123


Q ss_pred             HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          110 AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       110 ~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +...+..+. .+..+++++||++|.|++++++++.
T Consensus       129 ~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~l~~~l~  162 (167)
T 1c1y_A          129 EQGQNLARQ-WCNCAFLESSAKSKINVNEIFYDLV  162 (167)
T ss_dssp             HHHHHHHHH-TTSCEEEECBTTTTBSHHHHHHHHH
T ss_pred             HHHHHHHHH-ccCCcEEEecCCCCCCHHHHHHHHH
Confidence            445554443 3467899999999999999999875

>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=97.99  E-value=6.7e-06  Score=58.16  Aligned_cols=98  Identities=12%  Similarity=0.058  Sum_probs=57.6

Q ss_pred             CCEEEEecCCceee--eeec---cccCceEEEEEeCCCCCCcc---------ccC--CCCcceeeEEEEecCCCCCchhh
Q 032030           44 ADLLLCESGGDNLA--ANFS---RELADYIIYIIDVSGGDKIP---------RKG--GPGITQADLLVINKTDLASAIGA  107 (148)
Q Consensus        44 ~D~IliEtsG~~~~--~~~~---~~~~d~~i~vvDa~~~~~~~---------~~~--~~qi~~ADivViNK~DL~~~~~~  107 (148)
                      +.+.++++.|....  ..+.   -..+|.+++|+|+.....+.         ...  ...++  -++|+||+|+.+.-..
T Consensus        52 ~~~~~~D~~g~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~~~p--iilv~NK~Dl~~~~~v  129 (175)
T 2nzj_A           52 TTLVVVDTWEAEKLDKSWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVP--IILVGNKADLARCREV  129 (175)
T ss_dssp             EEEEEECCC-------CHHHHHTTTSCSEEEEEEETTCHHHHHHHHHHHHHHHHCC----CC--EEEEEECTTCTTTCCS
T ss_pred             EEEEEEecCCCCccchhhhHHhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhccCCCC--EEEEEEChhhcccccc
Confidence            45677788876431  1111   13468889999987642210         001  12344  5999999999764111


Q ss_pred             hHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          108 DLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       108 ~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ..+...+..+..+  .+++++||++|.|++++++++.-
T Consensus       130 ~~~~~~~~~~~~~--~~~~~~Sa~~g~gi~~l~~~l~~  165 (175)
T 2nzj_A          130 SVEEGRACAVVFD--CKFIETSATLQHNVAELFEGVVR  165 (175)
T ss_dssp             CHHHHHHHHHHHT--SEEEECBTTTTBSHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcC--CeEEEEecCCCCCHHHHHHHHHH
Confidence            2233444444333  68999999999999999998753

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=97.99  E-value=5.2e-06  Score=68.87  Aligned_cols=81  Identities=17%  Similarity=0.138  Sum_probs=53.5

Q ss_pred             cCceEEEEEeCCCCCCcccc--CC--CCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcC---CCCcEEEEEecCCCCH
Q 032030           64 LADYIIYIIDVSGGDKIPRK--GG--PGITQADLLVINKTDLASAIGADLAVMERDALRMR---DGGPFIFAQVGWVIGI  136 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~~--~~--~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~n---p~a~vi~tSa~~g~gi  136 (148)
                      .+|.++.|+|+.++...+..  ..  ......-++|+||+|+.+.-....+++.+.+++..   +.+|++++||++|.|+
T Consensus       257 ~ad~~llv~D~~~~~s~~~~~~~~~~~~~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~SA~tg~~v  336 (436)
T 2hjg_A          257 RSEVVAVVLDGEEGIIEQDKRIAGYAHEAGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPILFMSALTKKRI  336 (436)
T ss_dssp             HCSEEEEEEETTTCCCHHHHHHHHHHHHTTCEEEEEEECGGGSCCCTTHHHHHHHHHHHHCGGGTTSCEEECCTTTCTTG
T ss_pred             hCCEEEEEEcCCcCCcHHHHHHHHHHHHcCCcEEEEEECccCCCcchHHHHHHHHHHHHhcccCCCCCEEEEecccCCCH
Confidence            35788999999887542110  00  00123479999999998751112344555554332   5789999999999999


Q ss_pred             HHHHHhhh
Q 032030          137 IFTLSITH  144 (148)
Q Consensus       137 ~~l~~~~~  144 (148)
                      +++++.+.
T Consensus       337 ~~l~~~i~  344 (436)
T 2hjg_A          337 HTLMPAII  344 (436)
T ss_dssp             GGHHHHHH
T ss_pred             HHHHHHHH
Confidence            99998764

>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=97.98  E-value=2.8e-06  Score=62.70  Aligned_cols=99  Identities=13%  Similarity=0.087  Sum_probs=60.2

Q ss_pred             CCCEEEEecCCceeeee-ec---cccCceEEEEEeCCCCCC----ccc----------cCCCCcceeeEEEEecCCCCCc
Q 032030           43 KADLLLCESGGDNLAAN-FS---RELADYIIYIIDVSGGDK----IPR----------KGGPGITQADLLVINKTDLASA  104 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~-~~---~~~~d~~i~vvDa~~~~~----~~~----------~~~~qi~~ADivViNK~DL~~~  104 (148)
                      +..+.++.|.|...... +.   -..+|.+++|+|+.....    ...          ......+  -++|+||+|+.+.
T Consensus        53 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~  130 (214)
T 2fh5_B           53 GNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPS--LLIACNKQDIAMA  130 (214)
T ss_dssp             CCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCE--EEEEEECTTSTTC
T ss_pred             ccEEEEEECCCChhHHHHHHHHHHhhCCEEEEEEECCCcCHHHHHHHHHHHHHHhhhhhcccCCC--EEEEEECCCCCCc
Confidence            35577788888532111 11   135688899999876321    000          0122344  6999999999876


Q ss_pred             hhhhHHHHHHHHHh------------------------cCC-------------CCcEEEEEecCC------CCHHHHHH
Q 032030          105 IGADLAVMERDALR------------------------MRD-------------GGPFIFAQVGWV------IGIIFTLS  141 (148)
Q Consensus       105 ~~~~l~~~~~~i~~------------------------~np-------------~a~vi~tSa~~g------~gi~~l~~  141 (148)
                        ...+.+.+.+++                        ...             ..+++++||++|      .|++++++
T Consensus       131 --~~~~~~~~~l~~~l~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~~~~~~gv~~lf~  208 (214)
T 2fh5_B          131 --KSAKLIQQQLEKELNTLRVTRSAAPSTLDSSSTAPAQLGKKGKEFEFSQLPLKVEFLECSAKGGRGDTGSADIQDLEK  208 (214)
T ss_dssp             --CCHHHHHHHHHHHHHHHHHHCC------------CCCSSCTTSCCCGGGSSSCEEEEECBCC-------CCBCHHHHH
T ss_pred             --ccHHHHHHHHHHHHHHHhccchhccccccCCccccccccCCCCCcccccCCCcEEEEEeeccCCCccccccChHHHHH
Confidence              444444333331                        111             567999999999      99999999


Q ss_pred             hhhh
Q 032030          142 ITHY  145 (148)
Q Consensus       142 ~~~~  145 (148)
                      +++-
T Consensus       209 ~l~~  212 (214)
T 2fh5_B          209 WLAK  212 (214)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8763

>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=97.97  E-value=7.9e-06  Score=58.00  Aligned_cols=98  Identities=7%  Similarity=0.053  Sum_probs=60.9

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc----------ccC----CCCcceeeEEEEecCCCCCchh
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP----------RKG----GPGITQADLLVINKTDLASAIG  106 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~----------~~~----~~qi~~ADivViNK~DL~~~~~  106 (148)
                      +.+.++++.|.......   .-..+|.+++++|+.......          ...    ...++  -++|+||+|+.+. .
T Consensus        56 ~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p--~i~v~nK~Dl~~~-~  132 (177)
T 1wms_A           56 VTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFP--FVILGNKIDISER-Q  132 (177)
T ss_dssp             EEEEEEECCCCGGGHHHHGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSC--EEEEEECTTCSSC-S
T ss_pred             EEEEEEeCCCchhhhhhHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHHccccccCCCc--EEEEEECCccccc-c
Confidence            45667777774321111   113468889999987653210          000    12334  5899999999743 0


Q ss_pred             hhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          107 ADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       107 ~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ...+.+.+..+. ....+++++||++|.|++++++++.-
T Consensus       133 ~~~~~~~~~~~~-~~~~~~~~~Sa~~~~gi~~l~~~l~~  170 (177)
T 1wms_A          133 VSTEEAQAWCRD-NGDYPYFETSAKDATNVAAAFEEAVR  170 (177)
T ss_dssp             SCHHHHHHHHHH-TTCCCEEECCTTTCTTHHHHHHHHHH
T ss_pred             cCHHHHHHHHHh-cCCceEEEEeCCCCCCHHHHHHHHHH
Confidence            223445554442 45678999999999999999998753

>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=97.97  E-value=6.1e-06  Score=57.88  Aligned_cols=98  Identities=15%  Similarity=0.019  Sum_probs=59.7

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCch---hh
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAI---GA  107 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~---~~  107 (148)
                      +.+.++++.|........   -..+|.+++|+|+.......          .......+  -++|+||+|+.+..   ..
T Consensus        52 ~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~~~~~~v  129 (170)
T 1ek0_A           52 VKFEIWDTAGQERFASLAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDII--IALVGNKIDXLQEGGERKV  129 (170)
T ss_dssp             EEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCE--EEEEEECGGGGGSSCCCCS
T ss_pred             EEEEEEECCCChhhhhhhhhhhccCcEEEEEEecCChHHHHHHHHHHHHHHHhcCCCCc--EEEEEECCCccccccccCC
Confidence            456677777743111110   13568899999987653210          11123444  58999999997530   01


Q ss_pred             hHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          108 DLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       108 ~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ..+...+..+..  +.+++++||++|.|++++++++.-
T Consensus       130 ~~~~~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~~  165 (170)
T 1ek0_A          130 AREEGEKLAEEK--GLLFFETSAKTGENVNDVFLGIGE  165 (170)
T ss_dssp             CHHHHHHHHHHH--TCEEEECCTTTCTTHHHHHHHHHT
T ss_pred             CHHHHHHHHHHc--CCEEEEEeCCCCCCHHHHHHHHHH
Confidence            112333444432  368999999999999999998753

>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=97.97  E-value=9.3e-06  Score=66.80  Aligned_cols=100  Identities=18%  Similarity=0.145  Sum_probs=57.6

Q ss_pred             CCEEEEecCCceee-eee--ccccCceEEEEEeCCCCC-Cccc------cCCCCcceeeEEEEecCCCCCchh--hhHHH
Q 032030           44 ADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGD-KIPR------KGGPGITQADLLVINKTDLASAIG--ADLAV  111 (148)
Q Consensus        44 ~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~-~~~~------~~~~qi~~ADivViNK~DL~~~~~--~~l~~  111 (148)
                      ..+.++.|.|-... ..+  .-..+|..+.|+|+.++. .-+.      .....++ --++++||+|+.+...  ...++
T Consensus        81 ~~i~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~l~~~-~iivv~NK~Dl~~~~~~~~~~~~  159 (408)
T 1s0u_A           81 RRVSFVDSPGHETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLMALEILGID-KIIIVQNKIDLVDEKQAEENYEQ  159 (408)
T ss_dssp             EEEEEEECSSHHHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHHHHHHTTCC-CEEEEEECTTSSCTTTTTTHHHH
T ss_pred             cEEEEEECCCHHHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHHHHHHcCCC-eEEEEEEccCCCCHHHHHHHHHH
Confidence            45778888884321 111  113469999999998764 2110      0000111 1379999999987510  23455


Q ss_pred             HHHHHHhcC-CCCcEEEEEecCCCCHHHHHHhhh
Q 032030          112 MERDALRMR-DGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       112 ~~~~i~~~n-p~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +.+.+++.. ...+++++||++|.|+++|++++.
T Consensus       160 i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~  193 (408)
T 1s0u_A          160 IKEFVKGTIAENAPIIPISAHHEANIDVLLKAIQ  193 (408)
T ss_dssp             HHHHHTTSTTTTCCEEEC------CHHHHHHHHH
T ss_pred             HHHHHhhcCCCCCeEEEeeCCCCCCHHHHHHHHH
Confidence            666665432 467999999999999999999876

>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=97.97  E-value=7.3e-06  Score=60.36  Aligned_cols=79  Identities=19%  Similarity=0.045  Sum_probs=52.2

Q ss_pred             cCceEEEEEeCCCCCCcc---c-------cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKIP---R-------KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~---~-------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      .+|.+++|+|+.....+.   .       .....++  -++|+||+|+.+.-....+.+.+..+..+ ..+++++||++|
T Consensus       101 ~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~p--iilv~NK~Dl~~~~~v~~~~~~~~~~~~~-~~~~~~~SA~~g  177 (201)
T 2hup_A          101 SANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIV--QLLIGNKSDLSELREVSLAEAQSLAEHYD-ILCAIETSAKDS  177 (201)
T ss_dssp             TCSEEEEEEETTBHHHHHTHHHHHHHHHHHSCTTCE--EEEEEECTTCGGGCCSCHHHHHHHHHHTT-CSEEEECBTTTT
T ss_pred             hCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCC--EEEEEECCccccccccCHHHHHHHHHHcC-CCEEEEEeCCCC
Confidence            578899999987643211   0       0112344  58999999997630022345555555432 238999999999


Q ss_pred             CCHHHHHHhhhh
Q 032030          134 IGIIFTLSITHY  145 (148)
Q Consensus       134 ~gi~~l~~~~~~  145 (148)
                      .|++++++++.-
T Consensus       178 ~gi~~l~~~l~~  189 (201)
T 2hup_A          178 SNVEEAFLRVAT  189 (201)
T ss_dssp             BSHHHHHHHHHH
T ss_pred             CCHHHHHHHHHH
Confidence            999999998753

>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=97.96  E-value=6.6e-06  Score=61.01  Aligned_cols=97  Identities=13%  Similarity=0.058  Sum_probs=58.2

Q ss_pred             CEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhhHHH
Q 032030           45 DLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGADLAV  111 (148)
Q Consensus        45 D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~l~~  111 (148)
                      .+.+++|.|.-.....   .-..+|.+++|+|+.......          .......+  -++|+||+|+.+.-....+.
T Consensus        76 ~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~~p--iilv~NK~Dl~~~~~v~~~~  153 (201)
T 2ew1_A           76 KLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVI--TVLVGNKIDLAERREVSQQR  153 (201)
T ss_dssp             EEEEEEECCSGGGHHHHGGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE--EEEEEECGGGGGGCSSCHHH
T ss_pred             EEEEEECCCcHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCC--EEEEEECCCCccccccCHHH
Confidence            4556666664211000   013578899999987653210          01122333  58899999997531011234


Q ss_pred             HHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          112 MERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       112 ~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ..+..+..  +.+++++||++|.|++++++++.-
T Consensus       154 ~~~~~~~~--~~~~~~~Sa~~g~gv~~l~~~l~~  185 (201)
T 2ew1_A          154 AEEFSEAQ--DMYYLETSAKESDNVEKLFLDLAC  185 (201)
T ss_dssp             HHHHHHHH--TCCEEECCTTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHc--CCEEEEEeCCCCCCHHHHHHHHHH
Confidence            44444433  368999999999999999998753

>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=97.96  E-value=6.2e-06  Score=58.82  Aligned_cols=79  Identities=11%  Similarity=0.111  Sum_probs=50.9

Q ss_pred             cCceEEEEEeCCCCCCc---c-------cc---CCCCcceeeEEEEecCCCCC--chhhhHHHHHHHHHhcCCCCcEEEE
Q 032030           64 LADYIIYIIDVSGGDKI---P-------RK---GGPGITQADLLVINKTDLAS--AIGADLAVMERDALRMRDGGPFIFA  128 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~---~-------~~---~~~qi~~ADivViNK~DL~~--~~~~~l~~~~~~i~~~np~a~vi~t  128 (148)
                      .+|.+++|+|+......   .       ..   ..+.++  -++|.||+|+.+  .-....+...+..+.. ...+++++
T Consensus        72 ~~d~~ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~~~p--iilv~nK~Dl~~~~~~~v~~~~~~~~~~~~-~~~~~~~~  148 (178)
T 2iwr_A           72 WADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLA--LALVGTQDRISASSPRVVGDARARALXADM-KRCSYYET  148 (178)
T ss_dssp             HCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCSSSCCCE--EEEEEECTTCBTTBCCCSCHHHHHHHHHHH-SSEEEEEE
T ss_pred             hCCEEEEEEECcCHHHHHHHHHHHHHHHHHHhcCCCCCC--EEEEEECccccccccCcCCHHHHHHHHHhh-cCCeEEEE
Confidence            46888999998765321   0       00   012344  689999999942  1001223444444433 34689999


Q ss_pred             EecCCCCHHHHHHhhhh
Q 032030          129 QVGWVIGIIFTLSITHY  145 (148)
Q Consensus       129 Sa~~g~gi~~l~~~~~~  145 (148)
                      ||++|.|++++|+++.-
T Consensus       149 Sa~~~~~i~~lf~~l~~  165 (178)
T 2iwr_A          149 XATYGLNVDRVFQEVAQ  165 (178)
T ss_dssp             BTTTTBTHHHHHHHHHH
T ss_pred             eccccCCHHHHHHHHHH
Confidence            99999999999998764

>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=97.95  E-value=5.9e-06  Score=57.70  Aligned_cols=98  Identities=11%  Similarity=0.072  Sum_probs=61.8

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc----------cc-CCCCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP----------RK-GGPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~----------~~-~~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      +.+.++++.|........   -..+|.+++|+|+.......          .. .....+  -++|+||+|+.+.-....
T Consensus        52 ~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p--iilv~nK~Dl~~~~~~~~  129 (168)
T 1u8z_A           52 VQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVP--FLLVGNKSDLEDKRQVSV  129 (168)
T ss_dssp             EEEEEEECCC---CHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSC--EEEEEECGGGGGGCCSCH
T ss_pred             EEEEEEECCCcchhHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCc--EEEEEECccccccCccCH
Confidence            567788888853211111   12468889999987643210          00 112344  599999999976411223


Q ss_pred             HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          110 AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       110 ~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +...+..+..+  .+++++||++|.|++++++++.-
T Consensus       130 ~~~~~~~~~~~--~~~~~~Sa~~~~gi~~l~~~l~~  163 (168)
T 1u8z_A          130 EEAKNRADQWN--VNYVETSAKTRANVDKVFFDLMR  163 (168)
T ss_dssp             HHHHHHHHHHT--CEEEECCTTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHHHcC--CeEEEeCCCCCCCHHHHHHHHHH
Confidence            45566665544  58999999999999999998753

>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=97.95  E-value=5.3e-06  Score=60.86  Aligned_cols=97  Identities=20%  Similarity=0.087  Sum_probs=58.3

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCc---c-------ccCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKI---P-------RKGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~---~-------~~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      +.+.++++.|.-.....   .-..+|.+++|+|+.....+   .       .......+  -++|+||+|+... ....+
T Consensus        69 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p--iilv~nK~Dl~~~-~~~~~  145 (213)
T 3cph_A           69 VKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQ--LLLVGNKSDMETR-VVTAD  145 (213)
T ss_dssp             EEEEEECCTTGGGGTCCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTTTCSE--EEEEEECTTCSSC-CSCHH
T ss_pred             EEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCC--EEEEEECCCCccc-ccCHH
Confidence            34566666664211000   01356889999998765321   0       01112344  5899999999543 01223


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ...+..+..+  .+++++||++|.|++++++++.-
T Consensus       146 ~~~~~~~~~~--~~~~~~Sa~~~~gi~~l~~~l~~  178 (213)
T 3cph_A          146 QGEALAKELG--IPFIESSAKNDDNVNEIFFTLAK  178 (213)
T ss_dssp             HHHHHHHHHT--CCEEECBTTTTBSSHHHHHHHHH
T ss_pred             HHHHHHHHcC--CEEEEEeCCCCCCHHHHHHHHHH
Confidence            3444444433  58999999999999999998753

>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=97.94  E-value=1.4e-05  Score=57.18  Aligned_cols=77  Identities=18%  Similarity=0.120  Sum_probs=52.7

Q ss_pred             cCceEEEEEeCCCCCCc---c-------c-cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEec-
Q 032030           64 LADYIIYIIDVSGGDKI---P-------R-KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVG-  131 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~---~-------~-~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~-  131 (148)
                      .+|.+++|+|+.....+   .       . .....++  -++|+||+|+.+.-....+...+..+..+  .+++++||+ 
T Consensus        89 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p--~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~--~~~~~~Sa~~  164 (183)
T 3kkq_A           89 TGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFP--MILVANKVDLMHLRKVTRDQGKEMATKYN--IPYIETSAKD  164 (183)
T ss_dssp             HCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCC--EEEEEECTTCSTTCCSCHHHHHHHHHHHT--CCEEEEBCSS
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCc--EEEEEECCCchhccCcCHHHHHHHHHHhC--CeEEEeccCC
Confidence            36888999998765211   0       0 0122344  58999999997631123345555566554  789999999 


Q ss_pred             CCCCHHHHHHhhh
Q 032030          132 WVIGIIFTLSITH  144 (148)
Q Consensus       132 ~g~gi~~l~~~~~  144 (148)
                      +|.|++++++++.
T Consensus       165 ~~~~v~~l~~~l~  177 (183)
T 3kkq_A          165 PPLNVDKTFHDLV  177 (183)
T ss_dssp             SCBSHHHHHHHHH
T ss_pred             CCCCHHHHHHHHH
Confidence            9999999999875

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=97.93  E-value=6.2e-06  Score=60.05  Aligned_cols=98  Identities=19%  Similarity=0.128  Sum_probs=54.0

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc----------ccCC---CCcceeeEEEEecCCCCC-chh
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP----------RKGG---PGITQADLLVINKTDLAS-AIG  106 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~----------~~~~---~qi~~ADivViNK~DL~~-~~~  106 (148)
                      +.+.++++.|........   -..+|.+++|+|+.......          ....   ..++  -++|+||+|+.+ .-.
T Consensus        73 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~p--iilv~nK~Dl~~~~~~  150 (208)
T 2yc2_C           73 VELFLLDTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLR--AVLVANKTDLPPQRHQ  150 (208)
T ss_dssp             EEEEEEETTTTHHHHHHHSTTCCCCCEEEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSCCE--EEEEEECC-------C
T ss_pred             EEEEEEECCCcHHHHHHHHHHHhhCcEEEEEEECCCHHHHHHHHHHHHHHHHhhcccccCCc--EEEEEECcccchhhcc
Confidence            457788888863211111   13578899999987653210          0011   2344  599999999987 300


Q ss_pred             hhHHHHHHHHHhcCCCCcEEEEEecC-CCCHHHHHHhhhh
Q 032030          107 ADLAVMERDALRMRDGGPFIFAQVGW-VIGIIFTLSITHY  145 (148)
Q Consensus       107 ~~l~~~~~~i~~~np~a~vi~tSa~~-g~gi~~l~~~~~~  145 (148)
                      ...+.+.+..++.+  .+++++||++ |.|++++++++.-
T Consensus       151 v~~~~~~~~~~~~~--~~~~~~Sa~~~~~gi~~l~~~i~~  188 (208)
T 2yc2_C          151 VRLDMAQDWATTNT--LDFFDVSANPPGKDADAPFLSIAT  188 (208)
T ss_dssp             CCHHHHHHHHHHTT--CEEEECCC-------CHHHHHHHH
T ss_pred             CCHHHHHHHHHHcC--CEEEEeccCCCCcCHHHHHHHHHH
Confidence            22345666666554  6899999999 9999999998753

>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=97.92  E-value=1.1e-05  Score=58.81  Aligned_cols=97  Identities=11%  Similarity=0.073  Sum_probs=61.1

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCc----------cccC-CCCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKI----------PRKG-GPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~----------~~~~-~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      +.+.++++.|........   -..+|.+++|+|+.....+          .... ...++  -++|+||+|+.+.-....
T Consensus        62 ~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p--iilv~nK~Dl~~~~~~~~  139 (206)
T 2bov_A           62 VQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVP--FLLVGNKSDLEDKRQVSV  139 (206)
T ss_dssp             EEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCC--EEEEEECTTCGGGCCSCH
T ss_pred             EEEEEEcCCChhhhHHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC--EEEEEeccCccccccccH
Confidence            356677777743211110   1246888999998764321          0001 12344  599999999976411234


Q ss_pred             HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          110 AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       110 ~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +.+.+..+..+  .+++++||++|.|++++++++.
T Consensus       140 ~~~~~~~~~~~--~~~~~~Sa~~g~gi~~l~~~l~  172 (206)
T 2bov_A          140 EEAKNRAEQWN--VNYVETSAKTRANVDKVFFDLM  172 (206)
T ss_dssp             HHHHHHHHHHT--CEEEEECTTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHHhC--CeEEEEeCCCCCCHHHHHHHHH
Confidence            45666666544  5899999999999999999875

>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=97.90  E-value=1.1e-05  Score=61.20  Aligned_cols=78  Identities=19%  Similarity=0.151  Sum_probs=52.0

Q ss_pred             cCceEEEEEeCCCCCCc---c-------ccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKI---P-------RKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~---~-------~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      .++.++.+.|......+   .       ....+.++  -+||.||+||.+.-.-..+...+..++.+  ++++.|||++|
T Consensus        85 ~a~~~ilv~di~~~~Sf~~i~~~~~~i~~~~~~~~p--iilVgNK~Dl~~~r~V~~~e~~~~a~~~~--~~~~e~SAktg  160 (216)
T 4dkx_A           85 DSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVI--IMLVGNKTDLADKRQVSIEEGERKAKELN--VMFIETSAKAG  160 (216)
T ss_dssp             TCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSE--EEEEEECTTCGGGCCSCHHHHHHHHHHHT--CEEEEEBTTTT
T ss_pred             cccEEEEEeecchhHHHHHHHHHHHHHHHhcCCCCe--EEEEeeccchHhcCcccHHHHhhHHHHhC--CeeEEEeCCCC
Confidence            46777888887654221   0       11123344  58899999997640012345566666554  68999999999


Q ss_pred             CCHHHHHHhhhh
Q 032030          134 IGIIFTLSITHY  145 (148)
Q Consensus       134 ~gi~~l~~~~~~  145 (148)
                      .|++++|+.++-
T Consensus       161 ~nV~e~F~~i~~  172 (216)
T 4dkx_A          161 YNVKQLFRRVAA  172 (216)
T ss_dssp             BSHHHHHHHHHH
T ss_pred             cCHHHHHHHHHH
Confidence            999999998763

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=97.90  E-value=7.5e-06  Score=61.14  Aligned_cols=98  Identities=12%  Similarity=-0.030  Sum_probs=56.8

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      +.+.+++|.|.-....+   .-..+|.+++|+|+.......          ......++  -++|+||+|+.+.-....+
T Consensus        62 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~vilV~D~~~~~s~~~~~~~l~~i~~~~~~~~p--iilv~nK~Dl~~~~~v~~~  139 (223)
T 3cpj_B           62 IKAQIWDTAGQERYRAITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVA--VGLIGNKSDLAHLRAVPTE  139 (223)
T ss_dssp             EEEEEECCTTTTTTTCCCGGGTTTCCEEEEEEC-CCHHHHHHHHHHHHHHHHHCC--CE--EEEEECCGGGGGGCCSCHH
T ss_pred             EEEEEEECCCccchhhhHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCCCCe--EEEEEECcccccccccCHH
Confidence            34556666664211001   113468889999987653211          00112334  5899999999753111223


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ...+..+..  +.+++++||++|.|++++++++.-
T Consensus       140 ~~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~~  172 (223)
T 3cpj_B          140 ESKTFAQEN--QLLFTETSALNSENVDKAFEELIN  172 (223)
T ss_dssp             HHHHHHHHT--TCEEEECCCC-CCCHHHHHHHHHH
T ss_pred             HHHHHHHHc--CCEEEEEeCCCCCCHHHHHHHHHH
Confidence            455555543  368999999999999999998753

>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=97.89  E-value=1.1e-05  Score=56.78  Aligned_cols=98  Identities=14%  Similarity=0.076  Sum_probs=60.2

Q ss_pred             CCCEEEEecCCceeeee-ecc---ccCceEEEEEeCCCCCCcc----------ccC-CCCcceeeEEEEecCCCCCchhh
Q 032030           43 KADLLLCESGGDNLAAN-FSR---ELADYIIYIIDVSGGDKIP----------RKG-GPGITQADLLVINKTDLASAIGA  107 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~-~~~---~~~d~~i~vvDa~~~~~~~----------~~~-~~qi~~ADivViNK~DL~~~~~~  107 (148)
                      .+.+.+.++.|...... +.+   ..+|.++.|+|+.......          ... ...++  -++|+||+|+.+.-..
T Consensus        50 ~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p--~ilv~nK~Dl~~~~~~  127 (169)
T 3q85_A           50 EVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLP--VILVGNKSDLARSREV  127 (169)
T ss_dssp             EEEEEEECCCCC--------CHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCC--EEEEEECTTCGGGCCS
T ss_pred             EEEEEEEECCCccccchhhhhhhhccCCEEEEEEECCChHHHHHHHHHHHHHHhcccCCCCC--EEEEeeCcchhhcccC
Confidence            34566778887643211 111   2368889999987642110          001 12344  6899999999754112


Q ss_pred             hHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          108 DLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       108 ~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ..+...+..+..  +.+++++||++|.|++++++++.
T Consensus       128 ~~~~~~~~~~~~--~~~~~~~Sa~~~~~v~~l~~~l~  162 (169)
T 3q85_A          128 SLEEGRHLAGTL--SCKHIETSAALHHNTRELFEGAV  162 (169)
T ss_dssp             CHHHHHHHHHHT--TCEEEECBTTTTBSHHHHHHHHH
T ss_pred             CHHHHHHHHHHc--CCcEEEecCccCCCHHHHHHHHH
Confidence            234455555544  46899999999999999999875

>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=97.89  E-value=5.6e-07  Score=69.95  Aligned_cols=95  Identities=19%  Similarity=0.079  Sum_probs=61.3

Q ss_pred             CCCEEEEecCCceeee------e----e-----ccccCceEEEEEeCCCCCCc----cccCCCCcceeeEEEEecCCCCC
Q 032030           43 KADLLLCESGGDNLAA------N----F-----SRELADYIIYIIDVSGGDKI----PRKGGPGITQADLLVINKTDLAS  103 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~------~----~-----~~~~~d~~i~vvDa~~~~~~----~~~~~~qi~~ADivViNK~DL~~  103 (148)
                      +..+.++.|.|.--..      .    +     .....|.++.|+|+.+.+..    .......++  -++|+||+|+.+
T Consensus        47 ~~~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~vi~VvDas~~~~~~~l~~~l~~~~~p--vilv~NK~Dl~~  124 (256)
T 3iby_A           47 EHLIEITDLPGVYSLVANAEGISQDEQIAAQSVIDLEYDCIINVIDACHLERHLYLTSQLFELGKP--VVVALNMMDIAE  124 (256)
T ss_dssp             TEEEEEEECCCCSSCC------CHHHHHHHHHHHHSCCSEEEEEEEGGGHHHHHHHHHHHTTSCSC--EEEEEECHHHHH
T ss_pred             CeEEEEEeCCCcccccccccCCCHHHHHHHHHHhhCCCCEEEEEeeCCCchhHHHHHHHHHHcCCC--EEEEEEChhcCC
Confidence            3468899999973211      1    1     01357999999999874321    111122344  799999999875


Q ss_pred             ch--hhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          104 AI--GADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       104 ~~--~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .-  ....+.+.+.+     +.|++++||++|.|++++++++.
T Consensus       125 ~~~~~~~~~~l~~~l-----g~~vi~~SA~~g~gi~el~~~i~  162 (256)
T 3iby_A          125 HRGISIDTEKLESLL-----GCSVIPIQAHKNIGIPALQQSLL  162 (256)
T ss_dssp             HTTCEECHHHHHHHH-----CSCEEECBGGGTBSHHHHHHHHH
T ss_pred             cCCcHHHHHHHHHHc-----CCCEEEEECCCCCCHHHHHHHHH
Confidence            41  01223333332     36999999999999999999874

>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=97.89  E-value=9.4e-06  Score=57.88  Aligned_cols=98  Identities=11%  Similarity=0.076  Sum_probs=61.1

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc----------cc-CCCCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP----------RK-GGPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~----------~~-~~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      +.+.++++.|........   -..+|.+++|+|+.......          .. ....++  -++|+||+|+.+.-....
T Consensus        66 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p--iilv~nK~Dl~~~~~~~~  143 (187)
T 2a9k_A           66 VQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVP--FLLVGNKSDLEDKRQVSV  143 (187)
T ss_dssp             EEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTCC--EEEEEECGGGGGGCCSCH
T ss_pred             EEEEEEECCCCcccHHHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCC--EEEEEECccccccCccCH
Confidence            355666777743211110   12468889999987643210          00 112344  589999999976411234


Q ss_pred             HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          110 AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       110 ~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +.+.+..+..+  .+++++||++|.|++++++++.-
T Consensus       144 ~~~~~~~~~~~--~~~~~~Sa~~~~gi~~l~~~l~~  177 (187)
T 2a9k_A          144 EEAKNRAEQWN--VNYVETSAKTRANVDKVFFDLMR  177 (187)
T ss_dssp             HHHHHHHHHTT--CEEEECCTTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHHHcC--CeEEEeCCCCCCCHHHHHHHHHH
Confidence            55666666543  58999999999999999998753

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=97.88  E-value=7.8e-07  Score=65.28  Aligned_cols=96  Identities=20%  Similarity=0.212  Sum_probs=54.6

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhhH-
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGADL-  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~l-  109 (148)
                      +.+.++++.|.-.....   .-..+|.+++|+|+.....+.          ......++  -++|+||+|+.+.  ... 
T Consensus        82 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~p--~ilv~nK~Dl~~~--~~v~  157 (199)
T 3l0i_B           82 IKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVN--KLLVGNKCDLTTK--KVVD  157 (199)
T ss_dssp             EEEEEECCTTCTTCCCCSCC--CCCSEEEECC-CCCSHHHHHHHHHHHHHHSCC-CCSE--EEEC-CCSSCC----CCCC
T ss_pred             EEEEEEECCCcHhHHHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccCCCC--EEEEEECccCCcc--ccCC
Confidence            56778888885321111   113578899999988753210          11112344  5899999999764  322 


Q ss_pred             -HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          110 -AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       110 -~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                       +...+..+..  +.+++++||++|.|++++++++.-
T Consensus       158 ~~~~~~~~~~~--~~~~~~vSA~~g~gv~~l~~~l~~  192 (199)
T 3l0i_B          158 YTTAKEFADSL--GIPFLETSAKNATNVEQSFMTMAA  192 (199)
T ss_dssp             SCC-CHHHHTT--TCCBCCCCC---HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHc--CCeEEEEECCCCCCHHHHHHHHHH
Confidence             2334444433  368999999999999999998764

>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=97.87  E-value=2.4e-05  Score=54.27  Aligned_cols=98  Identities=14%  Similarity=0.124  Sum_probs=62.1

Q ss_pred             CCCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc----------cc-CCCCcceeeEEEEecCCCCCchhhh
Q 032030           43 KADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP----------RK-GGPGITQADLLVINKTDLASAIGAD  108 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~----------~~-~~~qi~~ADivViNK~DL~~~~~~~  108 (148)
                      .+++.++++.|........   -..+|.+++++|+.......          .. ....++  -++|+||+|+.+.. ..
T Consensus        50 ~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~p--~iiv~nK~Dl~~~~-~~  126 (166)
T 2ce2_X           50 TCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVP--MVLVGNKSDLAART-VE  126 (166)
T ss_dssp             EEEEEEEECCCCSSCCHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTCSCCC--EEEEEECTTCSCCC-SC
T ss_pred             EEEEEEEECCCchhhhHHHHHhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCc--EEEEEEchhhhhcc-cC
Confidence            4567788888854211111   12468889999987543210          00 011344  58999999998640 22


Q ss_pred             HHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          109 LAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       109 l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      .+...+..++.+  .+++++||++|.|++++++++.-
T Consensus       127 ~~~~~~~~~~~~--~~~~~~Sa~~~~gi~~l~~~l~~  161 (166)
T 2ce2_X          127 SRQAQDLARSYG--IPYIETSAKTRQGVEDAFYTLVR  161 (166)
T ss_dssp             HHHHHHHHHHHT--CCEEEECTTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHcC--CeEEEecCCCCCCHHHHHHHHHH
Confidence            234444444433  58999999999999999998764

>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=97.86  E-value=9.9e-06  Score=59.25  Aligned_cols=78  Identities=18%  Similarity=0.098  Sum_probs=49.5

Q ss_pred             cCceEEEEEeCCCCCCccc----------cCCCCcceeeEEEEecCCCCCch------hhhHHHHHHHHHhcCCCCcEEE
Q 032030           64 LADYIIYIIDVSGGDKIPR----------KGGPGITQADLLVINKTDLASAI------GADLAVMERDALRMRDGGPFIF  127 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~----------~~~~qi~~ADivViNK~DL~~~~------~~~l~~~~~~i~~~np~a~vi~  127 (148)
                      .+|.+++|+|+........          .....++  -++|+||+|+.+..      .-..+...+..+..  +.++++
T Consensus       100 ~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~~~p--iilv~NK~Dl~~~~~~~~~~~v~~~~~~~~~~~~--~~~~~~  175 (199)
T 2p5s_A          100 KADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVP--IMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTY--GALFCE  175 (199)
T ss_dssp             HCSEEEEEEETTCHHHHHTHHHHHHHHHHHC---CC--EEEEEECGGGHHHHHHTTCCCCCHHHHHHHHHHH--TCEEEE
T ss_pred             hCCEEEEEEECCChHHHHHHHHHHHHHHHhcCCCCC--EEEEEECcccccccccccccccCHHHHHHHHHHc--CCeEEE
Confidence            4688999999876532110          0112344  68999999996320      01122334444433  358999


Q ss_pred             EEecCCCCHHHHHHhhhh
Q 032030          128 AQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       128 tSa~~g~gi~~l~~~~~~  145 (148)
                      +||++|.|++++++++.-
T Consensus       176 ~SA~~g~gv~el~~~l~~  193 (199)
T 2p5s_A          176 TSAKDGSNIVEAVLHLAR  193 (199)
T ss_dssp             CCTTTCTTHHHHHHHHHH
T ss_pred             eeCCCCCCHHHHHHHHHH
Confidence            999999999999998764

>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=97.86  E-value=2.9e-07  Score=72.05  Aligned_cols=95  Identities=18%  Similarity=0.160  Sum_probs=60.6

Q ss_pred             CCCEEEEecCCceeeee------e---------ccccCceEEEEEeCCCCCCcc----ccCCCCcceeeEEEEecCCCCC
Q 032030           43 KADLLLCESGGDNLAAN------F---------SRELADYIIYIIDVSGGDKIP----RKGGPGITQADLLVINKTDLAS  103 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~------~---------~~~~~d~~i~vvDa~~~~~~~----~~~~~qi~~ADivViNK~DL~~  103 (148)
                      +..+.++.|.|......      .         .....|.++.|+|+.+.+...    ......++  -++|+||+|+.+
T Consensus        49 ~~~~~liDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~~d~ii~VvD~~~~~~~~~~~~~l~~~~~p--~ivv~NK~Dl~~  126 (274)
T 3i8s_A           49 DHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGDADLLINVVDASNLERNLYLTLQLLELGIP--CIVALNMLDIAE  126 (274)
T ss_dssp             SCEEEEEECCCCSCSCC----CCHHHHHHHHHHHHTCCSEEEEEEEGGGHHHHHHHHHHHHHHTCC--EEEEEECHHHHH
T ss_pred             CCceEEEECcCCCccccccccCCHHHHHHHHHHhhcCCCEEEEEecCCChHHHHHHHHHHHhcCCC--EEEEEECccchh
Confidence            45688899999632110      0         013578999999987643211    01111344  799999999875


Q ss_pred             chh--hhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          104 AIG--ADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       104 ~~~--~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .-.  ...+.+.+.+     +.|++++||++|.|++++++++.
T Consensus       127 ~~~~~~~~~~l~~~l-----g~~~i~~SA~~g~gi~el~~~i~  164 (274)
T 3i8s_A          127 KQNIRIEIDALSARL-----GCPVIPLVSTRGRGIEALKLAID  164 (274)
T ss_dssp             HTTEEECHHHHHHHH-----TSCEEECCCGGGHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHhc-----CCCEEEEEcCCCCCHHHHHHHHH
Confidence            400  1223333332     26899999999999999998875

>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=97.86  E-value=4.4e-06  Score=59.33  Aligned_cols=96  Identities=14%  Similarity=0.103  Sum_probs=59.8

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc----------c-cCCCCcceeeEEEEecCCCCCchhhh-
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP----------R-KGGPGITQADLLVINKTDLASAIGAD-  108 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~----------~-~~~~qi~~ADivViNK~DL~~~~~~~-  108 (148)
                      +.+.++++.|........   -..+|.+++|+|+.......          . .....++  -++|+||+|+.+.  .+ 
T Consensus        57 ~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~--~~v  132 (181)
T 2fn4_A           57 ARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFP--VVLVGNKADLESQ--RQV  132 (181)
T ss_dssp             EEEEEEECCCTTTTSCCHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCC--EEEEEECGGGGGG--CCS
T ss_pred             EEEEEEECCCchhhHHHHHHHHhhCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCC--EEEEEECcccccc--ccc
Confidence            455667777743111110   12468889999987643210          0 0122344  5999999999764  22 


Q ss_pred             -HHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          109 -LAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       109 -l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                       .+...+..+.  .+.+++++||++|.|++++++++.-
T Consensus       133 ~~~~~~~~~~~--~~~~~~~~Sa~~~~gv~~l~~~l~~  168 (181)
T 2fn4_A          133 PRSEASAFGAS--HHVAYFEASAKLRLNVDEAFEQLVR  168 (181)
T ss_dssp             CHHHHHHHHHH--TTCEEEECBTTTTBSHHHHHHHHHH
T ss_pred             CHHHHHHHHHH--cCCeEEEecCCCCCCHHHHHHHHHH
Confidence             2334444443  3568999999999999999998753

>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=97.85  E-value=1.8e-05  Score=56.78  Aligned_cols=77  Identities=16%  Similarity=0.091  Sum_probs=49.4

Q ss_pred             cCceEEEEEeCCCCCCc-c---------------c-cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcC-C----
Q 032030           64 LADYIIYIIDVSGGDKI-P---------------R-KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMR-D----  121 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~-~---------------~-~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~n-p----  121 (148)
                      ..+.++.++|+..+... .               . .....++  -++|+||+|+.+.  . .+...+..++.+ +    
T Consensus        82 ~~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~--~-~~~~~~~~~~~~~~~~~~  156 (190)
T 2cxx_A           82 NIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIP--TIVAVNKLDKIKN--V-QEVINFLAEKFEVPLSEI  156 (190)
T ss_dssp             GCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCC--EEEEEECGGGCSC--H-HHHHHHHHHHHTCCGGGH
T ss_pred             cCCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCc--eEEEeehHhccCc--H-HHHHHHHHHHhhhhhhcc
Confidence            45677888997654221 0               0 0112344  6999999999886  3 223333333333 2    


Q ss_pred             CCcEEEEEecCCCCHHHHHHhhhh
Q 032030          122 GGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       122 ~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ..+++++||++|.|++++++++.-
T Consensus       157 ~~~~~~~Sa~~~~~v~~l~~~l~~  180 (190)
T 2cxx_A          157 DKVFIPISAKFGDNIERLKNRIFE  180 (190)
T ss_dssp             HHHEEECCTTTCTTHHHHHHHHHH
T ss_pred             CCcEEEEecCCCCCHHHHHHHHHH
Confidence            236899999999999999998753

>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=97.84  E-value=1.2e-05  Score=57.48  Aligned_cols=94  Identities=18%  Similarity=0.158  Sum_probs=57.8

Q ss_pred             CEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc----------c-cCCCCcceeeEEEEecCCCCCchhh-hH
Q 032030           45 DLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP----------R-KGGPGITQADLLVINKTDLASAIGA-DL  109 (148)
Q Consensus        45 D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~----------~-~~~~qi~~ADivViNK~DL~~~~~~-~l  109 (148)
                      .+.++++.|......+.   -..+|.+++|+|+.......          . ......+  -++|+||+|+.+.  . ..
T Consensus        53 ~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p--~i~v~nK~Dl~~~--~~~~  128 (189)
T 4dsu_A           53 LLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVP--MVLVGNKCDLPSR--TVDT  128 (189)
T ss_dssp             EEEEEECCCC---CTTHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTCSCCC--EEEEEECTTSSSC--SSCH
T ss_pred             EEEEEECCCcHHHHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCc--EEEEEECccCccc--ccCH
Confidence            35567777743211111   12468889999987642110          0 0112344  6899999999764  3 22


Q ss_pred             HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          110 AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       110 ~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +...+..+..+  .+++++||++|.|++++++++.
T Consensus       129 ~~~~~~~~~~~--~~~~~~Sa~~g~gi~~l~~~l~  161 (189)
T 4dsu_A          129 KQAQDLARSYG--IPFIETSAKTRQGVDDAFYTLV  161 (189)
T ss_dssp             HHHHHHHHHHT--CCEEECCTTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHHcC--CeEEEEeCCCCCCHHHHHHHHH
Confidence            34444444433  6899999999999999998875

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=97.84  E-value=1.4e-05  Score=56.73  Aligned_cols=100  Identities=15%  Similarity=0.027  Sum_probs=59.8

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCccc---cCC---CCc----cee-eEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPR---KGG---PGI----TQA-DLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~~---~~~---~qi----~~A-DivViNK~DL~~~~~~~l  109 (148)
                      +.+.++++.|.......   .-..+|.+++|+|+........   ...   ...    ... -++|+||+|+.+.-....
T Consensus        56 ~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~  135 (178)
T 2hxs_A           56 VTLQIWDIGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMRTIKP  135 (178)
T ss_dssp             EEEEEEECTTCCTTCTTHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGGGGGCSSCH
T ss_pred             EEEEEEECCCCccccchhhHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEccccccccccCH
Confidence            45677777774321111   0135788999999876532110   000   000    111 378999999975300112


Q ss_pred             HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          110 AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       110 ~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +...+..+..+  .+++++||++|.|++++++++.-
T Consensus       136 ~~~~~~~~~~~--~~~~~~Sa~~~~gi~~l~~~l~~  169 (178)
T 2hxs_A          136 EKHLRFCQENG--FSSHFVSAKTGDSVFLCFQKVAA  169 (178)
T ss_dssp             HHHHHHHHHHT--CEEEEECTTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHHHcC--CcEEEEeCCCCCCHHHHHHHHHH
Confidence            34445555433  68999999999999999998763

>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=97.83  E-value=5.3e-05  Score=54.65  Aligned_cols=97  Identities=16%  Similarity=0.164  Sum_probs=59.8

Q ss_pred             CCEEEEecCCceeee-eec---cccCceEEEEEeCCCCCCc---c-------ccC-CCCcceeeEEEEecCCCCCchhhh
Q 032030           44 ADLLLCESGGDNLAA-NFS---RELADYIIYIIDVSGGDKI---P-------RKG-GPGITQADLLVINKTDLASAIGAD  108 (148)
Q Consensus        44 ~D~IliEtsG~~~~~-~~~---~~~~d~~i~vvDa~~~~~~---~-------~~~-~~qi~~ADivViNK~DL~~~~~~~  108 (148)
                      +.+.++++.|..... ...   -..+|.+++|+|+......   .       ... ....+  -++|+||+|+.+.....
T Consensus        69 ~~~~l~Dt~G~~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~p--iilv~nK~Dl~~~~~v~  146 (189)
T 1z06_A           69 IKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIP--RILVGNKCDLRSAIQVP  146 (189)
T ss_dssp             EEEEEEECCCSHHHHTTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCC--EEEEEECTTCGGGCCSC
T ss_pred             EEEEEEECCCchhhhhhhhHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCC--EEEEEECccccccceeC
Confidence            456677777742111 110   1357889999998764211   0       111 22344  68999999997541112


Q ss_pred             HHHHHHHHHhcCCCCcEEEEEecCC---CCHHHHHHhhh
Q 032030          109 LAVMERDALRMRDGGPFIFAQVGWV---IGIIFTLSITH  144 (148)
Q Consensus       109 l~~~~~~i~~~np~a~vi~tSa~~g---~gi~~l~~~~~  144 (148)
                      .+...+..+..  +.+++++||++|   .|++++++++.
T Consensus       147 ~~~~~~~~~~~--~~~~~~~Sa~~~~~~~~i~~l~~~l~  183 (189)
T 1z06_A          147 TDLAQKFADTH--SMPLFETSAKNPNDNDHVEAIFMTLA  183 (189)
T ss_dssp             HHHHHHHHHHT--TCCEEECCSSSGGGGSCHHHHHHHHC
T ss_pred             HHHHHHHHHHc--CCEEEEEeCCcCCcccCHHHHHHHHH
Confidence            23444444433  368999999999   99999999875

>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=97.83  E-value=2.4e-05  Score=67.73  Aligned_cols=99  Identities=17%  Similarity=0.085  Sum_probs=61.6

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchh--------
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIG--------  106 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~--------  106 (148)
                      +.+.|+.|.|-.......   -..+|..+.|+|+.++...+.      .....+|  -++++||+|+.+...        
T Consensus        70 ~~i~liDTPGhe~F~~~~~r~~~~aD~aILVvDa~~Gv~~qT~e~l~~l~~~~vP--iIVViNKiDl~~~~~~~~~~~~~  147 (594)
T 1g7s_A           70 PGLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQEALNILRMYRTP--FVVAANKIDRIHGWRVHEGRPFM  147 (594)
T ss_dssp             CEEEEECCCTTSCCTTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHHHHHHTTCC--EEEEEECGGGSTTCCCCTTCCHH
T ss_pred             CCEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccHhHHHHHHHHHHcCCe--EEEEecccccccccccccCCchH
Confidence            358999999964211111   134799999999998743111      1112345  699999999975210        


Q ss_pred             -------h----h----HHHHHHHHHhc-------------CCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          107 -------A----D----LAVMERDALRM-------------RDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       107 -------~----~----l~~~~~~i~~~-------------np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                             .    .    +..+.+.+.+.             ....|++++||++|.|+++|++++.
T Consensus       148 e~sa~~~~~v~~~~~e~i~ei~~~L~e~gl~~e~~~~l~~~~~~vpvv~vSA~tG~GI~eLl~~I~  213 (594)
T 1g7s_A          148 ETFSKQDIQVQQKLDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLM  213 (594)
T ss_dssp             HHHTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHH
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHcCcchHHHHHHHhccCcceEEEEeccCCCCchhHHHHHH
Confidence                   0    0    11122222221             2335899999999999999999875

>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=97.82  E-value=1.9e-05  Score=60.86  Aligned_cols=77  Identities=17%  Similarity=0.080  Sum_probs=54.0

Q ss_pred             cCceEEEEEeCCCC--CCccc---c--------CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEe
Q 032030           64 LADYIIYIIDVSGG--DKIPR---K--------GGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQV  130 (148)
Q Consensus        64 ~~d~~i~vvDa~~~--~~~~~---~--------~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa  130 (148)
                      .+|.+++|+|+...  ..+..   .        ....++  -++|.||+||.+.  ..++...+..++. ...+++.+||
T Consensus       162 ~ad~vilV~D~t~~~~~s~~~~~~~l~~i~~~~~~~~~p--iilV~NK~Dl~~~--~~v~~~~~~~~~~-~~~~~~e~SA  236 (255)
T 3c5h_A          162 LVDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKP--IVVVLTKCDEGVE--RYIRDAHTFALSK-KNLQVVETSA  236 (255)
T ss_dssp             ECCEEEEEEECBC----CHHHHHHHHHHHHHHHHHTTCC--EEEEEECGGGBCH--HHHHHHHHHHHTS-SSCCEEECBT
T ss_pred             cCCEEEEEEECCCCchhhHHHHHHHHHHHHHHhccCCCC--EEEEEEccccccc--HHHHHHHHHHHhc-CCCeEEEEEC
Confidence            37999999999775  32110   0        012344  5899999999876  6565565555432 3578999999


Q ss_pred             cCCCCHHHHHHhhhh
Q 032030          131 GWVIGIIFTLSITHY  145 (148)
Q Consensus       131 ~~g~gi~~l~~~~~~  145 (148)
                      ++|.|++++++++.-
T Consensus       237 k~g~gv~elf~~l~~  251 (255)
T 3c5h_A          237 RSNVNVDLAFSTLVQ  251 (255)
T ss_dssp             TTTBSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            999999999998764

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=97.82  E-value=4e-06  Score=58.92  Aligned_cols=96  Identities=13%  Similarity=0.080  Sum_probs=60.1

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCc---ccc-------C--CCCcceeeEEEEecCCCCCchhhh
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKI---PRK-------G--GPGITQADLLVINKTDLASAIGAD  108 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~---~~~-------~--~~qi~~ADivViNK~DL~~~~~~~  108 (148)
                      +.+.+++|.|........   -..+|.+++++|+......   ...       .  .+..+  -++|+||+|+.+.  .+
T Consensus        51 ~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~p--ii~v~nK~Dl~~~--~~  126 (172)
T 2erx_A           51 CTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIP--IMLVGNKCDESPS--RE  126 (172)
T ss_dssp             EEEEEEECCSCSSCHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCC--EEEEEECGGGGGG--CC
T ss_pred             EEEEEEECCCchhhHHHHHHhcccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCCC--EEEEEEccccccc--cc
Confidence            457788888853211110   1246889999998754211   100       0  02344  5999999999764  22


Q ss_pred             H--HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          109 L--AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       109 l--~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +  +...+..+..  +.+++++||++|.|++++++++.-
T Consensus       127 v~~~~~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~~  163 (172)
T 2erx_A          127 VQSSEAEALARTW--KCAFMETSAKLNHNVKELFQELLN  163 (172)
T ss_dssp             SCHHHHHHHHHHH--TCEEEECBTTTTBSHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHh--CCeEEEecCCCCcCHHHHHHHHHH
Confidence            2  2333444433  368999999999999999998754

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=97.80  E-value=2.1e-05  Score=62.99  Aligned_cols=114  Identities=11%  Similarity=0.060  Sum_probs=70.1

Q ss_pred             CCeeeeeccchhhchHHHHHhhhhcCCCEEEEecCC--ceee-------eeecc---ccCceEEEEEeCCCCCCcccc--
Q 032030           18 GCPHAAIREDISINLGPLEELSNLFKADLLLCESGG--DNLA-------ANFSR---ELADYIIYIIDVSGGDKIPRK--   83 (148)
Q Consensus        18 Gcicc~i~~dl~~~~~al~~l~~~~~~D~IliEtsG--~~~~-------~~~~~---~~~d~~i~vvDa~~~~~~~~~--   83 (148)
                      |-.-|.+|+.+...-.      .-.-=|+|.++..+  .+..       ..+.+   ..+|.++.|+|+..++--...  
T Consensus        34 ~~~~~~~rg~~~~~~~------~~~vGD~V~~~~~~~~~~~i~~i~~R~~~l~R~~~anvD~v~~V~~~~~p~~~~~~i~  107 (307)
T 1t9h_A           34 KVIQCRGRGIFRKNKI------TPLVGDYVVYQAENDKEGYLMEIKERTNELIRPPICNVDQAVLVFSAVQPSFSTALLD  107 (307)
T ss_dssp             EEEEEESCSSCCSCCC------CCCBTCEEEEECCTTSCEEEEEECCCSCEETTTTEECCCEEEEEEESTTTTCCHHHHH
T ss_pred             cEEEEEEcccccccCC------CCCCCeEEEEEEcCCCceEEEEEcchhhhhhHHHHHhCCEEEEEEeCCCCCCCHHHHH
Confidence            3456877776531100      01135899998654  2321       12222   246889999999865431110  


Q ss_pred             ------CCCCcceeeEEEEecCCCCCchhhh----HHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhh
Q 032030           84 ------GGPGITQADLLVINKTDLASAIGAD----LAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSIT  143 (148)
Q Consensus        84 ------~~~qi~~ADivViNK~DL~~~~~~~----l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~  143 (148)
                            ....++  -++|+||+||+++  .+    ++.+.+.+++.  +.+++.+||++|.|+++|++..
T Consensus       108 r~L~~~~~~~~~--~vivlnK~DL~~~--~~~~~~~~~~~~~y~~~--g~~v~~~sa~~~~g~~~L~~~~  171 (307)
T 1t9h_A          108 RFLVLVEANDIQ--PIICITKMDLIED--QDTEDTIQAYAEDYRNI--GYDVYLTSSKDQDSLADIIPHF  171 (307)
T ss_dssp             HHHHHHHTTTCE--EEEEEECGGGCCC--HHHHHHHHHHHHHHHHH--TCCEEECCHHHHTTCTTTGGGG
T ss_pred             HHHHHHHHCCCC--EEEEEECCccCch--hhhHHHHHHHHHHHHhC--CCeEEEEecCCCCCHHHHHhhc
Confidence                  112344  4999999999987  55    45555666543  3589999999999998887643

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=97.80  E-value=3.8e-05  Score=66.62  Aligned_cols=96  Identities=15%  Similarity=0.103  Sum_probs=62.1

Q ss_pred             CCEEEEecCCceeee-ee--ccccCceEEEEEeCCCCCCcccc------CCCCcceeeEEEEecCCCCCchhhhHHHHHH
Q 032030           44 ADLLLCESGGDNLAA-NF--SRELADYIIYIIDVSGGDKIPRK------GGPGITQADLLVINKTDLASAIGADLAVMER  114 (148)
Q Consensus        44 ~D~IliEtsG~~~~~-~~--~~~~~d~~i~vvDa~~~~~~~~~------~~~qi~~ADivViNK~DL~~~~~~~l~~~~~  114 (148)
                      +.+-++.|.|-.... ..  .-..+|..+.|+|+.++...+..      ....++  -++++||+|+.+.  . .+++.+
T Consensus        71 ~~l~liDTPGh~dF~~ev~~~l~~aD~aILVVDa~~gv~~qt~~~~~~~~~~~ip--iIvViNKiDl~~a--~-~~~v~~  145 (599)
T 3cb4_D           71 YQLNFIDTPGHVDFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTAMEMDLE--VVPVLNKIDLPAA--D-PERVAE  145 (599)
T ss_dssp             EEEEEEECCCCGGGHHHHHHHHHHCSEEEEEEETTTCCCTHHHHHHHHHHHTTCE--EEEEEECTTSTTC--C-HHHHHH
T ss_pred             EEEEEEECCCchHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHHCCCC--EEEeeeccCcccc--c-HHHHHH
Confidence            455688888853210 00  01246889999999887542210      112445  6999999999875  3 333334


Q ss_pred             HHHhcC--CCCcEEEEEecCCCCHHHHHHhhh
Q 032030          115 DALRMR--DGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       115 ~i~~~n--p~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .+++..  +..+++++||++|.|+++|++++.
T Consensus       146 ei~~~lg~~~~~vi~vSAktg~GI~~Ll~~I~  177 (599)
T 3cb4_D          146 EIEDIVGIDATDAVRCSAKTGVGVQDVLERLV  177 (599)
T ss_dssp             HHHHHTCCCCTTCEEECTTTCTTHHHHHHHHH
T ss_pred             HHHHHhCCCcceEEEeecccCCCchhHHHHHh
Confidence            444332  234689999999999999999875

>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=97.80  E-value=1.9e-05  Score=65.58  Aligned_cols=78  Identities=19%  Similarity=0.180  Sum_probs=52.3

Q ss_pred             CceEEEEEeCCCCCCccc-c---CCCCcceeeEEEEecCCCCCchhhh--HHHHHHHHHhc---CCCCcEEEEEecCCCC
Q 032030           65 ADYIIYIIDVSGGDKIPR-K---GGPGITQADLLVINKTDLASAIGAD--LAVMERDALRM---RDGGPFIFAQVGWVIG  135 (148)
Q Consensus        65 ~d~~i~vvDa~~~~~~~~-~---~~~qi~~ADivViNK~DL~~~~~~~--l~~~~~~i~~~---np~a~vi~tSa~~g~g  135 (148)
                      +|.++.++|+..+..... .   .......+-++|+||+|+.+.  ..  .+++.+.+++.   .+.++++++||++|.|
T Consensus       264 ad~vllv~d~~~~~~~~~~~i~~~l~~~~~~~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~g  341 (439)
T 1mky_A          264 ADVVVIVLDATQGITRQDQRMAGLMERRGRASVVVFNKWDLVVH--REKRYDEFTKLFREKLYFIDYSPLIFTSADKGWN  341 (439)
T ss_dssp             CSEEEEEEETTTCCCHHHHHHHHHHHHTTCEEEEEEECGGGSTT--GGGCHHHHHHHHHHHCGGGTTSCEEECBTTTTBS
T ss_pred             CCEEEEEEeCCCCCCHHHHHHHHHHHHcCCCEEEEEECccCCCc--hhhHHHHHHHHHHHHhccCCCCcEEEEECCCCCC
Confidence            577888899876543111 0   000122346999999999875  33  44455444332   2568999999999999


Q ss_pred             HHHHHHhhh
Q 032030          136 IIFTLSITH  144 (148)
Q Consensus       136 i~~l~~~~~  144 (148)
                      ++++++.+.
T Consensus       342 v~~l~~~i~  350 (439)
T 1mky_A          342 IDRMIDAMN  350 (439)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999998875

>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=97.79  E-value=2.7e-05  Score=67.63  Aligned_cols=96  Identities=22%  Similarity=0.158  Sum_probs=62.9

Q ss_pred             CCEEEEecCCceee-eee--ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhHHHHHH
Q 032030           44 ADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADLAVMER  114 (148)
Q Consensus        44 ~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~  114 (148)
                      +.+-|+.|.|-... ...  .-..+|..+.|+|+.++...+.      .....++  -++++||+|+.+.  . .+++.+
T Consensus        73 ~~inliDTPGh~dF~~ev~r~l~~aD~aILVVDa~~gv~~qt~~~~~~a~~~~ip--iIvviNKiDl~~a--~-~~~v~~  147 (600)
T 2ywe_A           73 YKLHLIDTPGHVDFSYEVSRALAACEGALLLIDASQGIEAQTVANFWKAVEQDLV--IIPVINKIDLPSA--D-VDRVKK  147 (600)
T ss_dssp             EEEEEECCCCSGGGHHHHHHHHHTCSEEEEEEETTTBCCHHHHHHHHHHHHTTCE--EEEEEECTTSTTC--C-HHHHHH
T ss_pred             EEEEEEECCCcHhHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHHCCCC--EEEEEeccCcccc--C-HHHHHH
Confidence            34558888886421 000  0135688999999998754221      0112455  7999999999875  3 344444


Q ss_pred             HHHhcCC--CCcEEEEEecCCCCHHHHHHhhh
Q 032030          115 DALRMRD--GGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       115 ~i~~~np--~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .+++...  ..+++++||++|.|+++|++++.
T Consensus       148 el~~~lg~~~~~vi~vSAktg~GI~~Lle~I~  179 (600)
T 2ywe_A          148 QIEEVLGLDPEEAILASAKEGIGIEEILEAIV  179 (600)
T ss_dssp             HHHHTSCCCGGGCEECBTTTTBSHHHHHHHHH
T ss_pred             HHHHhhCCCcccEEEEEeecCCCchHHHHHHH
Confidence            5554332  23689999999999999999864

>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=97.79  E-value=6.3e-06  Score=62.13  Aligned_cols=78  Identities=15%  Similarity=0.126  Sum_probs=48.1

Q ss_pred             cCceEEEEEeCCCCCC------cc---ccC--CCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecC
Q 032030           64 LADYIIYIIDVSGGDK------IP---RKG--GPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGW  132 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~------~~---~~~--~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~  132 (148)
                      .+|..+.|.|......      +.   ...  ...++  -++|.||+||.+.-.-..+......+..  +.+++++||++
T Consensus       111 ~a~~~ilVydvt~~~sf~~~~~~~~~l~~~~~~~~~p--iilVgNK~DL~~~r~v~~~e~~~~a~~~--~~~~~e~SAk~  186 (211)
T 2g3y_A          111 VGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIP--IILVGNKSDLVRCREVSVSEGRACAVVF--DCKFIETSAAV  186 (211)
T ss_dssp             CCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSC--EEEEEECTTCGGGCCSCHHHHHHHHHHH--TCEEEECBTTT
T ss_pred             hCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCCc--EEEEEEChHHhcCceEeHHHHHHHHHHc--CCEEEEEeCCC
Confidence            3577788888765321      10   000  12344  5899999999753001122233333333  36899999999


Q ss_pred             CCCHHHHHHhhhh
Q 032030          133 VIGIIFTLSITHY  145 (148)
Q Consensus       133 g~gi~~l~~~~~~  145 (148)
                      |.|++++|++++-
T Consensus       187 g~~v~elf~~l~~  199 (211)
T 2g3y_A          187 QHNVKELFEGIVR  199 (211)
T ss_dssp             TBSHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHH
Confidence            9999999998764

>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=97.78  E-value=8.5e-06  Score=56.81  Aligned_cols=98  Identities=17%  Similarity=0.084  Sum_probs=60.0

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCc----------cc-cCCCCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKI----------PR-KGGPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~----------~~-~~~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      ..+.++++.|........   -..+|.+++++|+......          .. ......+  -++|+||+|+.++-....
T Consensus        51 ~~~~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p--iilv~nK~Dl~~~~~~~~  128 (167)
T 1kao_A           51 SVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVP--VILVGNKVDLESEREVSS  128 (167)
T ss_dssp             EEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCC--EEEEEECGGGGGGCCSCH
T ss_pred             EEEEEEECCCchhhHHHHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCCCCC--EEEEEECCcccccccCCH
Confidence            346677777743211110   1246888999998764321          01 1112344  689999999975411112


Q ss_pred             HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          110 AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       110 ~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +...+..+..  +.+++++||++|.|++++++++.-
T Consensus       129 ~~~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~~  162 (167)
T 1kao_A          129 SEGRALAEEW--GCPFMETSAKSKTMVDELFAEIVR  162 (167)
T ss_dssp             HHHHHHHHHH--TSCEEEECTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHh--CCCEEEecCCCCcCHHHHHHHHHH
Confidence            3444444443  358999999999999999998753

>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=97.78  E-value=3.2e-05  Score=56.74  Aligned_cols=78  Identities=17%  Similarity=0.074  Sum_probs=51.8

Q ss_pred             cCceEEEEEeCCCCCCc---cc----c---CC-CCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecC
Q 032030           64 LADYIIYIIDVSGGDKI---PR----K---GG-PGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGW  132 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~---~~----~---~~-~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~  132 (148)
                      .+|.+++|+|+.....+   ..    .   .. ..++  -++|.||+|+.+.-....+...+..+..+  .+++++||++
T Consensus        96 ~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~p--iilv~nK~Dl~~~~~v~~~~~~~~a~~~~--~~~~e~Sa~~  171 (195)
T 3cbq_A           96 TGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLP--VILVGNKSDLARSREVSLEEGRHLAGTLS--CKHIETSAAL  171 (195)
T ss_dssp             HCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTTSCCC--EEEEEECTTCTTTCCSCHHHHHHHHHHTT--CEEEEEBTTT
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC--EEEEeechhccccCCcCHHHHHHHHHHhC--CEEEEEcCCC
Confidence            36888999998754211   00    0   01 2344  58999999997641122344555555443  6899999999


Q ss_pred             CCCHHHHHHhhhh
Q 032030          133 VIGIIFTLSITHY  145 (148)
Q Consensus       133 g~gi~~l~~~~~~  145 (148)
                      |.|++++|+++.-
T Consensus       172 ~~~v~~lf~~l~~  184 (195)
T 3cbq_A          172 HHNTRELFEGAVR  184 (195)
T ss_dssp             TBSHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHH
Confidence            9999999998753

>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=97.77  E-value=2.1e-05  Score=63.70  Aligned_cols=97  Identities=22%  Similarity=0.187  Sum_probs=60.8

Q ss_pred             CCEEEEecCCcee--------eeeecc--ccCceEEEEEeCCCC---CCc---c------ccCC---CCcceeeEEEEec
Q 032030           44 ADLLLCESGGDNL--------AANFSR--ELADYIIYIIDVSGG---DKI---P------RKGG---PGITQADLLVINK   98 (148)
Q Consensus        44 ~D~IliEtsG~~~--------~~~~~~--~~~d~~i~vvDa~~~---~~~---~------~~~~---~qi~~ADivViNK   98 (148)
                      ..++++.+.|...        ...|..  ..+|.+++|+|+...   ...   .      ..+.   ...+  -++|+||
T Consensus       206 ~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~~~d~ll~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p--~ilV~NK  283 (342)
T 1lnz_A          206 RSFVMADLPGLIEGAHQGVGLGHQFLRHIERTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERP--QIIVANK  283 (342)
T ss_dssp             CEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSC--BCBEEEC
T ss_pred             ceEEEecCCCCcccccccchhHHHHHHHHHhccEEEEEEECCcccccChHHHHHHHHHHHHHhhhhhcCCC--EEEEEEC
Confidence            4567777777421        111211  236889999999762   110   0      0111   1333  5999999


Q ss_pred             CCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhhh
Q 032030           99 TDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHYI  146 (148)
Q Consensus        99 ~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~~  146 (148)
                      +|+.+.  .+  .+.+..+.+....+++++||+++.|+++|++++.-.
T Consensus       284 ~Dl~~~--~e--~~~~l~~~l~~~~~v~~iSA~tg~gi~eL~~~l~~~  327 (342)
T 1lnz_A          284 MDMPEA--AE--NLEAFKEKLTDDYPVFPISAVTREGLRELLFEVANQ  327 (342)
T ss_dssp             TTSTTH--HH--HHHHHHHHCCSCCCBCCCSSCCSSTTHHHHHHHHHH
T ss_pred             ccCCCC--HH--HHHHHHHHhhcCCCEEEEECCCCcCHHHHHHHHHHH
Confidence            999865  32  333333444444689999999999999999987643

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=97.77  E-value=3.7e-05  Score=55.20  Aligned_cols=97  Identities=18%  Similarity=0.119  Sum_probs=63.5

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCccc---cC-----CCCcceeeEEEEecCCCCCchhhhHHHH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPR---KG-----GPGITQADLLVINKTDLASAIGADLAVM  112 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~~---~~-----~~qi~~ADivViNK~DL~~~~~~~l~~~  112 (148)
                      ..+.+++|.|.......   .-..+|.+++|+|+..+.....   ..     ....+  -++|+||+|+... ....+.+
T Consensus        93 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~p--iilv~NK~D~~~~-~~~~~~~  169 (208)
T 3clv_A           93 IKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISSNYI--IILVANKIDKNKF-QVDILEV  169 (208)
T ss_dssp             EEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCCE--EEEEEECTTCC-C-CSCHHHH
T ss_pred             eEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhCCCc--EEEEEECCCcccc-cCCHHHH
Confidence            67889999995321111   1135789999999987632110   00     01133  6999999994321 1334567


Q ss_pred             HHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          113 ERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       113 ~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      .+.+++.  +.+++++||++|.|++++++++.-
T Consensus       170 ~~~~~~~--~~~~~~~Sa~~~~~i~~l~~~l~~  200 (208)
T 3clv_A          170 QKYAQDN--NLLFIQTSAKTGTNIKNIFYMLAE  200 (208)
T ss_dssp             HHHHHHT--TCEEEEECTTTCTTHHHHHHHHHH
T ss_pred             HHHHHHc--CCcEEEEecCCCCCHHHHHHHHHH
Confidence            7777654  459999999999999999998753

>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=97.76  E-value=2.4e-06  Score=66.38  Aligned_cols=95  Identities=15%  Similarity=0.098  Sum_probs=61.2

Q ss_pred             CCCEEEEecCCceee----------eeec-cccCceEEEEEeCCCCCCcc----ccCCCCcceeeEEEEecCCCCCchh-
Q 032030           43 KADLLLCESGGDNLA----------ANFS-RELADYIIYIIDVSGGDKIP----RKGGPGITQADLLVINKTDLASAIG-  106 (148)
Q Consensus        43 ~~D~IliEtsG~~~~----------~~~~-~~~~d~~i~vvDa~~~~~~~----~~~~~qi~~ADivViNK~DL~~~~~-  106 (148)
                      +..+.++.+.|.--.          ..+. ....|.++.|+|+...+...    ......++  -++|+||+|+...-. 
T Consensus        51 ~~~~~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~ii~V~D~t~~~~~~~~~~~l~~~~~p--vilv~NK~Dl~~~~~i  128 (258)
T 3a1s_A           51 GYTINLIDLPGTYSLGYSSIDEKIARDYLLKGDADLVILVADSVNPEQSLYLLLEILEMEKK--VILAMTAIDEAKKTGM  128 (258)
T ss_dssp             TEEEEEEECCCCSSCCSSSHHHHHHHHHHHHSCCSEEEEEEETTSCHHHHHHHHHHHTTTCC--EEEEEECHHHHHHTTC
T ss_pred             CeEEEEEECCCcCccCCCCHHHHHHHHHHhhcCCCEEEEEeCCCchhhHHHHHHHHHhcCCC--EEEEEECcCCCCccch
Confidence            457888899986321          1111 13578999999998764311    11122344  699999999865300 


Q ss_pred             -hhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          107 -ADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       107 -~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                       .+.+++.+   .++  .|++++||++|.|++++++++.
T Consensus       129 ~~~~~~l~~---~lg--~~vi~~SA~~g~gi~el~~~i~  162 (258)
T 3a1s_A          129 KIDRYELQK---HLG--IPVVFTSSVTGEGLEELKEKIV  162 (258)
T ss_dssp             CBCHHHHHH---HHC--SCEEECCTTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHH---HcC--CCEEEEEeeCCcCHHHHHHHHH
Confidence             12233333   222  6899999999999999998764

>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=96.96  E-value=3.5e-06  Score=61.83  Aligned_cols=98  Identities=13%  Similarity=0.054  Sum_probs=58.3

Q ss_pred             CCCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCccc----cC------CCCcceeeEEEEecCCCCCchhhh-
Q 032030           43 KADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIPR----KG------GPGITQADLLVINKTDLASAIGAD-  108 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~~----~~------~~qi~~ADivViNK~DL~~~~~~~-  108 (148)
                      .+.+.+++|.|........   -..+|.+++|+|+........    ..      .+.++  -++|+||+|+.+.  .. 
T Consensus        77 ~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~~l~~~~~~~p--iilv~NK~Dl~~~--~~~  152 (204)
T 3th5_A           77 PVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTP--IILVGTKLDLRDD--KDT  152 (204)
Confidence            3455578888864211111   134688899999876532211    11      01233  5899999999764  21 


Q ss_pred             -------------HHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          109 -------------LAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       109 -------------l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                                   .+...+..+.. ...+++++||++|.|++++++++.-
T Consensus       153 ~~~~~~~~~~~v~~~~~~~~~~~~-~~~~~~~vSA~~g~gi~~l~~~l~~  201 (204)
T 3th5_A          153 IEKLKEKKLTPITYPQGLAMAKEI-GAVKYLECSALTQRGLKTVFDEAIR  201 (204)
Confidence                         11222222221 1237899999999999999998753

>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=97.76  E-value=1.4e-06  Score=67.58  Aligned_cols=96  Identities=22%  Similarity=0.174  Sum_probs=60.7

Q ss_pred             CCCEEEEecCCceeeee----------e-ccccCceEEEEEeCCCCCCcc----ccCCCC-cceeeEEEEecCCCCCchh
Q 032030           43 KADLLLCESGGDNLAAN----------F-SRELADYIIYIIDVSGGDKIP----RKGGPG-ITQADLLVINKTDLASAIG  106 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~----------~-~~~~~d~~i~vvDa~~~~~~~----~~~~~q-i~~ADivViNK~DL~~~~~  106 (148)
                      +..+.++.|.|..-...          + ....+|.++.|+|+..+....    ...... .+  -++|+||+|+.+.-.
T Consensus        49 ~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~vi~v~D~~~~~~~~~~~~~~~~~~~~p--~ilv~NK~Dl~~~~~  126 (271)
T 3k53_A           49 EKEFLVVDLPGIYSLTAHSIDELIARNFILDGNADVIVDIVDSTCLMRNLFLTLELFEMEVKN--IILVLNKFDLLKKKG  126 (271)
T ss_dssp             TEEEEEEECCCCSCCCSSCHHHHHHHHHHHTTCCSEEEEEEEGGGHHHHHHHHHHHHHTTCCS--EEEEEECHHHHHHHT
T ss_pred             CceEEEEeCCCccccccCCHHHHHHHHhhhccCCcEEEEEecCCcchhhHHHHHHHHhcCCCC--EEEEEEChhcCcccc
Confidence            34578899999642100          1 013579999999998753311    111111 44  699999999865400


Q ss_pred             --hhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          107 --ADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       107 --~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                        .+.+.+.+.+     +.|++++||++|.|++++++++.-
T Consensus       127 ~~~~~~~l~~~l-----g~~~~~~Sa~~g~gi~~l~~~i~~  162 (271)
T 3k53_A          127 AKIDIKKMRKEL-----GVPVIPTNAKKGEGVEELKRMIAL  162 (271)
T ss_dssp             CCCCHHHHHHHH-----SSCEEECBGGGTBTHHHHHHHHHH
T ss_pred             cHHHHHHHHHHc-----CCcEEEEEeCCCCCHHHHHHHHHH
Confidence              1223333333     268999999999999999998764

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=97.75  E-value=7.5e-06  Score=57.11  Aligned_cols=94  Identities=17%  Similarity=0.119  Sum_probs=59.6

Q ss_pred             CCCEEEEecCCceeee----ee------ccccCceEEEEEeCCCCCCcc-----c-cCCCCcceeeEEEEecCCCCCchh
Q 032030           43 KADLLLCESGGDNLAA----NF------SRELADYIIYIIDVSGGDKIP-----R-KGGPGITQADLLVINKTDLASAIG  106 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~----~~------~~~~~d~~i~vvDa~~~~~~~-----~-~~~~qi~~ADivViNK~DL~~~~~  106 (148)
                      +..+.+++|.|.....    .+      .-..+|.+++++|+.......     . ......+  -++|+||+|+.+.  
T Consensus        48 ~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~p--~ilv~nK~Dl~~~--  123 (161)
T 2dyk_A           48 RGRFLLVDTGGLWSGDKWEKKIQEKVDRALEDAEVVLFAVDGRAELTQADYEVAEYLRRKGKP--VILVATKVDDPKH--  123 (161)
T ss_dssp             TEEEEEEECGGGCSSSSCCHHHHHHHHHHTTTCSEEEEEEESSSCCCHHHHHHHHHHHHHTCC--EEEEEECCCSGGG--
T ss_pred             CceEEEEECCCCCCccchHHHHHHHHHHHHHhCCEEEEEEECCCcccHhHHHHHHHHHhcCCC--EEEEEECcccccc--
Confidence            3467788888865310    00      113578899999998753211     0 0011334  6999999999865  


Q ss_pred             hhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          107 ADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       107 ~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .+  .+.+.. +. ...+++++||++|.|++++++++.
T Consensus       124 ~~--~~~~~~-~~-~~~~~~~~Sa~~~~gv~~l~~~l~  157 (161)
T 2dyk_A          124 EL--YLGPLY-GL-GFGDPIPTSSEHARGLEELLEAIW  157 (161)
T ss_dssp             GG--GCGGGG-GG-SSCSCEECBTTTTBSHHHHHHHHH
T ss_pred             hH--hHHHHH-hC-CCCCeEEEecccCCChHHHHHHHH
Confidence            31  222222 22 223789999999999999999875

>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=97.74  E-value=1.6e-05  Score=56.76  Aligned_cols=97  Identities=16%  Similarity=0.053  Sum_probs=60.9

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc----------cc-CCCCcceeeEEEEecCCCCCchhhhH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP----------RK-GGPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~----------~~-~~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      +.+.++++.|......+.   -..+|.+++++|+.......          .. ....++  -++|+||+|+.++-....
T Consensus        54 ~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p--~ilv~nK~Dl~~~~~~~~  131 (181)
T 3t5g_A           54 YHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIP--IMLVGNKKDLHMERVISY  131 (181)
T ss_dssp             EEEEEEECCCCCTTCCCCGGGTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHC----CC--EEEEEECTTCTTTCCSCH
T ss_pred             EEEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCC--EEEEEECccchhcceecH
Confidence            455677888853211111   13478899999987642210          10 112344  689999999965411223


Q ss_pred             HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          110 AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       110 ~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +...+..+..  +.+++++||++|.|++++++++.
T Consensus       132 ~~~~~~~~~~--~~~~~~~Sa~~~~~v~~l~~~l~  164 (181)
T 3t5g_A          132 EEGKALAESW--NAAFLESSAKENQTAVDVFRRII  164 (181)
T ss_dssp             HHHHHHHHHT--TCEEEECCTTSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHh--CCcEEEEecCCCCCHHHHHHHHH
Confidence            4555556544  46899999999999999998875

>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=97.71  E-value=2.1e-05  Score=55.99  Aligned_cols=98  Identities=16%  Similarity=0.091  Sum_probs=59.4

Q ss_pred             CCCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc-------c---cCCCCcceeeEEEEecCCCCCchhhh-
Q 032030           43 KADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP-------R---KGGPGITQADLLVINKTDLASAIGAD-  108 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~-------~---~~~~qi~~ADivViNK~DL~~~~~~~-  108 (148)
                      .+.+.++++.|.......   .-..+|.+++|+|+.......       .   ...+.++  -++|+||+|+.+.  .. 
T Consensus        55 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~--~~~  130 (182)
T 3bwd_D           55 TVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYAPGVP--IVLVGTKLDLRDD--KQF  130 (182)
T ss_dssp             ---CEEECCCC-CTTTTTGGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCC--EEEEEECHHHHTC--HHH
T ss_pred             EEEEEEEECCCChhhhhhHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC--EEEEEechhhhcC--ccc
Confidence            344557788885321111   113468899999987653210       0   0112344  5899999999765  33 


Q ss_pred             -----------HHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          109 -----------LAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       109 -----------l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                                 .+...+..+..+ ..+++++||++|.|++++++++.-
T Consensus       131 ~~~~~~~~~v~~~~~~~~~~~~~-~~~~~~~Sa~~~~gi~~l~~~l~~  177 (182)
T 3bwd_D          131 FIDHPGAVPITTVQGEELKKLIG-APAYIECSSKSQENVKGVFDAAIR  177 (182)
T ss_dssp             HHHC--CCCCCHHHHHHHHHHHT-CSEEEECCTTTCTTHHHHHHHHHH
T ss_pred             ccccccCCCCCHHHHHHHHHHcC-CCEEEEEECCCCCCHHHHHHHHHH
Confidence                       233444444332 248999999999999999998754

>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=97.71  E-value=5.8e-05  Score=54.74  Aligned_cols=79  Identities=8%  Similarity=0.065  Sum_probs=50.8

Q ss_pred             cCceEEEEEeCCCCCCcc-------c--cCC--CCcceeeEEEEecCCCCCc--hhhhHHHHHHHHHhcCCCCcEEEEEe
Q 032030           64 LADYIIYIIDVSGGDKIP-------R--KGG--PGITQADLLVINKTDLASA--IGADLAVMERDALRMRDGGPFIFAQV  130 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~-------~--~~~--~qi~~ADivViNK~DL~~~--~~~~l~~~~~~i~~~np~a~vi~tSa  130 (148)
                      .+|.+++|+|+.....+.       .  ...  ..++  -++|.||+|+.+.  -....+...+..+.. ...+++.+||
T Consensus        85 ~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p--iilv~nK~Dl~~~~~~~v~~~~~~~~~~~~-~~~~~~e~Sa  161 (184)
T 3ihw_A           85 WVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVP--MVLVGTQDAISAANPRVIDDSRARKLSTDL-KRCTYYETCA  161 (184)
T ss_dssp             HCSEEEEEEETTCHHHHHHHHHHHHHHHTTSCGGGSC--EEEEEECTTCBTTBCCCSCHHHHHHHHHHT-TTCEEEEEBT
T ss_pred             CCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCCC--EEEEEECcccccccccccCHHHHHHHHHHc-CCCeEEEecC
Confidence            368889999987643211       0  011  2233  5899999999421  002223455555443 3468999999


Q ss_pred             cCCCCHHHHHHhhhh
Q 032030          131 GWVIGIIFTLSITHY  145 (148)
Q Consensus       131 ~~g~gi~~l~~~~~~  145 (148)
                      ++|.|++++|+++.-
T Consensus       162 ~~~~gv~~lf~~l~~  176 (184)
T 3ihw_A          162 TYGLNVERVFQDVAQ  176 (184)
T ss_dssp             TTTBTHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHH
Confidence            999999999998753

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=97.70  E-value=6.9e-06  Score=63.81  Aligned_cols=95  Identities=12%  Similarity=-0.042  Sum_probs=57.7

Q ss_pred             CCCEEEEecCCceee------e----eec------cccCc-eEEEEEeCCCCCCccc-------cCCCCcceeeEEEEec
Q 032030           43 KADLLLCESGGDNLA------A----NFS------RELAD-YIIYIIDVSGGDKIPR-------KGGPGITQADLLVINK   98 (148)
Q Consensus        43 ~~D~IliEtsG~~~~------~----~~~------~~~~d-~~i~vvDa~~~~~~~~-------~~~~qi~~ADivViNK   98 (148)
                      .+++.|+.|.|....      .    .+.      -...+ .+++|+|+........       ..+...+  -++|+||
T Consensus       124 ~~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~~~~~~~~~~~~~~--~i~V~NK  201 (299)
T 2aka_B          124 VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDPQGQR--TIGVITK  201 (299)
T ss_dssp             CCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHHCTTCSS--EEEEEEC
T ss_pred             CCCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHHHHHHHHhCCCCCe--EEEEEEc
Confidence            379999999997421      1    110      01234 4457899876532111       1112233  6999999


Q ss_pred             CCCCCchhhhHHHHHHHHHhc-C----CCCcEEEEEecCCCCHHHHHHhh
Q 032030           99 TDLASAIGADLAVMERDALRM-R----DGGPFIFAQVGWVIGIIFTLSIT  143 (148)
Q Consensus        99 ~DL~~~~~~~l~~~~~~i~~~-n----p~a~vi~tSa~~g~gi~~l~~~~  143 (148)
                      +|+.++  ..  ...+.++.. .    +..+++++||++|.|++++++++
T Consensus       202 ~Dl~~~--~~--~~~~~~~~~~~~~~~~~~~v~~~SA~~~~gi~~l~~~l  247 (299)
T 2aka_B          202 LDLMDE--GT--DARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAAL  247 (299)
T ss_dssp             GGGSCT--TC--CCHHHHTTCSSCCTTCEEECCCCCCBCTTSCBCHHHHH
T ss_pred             cccCCC--Cc--hHHHHHhCCcCcCCCCcEEEECCChhhccccccHHHHH
Confidence            999875  33  112223321 1    23578999999999999998875

>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=97.70  E-value=4.8e-05  Score=55.01  Aligned_cols=97  Identities=12%  Similarity=0.099  Sum_probs=59.1

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCc---c-c------cCCCCcceeeEEEEecCCCCCchhhh--
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKI---P-R------KGGPGITQADLLVINKTDLASAIGAD--  108 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~---~-~------~~~~qi~~ADivViNK~DL~~~~~~~--  108 (148)
                      +.+.++++.|......+.   -..+|.+++|+|+.....+   . .      ...+.++  -++|+||+|+.+.  ..  
T Consensus        66 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~--~~~~  141 (194)
T 2atx_A           66 YLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVP--FLLIGTQIDLRDD--PKTL  141 (194)
T ss_dssp             EEEEEECCCCSSSSTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCC--EEEEEECTTSTTC--HHHH
T ss_pred             EEEEEEECCCCcchhHHHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC--EEEEEEChhhccc--ccch
Confidence            344566666643111111   1246889999998765321   1 0      0112344  5999999999874  21  


Q ss_pred             ------------HHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          109 ------------LAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       109 ------------l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                                  .+...+..+..+ ..+++++||++|.|++++++++.-
T Consensus       142 ~~~~~~~~~~v~~~~~~~~~~~~~-~~~~~~~Sa~~g~gi~~l~~~l~~  189 (194)
T 2atx_A          142 ARLNDMKEKPICVEQGQKLAKEIG-ACCYVECSALTQKGLKTVFDEAII  189 (194)
T ss_dssp             HHHTTTTCCCCCHHHHHHHHHHHT-CSCEEECCTTTCTTHHHHHHHHHH
T ss_pred             hhcccccCcccCHHHHHHHHHHcC-CcEEEEeeCCCCCCHHHHHHHHHH
Confidence                        233444444432 238999999999999999998753

>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=97.70  E-value=2e-05  Score=55.12  Aligned_cols=99  Identities=16%  Similarity=0.089  Sum_probs=62.2

Q ss_pred             CCCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc---cc------CCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           43 KADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP---RK------GGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~---~~------~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      .+.+.++++.|.......   .-..+|.+++++|+.......   ..      .....+  -++|+||+|+.++-....+
T Consensus        53 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~p--iilv~nK~Dl~~~~~~~~~  130 (168)
T 1z2a_A           53 DVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGDIP--TALVQNKIDLLDDSCIKNE  130 (168)
T ss_dssp             EEEEEEECCTTGGGTTCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCSCC--EEEEEECGGGGGGCSSCHH
T ss_pred             EEEEEEEcCCCcHhHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCCC--EEEEEECcccCcccccCHH
Confidence            346777788884321111   113578899999987653211   00      012334  6899999999763001234


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      .+.+..++.+  .+++++||++|.|++++++++.-
T Consensus       131 ~~~~~~~~~~--~~~~~~Sa~~~~~i~~l~~~l~~  163 (168)
T 1z2a_A          131 EAEGLAKRLK--LRFYRTSVKEDLNVSEVFKYLAE  163 (168)
T ss_dssp             HHHHHHHHHT--CEEEECBTTTTBSSHHHHHHHHH
T ss_pred             HHHHHHHHcC--CeEEEEecCCCCCHHHHHHHHHH
Confidence            4555555433  58999999999999999998753

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=97.69  E-value=3.2e-05  Score=62.40  Aligned_cols=75  Identities=25%  Similarity=0.167  Sum_probs=54.3

Q ss_pred             cCceEEEEEeCCCCC--Cccc---cC------CCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecC
Q 032030           64 LADYIIYIIDVSGGD--KIPR---KG------GPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGW  132 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~--~~~~---~~------~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~  132 (148)
                      .+|.+++|+|+....  ....   ..      ....+  -++|+||+|+.+.  .+++...+.++.  ...+++++||++
T Consensus       246 ~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~~~~p--iilV~NK~Dl~~~--~~~~~~~~~~~~--~~~~~~~iSA~~  319 (357)
T 2e87_A          246 LGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEFKDLP--FLVVINKIDVADE--ENIKRLEKFVKE--KGLNPIKISALK  319 (357)
T ss_dssp             TCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHTTTSC--EEEEECCTTTCCH--HHHHHHHHHHHH--TTCCCEECBTTT
T ss_pred             cCCEEEEEEeCCccccCCHHHHHHHHHHHHHhcCCCC--EEEEEECcccCCh--HHHHHHHHHHHh--cCCCeEEEeCCC
Confidence            478899999987653  2110   00      01333  6899999999987  666666666654  346899999999


Q ss_pred             CCCHHHHHHhhh
Q 032030          133 VIGIIFTLSITH  144 (148)
Q Consensus       133 g~gi~~l~~~~~  144 (148)
                      |.|+++|++++.
T Consensus       320 g~gi~~l~~~i~  331 (357)
T 2e87_A          320 GTGIDLVKEEII  331 (357)
T ss_dssp             TBTHHHHHHHHH
T ss_pred             CcCHHHHHHHHH
Confidence            999999998875

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=97.69  E-value=5.4e-05  Score=64.68  Aligned_cols=60  Identities=17%  Similarity=0.119  Sum_probs=38.3

Q ss_pred             CCCEEEEecCCceee--eee-ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCc
Q 032030           43 KADLLLCESGGDNLA--ANF-SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASA  104 (148)
Q Consensus        43 ~~D~IliEtsG~~~~--~~~-~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~  104 (148)
                      +..+.++.|.|....  ... .-..+|..++|+|+..+...+.      .....++  -++|+||+|+.+.
T Consensus        81 ~~~i~liDTPG~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~~~~~~~~~~~iP--iivviNK~Dl~~~  149 (528)
T 3tr5_A           81 DYLINLLDTPGHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLMEVCRLRHTP--IMTFINKMDRDTR  149 (528)
T ss_dssp             TEEEEEECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHHHHHHTTTCC--EEEEEECTTSCCS
T ss_pred             CEEEEEEECCCchhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCC--EEEEEeCCCCccc
Confidence            456788889886421  110 1135799999999988754211      1122344  6899999999765

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=97.68  E-value=5.4e-05  Score=61.82  Aligned_cols=96  Identities=6%  Similarity=0.043  Sum_probs=59.7

Q ss_pred             CCCEEEEecCCceee-eee--ccccCceEEEEEeCCCCCCccc------cCCCCcceee-EEEEe-cCCCCCchhhhHHH
Q 032030           43 KADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDKIPR------KGGPGITQAD-LLVIN-KTDLASAIGADLAV  111 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~AD-ivViN-K~DL~~~~~~~l~~  111 (148)
                      +..+.++.|.|-... ...  .-..+|..+.|+| ..+..-+.      .....++  . ++++| |+|+ ++  ...+.
T Consensus        59 ~~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVvd-~~g~~~qt~e~~~~~~~~~i~--~~ivvvNNK~Dl-~~--~~~~~  132 (370)
T 2elf_A           59 GRNMVFVDAHSYPKTLKSLITALNISDIAVLCIP-PQGLDAHTGECIIALDLLGFK--HGIIALTRSDST-HM--HAIDE  132 (370)
T ss_dssp             SSEEEEEECTTTTTCHHHHHHHHHTCSEEEEEEC-TTCCCHHHHHHHHHHHHTTCC--EEEEEECCGGGS-CH--HHHHH
T ss_pred             CeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEc-CCCCcHHHHHHHHHHHHcCCC--eEEEEEEeccCC-CH--HHHHH
Confidence            345777777775321 000  1135799999999 66533110      0011233  4 89999 9999 76  54444


Q ss_pred             HHHHHH----hcC-CCCcEEE--EEecC---CCCHHHHHHhhh
Q 032030          112 MERDAL----RMR-DGGPFIF--AQVGW---VIGIIFTLSITH  144 (148)
Q Consensus       112 ~~~~i~----~~n-p~a~vi~--tSa~~---g~gi~~l~~~~~  144 (148)
                      +.+.++    ... ...|+++  +||++   |.|+++|++.+.
T Consensus       133 ~~~~i~~~l~~~~~~~~~ii~~~~SA~~~~~g~gi~~L~~~l~  175 (370)
T 2elf_A          133 LKAKLKVITSGTVLQDWECISLNTNKSAKNPFEGVDELKARIN  175 (370)
T ss_dssp             HHHHHHHHTTTSTTTTCEEEECCCCTTSSSTTTTHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCCceEEEecccccccCcCCCCHHHHHHHHH
Confidence            333343    332 3479999  99999   999999998764

>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=97.68  E-value=1.1e-05  Score=58.09  Aligned_cols=71  Identities=15%  Similarity=0.125  Sum_probs=48.0

Q ss_pred             cCceEEEEEeCCCCCCccc---------cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCC
Q 032030           64 LADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVI  134 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~---------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~  134 (148)
                      .+|.+++|+|+........         .....++  -++|+||+|+.+.  ..     +..+  ....+++++||++|.
T Consensus        83 ~ad~~i~v~D~~~~~s~~~~~~~~~~~~~~~~~~p--~ilv~NK~Dl~~~--~~-----~~~~--~~~~~~~~~SA~~g~  151 (172)
T 2gj8_A           83 QADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLP--ITVVRNKADITGE--TL-----GMSE--VNGHALIRLSARTGE  151 (172)
T ss_dssp             TCSEEEEEEETTTCCCCSHHHHCHHHHHHSCTTCC--EEEEEECHHHHCC--CC-----EEEE--ETTEEEEECCTTTCT
T ss_pred             hCCEEEEEEECCCCCCHHHHHHHHHHHHhcccCCC--EEEEEECccCCcc--hh-----hhhh--ccCCceEEEeCCCCC
Confidence            5788999999976543210         1112344  5999999999654  21     0011  134689999999999


Q ss_pred             CHHHHHHhhhh
Q 032030          135 GIIFTLSITHY  145 (148)
Q Consensus       135 gi~~l~~~~~~  145 (148)
                      |++++++++.-
T Consensus       152 gv~~l~~~l~~  162 (172)
T 2gj8_A          152 GVDVLRNHLKQ  162 (172)
T ss_dssp             THHHHHHHHHH
T ss_pred             CHHHHHHHHHH
Confidence            99999998754

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=97.67  E-value=9.2e-05  Score=60.36  Aligned_cols=77  Identities=17%  Similarity=0.082  Sum_probs=49.6

Q ss_pred             cCceEEEEEeCCCCCCc--cc--cCCCCcceeeEEEEecCCCCCchhh-hHHHHHHH----HHhcC-CCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKI--PR--KGGPGITQADLLVINKTDLASAIGA-DLAVMERD----ALRMR-DGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~--~~--~~~~qi~~ADivViNK~DL~~~~~~-~l~~~~~~----i~~~n-p~a~vi~tSa~~g  133 (148)
                      ..+.++.|+|+.+.+..  +.  .+....+  -++|+||+||.+.  . ..+++.++    .++.. +..+++.+||++|
T Consensus        69 ~~~~il~VvD~~d~~~~~~~~l~~~~~~~p--~ilV~NK~DL~~~--~~~~~~~~~~l~~~~~~~g~~~~~v~~iSA~~g  144 (368)
T 3h2y_A           69 SDALVVKIVDIFDFNGSWLPGLHRFVGNNK--VLLVGNKADLIPK--SVKHDKVKHWMRYSAKQLGLKPEDVFLISAAKG  144 (368)
T ss_dssp             SCCEEEEEEETTSHHHHCCTTHHHHSSSSC--EEEEEECGGGSCT--TSCHHHHHHHHHHHHHHTTCCCSEEEECCTTTC
T ss_pred             cCcEEEEEEECCCCcccHHHHHHHHhCCCc--EEEEEEChhcCCc--ccCHHHHHHHHHHHHHHcCCCcccEEEEeCCCC
Confidence            45688999999764321  11  1111333  5899999999875  3 12333333    33322 2237999999999


Q ss_pred             CCHHHHHHhhh
Q 032030          134 IGIIFTLSITH  144 (148)
Q Consensus       134 ~gi~~l~~~~~  144 (148)
                      .|+++|++.+.
T Consensus       145 ~gi~~L~~~l~  155 (368)
T 3h2y_A          145 QGIAELADAIE  155 (368)
T ss_dssp             TTHHHHHHHHH
T ss_pred             cCHHHHHhhhh
Confidence            99999998874

>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=97.67  E-value=4.9e-05  Score=54.88  Aligned_cols=96  Identities=14%  Similarity=0.084  Sum_probs=58.4

Q ss_pred             CEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCc---c-------ccC--CCCcceeeEEEEecCCCCCchhhhH
Q 032030           45 DLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKI---P-------RKG--GPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        45 D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~---~-------~~~--~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      .+.++.|.|........   -..+|.+++|+|+......   .       ...  ...++  -++|+||+|+.+.. ...
T Consensus        57 ~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~p--iilv~nK~Dl~~~~-~~~  133 (199)
T 2gf0_A           57 TLQITDTTGSHQFPAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIP--VMLVGNKCDETQRE-VDT  133 (199)
T ss_dssp             EEEEEECCGGGSCHHHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHSCGGGSC--EEEEEECTTCSSCS-SCH
T ss_pred             EEEEEeCCChHHhHHHHHHhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhcCCCCCC--EEEEEECccCCccc-cCH
Confidence            45666777743111110   1246888999998764221   0       000  11334  59999999997640 122


Q ss_pred             HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          110 AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       110 ~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +...+..+..+  .+++++||++|.|++++++++.-
T Consensus       134 ~~~~~~~~~~~--~~~~~~Sa~~~~gi~~l~~~l~~  167 (199)
T 2gf0_A          134 REAQAVAQEWK--CAFMETSAKMNYNVKELFQELLT  167 (199)
T ss_dssp             HHHHHHHHHHT--CEEEECBTTTTBSHHHHHHHHHH
T ss_pred             HHHHHHHHHhC--CeEEEEecCCCCCHHHHHHHHHH
Confidence            33444444433  58999999999999999998764

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=97.66  E-value=9.1e-05  Score=60.36  Aligned_cols=77  Identities=18%  Similarity=0.106  Sum_probs=50.1

Q ss_pred             cCceEEEEEeCCCCCCc--cc--cCCCCcceeeEEEEecCCCCCchhhh-HHHHHHH----HHhcCC-CCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKI--PR--KGGPGITQADLLVINKTDLASAIGAD-LAVMERD----ALRMRD-GGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~--~~--~~~~qi~~ADivViNK~DL~~~~~~~-l~~~~~~----i~~~np-~a~vi~tSa~~g  133 (148)
                      ..+.++.|+|+...+..  +.  .+-...+  -++|+||+||.+.  .. .+++.++    .++..- ..+++.+||++|
T Consensus        71 ~~~lil~VvD~~d~~~s~~~~l~~~l~~~p--iilV~NK~DLl~~--~~~~~~~~~~l~~~~~~~g~~~~~v~~iSA~~g  146 (369)
T 3ec1_A           71 SKALVVNIVDIFDFNGSFIPGLPRFAADNP--ILLVGNKADLLPR--SVKYPKLLRWMRRMAEELGLCPVDVCLVSAAKG  146 (369)
T ss_dssp             HCCEEEEEEETTCSGGGCCSSHHHHCTTSC--EEEEEECGGGSCT--TCCHHHHHHHHHHHHHTTTCCCSEEEECBTTTT
T ss_pred             cCcEEEEEEECCCCCCchhhHHHHHhCCCC--EEEEEEChhcCCC--ccCHHHHHHHHHHHHHHcCCCcccEEEEECCCC
Confidence            35788999999876531  11  0111233  5889999999875  31 2333333    343322 247899999999


Q ss_pred             CCHHHHHHhhh
Q 032030          134 IGIIFTLSITH  144 (148)
Q Consensus       134 ~gi~~l~~~~~  144 (148)
                      .|+++|++.+.
T Consensus       147 ~gi~~L~~~I~  157 (369)
T 3ec1_A          147 IGMAKVMEAIN  157 (369)
T ss_dssp             BTHHHHHHHHH
T ss_pred             CCHHHHHHHHH
Confidence            99999998773

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=97.66  E-value=4.2e-05  Score=63.71  Aligned_cols=97  Identities=12%  Similarity=0.109  Sum_probs=56.0

Q ss_pred             CCEEEEecCCceee-eee--ccccCceEEEEEeCCCCCC---------cccc----CCCCcceeeEEEEecCCCCCc--h
Q 032030           44 ADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDK---------IPRK----GGPGITQADLLVINKTDLASA--I  105 (148)
Q Consensus        44 ~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~---------~~~~----~~~qi~~ADivViNK~DL~~~--~  105 (148)
                      ..+.|+.|.|-... ...  .-..+|..++|+|+..+..         ....    ....++. -++++||+|+.+.  .
T Consensus        95 ~~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~~~v~~-iIvviNK~Dl~~~~~~  173 (439)
T 3j2k_7           95 KHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTAGVKH-LIVLINKMDDPTVNWS  173 (439)
T ss_pred             eEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHHcCCCe-EEEEeecCCCcccchH
Confidence            45677777774311 000  1135799999999988742         1000    0111220 3789999999642  0


Q ss_pred             hhhHHH----HHHHHHhcC----CCCcEEEEEecCCCCHHHHHH
Q 032030          106 GADLAV----MERDALRMR----DGGPFIFAQVGWVIGIIFTLS  141 (148)
Q Consensus       106 ~~~l~~----~~~~i~~~n----p~a~vi~tSa~~g~gi~~l~~  141 (148)
                      ....+.    +.+.+++..    ...+++++||++|.|++++.+
T Consensus       174 ~~~~~~i~~~~~~~l~~~g~~~~~~~~~i~iSA~~G~ni~~l~~  217 (439)
T 3j2k_7          174 NERYEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQSD  217 (439)
T ss_pred             HHHHHHHHHHHHHHHHHhcccccCCeeEEEeeccCCcccccccc
Confidence            022333    333343332    257899999999999998544

>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=97.65  E-value=1.5e-05  Score=66.94  Aligned_cols=96  Identities=16%  Similarity=0.106  Sum_probs=55.2

Q ss_pred             CCCEEEEecCCceee-eee--ccccCceEEEEEeCCCCCCc-------ccc-C---CCCcce-eeEEEEecCCCCCchhh
Q 032030           43 KADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDKI-------PRK-G---GPGITQ-ADLLVINKTDLASAIGA  107 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~~-------~~~-~---~~qi~~-ADivViNK~DL~~~~~~  107 (148)
                      +..+.|+.|.|.... ...  .-..+|.+++|+|+..+...       +.. .   ...+.. --++|+||+|+.+.-..
T Consensus       110 ~~~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~~~~~iIvviNK~Dl~~~~~~  189 (483)
T 3p26_A          110 RANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIHNLIIAMNKMDNVDWSQQ  189 (483)
T ss_dssp             SCEEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHHTTCCCEEEEEECGGGGTTCHH
T ss_pred             CceEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHHcCCCcEEEEEECcCcccchHH
Confidence            456788888886321 000  11358999999999886311       000 0   000111 14789999999873113


Q ss_pred             hHHHHHHHHHh----cC---CCCcEEEEEecCCCCHHH
Q 032030          108 DLAVMERDALR----MR---DGGPFIFAQVGWVIGIIF  138 (148)
Q Consensus       108 ~l~~~~~~i~~----~n---p~a~vi~tSa~~g~gi~~  138 (148)
                      ..+.+.+.+++    ..   +..+++++||++|.|+++
T Consensus       190 ~~~~i~~~~~~~l~~~g~~~~~~~~i~iSA~~g~gi~e  227 (483)
T 3p26_A          190 RFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYK  227 (483)
T ss_dssp             HHHHHHHHHHHHHHHHTCCGGGEEEEECCSSSCTTSSS
T ss_pred             HHHHHHHHHHHHHHHcCCCcccceEEEEeeecCCCccc
Confidence            34444444432    22   257899999999999975

>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=97.64  E-value=5.5e-05  Score=56.11  Aligned_cols=77  Identities=13%  Similarity=0.046  Sum_probs=51.2

Q ss_pred             cCceEEEEEeCCCCCCccc----------cCCCCcceeeEEEEecCCCCCchhhhH--------------HHHHHHHHhc
Q 032030           64 LADYIIYIIDVSGGDKIPR----------KGGPGITQADLLVINKTDLASAIGADL--------------AVMERDALRM  119 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~----------~~~~qi~~ADivViNK~DL~~~~~~~l--------------~~~~~~i~~~  119 (148)
                      .+|.+++|+|+.....+..          ...+.++  -++|+||+|+.+.  ...              +...+..+..
T Consensus       105 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~--~~~~~~~~~~~~~~v~~~~~~~~~~~~  180 (214)
T 2j1l_A          105 DASVLLLCFDVTSPNSFDNIFNRWYPEVNHFCKKVP--IIVVGCKTDLRKD--KSLVNKLRRNGLEPVTYHRGQEMARSV  180 (214)
T ss_dssp             CEEEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSCC--EEEEEECGGGGSC--HHHHHHHHHTTCCCCCHHHHHHHHHHT
T ss_pred             cCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCC--EEEEEEChhhhcc--chhhhhhcccccCcccHHHHHHHHHhc
Confidence            4688899999876532110          0112344  5899999999876  432              2233444433


Q ss_pred             CCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          120 RDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       120 np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                       ...+++++||++|.|++++++++.-
T Consensus       181 -~~~~~~~~SA~~g~gi~el~~~l~~  205 (214)
T 2j1l_A          181 -GAVAYLECSARLHDNVHAVFQEAAE  205 (214)
T ss_dssp             -TCSEEEECBTTTTBSHHHHHHHHHH
T ss_pred             -CCCEEEEecCCCCCCHHHHHHHHHH
Confidence             2348999999999999999998753

>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=97.62  E-value=2.2e-05  Score=57.48  Aligned_cols=77  Identities=16%  Similarity=0.109  Sum_probs=47.2

Q ss_pred             CceEEEEEeCCCCCCc----------ccc-CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCC
Q 032030           65 ADYIIYIIDVSGGDKI----------PRK-GGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        65 ~d~~i~vvDa~~~~~~----------~~~-~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      +|..+.|.|......+          ... .....+  -++|.||+|+.+.-.-..+.........  +.+++++||++|
T Consensus        81 ~~~~i~v~dv~~~~s~~~~~~~~~~l~~~~~~~~~p--iilV~NK~Dl~~~r~v~~~~~~~~a~~~--~~~~~e~SA~~g  156 (192)
T 2cjw_A           81 GDAYLIVYSITDRASFEKASELRIQLRRARQTEDIP--IILVGNKSDLVRXREVSVSEGRAXAVVF--DXKFIETSAAVQ  156 (192)
T ss_dssp             CSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCC--EEEEEECTTCGGGCCSCHHHHHHHHHHT--TCEEEECBTTTT
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHhhCCCCCe--EEEEEechhhhccccccHHHHHHHHHHh--CCceEEeccccC
Confidence            5777888887653211          000 112344  5899999999753001122222222322  368999999999


Q ss_pred             CCHHHHHHhhhh
Q 032030          134 IGIIFTLSITHY  145 (148)
Q Consensus       134 ~gi~~l~~~~~~  145 (148)
                      .|++++|++++-
T Consensus       157 ~~v~~lf~~l~~  168 (192)
T 2cjw_A          157 HNVKELFEGIVR  168 (192)
T ss_dssp             BSHHHHHHHHHH
T ss_pred             CCHHHHHHHHHH
Confidence            999999998753

>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=97.61  E-value=3.7e-05  Score=63.05  Aligned_cols=99  Identities=12%  Similarity=0.117  Sum_probs=62.4

Q ss_pred             CCCEEEEecCCceee-eee--ccccCceEEEEEeCCCCCCcccc------CCCCcceee-EEEEecCCCCCchhhhH---
Q 032030           43 KADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDKIPRK------GGPGITQAD-LLVINKTDLASAIGADL---  109 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~~~~~------~~~qi~~AD-ivViNK~DL~~~~~~~l---  109 (148)
                      +..+.++.|.|-... ...  .-..+|..++|+|+.++...+..      ....++  . ++++||+|+.+.. ..+   
T Consensus        65 ~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l~~~~~~~vp--~iivviNK~Dl~~~~-~~~~~~  141 (397)
T 1d2e_A           65 ARHYAHTDCPGHADYVKNMITGTAPLDGCILVVAANDGPMPQTREHLLLARQIGVE--HVVVYVNKADAVQDS-EMVELV  141 (397)
T ss_dssp             SCEEEEEECSSHHHHHHHHHHTSSCCSEEEEEEETTTCSCHHHHHHHHHHHHTTCC--CEEEEEECGGGCSCH-HHHHHH
T ss_pred             CeEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCC--eEEEEEECcccCCCH-HHHHHH
Confidence            467888999886321 011  11357999999999887532110      011223  3 6899999998530 222   


Q ss_pred             -HHHHHHHHhcCC---CCcEEEEEecCCCC----------HHHHHHhhh
Q 032030          110 -AVMERDALRMRD---GGPFIFAQVGWVIG----------IIFTLSITH  144 (148)
Q Consensus       110 -~~~~~~i~~~np---~a~vi~tSa~~g~g----------i~~l~~~~~  144 (148)
                       +++.+.+++..-   ..+++++||++|.|          +++|++.+.
T Consensus       142 ~~~~~~~l~~~~~~~~~~~~i~~SA~~g~n~~~~~~~~g~i~~Ll~~l~  190 (397)
T 1d2e_A          142 ELEIRELLTEFGYKGEETPIIVGSALCALEQRDPELGLKSVQKLLDAVD  190 (397)
T ss_dssp             HHHHHHHHHHTTSCTTTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCcccCcEEEeehhhcccccCCCccCCcHHHHHHHHH
Confidence             244555554431   47999999999764          889988774

>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=97.61  E-value=6.3e-05  Score=54.50  Aligned_cols=78  Identities=14%  Similarity=0.015  Sum_probs=51.1

Q ss_pred             cCceEEEEEeCCCCCCccc----------cCCCCcceeeEEEEecCCCCCc--hhhhHHHHHHHHHhcCCCCcEEEEEec
Q 032030           64 LADYIIYIIDVSGGDKIPR----------KGGPGITQADLLVINKTDLASA--IGADLAVMERDALRMRDGGPFIFAQVG  131 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~----------~~~~qi~~ADivViNK~DL~~~--~~~~l~~~~~~i~~~np~a~vi~tSa~  131 (148)
                      .+|.+++|+|+........          ...+.++  -++|+||+|+.++  .....+...+..+..+ ..+++++||+
T Consensus        94 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p--~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~  170 (194)
T 3reg_A           94 DSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTAK--TVLVGLKVDLRKDGSDDVTKQEGDDLCQKLG-CVAYIEASSV  170 (194)
T ss_dssp             TCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTSE--EEEEEECGGGCCTTTTCCCHHHHHHHHHHHT-CSCEEECBTT
T ss_pred             CCcEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC--EEEEEEChhhccCCCCcccHHHHHHHHHhcC-CCEEEEeecC
Confidence            4688999999876532110          1112344  5899999999752  0022344555555433 2239999999


Q ss_pred             CCCCHHHHHHhhh
Q 032030          132 WVIGIIFTLSITH  144 (148)
Q Consensus       132 ~g~gi~~l~~~~~  144 (148)
                      +|.|++++++++.
T Consensus       171 ~~~gi~~l~~~l~  183 (194)
T 3reg_A          171 AKIGLNEVFEKSV  183 (194)
T ss_dssp             TTBSHHHHHHHHH
T ss_pred             CCCCHHHHHHHHH
Confidence            9999999999875

>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=97.61  E-value=4.2e-05  Score=55.64  Aligned_cols=78  Identities=17%  Similarity=0.083  Sum_probs=51.6

Q ss_pred             cCceEEEEEeCCCCCCcc----------c-cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecC
Q 032030           64 LADYIIYIIDVSGGDKIP----------R-KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGW  132 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~----------~-~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~  132 (148)
                      .+|.+++|+|+.....+.          . .....++  -++|+||+|+.+.-....+...+..+..  +.+++++||++
T Consensus        98 ~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~p--iilv~NK~Dl~~~~~v~~~~~~~~~~~~--~~~~~~~Sa~~  173 (196)
T 2atv_A           98 WGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVT--LILVGNKADLDHSRQVSTEEGEKLATEL--ACAFYECSACT  173 (196)
T ss_dssp             HCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCC--EEEEEECGGGGGGCCSCHHHHHHHHHHH--TSEEEECCTTT
T ss_pred             cCCEEEEEEECcCHHHHHHHHHHHHHHHHhhCCCCCc--EEEEEECcccccccccCHHHHHHHHHHh--CCeEEEECCCc
Confidence            368889999987642210          0 0112344  5899999999763111223444555544  36899999999


Q ss_pred             CC-CHHHHHHhhhh
Q 032030          133 VI-GIIFTLSITHY  145 (148)
Q Consensus       133 g~-gi~~l~~~~~~  145 (148)
                      |. |++++++++.-
T Consensus       174 g~~gi~~l~~~l~~  187 (196)
T 2atv_A          174 GEGNITEIFYELCR  187 (196)
T ss_dssp             CTTCHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHHH
Confidence            99 99999998753

>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=97.60  E-value=3.8e-05  Score=56.54  Aligned_cols=96  Identities=14%  Similarity=0.042  Sum_probs=58.7

Q ss_pred             CEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCccc----------cCCCCcceeeEEEEecCCCCCchhhhH--
Q 032030           45 DLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIPR----------KGGPGITQADLLVINKTDLASAIGADL--  109 (148)
Q Consensus        45 D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~~----------~~~~qi~~ADivViNK~DL~~~~~~~l--  109 (148)
                      .+.+++|.|.-......   -..+|.+++|+|+........          ...+..+  -++|+||+|+.+.  ...  
T Consensus        79 ~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~--~~~~~  154 (204)
T 4gzl_A           79 NLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTP--IILVGTKLDLRDD--KDTIE  154 (204)
T ss_dssp             EEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSCC--EEEEEECHHHHTC--HHHHH
T ss_pred             EEEEEECCCchhhHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC--EEEEEechhhccc--hhhhh
Confidence            34466777752111111   135688999999876532110          0112344  6899999999876  331  


Q ss_pred             ------------HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          110 ------------AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       110 ------------~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                                  +...+..+. ....+++++||++|.|++++++++.-
T Consensus       155 ~~~~~~~~~v~~~~~~~~~~~-~~~~~~~~~SA~~g~gi~~l~~~l~~  201 (204)
T 4gzl_A          155 KLKEKKLTPITYPQGLAMAKE-IGAVKYLECSALTQRGLKTVFDEAIR  201 (204)
T ss_dssp             HHHHTTCCCCCHHHHHHHHHH-TTCSEEEECCTTTCTTHHHHHHHHHH
T ss_pred             hhhccccccccHHHHHHHHHh-cCCcEEEEeeCCCCCCHHHHHHHHHH
Confidence                        223333333 33457999999999999999998753

>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=97.60  E-value=3.6e-05  Score=54.81  Aligned_cols=97  Identities=14%  Similarity=0.074  Sum_probs=59.4

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc-------c---cCCCCcceeeEEEEecCCCCCchhhh--
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP-------R---KGGPGITQADLLVINKTDLASAIGAD--  108 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~-------~---~~~~qi~~ADivViNK~DL~~~~~~~--  108 (148)
                      +.+.++.+.|.......   .-..+|.+++|+|+.......       .   ...+..+  -++|+||+|+.+.  ..  
T Consensus        53 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~--~~~~  128 (186)
T 1mh1_A           53 VNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTP--IILVGTKLDLRDD--KDTI  128 (186)
T ss_dssp             EEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSC--EEEEEECHHHHTC--HHHH
T ss_pred             EEEEEEECCCCHhHHHHHHHhccCCcEEEEEEECCChhhHHHHHHHHHHHHHHhCCCCC--EEEEeEccccccc--chhh
Confidence            44557777775321111   113578899999987643211       0   0112344  5899999999765  32  


Q ss_pred             ------------HHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          109 ------------LAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       109 ------------l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                                  .+...+..+.. ...+++++||++|.|++++++++.-
T Consensus       129 ~~~~~~~~~~v~~~~~~~~~~~~-~~~~~~~~Sa~~g~gi~~l~~~l~~  176 (186)
T 1mh1_A          129 EKLKEKKLTPITYPQGLAMAKEI-GAVKYLECSALTQRGLKTVFDEAIR  176 (186)
T ss_dssp             HHHHHTTCCCCCHHHHHHHHHHT-TCSEEEECCTTTCTTHHHHHHHHHH
T ss_pred             hhhcccccccCCHHHHHHHHHhc-CCcEEEEecCCCccCHHHHHHHHHH
Confidence                        12233333332 2248999999999999999998754

>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=97.57  E-value=9.6e-06  Score=63.58  Aligned_cols=96  Identities=15%  Similarity=0.155  Sum_probs=60.4

Q ss_pred             CCCEEEEecCCceee----------eeec-cccCceEEEEEeCCCCCCcc----ccCCCCcceeeEEEEecCCCCCch--
Q 032030           43 KADLLLCESGGDNLA----------ANFS-RELADYIIYIIDVSGGDKIP----RKGGPGITQADLLVINKTDLASAI--  105 (148)
Q Consensus        43 ~~D~IliEtsG~~~~----------~~~~-~~~~d~~i~vvDa~~~~~~~----~~~~~qi~~ADivViNK~DL~~~~--  105 (148)
                      +..+.++.|.|.--.          ..+. ....|.++.|+|+...+...    ......++  -++|+||+|+....  
T Consensus        48 ~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~vi~V~D~t~~e~~~~~~~~l~~~~~p--~ilv~NK~Dl~~~~~~  125 (272)
T 3b1v_A           48 NKDLEIQDLPGIYSMSPYSPEAKVARDYLLSQRADSILNVVDATNLERNLYLTTQLIETGIP--VTIALNMIDVLDGQGK  125 (272)
T ss_dssp             CTTEEEEECCCCSCSSCSSHHHHHHHHHHHTTCCSEEEEEEEGGGHHHHHHHHHHHHHTCSC--EEEEEECHHHHHHTTC
T ss_pred             CCeEEEEECCCcCccCCCChHHHHHHHHHhcCCCCEEEEEecCCchHhHHHHHHHHHhcCCC--EEEEEEChhhCCcCCc
Confidence            457888899886311          0111 12478999999987643211    11112334  69999999986430  


Q ss_pred             hhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          106 GADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       106 ~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ..+.+++.+.+     +.|++++||++|.|++++++++.-
T Consensus       126 ~~~~~~l~~~l-----g~~vi~~SA~~g~gi~el~~~i~~  160 (272)
T 3b1v_A          126 KINVDKLSYHL-----GVPVVATSALKQTGVDQVVKKAAH  160 (272)
T ss_dssp             CCCHHHHHHHH-----TSCEEECBTTTTBSHHHHHHHHHH
T ss_pred             HHHHHHHHHHc-----CCCEEEEEccCCCCHHHHHHHHHH
Confidence            01223333332     358999999999999999998753

>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=97.57  E-value=6.3e-05  Score=61.68  Aligned_cols=100  Identities=15%  Similarity=0.100  Sum_probs=61.8

Q ss_pred             CCCEEEEecCCceee-eee--ccccCceEEEEEeCCCCCCcccc------CCCCcceeeEEEEecCCCCCchhhhHH---
Q 032030           43 KADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDKIPRK------GGPGITQADLLVINKTDLASAIGADLA---  110 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~~~~~------~~~qi~~ADivViNK~DL~~~~~~~l~---  110 (148)
                      +..+.++.|.|.... ...  .-..+|..++|+|+.++...+..      ....++. -++++||+|+.+.. +.++   
T Consensus        74 ~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvda~~g~~~qt~~~l~~~~~~~ip~-iivviNK~Dl~~~~-~~~~~~~  151 (405)
T 2c78_A           74 KRHYSHVDCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVPY-IVVFMNKVDMVDDP-ELLDLVE  151 (405)
T ss_dssp             SCEEEEEECCCSGGGHHHHHHHHTTCSSEEEEEETTTCCCHHHHHHHHHHHHTTCCC-EEEEEECGGGCCCH-HHHHHHH
T ss_pred             CeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCE-EEEEEECccccCcH-HHHHHHH
Confidence            467888888886421 000  11357999999999887431110      0112220 26899999998530 2233   


Q ss_pred             -HHHHHHHhcCC---CCcEEEEEecCCCC------------------HHHHHHhhh
Q 032030          111 -VMERDALRMRD---GGPFIFAQVGWVIG------------------IIFTLSITH  144 (148)
Q Consensus       111 -~~~~~i~~~np---~a~vi~tSa~~g~g------------------i~~l~~~~~  144 (148)
                       ++.+.+++...   ..+++++||++|.|                  +++|++.+.
T Consensus       152 ~~~~~~l~~~~~~~~~~~~i~~SA~~g~~v~~~~~~~~~~~~~~~~~i~~Ll~~l~  207 (405)
T 2c78_A          152 MEVRDLLNQYEFPGDEVPVIRGSALLALEQMHRNPKTRRGENEWVDKIWELLDAID  207 (405)
T ss_dssp             HHHHHHHHHTTSCTTTSCEEECCHHHHHHHHHHCTTCCTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcccccCCCEEEccHHHhhhhhccccccccCCCcccccHHHHHHHHH
Confidence             34455555442   47999999999987                  778877664

>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=97.57  E-value=7.7e-05  Score=54.37  Aligned_cols=98  Identities=14%  Similarity=0.055  Sum_probs=59.7

Q ss_pred             CCCEEEEecCCceee--ee----eccccCceEEEEEeCCCCC--Ccc-------cc--CCCCcceeeEEEEecCCCCCch
Q 032030           43 KADLLLCESGGDNLA--AN----FSRELADYIIYIIDVSGGD--KIP-------RK--GGPGITQADLLVINKTDLASAI  105 (148)
Q Consensus        43 ~~D~IliEtsG~~~~--~~----~~~~~~d~~i~vvDa~~~~--~~~-------~~--~~~qi~~ADivViNK~DL~~~~  105 (148)
                      ...+.++.+.|.-..  ..    ..-..+|.+++|+|+....  ...       ..  ..+.++  -++|.||+||.++ 
T Consensus        68 ~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~~~~~~p--iilv~nK~Dl~~~-  144 (196)
T 3llu_A           68 FVNFQIWDFPGQMDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVNPDMN--FEVFIHKVDGLSD-  144 (196)
T ss_dssp             SCCEEEEECCSSCCTTCTTCCHHHHHHTCSEEEEEEETTSCCHHHHHHHHHHHHHHHHHCTTCE--EEEEEECGGGSCH-
T ss_pred             eeEEEEEECCCCHHHHhhhhhcccccccCCEEEEEEECCCchHHHHHHHHHHHHHHHhcCCCCc--EEEEEeccccCch-
Confidence            466777888885321  00    0012478899999998751  100       00  123444  6899999999874 


Q ss_pred             hhhH----HHH-----HHHHHhc--CCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          106 GADL----AVM-----ERDALRM--RDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       106 ~~~l----~~~-----~~~i~~~--np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                       ...    ..+     .+..+..  ..+.+++++||++ .|++++|+.+.-
T Consensus       145 -~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~e~Sa~~-~~v~~~f~~l~~  193 (196)
T 3llu_A          145 -DHKIETQRDIHQRANDDLADAGLEKLHLSFYLTSIYD-HSIFEAFSKVVQ  193 (196)
T ss_dssp             -HHHHHHHHHHHHHHHHHHHHTTCTTSCEEEEEECTTS-THHHHHHHHHHH
T ss_pred             -hhhhHHHhHHHHHHHHHHHHhhhhcCCcceEEEEech-hhHHHHHHHHHH
Confidence             321    111     1222211  3456899999999 999999998764

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=97.54  E-value=3.9e-05  Score=56.37  Aligned_cols=97  Identities=13%  Similarity=0.108  Sum_probs=60.5

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc----c------cCCCCcceeeEEEEecCCCCCchhhh--
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP----R------KGGPGITQADLLVINKTDLASAIGAD--  108 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~----~------~~~~qi~~ADivViNK~DL~~~~~~~--  108 (148)
                      +.+.++++.|.-....+.   -..+|.+++|+|+.....+.    .      ...+.++  -++|+||+|+.+.  ..  
T Consensus        57 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~--~~~~  132 (212)
T 2j0v_A           57 VNLGLWDTAGQEDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFAPNVP--IVLVGTKLDLRDD--KGYL  132 (212)
T ss_dssp             EEEEEECCCCCCCCCC--CGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCC--EEEEEECHHHHTC--HHHH
T ss_pred             EEEEEEECCCcHHHHHHHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC--EEEEEeCHHhhhC--cccc
Confidence            345666777753211111   13468899999987653211    0      1112344  5899999999765  32  


Q ss_pred             --------HHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          109 --------LAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       109 --------l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                              .+...+..+..+ ..+++++||++|.|++++++++.-
T Consensus       133 ~~~~~~v~~~~~~~~~~~~~-~~~~~~~Sa~~g~gi~~l~~~l~~  176 (212)
T 2j0v_A          133 ADHTNVITSTQGEELRKQIG-AAAYIECSSKTQQNVKAVFDTAIK  176 (212)
T ss_dssp             HTCSSCCCHHHHHHHHHHHT-CSEEEECCTTTCTTHHHHHHHHHH
T ss_pred             ccccCCCCHHHHHHHHHHcC-CceEEEccCCCCCCHHHHHHHHHH
Confidence                    334444444433 248999999999999999998753

>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=97.53  E-value=5.8e-06  Score=58.88  Aligned_cols=76  Identities=17%  Similarity=0.142  Sum_probs=48.9

Q ss_pred             cCceEEEEEeCCCCCCcc----ccCCCCcceeeEEEEecCCCCCchhhhHH-HHHHHHHhcCCCCcEEEEEecCCCCHHH
Q 032030           64 LADYIIYIIDVSGGDKIP----RKGGPGITQADLLVINKTDLASAIGADLA-VMERDALRMRDGGPFIFAQVGWVIGIIF  138 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~----~~~~~qi~~ADivViNK~DL~~~~~~~l~-~~~~~i~~~np~a~vi~tSa~~g~gi~~  138 (148)
                      .+|.++.++|+...+...    .......+  -++|.||+|+...  .... ...+..+..+  .+++++||++|.|+++
T Consensus        81 ~~~~~i~v~D~~~~~~~~~~~~~~~~~~~p--~ilv~nK~Dl~~~--~~~~~~~~~~~~~~~--~~~~~~SA~~~~~v~~  154 (165)
T 2wji_A           81 KPDLVVNIVDATALERNLYLTLQLMEMGAN--LLLALNKMDLAKS--LGIEIDVDKLEKILG--VKVVPLSAAKKMGIEE  154 (165)
T ss_dssp             CCSEEEEEEETTCHHHHHHHHHHHHHTTCC--EEEEEECHHHHHH--TTCCCCHHHHHHHHT--SCEEECBGGGTBSHHH
T ss_pred             CCCEEEEEecCCchhHhHHHHHHHHhcCCC--EEEEEEchHhccc--cChhhHHHHHHHHhC--CCEEEEEcCCCCCHHH
Confidence            568899999987643211    11111233  6899999998643  2110 1222223333  6899999999999999


Q ss_pred             HHHhhhh
Q 032030          139 TLSITHY  145 (148)
Q Consensus       139 l~~~~~~  145 (148)
                      +++++.-
T Consensus       155 l~~~l~~  161 (165)
T 2wji_A          155 LKKAISI  161 (165)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9998764

>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=97.52  E-value=5.4e-05  Score=55.66  Aligned_cols=97  Identities=20%  Similarity=0.209  Sum_probs=57.7

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc-------c---cCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP-------R---KGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~-------~---~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      +.+.+++|.|.-.....   .-..+|.+++|+|+.....+.       .   ...+..+  -++|+||+|+.+.  ....
T Consensus        73 ~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~--~~~~  148 (207)
T 2fv8_A           73 VELALWDTAGQEDYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFCPNVP--IILVANKKDLRSD--EHVR  148 (207)
T ss_dssp             EEEEEEECTTCTTCTTTGGGGCTTCCEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCC--EEEEEECGGGGGC--HHHH
T ss_pred             EEEEEEECCCcHHHHHHHHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC--EEEEEEchhhhcc--ccch
Confidence            45566677774211111   113468889999987642210       0   0112344  5899999999765  3221


Q ss_pred             --------------HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          111 --------------VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       111 --------------~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                                    ...+..+.. ...+++++||++|.|++++++++.-
T Consensus       149 ~~~~~~~~~~v~~~~~~~~~~~~-~~~~~~~~SA~~g~gi~el~~~l~~  196 (207)
T 2fv8_A          149 TELARMKQEPVRTDDGRAMAVRI-QAYDYLECSAKTKEGVREVFETATR  196 (207)
T ss_dssp             HHHHHTTCCCCCHHHHHHHHHHT-TCSEEEECCTTTCTTHHHHHHHHHH
T ss_pred             hhhhhcccCCCCHHHHHHHHHhc-CCCEEEEeeCCCCCCHHHHHHHHHH
Confidence                          122222222 2238999999999999999998753

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=97.51  E-value=0.00012  Score=62.67  Aligned_cols=85  Identities=18%  Similarity=0.196  Sum_probs=55.1

Q ss_pred             cCCCeeeeeccchhhchHHHHHhhhhcCCCEEEEecCCceee------ee--ec------cccCceEEEEEeCCCCCC--
Q 032030           16 TGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDNLA------AN--FS------RELADYIIYIIDVSGGDK--   79 (148)
Q Consensus        16 ~nGcicc~i~~dl~~~~~al~~l~~~~~~D~IliEtsG~~~~------~~--~~------~~~~d~~i~vvDa~~~~~--   79 (148)
                      .+||+||++++++   +       .    .++||+|.|..-.      ..  |.      -..+|.+++|+|+.+..-  
T Consensus       140 ~~~~~~~~~~~~l---l-------~----~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~  205 (550)
T 2qpt_A          140 LNRFMCAQLPNQV---L-------E----SISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISD  205 (550)
T ss_dssp             CTTEEEEECCCHH---H-------H----HCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCH
T ss_pred             cccceEEeccccc---c-------C----CEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCH
Confidence            3799999997655   1       1    3689999998531      11  11      124699999999976321  


Q ss_pred             ----ccccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHH
Q 032030           80 ----IPRKGGPGITQADLLVINKTDLASAIGADLAVMERDAL  117 (148)
Q Consensus        80 ----~~~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~  117 (148)
                          +.... .+.....++|+||+|+.+.  .++.++.+.++
T Consensus       206 ~~~~~l~~l-~~~~~pvilVlNK~Dl~~~--~el~~~~~~l~  244 (550)
T 2qpt_A          206 EFSEAIGAL-RGHEDKIRVVLNKADMVET--QQLMRVYGALM  244 (550)
T ss_dssp             HHHHHHHHT-TTCGGGEEEEEECGGGSCH--HHHHHHHHHHH
T ss_pred             HHHHHHHHH-HhcCCCEEEEEECCCccCH--HHHHHHHHHhh
Confidence                11111 1223347999999999988  77777666554

>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=97.51  E-value=0.00013  Score=60.58  Aligned_cols=96  Identities=14%  Similarity=0.072  Sum_probs=57.5

Q ss_pred             CCCEEEEecCCceee-eee--ccccCceEEEEEeCCCC-------CCcccc-C---CCCccee-eEEEEecCCCCCch--
Q 032030           43 KADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGG-------DKIPRK-G---GPGITQA-DLLVINKTDLASAI--  105 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~-------~~~~~~-~---~~qi~~A-DivViNK~DL~~~~--  105 (148)
                      +..+.++.|.|.... ...  .-..+|..++|+|+.++       ...+.. .   ..++... -++++||+|+.+..  
T Consensus        83 ~~~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~gsfe~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~~~~~  162 (435)
T 1jny_A           83 KYFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTEPPYD  162 (435)
T ss_dssp             SCEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSSSTTC
T ss_pred             CeEEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCCCccccccccchHHHHHHHHHHHcCCCeEEEEEEcccCCCcccc
Confidence            567899999996421 000  12357999999999875       111100 0   0001111 36899999998720  


Q ss_pred             hhhH----HHHHHHHHhcC--C-CCcEEEEEecCCCCHHH
Q 032030          106 GADL----AVMERDALRMR--D-GGPFIFAQVGWVIGIIF  138 (148)
Q Consensus       106 ~~~l----~~~~~~i~~~n--p-~a~vi~tSa~~g~gi~~  138 (148)
                      .+.+    +++.+.++...  + ..+++++||++|.|+.+
T Consensus       163 ~~~~~~~~~~i~~~~~~~~~~~~~~~~i~iSA~~g~~v~e  202 (435)
T 1jny_A          163 EKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITH  202 (435)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTB
T ss_pred             HHHHHHHHHHHHHHHHHcCCCcCCceEEEeecccCccccc
Confidence            0222    34555555433  2 47899999999999974

>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=97.50  E-value=1.7e-05  Score=58.94  Aligned_cols=95  Identities=12%  Similarity=-0.018  Sum_probs=58.8

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCccc---------cCCCCcceeeEEEEecCCCCCchhhhHHH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIPR---------KGGPGITQADLLVINKTDLASAIGADLAV  111 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~~---------~~~~qi~~ADivViNK~DL~~~~~~~l~~  111 (148)
                      +.+.++.|.|.-....+.   -..+|.+++|+|+........         ...+.++  -++|+||+|+.+.  ...+.
T Consensus        64 ~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~p--~ilv~nK~Dl~~~--~~~~~  139 (221)
T 3gj0_A           64 IKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIP--IVLCGNKVDIKDR--KVKAK  139 (221)
T ss_dssp             EEEEEEEECSGGGTSCCCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSTTCC--EEEEEECTTSSSC--SSCGG
T ss_pred             EEEEEEeCCChHHHhHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCCC--EEEEEECCccccc--cccHH
Confidence            345566666642111110   124788999999886532110         0112344  5899999999875  33223


Q ss_pred             HHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          112 MERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       112 ~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ..+..+..  +.+++++||++|.|++++++++.
T Consensus       140 ~~~~~~~~--~~~~~~~Sa~~~~gi~~l~~~l~  170 (221)
T 3gj0_A          140 SIVFHRKK--NLQYYDISAKSNYNFEKPFLWLA  170 (221)
T ss_dssp             GCCHHHHH--TCEEEECBGGGTBTTTHHHHHHH
T ss_pred             HHHHHHHc--CCEEEEEeCCCCCCHHHHHHHHH
Confidence            33334433  36899999999999999998875

>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=97.50  E-value=0.00014  Score=53.15  Aligned_cols=97  Identities=18%  Similarity=0.172  Sum_probs=58.4

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCc-------cc---cCCCCcceeeEEEEecCCCCCchhhhH-
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKI-------PR---KGGPGITQADLLVINKTDLASAIGADL-  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~-------~~---~~~~qi~~ADivViNK~DL~~~~~~~l-  109 (148)
                      +.+.++++.|......+   .-..+|.+++|+|+.....+       ..   ...+..+  -++|+||+|+.+.  ... 
T Consensus        73 ~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~--~~~~  148 (201)
T 2gco_A           73 VELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVP--IILVGNKKDLRQD--EHTR  148 (201)
T ss_dssp             EEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCC--EEEEEECGGGTTC--HHHH
T ss_pred             EEEEEEECCCchhHHHHHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC--EEEEEecHHhhcC--ccch
Confidence            34566677774211111   11356889999998764221       00   0112344  5899999999875  321 


Q ss_pred             -------------HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          110 -------------AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       110 -------------~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                                   +...+..+.. ...+++++||++|.|++++++++.-
T Consensus       149 ~~~~~~~~~~v~~~~~~~~~~~~-~~~~~~~~SA~~g~gi~~l~~~i~~  196 (201)
T 2gco_A          149 RELAKMKQEPVRSEEGRDMANRI-SAFGYLECSAKTKEGVREVFEMATR  196 (201)
T ss_dssp             HHHHTTTCCCCCHHHHHHHHHHT-TCSEEEECCTTTCTTHHHHHHHHHH
T ss_pred             hhhcccccCcCCHHHHHHHHHhC-CCcEEEEeeCCCCCCHHHHHHHHHH
Confidence                         1223333332 2237999999999999999998753

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=97.49  E-value=3.9e-05  Score=66.63  Aligned_cols=96  Identities=16%  Similarity=0.128  Sum_probs=56.9

Q ss_pred             CCCEEEEecCCceee-eee--ccccCceEEEEEeCCCCC---------Cccc----cCCCCcceeeEEEEecCCCCCchh
Q 032030           43 KADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGD---------KIPR----KGGPGITQADLLVINKTDLASAIG  106 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~---------~~~~----~~~~qi~~ADivViNK~DL~~~~~  106 (148)
                      +..+.|+.|.|.... ...  .-..+|.+++|+|+..+.         ....    .....++ --++|+||+|+.+.-.
T Consensus       244 ~~~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~lgi~-~iIVVvNKiDl~~~~~  322 (611)
T 3izq_1          244 RANFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSLGIH-NLIIAMNKMDNVDWSQ  322 (611)
T ss_dssp             SCEEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHTTTCC-EEEEEEECTTTTTTCH
T ss_pred             CceEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHHcCCC-eEEEEEecccccchhH
Confidence            347889999996421 000  123579999999998641         1000    0001111 1478899999987311


Q ss_pred             hhHHHHH----HHHHhcC---CCCcEEEEEecCCCCHHHH
Q 032030          107 ADLAVME----RDALRMR---DGGPFIFAQVGWVIGIIFT  139 (148)
Q Consensus       107 ~~l~~~~----~~i~~~n---p~a~vi~tSa~~g~gi~~l  139 (148)
                      ...+.+.    +.+++..   +..+++++||++|.|++++
T Consensus       323 ~~~~ei~~~l~~~l~~~g~~~~~~~~i~vSA~tG~gI~el  362 (611)
T 3izq_1          323 QRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKI  362 (611)
T ss_dssp             HHHHHHHHHHHHHHHHHTCCGGGCEEEECCTTTCTTTSSC
T ss_pred             HHHHHHHHHHHHHHHhhcccccCccEEeeecccCCCcccc
Confidence            3333333    3333332   2579999999999999854

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=97.49  E-value=3.3e-05  Score=65.53  Aligned_cols=98  Identities=12%  Similarity=0.094  Sum_probs=58.5

Q ss_pred             CCCEEEEecCCceee----eeeccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhHHHH
Q 032030           43 KADLLLCESGGDNLA----ANFSRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADLAVM  112 (148)
Q Consensus        43 ~~D~IliEtsG~~~~----~~~~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l~~~  112 (148)
                      +..+.++.+.|.-..    ..+. ..+|.++.|+|+...+....      .+.+..+  -++|+||+|+.+......+.+
T Consensus        97 ~~~~~i~Dt~G~e~~~~~~~~~l-~~~d~ii~V~D~s~~~~~~~~~~~l~~~~~~~p--vilV~NK~Dl~~~~~v~~~~~  173 (535)
T 3dpu_A           97 ECLFHFWDFGGQEIMHASHQFFM-TRSSVYMLLLDSRTDSNKHYWLRHIEKYGGKSP--VIVVMNKIDENPSYNIEQKKI  173 (535)
T ss_dssp             TCEEEEECCCSCCTTTTTCHHHH-HSSEEEEEEECGGGGGGHHHHHHHHHHHSSSCC--EEEEECCTTTCTTCCCCHHHH
T ss_pred             eEEEEEEECCcHHHHHHHHHHHc-cCCcEEEEEEeCCCchhHHHHHHHHHHhCCCCC--EEEEEECCCcccccccCHHHH
Confidence            456777777773211    1111 24788899999876644211      1122344  699999999986511234455


Q ss_pred             HHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          113 ERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       113 ~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      .+..+..+  .+++++||++|.|++++++++.-
T Consensus       174 ~~~~~~~~--~~~~~vSA~~g~gi~eL~~~l~~  204 (535)
T 3dpu_A          174 NERFPAIE--NRFHRISCKNGDGVESIAKSLKS  204 (535)
T ss_dssp             HHHCGGGT--TCEEECCC-----CTTHHHHHHH
T ss_pred             HHHHHhcC--CceEEEecCcccCHHHHHHHHHH
Confidence            55555443  57999999999999999988753

>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=97.48  E-value=9e-05  Score=61.39  Aligned_cols=95  Identities=17%  Similarity=0.139  Sum_probs=57.8

Q ss_pred             CCEEEEecCCceee-eee--ccccCceEEEEEeCCCCCCcccc------CCCCcceeeEEEEecCCCCCchhhhH----H
Q 032030           44 ADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDKIPRK------GGPGITQADLLVINKTDLASAIGADL----A  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~~~~~------~~~qi~~ADivViNK~DL~~~~~~~l----~  110 (148)
                      ..+.++.|.|-... ...  .-..+|..++|+|+.++...+..      ....++ --++|+||+|+.+...+.+    +
T Consensus       104 ~~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~~qt~~~l~~~~~~~~~-~iIvviNK~Dl~~~~~~~~~~i~~  182 (434)
T 1zun_B          104 RKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRRHSYIASLLGIK-HIVVAINKMDLNGFDERVFESIKA  182 (434)
T ss_dssp             EEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHHHHHHHHHTTCC-EEEEEEECTTTTTSCHHHHHHHHH
T ss_pred             ceEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHcCCC-eEEEEEEcCcCCcccHHHHHHHHH
Confidence            45788888885321 011  11467999999999887431110      001111 1478899999987311333    3


Q ss_pred             HHHHHHHhcC---CCCcEEEEEecCCCCHHHH
Q 032030          111 VMERDALRMR---DGGPFIFAQVGWVIGIIFT  139 (148)
Q Consensus       111 ~~~~~i~~~n---p~a~vi~tSa~~g~gi~~l  139 (148)
                      .+.+.+++.+   +..+++++||++|.|++++
T Consensus       183 ~~~~~~~~~g~~~~~~~~i~vSA~~g~gi~~~  214 (434)
T 1zun_B          183 DYLKFAEGIAFKPTTMAFVPMSALKGDNVVNK  214 (434)
T ss_dssp             HHHHHHHTTTCCCSEEEEEECCTTTCTTTSSC
T ss_pred             HHHHHHHHhCCCccCceEEEEeccCCCCcccc
Confidence            3444455554   3478999999999999874

>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=97.47  E-value=4.7e-05  Score=55.22  Aligned_cols=78  Identities=17%  Similarity=0.001  Sum_probs=51.5

Q ss_pred             cCceEEEEEeCCCCCCccc---c------C----CCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEe
Q 032030           64 LADYIIYIIDVSGGDKIPR---K------G----GPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQV  130 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~---~------~----~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa  130 (148)
                      .+|.+++|+|+.....+..   .      .    ...++  -++|.||+|+.+.-....+...+..++.+  .+++.+||
T Consensus        91 ~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~p--iilv~nK~Dl~~~~~v~~~~~~~~~~~~~--~~~~e~Sa  166 (187)
T 3c5c_A           91 WAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIP--ALLLGNKLDMAQYRQVTKAEGVALAGRFG--CLFFEVSA  166 (187)
T ss_dssp             TCSEEEEEEETTCHHHHHHHHHHHHHHHHHHHHHCCCCC--EEEEEECGGGGGGCSSCHHHHHHHHHHHT--CEEEECCS
T ss_pred             hCCEEEEEEECCCHHHHHHHHHHHHHHHHHhhccCCCCC--EEEEEECcchhhcCccCHHHHHHHHHHcC--CcEEEEee
Confidence            4688899999875432110   0      0    02344  58999999996531112244555555544  58999999


Q ss_pred             -cCCCCHHHHHHhhhh
Q 032030          131 -GWVIGIIFTLSITHY  145 (148)
Q Consensus       131 -~~g~gi~~l~~~~~~  145 (148)
                       ++|.|++++++++.-
T Consensus       167 ~~~g~gv~~lf~~l~~  182 (187)
T 3c5c_A          167 CLDFEHVQHVFHEAVR  182 (187)
T ss_dssp             SSCSHHHHHHHHHHHH
T ss_pred             cCccccHHHHHHHHHH
Confidence             899999999998753

>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=97.45  E-value=0.00013  Score=59.57  Aligned_cols=78  Identities=18%  Similarity=0.094  Sum_probs=51.6

Q ss_pred             cCceEEEEEeCCCCC--Cc------c---cc-CCCCcceeeEEEEecCCCCCchhhhH---HHHHHHHHhc-CCCCcEEE
Q 032030           64 LADYIIYIIDVSGGD--KI------P---RK-GGPGITQADLLVINKTDLASAIGADL---AVMERDALRM-RDGGPFIF  127 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~--~~------~---~~-~~~qi~~ADivViNK~DL~~~~~~~l---~~~~~~i~~~-np~a~vi~  127 (148)
                      .+|.++.|+|+.+..  ..      .   .. .....+  -++|.||+|+.+.  ...   +.+.+..+.+ .+..++++
T Consensus       257 ~aD~il~VvD~s~~~~~~~~~~~~~~~~L~~l~~~~~p--~ilV~NK~Dl~~~--~~~~~~~~~~~l~~~l~~~~~~~~~  332 (364)
T 2qtf_A          257 YSDALILVIDSTFSENLLIETLQSSFEILREIGVSGKP--ILVTLNKIDKING--DLYKKLDLVEKLSKELYSPIFDVIP  332 (364)
T ss_dssp             GSSEEEEEEETTSCHHHHHHHHHHHHHHHHHHTCCSCC--EEEEEECGGGCCS--CHHHHHHHHHHHHHHHCSCEEEEEE
T ss_pred             hCCEEEEEEECCCCcchHHHHHHHHHHHHHHhCcCCCC--EEEEEECCCCCCc--hHHHHHHHHHHHHHHhcCCCCcEEE
Confidence            568899999987654  11      0   00 012233  6999999999875  321   1222233454 44557899


Q ss_pred             EEecCCCCHHHHHHhhhh
Q 032030          128 AQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       128 tSa~~g~gi~~l~~~~~~  145 (148)
                      +||++|.|+++|++++.-
T Consensus       333 ~SA~~g~gi~~L~~~I~~  350 (364)
T 2qtf_A          333 ISALKRTNLELLRDKIYQ  350 (364)
T ss_dssp             CBTTTTBSHHHHHHHHHH
T ss_pred             EECCCCcCHHHHHHHHHH
Confidence            999999999999988753

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=97.44  E-value=5.8e-05  Score=54.89  Aligned_cols=97  Identities=13%  Similarity=0.133  Sum_probs=57.6

Q ss_pred             CEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCccc----------cCCCCcceeeEEEEecCCCCCchh-----
Q 032030           45 DLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIPR----------KGGPGITQADLLVINKTDLASAIG-----  106 (148)
Q Consensus        45 D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~~----------~~~~qi~~ADivViNK~DL~~~~~-----  106 (148)
                      .+.++++.|......+.   -..+|.+++|+|+........          ...+.++  -++|+||+|+.+...     
T Consensus        69 ~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p--~ilv~nK~Dl~~~~~~~~~~  146 (201)
T 2q3h_A           69 RLQLCDTAGQDEFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCPKAP--IILVGTQSDLREDVKVLIEL  146 (201)
T ss_dssp             EEEEEECCCSTTCSSSGGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCSSSC--EEEEEECGGGGGCHHHHHHH
T ss_pred             EEEEEECCCCHHHHHHhHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHHhCCCCC--EEEEEECHhhhhchhhhhhh
Confidence            34466666643211111   134688999999876532110          0112344  589999999975300     


Q ss_pred             -------hhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          107 -------ADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       107 -------~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                             ...+...+..+.. ...+++++||++|.|++++++++.
T Consensus       147 ~~~~~~~v~~~~~~~~~~~~-~~~~~~~~Sa~~g~gi~~l~~~l~  190 (201)
T 2q3h_A          147 DKCKEKPVPEEAAKLLAEEI-KAASYIECSALTQKNLKEVFDAAI  190 (201)
T ss_dssp             HTTTCCCCCHHHHHHHHHHH-TCSEEEECCTTTCTTHHHHHHHHH
T ss_pred             cccccccCCHHHHHHHHHhc-CCcEEEEEecCCCCCHHHHHHHHH
Confidence                   1122344444433 234899999999999999999875

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=97.43  E-value=2e-05  Score=65.69  Aligned_cols=95  Identities=14%  Similarity=-0.025  Sum_probs=59.4

Q ss_pred             CEEEEecCCceeeeee----------ccccCceEEEEEeCCCCCCcc---c-cCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           45 DLLLCESGGDNLAANF----------SRELADYIIYIIDVSGGDKIP---R-KGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        45 D~IliEtsG~~~~~~~----------~~~~~d~~i~vvDa~~~~~~~---~-~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      .+.++.|.|.......          .-..+|.+++|+|+.......   . .....++  -++|+||+|+.+.  ...+
T Consensus        84 ~l~liDTpG~~d~~~l~~~~~~~~~~~l~~aD~vllVvD~~~~~~~~~~l~~l~~~~~p--iIvV~NK~Dl~~~--~~~~  159 (423)
T 3qq5_A           84 PVTLVDTPGLDDVGELGRLRVEKARRVFYRADCGILVTDSAPTPYEDDVVNLFKEMEIP--FVVVVNKIDVLGE--KAEE  159 (423)
T ss_dssp             EEEEEECSSTTCCCTTCCCCHHHHHHHHTSCSEEEEECSSSCCHHHHHHHHHHHHTTCC--EEEECCCCTTTTC--CCTH
T ss_pred             eEEEEECcCCCcccchhHHHHHHHHHHHhcCCEEEEEEeCCChHHHHHHHHHHHhcCCC--EEEEEeCcCCCCc--cHHH
Confidence            5778888886421100          012478899999982221110   0 1111344  6999999999887  5432


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      .. +.+.+ .-+.+++++||++|.|++++++++.-
T Consensus       160 ~~-~~l~~-~~g~~v~~vSAktg~gI~eL~~~L~~  192 (423)
T 3qq5_A          160 LK-GLYES-RYEAKVLLVSALQKKGFDDIGKTISE  192 (423)
T ss_dssp             HH-HHSSC-CTTCCCCCCSSCCTTSTTTHHHHHHH
T ss_pred             HH-HHHHH-HcCCCEEEEECCCCCCHHHHHHHHHH
Confidence            22 22322 22468999999999999999998753

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=97.39  E-value=1.2e-05  Score=68.94  Aligned_cols=99  Identities=12%  Similarity=0.086  Sum_probs=60.0

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhH-HHHH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADL-AVME  113 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l-~~~~  113 (148)
                      ..+.|+.|.|-......   .-..+|.+++|+|+..+...+.      .....++  -++++||+|+.+.-.... +.+.
T Consensus        52 ~~i~~iDTPGhe~f~~~~~~~~~~aD~vILVVDa~dg~~~qt~e~l~~~~~~~vP--iIVViNKiDl~~~~~~~v~~~l~  129 (537)
T 3izy_P           52 EKITFLDTPGHAAFSAMRARGTQVTDIVILVVAADDGVMKQTVESIQHAKDAHVP--IVLAINKCDKAEADPEKVKKELL  129 (537)
T ss_dssp             SCCBCEECSSSCCTTTSBBSSSBSBSSCEEECBSSSCCCHHHHHHHHHHHTTTCC--EEECCBSGGGTTTSCCSSSSHHH
T ss_pred             CEEEEEECCChHHHHHHHHHHHccCCEEEEEEECCCCccHHHHHHHHHHHHcCCc--EEEEEecccccccchHHHHHHHH
Confidence            35778888885321111   1135788899999988643211      1122445  589999999975300111 1111


Q ss_pred             HH---HHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          114 RD---ALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       114 ~~---i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +.   ...+....+++++||++|.|+++|++++.
T Consensus       130 ~~~~~~e~~~~~~~iv~vSAktG~GI~eLle~I~  163 (537)
T 3izy_P          130 AYDVVCEDYGGDVQAVHVSALTGENMMALAEATI  163 (537)
T ss_dssp             HTTSCCCCSSSSEEECCCCSSSSCSSHHHHHHHH
T ss_pred             hhhhhHHhcCCCceEEEEECCCCCCchhHHHHHH
Confidence            11   11222346899999999999999998875

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=97.35  E-value=0.00017  Score=63.33  Aligned_cols=97  Identities=12%  Similarity=0.073  Sum_probs=61.3

Q ss_pred             CCEEEEecCCceeeeee------ccccCceEEEEEeCCCCCCc------cc-cCCCCcceeeEEEEecCCCCCchhh---
Q 032030           44 ADLLLCESGGDNLAANF------SRELADYIIYIIDVSGGDKI------PR-KGGPGITQADLLVINKTDLASAIGA---  107 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~------~~~~~d~~i~vvDa~~~~~~------~~-~~~~qi~~ADivViNK~DL~~~~~~---  107 (148)
                      .++.+|.|.|.......      .-..+|.+++|+|+..+...      .. ......+  .++|+||+|+.+.  .   
T Consensus       174 ~~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~l~~~l~~~~~~--iiiVlNK~Dl~~~--~~~~  249 (695)
T 2j69_A          174 KGIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERRYLENYIKGRGLT--VFFLVNAWDQVRE--SLID  249 (695)
T ss_dssp             TTEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHHHHHHHHTTTSCCC--EEEEEECGGGGGG--GCSS
T ss_pred             CCeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHHHHHHHHHHhhCCC--EEEEEECcccccc--cccC
Confidence            57999999997431100      01357999999999776431      11 1111233  6999999999754  2   


Q ss_pred             -----hHHH----HHHH----HHhc-------CCCCcEEEEEec--------------CCCCHHHHHHhhh
Q 032030          108 -----DLAV----MERD----ALRM-------RDGGPFIFAQVG--------------WVIGIIFTLSITH  144 (148)
Q Consensus       108 -----~l~~----~~~~----i~~~-------np~a~vi~tSa~--------------~g~gi~~l~~~~~  144 (148)
                           +++.    +.+.    +...       ....+++++||+              +|.|++++++.+.
T Consensus       250 ~ee~e~l~~~~~~i~~~~~~~l~~~~~~~g~~~~~~~v~~vSAk~al~~~~~~~~~~~~~~Gi~~L~~~L~  320 (695)
T 2j69_A          250 PDDVEELQASENRLRQVFNANLAEYCTVEGQNIYDERVFELSSIQALRRRLKNPQADLDGTGFPKFMDSLN  320 (695)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHHGGGGBSSSCBCGGGTEEECCHHHHHHHHHHCTTCCCTTSSHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHhhcccccccCCCcEEEEeChHHHHhhccCchhhhhccCHHHHHHHHH
Confidence                 2222    2221    2221       123589999999              9999999988764

>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=97.29  E-value=0.00011  Score=60.79  Aligned_cols=94  Identities=15%  Similarity=0.100  Sum_probs=58.4

Q ss_pred             CCEEEEecCCcee------eeee------ccccCceEEEEEeCCCCCCcc-----cc-CCCCcceeeEEEEecCCCCCch
Q 032030           44 ADLLLCESGGDNL------AANF------SRELADYIIYIIDVSGGDKIP-----RK-GGPGITQADLLVINKTDLASAI  105 (148)
Q Consensus        44 ~D~IliEtsG~~~------~~~~------~~~~~d~~i~vvDa~~~~~~~-----~~-~~~qi~~ADivViNK~DL~~~~  105 (148)
                      ..+.++.|.|.-.      ...+      .-..+|.+++|+|+..+....     .. .....+  -++|+||+|+.+. 
T Consensus        49 ~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~~ad~il~V~D~~~~~~~~d~~i~~~l~~~~~p--~ilv~NK~D~~~~-  125 (439)
T 1mky_A           49 KTFKLVDTCGVFDNPQDIISQKMKEVTLNMIREADLVLFVVDGKRGITKEDESLADFLRKSTVD--TILVANKAENLRE-  125 (439)
T ss_dssp             EEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTCSEEEEEEETTTCCCHHHHHHHHHHHHHTCC--EEEEEESCCSHHH-
T ss_pred             eEEEEEECCCccccccchHHHHHHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHcCCC--EEEEEeCCCCccc-
Confidence            4577899999531      1111      114679999999998764311     10 011233  5899999998532 


Q ss_pred             hhhHHHH-HHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          106 GADLAVM-ERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       106 ~~~l~~~-~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                       .+ ... .+.. ++ ...+++++||++|.|+++|++++.
T Consensus       126 -~~-~~~~~~~~-~l-g~~~~~~iSA~~g~gv~~L~~~i~  161 (439)
T 1mky_A          126 -FE-REVKPELY-SL-GFGEPIPVSAEHNINLDTMLETII  161 (439)
T ss_dssp             -HH-HHTHHHHG-GG-SSCSCEECBTTTTBSHHHHHHHHH
T ss_pred             -cH-HHHHHHHH-hc-CCCCEEEEeccCCCCHHHHHHHHH
Confidence             11 222 3332 22 223679999999999999999874

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=97.28  E-value=9.8e-05  Score=61.15  Aligned_cols=94  Identities=18%  Similarity=0.142  Sum_probs=53.9

Q ss_pred             CCCEEEEecCCceee-----eee------ccccCceEEEEEeCCCCCCc-----cc-cCCCCcceeeEEEEecCCCCCch
Q 032030           43 KADLLLCESGGDNLA-----ANF------SRELADYIIYIIDVSGGDKI-----PR-KGGPGITQADLLVINKTDLASAI  105 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-----~~~------~~~~~d~~i~vvDa~~~~~~-----~~-~~~~qi~~ADivViNK~DL~~~~  105 (148)
                      +..+.++.|.|....     ..+      .-..+|.+++|+|+..+...     .. ......+  -++|+||+|+.+. 
T Consensus        50 ~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~vvD~~~~~~~~d~~~~~~l~~~~~p--vilv~NK~D~~~~-  126 (436)
T 2hjg_A           50 NYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVIIFMVNGREGVTAADEEVAKILYRTKKP--VVLAVNKLDNTEM-  126 (436)
T ss_dssp             SSCCEEEC---------CHHHHHHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHTTCCSC--EEEEEECCCC----
T ss_pred             CceEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCC--EEEEEECccCccc-
Confidence            467889999997411     011      01357999999999876431     11 1122344  6999999999764 


Q ss_pred             hhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          106 GADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       106 ~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                       ..  ...+.. ++. ..+++++||++|.|+++|++++.
T Consensus       127 -~~--~~~~~~-~lg-~~~~~~iSA~~g~gv~~L~~~i~  160 (436)
T 2hjg_A          127 -RA--NIYDFY-SLG-FGEPYPISGTHGLGLGDLLDAVA  160 (436)
T ss_dssp             -----CCCSSG-GGS-SCCCEECBTTTTBTHHHHHHHHH
T ss_pred             -hh--hHHHHH-HcC-CCCeEEEeCcCCCChHHHHHHHH
Confidence             21  111222 222 23679999999999999999874

>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=97.26  E-value=0.00022  Score=59.81  Aligned_cols=96  Identities=17%  Similarity=0.138  Sum_probs=53.9

Q ss_pred             CCEEEEecCCceee-eee--ccccCceEEEEEeCCCCC---------Ccccc----CCCCcceeeEEEEecCCCCCc--h
Q 032030           44 ADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGD---------KIPRK----GGPGITQADLLVINKTDLASA--I  105 (148)
Q Consensus        44 ~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~---------~~~~~----~~~qi~~ADivViNK~DL~~~--~  105 (148)
                      ..+.++.|.|-... ...  .-..+|..++|+|+..+.         .....    ....++ --++++||+|+.+.  -
T Consensus       121 ~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~~~vp-~iivviNK~Dl~~~~~~  199 (467)
T 1r5b_A          121 RRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGIN-HLVVVINKMDEPSVQWS  199 (467)
T ss_dssp             EEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCS-SEEEEEECTTSTTCSSC
T ss_pred             eEEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHHcCCC-EEEEEEECccCCCcccc
Confidence            34667777775321 111  113579999999998873         11000    001121 03788999999641  0


Q ss_pred             hhhH----HHHHHHHHhc-C-C---CCcEEEEEecCCCCHHHHH
Q 032030          106 GADL----AVMERDALRM-R-D---GGPFIFAQVGWVIGIIFTL  140 (148)
Q Consensus       106 ~~~l----~~~~~~i~~~-n-p---~a~vi~tSa~~g~gi~~l~  140 (148)
                      .+.+    +++.+.+++. . +   ..+++++||++|.|+++++
T Consensus       200 ~~~~~~i~~e~~~~l~~~~g~~~~~~~~~i~vSA~~g~~i~~l~  243 (467)
T 1r5b_A          200 EERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRV  243 (467)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCC
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCccCCceEEeccccccccccccc
Confidence            0222    2355555543 2 2   5789999999999997654

>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=97.23  E-value=2.1e-05  Score=63.47  Aligned_cols=96  Identities=13%  Similarity=-0.025  Sum_probs=58.2

Q ss_pred             CCCEEEEecCCcee------ee-----------eeccccCceEEEEEeCCCCCCccc-------cCCCCcceeeEEEEec
Q 032030           43 KADLLLCESGGDNL------AA-----------NFSRELADYIIYIIDVSGGDKIPR-------KGGPGITQADLLVINK   98 (148)
Q Consensus        43 ~~D~IliEtsG~~~------~~-----------~~~~~~~d~~i~vvDa~~~~~~~~-------~~~~qi~~ADivViNK   98 (148)
                      .+++.|+.|.|...      +.           .+.....+.+++++|+........       ..+...+  -++|+||
T Consensus       129 ~~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~~~~~i~~~~~~~~~~--~i~V~NK  206 (353)
T 2x2e_A          129 VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKVAKEVDPQGQR--TIGVITK  206 (353)
T ss_dssp             CCSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGCHHHHHHHHHCTTCTT--EEEEEEC
T ss_pred             CCCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchhHHHHHHHHhCcCCCc--eEEEecc
Confidence            47899999999742      10           111234566788888765322110       1112233  5999999


Q ss_pred             CCCCCchhhhHHHHHHHHHh-cCC----CCcEEEEEecCCCCHHHHHHhhh
Q 032030           99 TDLASAIGADLAVMERDALR-MRD----GGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus        99 ~DL~~~~~~~l~~~~~~i~~-~np----~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +|+.+.  ..  ...+.++. ..+    ..+++++||++|.|++++++++.
T Consensus       207 ~Dl~~~--~~--~~~~~~~~~~~~l~~~~~~v~~~SA~~~~~i~~l~~~l~  253 (353)
T 2x2e_A          207 LDLMDE--GT--DARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALA  253 (353)
T ss_dssp             GGGSCT--TC--CCHHHHTTCSSCCTTCEEECCCCCHHHHHTTCCHHHHHH
T ss_pred             ccccCc--ch--hHHHHHhCCcccccCCceEEEeCCcccccccccHHHHHH
Confidence            999875  32  01122221 112    35788999999999998887653

>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=97.21  E-value=0.00094  Score=51.27  Aligned_cols=79  Identities=9%  Similarity=0.016  Sum_probs=50.5

Q ss_pred             cCceEEEEEeCCCCCCcc---------ccC-CCC-cceeeEEEE-ecC-CCCCchhhhHHHHHHHHH--hcCCCCcEEEE
Q 032030           64 LADYIIYIIDVSGGDKIP---------RKG-GPG-ITQADLLVI-NKT-DLASAIGADLAVMERDAL--RMRDGGPFIFA  128 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~---------~~~-~~q-i~~ADivVi-NK~-DL~~~~~~~l~~~~~~i~--~~np~a~vi~t  128 (148)
                      ..|.+|+|||+...+...         ... ... ++.+-++|+ ||. |+...  -...++.+.+.  .+...-.|.++
T Consensus       125 ~TdglIfVVDSsD~~R~eak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp~A--ms~~EI~e~L~L~~l~R~W~Iq~c  202 (227)
T 3l82_B          125 VVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKR--MPCFYLAHELHLNLLNHPWLVQDT  202 (227)
T ss_dssp             HCSEEEEEEECBTTCCCCHHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTSCB--CCHHHHHHHTTGGGGCSCEEEEEE
T ss_pred             CCCEEEEEeccccHhHHHHHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCccCC--CCHHHHHHHcCCcCCCCCEEEEEe
Confidence            568899999997653211         111 111 233445555 995 78766  33345555442  34444578999


Q ss_pred             EecCCCCHHHHHHhhh
Q 032030          129 QVGWVIGIIFTLSITH  144 (148)
Q Consensus       129 Sa~~g~gi~~l~~~~~  144 (148)
                      ||+||+|+.+=++|+.
T Consensus       203 sA~TGeGL~EGLdWL~  218 (227)
T 3l82_B          203 EAETLTGFLNGIEWIL  218 (227)
T ss_dssp             ETTTCTTHHHHHHHHT
T ss_pred             ECCCCcCHHHHHHHHH
Confidence            9999999999999985

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=97.21  E-value=2.4e-05  Score=56.20  Aligned_cols=77  Identities=17%  Similarity=0.134  Sum_probs=49.1

Q ss_pred             cCceEEEEEeCCCCCCcc----ccCCCCcceeeEEEEecCCCCCchhhhH-HHHHHHHHhcCCCCcEEEEEecCCCCHHH
Q 032030           64 LADYIIYIIDVSGGDKIP----RKGGPGITQADLLVINKTDLASAIGADL-AVMERDALRMRDGGPFIFAQVGWVIGIIF  138 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~----~~~~~qi~~ADivViNK~DL~~~~~~~l-~~~~~~i~~~np~a~vi~tSa~~g~gi~~  138 (148)
                      ..|.++.++|+.......    .......+  -++|.||+|+.+.  ..+ +...+..+..+  .+++++||++|.|+++
T Consensus        85 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~--~~~~~~~~~~~~~~~--~~~~~~Sa~~~~~v~~  158 (188)
T 2wjg_A           85 KPDLVVNIVDATALERNLYLTLQLMEMGAN--LLLALNKMDLAKS--LGIEIDVDKLEKILG--VKVVPLSAAKKMGIEE  158 (188)
T ss_dssp             CCSEEEEEEEGGGHHHHHHHHHHHHTTTCC--EEEEEECHHHHHH--TTCCCCHHHHHHHHT--SCEEECBGGGTBSHHH
T ss_pred             CCCEEEEEecchhHHHHHHHHHHHHhcCCC--EEEEEEhhhcccc--ccchHHHHHHHHHhC--CCeEEEEecCCCCHHH
Confidence            368889999986543211    11112334  6899999998643  211 12222233333  5899999999999999


Q ss_pred             HHHhhhhh
Q 032030          139 TLSITHYI  146 (148)
Q Consensus       139 l~~~~~~~  146 (148)
                      +++++.-.
T Consensus       159 l~~~i~~~  166 (188)
T 2wjg_A          159 LKKAISIA  166 (188)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99987643

>3zvr_A Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mitochondrial fission, GT stalk, PH, BSE, membrane fission; HET: 1PE; 3.10A {Rattus norvegicus} PDB: 3snh_A

Probab=97.21  E-value=6.6e-05  Score=66.88  Aligned_cols=96  Identities=14%  Similarity=0.006  Sum_probs=62.4

Q ss_pred             CCCEEEEecCCceeee-----------------eeccccCceEEEEEeCCCCCCccc-------cCCCCcceeeEEEEec
Q 032030           43 KADLLLCESGGDNLAA-----------------NFSRELADYIIYIIDVSGGDKIPR-------KGGPGITQADLLVINK   98 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~-----------------~~~~~~~d~~i~vvDa~~~~~~~~-------~~~~qi~~ADivViNK   98 (148)
                      .++++||.|.|+....                 .+....+|.+++|+|+..+.....       ..+...+  -++|+||
T Consensus       149 ~~qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l~ll~~L~~~g~p--vIlVlNK  226 (772)
T 3zvr_A          149 VLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDPQGQR--TIGVITK  226 (772)
T ss_dssp             CCSEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHHHHHHHHCTTCSS--EEEEEEC
T ss_pred             CCceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHHHHHHHHHhcCCC--EEEEEeC
Confidence            4578999999975311                 011245789999999987533111       1122344  7999999


Q ss_pred             CCCCCchhhhH-HHHHHHHHhc----CCCCcEEEEEecCCCCHHHHHHhhh
Q 032030           99 TDLASAIGADL-AVMERDALRM----RDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus        99 ~DL~~~~~~~l-~~~~~~i~~~----np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      +|+++.  ... ..+.+  .+.    .+..+++++||++|.|+++|++.+.
T Consensus       227 iDlv~~--~~~~~~il~--~~~~~l~lg~~~VV~iSA~~G~GvdeL~eaI~  273 (772)
T 3zvr_A          227 LDLMDE--GTDARDVLE--NKLLPLRRGYIGVVNRSQKDIDGKKDITAALA  273 (772)
T ss_dssp             TTSSCT--TCCSHHHHT--TCSSCCSSCEEECCCCCCEESSSSEEHHHHHH
T ss_pred             cccCCc--chhhHHHHH--HHhhhhhccCCceEEecccccccchhHHHHHH
Confidence            999976  432 11211  111    2456899999999999998887764

>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=97.20  E-value=2.3e-05  Score=66.69  Aligned_cols=96  Identities=11%  Similarity=0.151  Sum_probs=59.7

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhHHHHHH
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADLAVMER  114 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~  114 (148)
                      ..+.|+.|.|-......   .-..+|..+.|+|+.++...+.      .....++  -++++||+|+.+.  . .+++.+
T Consensus        51 ~~i~~iDTPGhe~f~~~~~~~~~~aD~aILVVda~~g~~~qT~e~l~~~~~~~vP--iIVviNKiDl~~~--~-~~~v~~  125 (501)
T 1zo1_I           51 GMITFLDTPGHAAFTSMRARGAQATDIVVLVVAADDGVMPQTIEAIQHAKAAQVP--VVVAVNKIDKPEA--D-PDRVKN  125 (501)
T ss_dssp             SCCCEECCCTTTCCTTSBCSSSBSCSSEEEEEETTTBSCTTTHHHHHHHHHTTCC--EEEEEECSSSSTT--C-CCCTTC
T ss_pred             EEEEEEECCCcHHHHHHHHHHHhhCCEEEEEeecccCccHHHHHHHHHHHhcCce--EEEEEEecccccc--C-HHHHHH
Confidence            45678888885321111   1135688999999987643211      0112345  6999999999753  1 011211


Q ss_pred             HHH-------hcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          115 DAL-------RMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       115 ~i~-------~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .+.       .+....+++++||++|.|+++|++++.
T Consensus       126 ~l~~~~~~~~~~~~~~~~v~vSAktG~gI~eLle~I~  162 (501)
T 1zo1_I          126 ELSQYGILPEEWGGESQFVHVSAKAGTGIDELLDAIL  162 (501)
T ss_dssp             CCCCCCCCTTCCSSSCEEEECCTTTCTTCTTHHHHTT
T ss_pred             HHHHhhhhHHHhCCCccEEEEeeeeccCcchhhhhhh
Confidence            111       112246899999999999999999875

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=97.17  E-value=0.00046  Score=56.37  Aligned_cols=47  Identities=17%  Similarity=0.046  Sum_probs=35.6

Q ss_pred             eEEEEecCCCCCchhhhH---HHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHh
Q 032030           92 DLLVINKTDLASAIGADL---AVMERDALRMRDGGPFIFAQVGWVIGIIFTLSI  142 (148)
Q Consensus        92 DivViNK~DL~~~~~~~l---~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~  142 (148)
                      -++|+||+||+++  ...   +...+.++  ..+.+++++||++|.|+++|...
T Consensus       163 ~iivlNK~DL~~~--~~~~~~~~~~~~y~--~~G~~v~~~Sa~~~~gl~~L~~~  212 (358)
T 2rcn_A          163 PLIVLNKIDLLDD--EGMDFVNEQMDIYR--NIGYRVLMVSSHTQDGLKPLEEA  212 (358)
T ss_dssp             EEEEEECGGGCCH--HHHHHHHHHHHHHH--TTTCCEEECBTTTTBTHHHHHHH
T ss_pred             EEEEEECccCCCc--hhHHHHHHHHHHHH--hCCCcEEEEecCCCcCHHHHHHh
Confidence            4999999999987  553   33334444  34568999999999999998764

>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=97.16  E-value=0.00016  Score=51.99  Aligned_cols=98  Identities=17%  Similarity=0.177  Sum_probs=58.4

Q ss_pred             CCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCcc----c------cCCCCcceeeEEEEecCCCCCchh----
Q 032030           44 ADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIP----R------KGGPGITQADLLVINKTDLASAIG----  106 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~----~------~~~~qi~~ADivViNK~DL~~~~~----  106 (148)
                      +.+.++++.|.-.....   .-..+|.+++++|+.......    .      ...+..+  -++|.||+|+.+...    
T Consensus        55 ~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~p--iilv~nK~Dl~~~~~~~~~  132 (184)
T 1m7b_A           55 IELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTK--MLLVGCKSDLRTDVSTLVE  132 (184)
T ss_dssp             EEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCE--EEEEEECGGGGGCHHHHHH
T ss_pred             EEEEEEECCCChhhhhhHHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCC--EEEEEEcchhhcchhhHhh
Confidence            34566677774211111   113568899999987643211    0      1112344  589999999974200    


Q ss_pred             --------hhHHHHHHHHHhcCCCCcEEEEEec-CCCCHHHHHHhhh
Q 032030          107 --------ADLAVMERDALRMRDGGPFIFAQVG-WVIGIIFTLSITH  144 (148)
Q Consensus       107 --------~~l~~~~~~i~~~np~a~vi~tSa~-~g~gi~~l~~~~~  144 (148)
                              -..+...+..++.+ ..+++++||+ +|.|++++|+++.
T Consensus       133 ~~~~~~~~v~~~~~~~~~~~~~-~~~~~e~Sa~~~~~gi~~l~~~i~  178 (184)
T 1m7b_A          133 LSNHRQTPVSYDQGANMAKQIG-AATYIECSALQSENSVRDIFHVAT  178 (184)
T ss_dssp             HHTTTCCCCCHHHHHHHHHHHT-CSEEEECBTTTBHHHHHHHHHHHH
T ss_pred             hhhcccCCCCHHHHHHHHHHcC-CcEEEEeeecCCCcCHHHHHHHHH
Confidence                    11233444444433 3589999999 6899999998875

>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=97.12  E-value=0.00045  Score=64.26  Aligned_cols=97  Identities=13%  Similarity=0.160  Sum_probs=59.4

Q ss_pred             CCEEEEecCCceee-eee--ccccCceEEEEEeCCCCCCcccc------CCCCcceee-EEEEecCCCCCchhhh-H---
Q 032030           44 ADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDKIPRK------GGPGITQAD-LLVINKTDLASAIGAD-L---  109 (148)
Q Consensus        44 ~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~~~~~------~~~qi~~AD-ivViNK~DL~~~~~~~-l---  109 (148)
                      ..+.++.|.|-... ...  .-..+|..|.|+|+.++...+..      ....++  . ++++||+|+.+.  .+ +   
T Consensus       359 ~kI~IIDTPGHedF~~~mi~gas~AD~aILVVDAtdGv~~QTrEhL~ll~~lgIP--~IIVVINKiDLv~d--~e~le~i  434 (1289)
T 3avx_A          359 RHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLGRQVGVP--YIIVFLNKCDMVDD--EELLELV  434 (1289)
T ss_dssp             CEEEEEECCCHHHHHHHHHHTSCCCSEEEEEEETTTCSCTTHHHHHHHHHHHTCS--CEEEEEECCTTCCC--HHHHHHH
T ss_pred             EEEEEEECCChHHHHHHHHHHHhhCCEEEEEEcCCccCcHHHHHHHHHHHHcCCC--eEEEEEeecccccc--hhhHHHH
Confidence            45666677764311 000  11357999999999887432110      001222  2 688999999864  32 2   


Q ss_pred             -HHHHHHHHhcC---CCCcEEEEEecCC--------CCHHHHHHhhh
Q 032030          110 -AVMERDALRMR---DGGPFIFAQVGWV--------IGIIFTLSITH  144 (148)
Q Consensus       110 -~~~~~~i~~~n---p~a~vi~tSa~~g--------~gi~~l~~~~~  144 (148)
                       +++.+.+++..   ...+++++||++|        .|+++|++.+.
T Consensus       435 ~eEi~elLk~~G~~~~~vp~IpvSAktG~ng~~~w~eGI~eLleaL~  481 (1289)
T 3avx_A          435 EMEVRELLSQYDFPGDDTPIVRGSALKALEGDAEWEAKILELAGFLD  481 (1289)
T ss_dssp             HHHHHHHHHHTTSCTTTCCEEECCSTTTTTCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccccceeEEEEEeccCCCCCccccccchhhHhHHh
Confidence             24455555544   2479999999999        46888888764

>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=97.10  E-value=0.00032  Score=52.04  Aligned_cols=79  Identities=15%  Similarity=0.081  Sum_probs=51.4

Q ss_pred             cCceEEEEEeCCCCCCccc----------cCCCCcceeeEEEEecCCCCCchh------------hhHHHHHHHHHhcCC
Q 032030           64 LADYIIYIIDVSGGDKIPR----------KGGPGITQADLLVINKTDLASAIG------------ADLAVMERDALRMRD  121 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~----------~~~~qi~~ADivViNK~DL~~~~~------------~~l~~~~~~i~~~np  121 (148)
                      .+|.+++|+|+.....+..          ...+.++  -++|.||+|+.+...            ...+...+..+..+ 
T Consensus        98 ~~d~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~~~p--iilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~-  174 (214)
T 3q3j_B           98 DSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTR--VLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLG-  174 (214)
T ss_dssp             TCSEEEEEEETTCTHHHHHHHTHHHHHHHHHCTTSE--EEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHHT-
T ss_pred             CCeEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCC--EEEEEEChhhccchhhhhhhcccccCccCHHHHHHHHHHcC-
Confidence            4688999999987532111          0122344  689999999965200            12234444455433 


Q ss_pred             CCcEEEEEecCCCC-HHHHHHhhhh
Q 032030          122 GGPFIFAQVGWVIG-IIFTLSITHY  145 (148)
Q Consensus       122 ~a~vi~tSa~~g~g-i~~l~~~~~~  145 (148)
                      ..+++.+||++|.| ++++|+++.-
T Consensus       175 ~~~~~e~SA~~g~g~v~~lf~~l~~  199 (214)
T 3q3j_B          175 AEIYLEGSAFTSEKSIHSIFRTASM  199 (214)
T ss_dssp             CSEEEECCTTTCHHHHHHHHHHHHH
T ss_pred             CCEEEEeccCCCcccHHHHHHHHHH
Confidence            22899999999998 9999998753

>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=97.10  E-value=0.00032  Score=54.68  Aligned_cols=77  Identities=13%  Similarity=0.050  Sum_probs=48.9

Q ss_pred             cCceEEEEEeCCCCCCccc----------cCCCCcceeeEEEEecCCCCCchhhh--------------HHHHHHHHHhc
Q 032030           64 LADYIIYIIDVSGGDKIPR----------KGGPGITQADLLVINKTDLASAIGAD--------------LAVMERDALRM  119 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~----------~~~~qi~~ADivViNK~DL~~~~~~~--------------l~~~~~~i~~~  119 (148)
                      .+|.+++|+|+........          ...+.++  -++|+||+|+.+.  ..              .+...+..+..
T Consensus       226 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p--~ilv~nK~Dl~~~--~~~~~~~~~~~~~~v~~~~~~~~~~~~  301 (332)
T 2wkq_A          226 QTDVFLICFSLVSPASFHHVRAKWYPEVRHHCPNTP--IILVGTKLDLRDD--KDTIEKLKEKKLTPITYPQGLAMAKEI  301 (332)
T ss_dssp             TCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTSC--EEEEEECHHHHTC--HHHHHHHHHTTCCCCCHHHHHHHHHHT
T ss_pred             CCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhCCCCc--EEEEEEchhcccc--cchhhhccccccccccHHHHHHHHHHc
Confidence            3577788888766432100          0112344  5899999999764  21              12333334432


Q ss_pred             CCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          120 RDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       120 np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                       ...+++++||++|.|++++++++.-
T Consensus       302 -~~~~~~~~Sa~~~~gi~~l~~~l~~  326 (332)
T 2wkq_A          302 -GAVKYLECSALTQRGLKTVFDEAIR  326 (332)
T ss_dssp             -TCSEEEECCTTTCTTHHHHHHHHHH
T ss_pred             -CCcEEEEecCCCCcCHHHHHHHHHH
Confidence             2248999999999999999998753

>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=97.07  E-value=0.00088  Score=55.63  Aligned_cols=96  Identities=17%  Similarity=0.199  Sum_probs=61.9

Q ss_pred             CCEEEEecCCcee--------eeeec--cccCceEEEEEeCCCCCCccc----c------CCC-CcceeeEEEEecCCCC
Q 032030           44 ADLLLCESGGDNL--------AANFS--RELADYIIYIIDVSGGDKIPR----K------GGP-GITQADLLVINKTDLA  102 (148)
Q Consensus        44 ~D~IliEtsG~~~--------~~~~~--~~~~d~~i~vvDa~~~~~~~~----~------~~~-qi~~ADivViNK~DL~  102 (148)
                      ..+.+.++.|..-        ...|.  ...++.++.++|..  .....    .      +.. -.....++|+||+|+.
T Consensus       205 ~~~~l~DtpGli~~a~~~~~L~~~fl~~~era~~lL~vvDls--~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl~  282 (416)
T 1udx_A          205 ERFTLADIPGIIEGASEGKGLGLEFLRHIARTRVLLYVLDAA--DEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLL  282 (416)
T ss_dssp             CEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSSEEEEEEETT--SCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTS
T ss_pred             ceEEEEeccccccchhhhhhhhHHHHHHHHHHHhhhEEeCCc--cCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCChh
Confidence            3466777777621        11111  12468889999986  21100    0      000 1123379999999998


Q ss_pred             CchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          103 SAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       103 ~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +.  ..++.+.+.+++  ...+++.+||+++.|+++|++++.-
T Consensus       283 ~~--~~~~~l~~~l~~--~g~~vi~iSA~~g~gi~eL~~~i~~  321 (416)
T 1udx_A          283 EE--EAVKALADALAR--EGLAVLPVSALTGAGLPALKEALHA  321 (416)
T ss_dssp             CH--HHHHHHHHHHHT--TTSCEEECCTTTCTTHHHHHHHHHH
T ss_pred             hH--HHHHHHHHHHHh--cCCeEEEEECCCccCHHHHHHHHHH
Confidence            76  666666666653  3468999999999999999998753

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=97.07  E-value=6.1e-05  Score=64.11  Aligned_cols=101  Identities=14%  Similarity=0.144  Sum_probs=62.5

Q ss_pred             cCCCEEEEecCCceee-eeec--------cccCceEEEEEeCCCCCCccccCCCCcc--e-eeEEEEecCCCCCchhhhH
Q 032030           42 FKADLLLCESGGDNLA-ANFS--------RELADYIIYIIDVSGGDKIPRKGGPGIT--Q-ADLLVINKTDLASAIGADL  109 (148)
Q Consensus        42 ~~~D~IliEtsG~~~~-~~~~--------~~~~d~~i~vvDa~~~~~~~~~~~~qi~--~-ADivViNK~DL~~~~~~~l  109 (148)
                      .++|++||+|.|.... ..+.        ....|.+++|+|+..+.+..... ..+.  . .+.+|+||+|.....+..+
T Consensus       182 ~~~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~~~~~~a-~~~~~~~~i~gvVlNK~D~~~~~g~~l  260 (504)
T 2j37_W          182 ENFEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQACEAQA-KAFKDKVDVASVIVTKLDGHAKGGGAL  260 (504)
T ss_dssp             TTCCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCTTHHHHH-HHHHHHHCCCCEEEECTTSCCCCTHHH
T ss_pred             CCCcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEeccccccHHHHH-HHHHhhcCceEEEEeCCccccchHHHH
Confidence            5899999999997531 1110        01357889999998874421100 0111  1 1589999999986522222


Q ss_pred             HHHHHH-------------HHhcCCCCcEEEEEecCCCC-HHHHHHhhh
Q 032030          110 AVMERD-------------ALRMRDGGPFIFAQVGWVIG-IIFTLSITH  144 (148)
Q Consensus       110 ~~~~~~-------------i~~~np~a~vi~tSa~~g~g-i~~l~~~~~  144 (148)
                      + +.+.             +..+.+..|.+++|+.+|.| +++|++++.
T Consensus       261 ~-~~~~~g~PI~fig~ge~~~dl~~f~~~~~vsal~G~Gdi~~Lie~i~  308 (504)
T 2j37_W          261 S-AVAATKSPIIFIGTGEHIDDFEPFKTQPFISKLLGMGDIEGLIDKVN  308 (504)
T ss_dssp             H-HHHHHCCCEEEEECSSSTTCEECCTHHHHHHCCCTTTTTTTTHHHHT
T ss_pred             H-HHHHhCCCeEEeccccchhhhhccCcceeeehhcCCCcHHHHHHHHH
Confidence            2 2221             12233456667789999999 999988875

>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=97.06  E-value=6e-05  Score=57.60  Aligned_cols=99  Identities=6%  Similarity=-0.017  Sum_probs=58.8

Q ss_pred             CCCEEEEecCCceeee----e--------e--ccccCceEEEEEeCCCCCCcc----c----cCCCCcceeeEEEEe-cC
Q 032030           43 KADLLLCESGGDNLAA----N--------F--SRELADYIIYIIDVSGGDKIP----R----KGGPGITQADLLVIN-KT   99 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~----~--------~--~~~~~d~~i~vvDa~~~~~~~----~----~~~~qi~~ADivViN-K~   99 (148)
                      +..+.|+.|.|.....    .        +  .-..+|.+++|+|+.......    .    ..........++|+| |+
T Consensus        70 ~~~i~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~~~~d~il~V~d~~~~~~~~~~~~~~l~~~~~~~~~~~~i~vv~nK~  149 (260)
T 2xtp_A           70 NREIVIIDTPDMFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQLGRYTSQDQQAAQRVKEIFGEDAMGHTIVLFTHKE  149 (260)
T ss_dssp             TEEEEEEECCGGGGSSCCCHHHHHHHHHHHHHHTTCCSEEEEEEETTCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECGG
T ss_pred             CCEEEEEECcCCCCCCCCHHHHHHHHHHHHHhcCCCCcEEEEEEeCCCCCHHHHHHHHHHHHHhCchhhccEEEEEEccc
Confidence            3468889999964210    0        0  113578999999997632110    0    011111223688888 99


Q ss_pred             CCCCchhhhHHH---------HHHHHHhcCC----CCcEEEEEecCCCCHHHHHHhhhh
Q 032030          100 DLASAIGADLAV---------MERDALRMRD----GGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       100 DL~~~~~~~l~~---------~~~~i~~~np----~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      |+.+.  . +..         +.+.++....    ..+ +++||++|.|++++++++.-
T Consensus       150 Dl~~~--~-~~~~i~~~~~~~~~~~~~~~~~~~~~~~~-~~~SA~~~~gv~~l~~~i~~  204 (260)
T 2xtp_A          150 DLNGG--S-LMDYMHDSDNKALSKLVAACGGRICAFNN-RAEGSNQDDQVKELMDCIED  204 (260)
T ss_dssp             GGTTC--C-HHHHHHHCCCHHHHHHHHHTTTCEEECCT-TCCHHHHHHHHHHHHHHHHH
T ss_pred             ccCCc--c-HHHHHHhcchHHHHHHHHHhCCeEEEecC-cccccccHHHHHHHHHHHHH
Confidence            99854  2 222         2223443332    223 78999999999999988753

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=97.02  E-value=0.00017  Score=62.31  Aligned_cols=94  Identities=16%  Similarity=0.162  Sum_probs=48.5

Q ss_pred             CCCEEEEecCCceee-eee--ccccCceEEEEEeCCCCC-------Ccccc------CCCCcceeeEEEEecCCCCCchh
Q 032030           43 KADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGD-------KIPRK------GGPGITQADLLVINKTDLASAIG  106 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~-------~~~~~------~~~qi~~ADivViNK~DL~~~~~  106 (148)
                      +..+.|+.|.|.... ...  .-..+|..|+|+|+..+.       .-+..      ....++. -++|+||+|+.+.-.
T Consensus       254 ~~~i~iiDTPGh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~lgip~-iIvviNKiDl~~~~~  332 (592)
T 3mca_A          254 KKIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQNNFERGFLENGQTREHAYLLRALGISE-IVVSVNKLDLMSWSE  332 (592)
T ss_dssp             -----CCEEESSSEEEEECCC-------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHHSSCCC-EEEEEECGGGGTTCH
T ss_pred             CeEEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCccccccccchHHHHHHHHHHHcCCCe-EEEEEeccccccccH
Confidence            356777888886421 111  113568889999998753       10100      0011221 367999999986211


Q ss_pred             hhHHHHHHHHHhcC--------CCCcEEEEEecCCCCHH
Q 032030          107 ADLAVMERDALRMR--------DGGPFIFAQVGWVIGII  137 (148)
Q Consensus       107 ~~l~~~~~~i~~~n--------p~a~vi~tSa~~g~gi~  137 (148)
                      ..++.+.+.++...        ...+++++||++|.|++
T Consensus       333 ~~~~~i~~el~~~l~~~~g~~~~~~~ii~iSA~~G~gI~  371 (592)
T 3mca_A          333 DRFQEIKNIVSDFLIKMVGFKTSNVHFVPISAISGTNLI  371 (592)
T ss_dssp             HHHHHHHHHHHHHHTTTSCCCGGGEEEEEECSSSCSSSC
T ss_pred             HHHHHHHHHHHHHHHHhhCCCccceEEEEEecccCcccc
Confidence            44444444444322        13589999999999997

>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=97.01  E-value=0.00073  Score=49.25  Aligned_cols=78  Identities=10%  Similarity=-0.011  Sum_probs=52.2

Q ss_pred             cCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhH----HHHHHHHHhcCCCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADL----AVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l----~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      ..+.+++++|+..+.....      .....++  .+++.||+|+.+.  .+.    +.+.+.+++.....+.+++||+++
T Consensus       108 ~~~~~~~v~d~~~~~~~~~~~~~~~~~~~~~~--~~~v~nK~D~~s~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sal~~  183 (210)
T 1pui_A          108 SLQGLVVLMDIRHPLKDLDQQMIEWAVDSNIA--VLVLLTKADKLAS--GARKAQLNMVREAVLAFNGDVQVETFSSLKK  183 (210)
T ss_dssp             TEEEEEEEEETTSCCCHHHHHHHHHHHHTTCC--EEEEEECGGGSCH--HHHHHHHHHHHHHHGGGCSCEEEEECBTTTT
T ss_pred             cccEEEEEEECCCCCchhHHHHHHHHHHcCCC--eEEEEecccCCCc--hhHHHHHHHHHHHHHhcCCCCceEEEeecCC
Confidence            4577788899876533110      0011333  5778999999886  433    344455554444567899999999


Q ss_pred             CCHHHHHHhhhh
Q 032030          134 IGIIFTLSITHY  145 (148)
Q Consensus       134 ~gi~~l~~~~~~  145 (148)
                      .|++++++++.-
T Consensus       184 ~~~~~l~~~l~~  195 (210)
T 1pui_A          184 QGVDKLRQKLDT  195 (210)
T ss_dssp             BSHHHHHHHHHH
T ss_pred             CCHHHHHHHHHH
Confidence            999999998754

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=97.01  E-value=0.00016  Score=56.04  Aligned_cols=76  Identities=12%  Similarity=0.046  Sum_probs=39.2

Q ss_pred             CceEEEEEeCCC-CCC-----ccccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhc--CCCCcEEEEEecCCCCH
Q 032030           65 ADYIIYIIDVSG-GDK-----IPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRM--RDGGPFIFAQVGWVIGI  136 (148)
Q Consensus        65 ~d~~i~vvDa~~-~~~-----~~~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~--np~a~vi~tSa~~g~gi  136 (148)
                      +|..++++++.. +..     +........+  -++|+||+|+.+.  .+++...+.+++.  ..+.+++++||+++.|+
T Consensus       116 ~~~~l~~i~~~~~~~~~~d~~~l~~l~~~~p--vi~V~nK~D~~~~--~e~~~~~~~i~~~l~~~~i~v~~~sa~~~~~~  191 (274)
T 3t5d_A          116 VQCCLYFIAPSGHGLKPLDIEFMKRLHEKVN--IIPLIAKADTLTP--EECQQFKKQIMKEIQEHKIKIYEFPETDDEEE  191 (274)
T ss_dssp             CCEEEEEECSCCSSCCHHHHHHHHHHTTTSC--EEEEESSGGGSCH--HHHHHHHHHHHHHHHHTTCCCCCC--------
T ss_pred             eeEEEEEecCCCCCCCHHHHHHHHHHhccCC--EEEEEeccCCCCH--HHHHHHHHHHHHHHHHcCCeEEcCCCCCChhH
Confidence            457777776543 322     1111122344  6999999999987  7776554444322  24567899999999999


Q ss_pred             HHHHHhhh
Q 032030          137 IFTLSITH  144 (148)
Q Consensus       137 ~~l~~~~~  144 (148)
                      +++++++.
T Consensus       192 ~~l~~~l~  199 (274)
T 3t5d_A          192 NKLVKKIK  199 (274)
T ss_dssp             ---CHHHH
T ss_pred             HHHHHHHh
Confidence            99887764

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=97.00  E-value=0.0016  Score=51.32  Aligned_cols=97  Identities=13%  Similarity=0.146  Sum_probs=60.1

Q ss_pred             CCCEEEEecCCceee-----eeecc---ccCceEEEEEeCCCCCCcc----------c--cCCCCcceeeEEEEecCCCC
Q 032030           43 KADLLLCESGGDNLA-----ANFSR---ELADYIIYIIDVSGGDKIP----------R--KGGPGITQADLLVINKTDLA  102 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-----~~~~~---~~~d~~i~vvDa~~~~~~~----------~--~~~~qi~~ADivViNK~DL~  102 (148)
                      +..+.++.+.|.-..     ....+   ..+|.+++|+|+.......          .  ...+.++  -++|+||+|+.
T Consensus        51 ~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~~~~~~~p--iilv~NK~Dl~  128 (307)
T 3r7w_A           51 NMTLNLWDCGGQDVFMENYFTKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAK--IFVLLHKMDLV  128 (307)
T ss_dssp             TEEEEEEEECCSHHHHHHHHTTTHHHHHTTCSEEEEEEETTCSCHHHHHHHHHHHHHHHHHHCTTCE--EEEEEECGGGS
T ss_pred             ceEEEEEECCCcHHHhhhhhhhHHHHHhccCCEEEEEEECCChhhHHHHHHHHHHHHHHHHhCCCCe--EEEEEeccccc
Confidence            345667777774211     00000   3578999999998764211          0  0122455  68999999999


Q ss_pred             CchhhhH--------HHHHHHHHhcC-CCCcEEEEEecCCCCHHHHHHhhh
Q 032030          103 SAIGADL--------AVMERDALRMR-DGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       103 ~~~~~~l--------~~~~~~i~~~n-p~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ++  .+.        +.+.+..+..+ |..+++++||++ .|+.+.|..+.
T Consensus       129 ~~--~~r~~~~~v~~~~~~~~~~~~g~~~~~~~~tSa~~-~~i~e~~~~iv  176 (307)
T 3r7w_A          129 QL--DKREELFQIMMKNLSETSSEFGFPNLIGFPTSIWD-ESLYKAWSQIV  176 (307)
T ss_dssp             CH--HHHHHHHHHHHHHHHHHHHTTTCCSCEEEECCTTS-SHHHHHHHHHH
T ss_pred             ch--hhhhHHHHHHHHHHHHHHHHcCCCCeEEEEeeecC-ChHHHHHHHHH
Confidence            84  332        33444444443 358999999998 88888876654

>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=96.98  E-value=0.00086  Score=48.19  Aligned_cols=98  Identities=11%  Similarity=0.058  Sum_probs=54.5

Q ss_pred             CCCEEEEecCCceeeeeecc---ccCceEEEEEeCCCCCC-c---ccc------CCCCcceeeEEEEecCCCCCchhhhH
Q 032030           43 KADLLLCESGGDNLAANFSR---ELADYIIYIIDVSGGDK-I---PRK------GGPGITQADLLVINKTDLASAIGADL  109 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~~~---~~~d~~i~vvDa~~~~~-~---~~~------~~~qi~~ADivViNK~DL~~~~~~~l  109 (148)
                      ...+-+..|.|.-....+.+   ..++.++.|.|...+.. .   ...      ..+..+  -++|.||+|+.+.  ...
T Consensus        55 ~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~~~~s~~~~~~~~~~~~~~~~~~p--iilv~nK~Dl~~~--~~~  130 (184)
T 2zej_A           55 DLVLNVWDFAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARASSSP--VILVGTHLDVSDE--KQR  130 (184)
T ss_dssp             -CEEEEEEECSHHHHHTTSHHHHHHSEEEEEEEEGGGCHHHHHTHHHHHHHHHHHCTTCE--EEEEEECGGGCCH--HHH
T ss_pred             ceEEEEEecCCCHHHHHhhHHHccCCcEEEEEEeCCcchhHHHHHHHHHHHHHhhCCCCc--EEEEEECCCcccc--hhh
Confidence            45566677777421111111   23577788889876521 1   100      112334  4677799999876  544


Q ss_pred             HHH-HHHHHhcC--CCCc----EEEEEecCCC-CHHHHHHhhh
Q 032030          110 AVM-ERDALRMR--DGGP----FIFAQVGWVI-GIIFTLSITH  144 (148)
Q Consensus       110 ~~~-~~~i~~~n--p~a~----vi~tSa~~g~-gi~~l~~~~~  144 (148)
                      ... .+..+++.  -+.+    ++++||++|. |+++|++.+.
T Consensus       131 ~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~~~~~l~~~i~  173 (184)
T 2zej_A          131 KACMSKITKELLNKRGFPAIRDYHFVNATEESDALAKLRKTII  173 (184)
T ss_dssp             HHHHHHHHHHTTTCTTSCEEEEEEECCTTSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCcchhheEEEecccCchhHHHHHHHHH
Confidence            321 11122221  1233    8999999997 9999998764

>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=96.97  E-value=0.00029  Score=52.06  Aligned_cols=99  Identities=16%  Similarity=0.167  Sum_probs=57.8

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc----c------cCCCCcceeeEEEEecCCCCCchh----
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP----R------KGGPGITQADLLVINKTDLASAIG----  106 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~----~------~~~~qi~~ADivViNK~DL~~~~~----  106 (148)
                      +.+.++++.|.-....+.   -..+|.+++|+|+.....+.    .      ...+..+  -++|.||+|+.+...    
T Consensus        76 ~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~i~~~~~~~p--iilv~nK~Dl~~~~~~~~~  153 (205)
T 1gwn_A           76 IELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTK--MLLVGCKSDLRTDVSTLVE  153 (205)
T ss_dssp             EEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCE--EEEEEECGGGGGCHHHHHH
T ss_pred             EEEEEEeCCCcHhhhHHHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCCCCC--EEEEEechhhccchhhhhh
Confidence            345566666642110011   13568899999987643211    0      0112344  589999999974200    


Q ss_pred             --------hhHHHHHHHHHhcCCCCcEEEEEec-CCCCHHHHHHhhhh
Q 032030          107 --------ADLAVMERDALRMRDGGPFIFAQVG-WVIGIIFTLSITHY  145 (148)
Q Consensus       107 --------~~l~~~~~~i~~~np~a~vi~tSa~-~g~gi~~l~~~~~~  145 (148)
                              -..+...+..++.+ ..+++++||+ +|.|++++|+++.-
T Consensus       154 ~~~~~~~~v~~~~~~~~~~~~~-~~~~~e~SAk~~~~gv~~lf~~l~~  200 (205)
T 1gwn_A          154 LSNHRQTPVSYDQGANMAKQIG-AATYIECSALQSENSVRDIFHVATL  200 (205)
T ss_dssp             HHTTTCCCCCHHHHHHHHHHHT-CSEEEECCTTTCHHHHHHHHHHHHH
T ss_pred             hcccccCCCCHHHHHHHHHHcC-CCEEEEeeeccCCcCHHHHHHHHHH
Confidence                    11233444444433 3589999999 68999999988753

>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=96.97  E-value=0.0005  Score=57.16  Aligned_cols=94  Identities=19%  Similarity=0.148  Sum_probs=53.4

Q ss_pred             CCCEEEEecCCceee-----eee------ccccCceEEEEEeCCCCCCc-----cc-cCCCCcceeeEEEEecCCCCCch
Q 032030           43 KADLLLCESGGDNLA-----ANF------SRELADYIIYIIDVSGGDKI-----PR-KGGPGITQADLLVINKTDLASAI  105 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-----~~~------~~~~~d~~i~vvDa~~~~~~-----~~-~~~~qi~~ADivViNK~DL~~~~  105 (148)
                      +..+.++.|.|....     ..+      .-..+|.+++|+|+..+...     .. ......+  -++|+||+|+.+. 
T Consensus        70 ~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~il~VvD~~~~~~~~d~~l~~~l~~~~~p--vilV~NK~D~~~~-  146 (456)
T 4dcu_A           70 NYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVIIFMVNGREGVTAADEEVAKILYRTKKP--VVLAVNKLDNTEM-  146 (456)
T ss_dssp             SSCCEEECCCC------CCHHHHHHHHHHHHHHCSEEEEEEESSSCSCHHHHHHHHHHTTCCSC--EEEEEECC------
T ss_pred             CceEEEEECCCCCCcchHHHHHHHHHHHhhHhhCCEEEEEEeCCCCCChHHHHHHHHHHHcCCC--EEEEEECccchhh-
Confidence            457888999995421     001      01247999999998876431     11 1122344  6899999999754 


Q ss_pred             hhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          106 GADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       106 ~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                       .  +...+.++ + ...+.+++||++|.|+++|++.+.
T Consensus       147 -~--~~~~e~~~-l-g~~~~~~iSA~~g~gv~~L~~~i~  180 (456)
T 4dcu_A          147 -R--ANIYDFYS-L-GFGEPYPISGTHGLGLGDLLDAVA  180 (456)
T ss_dssp             -------CCSGG-G-SSSSEEECCTTTCTTHHHHHHHHH
T ss_pred             -h--hhHHHHHH-c-CCCceEEeecccccchHHHHHHHH
Confidence             2  12222222 1 223568999999999999998764

>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=96.89  E-value=0.0021  Score=56.61  Aligned_cols=60  Identities=15%  Similarity=0.146  Sum_probs=39.1

Q ss_pred             CCCEEEEecCCceee-eee--ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCc
Q 032030           43 KADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASA  104 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~  104 (148)
                      .+++.||.|.|-... ...  .-..+|..++|+|+..+...+.      .....++  -++++||+|+...
T Consensus        81 ~~~i~liDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~~~~~~~~ip--~ilviNKiD~~~~  149 (704)
T 2rdo_7           81 PHRINIIDTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVWRQANKYKVP--RIAFVNKMDRMGA  149 (704)
T ss_pred             ceeEEEEeCCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHHHHHHHHHHcCCC--EEEEEeCCCcccc
Confidence            488999999996431 100  1135799999999988754211      0112344  6899999999764

>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=96.81  E-value=0.0016  Score=57.10  Aligned_cols=60  Identities=18%  Similarity=0.153  Sum_probs=38.2

Q ss_pred             CCCEEEEecCCceee-eee--ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCc
Q 032030           43 KADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASA  104 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~  104 (148)
                      +..+.++.|.|.... ...  .-..+|.+++|+|+..+...+.      .....++  -++|+||+|+...
T Consensus        76 ~~~i~liDTPG~~df~~~~~~~l~~aD~~ilVvDa~~g~~~~t~~~~~~~~~~~~p--~ivviNKiD~~~~  144 (691)
T 1dar_A           76 DHRINIIDTPGHVDFTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQAEKYKVP--RIAFANKMDKTGA  144 (691)
T ss_dssp             TEEEEEECCCSSTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHTTCC--EEEEEECTTSTTC
T ss_pred             CeEEEEEECcCccchHHHHHHHHHHCCEEEEEEECCCCcchhhHHHHHHHHHcCCC--EEEEEECCCcccC
Confidence            467888888886421 000  0125789999999988754211      0112344  6899999999864

>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=96.80  E-value=0.0011  Score=48.24  Aligned_cols=78  Identities=17%  Similarity=-0.001  Sum_probs=50.0

Q ss_pred             cCceEEEEEeCCCCCCcc---cc-------CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKIP---RK-------GGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~---~~-------~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      ..+..++|.|........   ..       .....+  -++++||+|+.+......+...+..+  .|..+++.+||+++
T Consensus        77 ~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~--i~~v~nK~Dl~~~~~~~~~~a~~l~~--~~~~~~~d~Sal~~  152 (199)
T 2f9l_A           77 GAVGALLVYDIAKHLTYENVERWLKELRDHADSNIV--IMLVGNKSDLRHLRAVPTDEARAFAE--KNNLSFIETSALDS  152 (199)
T ss_dssp             TCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE--EEEEEECTTCGGGCCSCHHHHHHHHH--HTTCEEEECCTTTC
T ss_pred             cCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCe--EEEEEECcccccccCcCHHHHHHHHH--HcCCeEEEEeCCCC
Confidence            457788899986542110   00       011223  58899999997531112233444444  36678999999999


Q ss_pred             CCHHHHHHhhhh
Q 032030          134 IGIIFTLSITHY  145 (148)
Q Consensus       134 ~gi~~l~~~~~~  145 (148)
                      .|++++++++.-
T Consensus       153 ~~i~~l~~~l~~  164 (199)
T 2f9l_A          153 TNVEEAFKNILT  164 (199)
T ss_dssp             TTHHHHHHHHHH
T ss_pred             CCHHHHHHHHHH
Confidence            999999988753

>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=96.76  E-value=0.004  Score=53.07  Aligned_cols=60  Identities=17%  Similarity=0.106  Sum_probs=38.9

Q ss_pred             CCCEEEEecCCceee-eee--ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCc
Q 032030           43 KADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASA  104 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~  104 (148)
                      +..+.++.|.|.... ...  .-..+|..++|+|+..+...+.      .....++  -++++||+|+.+.
T Consensus        81 ~~~i~liDTPG~~df~~~~~~~l~~aD~~IlVvDa~~g~~~~t~~~~~~~~~~~ip--iivviNK~Dl~~~  149 (529)
T 2h5e_A           81 DCLVNLLDTPGHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDRTRKLMEVTRLRDTP--ILTFMNKLDRDIR  149 (529)
T ss_dssp             TEEEEEECCCCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHHHHHTTTTCC--EEEEEECTTSCCS
T ss_pred             CeEEEEEECCCChhHHHHHHHHHHHCCEEEEEEeCCccchHHHHHHHHHHHHcCCC--EEEEEcCcCCccc
Confidence            467888899986421 000  1135799999999988754211      1122455  6999999999865

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=96.71  E-value=0.0016  Score=55.76  Aligned_cols=39  Identities=18%  Similarity=0.178  Sum_probs=28.2

Q ss_pred             cCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCc
Q 032030           64 LADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASA  104 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~  104 (148)
                      .+|..|.||||..|...+.      .....++  -+++|||+|+...
T Consensus       123 ~~DgAvlVvda~~GV~~qT~~v~~~a~~~~lp--~i~fINK~Dr~~a  167 (548)
T 3vqt_A          123 AVDSALVVIDAAKGVEAQTRKLMDVCRMRATP--VMTFVNKMDREAL  167 (548)
T ss_dssp             SCSEEEEEEETTTBSCHHHHHHHHHHHHTTCC--EEEEEECTTSCCC
T ss_pred             hcCceEEEeecCCCcccccHHHHHHHHHhCCc--eEEEEecccchhc
Confidence            4688899999999866321      1123456  6899999998664

>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=96.63  E-value=0.00053  Score=53.52  Aligned_cols=95  Identities=15%  Similarity=-0.018  Sum_probs=55.0

Q ss_pred             CCCEEEEecCCceeee------e----e------ccccCceEEEEEeCC-CCCC-cc-----c-cCCCCcceeeEEEEec
Q 032030           43 KADLLLCESGGDNLAA------N----F------SRELADYIIYIIDVS-GGDK-IP-----R-KGGPGITQADLLVINK   98 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~------~----~------~~~~~d~~i~vvDa~-~~~~-~~-----~-~~~~qi~~ADivViNK   98 (148)
                      ..+++|+.|.|.....      .    +      .-..+|.+++++|+. .... ..     . ......+  -++|+||
T Consensus       130 ~~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~~~~~~~~~i~~~~~~~~~~--~i~v~NK  207 (315)
T 1jwy_B          130 VVNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEVDPEGKR--TIGVITK  207 (315)
T ss_dssp             SCSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHHCSSCSS--EEEEEEC
T ss_pred             CCCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcchhhhHHHHHHHHhCCCCCc--EEEEEcC
Confidence            4689999999974210      0    1      012568888899863 3211 01     1 1112333  7999999


Q ss_pred             CCCCCchhhhHHHHHHHHHh-c----CCCCcEEEEEecC---CCCHHHHHHhh
Q 032030           99 TDLASAIGADLAVMERDALR-M----RDGGPFIFAQVGW---VIGIIFTLSIT  143 (148)
Q Consensus        99 ~DL~~~~~~~l~~~~~~i~~-~----np~a~vi~tSa~~---g~gi~~l~~~~  143 (148)
                      +|+.+.  ..  ...+.++. .    .+..++...|+.+   +.|++++++..
T Consensus       208 ~Dl~~~--~~--~~~~~~~~~~~~~~~~~~~v~~~sa~~~~~~~gv~~l~~~~  256 (315)
T 1jwy_B          208 LDLMDK--GT--DAMEVLTGRVIPLTLGFIGVINRSQEDIIAKKSIRESLKSE  256 (315)
T ss_dssp             TTSSCS--SC--CCHHHHTTSSSCCTTCEEECCCCCHHHHSSSCCHHHHHHHH
T ss_pred             cccCCc--ch--HHHHHHhCCCccCCCCeEEEecCChhhhccCCCHHHHHHHH
Confidence            999876  43  12223332 1    1234555666666   78999998774

>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=96.63  E-value=0.0021  Score=56.13  Aligned_cols=22  Identities=23%  Similarity=0.241  Sum_probs=20.1

Q ss_pred             CcEEEEEecCCCCHHHHHHhhh
Q 032030          123 GPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       123 a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .|++.+||++|.|+++|++.+.
T Consensus       248 ~pv~~~SA~~~~Gv~~Ll~~i~  269 (665)
T 2dy1_A          248 YPVALASGEREIGVLPLLELIL  269 (665)
T ss_dssp             EEEEECBTTTTBSHHHHHHHHH
T ss_pred             eEEEEeecccCcCHHHHHHHHH
Confidence            5899999999999999999875

>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=96.62  E-value=0.0016  Score=52.21  Aligned_cols=79  Identities=10%  Similarity=0.055  Sum_probs=50.6

Q ss_pred             cCceEEEEEeCCCCCCcccc---------CCC-C-cceeeEEEE-ec-CCCCCchhhhHHHHHHHHH--hcCCCCcEEEE
Q 032030           64 LADYIIYIIDVSGGDKIPRK---------GGP-G-ITQADLLVI-NK-TDLASAIGADLAVMERDAL--RMRDGGPFIFA  128 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~~---------~~~-q-i~~ADivVi-NK-~DL~~~~~~~l~~~~~~i~--~~np~a~vi~t  128 (148)
                      ..|.+|+|||+...+.....         ..+ . ++.|-++|+ || -|+...  -...++.+.+.  ++...-.|..+
T Consensus       210 ~tdglIfVVDSsDreRleak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp~A--ms~~EI~e~L~L~~l~r~W~Iq~c  287 (312)
T 3l2o_B          210 VVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKR--MPCFYLAHELHLNLLNHPWLVQDT  287 (312)
T ss_dssp             HCSEEEECCBCBTTCCCCHHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTSCB--CCHHHHHHHTTGGGGCSCEEEEEE
T ss_pred             CCCEEEEEecCCcHhHHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCcccccCC--CCHHHHHHHcCCccCCCcEEEEec
Confidence            46888999999876542210         111 1 233335555 87 588766  33345555442  34444578999


Q ss_pred             EecCCCCHHHHHHhhh
Q 032030          129 QVGWVIGIIFTLSITH  144 (148)
Q Consensus       129 Sa~~g~gi~~l~~~~~  144 (148)
                      ||+||+|+.+=++|+.
T Consensus       288 sA~tGeGL~EGldWL~  303 (312)
T 3l2o_B          288 EAETLTGFLNGIEWIL  303 (312)
T ss_dssp             ETTTCTTHHHHHHHHH
T ss_pred             ccCCCcCHHHHHHHHH
Confidence            9999999999999975

>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=96.59  E-value=0.0015  Score=47.45  Aligned_cols=77  Identities=18%  Similarity=0.062  Sum_probs=49.1

Q ss_pred             CceEEEEEeCCCCCCc---ccc-------CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCC
Q 032030           65 ADYIIYIIDVSGGDKI---PRK-------GGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVI  134 (148)
Q Consensus        65 ~d~~i~vvDa~~~~~~---~~~-------~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~  134 (148)
                      .+..++|.|.......   ...       .....+  -++++||+||.+......+..++..+  .|...++.+||+++.
T Consensus       102 ~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~--i~~v~nK~Dl~~~~~~~~~~a~~l~~--~~~~~~ld~Sald~~  177 (191)
T 1oix_A          102 AVGALLVYDIAKHLTYENVERWLKELRDHADSNIV--IMLVGNKSDLRHLRAVPTDEARAFAE--KNGLSFIETSALDST  177 (191)
T ss_dssp             CCEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE--EEEEEECGGGGGGCCSCHHHHHHHHH--HTTCEEEECCTTTCT
T ss_pred             CCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCCCc--EEEEEECcccccccccCHHHHHHHHH--HcCCEEEEEeCCCCC
Confidence            4667888997653211   000       111222  58899999996531112234444444  467889999999999


Q ss_pred             CHHHHHHhhhh
Q 032030          135 GIIFTLSITHY  145 (148)
Q Consensus       135 gi~~l~~~~~~  145 (148)
                      |++++++++.-
T Consensus       178 ~v~~l~~~l~~  188 (191)
T 1oix_A          178 NVEAAFQTILT  188 (191)
T ss_dssp             THHHHHHHHHH
T ss_pred             CHHHHHHHHHH
Confidence            99999998753

>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=96.49  E-value=0.0021  Score=52.08  Aligned_cols=70  Identities=13%  Similarity=0.009  Sum_probs=35.2

Q ss_pred             ceEEEEEeC-CCCCC-----ccccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcC--CCCcEEEEEecCCCCHH
Q 032030           66 DYIIYIIDV-SGGDK-----IPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMR--DGGPFIFAQVGWVIGII  137 (148)
Q Consensus        66 d~~i~vvDa-~~~~~-----~~~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~n--p~a~vi~tSa~~g~gi~  137 (148)
                      |.+++++++ .++..     +.......++  -++|+||+|+.+.  .++....+.+++..  .+.+++++||++|.| +
T Consensus       147 ~~~vy~I~~~~~~l~~~d~~~~~~l~~~~p--iIlV~NK~Dl~~~--~ev~~~k~~i~~~~~~~~i~~~~~Sa~~~~~-~  221 (361)
T 2qag_A          147 HCCFYFISPFGHGLKPLDVAFMKAIHNKVN--IVPVIAKADTLTL--KERERLKKRILDEIEEHNIKIYHLPDAESDE-D  221 (361)
T ss_dssp             CEEEEEECSSSSSCCHHHHHHHHHTCS-SC--EEEEEECCSSSCH--HHHHHHHHHHHHHTTCC-CCSCCCC--------
T ss_pred             EEEEEEEecCCCCcchhHHHHHHHhccCCC--EEEEEECCCCCCH--HHHHHHHHHHHHHHHHCCCCEEeCCCcCCCc-c
Confidence            456777775 33322     1111223344  6999999999987  76655444443222  356899999999988 5


Q ss_pred             HHH
Q 032030          138 FTL  140 (148)
Q Consensus       138 ~l~  140 (148)
                      +.+
T Consensus       222 e~~  224 (361)
T 2qag_A          222 EDF  224 (361)
T ss_dssp             --C
T ss_pred             hhH
Confidence            544

>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=96.24  E-value=0.00065  Score=56.76  Aligned_cols=95  Identities=17%  Similarity=0.089  Sum_probs=55.8

Q ss_pred             CCCEEEEecCCceee-eee--ccccCceEEEEEeCCCCC---------Ccccc----CCCCcceeeEEEEecCCCCCchh
Q 032030           43 KADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGD---------KIPRK----GGPGITQADLLVINKTDLASAIG  106 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~---------~~~~~----~~~qi~~ADivViNK~DL~~~~~  106 (148)
                      +..+.++.|.|-... ...  .-..+|..++|+|+.++.         .....    ....++ --++++||+|+.+.-.
T Consensus        84 ~~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~~~v~-~iivviNK~Dl~~~~~  162 (458)
T 1f60_A           84 KYQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTLGVR-QLIVAVNKMDSVKWDE  162 (458)
T ss_dssp             SEEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHTTCC-EEEEEEECGGGGTTCH
T ss_pred             CceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHHcCCC-eEEEEEEccccccCCH
Confidence            356888999995321 000  124679999999998652         11000    001121 1377899999984201


Q ss_pred             hhHHH----HHHHHHhcCC---CCcEEEEEecCCCCHHH
Q 032030          107 ADLAV----MERDALRMRD---GGPFIFAQVGWVIGIIF  138 (148)
Q Consensus       107 ~~l~~----~~~~i~~~np---~a~vi~tSa~~g~gi~~  138 (148)
                      +.++.    +.+.++...-   ..+++++||++|.|+++
T Consensus       163 ~~~~~i~~~~~~~l~~~g~~~~~~~~i~vSA~~g~nv~~  201 (458)
T 1f60_A          163 SRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIE  201 (458)
T ss_dssp             HHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTB
T ss_pred             HHHHHHHHHHHHHHHHcCCCccCceEEEeecccCcCccc
Confidence            33333    4444444331   47999999999999874

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=96.23  E-value=0.006  Score=53.53  Aligned_cols=60  Identities=17%  Similarity=0.213  Sum_probs=38.0

Q ss_pred             CCCEEEEecCCceee-eee--ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCc
Q 032030           43 KADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASA  104 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~  104 (148)
                      +..+.++.|.|.... ...  .-..+|.+++|+|+..+...+.      .....++  -++|+||+|+.+.
T Consensus        74 ~~~i~liDTPG~~df~~~~~~~l~~aD~~llVvDa~~g~~~~~~~~~~~~~~~~~p--~ilviNK~Dl~~~  142 (693)
T 2xex_A           74 GHRVNIIDTPGHVDFTVEVERSLRVLDGAVTVLDAQSGVEPQTETVWRQATTYGVP--RIVFVNKMDKLGA  142 (693)
T ss_dssp             TEEEEEECCCCCSSCCHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHHHTTCC--EEEEEECTTSTTC
T ss_pred             CeeEEEEECcCCcchHHHHHHHHHHCCEEEEEECCCCCCcHHHHHHHHHHHHcCCC--EEEEEECCCcccc
Confidence            456888899886421 000  0124799999999988654211      0112334  6999999999865

>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=96.15  E-value=0.0016  Score=51.36  Aligned_cols=48  Identities=8%  Similarity=-0.136  Sum_probs=28.3

Q ss_pred             eEEEEecCCCCCchhhhHH----HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030           92 DLLVINKTDLASAIGADLA----VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus        92 DivViNK~DL~~~~~~~l~----~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      -++|+||.|+.+.  .++.    ++.+.++..  +.+++++||++| |++++|.+++
T Consensus       158 iilV~~K~Dl~~~--~e~~~~~~~~~~~~~~~--~~~~~e~Sa~~~-~v~e~f~~l~  209 (301)
T 2qnr_A          158 IVPVIAKADTLTL--KERERLKKRILDEIEEH--NIKIYHLPDAES-DEDEDFKEQT  209 (301)
T ss_dssp             EEEEECCGGGSCH--HHHHHHHHHHHHHHHHT--TCCCCCCC----------CHHHH
T ss_pred             EEEEEEeCCCCCH--HHHHHHHHHHHHHHHHc--CCeEEecCCccc-cccHHHHHHH
Confidence            5899999999886  6553    445555544  478999999999 9999887654

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=96.13  E-value=0.0019  Score=56.15  Aligned_cols=59  Identities=20%  Similarity=0.255  Sum_probs=36.0

Q ss_pred             CCEEEEecCCceee-eeec--cccCceEEEEEeCCCCCCcccc------CCCCcceeeEEEEecCCCCCc
Q 032030           44 ADLLLCESGGDNLA-ANFS--RELADYIIYIIDVSGGDKIPRK------GGPGITQADLLVINKTDLASA  104 (148)
Q Consensus        44 ~D~IliEtsG~~~~-~~~~--~~~~d~~i~vvDa~~~~~~~~~------~~~qi~~ADivViNK~DL~~~  104 (148)
                      .-+=||-|.|-... ....  -..+|..|.||||.+|...+..      ....++  -+++|||+|+...
T Consensus        67 ~~iNlIDTPGH~DF~~Ev~raL~~~DgavlVVDa~~GV~~qT~~v~~~a~~~~lp--~i~~INKmDr~~a  134 (638)
T 3j25_A           67 TKVNIIDTPGHMDFLAEVYRSLSVLDGAILLISAKDGVQAQTRILFHALRKMGIP--TIFFINKIDQNGI  134 (638)
T ss_dssp             CBCCCEECCCSSSTHHHHHHHHTTCSEEECCEESSCTTCSHHHHHHHHHHHHTCS--CEECCEECCSSSC
T ss_pred             EEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEeCCCCCcHHHHHHHHHHHHcCCC--eEEEEeccccccC
Confidence            44556777774421 0000  1257999999999998653211      112455  5999999998653

>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=95.97  E-value=0.0019  Score=54.13  Aligned_cols=90  Identities=13%  Similarity=0.114  Sum_probs=53.6

Q ss_pred             hcCCCEEEEecCCceee-e-------ee-ccccCceEEEEEeCCCCCCccc---cCCCCcceeeEEEEecCCCCCchhhh
Q 032030           41 LFKADLLLCESGGDNLA-A-------NF-SRELADYIIYIIDVSGGDKIPR---KGGPGITQADLLVINKTDLASAIGAD  108 (148)
Q Consensus        41 ~~~~D~IliEtsG~~~~-~-------~~-~~~~~d~~i~vvDa~~~~~~~~---~~~~qi~~ADivViNK~DL~~~~~~~  108 (148)
                      ..++|+|+|+|.|.... .       .+ .....|.+++|+|+..+.+...   .+.+.+. .+.+|+||.|....  .-
T Consensus       180 ~~~~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~gq~a~~~a~~f~~~~~-i~gVIlTKlD~~~~--gG  256 (443)
T 3dm5_A          180 SKGVDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQQAYNQALAFKEATP-IGSIIVTKLDGSAK--GG  256 (443)
T ss_dssp             HTTCSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHHHHHHHSCT-TEEEEEECCSSCSS--HH
T ss_pred             hCCCCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCchhHHHHHHHHHhhCC-CeEEEEECCCCccc--cc
Confidence            35799999999996421 1       01 0112477899999987643211   1111111 25799999999876  32


Q ss_pred             HHHHHHHHHhcCCCCcEEEEEecCCCCHHHH
Q 032030          109 LAVMERDALRMRDGGPFIFAQVGWVIGIIFT  139 (148)
Q Consensus       109 l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l  139 (148)
                        .+.....  ..+.|+.+++.  |++++.|
T Consensus       257 --~~ls~~~--~~g~PI~fig~--Ge~vddL  281 (443)
T 3dm5_A          257 --GALSAVA--ATGAPIKFIGT--GEKIDDI  281 (443)
T ss_dssp             --HHHHHHH--TTCCCEEEEEC--SSSTTCE
T ss_pred             --HHHHHHH--HHCCCEEEEEc--CCChHHh
Confidence              2333333  24578888885  6776543

>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=95.87  E-value=0.0012  Score=53.56  Aligned_cols=80  Identities=14%  Similarity=0.058  Sum_probs=50.5

Q ss_pred             cCceEEEEEeCCCCCC----------cc-------ccCC----CCcceeeEEEEecCCCCCch---------------hh
Q 032030           64 LADYIIYIIDVSGGDK----------IP-------RKGG----PGITQADLLVINKTDLASAI---------------GA  107 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~----------~~-------~~~~----~qi~~ADivViNK~DL~~~~---------------~~  107 (148)
                      .++.+|+|+|....+.          +.       ....    ...+  -+|+.||+||..+-               ..
T Consensus       216 ~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~~~~~~~~~p--iiLv~NK~DL~~~ki~~~~l~~~fp~~~g~~  293 (353)
T 1cip_A          216 GVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTS--IILFLNKKDLFEEKIKKSPLTICYPEYAGSN  293 (353)
T ss_dssp             TCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSE--EEEEEECHHHHHHHHTTSCGGGTCTTCCSCS
T ss_pred             cCCEEEEEEECccccccccccchhhhHHHHHHHHHHHHcCccccCCc--EEEEEECcCchhhhccccchhhcccccCCCC
Confidence            5688899999887432          00       0001    1233  69999999984210               01


Q ss_pred             hHHHHHHHHH----hcC-----CCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          108 DLAVMERDAL----RMR-----DGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       108 ~l~~~~~~i~----~~n-----p~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ..+...++++    .++     ....++.|||++|.|+.++|+++.-
T Consensus       294 ~~~e~~~~~~~~f~~l~~~~~~~~~~~~etSA~~~~nV~~vF~~v~~  340 (353)
T 1cip_A          294 TYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTD  340 (353)
T ss_dssp             CHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHhhcccCCCceEEEEEECcCchhHHHHHHHHHH
Confidence            2334444444    332     3457889999999999999998763

>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=95.35  E-value=0.0037  Score=50.83  Aligned_cols=80  Identities=16%  Similarity=0.093  Sum_probs=49.8

Q ss_pred             cCceEEEEEeCCCCCCcc-----------------cc-CC---CCcceeeEEEEecCCCCCch----------------h
Q 032030           64 LADYIIYIIDVSGGDKIP-----------------RK-GG---PGITQADLLVINKTDLASAI----------------G  106 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~-----------------~~-~~---~qi~~ADivViNK~DL~~~~----------------~  106 (148)
                      .++.+|+|+|.+..+...                 .. ..   ...+  -++++||+||..+-                .
T Consensus       224 ~~~~iIfv~dls~~dq~l~ed~~~n~~~es~~~~~~i~~~~~~~~~p--iILv~NK~DL~~~ki~~~~l~~~fp~y~g~~  301 (362)
T 1zcb_A          224 SVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVS--IILFLNKTDLLEEKVQVVSIKDYFLEFEGDP  301 (362)
T ss_dssp             TCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSE--EEEEEECHHHHHHHTTTCCGGGTCTTCCSCT
T ss_pred             CCCEEEEEEECccccccccccccccHHHHHHHHHHHHhcchhhCCCC--EEEEEEChhhhhhhccccchhhcCccccCCC
Confidence            568889999998853210                 00 00   1233  68999999985210                0


Q ss_pred             hhHHHHHHHH----HhcC-----CCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          107 ADLAVMERDA----LRMR-----DGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       107 ~~l~~~~~~i----~~~n-----p~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ...+...+++    ..++     ....++.|||++|.|++++|+++.-
T Consensus       302 ~~~~e~~~~~~~~f~~l~~~~~~~~~~~~~tSA~d~~nV~~vF~~v~~  349 (362)
T 1zcb_A          302 HCLRDVQKFLVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKD  349 (362)
T ss_dssp             TCHHHHHHHHHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHhhcccCCCceEEEEEecCCchhHHHHHHHHHH
Confidence            1234444444    2222     2357789999999999999988753

>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=95.16  E-value=0.0032  Score=51.10  Aligned_cols=22  Identities=5%  Similarity=-0.263  Sum_probs=19.0

Q ss_pred             cEEEEEecCCCCHHHHHHhhhh
Q 032030          124 PFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       124 ~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      .++.|||+++.|++++|+++.-
T Consensus       320 ~~~eTSA~d~~nV~~vF~~v~~  341 (354)
T 2xtz_A          320 KIYRTTALDQKLVKKTFKLVDE  341 (354)
T ss_dssp             EEEECCTTCHHHHHHHHHHHHH
T ss_pred             EEEEEEeecchhHHHHHHHHHH
Confidence            4689999999999999988753

>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=95.11  E-value=0.0054  Score=44.87  Aligned_cols=88  Identities=16%  Similarity=0.228  Sum_probs=42.7

Q ss_pred             CCEEEEecCCceee----eeecc---ccCceEEEEEeCC-CCCCccc---c-----------CCCCcceeeEEEEecCCC
Q 032030           44 ADLLLCESGGDNLA----ANFSR---ELADYIIYIIDVS-GGDKIPR---K-----------GGPGITQADLLVINKTDL  101 (148)
Q Consensus        44 ~D~IliEtsG~~~~----~~~~~---~~~d~~i~vvDa~-~~~~~~~---~-----------~~~qi~~ADivViNK~DL  101 (148)
                      ..+.++++.|....    ..+..   ..+|.+++|+|+. ....+..   .           ....++  -++|+||+|+
T Consensus        55 ~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p--~ilv~nK~Dl  132 (218)
T 1nrj_B           55 SGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGID--ILIACNKSEL  132 (218)
T ss_dssp             SSCEEEECCCCGGGTHHHHHHHHHHGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCC--EEEEEECTTS
T ss_pred             ceEEEEECCCcHHHHHHHHHHHHhccccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCC--EEEEEEchHh
Confidence            46788889886421    11111   1268899999998 3322110   0           122344  6899999999


Q ss_pred             CCchhhhHHHH----HHHHHhc--CCCCcEEEEEecCCCC
Q 032030          102 ASAIGADLAVM----ERDALRM--RDGGPFIFAQVGWVIG  135 (148)
Q Consensus       102 ~~~~~~~l~~~----~~~i~~~--np~a~vi~tSa~~g~g  135 (148)
                      .+.  ...+++    .+.++.+  ....+++++||++|.+
T Consensus       133 ~~~--~~~~~~~~~l~~~~~~~~~~~~~~~~~~Sa~~~~~  170 (218)
T 1nrj_B          133 FTA--RPPSKIKDALESEIQKVIERRKKSLNEVERKINEE  170 (218)
T ss_dssp             TTC--CCHHHHHHHHHHHHHHHHHHHHHHHHC--------
T ss_pred             ccc--CCHHHHHHHHHHHHHHHHHHHhccccccccccccc
Confidence            886  433322    2112111  1224666777776653

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=94.70  E-value=0.024  Score=45.74  Aligned_cols=77  Identities=18%  Similarity=0.101  Sum_probs=48.0

Q ss_pred             cCceEEEEEeCCCCC-C-ccc---------cCCCCcceeeEEEEecCCCCCchhhhH----HHHHH-HHHhcC------C
Q 032030           64 LADYIIYIIDVSGGD-K-IPR---------KGGPGITQADLLVINKTDLASAIGADL----AVMER-DALRMR------D  121 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~-~-~~~---------~~~~qi~~ADivViNK~DL~~~~~~~l----~~~~~-~i~~~n------p  121 (148)
                      .++..++|+|..... . ...         ...+.++  -+++.||+||.++  .+.    ..+.+ ..+++.      -
T Consensus        72 ~a~~~IlV~Ditd~~~~~~~~l~~~l~~~~~~~~~ip--illvgNK~DL~~~--~~R~~~~R~V~~~~~~~la~~~~~~~  147 (331)
T 3r7w_B           72 SVGALVYVIDSQDEYINAITNLAMIIEYAYKVNPSIN--IEVLIHKVDGLSE--DFKVDAQRDIMQRTGEELLELGLDGV  147 (331)
T ss_dssp             TCSEEEEECCCSSCTTHHHHHHHHHHHHHHHHCTTCE--EEEECCCCCSSCS--HHHHHHHHHHHHHHHHTTSSSSCSCC
T ss_pred             CCCEEEEEEECCchHHHHHHHHHHHHHHHhhcCCCCc--EEEEEECcccCch--hhhhhHHHHhhHHHHHHHHhhccccc
Confidence            568889999987641 1 000         0123344  5899999999986  542    12222 122222      2


Q ss_pred             CCcEEEEEecCCCCHHHHHHhhhh
Q 032030          122 GGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       122 ~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +.+.+.|||++ .++.+.|..++.
T Consensus       148 ~i~f~eTSAkd-~nV~eAFs~iv~  170 (331)
T 3r7w_B          148 QVSFYLTSIFD-HSIYEAFSRIVQ  170 (331)
T ss_dssp             CEEEECCCSSS-SHHHHHHHHHHT
T ss_pred             CceEEEeccCC-CcHHHHHHHHHH
Confidence            46889999986 689998887654

>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=94.64  E-value=0.0043  Score=51.00  Aligned_cols=46  Identities=17%  Similarity=0.137  Sum_probs=35.5

Q ss_pred             eEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHH
Q 032030           92 DLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLS  141 (148)
Q Consensus        92 DivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~  141 (148)
                      .++|+||+|+...  ..++++.+.+...  +++++++||+.+.|+.++++
T Consensus       217 ~i~v~NK~D~~~~--~~l~~l~~~~~~~--~~~vv~iSA~~e~~l~~L~~  262 (397)
T 1wxq_A          217 MVIAANKADAASD--EQIKRLVREEEKR--GYIVIPTSAAAELTLRKAAK  262 (397)
T ss_dssp             EEEEEECGGGSCH--HHHHHHHHHHHHT--TCEEEEECHHHHHHHHSCSS
T ss_pred             EEEEEeCccccch--HHHHHHHHHHhhc--CCcEEEEeccchhhHHHHHh
Confidence            7999999999855  5566776655532  47899999999999877543

>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=94.61  E-value=0.02  Score=42.81  Aligned_cols=100  Identities=9%  Similarity=0.065  Sum_probs=54.8

Q ss_pred             CCCEEEEecCCceee--------eee------ccccCceEEEEEeCCCCCCccc----cC----CCCcceeeEEEEecCC
Q 032030           43 KADLLLCESGGDNLA--------ANF------SRELADYIIYIIDVSGGDKIPR----KG----GPGITQADLLVINKTD  100 (148)
Q Consensus        43 ~~D~IliEtsG~~~~--------~~~------~~~~~d~~i~vvDa~~~~~~~~----~~----~~qi~~ADivViNK~D  100 (148)
                      +..+.++.|.|....        ..+      .....|.++.|+|+........    ..    ......--++|+||+|
T Consensus        77 ~~~i~liDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~l~~~~~~~~~~~~~~~iiv~nK~D  156 (239)
T 3lxx_A           77 ETELVVVDTPGIFDTEVPNAETSKEIIRCILLTSPGPHALLLVVPLGRYTEEEHKATEKILKMFGERARSFMILIFTRKD  156 (239)
T ss_dssp             TEEEEEEECCSCC-----CHHHHHHHHHHHHHTTTCCSEEEEEEETTCCSSHHHHHHHHHHHHHHHHHGGGEEEEEECGG
T ss_pred             CceEEEEECCCccCCCCCHHHHHHHHHHHHHhcCCCCcEEEEEeeCCCCCHHHHHHHHHHHHHhhhhccceEEEEEeCCc
Confidence            346788999996421        011      1134689999999875433100    00    0011112689999999


Q ss_pred             CCCchhhhHH--------HHHHHHHhcCCCCcEEEEEecC-----CCCHHHHHHhhhhh
Q 032030          101 LASAIGADLA--------VMERDALRMRDGGPFIFAQVGW-----VIGIIFTLSITHYI  146 (148)
Q Consensus       101 L~~~~~~~l~--------~~~~~i~~~np~a~vi~tSa~~-----g~gi~~l~~~~~~~  146 (148)
                      +.+.  ..++        .+.+.+++...  +++.++...     +.++.+|++.+..+
T Consensus       157 ~~~~--~~~~~~i~~~~~~l~~l~~~~~~--~~~~~~~~~~~~~~~~~v~~ll~~i~~~  211 (239)
T 3lxx_A          157 DLGD--TNLHDYLREAPEDIQDLMDIFGD--RYCALNNKATGAEQEAQRAQLLGLIQRV  211 (239)
T ss_dssp             GC--------------CHHHHHHHHHHSS--SEEECCTTCCHHHHHHHHHHHHHHHHHH
T ss_pred             cCCc--ccHHHHHHhchHHHHHHHHHcCC--EEEEEECCCCccccHHHHHHHHHHHHHH
Confidence            9876  5443        35555555443  455665543     36899999877654

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=94.58  E-value=0.042  Score=48.22  Aligned_cols=39  Identities=18%  Similarity=0.235  Sum_probs=27.4

Q ss_pred             cCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCc
Q 032030           64 LADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASA  104 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~  104 (148)
                      .+|..|.|||+.+|...+.      .....++  -+++|||+|+...
T Consensus       108 ~~DgavlvVDaveGV~~qT~~v~~~a~~~~lp--~i~~iNKiDr~~a  152 (709)
T 4fn5_A          108 VLDGAVVVFCGTSGVEPQSETVWRQANKYGVP--RIVYVNKMDRQGA  152 (709)
T ss_dssp             HCSEEEEEEETTTCSCHHHHHHHHHHHHHTCC--EEEEEECSSSTTC
T ss_pred             HhCeEEEEEECCCCCchhHHHHHHHHHHcCCC--eEEEEccccccCc
Confidence            4688899999999865321      1122455  6999999998653

>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=94.11  E-value=0.0013  Score=54.91  Aligned_cols=63  Identities=21%  Similarity=0.270  Sum_probs=38.6

Q ss_pred             cCCCEEEEecCCceee-ee-------ecc-ccCceEEEEEeCCCCCCccc---cCCCCcceeeEEEEecCCCCCc
Q 032030           42 FKADLLLCESGGDNLA-AN-------FSR-ELADYIIYIIDVSGGDKIPR---KGGPGITQADLLVINKTDLASA  104 (148)
Q Consensus        42 ~~~D~IliEtsG~~~~-~~-------~~~-~~~d~~i~vvDa~~~~~~~~---~~~~qi~~ADivViNK~DL~~~  104 (148)
                      .++|+|+|.|.|.... ..       +.. ...|.+++|+|+..+.+...   .+...+.--..+|+||+|....
T Consensus       179 ~~~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g~~~~~~~~~~~~~~~~i~gvVlnK~D~~~~  253 (432)
T 2v3c_C          179 KKADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQQAGIQAKAFKEAVGEIGSIIVTKLDGSAK  253 (432)
T ss_dssp             SSCSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGGGGHHHHHHHHHTTSCSCEEEEEECSSSCST
T ss_pred             hCCCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeeccccHHHHHHHHHHhhcccCCeEEEEeCCCCccc
Confidence            5799999999997531 11       111 13577899999977643211   1111120126899999998754

>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=93.97  E-value=0.016  Score=48.12  Aligned_cols=49  Identities=6%  Similarity=-0.174  Sum_probs=25.5

Q ss_pred             eeEEEEecCCCCCchhhhHHH----HHHHHHhcCCCCcEEEEEecCCCCHHHHHHhh
Q 032030           91 ADLLVINKTDLASAIGADLAV----MERDALRMRDGGPFIFAQVGWVIGIIFTLSIT  143 (148)
Q Consensus        91 ADivViNK~DL~~~~~~~l~~----~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~  143 (148)
                      .-++|+||+|+.+.  .++..    +.+.++..  +.+++.+|++++.++++++..+
T Consensus       169 ~iIlVinK~Dll~~--~ev~~~k~~i~~~~~~~--~i~~~~~sa~~~~~v~~~~~~l  221 (418)
T 2qag_C          169 NIIPLIAKADTLTP--EECQQFKKQIMKEIQEH--KIKIYEFPETDDEEENKLVKKI  221 (418)
T ss_dssp             EEEEEEESTTSSCH--HHHHHHHHHHHHHHHHH--TCCCCCCC--------------
T ss_pred             cEEEEEEcccCccH--HHHHHHHHHHHHHHHHc--CCeEEeCCCCCCcCHHHHHHHH
Confidence            37999999999987  66654    34444433  5788999999999998766544

>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=93.92  E-value=0.0093  Score=47.95  Aligned_cols=54  Identities=17%  Similarity=0.054  Sum_probs=35.3

Q ss_pred             eEEEEecCCCCCch----------------hhhHHHHHHHH----HhcCC----CCcEEEEEecCCCCHHHHHHhhhh
Q 032030           92 DLLVINKTDLASAI----------------GADLAVMERDA----LRMRD----GGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus        92 DivViNK~DL~~~~----------------~~~l~~~~~~i----~~~np----~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      -++++||+||..+-                ....+...+++    .++++    ....+.|||+++.|++++|+.+.=
T Consensus       237 iiL~~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~e~a~~fi~~~F~~~~~~~~~~i~~~~TsA~d~~nV~~vF~~v~~  314 (327)
T 3ohm_A          237 VILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKD  314 (327)
T ss_dssp             EEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSCHHHHHHHHHHHHHSSCTTTTSCEEEEECCTTCHHHHHHHHHHHHH
T ss_pred             EEEEEECchhhhhhhccchHhhhchhccCCCCCHHHHHHHHHHHHHhhcccccCCcEEEEEEeecCHHHHHHHHHHHH
Confidence            58999999985420                01334444443    33332    235678999999999999988753

>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=92.57  E-value=0.017  Score=47.74  Aligned_cols=24  Identities=13%  Similarity=-0.244  Sum_probs=19.8

Q ss_pred             CcEEEEEecCCCCHHHHHHhhhhh
Q 032030          123 GPFIFAQVGWVIGIIFTLSITHYI  146 (148)
Q Consensus       123 a~vi~tSa~~g~gi~~l~~~~~~~  146 (148)
                      ...+.|||+++.|++++|+++.-+
T Consensus       359 ~~~~~TSA~d~~nV~~vF~~v~~~  382 (402)
T 1azs_C          359 CYPHFTCAVDTENIRRVFNDCRDI  382 (402)
T ss_dssp             EEEEECCTTCHHHHHHHHHHHHHH
T ss_pred             cEEEEEEeecCcCHHHHHHHHHHH
Confidence            346789999999999999987643

>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=92.57  E-value=0.04  Score=45.93  Aligned_cols=87  Identities=20%  Similarity=0.192  Sum_probs=50.6

Q ss_pred             cCCCEEEEecCCcee---eeeec--------cccCceEEEEEeCCCCCCccc---cCCCCcceeeEEEEecCCCCCchhh
Q 032030           42 FKADLLLCESGGDNL---AANFS--------RELADYIIYIIDVSGGDKIPR---KGGPGITQADLLVINKTDLASAIGA  107 (148)
Q Consensus        42 ~~~D~IliEtsG~~~---~~~~~--------~~~~d~~i~vvDa~~~~~~~~---~~~~qi~~ADivViNK~DL~~~~~~  107 (148)
                      .++|+|+|.|.|...   ...+.        ....|.+++|+|+..+.+...   .+.+.+ ..+.+++||.|.....+.
T Consensus       178 ~~~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~gq~a~~~a~~f~~~~-~~~gVIlTKlD~~a~~G~  256 (433)
T 3kl4_A          178 NKMDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQKAYDLASRFHQAS-PIGSVIITKMDGTAKGGG  256 (433)
T ss_dssp             TTCSEEEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGGGGGGHHHHHHHHHHC-SSEEEEEECGGGCSCHHH
T ss_pred             cCCCEEEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCccchHHHHHHHHHhccc-CCcEEEEecccccccchH
Confidence            479999999999532   11110        012367899999987643211   111111 236899999998765222


Q ss_pred             hHHHHHHHHHhcCCCCcEEEEEecCCCCHH
Q 032030          108 DLAVMERDALRMRDGGPFIFAQVGWVIGII  137 (148)
Q Consensus       108 ~l~~~~~~i~~~np~a~vi~tSa~~g~gi~  137 (148)
                          +......  -+.||.+++.  |++++
T Consensus       257 ----als~~~~--~g~Pi~fig~--Ge~v~  278 (433)
T 3kl4_A          257 ----ALSAVVA--TGATIKFIGT--GEKID  278 (433)
T ss_dssp             ----HHHHHHH--HTCEEEEEEC--CSSSS
T ss_pred             ----HHHHHHH--HCCCEEEEEC--CCChH
Confidence                2222332  2578888885  66654

>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=91.12  E-value=0.038  Score=44.16  Aligned_cols=91  Identities=19%  Similarity=0.081  Sum_probs=52.6

Q ss_pred             CCCEEEEecCCceeee------e-------e---ccccCceEEEEEeCCCCCCc-c------c-cCCCCcceeeEEEEec
Q 032030           43 KADLLLCESGGDNLAA------N-------F---SRELADYIIYIIDVSGGDKI-P------R-KGGPGITQADLLVINK   98 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~------~-------~---~~~~~d~~i~vvDa~~~~~~-~------~-~~~~qi~~ADivViNK   98 (148)
                      .+++.++.|.|..-..      .       .   .-...|.+++++|+...+.. .      . ..+...+  -++|+||
T Consensus       135 ~~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~~~~~~l~~~~~~~~~~--~i~V~nK  212 (360)
T 3t34_A          135 VVNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLATSDAIKISREVDPSGDR--TFGVLTK  212 (360)
T ss_dssp             SCSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGGCHHHHHHHHSCTTCTT--EEEEEEC
T ss_pred             CCCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCCHHHHHHHHHhcccCCC--EEEEEeC
Confidence            4678899999964210      0       0   01246777888876543211 0      1 1122334  7999999


Q ss_pred             CCCCCchhhhHHHHHHHHH--hcCCCCcEEEEEecCCCCHHHH
Q 032030           99 TDLASAIGADLAVMERDAL--RMRDGGPFIFAQVGWVIGIIFT  139 (148)
Q Consensus        99 ~DL~~~~~~~l~~~~~~i~--~~np~a~vi~tSa~~g~gi~~l  139 (148)
                      +|++++  ...  ..+.++  ...-..+++.+|+.++.++++.
T Consensus       213 ~Dl~~~--~~~--~~~~~~~~~~~~~~~~~~v~~~s~~~i~~~  251 (360)
T 3t34_A          213 IDLMDK--GTD--AVEILEGRSFKLKYPWVGVVNRSQADINKN  251 (360)
T ss_dssp             GGGCCT--TCC--SHHHHTTSSSCCSSCCEEECCCCHHHHHTT
T ss_pred             CccCCC--ccc--HHHHHcCccccccCCeEEEEECChHHhccC
Confidence            999875  321  122222  2233467889999988887654

>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=90.84  E-value=0.033  Score=45.03  Aligned_cols=23  Identities=4%  Similarity=-0.386  Sum_probs=19.2

Q ss_pred             CcEEEEEecCCCCHHHHHHhhhh
Q 032030          123 GPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       123 a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      ...+.|||+++.+++.+|+.+.-
T Consensus       302 iy~h~TsA~dt~nv~~vF~~v~~  324 (340)
T 4fid_A          302 VYTNPTNATDGSNIKRVFMLAVD  324 (340)
T ss_dssp             EEEEEECTTCHHHHHHHHHHHHH
T ss_pred             eEEEEEEeeCcHHHHHHHHHHHH
Confidence            45678999999999999987753

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=90.24  E-value=0.33  Score=35.18  Aligned_cols=47  Identities=23%  Similarity=0.217  Sum_probs=24.6

Q ss_pred             hhhhhhh-------hhcCCCeeeeecc-chhhchHHHHHhhhhcCCCEEEEecCCce
Q 032030            7 PEERIRA-------VETGGCPHAAIRE-DISINLGPLEELSNLFKADLLLCESGGDN   55 (148)
Q Consensus         7 ~~~~~~~-------~~~nGcicc~i~~-dl~~~~~al~~l~~~~~~D~IliEtsG~~   55 (148)
                      |+.|++.       +.++||.||..+. ++.  ..++.++....++|+|+||++|..
T Consensus        54 D~~r~~~aGa~~v~~~s~~~~~~~~~~~~~~--~~~~~~ll~~~~~D~vlVEg~~~~  108 (169)
T 1xjc_A           54 DSVRHERAGAVATAVEGDGLLQLHLRRPLWR--LDDVLALYAPLRLDLVLVEGYKQE  108 (169)
T ss_dssp             ---------CSEEEEEETTEEEEEECCSCCC--HHHHHHHHGGGCCSEEEEECCTTS
T ss_pred             hHHHHHhcCCCeEEeccCCEEEEEecccccc--hHHHHHHHHhcCCCEEEEeCCCCC
Confidence            4667664       2478898887631 221  122333333338999999999974

>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=86.28  E-value=0.27  Score=44.05  Aligned_cols=58  Identities=24%  Similarity=0.244  Sum_probs=36.4

Q ss_pred             CCCEEEEecCCceeee-ee--ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCC
Q 032030           43 KADLLLCESGGDNLAA-NF--SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLA  102 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~-~~--~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~  102 (148)
                      ++.+-++.|.|..... ..  .-..+|..|+|+|+.++...+.      .....++  -++++||+|+.
T Consensus        97 ~~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g~~~qt~~~~~~~~~~~~p--~ilviNK~D~~  163 (842)
T 1n0u_A           97 SFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALGERIK--PVVVINKVDRA  163 (842)
T ss_dssp             EEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHHTTCE--EEEEEECHHHH
T ss_pred             CceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHHcCCC--eEEEEECCCcc
Confidence            3556788888864210 00  0135789999999998754221      0122344  59999999986

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=86.28  E-value=0.5  Score=33.20  Aligned_cols=71  Identities=17%  Similarity=0.207  Sum_probs=40.5

Q ss_pred             CCCEEEEecCCceeeeee----cc---ccCceEEEEEeCC-CCCCc-------ccc-------CCCCcceeeEEEEecCC
Q 032030           43 KADLLLCESGGDNLAANF----SR---ELADYIIYIIDVS-GGDKI-------PRK-------GGPGITQADLLVINKTD  100 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~----~~---~~~d~~i~vvDa~-~~~~~-------~~~-------~~~qi~~ADivViNK~D  100 (148)
                      +..+.++++.|.......    ..   ..+|.+++|+|+. .....       ...       ....++  -++|+||+|
T Consensus        90 ~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p--~ilv~nK~D  167 (193)
T 2ged_A           90 GSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGID--ILIACNKSE  167 (193)
T ss_dssp             CTTCSEEEETTCCBSSCCHHHHHHHHGGGEEEEEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCC--EEEEEECTT
T ss_pred             CCeEEEEECCCCchHHHHHHHHHHhhcccCCEEEEEEECCCCchhHHHHHHHHHHHHhhhhhccccCCC--EEEEEEchH
Confidence            345677788886421111    01   1268899999987 32111       000       112344  689999999


Q ss_pred             CCCchhhhHHHHHHHHH
Q 032030          101 LASAIGADLAVMERDAL  117 (148)
Q Consensus       101 L~~~~~~~l~~~~~~i~  117 (148)
                      +.+.  ...+.+.+.++
T Consensus       168 l~~~--~~~~~~~~~l~  182 (193)
T 2ged_A          168 LFTA--RPPSKIKDALE  182 (193)
T ss_dssp             STTC--CCHHHHHHHHH
T ss_pred             hcCC--CCHHHHHHHHH
Confidence            9887  55555555443

>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=86.10  E-value=0.45  Score=37.29  Aligned_cols=89  Identities=17%  Similarity=0.114  Sum_probs=51.9

Q ss_pred             cCCCEEEEecCCcee--ee-eec--------cccCceEEEEEeCCCCCCccc---cCCCCcceeeEEEEecCCCCCchhh
Q 032030           42 FKADLLLCESGGDNL--AA-NFS--------RELADYIIYIIDVSGGDKIPR---KGGPGITQADLLVINKTDLASAIGA  107 (148)
Q Consensus        42 ~~~D~IliEtsG~~~--~~-~~~--------~~~~d~~i~vvDa~~~~~~~~---~~~~qi~~ADivViNK~DL~~~~~~  107 (148)
                      .++|+|+|.|.|...  .. .+.        -...|.+++|+|+..+.+...   .+.+.++ -..+|+||.|....  .
T Consensus       179 ~~~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g~~~~~~~~~~~~~~~-i~gvVlnk~D~~~~--~  255 (297)
T 1j8m_F          179 EKMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLASKFNQASK-IGTIIITKMDGTAK--G  255 (297)
T ss_dssp             TTCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHHHHHHHTCT-TEEEEEECGGGCTT--H
T ss_pred             CCCCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCchHHHHHHHHHHHhhCC-CCEEEEeCCCCCcc--h
Confidence            589999999999764  21 111        124578899999875532211   0111111 14789999998754  2


Q ss_pred             hHHHHHHHHHhcCCCCcEEEEEecCCCCHHHH
Q 032030          108 DLAVMERDALRMRDGGPFIFAQVGWVIGIIFT  139 (148)
Q Consensus       108 ~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l  139 (148)
                        ..+.+....  -+.|+.+++  +|++++.+
T Consensus       256 --g~~~~~~~~--~~~pi~~i~--~Ge~v~dl  281 (297)
T 1j8m_F          256 --GGALSAVAA--TGATIKFIG--TGEKIDEL  281 (297)
T ss_dssp             --HHHHHHHHT--TTCCEEEEE--CSSSTTCE
T ss_pred             --HHHHHHHHH--HCcCEEEEe--CCCChhhc
Confidence              233333332  347887777  46766543

>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=80.31  E-value=1.5  Score=35.78  Aligned_cols=50  Identities=10%  Similarity=0.073  Sum_probs=38.6

Q ss_pred             eEEEEecCC--CC-C-chhhhHHHHHHHHHhcCCCCcEEEEEecC---------------------CCCHHHHHHhh
Q 032030           92 DLLVINKTD--LA-S-AIGADLAVMERDALRMRDGGPFIFAQVGW---------------------VIGIIFTLSIT  143 (148)
Q Consensus        92 DivViNK~D--L~-~-~~~~~l~~~~~~i~~~np~a~vi~tSa~~---------------------g~gi~~l~~~~  143 (148)
                      -+.++||.|  +. + .  ..++++.+++++.+|+++++++||+.                     +.|++.++...
T Consensus       227 ~~y~~Nv~e~~~~~~~~--~~~~~~~~~~~~~~p~~~~v~~sa~~E~~l~~l~~~~~~~~l~~~g~~~gl~~~i~~~  301 (392)
T 1ni3_A          227 VIYLVNMSERDFLRQKN--KYLPKIKKWIDENSPGDTLIPMSVAFEERLTNFTEEEAIEECKKLNTKSMLPKIIVTG  301 (392)
T ss_dssp             EEEEEECCHHHHTTTCC--SSHHHHHHHHHTTSTTCCEEEECHHHHHHHTTSCHHHHHHHHHHTTCCCSHHHHHHHH
T ss_pred             eEEEEEecchhhcccch--HHHHHHHHHHHhcCCCCeEEEEEhHHHHHHhhCCHHHHHHHHHHhCCcccHHHHHHHH
Confidence            489999988  22 1 3  45778888888878889999999985                     57888877654

>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=80.15  E-value=0.44  Score=38.61  Aligned_cols=42  Identities=17%  Similarity=0.276  Sum_probs=29.1

Q ss_pred             eEEEEecCC--CCC---chhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHH
Q 032030           92 DLLVINKTD--LAS---AIGADLAVMERDALRMRDGGPFIFAQVGWVIGII  137 (148)
Q Consensus        92 DivViNK~D--L~~---~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~  137 (148)
                      -+++.||.|  +.+   .  ..++++.++.++.  +++++++||+++.++.
T Consensus       204 vi~v~N~~e~d~~~~~~n--~~~~~v~~~a~~~--g~~vv~iSAk~E~el~  250 (368)
T 2dby_A          204 VIYVANVAEEDLPDGRGN--PQVEAVRRKALEE--GAEVVVVSARLEAELA  250 (368)
T ss_dssp             EEEEEECCGGGTTTCTTC--HHHHHHHHHHHHH--TCEEEEECHHHHHHHH
T ss_pred             eEEeccccHHhhcccchh--hHHHHHHHHHHHc--CCeEEEeechhHHHHH
Confidence            588999997  443   3  4566777776654  3799999998744333

---

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	148
d2qm8a1	323	c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylo	4e-10
d2p67a1	327	c.37.1.10 (A:1-327) LAO/AO transport system kinase	1e-06

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]} Length = 323

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]

 Score = 54.5 bits (130), Expect = 4e-10
 Identities = 19/145 (13%), Positives = 41/145 (28%), Gaps = 5/145 (3%)

Query: 1   MRNGALPEERIRAVETGGCPHAAIREDISINLGPLE--ELSNLFKADLLLCESGGDNLAA 58
           + +                P  +      +     E   L      D++L E+ G   + 
Sbjct: 99  LGDKTRMARLAIDRNAFIRPSPSSGTLGGVAAKTRETMLLCEAAGFDVILVETVGVGQSE 158

Query: 59  NFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVMERDALR 118
               +L D+ + ++    GD++          AD++ +NK D         A        
Sbjct: 159 TAVADLTDFFLVLMLPGAGDELQGIKKGIFELADMIAVNKADDGDGERRASAAASEYRAA 218

Query: 119 MRDGGPFIFAQVGWVIGIIFTLSIT 143
           +    P       W   ++    + 
Sbjct: 219 LHILTP---PSATWTPPVVTISGLH 240

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]} Length = 327

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]

 Score = 44.1 bits (103), Expect = 1e-06
 Identities = 27/126 (21%), Positives = 45/126 (35%), Gaps = 9/126 (7%)

Query: 3   NGALPEERIRAVETGGCPHAAIREDISINLG--------PLEELSNLFKADLLLCESGGD 54
            G++  ++ R  +      A IR   S             L  L      D+++ E+ G 
Sbjct: 98  GGSILGDKTRMNDLARAEAAFIRPVPSSGHLGGASQRARELMLLCEAAGYDVVIVETVGV 157

Query: 55  NLAANFSRELADYIIYIIDVSGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAVME- 113
             +      + D  I +    GGD +       +  ADL+VINK D  +     +A    
Sbjct: 158 GQSETEVARMVDCFISLQIAGGGDDLQGIKKGLMEVADLIVINKDDGDNHTNVAIARHMY 217

Query: 114 RDALRM 119
             AL +
Sbjct: 218 ESALHI 223

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	148
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	99.86
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	99.83
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	99.82
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	99.17
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	98.74
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	98.67
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	98.66
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	98.51
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	98.51
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	98.5
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	98.44
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	98.38
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	98.35
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	98.32
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	98.3
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	98.27
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	98.23
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	98.23
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	98.19
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	98.16
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.07
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	98.07
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	98.06
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	98.05
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	98.03
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	98.01
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	97.98
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	97.97
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	97.95
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	97.95
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	97.92
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	97.9
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	97.89
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	97.88
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	97.86
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	97.85
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	97.84
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	97.82
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	97.8
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	97.78
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	97.78
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	97.76
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	97.76
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	97.74
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	97.73
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	97.73
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	97.72
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	97.72
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	97.72
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	97.72
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	97.71
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	97.71
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	97.7
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	97.69
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	97.69
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	97.67
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	97.66
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	97.63
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	97.63
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	97.62
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	97.61
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	97.6
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	97.55
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	97.54
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	97.53
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	97.46
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	97.43
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	97.42
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	97.4
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	97.24
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	97.18
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	97.02
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	96.87
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	96.86
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	96.79
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	96.48
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	96.18
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	95.92
d2fh5b1	207	Signal recognition particle receptor beta-subunit	94.89
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	94.37
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	94.33
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	94.05
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	92.13
d1j8yf2	211	GTPase domain of the signal sequence recognition p	91.97
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	91.83
d1vmaa2	213	GTPase domain of the signal recognition particle r	90.62
d2qy9a2	211	GTPase domain of the signal recognition particle r	89.48
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	89.23
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	88.86
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	80.52

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=99.86  E-value=2.3e-22  Score=161.23  Aligned_cols=139  Identities=17%  Similarity=0.123  Sum_probs=105.2

Q ss_pred             CCCChhhhhhhhhcCCCeeeeeccchhh--------chHHHHHhhhhcCCCEEEEecCCceeeeeeccccCceEEEEEeC
Q 032030            3 NGALPEERIRAVETGGCPHAAIREDISI--------NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDV   74 (148)
Q Consensus         3 ~~~~~~~~~~~~~~nGcicc~i~~dl~~--------~~~al~~l~~~~~~D~IliEtsG~~~~~~~~~~~~d~~i~vvDa   74 (148)
                      .|++.++|+||.+...+.+|++|+..+.        .......+++..++|+|||||+|++++.......+|.+++|+.+
T Consensus        95 gg~llgdr~rm~~~~~~~~~~ir~~~~~~~~gg~~~~~~~~i~~~~~~g~d~iiiETVG~gq~e~~~~~~~D~~v~v~~p  174 (323)
T d2qm8a1          95 GGSILGDKTRMARLAIDRNAFIRPSPSSGTLGGVAAKTRETMLLCEAAGFDVILVETVGVGQSETAVADLTDFFLVLMLP  174 (323)
T ss_dssp             CCCSSCCGGGSTTGGGCTTEEEECCCCCSSHHHHHHHHHHHHHHHHHTTCCEEEEEECSSSSCHHHHHTTSSEEEEEECS
T ss_pred             HhccccchhhHHHHhcccceeeccccccccccchhHHHHHHHHhhccCCCCeEEEeehhhhhhhhhhhcccceEEEEeec
Confidence            6899999999988777777777765543        22333445666799999999999999876667889999999999


Q ss_pred             CCCCCccccCCCCcceeeEEEEecCCCCCchhhhHHH-HH----HHHHhc-----CCCCcEEEEEecCCCCHHHHHHhh
Q 032030           75 SGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAV-ME----RDALRM-----RDGGPFIFAQVGWVIGIIFTLSIT  143 (148)
Q Consensus        75 ~~~~~~~~~~~~qi~~ADivViNK~DL~~~~~~~l~~-~~----~~i~~~-----np~a~vi~tSa~~g~gi~~l~~~~  143 (148)
                      ..|+++|..++++++.||++|+||+|+.+.  .+..+ +.    ..++..     .+..||+.+||++|.|+++|++++
T Consensus       175 ~~GD~iQ~~k~gilE~aDi~vvNKaD~~~~--~~~~~~~~~~~~~~l~~~~~~~~~~~p~V~~~Sa~~g~Gi~el~~~I  251 (323)
T d2qm8a1         175 GAGDELQGIKKGIFELADMIAVNKADDGDG--ERRASAAASEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRI  251 (323)
T ss_dssp             CC------CCTTHHHHCSEEEEECCSTTCC--HHHHHHHHHHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHH
T ss_pred             cchhhhhhhhhhHhhhhheeeEeccccccc--hHHHHHHHHHHHHHhhcccccccCCCCceEEEEecCCCCHHHHHHHH
Confidence            999999999999999999999999999887  54332 22    222211     256799999999999999999876

>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=99.83  E-value=3.2e-22  Score=152.38  Aligned_cols=125  Identities=22%  Similarity=0.291  Sum_probs=93.3

Q ss_pred             cCCCeeeeeccchhhchHHHHH-hhh-hcCCCEEEEecCCceeeee----e-cc------ccCceEEEEEeCCCCCCccc
Q 032030           16 TGGCPHAAIREDISINLGPLEE-LSN-LFKADLLLCESGGDNLAAN----F-SR------ELADYIIYIIDVSGGDKIPR   82 (148)
Q Consensus        16 ~nGcicc~i~~dl~~~~~al~~-l~~-~~~~D~IliEtsG~~~~~~----~-~~------~~~d~~i~vvDa~~~~~~~~   82 (148)
                      .|||+||+.++++...+..+.+ +.. ..+||+|+||+||++.+..    + .+      ...+.+++|||+.++++...
T Consensus        60 ~~gcicc~~~~~~~~~l~~~~~~~~~~~~~~d~iiIE~sG~~~p~~l~~~~~~~~~~~~~~~l~~vi~vVDa~~~~~~~~  139 (222)
T d1nija1          60 TNGCICCSRSNELEDALLDLLDNLDKGNIQFDRLVIECTGMADPGPIIQTFFSHEVLCQRYLLDGVIALVDAVHADEQMN  139 (222)
T ss_dssp             TTSCEEECTTSCHHHHHHHHHHHHHHTSCCCSEEEEEEETTCCHHHHHHHHHHSHHHHHHEEEEEEEEEEETTTHHHHHH
T ss_pred             cCCcceeccchhHHHHHHHHHHHHhhccCCcceeEEeecccchhhHHHHHHHhhhcccccccccchhhhhhhhhhhhhhh
Confidence            6999999999999655443322 221 2379999999999985421    1 11      12466799999988865432


Q ss_pred             ---cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030           83 ---KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus        83 ---~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                         .+..|+++||++|+||+|++++  .  +++++.++++||.++|+.+|.. ..+++.|++.-.|
T Consensus       140 ~~~~~~~Qi~~AD~ivlNK~Dl~~~--~--~~~~~~l~~lNP~a~Ii~~~~g-~v~~~~ll~~~~~  200 (222)
T d1nija1         140 QFTIAQSQVGYADRILLTKTDVAGE--A--EKLHERLARINARAPVYTVTHG-DIDLGLLFNTNGF  200 (222)
T ss_dssp             HCHHHHHHHHTCSEEEEECTTTCSC--T--HHHHHHHHHHCSSSCEEECCSS-CCCGGGGSCCCTT
T ss_pred             hhHHHHHHHHhCCcccccccccccH--H--HHHHHHHHHHhCCCeEEEeeCC-ccCHHHhhCCCCC
Confidence               2345899999999999999976  4  5789999999999999999865 6888888766554

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=99.82  E-value=3.4e-21  Score=154.63  Aligned_cols=139  Identities=21%  Similarity=0.161  Sum_probs=94.4

Q ss_pred             CCCChhhhhhhhhcCCCeeeeeccchhh--------chHHHHHhhhhcCCCEEEEecCCceeeeeeccccCceEEEEEeC
Q 032030            3 NGALPEERIRAVETGGCPHAAIREDISI--------NLGPLEELSNLFKADLLLCESGGDNLAANFSRELADYIIYIIDV   74 (148)
Q Consensus         3 ~~~~~~~~~~~~~~nGcicc~i~~dl~~--------~~~al~~l~~~~~~D~IliEtsG~~~~~~~~~~~~d~~i~vvDa   74 (148)
                      .|++.++|+||.+...+.++++|+..+.        .......+++..++|+|+|||+|+++........+|.+++|+++
T Consensus        98 ggailgdr~rm~~~~~~~~~~ir~~~~~g~lgg~~~~~~~~~~~~~~~g~d~iliEtvG~gq~e~~i~~~aD~~l~v~~P  177 (327)
T d2p67a1          98 GGSILGDKTRMNDLARAEAAFIRPVPSSGHLGGASQRARELMLLCEAAGYDVVIVETVGVGQSETEVARMVDCFISLQIA  177 (327)
T ss_dssp             -----------CTTTTCTTEEEEEECC-----CHHHHHHHHHHHHHHTTCSEEEEEEECCTTHHHHHHTTCSEEEEEECC
T ss_pred             ccccccchhHHHHhcccccccccccccccccccchhhhhHHHHHHHhcCCCeEEEeeccccccchhhhhccceEEEEecC
Confidence            5899999999998888999998865543        22334456667799999999999998754445789999999999


Q ss_pred             CCCCCccccCCCCcceeeEEEEecCCCCCchhhhHHH----HHHHHHhcC-----CCCcEEEEEecCCCCHHHHHHhh
Q 032030           75 SGGDKIPRKGGPGITQADLLVINKTDLASAIGADLAV----MERDALRMR-----DGGPFIFAQVGWVIGIIFTLSIT  143 (148)
Q Consensus        75 ~~~~~~~~~~~~qi~~ADivViNK~DL~~~~~~~l~~----~~~~i~~~n-----p~a~vi~tSa~~g~gi~~l~~~~  143 (148)
                      ..|++++..+...++.||++|+||+|+.+.  .....    +...++-..     +..||+.|||++|.|+++|++.+
T Consensus       178 ~~Gd~iq~~k~gi~e~aDi~VvNKaD~~~~--~~~~~~~~~~~~al~~~~~~~~~w~p~V~~~SA~~g~Gi~eL~~~I  253 (327)
T d2p67a1         178 GGGDDLQGIKKGLMEVADLIVINKDDGDNH--TNVAIARHMYESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAI  253 (327)
T ss_dssp             ------CCCCHHHHHHCSEEEECCCCTTCH--HHHHHHHHHHHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHH
T ss_pred             CCchhhhhhchhhhccccEEEEEeecccch--HHHHHHHHHHHHHhhhcccCCCCCcceeEEEEeeCCCCHHHHHHHH
Confidence            999999988888999999999999999876  44332    333333222     34689999999999999999876

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=99.17  E-value=1.3e-12  Score=97.16  Aligned_cols=100  Identities=13%  Similarity=0.063  Sum_probs=69.3

Q ss_pred             cCCCEEEEecCCceee-------eee-ccccCceEEEEEeCCCCCCcccc---------CCCCcceeeEEEEecCCCCCc
Q 032030           42 FKADLLLCESGGDNLA-------ANF-SRELADYIIYIIDVSGGDKIPRK---------GGPGITQADLLVINKTDLASA  104 (148)
Q Consensus        42 ~~~D~IliEtsG~~~~-------~~~-~~~~~d~~i~vvDa~~~~~~~~~---------~~~qi~~ADivViNK~DL~~~  104 (148)
                      ...|++++++.|....       ..+ .....+..+.++|+..+.+.+..         ...|+..++++|+||+|+.+.
T Consensus        93 ~~~~~~~id~~g~~~~~~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~~~~~~~~ivvinK~D~~~~  172 (244)
T d1yrba1          93 KENDYVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEILKKPNDYCFVRFFALLIDLRLGATTIPALNKVDLLSE  172 (244)
T ss_dssp             HHCSEEEEECCSSHHHHHHSHHHHHHHHTSSSCEEEEEECGGGCCSHHHHHHHHHHHHHHHHHHTSCEEEEECCGGGCCH
T ss_pred             cccceeeeccccchhHHHHHHHHHHHHhhccCceEEEEeccccccCchhHhhHHHHHHHHHHHhCCCceeeeeccccccH
Confidence            3789999999998532       111 11234567999998776542211         012577889999999999987


Q ss_pred             hhhhHHHHHHH----------------------------HHhcCCCCcEEEEEecCCCCHHHHHHhh
Q 032030          105 IGADLAVMERD----------------------------ALRMRDGGPFIFAQVGWVIGIIFTLSIT  143 (148)
Q Consensus       105 ~~~~l~~~~~~----------------------------i~~~np~a~vi~tSa~~g~gi~~l~~~~  143 (148)
                        .+.+.+...                            +++..+..|++++||++|+|+++|++++
T Consensus       173 --~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vSa~~geGi~~L~~~l  237 (244)
T d1yrba1         173 --EEKERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLA  237 (244)
T ss_dssp             --HHHHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHH
T ss_pred             --HHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHH
Confidence              554433221                            2334567899999999999999999875

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=98.74  E-value=5.1e-09  Score=75.19  Aligned_cols=77  Identities=17%  Similarity=0.141  Sum_probs=54.2

Q ss_pred             cCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHh----c--CCCCcEEEEEec
Q 032030           64 LADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADLAVMERDALR----M--RDGGPFIFAQVG  131 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~----~--np~a~vi~tSa~  131 (148)
                      ..|..+.++|+..+...+.      .....+|  -++|+||+|+++.  ++.+...+..+.    .  .+..|++++||+
T Consensus        82 ~~d~~ilv~d~~~g~~~~~~~~~~~~~~~~~p--~iiv~NKiD~~~~--~~~~~~~~~~~~~~~~~~~~~~~~iv~iSA~  157 (179)
T d1wb1a4          82 IIDLALIVVDAKEGPKTQTGEHMLILDHFNIP--IIVVITKSDNAGT--EEIKRTEMIMKSILQSTHNLKNSSIIPISAK  157 (179)
T ss_dssp             SCCEEEEEEETTTCSCHHHHHHHHHHHHTTCC--BCEEEECTTSSCH--HHHHHHHHHHHHHHHHSSSGGGCCEEECCTT
T ss_pred             hccccccccccccccchhhhhhhhhhhhcCCc--ceeccccccccCH--HHHHHHHHHHHHHHHHhhcCCCCeEEEEEcc
Confidence            4688899999998754211      1112345  6899999999987  665444333332    1  245799999999


Q ss_pred             CCCCHHHHHHhhh
Q 032030          132 WVIGIIFTLSITH  144 (148)
Q Consensus       132 ~g~gi~~l~~~~~  144 (148)
                      +|.|+++|++++.
T Consensus       158 ~g~gi~eL~~~I~  170 (179)
T d1wb1a4         158 TGFGVDELKNLII  170 (179)
T ss_dssp             TCTTHHHHHHHHH
T ss_pred             CCcCHHHHHHHHH
Confidence            9999999998863

>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=98.67  E-value=1.2e-08  Score=72.63  Aligned_cols=96  Identities=9%  Similarity=0.008  Sum_probs=67.4

Q ss_pred             CCCEEEEecCCceeeee-----e------ccccCceEEEEEeCCCCCCc-----c---ccCCCCcceeeEEEEecCCCCC
Q 032030           43 KADLLLCESGGDNLAAN-----F------SRELADYIIYIIDVSGGDKI-----P---RKGGPGITQADLLVINKTDLAS  103 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~-----~------~~~~~d~~i~vvDa~~~~~~-----~---~~~~~qi~~ADivViNK~DL~~  103 (148)
                      +..+.++.|.|......     +      .-..+|.+++|+|+.++...     .   .......+  -++|+||+|+.+
T Consensus        52 ~~~~~~~DtpG~~~~~~~~~~~~~~~~~~~~~~ad~il~v~D~~~~~~~~~~~i~~~l~~~~~~~p--iilv~NK~Dl~~  129 (178)
T d1wf3a1          52 RRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVP--ILLVGNKLDAAK  129 (178)
T ss_dssp             TEEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSEEEEEEETTSCCCHHHHHHHHHHGGGTTTSC--EEEEEECGGGCS
T ss_pred             eeeeeecccccccccccccchhcccccccccccccceeeeechhhhhcccccchhhheeccccchh--hhhhhccccccc
Confidence            45678888888743210     0      01357899999999876431     1   11122344  588999999987


Q ss_pred             chhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          104 AIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       104 ~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .  .+  ...+.+++..+..+++++||++|.|+++|++++.
T Consensus       130 ~--~~--~~~~~~~~~~~~~~~~~iSA~~~~gi~~L~~~i~  166 (178)
T d1wf3a1         130 Y--PE--EAMKAYHELLPEAEPRMLSALDERQVAELKADLL  166 (178)
T ss_dssp             S--HH--HHHHHHHHTSTTSEEEECCTTCHHHHHHHHHHHH
T ss_pred             C--HH--HHHHHHHhhcccCceEEEecCCCCCHHHHHHHHH
Confidence            6  43  4556677778888999999999999999999874

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=98.66  E-value=1.4e-08  Score=73.14  Aligned_cols=76  Identities=11%  Similarity=0.048  Sum_probs=55.4

Q ss_pred             CceEEEEEeCCCCCCcc-----c-cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHh---cCCCCcEEEEEecCCCC
Q 032030           65 ADYIIYIIDVSGGDKIP-----R-KGGPGITQADLLVINKTDLASAIGADLAVMERDALR---MRDGGPFIFAQVGWVIG  135 (148)
Q Consensus        65 ~d~~i~vvDa~~~~~~~-----~-~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~---~np~a~vi~tSa~~g~g  135 (148)
                      .|.+++++|+.++..-.     . .....++  -++|+||+|+.++  .+++...+.+++   .++..+++++||++|.|
T Consensus       106 ~~~vi~viD~~~~~~~~~~~~~~~l~~~~~p--iivv~NK~D~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~SA~~~~g  181 (195)
T d1svia_         106 LKAVVQIVDLRHAPSNDDVQMYEFLKYYGIP--VIVIATKADKIPK--GKWDKHAKVVRQTLNIDPEDELILFSSETKKG  181 (195)
T ss_dssp             EEEEEEEEETTSCCCHHHHHHHHHHHHTTCC--EEEEEECGGGSCG--GGHHHHHHHHHHHHTCCTTSEEEECCTTTCTT
T ss_pred             hhhhhhhhhccccccccccccccccccccCc--ceechhhccccCH--HHHHHHHHHHHHHhcccCCCCEEEEeCCCCCC
Confidence            47789999998764311     0 1112344  6999999999987  776665554443   46888999999999999


Q ss_pred             HHHHHHhhh
Q 032030          136 IIFTLSITH  144 (148)
Q Consensus       136 i~~l~~~~~  144 (148)
                      +++|++++.
T Consensus       182 i~el~~~i~  190 (195)
T d1svia_         182 KDEAWGAIK  190 (195)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999999875

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.51  E-value=6.1e-08  Score=67.19  Aligned_cols=96  Identities=14%  Similarity=0.088  Sum_probs=63.8

Q ss_pred             CCCEEEEecCCceee-----eee--c-----cccCceEEEEEeCCCCCCccc--cCCCCcceeeEEEEecCCCCCchhhh
Q 032030           43 KADLLLCESGGDNLA-----ANF--S-----RELADYIIYIIDVSGGDKIPR--KGGPGITQADLLVINKTDLASAIGAD  108 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-----~~~--~-----~~~~d~~i~vvDa~~~~~~~~--~~~~qi~~ADivViNK~DL~~~~~~~  108 (148)
                      +..+.++.|.|....     ...  .     -..+|.+++|+|+.++.....  .........-++++||+|+.+.  ..
T Consensus        47 ~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~~~~ad~ii~v~d~~~~~~~~~~~~~~~~~~~~~i~~~~k~d~~~~--~~  124 (160)
T d1xzpa2          47 GILFRIVDTAGVRSETNDLVERLGIERTLQEIEKADIVLFVLDASSPLDEEDRKILERIKNKRYLVVINKVDVVEK--IN  124 (160)
T ss_dssp             TEEEEEEESSCCCSSCCTTCCCCCHHHHHHHHHHCSEEEEEEETTSCCCHHHHHHHHHHTTSSEEEEEEECSSCCC--CC
T ss_pred             CeeEEeccccccccCCccHHHHHHHHHHHHHHHhCCEEEEEEeCCCCcchhhhhhhhhcccccceeeeeeccccch--hh
Confidence            456777788886321     000  0     024688999999987643111  0000111225889999999998  66


Q ss_pred             HHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhh
Q 032030          109 LAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSIT  143 (148)
Q Consensus       109 l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~  143 (148)
                      .+.+.+   .+.+..+++++||++|.|+++|++++
T Consensus       125 ~~~~~~---~~~~~~~~~~vSA~~g~gi~~L~~~I  156 (160)
T d1xzpa2         125 EEEIKN---KLGTDRHMVKISALKGEGLEKLEESI  156 (160)
T ss_dssp             HHHHHH---HHTCSTTEEEEEGGGTCCHHHHHHHH
T ss_pred             hHHHHH---HhCCCCcEEEEECCCCCCHHHHHHHH
Confidence            555554   44577899999999999999999876

>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=98.51  E-value=7.7e-08  Score=68.30  Aligned_cols=99  Identities=15%  Similarity=0.177  Sum_probs=66.2

Q ss_pred             CCCEEEEecCCceeee--------ee--ccccCceEEEEEeCCCCCCc-----ccc---CC-CCcceeeEEEEecCCCCC
Q 032030           43 KADLLLCESGGDNLAA--------NF--SRELADYIIYIIDVSGGDKI-----PRK---GG-PGITQADLLVINKTDLAS  103 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~--------~~--~~~~~d~~i~vvDa~~~~~~-----~~~---~~-~qi~~ADivViNK~DL~~  103 (148)
                      +..+.++.|.|.....        .+  ....++.++.++|+......     ...   .. .....--++|+||+|+.+
T Consensus        48 ~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~D~~~  127 (180)
T d1udxa2          48 EERFTLADIPGIIEGASEGKGLGLEFLRHIARTRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLE  127 (180)
T ss_dssp             SCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSSEEEEEEETTSCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSC
T ss_pred             CCeEEEcCCCeeecCchHHHHHHHHHHHHHHhhhhhhhhcccccccccchhhhhhhhhccccccchhhhhhhhhhhhhhh
Confidence            4567788898863210        00  11356778889997654210     000   00 011111589999999999


Q ss_pred             chhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          104 AIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       104 ~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +  .+.+.+.+.++.  .+.+++++||++|.|+++|++.+.=
T Consensus       128 ~--~~~~~~~~~~~~--~~~~~~~iSA~tg~gid~L~~~i~~  165 (180)
T d1udxa2         128 E--EAVKALADALAR--EGLAVLPVSALTGAGLPALKEALHA  165 (180)
T ss_dssp             H--HHHHHHHHHHHT--TTSCEEECCTTTCTTHHHHHHHHHH
T ss_pred             H--HHHHHHHHHHHh--cCCeEEEEEcCCCCCHHHHHHHHHH
Confidence            8  888888887774  5679999999999999999998753

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=98.50  E-value=9e-08  Score=67.99  Aligned_cols=79  Identities=19%  Similarity=0.174  Sum_probs=56.2

Q ss_pred             cCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcC---CCCcEEEEEecCCC
Q 032030           64 LADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMR---DGGPFIFAQVGWVI  134 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~n---p~a~vi~tSa~~g~  134 (148)
                      .+|.+++++|+..+..-..      ......+  -++|+||+|+.......++.+.+.+++..   +..|++++||++|.
T Consensus        91 ~~dvii~v~d~~~~~~~~~~~~~~~~~~~~~~--~i~v~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~vSa~~g~  168 (186)
T d1mkya2          91 KADVVVIVLDATQGITRQDQRMAGLMERRGRA--SVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLIFTSADKGW  168 (186)
T ss_dssp             HCSEEEEEEETTTCCCHHHHHHHHHHHHTTCE--EEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCEEECBTTTTB
T ss_pred             cCCEEEEeecccccchhhHHHHHHHHHHcCCc--eeeeccchhhhcchhhhhhhHHHHHHHHhcccCCCeEEEEeCCCCC
Confidence            4688999999987744111      1112344  59999999998763334556666665433   56799999999999


Q ss_pred             CHHHHHHhhh
Q 032030          135 GIIFTLSITH  144 (148)
Q Consensus       135 gi~~l~~~~~  144 (148)
                      |+++|++++.
T Consensus       169 gv~~L~~~i~  178 (186)
T d1mkya2         169 NIDRMIDAMN  178 (186)
T ss_dssp             SHHHHHHHHH
T ss_pred             CHHHHHHHHH
Confidence            9999999874

>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=98.44  E-value=1.8e-07  Score=65.79  Aligned_cols=77  Identities=17%  Similarity=0.127  Sum_probs=53.2

Q ss_pred             cCceEEEEEeCCCCCCcc-------c----cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHH--hc-CCCCcEEEEE
Q 032030           64 LADYIIYIIDVSGGDKIP-------R----KGGPGITQADLLVINKTDLASAIGADLAVMERDAL--RM-RDGGPFIFAQ  129 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~-------~----~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~--~~-np~a~vi~tS  129 (148)
                      .+|.+++++|+.......       .    .....++  -++|.||+|+.++  ...+.+.+.+.  .. ....+++++|
T Consensus        83 ~~~~ii~v~d~~d~~s~~~~~~~~~~~~~~~~~~~~p--illv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~S  158 (176)
T d1fzqa_          83 NTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVP--VLIFANKQDLLTA--APASEIAEGLNLHTIRDRVWQIQSCS  158 (176)
T ss_dssp             TCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGGTTCC--EEEEEECTTSTTC--CCHHHHHHHTTGGGCCSSCEEEEECC
T ss_pred             ccceeEEeeccccccchhhhhhhhhhhhhhhccCCCe--EEEEEEecccccc--ccHHHHHHHHHHHHHHhcCCEEEEEe
Confidence            468889999987653211       0    0112344  5788999999887  66556655543  11 2345799999


Q ss_pred             ecCCCCHHHHHHhhh
Q 032030          130 VGWVIGIIFTLSITH  144 (148)
Q Consensus       130 a~~g~gi~~l~~~~~  144 (148)
                      |++|.|++++|+|+.
T Consensus       159 A~tg~gv~e~~~~l~  173 (176)
T d1fzqa_         159 ALTGEGVQDGMNWVC  173 (176)
T ss_dssp             TTTCTTHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHH
Confidence            999999999999874

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=98.38  E-value=7.2e-08  Score=67.92  Aligned_cols=75  Identities=17%  Similarity=0.115  Sum_probs=50.3

Q ss_pred             cCceEEEEEeCCCCCCcc-----c-cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHH
Q 032030           64 LADYIIYIIDVSGGDKIP-----R-KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGII  137 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~-----~-~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~  137 (148)
                      .+|.++.++|+.++....     . ......+  -++|+||+|+.++  .+.+...+..+ . +..+++++||++|.|++
T Consensus        80 ~ad~i~~~~~~~~~~~~~~~~~~~~l~~~~~p--viiv~NK~Dl~~~--~~~~~~~~~~~-~-~~~~~i~iSAk~g~gid  153 (171)
T d1mkya1          80 EADLVLFVVDGKRGITKEDESLADFLRKSTVD--TILVANKAENLRE--FEREVKPELYS-L-GFGEPIPVSAEHNINLD  153 (171)
T ss_dssp             TCSEEEEEEETTTCCCHHHHHHHHHHHHHTCC--EEEEEESCCSHHH--HHHHTHHHHGG-G-SSCSCEECBTTTTBSHH
T ss_pred             cCcEEEEeeccccccccccccccccccccccc--ccccchhhhhhhh--hhhHHHHHHHh-c-CCCCeEEEecCCCCCHH
Confidence            578889999987664311     0 0111233  5899999999866  44333333333 3 34577999999999999


Q ss_pred             HHHHhhh
Q 032030          138 FTLSITH  144 (148)
Q Consensus       138 ~l~~~~~  144 (148)
                      +|++++.
T Consensus       154 ~L~~~i~  160 (171)
T d1mkya1         154 TMLETII  160 (171)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9999875

>d1kk1a3 c.37.1.8 (A:6-200) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Archaeon Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

Probab=98.35  E-value=3e-07  Score=66.41  Aligned_cols=95  Identities=14%  Similarity=0.111  Sum_probs=60.9

Q ss_pred             EEEEecCCceee-eee--ccccCceEEEEEeCCCCCCccc-c------CCCCcceeeEEEEecCCCCCchhhhH----HH
Q 032030           46 LLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDKIPR-K------GGPGITQADLLVINKTDLASAIGADL----AV  111 (148)
Q Consensus        46 ~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~~~~-~------~~~qi~~ADivViNK~DL~~~~~~~l----~~  111 (148)
                      +.+|.+.|-... ...  .-..+|..+.++|+..+...+. .      ....++ --++++||+|+.++  .+.    +.
T Consensus        80 ~~~iDtPGh~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~~~~-~iiv~inK~D~~d~--~~~~~~~~~  156 (195)
T d1kk1a3          80 VSFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIGQK-NIIIAQNKIELVDK--EKALENYRQ  156 (195)
T ss_dssp             EEEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHTCC-CEEEEEECGGGSCH--HHHHHHHHH
T ss_pred             EeeeccchhhhhhHHhhcccccccccccccchhhhhhhhhhHHHHHHHHHhcCc-cceeeeecccchhh--HHHHHHHHH
Confidence            667788884311 000  1135789999999988743211 0      000122 02678999999987  433    34


Q ss_pred             HHHHHHhcC-CCCcEEEEEecCCCCHHHHHHhh
Q 032030          112 MERDALRMR-DGGPFIFAQVGWVIGIIFTLSIT  143 (148)
Q Consensus       112 ~~~~i~~~n-p~a~vi~tSa~~g~gi~~l~~~~  143 (148)
                      +.+.++..+ ...|++++||++|.|+++|++.+
T Consensus       157 ~~~~~~~~~~~~~~iIpiSA~~G~ni~~Ll~~I  189 (195)
T d1kk1a3         157 IKEFIEGTVAENAPIIPISALHGANIDVLVKAI  189 (195)
T ss_dssp             HHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHH
T ss_pred             HHHHhccccCCCCeEEEEECCCCCCHHHHHHHH
Confidence            555555544 35799999999999999999865

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=98.32  E-value=4.2e-07  Score=66.31  Aligned_cols=77  Identities=18%  Similarity=0.139  Sum_probs=51.7

Q ss_pred             cCceEEEEEeCCCCC-Ccccc------CCCCcceeeEEEEecCCCCCchhhhHHH----HHHHHHhcC-CCCcEEEEEec
Q 032030           64 LADYIIYIIDVSGGD-KIPRK------GGPGITQADLLVINKTDLASAIGADLAV----MERDALRMR-DGGPFIFAQVG  131 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~-~~~~~------~~~qi~~ADivViNK~DL~~~~~~~l~~----~~~~i~~~n-p~a~vi~tSa~  131 (148)
                      .+|..+.|+|+.++. ..+..      ....++ --+|++||+|+.++  .+...    +.+.++..+ ...|++++||+
T Consensus       109 ~ad~ailvVda~~gi~~~~t~e~~~~~~~~~i~-~iIV~vNK~Dl~~~--~~~~~~~~~~~~~l~~~~~~~~p~ipiSA~  185 (205)
T d2qn6a3         109 LMDGAILVVAANEPFPQPQTREHFVALGIIGVK-NLIIVQNKVDVVSK--EEALSQYRQIKQFTKGTWAENVPIIPVSAL  185 (205)
T ss_dssp             CCSEEEEEEETTSCSSCHHHHHHHHHHHHTTCC-CEEEEEECGGGSCH--HHHHHHHHHHHHHHTTSTTTTCCEEECBTT
T ss_pred             ccccccccccccccccchhHHHHHHHHHHcCCc-eeeeccccCCCccc--hHHHHHHHHHHHHhccccCCCCeEEEEeCC
Confidence            579999999999874 21110      000111 12667999999987  54433    444444444 35799999999


Q ss_pred             CCCCHHHHHHhh
Q 032030          132 WVIGIIFTLSIT  143 (148)
Q Consensus       132 ~g~gi~~l~~~~  143 (148)
                      +|.|+++|++.+
T Consensus       186 ~g~nI~~L~e~i  197 (205)
T d2qn6a3         186 HKINIDSLIEGI  197 (205)
T ss_dssp             TTBSHHHHHHHH
T ss_pred             CCCChHHHHHHH
Confidence            999999999765

>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=98.30  E-value=8.8e-07  Score=62.70  Aligned_cols=77  Identities=14%  Similarity=0.122  Sum_probs=51.7

Q ss_pred             cCceEEEEEeCCCCCCcc-------c-c---CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHH--hcC-CCCcEEEEE
Q 032030           64 LADYIIYIIDVSGGDKIP-------R-K---GGPGITQADLLVINKTDLASAIGADLAVMERDAL--RMR-DGGPFIFAQ  129 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~-------~-~---~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~--~~n-p~a~vi~tS  129 (148)
                      .+|.+++++|..+.....       . .   .....+  -++|.||+|+.+.  ...+++.+.+.  ... ...+++++|
T Consensus        84 ~~~~ii~v~d~~d~~s~~~~~~~l~~~~~~~~~~~~p--iliv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~e~S  159 (182)
T d1moza_          84 DTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAA--LLVFANKQDQPGA--LSASEVSKELNLVELKDRSWSIVASS  159 (182)
T ss_dssp             TEEEEEEEEETTCTTTHHHHHHHHHHHTTSSTTSSCE--EEEEEECTTSTTC--CCHHHHHHHTTTTTCCSSCEEEEEEB
T ss_pred             cceeEEEEeeecccccchhHHHHHHHHHHhhccCCcc--eEEEEEeeccccc--cCHHHHHHHHHHHHHhhCCCEEEEEE
Confidence            467789999987664311       1 0   112344  5788899999875  44445555432  222 245799999


Q ss_pred             ecCCCCHHHHHHhhh
Q 032030          130 VGWVIGIIFTLSITH  144 (148)
Q Consensus       130 a~~g~gi~~l~~~~~  144 (148)
                      |++|+|++++++++.
T Consensus       160 A~~g~gv~e~~~~l~  174 (182)
T d1moza_         160 AIKGEGITEGLDWLI  174 (182)
T ss_dssp             GGGTBTHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHH
Confidence            999999999999874

>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=98.27  E-value=7.7e-07  Score=62.62  Aligned_cols=77  Identities=21%  Similarity=0.191  Sum_probs=51.9

Q ss_pred             cCceEEEEEeCCCCCCcc-------c----cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHH--HhcCC-CCcEEEEE
Q 032030           64 LADYIIYIIDVSGGDKIP-------R----KGGPGITQADLLVINKTDLASAIGADLAVMERDA--LRMRD-GGPFIFAQ  129 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~-------~----~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i--~~~np-~a~vi~tS  129 (148)
                      .++.+++++|+.......       .    ......+  -++|.||+|+.+.  .....+.+.+  +.+.+ ..+++++|
T Consensus        79 ~~~~ii~v~D~s~~~~~~~~~~~l~~~~~~~~~~~~p--iiiv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~e~S  154 (173)
T d1e0sa_          79 GTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAI--ILIFANKQDLPDA--MKPHEIQEKLGLTRIRDRNWYVQPSC  154 (173)
T ss_dssp             TCCEEEEEEETTCGGGHHHHHHHHHHHHTSGGGTTCE--EEEEEECTTSTTC--CCHHHHHHHTTGGGCCSSCEEEEECB
T ss_pred             ccceEEEEEecccchhHHHHHHHHHHHhhhcccccce--eeeeeeccccccc--ccHHHHHHHHHHHHHHhCCCEEEEee
Confidence            568889999987654311       0    0112344  5899999999875  4444444443  22322 45789999


Q ss_pred             ecCCCCHHHHHHhhh
Q 032030          130 VGWVIGIIFTLSITH  144 (148)
Q Consensus       130 a~~g~gi~~l~~~~~  144 (148)
                      |++|+|++|+|+|+.
T Consensus       155 A~tg~gv~e~~~~l~  169 (173)
T d1e0sa_         155 ATSGDGLYEGLTWLT  169 (173)
T ss_dssp             TTTTBTHHHHHHHHH
T ss_pred             CCCCcCHHHHHHHHH
Confidence            999999999999974

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=98.23  E-value=2.2e-07  Score=66.03  Aligned_cols=49  Identities=22%  Similarity=0.175  Sum_probs=38.8

Q ss_pred             eEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030           92 DLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus        92 DivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      -++|+||+|+.+.  .+  .++...+.+..+.|++++||++|.|+++|++.+.
T Consensus       120 ~ivv~NK~Dl~~~--~~--~~~~~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~  168 (185)
T d1lnza2         120 QIIVANKMDMPEA--AE--NLEAFKEKLTDDYPVFPISAVTREGLRELLFEVA  168 (185)
T ss_dssp             BCBEEECTTSTTH--HH--HHHHHHHHCCSCCCBCCCSSCCSSTTHHHHHHHH
T ss_pred             chhhccccchHhH--HH--HHHHHHHHhccCCcEEEEECCCCCCHHHHHHHHH
Confidence            5899999999876  42  3444445566788999999999999999998763

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=98.23  E-value=2.2e-07  Score=68.98  Aligned_cols=98  Identities=17%  Similarity=0.062  Sum_probs=61.4

Q ss_pred             CCCEEEEecCCceee--eee-ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhH----
Q 032030           43 KADLLLCESGGDNLA--ANF-SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADL----  109 (148)
Q Consensus        43 ~~D~IliEtsG~~~~--~~~-~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l----  109 (148)
                      ..-+.+|-|.|-...  ... .-..+|..++|+||.++...+.      .....+|  -++++||+|+.+.  ...    
T Consensus        69 ~~~~~~iDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~~p--~iivlNK~D~~~~--~~~~~~~  144 (227)
T d1g7sa4          69 LPGLFFIDTPGHEAFTTLRKRGGALADLAILIVDINEGFKPQTQEALNILRMYRTP--FVVAANKIDRIHG--WRVHEGR  144 (227)
T ss_dssp             CCEEEEECCCTTSCCTTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHHHHHHTTCC--EEEEEECGGGSTT--CCCCTTC
T ss_pred             ccccccccccceecccccchhcccccceEEEEEecccCcccchhHHHHHhhcCCCe--EEEEEECccCCCc--hhhhhhH
Confidence            456889999995321  111 1235799999999998754211      1112445  6999999998764  210    


Q ss_pred             ------------------HHHHHHHHh----------------cCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          110 ------------------AVMERDALR----------------MRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       110 ------------------~~~~~~i~~----------------~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                                        +.+.+....                .....+++++||++|.|+++|++.+.
T Consensus       145 ~~~~~~~~~~~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~pvSa~~G~gid~Ll~~l~  213 (227)
T d1g7sa4         145 PFMETFSKQDIQVQQKLDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLM  213 (227)
T ss_dssp             CHHHHHTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHH
T ss_pred             HHHHhhhcchHHHHHHHHHHHHHHHHHHHHhhhhhhhhcccccccCCCeEEEeeCCCCCCHHHHHHHHH
Confidence                              111111111                01235899999999999999998764

>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=98.19  E-value=1.5e-06  Score=60.34  Aligned_cols=98  Identities=15%  Similarity=0.138  Sum_probs=61.1

Q ss_pred             CCCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCc-------cc-c---CCCCcceeeEEEEecCCCCCchhhh
Q 032030           43 KADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKI-------PR-K---GGPGITQADLLVINKTDLASAIGAD  108 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~-------~~-~---~~~qi~~ADivViNK~DL~~~~~~~  108 (148)
                      ++.+.+.++.|.......   .-...+.+++++|+......       .. .   .....+  -++|.||+|+.+.  ..
T Consensus        45 ~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p--~iiv~nK~Dl~~~--~~  120 (165)
T d1ksha_          45 GFKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGAT--LLIFANKQDLPGA--LS  120 (165)
T ss_dssp             TEEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCE--EEEEEECTTSTTC--CC
T ss_pred             ccceeeeecCcchhhhhHHHhhhhhhhcceeeeecccchhHHHHHHhhhhhhhhcccCCCc--eEEEEeccccccc--cC
Confidence            456677777774311000   12356888999998764321       00 0   112344  5888899999876  55


Q ss_pred             HHHHHHHHH--hc-CCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          109 LAVMERDAL--RM-RDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       109 l~~~~~~i~--~~-np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .+...+.+.  .+ ....+++++||++|+|++++++|+.
T Consensus       121 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~  159 (165)
T d1ksha_         121 CNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLL  159 (165)
T ss_dssp             HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhhcCCCEEEEEECCCCCCHHHHHHHHH
Confidence            555554443  22 2345899999999999999999863

>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=98.16  E-value=1.5e-07  Score=65.14  Aligned_cols=70  Identities=16%  Similarity=0.150  Sum_probs=49.5

Q ss_pred             cCceEEEEEeCCCCCCcc---------ccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCC
Q 032030           64 LADYIIYIIDVSGGDKIP---------RKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVI  134 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~---------~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~  134 (148)
                      .+|..++++|+.......         .......+  -++|+||+||.++  ..      .+ +..+..+++++||++|.
T Consensus        80 ~~d~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~--iilv~NK~Dl~~~--~~------~~-~~~~~~~~~~iSAk~~~  148 (161)
T d2gj8a1          80 QADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLP--ITVVRNKADITGE--TL------GM-SEVNGHALIRLSARTGE  148 (161)
T ss_dssp             TCSEEEEEEETTTCCCCSHHHHCHHHHHHSCTTCC--EEEEEECHHHHCC--CC------EE-EEETTEEEEECCTTTCT
T ss_pred             hccccceeeccccccchhhhhhhhhhhhhcccccc--eeeccchhhhhhh--HH------HH-HHhCCCcEEEEECCCCC
Confidence            468889999987764321         11222344  5899999999776  32      11 22356799999999999


Q ss_pred             CHHHHHHhhh
Q 032030          135 GIIFTLSITH  144 (148)
Q Consensus       135 gi~~l~~~~~  144 (148)
                      |+++|++++.
T Consensus       149 gi~~L~~~l~  158 (161)
T d2gj8a1         149 GVDVLRNHLK  158 (161)
T ss_dssp             THHHHHHHHH
T ss_pred             CHHHHHHHHH
Confidence            9999999875

>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=98.07  E-value=1.8e-06  Score=64.66  Aligned_cols=75  Identities=20%  Similarity=0.165  Sum_probs=54.5

Q ss_pred             CceEEEEEeCCCCCCcc---cc-----CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCH
Q 032030           65 ADYIIYIIDVSGGDKIP---RK-----GGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGI  136 (148)
Q Consensus        65 ~d~~i~vvDa~~~~~~~---~~-----~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi  136 (148)
                      .|.++.|+.+.+++--.   .+     ....++  -+||+||+||+++  ++.+.+.+..+...+..+++.+|++++.|+
T Consensus        11 iD~vliV~s~~~P~~~~~~ldR~Lv~a~~~~i~--pvIvlnK~DL~~~--~~~~~~~~~~~~~~~~~~v~~vSa~~~~g~   86 (225)
T d1u0la2          11 VDQVILVVTVKMPETSTYIIDKFLVLAEKNELE--TVMVINKMDLYDE--DDLRKVRELEEIYSGLYPIVKTSAKTGMGI   86 (225)
T ss_dssp             CCEEEEEECSSTTCCCHHHHHHHHHHHHHTTCE--EEEEECCGGGCCH--HHHHHHHHHHHHHTTTSCEEECCTTTCTTH
T ss_pred             CCEEEEEEeCCCCCCCHHHHHHHHHHHHHcCCC--EEEEEeCcccCCH--HHHHHHHHhhcccccceeEEEeccccchhH
Confidence            46677777765542111   11     012344  5999999999998  887777777776667789999999999999


Q ss_pred             HHHHHhh
Q 032030          137 IFTLSIT  143 (148)
Q Consensus       137 ~~l~~~~  143 (148)
                      ++|.+++
T Consensus        87 ~~L~~~l   93 (225)
T d1u0la2          87 EELKEYL   93 (225)
T ss_dssp             HHHHHHH
T ss_pred             hhHHHHh
Confidence            9998865

>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=98.07  E-value=1.9e-06  Score=60.16  Aligned_cols=52  Identities=10%  Similarity=-0.037  Sum_probs=42.2

Q ss_pred             eEEEEecCCCCCchhhhHH----HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030           92 DLLVINKTDLASAIGADLA----VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus        92 DivViNK~DL~~~~~~~l~----~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      .++++||+|+++.  .+..    .+.+.++...+..+++++||++|.|+++|++.+.=
T Consensus       130 ~~~v~~k~D~~~~--~~~~~~~~~~~~~l~~~~~~~~~i~vSA~~g~Gid~L~~~i~~  185 (188)
T d1puia_         130 VLVLLTKADKLAS--GARKAQLNMVREAVLAFNGDVQVETFSSLKKQGVDKLRQKLDT  185 (188)
T ss_dssp             EEEEEECGGGSCH--HHHHHHHHHHHHHHGGGCSCEEEEECBTTTTBSHHHHHHHHHH
T ss_pred             ccchhhhhhccCH--HHHHHHHHHHHHHHHhhCCCCcEEEEeCCCCCCHHHHHHHHHH
Confidence            6899999999987  4443    45566666677789999999999999999987753

>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=98.06  E-value=1.6e-06  Score=60.45  Aligned_cols=77  Identities=13%  Similarity=0.059  Sum_probs=51.6

Q ss_pred             cCceEEEEEeCCCCCCccc-----------cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHH---hcCCCCcEEEEE
Q 032030           64 LADYIIYIIDVSGGDKIPR-----------KGGPGITQADLLVINKTDLASAIGADLAVMERDAL---RMRDGGPFIFAQ  129 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~-----------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~---~~np~a~vi~tS  129 (148)
                      ..+.++.++|.........           ......+  -++|.||.|+...  ...+.+.+...   ......+++++|
T Consensus        82 ~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p--~iiv~nK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~S  157 (177)
T d1zj6a1          82 NTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAG--LLIFANKQDVKEC--MTVAEISQFLKLTSIKDHQWHIQACC  157 (177)
T ss_dssp             TCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCE--EEEEEECTTSTTC--CCHHHHHHHHTGGGCCSSCEEEEECB
T ss_pred             cceeeeeecccccccchhhhhhhhhhhhhcccccceE--EEEEEEccccccc--CcHHHHHHHHHHHhhHhcCCEEEEEe
Confidence            3566788888765532100           0112333  5899999999776  55555555543   122456899999


Q ss_pred             ecCCCCHHHHHHhhh
Q 032030          130 VGWVIGIIFTLSITH  144 (148)
Q Consensus       130 a~~g~gi~~l~~~~~  144 (148)
                      |++|+|++++++++.
T Consensus       158 a~tg~Gi~e~~~~L~  172 (177)
T d1zj6a1         158 ALTGEGLCQGLEWMM  172 (177)
T ss_dssp             TTTTBTHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHH
Confidence            999999999999874

>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=98.05  E-value=3.4e-06  Score=58.63  Aligned_cols=77  Identities=22%  Similarity=0.103  Sum_probs=52.4

Q ss_pred             cCceEEEEEeCCCCCCcc-------c----cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHh---cCCCCcEEEEE
Q 032030           64 LADYIIYIIDVSGGDKIP-------R----KGGPGITQADLLVINKTDLASAIGADLAVMERDALR---MRDGGPFIFAQ  129 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~-------~----~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~---~np~a~vi~tS  129 (148)
                      .++.+++++|+.....+.       .    ...+.++  -++|.||.|+.+.  .....+.+.+..   .....+++++|
T Consensus        70 ~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p--i~lv~nK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~e~S  145 (164)
T d1zd9a1          70 GVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIP--VLVLGNKRDLPGA--LDEKELIEKMNLSAIQDREICCYSIS  145 (164)
T ss_dssp             TCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCC--EEEEEECTTSTTC--CCHHHHHHHTTGGGCCSSCEEEEECC
T ss_pred             ccchhhcccccccccccchhhhhhhhhhhhhcccCCc--EEEEEeccccchh--hhHHHHHHHHHHHHHHhCCCEEEEEe
Confidence            578889999987653211       0    0112344  5788999999876  554555555431   12456889999


Q ss_pred             ecCCCCHHHHHHhhh
Q 032030          130 VGWVIGIIFTLSITH  144 (148)
Q Consensus       130 a~~g~gi~~l~~~~~  144 (148)
                      |++|.|++++|+|+.
T Consensus       146 a~~g~gv~e~~~~l~  160 (164)
T d1zd9a1         146 CKEKDNIDITLQWLI  160 (164)
T ss_dssp             TTTCTTHHHHHHHHH
T ss_pred             CcCCcCHHHHHHHHH
Confidence            999999999999874

>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=98.03  E-value=2.2e-06  Score=60.76  Aligned_cols=78  Identities=13%  Similarity=0.098  Sum_probs=51.4

Q ss_pred             ccCceEEEEEeCCCCCCc---ccc-----------CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEE
Q 032030           63 ELADYIIYIIDVSGGDKI---PRK-----------GGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFA  128 (148)
Q Consensus        63 ~~~d~~i~vvDa~~~~~~---~~~-----------~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~t  128 (148)
                      ..+|.+++++|.......   ...           ....++  -++|.||+||.+.  .......+.+.......+.+++
T Consensus        73 ~~~~~~i~~~d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip--~ilv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~e~  148 (184)
T d1vg8a_          73 RGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFP--FVVLGNKIDLENR--QVATKRAQAWCYSKNNIPYFET  148 (184)
T ss_dssp             TTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSC--EEEEEECTTSSCC--CSCHHHHHHHHHHTTSCCEEEC
T ss_pred             cCccEEEEeecccchhhhhcchhhHHHHHHHhccccccCCC--EEEEEEeeccccc--chhHHHHHHHHHHhcCCeEEEE
Confidence            356888999998653211   000           011344  5899999999775  3333333333333557899999


Q ss_pred             EecCCCCHHHHHHhhh
Q 032030          129 QVGWVIGIIFTLSITH  144 (148)
Q Consensus       129 Sa~~g~gi~~l~~~~~  144 (148)
                      ||++|.|++++|+++.
T Consensus       149 Sak~~~gI~e~f~~l~  164 (184)
T d1vg8a_         149 SAKEAINVEQAFQTIA  164 (184)
T ss_dssp             BTTTTBSHHHHHHHHH
T ss_pred             cCCCCcCHHHHHHHHH
Confidence            9999999999998864

>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=98.01  E-value=3e-06  Score=59.31  Aligned_cols=77  Identities=13%  Similarity=0.100  Sum_probs=51.4

Q ss_pred             ccCceEEEEEeCCCCCCc---c----------c-cCCCCcceeeEEEEecCCCCCchhhh---HHHHHHHHHhcCCCCcE
Q 032030           63 ELADYIIYIIDVSGGDKI---P----------R-KGGPGITQADLLVINKTDLASAIGAD---LAVMERDALRMRDGGPF  125 (148)
Q Consensus        63 ~~~d~~i~vvDa~~~~~~---~----------~-~~~~qi~~ADivViNK~DL~~~~~~~---l~~~~~~i~~~np~a~v  125 (148)
                      ..+|.++++.|......+   .          . ..+..+|  -++|.||+|+.+.  ..   .+...+..++ ....++
T Consensus        74 ~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~p--iilv~nK~Dl~~~--~~~v~~~~~~~~~~~-~~~~~~  148 (175)
T d1ky3a_          74 RGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFP--FVILGNKIDAEES--KKIVSEKSAQELAKS-LGDIPL  148 (175)
T ss_dssp             TTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCC--EEEEEECTTSCGG--GCCSCHHHHHHHHHH-TTSCCE
T ss_pred             hccceEEEEeecccccccchhhhcchhhhhhhhhcccccCc--EEEEecccchhhh--hcchhHHHHHHHHHH-cCCCeE
Confidence            356778999998654211   0          0 1123456  5899999999764  22   1234444443 455789


Q ss_pred             EEEEecCCCCHHHHHHhhh
Q 032030          126 IFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       126 i~tSa~~g~gi~~l~~~~~  144 (148)
                      +++||++|.|++++|++++
T Consensus       149 ~e~SA~~g~gv~e~f~~l~  167 (175)
T d1ky3a_         149 FLTSAKNAINVDTAFEEIA  167 (175)
T ss_dssp             EEEBTTTTBSHHHHHHHHH
T ss_pred             EEEeCCCCcCHHHHHHHHH
Confidence            9999999999999998875

>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=97.98  E-value=7.8e-06  Score=57.79  Aligned_cols=78  Identities=13%  Similarity=0.023  Sum_probs=51.7

Q ss_pred             cCceEEEEEeCCCCCCc---c----cc----CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecC
Q 032030           64 LADYIIYIIDVSGGDKI---P----RK----GGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGW  132 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~---~----~~----~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~  132 (148)
                      .+|.++.|.|.......   .    ..    .....+  -++|.||+|+...-.-..+...+..++.  +.+++++||++
T Consensus        87 ~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~--iilv~nK~Dl~~~~~v~~~e~~~~~~~~--~~~~~e~Sak~  162 (186)
T d2f7sa1          87 DAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPD--IVLIGNKADLPDQREVNERQARELADKY--GIPYFETSAAT  162 (186)
T ss_dssp             TCCEEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCE--EEEEEECTTCGGGCCSCHHHHHHHHHHT--TCCEEEEBTTT
T ss_pred             cCCEEEEEEeccccccceeeeeccchhhhhccCCCce--EEEEeeeccchhhhcchHHHHHHHHHHc--CCEEEEEeCCC
Confidence            46889999998764321   0    10    111233  4788999999654111123455666654  36899999999


Q ss_pred             CCCHHHHHHhhhh
Q 032030          133 VIGIIFTLSITHY  145 (148)
Q Consensus       133 g~gi~~l~~~~~~  145 (148)
                      |.|++++|+++.-
T Consensus       163 ~~~i~e~f~~l~~  175 (186)
T d2f7sa1         163 GQNVEKAVETLLD  175 (186)
T ss_dssp             TBTHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHH
Confidence            9999999998764

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=97.97  E-value=9.9e-06  Score=56.44  Aligned_cols=78  Identities=12%  Similarity=0.013  Sum_probs=54.1

Q ss_pred             cCceEEEEEeCCCCCCcc-----ccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHH
Q 032030           64 LADYIIYIIDVSGGDKIP-----RKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIF  138 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~-----~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~  138 (148)
                      ..+.++++.|+.......     .....+.+  -++|+||.|.... ..++....+.+.+..+..+++++||++|.|+++
T Consensus        85 ~~~~~l~~~d~~~~~~~~~~~~~~l~~~~~~--~i~v~~k~d~~~~-~~~~~~~~~~~~~~~~~~~~~~vSA~~g~gi~~  161 (179)
T d1egaa1          85 DVELVIFVVEGTRWTPDDEMVLNKLREGKAP--VILAVNKVDNVQE-KADLLPHLQFLASQMNFLDIVPISAETGLNVDT  161 (179)
T ss_dssp             CEEEEEEEEETTCCCHHHHHHHHHHHSSSSC--EEEEEESTTTCCC-HHHHHHHHHHHHTTSCCSEEEECCTTTTTTHHH
T ss_pred             hcceeEEEEecCccchhHHHHHHHhhhccCc--eeeeeeeeeccch-hhhhhhHhhhhhhhcCCCCEEEEeCcCCCCHHH
Confidence            456778888876553311     11123344  5899999998765 134455556666666778999999999999999


Q ss_pred             HHHhhh
Q 032030          139 TLSITH  144 (148)
Q Consensus       139 l~~~~~  144 (148)
                      |++++.
T Consensus       162 L~~~i~  167 (179)
T d1egaa1         162 IAAIVR  167 (179)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            999874

>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=97.95  E-value=3.8e-06  Score=58.25  Aligned_cols=79  Identities=19%  Similarity=0.145  Sum_probs=53.3

Q ss_pred             cCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      .+|.++.+.|........          ....+..+  -++|.||+|+.+.-....+...+..++.+  ++.+.+||++|
T Consensus        72 ~~~~~ilv~d~~~~~s~~~i~~~~~~~~~~~~~~~~--iilvgnK~Dl~~~~~~~~~~~~~~~~~~~--~~~~e~SAk~g  147 (164)
T d1yzqa1          72 DSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVI--IMLVGNKTDLADKRQVSIEEGERKAKELN--VMFIETSAKAG  147 (164)
T ss_dssp             TCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSSE--EEEEEECTTCGGGCCSCHHHHHHHHHHTT--CEEEECCTTTC
T ss_pred             ccceEEEeeccccccchhhhHhhHHHHHHhcCCCce--EEEEecccchhhhhhhhHHHHHHHHHHcC--CEEEEecCCCC
Confidence            467788889987653211          01122344  57888999997541133445666666544  68999999999


Q ss_pred             CCHHHHHHhhhhh
Q 032030          134 IGIIFTLSITHYI  146 (148)
Q Consensus       134 ~gi~~l~~~~~~~  146 (148)
                      .|++++|++++-.
T Consensus       148 ~~v~e~f~~i~~~  160 (164)
T d1yzqa1         148 YNVKQLFRRVAAA  160 (164)
T ss_dssp             TTHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHh
Confidence            9999999988643

>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=97.95  E-value=1.9e-06  Score=60.65  Aligned_cols=77  Identities=16%  Similarity=0.002  Sum_probs=50.0

Q ss_pred             cCceEEEEEeCCCCCCc----------cccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKI----------PRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~----------~~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      .+|.++.+.|.......          .....+.++  -++|.||+|+.+.-....+......+.  ...+++++||++|
T Consensus        76 ~~~~~i~v~d~~~~~S~~~~~~~~~~i~~~~~~~~p--iilvgnK~Dl~~~~~~~~~~~~~~~~~--~~~~~~e~Sa~~g  151 (175)
T d2f9la1          76 GAVGALLVYDIAKHLTYENVERWLKELRDHADSNIV--IMLVGNKSDLRHLRAVPTDEARAFAEK--NNLSFIETSALDS  151 (175)
T ss_dssp             TCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE--EEEEEECTTCGGGCCSCHHHHHHHHHH--TTCEEEECCTTTC
T ss_pred             ccCeEEEEEECCCcccchhHHHHHHHHHHhcCCCCc--EEEEEeeecccccccchHHHHHHhhcc--cCceEEEEecCCC
Confidence            46788999998765321          111233455  677889999975411222233344443  4468999999999


Q ss_pred             CCHHHHHHhhh
Q 032030          134 IGIIFTLSITH  144 (148)
Q Consensus       134 ~gi~~l~~~~~  144 (148)
                      .|++++|+.+.
T Consensus       152 ~~i~e~f~~l~  162 (175)
T d2f9la1         152 TNVEEAFKNIL  162 (175)
T ss_dssp             TTHHHHHHHHH
T ss_pred             cCHHHHHHHHH
Confidence            99999988764

>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=97.92  E-value=2.4e-06  Score=59.42  Aligned_cols=77  Identities=17%  Similarity=0.090  Sum_probs=51.0

Q ss_pred             cCceEEEEEeCCCCCCc---c----c--cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCC
Q 032030           64 LADYIIYIIDVSGGDKI---P----R--KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVI  134 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~---~----~--~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~  134 (148)
                      .+|.++.+.|.......   .    .  ...+.++  -++|.||+|+.+.-.-..+.+++..++.+  .+++++||++|.
T Consensus        74 ~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~--iilVgnK~Dl~~~~~v~~~~~~~~~~~~~--~~~~e~Sak~g~  149 (164)
T d1z2aa1          74 GAQACVLVFSTTDRESFEAISSWREKVVAEVGDIP--TALVQNKIDLLDDSCIKNEEAEGLAKRLK--LRFYRTSVKEDL  149 (164)
T ss_dssp             TCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCSCC--EEEEEECGGGGGGCSSCHHHHHHHHHHHT--CEEEECBTTTTB
T ss_pred             cCceEEEEEeccchhhhhhcccccccccccCCCce--EEEeeccCCcccceeeeehhhHHHHHHcC--CEEEEeccCCCc
Confidence            46888999998765321   1    0  1112344  47788999997641011234555555544  689999999999


Q ss_pred             CHHHHHHhhh
Q 032030          135 GIIFTLSITH  144 (148)
Q Consensus       135 gi~~l~~~~~  144 (148)
                      |++++|++++
T Consensus       150 ~v~e~f~~l~  159 (164)
T d1z2aa1         150 NVSEVFKYLA  159 (164)
T ss_dssp             SSHHHHHHHH
T ss_pred             CHHHHHHHHH
Confidence            9999998875

>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=97.90  E-value=6.1e-06  Score=57.09  Aligned_cols=77  Identities=18%  Similarity=0.138  Sum_probs=51.8

Q ss_pred             cCceEEEEEeCCCCCCc---c-------c-cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecC
Q 032030           64 LADYIIYIIDVSGGDKI---P-------R-KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGW  132 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~---~-------~-~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~  132 (148)
                      .+|.+++|.|......+   .       . .....++  -+||.||+||..+..-..+..++..++.+  .+++.+||++
T Consensus        75 ~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~p--i~lvgnK~Dl~~~~~v~~~~~~~~~~~~~--~~~~e~SAkt  150 (165)
T d1z06a1          75 NVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIP--RILVGNKCDLRSAIQVPTDLAQKFADTHS--MPLFETSAKN  150 (165)
T ss_dssp             TCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCSCCC--EEEEEECTTCGGGCCSCHHHHHHHHHHTT--CCEEECCSSS
T ss_pred             CCCceEEEEEeehhhhhhhhhhhhHHHHhhccCCCCe--EEEEeccccchhccchhHHHHHHHHHHCC--CEEEEEeccc
Confidence            56888999998765321   1       1 1123455  68999999996541122345666666544  6899999987


Q ss_pred             ---CCCHHHHHHhhh
Q 032030          133 ---VIGIIFTLSITH  144 (148)
Q Consensus       133 ---g~gi~~l~~~~~  144 (148)
                         +.|++++|+++|
T Consensus       151 ~~~~~~V~e~F~~lA  165 (165)
T d1z06a1         151 PNDNDHVEAIFMTLA  165 (165)
T ss_dssp             GGGGSCHHHHHHHHC
T ss_pred             CCcCcCHHHHHHHhC
Confidence               559999999875

>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=97.89  E-value=5.7e-06  Score=57.82  Aligned_cols=78  Identities=19%  Similarity=0.029  Sum_probs=50.7

Q ss_pred             cCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      .+|.+|.|.|........          .......+  -+++.||.|+.+.-.-..+..++..++.  +.+++.+||++|
T Consensus        77 ~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~--iivv~nK~D~~~~~~v~~~~~~~~~~~~--~~~~~e~Sak~g  152 (169)
T d3raba_          77 GAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQ--VLLVGNKCDMEDERVVSSERGRQLADHL--GFEFFEASAKDN  152 (169)
T ss_dssp             TCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCSCCE--EEEEEECTTCGGGCCSCHHHHHHHHHHH--TCEEEECBTTTT
T ss_pred             cCCEEEEEEECccchhhhhhhhhhhhhhcccCCcce--EEEEEeecccccccccchhhhHHHHHHc--CCEEEEecCCCC
Confidence            468889999987653211          01122333  4677899998654111123445555544  368999999999


Q ss_pred             CCHHHHHHhhhh
Q 032030          134 IGIIFTLSITHY  145 (148)
Q Consensus       134 ~gi~~l~~~~~~  145 (148)
                      .|++++|++++=
T Consensus       153 ~gv~e~f~~l~~  164 (169)
T d3raba_         153 INVKQTFERLVD  164 (169)
T ss_dssp             BSHHHHHHHHHH
T ss_pred             cCHHHHHHHHHH
Confidence            999999998763

>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=97.88  E-value=6.5e-06  Score=57.68  Aligned_cols=77  Identities=9%  Similarity=0.041  Sum_probs=50.8

Q ss_pred             cCceEEEEEeCCCCCCc---c-------c----cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEE
Q 032030           64 LADYIIYIIDVSGGDKI---P-------R----KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQ  129 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~---~-------~----~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tS  129 (148)
                      .+|.++.+.|......+   .       .    .....+|  -++|.||+|+.+. .-..+.+.+..++. ...+++++|
T Consensus        78 ~~~~~i~~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~p--iilVgnK~Dl~~~-~v~~~~~~~~~~~~-~~~~~~e~S  153 (174)
T d1wmsa_          78 GSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFP--FVILGNKIDISER-QVSTEEAQAWCRDN-GDYPYFETS  153 (174)
T ss_dssp             TCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSC--EEEEEECTTCSSC-SSCHHHHHHHHHHT-TCCCEEECC
T ss_pred             ccceEEEEEeeecccccchhhhHHHHHHHHhccccCCCce--EEEeccccchhhc-cCcHHHHHHHHHHc-CCCeEEEEc
Confidence            45778888887654211   0       0    0112345  5899999999663 01234566666543 346899999


Q ss_pred             ecCCCCHHHHHHhhh
Q 032030          130 VGWVIGIIFTLSITH  144 (148)
Q Consensus       130 a~~g~gi~~l~~~~~  144 (148)
                      |++|.|++++|+++.
T Consensus       154 ak~~~gI~e~f~~l~  168 (174)
T d1wmsa_         154 AKDATNVAAAFEEAV  168 (174)
T ss_dssp             TTTCTTHHHHHHHHH
T ss_pred             CCCCcCHHHHHHHHH
Confidence            999999999998764

>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=97.86  E-value=7.5e-06  Score=55.83  Aligned_cols=51  Identities=12%  Similarity=-0.038  Sum_probs=38.8

Q ss_pred             eEEEEecCCCCCchhhhHHHHHHHHH---hcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030           92 DLLVINKTDLASAIGADLAVMERDAL---RMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus        92 DivViNK~DL~~~~~~~l~~~~~~i~---~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      -+++.||.|+...  .....+.....   ..+.+.+++++||++|.|+++++++++
T Consensus       109 i~iv~nk~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gv~e~~~~l~  162 (169)
T d1upta_         109 LVVFANKQDMEQA--MTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLV  162 (169)
T ss_dssp             EEEEEECTTSTTC--CCHHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHHHHHHHH
T ss_pred             EEEEEeecccccc--ccHHHHHHHHHHHHHhcCCCEEEEEeCCCCCCHHHHHHHHH
Confidence            4789999999876  54444544432   233567999999999999999999885

>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=97.85  E-value=3e-06  Score=59.47  Aligned_cols=79  Identities=13%  Similarity=0.046  Sum_probs=48.7

Q ss_pred             cCceEEEEEeCCCCCCcc------cc-----------CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcC--CCCc
Q 032030           64 LADYIIYIIDVSGGDKIP------RK-----------GGPGITQADLLVINKTDLASAIGADLAVMERDALRMR--DGGP  124 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~------~~-----------~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~n--p~a~  124 (148)
                      ..|.+++++|+.......      ..           .....+  -++|+||+|+.+......+.+.+.+....  +..+
T Consensus        81 ~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~~~~~p--~iiv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~  158 (184)
T d2cxxa1          81 NIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIP--TIVAVNKLDKIKNVQEVINFLAEKFEVPLSEIDKV  158 (184)
T ss_dssp             GCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCC--EEEEEECGGGCSCHHHHHHHHHHHHTCCGGGHHHH
T ss_pred             ccchheeeeeccccchhhhhhhhccccHHHHHHHHHHHHcCCC--EEEEEeeeehhhhHHHHHHHHHHHhcccccccCCe
Confidence            468899999986432100      00           001233  58999999998762222233333333211  2346


Q ss_pred             EEEEEecCCCCHHHHHHhhh
Q 032030          125 FIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       125 vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ++++||++|.|+++|++++.
T Consensus       159 ~~~vSA~~g~gi~~L~~~i~  178 (184)
T d2cxxa1         159 FIPISAKFGDNIERLKNRIF  178 (184)
T ss_dssp             EEECCTTTCTTHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            89999999999999998874

>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=97.84  E-value=5.5e-06  Score=57.88  Aligned_cols=78  Identities=19%  Similarity=0.157  Sum_probs=51.3

Q ss_pred             cCceEEEEEeCCCCCCc----------cccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKI----------PRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~----------~~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      .+|.++.+.|....+..          .....+.++  -++|.||+|+...-.-..+..++..+.  ...+++.+||++|
T Consensus        78 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~--iilvgnK~Dl~~~~~v~~e~~~~~~~~--~~~~~~e~SAk~g  153 (170)
T d1r2qa_          78 GAQAAIVVYDITNEESFARAKNWVKELQRQASPNIV--IALSGNKADLANKRAVDFQEAQSYADD--NSLLFMETSAKTS  153 (170)
T ss_dssp             TCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCE--EEEEEECGGGGGGCCSCHHHHHHHHHH--TTCEEEECCTTTC
T ss_pred             CcceEEEEeccchhhHHHHHHHHhhhhhhccCCCce--EEeecccccccccccccHHHHHHHHHh--cCCEEEEeeCCCC
Confidence            46778888997765321          111223344  478889999865411223445555554  3468999999999


Q ss_pred             CCHHHHHHhhhh
Q 032030          134 IGIIFTLSITHY  145 (148)
Q Consensus       134 ~gi~~l~~~~~~  145 (148)
                      .|++++|+.+.-
T Consensus       154 ~~V~e~f~~l~~  165 (170)
T d1r2qa_         154 MNVNEIFMAIAK  165 (170)
T ss_dssp             TTHHHHHHHHHH
T ss_pred             CCHHHHHHHHHH
Confidence            999999998753

>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=97.82  E-value=1.2e-05  Score=56.36  Aligned_cols=78  Identities=17%  Similarity=0.081  Sum_probs=50.8

Q ss_pred             cCceEEEEEeCCCCCCc----------cccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKI----------PRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~----------~~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      .+|.++.+.|.......          .......++  -++|.||+|+...-....+......++.  +.+++.+||++|
T Consensus        75 ~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~p--iilv~nK~D~~~~~~~~~~~~~~~a~~~--~~~~~e~Sa~tg  150 (173)
T d2a5ja1          75 GAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMV--IMLIGNKSDLESRRDVKREEGEAFAREH--GLIFMETSAKTA  150 (173)
T ss_dssp             TCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE--EEEEEECTTCGGGCCSCHHHHHHHHHHH--TCEEEEECTTTC
T ss_pred             ccCEEEEEEeecChHHHHhHHHHHHHHHHhCCCCCe--EEEEecCCchhhhhhhHHHHHHHHHHHc--CCEEEEecCCCC
Confidence            46788999998664221          111233455  5788899997543112223444555543  468999999999


Q ss_pred             CCHHHHHHhhhh
Q 032030          134 IGIIFTLSITHY  145 (148)
Q Consensus       134 ~gi~~l~~~~~~  145 (148)
                      .|++++|..++-
T Consensus       151 ~~V~e~f~~i~~  162 (173)
T d2a5ja1         151 CNVEEAFINTAK  162 (173)
T ss_dssp             TTHHHHHHHHHH
T ss_pred             CCHHHHHHHHHH
Confidence            999999987753

>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=97.80  E-value=6.3e-06  Score=57.45  Aligned_cols=78  Identities=13%  Similarity=0.032  Sum_probs=50.3

Q ss_pred             cCceEEEEEeCCCCCCc---cc-------c--CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEec
Q 032030           64 LADYIIYIIDVSGGDKI---PR-------K--GGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVG  131 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~---~~-------~--~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~  131 (148)
                      .+|.+++|.|....+..   ..       .  ....++  -++|.||+|+...-.-..+..++..++.+  .+++.+||+
T Consensus        73 ~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~p--iilVgnK~Dl~~~~~v~~~e~~~~~~~~~--~~~~e~Sak  148 (171)
T d2erxa1          73 KGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIP--IMLVGNKCDESPSREVQSSEAEALARTWK--CAFMETSAK  148 (171)
T ss_dssp             HCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCC--EEEEEECGGGGGGCCSCHHHHHHHHHHHT--CEEEECBTT
T ss_pred             ceeEEEEEeecccccchhcccchhhhhhhhhccCCCCc--EEEEeecccccccccccHHHHHHHHHHcC--CeEEEEcCC
Confidence            46888999998764221   10       0  112344  47888999986530012234555555544  689999999


Q ss_pred             CCCCHHHHHHhhhh
Q 032030          132 WVIGIIFTLSITHY  145 (148)
Q Consensus       132 ~g~gi~~l~~~~~~  145 (148)
                      +|.|++++|+.++=
T Consensus       149 ~~~~v~e~f~~l~~  162 (171)
T d2erxa1         149 LNHNVKELFQELLN  162 (171)
T ss_dssp             TTBSHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHHH
Confidence            99999999988753

>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=97.78  E-value=7.9e-06  Score=56.88  Aligned_cols=77  Identities=17%  Similarity=0.093  Sum_probs=50.6

Q ss_pred             cCceEEEEEeCCCCCCc----------cccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKI----------PRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~----------~~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      .+|.++.+.|.......          .....+..+  -++|.||+|+.+.-....+..++..++.  +.+++.+||++|
T Consensus        76 ~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~--iilvgnK~Dl~~~~~v~~~~~~~~~~~~--~~~~~e~SAk~~  151 (167)
T d1z0ja1          76 GSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIV--VAIAGNKCDLTDVREVMERDAKDYADSI--HAIFVETSAKNA  151 (167)
T ss_dssp             TCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTSE--EEEEEECTTCGGGCCSCHHHHHHHHHHT--TCEEEECBTTTT
T ss_pred             hccceEEEeeechhhhhhhHHHhhhhhhhccCCcce--EEEecccchhccccchhHHHHHHHHHHc--CCEEEEEecCCC
Confidence            45778999998654321          011223344  5799999999653111223455555543  468999999999


Q ss_pred             CCHHHHHHhhh
Q 032030          134 IGIIFTLSITH  144 (148)
Q Consensus       134 ~gi~~l~~~~~  144 (148)
                      .|++++|..++
T Consensus       152 ~nV~e~f~~l~  162 (167)
T d1z0ja1         152 ININELFIEIS  162 (167)
T ss_dssp             BSHHHHHHHHH
T ss_pred             CCHHHHHHHHH
Confidence            99999998764

>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=97.78  E-value=7.8e-06  Score=57.19  Aligned_cols=77  Identities=13%  Similarity=0.085  Sum_probs=51.2

Q ss_pred             cCceEEEEEeCCCCCCcc----------c-cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecC
Q 032030           64 LADYIIYIIDVSGGDKIP----------R-KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGW  132 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~----------~-~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~  132 (148)
                      .+|.++.|.|........          . ...+.++  -++|.||+|+.+.-.-..+..++..++.+  .+.+++||++
T Consensus        75 ~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~p--iiivgnK~Dl~~~~~v~~~~~~~~~~~~~--~~~~e~Sak~  150 (168)
T d1u8za_          75 SGEGFLCVFSITEMESFAATADFREQILRVKEDENVP--FLLVGNKSDLEDKRQVSVEEAKNRADQWN--VNYVETSAKT  150 (168)
T ss_dssp             HCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCTTSC--EEEEEECGGGGGGCCSCHHHHHHHHHHHT--CEEEECCTTT
T ss_pred             ccceeEEEeeccchhhhhhHHHHHHHHHHhhCCCCCc--EEEEeccccccccccccHHHHHHHHHHcC--CeEEEEcCCC
Confidence            467889999987643210          0 1123444  57899999985430012245666666554  6899999999


Q ss_pred             CCCHHHHHHhhh
Q 032030          133 VIGIIFTLSITH  144 (148)
Q Consensus       133 g~gi~~l~~~~~  144 (148)
                      |.|++++|++++
T Consensus       151 g~gv~e~f~~l~  162 (168)
T d1u8za_         151 RANVDKVFFDLM  162 (168)
T ss_dssp             CTTHHHHHHHHH
T ss_pred             CcCHHHHHHHHH
Confidence            999999998764

>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=97.76  E-value=4.5e-06  Score=58.08  Aligned_cols=77  Identities=17%  Similarity=0.027  Sum_probs=50.6

Q ss_pred             cCceEEEEEeCCCCCCc----------cc-cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecC
Q 032030           64 LADYIIYIIDVSGGDKI----------PR-KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGW  132 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~----------~~-~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~  132 (148)
                      .+|.++.+.|.......          .. ...+.++  -++|.||+|+.+.-....+......++.+  .+++++||++
T Consensus        74 ~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~p--iilvgnK~Dl~~~~~~~~~~~~~~~~~~~--~~~~e~Sak~  149 (167)
T d1kaoa_          74 NGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVP--VILVGNKVDLESEREVSSSEGRALAEEWG--CPFMETSAKS  149 (167)
T ss_dssp             HCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTTSCCC--EEEEEECGGGGGGCCSCHHHHHHHHHHHT--SCEEEECTTC
T ss_pred             cccceeeeeeecchhhhhhhhchhhhhhhhccCCCCC--EEEEEEccchhhcccchHHHHHHHHHHcC--CeEEEECCCC
Confidence            46778999998754321          00 1123455  57899999986541122234445555444  6899999999


Q ss_pred             CCCHHHHHHhhh
Q 032030          133 VIGIIFTLSITH  144 (148)
Q Consensus       133 g~gi~~l~~~~~  144 (148)
                      |.|++++|+.++
T Consensus       150 g~~i~e~f~~i~  161 (167)
T d1kaoa_         150 KTMVDELFAEIV  161 (167)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHH
Confidence            999999998764

>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=97.76  E-value=4.3e-06  Score=58.67  Aligned_cols=97  Identities=11%  Similarity=-0.046  Sum_probs=62.4

Q ss_pred             CCCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCccc---c------CCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           43 KADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPR---K------GGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~~---~------~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      .+.+.+..+.|.......   .-..+|.++.+.|......+..   .      ..+.++  -++|.||+|+...  ...+
T Consensus        51 ~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~p--iilvgnK~Dl~~~--~~~~  126 (170)
T d1i2ma_          51 PIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCENIP--IVLCGNKVDIKDR--KVKA  126 (170)
T ss_dssp             CEEEEEEECTTHHHHSSCGGGGTTTCCEEEEEEETTSGGGGTTHHHHHHHHHHHHCSCC--EEEEEECCCCSCS--CCTT
T ss_pred             cccccccccccccccceecchhcccccchhhccccccccccchhHHHHHHHhhccCCCc--eeeecchhhhhhh--hhhh
Confidence            455566666664321111   1135788899999877543211   0      122345  5999999999876  4433


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +..+..+  ..+.+.+++||++|.|++++|++++.
T Consensus       127 ~~~~~~~--~~~~~~~e~Sak~~~~v~e~f~~l~~  159 (170)
T d1i2ma_         127 KSIVFHR--KKNLQYYDISAKSNYNFEKPFLWLAR  159 (170)
T ss_dssp             TSHHHHS--SCSSEEEEEBTTTTBTTTHHHHHHHH
T ss_pred             HHHHHHH--HcCCEEEEEeCCCCCCHHHHHHHHHH
Confidence            4444444  34578999999999999999998763

>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=97.74  E-value=1.7e-05  Score=55.25  Aligned_cols=77  Identities=12%  Similarity=0.095  Sum_probs=51.4

Q ss_pred             cCceEEEEEeCCCCCCc---cc--------cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecC
Q 032030           64 LADYIIYIIDVSGGDKI---PR--------KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGW  132 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~---~~--------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~  132 (148)
                      .+|.++.|.|......+   ..        ......+  -++|.||+|+...-.-..+...+..++.+  .+.+.+||++
T Consensus        76 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~p--~ilvgnK~Dl~~~~~v~~~~~~~~~~~~~--~~~~e~Sak~  151 (171)
T d2erya1          76 TGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFP--MILIGNKADLDHQRQVTQEEGQQLARQLK--VTYMEASAKI  151 (171)
T ss_dssp             HCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCS--EEEEEECTTCTTSCSSCHHHHHHHHHHTT--CEEEECBTTT
T ss_pred             ccceEEEeeccccccchhhHHHHhHHHHhhcccCCCC--EEEEEeccchhhhccchHHHHHHHHHHcC--CEEEEEcCCC
Confidence            46788999998764321   00        1122333  57889999997541122245666666544  6889999999


Q ss_pred             CCCHHHHHHhhh
Q 032030          133 VIGIIFTLSITH  144 (148)
Q Consensus       133 g~gi~~l~~~~~  144 (148)
                      |.|++++|..++
T Consensus       152 ~~~i~e~f~~l~  163 (171)
T d2erya1         152 RMNVDQAFHELV  163 (171)
T ss_dssp             TBSHHHHHHHHH
T ss_pred             CcCHHHHHHHHH
Confidence            999999998774

>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=97.73  E-value=1.4e-05  Score=55.41  Aligned_cols=77  Identities=16%  Similarity=0.050  Sum_probs=51.4

Q ss_pred             cCceEEEEEeCCCCCCc----------cccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKI----------PRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~----------~~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      .+|.++.+.|..+....          ........+  -+++.||+|+........+..++..++.  ..+.+.+||++|
T Consensus        76 ~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~--iilvgnK~Dl~~~~~~~~~~~~~~~~~~--~~~~~e~Saktg  151 (166)
T d1z0fa1          76 GAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTV--IILIGNKADLEAQRDVTYEEAKQFAEEN--GLLFLEASAKTG  151 (166)
T ss_dssp             TCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE--EEEEEECTTCGGGCCSCHHHHHHHHHHT--TCEEEECCTTTC
T ss_pred             CCcEEEEEeccCchHHHHHHHHHHHHHHhhccccce--EEEEcccccchhhcccHHHHHHHHHHHc--CCEEEEEeCCCC
Confidence            46788999998764321          011222344  5778899998654112234566666654  468999999999


Q ss_pred             CCHHHHHHhhh
Q 032030          134 IGIIFTLSITH  144 (148)
Q Consensus       134 ~gi~~l~~~~~  144 (148)
                      .|++++|+.+.
T Consensus       152 ~~v~e~f~~i~  162 (166)
T d1z0fa1         152 ENVEDAFLEAA  162 (166)
T ss_dssp             TTHHHHHHHHH
T ss_pred             CCHHHHHHHHH
Confidence            99999998765

>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=97.73  E-value=4.2e-06  Score=58.57  Aligned_cols=96  Identities=15%  Similarity=0.145  Sum_probs=56.1

Q ss_pred             CCCEEEEecCCceeeeeecc---ccCceEEEEEeCCCCCCcc----------c-cCCCCcceeeEEEEecCCCCCchhhh
Q 032030           43 KADLLLCESGGDNLAANFSR---ELADYIIYIIDVSGGDKIP----------R-KGGPGITQADLLVINKTDLASAIGAD  108 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~~~---~~~d~~i~vvDa~~~~~~~----------~-~~~~qi~~ADivViNK~DL~~~~~~~  108 (148)
                      .+.+.+.++.|.--...+.+   ..+|.++.|.|......+.          . .....++  -++|.||+||.+.  .+
T Consensus        47 ~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv~d~t~~~s~~~~~~~~~~i~~~~~~~~~p--iilvgnK~Dl~~~--~~  122 (168)
T d2gjsa1          47 EASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVP--IILVGNKSDLVRS--RE  122 (168)
T ss_dssp             EEEEEEEECC-------CHHHHHTSCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC--CCC--EEEEEECTTCGGG--CC
T ss_pred             ccceeeeecccccccceecccchhhhhhhceeccccccccccccccccchhhcccccccce--EEEeecccchhhh--cc
Confidence            34555556666421111111   3578889999987643211          0 0112344  5788899999764  22


Q ss_pred             --HHHHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          109 --LAVMERDALRMRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       109 --l~~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                        .+..++..+..  +.+++++||++|.|++++|+.++
T Consensus       123 v~~~~~~~~~~~~--~~~~~e~Sak~~~~v~~~f~~l~  158 (168)
T d2gjsa1         123 VSVDEGRACAVVF--DCKFIETSAALHHNVQALFEGVV  158 (168)
T ss_dssp             SCHHHHHHHHHHH--TSEEEECBTTTTBSHHHHHHHHH
T ss_pred             hhHHHHHHHHHhc--CCEEEEEeCCCCcCHHHHHHHHH
Confidence              23444444443  36899999999999999998875

>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=97.72  E-value=1.5e-05  Score=55.42  Aligned_cols=78  Identities=13%  Similarity=0.009  Sum_probs=50.8

Q ss_pred             cCceEEEEEeCCCCCCc---cc--------cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecC
Q 032030           64 LADYIIYIIDVSGGDKI---PR--------KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGW  132 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~---~~--------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~  132 (148)
                      .+|.++.+.|......+   ..        ...+.++  -++|.||+|+........+...+..++ ....+.+.+||++
T Consensus        74 ~~~~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~~~p--~ilvgnK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~e~Sak~  150 (167)
T d1c1ya_          74 NGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVP--MILVGNKCDLEDERVVGKEQGQNLARQ-WCNCAFLESSAKS  150 (167)
T ss_dssp             HCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCCC--EEEEEECTTCGGGCCSCHHHHHHHHHH-TTSCEEEECBTTT
T ss_pred             ccceeEEeeeccchhhhHhHHHHHHHHHHhcCCCCCe--EEEEEEecCcccccccchhHHHHHHHH-hCCCEEEEEcCCC
Confidence            36778999998764321   10        0112233  589999999976411222334444443 3567899999999


Q ss_pred             CCCHHHHHHhhh
Q 032030          133 VIGIIFTLSITH  144 (148)
Q Consensus       133 g~gi~~l~~~~~  144 (148)
                      |.|++++|++++
T Consensus       151 g~gv~e~F~~l~  162 (167)
T d1c1ya_         151 KINVNEIFYDLV  162 (167)
T ss_dssp             TBSHHHHHHHHH
T ss_pred             CcCHHHHHHHHH
Confidence            999999998875

>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=97.72  E-value=1.1e-05  Score=56.63  Aligned_cols=77  Identities=13%  Similarity=0.059  Sum_probs=50.9

Q ss_pred             cCceEEEEEeCCCCCCcc----------c-cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecC
Q 032030           64 LADYIIYIIDVSGGDKIP----------R-KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGW  132 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~----------~-~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~  132 (148)
                      .+|.++.+.|......+.          . .....++  -++|.||+|+.+.-....+...+..++.  +.+.+.|||++
T Consensus        77 ~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p--~ilvgnK~Dl~~~~~~~~~~~~~~~~~~--~~~~~e~Sak~  152 (173)
T d2fn4a1          77 AGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFP--VVLVGNKADLESQRQVPRSEASAFGASH--HVAYFEASAKL  152 (173)
T ss_dssp             HCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSSCCC--EEEEEECGGGGGGCCSCHHHHHHHHHHT--TCEEEECBTTT
T ss_pred             cceeeeeecccccccccchhhhhhHHHHHHhccCCCc--eEEEEEeechhhccccchhhhhHHHHhc--CCEEEEEeCCC
Confidence            357789999987653210          0 1122334  4788999998654112234555666543  47899999999


Q ss_pred             CCCHHHHHHhhh
Q 032030          133 VIGIIFTLSITH  144 (148)
Q Consensus       133 g~gi~~l~~~~~  144 (148)
                      |.|++++|+.++
T Consensus       153 g~gv~e~f~~l~  164 (173)
T d2fn4a1         153 RLNVDEAFEQLV  164 (173)
T ss_dssp             TBSHHHHHHHHH
T ss_pred             CcCHHHHHHHHH
Confidence            999999998875

>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=97.72  E-value=1.3e-05  Score=55.68  Aligned_cols=98  Identities=16%  Similarity=0.098  Sum_probs=57.8

Q ss_pred             CCEEEEecCCceeeeeec---cccCceEEEEEeCCCCCCcc---c-------cCCCCcceeeEEEEecCCCCCchhhhHH
Q 032030           44 ADLLLCESGGDNLAANFS---RELADYIIYIIDVSGGDKIP---R-------KGGPGITQADLLVINKTDLASAIGADLA  110 (148)
Q Consensus        44 ~D~IliEtsG~~~~~~~~---~~~~d~~i~vvDa~~~~~~~---~-------~~~~qi~~ADivViNK~DL~~~~~~~l~  110 (148)
                      +.+-+.++.|......+.   -..+|.++.|.|....+.+.   .       ......+  -++|.||+|+.+.-.-..+
T Consensus        52 ~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~~Sf~~~~~~~~~~~~~~~~~~~--~ilvgnK~Dl~~~~~v~~~  129 (167)
T d1z08a1          52 VNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEIC--LCIVGNKIDLEKERHVSIQ  129 (167)
T ss_dssp             EEEEEEECCCC-------CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGGSE--EEEEEECGGGGGGCCSCHH
T ss_pred             ceeeeeccCCcceecccchhhccCCceeEEEEeCCchhHHHhhhhhhhhcccccccccc--eeeeccccccccccccchH
Confidence            444455555543221111   13468889999987653211   0       0111222  4677899998654111234


Q ss_pred             HHHHHHHhcCCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          111 VMERDALRMRDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       111 ~~~~~i~~~np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                      +.++..++.+  .+.+.+||++|.|++++|++++-
T Consensus       130 e~~~~a~~~~--~~~~e~Sak~~~~v~e~F~~l~~  162 (167)
T d1z08a1         130 EAESYAESVG--AKHYHTSAKQNKGIEELFLDLCK  162 (167)
T ss_dssp             HHHHHHHHTT--CEEEEEBTTTTBSHHHHHHHHHH
T ss_pred             HHHHHHHHcC--CeEEEEecCCCcCHHHHHHHHHH
Confidence            5666666543  68999999999999999988763

>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=97.72  E-value=1.3e-05  Score=54.30  Aligned_cols=98  Identities=13%  Similarity=0.099  Sum_probs=59.0

Q ss_pred             CCCEEEEecCCceeeeee---ccccCceEEEEEeCCCCCCccc-----------cCCCCcceeeEEEEecCCCCCchhhh
Q 032030           43 KADLLLCESGGDNLAANF---SRELADYIIYIIDVSGGDKIPR-----------KGGPGITQADLLVINKTDLASAIGAD  108 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~~~---~~~~~d~~i~vvDa~~~~~~~~-----------~~~~qi~~ADivViNK~DL~~~~~~~  108 (148)
                      .+.+.+.++.|.......   .-...+.++.+.|.........           ......+  -+++.||.|+.+.  ..
T Consensus        43 ~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~--i~~v~~k~d~~~~--~~  118 (160)
T d1r8sa_          43 NISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAV--LLVFANKQDLPNA--MN  118 (160)
T ss_dssp             SCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTCE--EEEEEECTTSTTC--CC
T ss_pred             eEEEEEecCCCcccchhhhhhhhccceeEEEEEEecChHHHHHHHHHHHHHHHhhcccCce--EEEEeeccccccc--cc
Confidence            455566666664321000   1134677888898766432110           0111233  5899999999876  44


Q ss_pred             HHHHHHHHHh---cCCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          109 LAVMERDALR---MRDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       109 l~~~~~~i~~---~np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ..++......   .....+++++||+||+|++++|+++.
T Consensus       119 ~~~i~~~~~~~~~~~~~~~~~~~SAktg~gi~e~~~~l~  157 (160)
T d1r8sa_         119 AAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLS  157 (160)
T ss_dssp             HHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhCCCEEEEeECCCCCCHHHHHHHHH
Confidence            4444433321   12356899999999999999999874

>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=97.71  E-value=1.1e-05  Score=56.28  Aligned_cols=77  Identities=14%  Similarity=0.018  Sum_probs=50.8

Q ss_pred             cCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      .+|.++.+.|........          ....+.++  -++|.||+|+.+......+...+..+.  ...+++.+||++|
T Consensus        77 ~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p--iivv~nK~D~~~~~~~~~~~~~~~~~~--~~~~~~e~Sak~~  152 (174)
T d2bmea1          77 GAAGALLVYDITSRETYNALTNWLTDARMLASQNIV--IILCGNKKDLDADREVTFLEASRFAQE--NELMFLETSALTG  152 (174)
T ss_dssp             TCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE--EEEEEECGGGGGGCCSCHHHHHHHHHH--TTCEEEECCTTTC
T ss_pred             hCCEEEEEEecccchhHHHHhhhhcccccccCCceE--EEEEEecccccchhchhhhHHHHHHHh--CCCEEEEeeCCCC
Confidence            568889999987653211          11223455  689999999865411222334444443  3468999999999


Q ss_pred             CCHHHHHHhhh
Q 032030          134 IGIIFTLSITH  144 (148)
Q Consensus       134 ~gi~~l~~~~~  144 (148)
                      .|++++|+++.
T Consensus       153 ~gi~e~f~~l~  163 (174)
T d2bmea1         153 ENVEEAFVQCA  163 (174)
T ss_dssp             TTHHHHHHHHH
T ss_pred             cCHHHHHHHHH
Confidence            99999998753

>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=97.71  E-value=1.4e-05  Score=56.10  Aligned_cols=77  Identities=16%  Similarity=0.123  Sum_probs=50.1

Q ss_pred             cCceEEEEEeCCCCCCcc----------c-cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecC
Q 032030           64 LADYIIYIIDVSGGDKIP----------R-KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGW  132 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~----------~-~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~  132 (148)
                      .+|.++.|.|........          . ...+.++  -++|.||+||.+.-.-..+..++..+..  +.+.+.+||++
T Consensus        77 ~~~~~ilvfd~t~~~s~~~~~~~~~~i~~~~~~~~~p--iilvgnK~Dl~~~~~v~~~~~~~~a~~~--~~~~~e~Sak~  152 (172)
T d2g3ya1          77 VGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIP--IILVGNKSDLVRCREVSVSEGRACAVVF--DCKFIETSAAV  152 (172)
T ss_dssp             CCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGGTTSC--EEEEEECTTCGGGCCSCHHHHHHHHHHH--TCEEEECBTTT
T ss_pred             ccceeeeeecccccchhhhhhhhhhhhhhccccCCce--EEEEeccccccccccccHHHHHHHHHHc--CCeEEEEeCCC
Confidence            467788889986542210          0 1112455  5899999998654001123444444443  36899999999


Q ss_pred             CCCHHHHHHhhh
Q 032030          133 VIGIIFTLSITH  144 (148)
Q Consensus       133 g~gi~~l~~~~~  144 (148)
                      |.|++++|+.++
T Consensus       153 g~~i~~~f~~l~  164 (172)
T d2g3ya1         153 QHNVKELFEGIV  164 (172)
T ss_dssp             TBSHHHHHHHHH
T ss_pred             CcCHHHHHHHHH
Confidence            999999998875

>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=97.70  E-value=2.4e-05  Score=54.64  Aligned_cols=77  Identities=17%  Similarity=0.068  Sum_probs=51.7

Q ss_pred             cCceEEEEEeCCCCCCc---ccc--------CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecC
Q 032030           64 LADYIIYIIDVSGGDKI---PRK--------GGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGW  132 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~---~~~--------~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~  132 (148)
                      .+|.++.+.|......+   ...        ....++  -+++.||+|+...-.-..++..+..++.+  .+.+.+||++
T Consensus        75 ~~~~~llv~d~~d~~Sf~~~~~~~~~i~~~~~~~~~p--~ilvgnK~Dl~~~~~v~~e~~~~~~~~~~--~~~~e~Sak~  150 (169)
T d1x1ra1          75 TGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFP--MILVANKVDLMHLRKVTRDQGKEMATKYN--IPYIETSAKD  150 (169)
T ss_dssp             HCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSSCCC--EEEEEECTTCSTTCCSCHHHHHHHHHHHT--CCEEEEBCSS
T ss_pred             hccEEEEecccccchhhhccchhhHHHHhhccccCcc--EEEEecccchhhhceeehhhHHHHHHHcC--CEEEEEcCCC
Confidence            46788999998764321   110        112334  47889999997751112256677777665  6899999998


Q ss_pred             CC-CHHHHHHhhh
Q 032030          133 VI-GIIFTLSITH  144 (148)
Q Consensus       133 g~-gi~~l~~~~~  144 (148)
                      |. |++++|+.+.
T Consensus       151 ~~~nV~~~F~~l~  163 (169)
T d1x1ra1         151 PPLNVDKTFHDLV  163 (169)
T ss_dssp             SCBSHHHHHHHHH
T ss_pred             CCcCHHHHHHHHH
Confidence            86 9999998764

>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=97.69  E-value=1.5e-05  Score=55.62  Aligned_cols=77  Identities=14%  Similarity=0.025  Sum_probs=50.9

Q ss_pred             cCceEEEEEeCCCCCCc----------cccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKI----------PRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~----------~~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      .+|.++.|.|.......          ........+  -++|.||+|+.+......+...+..+..+  .+++++||++|
T Consensus        77 ~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~--~ilvgnK~D~~~~~~v~~~~~~~~~~~~~--~~~~~~SAktg  152 (171)
T d2ew1a1          77 SANALILTYDITCEESFRCLPEWLREIEQYASNKVI--TVLVGNKIDLAERREVSQQRAEEFSEAQD--MYYLETSAKES  152 (171)
T ss_dssp             TCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE--EEEEEECGGGGGGCSSCHHHHHHHHHHHT--CCEEECCTTTC
T ss_pred             ccceEEEeeecccchhhhhhhhhhhhhccccccccc--EEEEEeecccccccchhhhHHHHHHHhCC--CEEEEEccCCC
Confidence            56888999997664321          111223344  47888999986541122345555555433  58999999999


Q ss_pred             CCHHHHHHhhh
Q 032030          134 IGIIFTLSITH  144 (148)
Q Consensus       134 ~gi~~l~~~~~  144 (148)
                      .|++++|..++
T Consensus       153 ~gV~e~f~~l~  163 (171)
T d2ew1a1         153 DNVEKLFLDLA  163 (171)
T ss_dssp             TTHHHHHHHHH
T ss_pred             CCHHHHHHHHH
Confidence            99999998765

>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=97.69  E-value=2.1e-05  Score=53.00  Aligned_cols=79  Identities=11%  Similarity=0.061  Sum_probs=49.7

Q ss_pred             cCceEEEEEeCCCCCCcc---------ccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhc----------CCCCc
Q 032030           64 LADYIIYIIDVSGGDKIP---------RKGGPGITQADLLVINKTDLASAIGADLAVMERDALRM----------RDGGP  124 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~---------~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~----------np~a~  124 (148)
                      ..+..+.++|........         .........--+++.||.|+...  ....++.+.++..          ....+
T Consensus        67 ~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~~~~--~~~~~i~~~~~~~~~~~~~~~~~~~~~~  144 (166)
T d2qtvb1          67 EVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNA--VSEAELRSALGLLNTTGSQRIEGQRPVE  144 (166)
T ss_dssp             TCSEEEEEEETTCGGGHHHHHHHHHHHHTCTTTTTCCEEEEEECTTSSSC--CCHHHHHHHHTCSSCCC---CCSSCCEE
T ss_pred             heeeeeeeccccchhhhhhhhHHHHhhhhhhccCCceEEEEecccccccc--CCHHHHHHHhhhhhhhHHHhhcccCCCE
Confidence            356678889876543210         00111122225899999999775  4444554444211          12346


Q ss_pred             EEEEEecCCCCHHHHHHhhh
Q 032030          125 FIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       125 vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ++++||++|+|++|+|+|+.
T Consensus       145 ~~~~SA~tg~Gv~e~~~~l~  164 (166)
T d2qtvb1         145 VFMCSVVMRNGYLEAFQWLS  164 (166)
T ss_dssp             EEEEBTTTTBSHHHHHHHHT
T ss_pred             EEEeeCCCCCCHHHHHHHHh
Confidence            89999999999999999874

>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=97.67  E-value=5.2e-05  Score=57.37  Aligned_cols=73  Identities=15%  Similarity=0.026  Sum_probs=53.7

Q ss_pred             cCceEEEEEeCCCCCCc-----cccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHH
Q 032030           64 LADYIIYIIDVSGGDKI-----PRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIF  138 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~-----~~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~  138 (148)
                      .+|+++.|+||..+...     ..... .-+  -++|+||+||++.  ...+...++++..  ..+.+.+|+.++.|..+
T Consensus        15 ~~DvIl~V~DaR~P~ss~~~~l~~~~~-~Kp--~IlVlNK~DLv~~--~~~~~w~~~f~~~--~~~~i~isa~~~~~~~~   87 (273)
T d1puja_          15 LIDIVYELVDARIPMSSRNPMIEDILK-NKP--RIMLLNKADKADA--AVTQQWKEHFENQ--GIRSLSINSVNGQGLNQ   87 (273)
T ss_dssp             GCSEEEEEEETTSTTTTSCHHHHHHCS-SSC--EEEEEECGGGSCH--HHHHHHHHHHHTT--TCCEEECCTTTCTTGGG
T ss_pred             hCCEEEEEEECCCCCCCCCHHHHHHHc-CCC--eEEEEECccCCch--HHHHHHHHHHHhc--CCccceeecccCCCccc
Confidence            57999999999876432     11111 233  5999999999998  7777777777744  35778999999999987


Q ss_pred             HHHhh
Q 032030          139 TLSIT  143 (148)
Q Consensus       139 l~~~~  143 (148)
                      +.+..
T Consensus        88 ~~~~~   92 (273)
T d1puja_          88 IVPAS   92 (273)
T ss_dssp             HHHHH
T ss_pred             cchhh
Confidence            77654

>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=97.66  E-value=2e-05  Score=54.49  Aligned_cols=76  Identities=12%  Similarity=0.028  Sum_probs=49.2

Q ss_pred             CceEEEEEeCCCCCCcc-----------ccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcC-------------
Q 032030           65 ADYIIYIIDVSGGDKIP-----------RKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMR-------------  120 (148)
Q Consensus        65 ~d~~i~vvDa~~~~~~~-----------~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~n-------------  120 (148)
                      .+..+.++|........           .......+  .+++.||.|+...  .....+.+......             
T Consensus        81 ~~~~~~~~d~~d~~~~~~~~~~~~~~~~~~~~~~~~--~li~~~K~D~~~~--~~~~~i~~~~~~~~~~~~~~~~~~~~~  156 (186)
T d1f6ba_          81 INGIVFLVDCADHERLLESKEELDSLMTDETIANVP--ILILGNKIDRPEA--ISEERLREMFGLYGQTTGKGSVSLKEL  156 (186)
T ss_dssp             CSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSC--EEEEEECTTSTTC--CCHHHHHHHHTCTTTCCCSSCCCTTTC
T ss_pred             cceeeeeeeccCccchHHHHHHHHHhhcccccCCCc--eEEEEeccCcccc--CCHHHHHHHHhhcccchhhhhhhHHHh
Confidence            46678888876542210           00112344  6999999999776  44455555443211             


Q ss_pred             --CCCcEEEEEecCCCCHHHHHHhhh
Q 032030          121 --DGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       121 --p~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                        ...+++++||++|+|++|+|+|+.
T Consensus       157 ~~~~~~~~~~SA~tg~Gi~e~~~~l~  182 (186)
T d1f6ba_         157 NARPLEVFMCSVLKRQGYGEGFRWMA  182 (186)
T ss_dssp             CSCCEEEEECBTTTTBSHHHHHHHHH
T ss_pred             hcCCCEEEEEeCCCCCCHHHHHHHHH
Confidence              123689999999999999999874

>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=97.63  E-value=2e-05  Score=54.68  Aligned_cols=76  Identities=18%  Similarity=0.180  Sum_probs=50.7

Q ss_pred             cCceEEEEEeCCCCCCc---c-------c-cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecC
Q 032030           64 LADYIIYIIDVSGGDKI---P-------R-KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGW  132 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~---~-------~-~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~  132 (148)
                      .++.++.+.|.......   .       . ...+.++  -++|.||+|+.... ...+.+.+..+..  +.+++++||++
T Consensus        74 ~~~~~iiv~d~~~~~s~~~~~~~~~~i~~~~~~~~~p--iilv~nK~Dl~~~~-~~~~~~~~~~~~~--~~~~~e~Sak~  148 (166)
T d1ctqa_          74 TGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVP--MVLVGNKCDLAART-VESRQAQDLARSY--GIPYIETSAKT  148 (166)
T ss_dssp             HCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSSCC--EEEEEECTTCSCCC-SCHHHHHHHHHHH--TCCEEECCTTT
T ss_pred             cccccceeecccccccHHHHHHHHHHHHHhcCCCCCe--EEEEeccccccccc-ccHHHHHHHHHHh--CCeEEEEcCCC
Confidence            35777888998754221   0       0 1122345  58999999997641 1223455555544  36899999999


Q ss_pred             CCCHHHHHHhhh
Q 032030          133 VIGIIFTLSITH  144 (148)
Q Consensus       133 g~gi~~l~~~~~  144 (148)
                      |.|++++|.+++
T Consensus       149 g~gi~e~f~~i~  160 (166)
T d1ctqa_         149 RQGVEDAFYTLV  160 (166)
T ss_dssp             CTTHHHHHHHHH
T ss_pred             CcCHHHHHHHHH
Confidence            999999998875

>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=97.63  E-value=3.2e-05  Score=56.12  Aligned_cols=99  Identities=12%  Similarity=0.113  Sum_probs=57.4

Q ss_pred             CCCEEEEecCCceee-ee-e-ccccCceEEEEEeCCCCCCcccc----CCCCccee-eEEEEecCCCCCchhhh-HHH--
Q 032030           43 KADLLLCESGGDNLA-AN-F-SRELADYIIYIIDVSGGDKIPRK----GGPGITQA-DLLVINKTDLASAIGAD-LAV--  111 (148)
Q Consensus        43 ~~D~IliEtsG~~~~-~~-~-~~~~~d~~i~vvDa~~~~~~~~~----~~~qi~~A-DivViNK~DL~~~~~~~-l~~--  111 (148)
                      +.-+-++.|.|-... .. . .-..+|..+.|||+..|..-+..    +...+... -++++||.|++++  .+ .+.  
T Consensus        65 ~~~~~~iDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~QT~~~~~~a~~~~~~~iIv~iNK~D~~~~--~~~~~~i~  142 (196)
T d1d2ea3          65 ARHYAHTDCPGHADYVKNMITGTAPLDGCILVVAANDGPMPQTREHLLLARQIGVEHVVVYVNKADAVQD--SEMVELVE  142 (196)
T ss_dssp             SCEEEEEECSSHHHHHHHHHHTSSCCSEEEEEEETTTCSCHHHHHHHHHHHHTTCCCEEEEEECGGGCSC--HHHHHHHH
T ss_pred             eeeEEeecCcchHHHHHHHHHHHhhcCeEEEEEEcCCCCchhHHHHHHHHHHhcCCcEEEEEeccccccc--HHHHHHHH
Confidence            344556666663210 00 0 01357999999999988542211    00001111 3567999999875  33 233  


Q ss_pred             --HHHHHHhcC--C-CCcEEEEEecCC----------CCHHHHHHhh
Q 032030          112 --MERDALRMR--D-GGPFIFAQVGWV----------IGIIFTLSIT  143 (148)
Q Consensus       112 --~~~~i~~~n--p-~a~vi~tSa~~g----------~gi~~l~~~~  143 (148)
                        +.+.+....  | .+|++++||++|          .++++|++.+
T Consensus       143 ~~i~~~l~~~~~~~~~~pii~iSa~~g~~~~~~~~~~~~~~~Lldai  189 (196)
T d1d2ea3         143 LEIRELLTEFGYKGEETPIIVGSALCALEQRDPELGLKSVQKLLDAV  189 (196)
T ss_dssp             HHHHHHHHHTTSCTTTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCcccCEEEEEEccccccccCcccccCCHHHHHHHH
Confidence              344444333  2 478999999988          4888888865

>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=97.62  E-value=1.1e-05  Score=56.11  Aligned_cols=75  Identities=16%  Similarity=0.003  Sum_probs=51.4

Q ss_pred             cCceEEEEEeCCCCCCcc----------c-cCCCCcceeeEEEEecCCCCCchhhh--HHHHHHHHHhcCCCCcEEEEEe
Q 032030           64 LADYIIYIIDVSGGDKIP----------R-KGGPGITQADLLVINKTDLASAIGAD--LAVMERDALRMRDGGPFIFAQV  130 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~----------~-~~~~qi~~ADivViNK~DL~~~~~~~--l~~~~~~i~~~np~a~vi~tSa  130 (148)
                      .+|.++++.|......+.          . .....++  -++|.||+|+...  ..  .+...+..++.+  .+.+.+||
T Consensus        75 ~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~p--iilvgnK~Dl~~~--r~v~~~~~~~~a~~~~--~~~~e~Sa  148 (167)
T d1xtqa1          75 DINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIP--IMLVGNKKDLHME--RVISYEEGKALAESWN--AAFLESSA  148 (167)
T ss_dssp             SCCEEEEEEETTCHHHHHHHHHHHHHHHHHHCSSCCC--EEEEEECTTCGGG--CCSCHHHHHHHHHHHT--CEEEECCT
T ss_pred             hhhhhhhhcccchhhhhhhhhhhhhhhhhcccccccc--eeeeccccccccc--cchhHHHHHHHHHHcC--CEEEEEec
Confidence            568889999987653211          1 1122344  5899999998653  22  344555555544  68899999


Q ss_pred             cCCCCHHHHHHhhh
Q 032030          131 GWVIGIIFTLSITH  144 (148)
Q Consensus       131 ~~g~gi~~l~~~~~  144 (148)
                      ++|.|++++|+.+.
T Consensus       149 k~~~~v~~~f~~li  162 (167)
T d1xtqa1         149 KENQTAVDVFRRII  162 (167)
T ss_dssp             TCHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHH
Confidence            99999999998764

>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=97.61  E-value=1.2e-05  Score=56.35  Aligned_cols=78  Identities=15%  Similarity=0.108  Sum_probs=47.6

Q ss_pred             cCceEEEEEeCCCCCCc----------cccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKI----------PRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~----------~~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      .+|.++.++|.......          ........+  -++|.||.|+........+...+..+.  .+.+++.+||++|
T Consensus        78 ~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~--iilv~~k~D~~~~~~~~~~~~~~~~~~--~~~~~~e~Sa~~g  153 (173)
T d2fu5c1          78 GAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVE--KMILGNKCDVNDKRQVSKERGEKLALD--YGIKFMETSAKAN  153 (173)
T ss_dssp             TCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCE--EEEEEEC--CCSCCCSCHHHHHHHHHH--HTCEEEECCC---
T ss_pred             CCCEEEEEEECCChhhHHHHHHHHHHhhhhccCCce--EEEEEecccchhhcccHHHHHHHHHHh--cCCEEEEEeCCCC
Confidence            46889999998765321          011122333  689999999987511222344444443  4578999999999


Q ss_pred             CCHHHHHHhhhh
Q 032030          134 IGIIFTLSITHY  145 (148)
Q Consensus       134 ~gi~~l~~~~~~  145 (148)
                      .|++++|++++-
T Consensus       154 ~gv~e~f~~l~~  165 (173)
T d2fu5c1         154 INVENAFFTLAR  165 (173)
T ss_dssp             CCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHH
Confidence            999999998763

>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=97.60  E-value=2e-05  Score=56.22  Aligned_cols=77  Identities=21%  Similarity=0.132  Sum_probs=51.2

Q ss_pred             cCceEEEEEeCCCCCCc----------cccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKI----------PRKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~----------~~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      .+|.+++|+|+......          .......++  -++|.||.|+.+......+......+.  ...+.+++||++|
T Consensus        78 ~a~~~i~v~d~t~~~s~~~~~~~~~~~~~~~~~~~~--iilv~nK~D~~~~~~~~~~~~~~~~~~--~~~~~~e~SAk~g  153 (194)
T d2bcgy1          78 GSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVL--KLLVGNKCDLKDKRVVEYDVAKEFADA--NKMPFLETSALDS  153 (194)
T ss_dssp             TCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCE--EEEEEECTTCTTTCCSCHHHHHHHHHH--TTCCEEECCTTTC
T ss_pred             cCCEEEEEEeCcchhhhhhHhhhhhhhhhcccCCce--EEEEEeccccccccchhHHHHhhhhhc--cCcceEEEecCcC
Confidence            46888999998754321          111222344  689999999987511222334444443  4468899999999


Q ss_pred             CCHHHHHHhhh
Q 032030          134 IGIIFTLSITH  144 (148)
Q Consensus       134 ~gi~~l~~~~~  144 (148)
                      .|++++|+.+.
T Consensus       154 ~gi~e~f~~l~  164 (194)
T d2bcgy1         154 TNVEDAFLTMA  164 (194)
T ss_dssp             TTHHHHHHHHH
T ss_pred             ccHHHHHHHHH
Confidence            99999998774

>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=97.55  E-value=6.1e-05  Score=53.22  Aligned_cols=76  Identities=12%  Similarity=0.126  Sum_probs=49.8

Q ss_pred             cCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhh--------------HHHHHHHHHhc
Q 032030           64 LADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGAD--------------LAVMERDALRM  119 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~--------------l~~~~~~i~~~  119 (148)
                      .+|.++.|.|..+.+.+.          ....+.++  -++|.||+||.+.  ..              .+...+..++.
T Consensus        80 ~a~~~ilv~d~t~~~Sf~~~~~~~~~~~~~~~~~~~--~ilvgnK~Dl~~~--~~~~~~~~~~~~r~v~~~~~~~~a~~~  155 (185)
T d2atxa1          80 MTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVP--FLLIGTQIDLRDD--PKTLARLNDMKEKPICVEQGQKLAKEI  155 (185)
T ss_dssp             TCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTCC--EEEEEECTTSTTC--HHHHHHHTTTTCCCCCHHHHHHHHHHH
T ss_pred             ccceeeeccccchHHHHHHHHHHHHHHHHhcCCCCC--eeEeeeccccccc--hhhhhhhhhcccccccHHHHHHHHHHc
Confidence            468889999987643211          01122333  4788999999864  21              12333444443


Q ss_pred             CCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          120 RDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       120 np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      + ..+.+.|||++|.|++++|+.+.
T Consensus       156 ~-~~~~~E~SAk~~~gv~e~F~~li  179 (185)
T d2atxa1         156 G-ACCYVECSALTQKGLKTVFDEAI  179 (185)
T ss_dssp             T-CSCEEECCTTTCTTHHHHHHHHH
T ss_pred             C-CCEEEEecCCCCcCHHHHHHHHH
Confidence            3 35788999999999999998765

>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=97.54  E-value=9.2e-06  Score=60.94  Aligned_cols=75  Identities=11%  Similarity=0.018  Sum_probs=47.8

Q ss_pred             CceEEEEEeCCCCCCcc---cc-----CCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhc--CCCCcEEEEEecCCC
Q 032030           65 ADYIIYIIDVSGGDKIP---RK-----GGPGITQADLLVINKTDLASAIGADLAVMERDALRM--RDGGPFIFAQVGWVI  134 (148)
Q Consensus        65 ~d~~i~vvDa~~~~~~~---~~-----~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~--np~a~vi~tSa~~g~  134 (148)
                      .|.++.|+++.+++--.   .+     ....++  -+||+||+||.+.  .+.+...+.+.+.  ..+.+++.+|++++.
T Consensus        11 iD~~~iV~s~~~P~~~~~~idR~Lv~a~~~~i~--pvIvlnK~DL~~~--~~~~~~~~~~~~~y~~~g~~v~~~Sa~~~~   86 (231)
T d1t9ha2          11 VDQAVLVFSAVQPSFSTALLDRFLVLVEANDIQ--PIICITKMDLIED--QDTEDTIQAYAEDYRNIGYDVYLTSSKDQD   86 (231)
T ss_dssp             CCEEEEEEESTTTTCCHHHHHHHHHHHHTTTCE--EEEEEECGGGCCC--HHHHHHHHHHHHHHHHHTCCEEECCHHHHT
T ss_pred             cCEEEEEEECCCCCCCHHHHHHHHHHHHHcCCC--EEEEEeccccccc--HHHHHHHHHHHHHHhhccccceeeecCChh
Confidence            46677777776543211   00     122344  5999999999987  5544333222221  235799999999999


Q ss_pred             CHHHHHHhh
Q 032030          135 GIIFTLSIT  143 (148)
Q Consensus       135 gi~~l~~~~  143 (148)
                      |+++|.+++
T Consensus        87 gl~~L~~~l   95 (231)
T d1t9ha2          87 SLADIIPHF   95 (231)
T ss_dssp             TCTTTGGGG
T ss_pred             HHHHHHHhh
Confidence            999987654

>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=97.53  E-value=6.3e-05  Score=55.59  Aligned_cols=92  Identities=17%  Similarity=0.154  Sum_probs=54.3

Q ss_pred             CEEEEecCCceee-eee--ccccCceEEEEEeCCCCCCcccc------CCCCcceeeEEEEecCCCCCchhhhH----HH
Q 032030           45 DLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDKIPRK------GGPGITQADLLVINKTDLASAIGADL----AV  111 (148)
Q Consensus        45 D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~~~~~------~~~qi~~ADivViNK~DL~~~~~~~l----~~  111 (148)
                      .+-+|.+.|=... .+.  .-..+|..+.||||..|..-+..      ....++ --++++||.|+.+......    +.
T Consensus        90 ~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~Qt~e~~~~~~~~gv~-~iiv~vNK~D~~~~~~~~~~~~~~~  168 (222)
T d1zunb3          90 KFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRRHSYIASLLGIK-HIVVAINKMDLNGFDERVFESIKAD  168 (222)
T ss_dssp             EEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHHHHHHHHHTTCC-EEEEEEECTTTTTSCHHHHHHHHHH
T ss_pred             EEEEEeccchhhhhhhhccccccCceEEEEeccccCcccchHHHHHHHHHcCCC-EEEEEEEccccccccceehhhhHHH
Confidence            4667777774321 111  11367999999999988652211      011222 1478999999988522222    23


Q ss_pred             HHHHHHhcC--C-CCcEEEEEecCCCCHH
Q 032030          112 MERDALRMR--D-GGPFIFAQVGWVIGII  137 (148)
Q Consensus       112 ~~~~i~~~n--p-~a~vi~tSa~~g~gi~  137 (148)
                      +...+++..  + ..+++|+||++|.|+.
T Consensus       169 l~~~~~~~~~~~~~i~~IPiSA~~G~ni~  197 (222)
T d1zunb3         169 YLKFAEGIAFKPTTMAFVPMSALKGDNVV  197 (222)
T ss_dssp             HHHHHHTTTCCCSEEEEEECCTTTCTTTS
T ss_pred             HhhhhHhhccCCCceEEEEEEcccCccCC
Confidence            444554443  2 2477999999999883

>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=97.46  E-value=4.2e-05  Score=53.22  Aligned_cols=77  Identities=18%  Similarity=0.100  Sum_probs=50.1

Q ss_pred             cCceEEEEEeCCCCCCc---cc--------cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecC
Q 032030           64 LADYIIYIIDVSGGDKI---PR--------KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGW  132 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~---~~--------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~  132 (148)
                      .+|.++.+.|....+..   ..        ......+  -++|.||+||.+.-.-..+...+..++.+  .+.+.+||++
T Consensus        72 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~p--iilvgnK~Dl~~~r~V~~~e~~~~a~~~~--~~~~e~Sakt  147 (168)
T d2atva1          72 WGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVT--LILVGNKADLDHSRQVSTEEGEKLATELA--CAFYECSACT  147 (168)
T ss_dssp             HCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTSCCC--EEEEEECGGGGGGCCSCHHHHHHHHHHHT--SEEEECCTTT
T ss_pred             ccccceeecccCCccchhhhhhhcccccccccccCcc--eeeeccchhhhhhccCcHHHHHHHHHHhC--CeEEEEcccc
Confidence            46778999998764321   00        1122344  68999999986430012234555555544  6899999999


Q ss_pred             CCC-HHHHHHhhh
Q 032030          133 VIG-IIFTLSITH  144 (148)
Q Consensus       133 g~g-i~~l~~~~~  144 (148)
                      |.| ++++|..++
T Consensus       148 g~gnV~e~F~~l~  160 (168)
T d2atva1         148 GEGNITEIFYELC  160 (168)
T ss_dssp             CTTCHHHHHHHHH
T ss_pred             CCcCHHHHHHHHH
Confidence            985 999998664

>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=97.43  E-value=9.6e-05  Score=51.54  Aligned_cols=76  Identities=17%  Similarity=0.137  Sum_probs=49.5

Q ss_pred             cCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhhH--------------HHHHHHHHhc
Q 032030           64 LADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGADL--------------AVMERDALRM  119 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~l--------------~~~~~~i~~~  119 (148)
                      .+|.++.+.|......+.          ....+.++  -++|.||+|+.+.  ...              +...+..++ 
T Consensus        73 ~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~p--iilvgnK~Dl~~~--~~~~~~~~~~~~~~v~~~e~~~~a~~-  147 (177)
T d1kmqa_          73 DTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVP--IILVGNKKDLRND--EHTRRELAKMKQEPVKPEEGRDMANR-  147 (177)
T ss_dssp             TCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSC--EEEEEECGGGTTC--HHHHHHHHHTTCCCCCHHHHHHHHHH-
T ss_pred             cchhhhhhcccchhHHHHHHHHHHHHHHHHhCCCCc--eEEeeecccccch--hhHHHHHHHhhcccccHHHHHHHHHH-
Confidence            468889999987643210          11223455  5788899999765  321              122333333 


Q ss_pred             CCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          120 RDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       120 np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ....+.+.|||++|.|++++|+.++
T Consensus       148 ~~~~~~~E~SAkt~~gi~e~F~~i~  172 (177)
T d1kmqa_         148 IGAFGYMECSAKTKDGVREVFEMAT  172 (177)
T ss_dssp             TTCSEEEECCTTTCTTHHHHHHHHH
T ss_pred             cCCcEEEEecCCCCcCHHHHHHHHH
Confidence            2335789999999999999998765

>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=97.42  E-value=9.2e-05  Score=51.31  Aligned_cols=77  Identities=17%  Similarity=0.105  Sum_probs=51.9

Q ss_pred             cCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCC
Q 032030           64 LADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWV  133 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g  133 (148)
                      .+|.++.+.|........          .......  .-++|.||.|+.....-..++..+..+..+  .+++++||++|
T Consensus        79 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~--~iilv~~k~d~~~~~~v~~~~~~~~~~~~~--~~~~e~Sak~g  154 (170)
T d2g6ba1          79 DAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDV--ALMLLGNKVDSAHERVVKREDGEKLAKEYG--LPFMETSAKTG  154 (170)
T ss_dssp             GCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTC--EEEEEEECCSTTSCCCSCHHHHHHHHHHHT--CCEEECCTTTC
T ss_pred             CCceeEEEecCCcccchhhhhhhhhhhhhccCCCc--eEEEEEeeechhhcccccHHHHHHHHHHcC--CEEEEEeCCCC
Confidence            467788999987543210          1112223  357888999987752222345556666544  68999999999


Q ss_pred             CCHHHHHHhhh
Q 032030          134 IGIIFTLSITH  144 (148)
Q Consensus       134 ~gi~~l~~~~~  144 (148)
                      .|++++|++++
T Consensus       155 ~gi~e~f~~l~  165 (170)
T d2g6ba1         155 LNVDLAFTAIA  165 (170)
T ss_dssp             TTHHHHHHHHH
T ss_pred             cCHHHHHHHHH
Confidence            99999998864

>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=97.40  E-value=3.5e-05  Score=54.28  Aligned_cols=76  Identities=14%  Similarity=0.061  Sum_probs=48.9

Q ss_pred             cCceEEEEEeCCCCCCcc----------ccCCCCcceeeEEEEecCCCCCchhhhH--------------HHHHHHHHhc
Q 032030           64 LADYIIYIIDVSGGDKIP----------RKGGPGITQADLLVINKTDLASAIGADL--------------AVMERDALRM  119 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~----------~~~~~qi~~ADivViNK~DL~~~~~~~l--------------~~~~~~i~~~  119 (148)
                      .+|.++.+.|....+.+.          ..+...++  -++|.||+|+.++  ...              .......++.
T Consensus        76 ~~~~~ilv~d~~~~~sf~~i~~~~~~~~~~~~~~~p--iilvgnK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~  151 (183)
T d1mh1a_          76 QTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTP--IILVGTKLDLRDD--KDTIEKLKEKKLTPITYPQGLAMAKEI  151 (183)
T ss_dssp             TCSEEEEEEETTCHHHHHHHHHTHHHHHHHHSTTSC--EEEEEECHHHHTC--HHHHHHHHHTTCCCCCHHHHHHHHHHT
T ss_pred             ccceeeeeeccchHHHHHHHHHHHHHHHHHhCCCCc--EEEEeecccchhh--hhhhhhhhhccccchhhHHHHHHHHHc
Confidence            467889999987643210          11123445  5889999998765  322              1222223322


Q ss_pred             CCCCcEEEEEecCCCCHHHHHHhhh
Q 032030          120 RDGGPFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       120 np~a~vi~tSa~~g~gi~~l~~~~~  144 (148)
                       ...+.+.+||++|.|++++|+.++
T Consensus       152 -~~~~~~E~SAk~~~~V~e~F~~l~  175 (183)
T d1mh1a_         152 -GAVKYLECSALTQRGLKTVFDEAI  175 (183)
T ss_dssp             -TCSEEEECCTTTCTTHHHHHHHHH
T ss_pred             -CCceEEEcCCCCCcCHHHHHHHHH
Confidence             336889999999999999998764

>d1r5ba3 c.37.1.8 (A:215-459) Eukaryotic peptide chain release factor ERF2, G domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Eukaryotic peptide chain release factor ERF2, G domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=97.24  E-value=7.6e-05  Score=55.82  Aligned_cols=97  Identities=18%  Similarity=0.143  Sum_probs=53.2

Q ss_pred             CCEEEEecCCceee-eee--ccccCceEEEEEeCCCCCCccc-cCCC------------CcceeeEEEEecCCCCCc--h
Q 032030           44 ADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDKIPR-KGGP------------GITQADLLVINKTDLASA--I  105 (148)
Q Consensus        44 ~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~~~~-~~~~------------qi~~ADivViNK~DL~~~--~  105 (148)
                      ..+-++.|.|-... ...  ....+|..+.|||+.+|..-+. ...+            .++. =++++||.|+.+.  .
T Consensus       102 ~~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~~~i~~-iiv~iNKmD~~~~~~~  180 (245)
T d1r5ba3         102 RRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINH-LVVVINKMDEPSVQWS  180 (245)
T ss_dssp             EEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSS-EEEEEECTTSTTCSSC
T ss_pred             ceeeeecccccccchhhhhhhhhhhcceeeEEEcCCCccCCccccccchHHHHHHHHHcCCCe-EEEEEEcCCCCccchh
Confidence            34666666664321 111  1246789999999988731100 0011            1221 2688999999753  0


Q ss_pred             hhhH----HHHHHHHHhc---CC--CCcEEEEEecCCCCHHHHHH
Q 032030          106 GADL----AVMERDALRM---RD--GGPFIFAQVGWVIGIIFTLS  141 (148)
Q Consensus       106 ~~~l----~~~~~~i~~~---np--~a~vi~tSa~~g~gi~~l~~  141 (148)
                      ....    +++.+.++++   ++  ..+++|+||++|.|+.++++
T Consensus       181 e~~~~ei~~~l~~~l~~i~~~~~~~~v~~VPiSA~~G~nI~~~~~  225 (245)
T d1r5ba3         181 EERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRVD  225 (245)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCCC
T ss_pred             HHHHHHHHHHHHHHHHHHhCcCcccCCEEEEeeccCCCCcccchh
Confidence            1222    3344444433   23  35799999999999987654

>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=97.18  E-value=0.00028  Score=49.10  Aligned_cols=78  Identities=21%  Similarity=0.060  Sum_probs=51.1

Q ss_pred             cCceEEEEEeCCCCCCc-------cc--cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCC
Q 032030           64 LADYIIYIIDVSGGDKI-------PR--KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVI  134 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~-------~~--~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~  134 (148)
                      ..|.++.++|.......       ..  .........-+++.||.|..... ...+...+..++.+  .+++++||++|.
T Consensus        79 ~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~~~~~-v~~~~~~~~~~~~~--~~~~e~Sa~tg~  155 (177)
T d1x3sa1          79 GAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKENRE-VDRNEGLKFARKHS--MLFIEASAKTCD  155 (177)
T ss_dssp             TCCEEEEEEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSSCC-SCHHHHHHHHHHTT--CEEEECCTTTCT
T ss_pred             cCCEEEEEEECCCccccccchhhhhhhcccccccceeeEEEeecccccccc-ccHHHHHHHHHHCC--CEEEEEeCCCCC
Confidence            46888999997654221       00  11112223358999999976540 12234556666544  689999999999


Q ss_pred             CHHHHHHhhh
Q 032030          135 GIIFTLSITH  144 (148)
Q Consensus       135 gi~~l~~~~~  144 (148)
                      |++++|+++.
T Consensus       156 gv~e~f~~l~  165 (177)
T d1x3sa1         156 GVQCAFEELV  165 (177)
T ss_dssp             THHHHHHHHH
T ss_pred             CHHHHHHHHH
Confidence            9999998764

>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=97.02  E-value=0.00026  Score=48.85  Aligned_cols=79  Identities=15%  Similarity=-0.069  Sum_probs=49.5

Q ss_pred             cCceEEEEEeCCCCCCc---ccc-----CCCCcceeeEEEEecCCCCCchh---hhHHHHHHHHHhcCCCCcEEEEEecC
Q 032030           64 LADYIIYIIDVSGGDKI---PRK-----GGPGITQADLLVINKTDLASAIG---ADLAVMERDALRMRDGGPFIFAQVGW  132 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~---~~~-----~~~qi~~ADivViNK~DL~~~~~---~~l~~~~~~i~~~np~a~vi~tSa~~  132 (148)
                      .+|.++.+.|.......   ...     ....-...-+++.||+|+.+...   -..+...+..+..+  .+.+.+||++
T Consensus        75 ~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~v~nk~d~~~~~~~~~v~~~~~~~~~~~~~--~~~~e~Sak~  152 (170)
T d1ek0a_          75 NAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEGGERKVAREEGEKLAEEKG--LLFFETSAKT  152 (170)
T ss_dssp             TCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHT--CEEEECCTTT
T ss_pred             ccceEEEEEeCCcccchhhhhhhhhhhccccccccceeeeecccccccccchhhhhHHHHHHHHHHcC--CEEEEecCCC
Confidence            46888999998764321   000     00111223588999999854300   12234555555443  6899999999


Q ss_pred             CCCHHHHHHhhh
Q 032030          133 VIGIIFTLSITH  144 (148)
Q Consensus       133 g~gi~~l~~~~~  144 (148)
                      |.|++++|..++
T Consensus       153 g~gV~e~F~~i~  164 (170)
T d1ek0a_         153 GENVNDVFLGIG  164 (170)
T ss_dssp             CTTHHHHHHHHH
T ss_pred             CcCHHHHHHHHH
Confidence            999999998764

>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=96.87  E-value=0.00059  Score=48.02  Aligned_cols=77  Identities=14%  Similarity=0.087  Sum_probs=50.3

Q ss_pred             cCceEEEEEeCCCCCCc---cc-------cCCCCcceeeEEEEecCCCCCchhhh--------------HHHHHHHHHhc
Q 032030           64 LADYIIYIIDVSGGDKI---PR-------KGGPGITQADLLVINKTDLASAIGAD--------------LAVMERDALRM  119 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~---~~-------~~~~qi~~ADivViNK~DL~~~~~~~--------------l~~~~~~i~~~  119 (148)
                      .+|.++.+.|..+.+.+   ..       ...+.++  -++|.||+||.+.  ..              .+...++.++.
T Consensus        74 ~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~~--i~lvgnK~Dl~~~--~~~~~~~~~~~~~~v~~~~~~~~~~~~  149 (191)
T d2ngra_          74 QTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTP--FLLVGTQIDLRDD--PSTIEKLAKNKQKPITPETAEKLARDL  149 (191)
T ss_dssp             TCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCC--EEEEEECGGGGGC--HHHHHHHHTTTCCCCCHHHHHHHHHHT
T ss_pred             ccceeecccccchHHHHHHHHHHHHHHHhhcCCCCc--eEEEecccccccc--chhhhhhhhcccccccHHHHHHHHHHc
Confidence            46888999998765321   10       1122344  4799999998653  21              12233344433


Q ss_pred             CCCCcEEEEEecCCCCHHHHHHhhhh
Q 032030          120 RDGGPFIFAQVGWVIGIIFTLSITHY  145 (148)
Q Consensus       120 np~a~vi~tSa~~g~gi~~l~~~~~~  145 (148)
                       ...+.+.+||++|.|++++|+.+..
T Consensus       150 -~~~~~~e~SAk~~~~V~e~f~~l~~  174 (191)
T d2ngra_         150 -KAVKYVECSALTQKGLKNVFDEAIL  174 (191)
T ss_dssp             -TCSCEEECCTTTCTTHHHHHHHHHH
T ss_pred             -CCCeEEEEeCCCCcCHHHHHHHHHH
Confidence             3357899999999999999998764

>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=96.86  E-value=0.00041  Score=47.59  Aligned_cols=75  Identities=21%  Similarity=0.101  Sum_probs=50.1

Q ss_pred             cCceEEEEEeCCCCCCc---c-------ccCCCCcceeeEEEEecCCCCCchhhhH-HHHHHHHHhcCCCCcEEEEEecC
Q 032030           64 LADYIIYIIDVSGGDKI---P-------RKGGPGITQADLLVINKTDLASAIGADL-AVMERDALRMRDGGPFIFAQVGW  132 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~---~-------~~~~~qi~~ADivViNK~DL~~~~~~~l-~~~~~~i~~~np~a~vi~tSa~~  132 (148)
                      .+|.++.++|.......   .       .......+  -+++.||.|+.+.  ... +...+..++.  +.+++++||++
T Consensus        74 ~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~--~i~~~~k~d~~~~--~~~~~~~~~~~~~~--~~~~~~~Sa~~  147 (166)
T d1g16a_          74 GAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQ--LLLVGNKSDMETR--VVTADQGEALAKEL--GIPFIESSAKN  147 (166)
T ss_dssp             TEEEEEEEEETTCHHHHHTHHHHHHHHHHHSCTTCE--EEEEEECTTCTTC--CSCHHHHHHHHHHH--TCCEEECBTTT
T ss_pred             cCCEEEEEEECCCccCHHHHHhhhhhhhccccCcce--eeeecchhhhhhh--hhhHHHHHHHHHhc--CCeEEEECCCC
Confidence            35778999998765321   1       11122333  5889999998765  322 3444444433  47999999999


Q ss_pred             CCCHHHHHHhhh
Q 032030          133 VIGIIFTLSITH  144 (148)
Q Consensus       133 g~gi~~l~~~~~  144 (148)
                      |.|++++|+++.
T Consensus       148 ~~~v~e~f~~l~  159 (166)
T d1g16a_         148 DDNVNEIFFTLA  159 (166)
T ss_dssp             TBSHHHHHHHHH
T ss_pred             CCCHHHHHHHHH
Confidence            999999998875

>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=96.79  E-value=0.0011  Score=46.38  Aligned_cols=78  Identities=12%  Similarity=0.121  Sum_probs=48.1

Q ss_pred             cCceEEEEEeCCCCCCc---cc----------cCCCCcceeeEEEEecCCCCCchhhh--HHHHHHHHHhcCCCCcEEEE
Q 032030           64 LADYIIYIIDVSGGDKI---PR----------KGGPGITQADLLVINKTDLASAIGAD--LAVMERDALRMRDGGPFIFA  128 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~---~~----------~~~~qi~~ADivViNK~DL~~~~~~~--l~~~~~~i~~~np~a~vi~t  128 (148)
                      .+|.+++|.|......+   ..          ..+..++  -++|.||.|+-......  -++..+..++ ..+.+.+++
T Consensus        70 ~ad~~ilVfd~~~~~Sf~~~~~~~~~i~~~~~~~~~~~p--i~lV~~k~d~d~~~~~~v~~~~~~~~~~~-~~~~~~~e~  146 (175)
T d2bmja1          70 WADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLA--LALVGTQDRISASSPRVVGDARARALCAD-MKRCSYYET  146 (175)
T ss_dssp             HCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC--CCCCE--EEEEEECTTCCSSSCCCSCHHHHHHHHHT-STTEEEEEE
T ss_pred             ccceeEEEeecccchhhhhhHHHHHHHHHHhhcccCCcc--EEEEeeecCcchhhhcchhHHHHHHHHHH-hCCCeEEEe
Confidence            46888999998765321   00          1122344  46888888874320011  1234444443 345689999


Q ss_pred             EecCCCCHHHHHHhhh
Q 032030          129 QVGWVIGIIFTLSITH  144 (148)
Q Consensus       129 Sa~~g~gi~~l~~~~~  144 (148)
                      ||++|.|++++|..++
T Consensus       147 SAk~~~~v~~~F~~l~  162 (175)
T d2bmja1         147 CATYGLNVDRVFQEVA  162 (175)
T ss_dssp             BTTTTBTHHHHHHHHH
T ss_pred             CCCCCcCHHHHHHHHH
Confidence            9999999999998765

>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=96.48  E-value=0.00069  Score=47.35  Aligned_cols=78  Identities=15%  Similarity=0.141  Sum_probs=48.5

Q ss_pred             cCceEEEEEeCCCCCCc---cc-------cCCCCcceeeEEEEecCCCCCchh------------hhHHHHHHHHHhcCC
Q 032030           64 LADYIIYIIDVSGGDKI---PR-------KGGPGITQADLLVINKTDLASAIG------------ADLAVMERDALRMRD  121 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~---~~-------~~~~qi~~ADivViNK~DL~~~~~------------~~l~~~~~~i~~~np  121 (148)
                      .+|.++.|.|......+   ..       ...+.++  -++|.||+|+.+...            -..++..+..++.+ 
T Consensus        73 ~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~~~~--iilVgnK~Dl~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~-  149 (179)
T d1m7ba_          73 DSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTK--MLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIG-  149 (179)
T ss_dssp             TCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCTTCE--EEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHT-
T ss_pred             hhhhhheeeecccCCCHHHHHHHHHHHHhccCCcce--EEEEEecccccccchhhHHHhhhhcCcchHHHHHHHHHHhC-
Confidence            46888999998765321   10       1122344  589999999864300            01123334444433 


Q ss_pred             CCcEEEEEecCCC-CHHHHHHhhh
Q 032030          122 GGPFIFAQVGWVI-GIIFTLSITH  144 (148)
Q Consensus       122 ~a~vi~tSa~~g~-gi~~l~~~~~  144 (148)
                      ..+.+.|||++|. |++++|+..+
T Consensus       150 ~~~y~E~SAk~~~n~i~~~F~~~~  173 (179)
T d1m7ba_         150 AATYIECSALQSENSVRDIFHVAT  173 (179)
T ss_dssp             CSEEEECBTTTBHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCcCHHHHHHHHH
Confidence            3578999999998 5999998764

>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=96.18  E-value=0.0055  Score=44.34  Aligned_cols=93  Identities=15%  Similarity=0.111  Sum_probs=50.3

Q ss_pred             CCEEEEecCCceee-eee--ccccCceEEEEEeCCCCCCccc-cCCC------------CcceeeEEEEecCCCCCc--h
Q 032030           44 ADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDKIPR-KGGP------------GITQADLLVINKTDLASA--I  105 (148)
Q Consensus        44 ~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~~~~-~~~~------------qi~~ADivViNK~DL~~~--~  105 (148)
                      +-+-+|.|.|-... ...  .-..+|..+.|||+.+|...+. ...+            .++. -++++||+|+..+  .
T Consensus        81 ~~i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~~~~~~-iIv~iNK~D~~~~~~~  159 (224)
T d1jnya3          81 YFFTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTMGLDQ-LIVAVNKMDLTEPPYD  159 (224)
T ss_dssp             CEEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHTTCTT-CEEEEECGGGSSSTTC
T ss_pred             ceeEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchhHHHHHHHHHhCCCc-eEEEEEcccCCCcccc
Confidence            44556666664311 011  1135799999999998732100 0000            1110 2677999999753  1


Q ss_pred             hhhHHHHHHHH----HhcC---CCCcEEEEEecCCCCHH
Q 032030          106 GADLAVMERDA----LRMR---DGGPFIFAQVGWVIGII  137 (148)
Q Consensus       106 ~~~l~~~~~~i----~~~n---p~a~vi~tSa~~g~gi~  137 (148)
                      ...++.+...+    ....   ...+++++||.+|.|+.
T Consensus       160 ~~~~~~v~~~i~~~~~~~~~~~~~i~~IPISA~~G~NV~  198 (224)
T d1jnya3         160 EKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNIT  198 (224)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTT
T ss_pred             HHHHHHHHHHHHhHHHhcCCCcccCeEEEEEccCCCCcc
Confidence            12233333333    3222   34678999999999874

>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=95.92  E-value=0.0046  Score=44.32  Aligned_cols=86  Identities=15%  Similarity=0.174  Sum_probs=50.2

Q ss_pred             CCCEEEEecCCceee--eee-ccccCceEEEEEeCCCCCCcccc------CCCCcceeeE-EEEecCCCCCchhhh-HHH
Q 032030           43 KADLLLCESGGDNLA--ANF-SRELADYIIYIIDVSGGDKIPRK------GGPGITQADL-LVINKTDLASAIGAD-LAV  111 (148)
Q Consensus        43 ~~D~IliEtsG~~~~--~~~-~~~~~d~~i~vvDa~~~~~~~~~------~~~qi~~ADi-vViNK~DL~~~~~~~-l~~  111 (148)
                      +..+.||.|.|-...  ... .-..+|..|.|+||..|...+..      ....++  -+ +++||.|+++.  .+ .++
T Consensus        66 ~~~i~iiDtPGh~df~~~~~~~~~~aD~avlVvda~~Gv~~qt~~~~~~~~~~gi~--~iiv~iNK~D~~~~--~~~~~~  141 (204)
T d2c78a3          66 KRHYSHVDCPGHADYIKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVGVP--YIVVFMNKVDMVDD--PELLDL  141 (204)
T ss_dssp             SCEEEEEECCCSGGGHHHHHHHHTTCSSEEEEEETTTCCCHHHHHHHHHHHHTTCC--CEEEEEECGGGCCC--HHHHHH
T ss_pred             CeEEEEEeCCCchhhHHHHHHHHHHCCEEEEEEECCCCCcHHHHHHHHHHHHcCCC--eEEEEEEecccCCC--HHHHHH
Confidence            566778888885321  011 11357899999999988653211      011233  34 56999999875  32 344


Q ss_pred             HH----HHHHhcC-C--CCcEEEEEecC
Q 032030          112 ME----RDALRMR-D--GGPFIFAQVGW  132 (148)
Q Consensus       112 ~~----~~i~~~n-p--~a~vi~tSa~~  132 (148)
                      +.    ..+.... |  ..++++.|+.+
T Consensus       142 ~~~~i~~~l~~~~~~~~~i~~i~~sa~~  169 (204)
T d2c78a3         142 VEMEVRDLLNQYEFPGDEVPVIRGSALL  169 (204)
T ss_dssp             HHHHHHHHHHHTTSCTTTSCEEECCHHH
T ss_pred             HHHHHHHHHHhcCCCcccceeeeeechh
Confidence            44    4443322 2  36789988864

>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=94.89  E-value=0.013  Score=41.10  Aligned_cols=39  Identities=21%  Similarity=0.232  Sum_probs=23.4

Q ss_pred             cCceEEEEEeCCCCCCc--------cc------cCCCCcceeeEEEEecCCCCCc
Q 032030           64 LADYIIYIIDVSGGDKI--------PR------KGGPGITQADLLVINKTDLASA  104 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~--------~~------~~~~qi~~ADivViNK~DL~~~  104 (148)
                      .++.+++|+|+......        ..      ......+  -+||+||+|+.+.
T Consensus        71 ~~~~~i~v~D~~d~~~~~~~~~~~l~~~l~~~~~~~~~~p--ilvv~NK~Dl~~a  123 (207)
T d2fh5b1          71 SARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPS--LLIACNKQDIAMA  123 (207)
T ss_dssp             GEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCE--EEEEEECTTSTTC
T ss_pred             hccccceEEEcccccccHHHHHHHHHHHHHhHHHhhcCCc--EEEEEECcccCCC
Confidence            45677999998753210        00      1122344  3677899999875

>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=94.37  E-value=0.016  Score=42.55  Aligned_cols=92  Identities=16%  Similarity=0.100  Sum_probs=53.4

Q ss_pred             CCEEEEecCCceee-eee--ccccCceEEEEEeCCCCCC-----c--ccc----C--CCCcceee-EEEEecCCCCCchh
Q 032030           44 ADLLLCESGGDNLA-ANF--SRELADYIIYIIDVSGGDK-----I--PRK----G--GPGITQAD-LLVINKTDLASAIG  106 (148)
Q Consensus        44 ~D~IliEtsG~~~~-~~~--~~~~~d~~i~vvDa~~~~~-----~--~~~----~--~~qi~~AD-ivViNK~DL~~~~~  106 (148)
                      ..+.||.|.|-... ...  .-..+|..|.||||..|..     .  +..    .  .-.++  - ++++||.|+.+.-.
T Consensus        84 ~~i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~~e~g~~~~~QT~eh~~~~~~~gv~--~iiv~iNKmD~~~~d~  161 (239)
T d1f60a3          84 YQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTLGVR--QLIVAVNKMDSVKWDE  161 (239)
T ss_dssp             EEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHTTCC--EEEEEEECGGGGTTCH
T ss_pred             EEEEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCccccccCchHhHHHHHHHHHHcCCC--eEEEEEECCCCCCCCH
Confidence            34788888885421 111  1235789999999987621     1  100    0  01122  3 56799999987411


Q ss_pred             hhH----HHHHHHHHhcCC---CCcEEEEEecCCCCHH
Q 032030          107 ADL----AVMERDALRMRD---GGPFIFAQVGWVIGII  137 (148)
Q Consensus       107 ~~l----~~~~~~i~~~np---~a~vi~tSa~~g~gi~  137 (148)
                      +..    +.+.+.+.....   ..++++.|+++|.|+-
T Consensus       162 ~~~~~~~~el~~~l~~~~~~~~~i~~ipiSa~~G~ni~  199 (239)
T d1f60a3         162 SRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMI  199 (239)
T ss_dssp             HHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTT
T ss_pred             HHHHHHHHHHHHHHHhcCCCCCcEEEEEEEccCCCcce
Confidence            222    344455554432   3678999999998873

>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=94.33  E-value=0.005  Score=42.63  Aligned_cols=20  Identities=10%  Similarity=-0.044  Sum_probs=16.8

Q ss_pred             EEEEEecCCCCHHHHHHhhh
Q 032030          125 FIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       125 vi~tSa~~g~gi~~l~~~~~  144 (148)
                      .+.|||+++.+++++|+.+.
T Consensus       172 ~~~TsA~d~~ni~~vf~~v~  191 (200)
T d1zcba2         172 HHFTTAINTENIRLVFRDVK  191 (200)
T ss_dssp             EEECCTTCHHHHHHHHHHHH
T ss_pred             EEEeeeeCcHHHHHHHHHHH
Confidence            34699999999999998764

>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=94.05  E-value=0.013  Score=40.15  Aligned_cols=20  Identities=15%  Similarity=0.056  Sum_probs=17.6

Q ss_pred             EEEEEecCCCCHHHHHHhhh
Q 032030          125 FIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       125 vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ++.|||++|.|++++|+.+.
T Consensus       172 ~~~tSAk~~~ni~~vF~~i~  191 (200)
T d2bcjq2         172 SHFTCATDTENIRFVFAAVK  191 (200)
T ss_dssp             EEECCTTCHHHHHHHHHHHH
T ss_pred             EEEeEEEcCHhHHHHHHHHH
Confidence            56899999999999998764

>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=92.13  E-value=0.039  Score=37.42  Aligned_cols=21  Identities=10%  Similarity=-0.007  Sum_probs=17.9

Q ss_pred             cEEEEEecCCCCHHHHHHhhh
Q 032030          124 PFIFAQVGWVIGIIFTLSITH  144 (148)
Q Consensus       124 ~vi~tSa~~g~gi~~l~~~~~  144 (148)
                      ..+.|||++|.|++++|+.+.
T Consensus       168 ~~~~tSA~~~~nv~~~F~~v~  188 (195)
T d1svsa1         168 YTHFTCATDTKNVQFVFDAVT  188 (195)
T ss_dssp             EEEECCTTCHHHHHHHHHHHH
T ss_pred             eeEEEEeECCHhHHHHHHHHH
Confidence            356799999999999998764

>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=91.97  E-value=0.036  Score=40.06  Aligned_cols=114  Identities=17%  Similarity=0.074  Sum_probs=62.3

Q ss_pred             CCCeeeeec--cchhhchHHHHHhhhhcCCCEEEEecCCceee-------ee---ecc-ccCceEEEEEeCCCCCCcccc
Q 032030           17 GGCPHAAIR--EDISINLGPLEELSNLFKADLLLCESGGDNLA-------AN---FSR-ELADYIIYIIDVSGGDKIPRK   83 (148)
Q Consensus        17 nGcicc~i~--~dl~~~~~al~~l~~~~~~D~IliEtsG~~~~-------~~---~~~-~~~d~~i~vvDa~~~~~~~~~   83 (148)
                      -|+.....+  +|+..............++|+|||-|.|...-       ..   +.. ...+..+.|+|+..+.+....
T Consensus        66 l~v~~~~~~~~~~~~~~~~~a~~~~~~~~~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~~~~  145 (211)
T d1j8yf2          66 IGVPVYGEPGEKDVVGIAKRGVEKFLSEKMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAYDL  145 (211)
T ss_dssp             HTCCEECCTTCCCHHHHHHHHHHHHHHTTCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHH
T ss_pred             cCcceeecccchhhhHHHHHHHHHhhccCCceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcchHHH
Confidence            467766553  34433332211223345899999999996421       11   110 113457888898776442111


Q ss_pred             CCC--CcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHH
Q 032030           84 GGP--GITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIF  138 (148)
Q Consensus        84 ~~~--qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~  138 (148)
                      ...  ....-+-++++|.|-....+    .+.....+  .+.|+..++-  |++++.
T Consensus       146 ~~~~~~~~~~~~lI~TKlDet~~~G----~~l~~~~~--~~lPi~~it~--Gq~v~D  194 (211)
T d1j8yf2         146 ASKFNQASKIGTIIITKMDGTAKGG----GALSAVAA--TGATIKFIGT--GEKIDE  194 (211)
T ss_dssp             HHHHHHHCTTEEEEEECTTSCSCHH----HHHHHHHT--TTCCEEEEEC--SSSTTC
T ss_pred             HhhhhcccCcceEEEecccCCCccc----HHHHHHHH--HCcCEEEEeC--CCCccc
Confidence            000  11112578999999987633    34444443  5578888884  666643

>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=91.83  E-value=0.13  Score=38.36  Aligned_cols=52  Identities=23%  Similarity=0.186  Sum_probs=36.5

Q ss_pred             cCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcC
Q 032030           64 LADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMR  120 (148)
Q Consensus        64 ~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~n  120 (148)
                      .+|..|.|+|+..|-+.+.      ....++|  -+++|||.|....   +..++.+.+++..
T Consensus        94 ~~D~avlVvda~~Gv~~~T~~~w~~a~~~~lP--~i~fINKmDr~~a---d~~~~l~ei~~~l  151 (276)
T d2bv3a2          94 VLDGAIVVFDSSQGVEPQSETVWRQAEKYKVP--RIAFANKMDKTGA---DLWLVIRTMQERL  151 (276)
T ss_dssp             HCCEEEEEEETTTSSCHHHHHHHHHHHTTTCC--EEEEEECTTSTTC---CHHHHHHHHHHTT
T ss_pred             hhhheEEeccccCCcchhHHHHHHHHHHcCCC--EEEEEeccccccc---ccchhHHHHHHHh
Confidence            4688899999999866321      1234666  7999999999764   4566666676544

>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=90.62  E-value=0.063  Score=38.75  Aligned_cols=114  Identities=13%  Similarity=0.004  Sum_probs=62.8

Q ss_pred             CCCeeeeec--cchhhchHHHHHhhhhcCCCEEEEecCCceee--------eee-------ccccCceEEEEEeCCCCCC
Q 032030           17 GGCPHAAIR--EDISINLGPLEELSNLFKADLLLCESGGDNLA--------ANF-------SRELADYIIYIIDVSGGDK   79 (148)
Q Consensus        17 nGcicc~i~--~dl~~~~~al~~l~~~~~~D~IliEtsG~~~~--------~~~-------~~~~~d~~i~vvDa~~~~~   79 (148)
                      -|+++....  .|+.........+....++|+|||.|.|....        ..+       .+..-+..+.|+|+..+.+
T Consensus        65 l~i~~~~~~~~~d~~~~~~~~~~~~~~~~~d~ilIDTaGr~~~d~~~~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~  144 (213)
T d1vmaa2          65 VGATVISHSEGADPAAVAFDAVAHALARNKDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTGQN  144 (213)
T ss_dssp             HTCEEECCSTTCCHHHHHHHHHHHHHHTTCSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGHHH
T ss_pred             cCccccccCCCCcHHHHHHHHHHHHHHcCCCEEEEeccccccchHHHHHHHHHHHhhhhhccccccceeEEeeccccCcc
Confidence            467776654  34543333222333345899999999997421        111       0112355788999876533


Q ss_pred             c-cc-cCCCCcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHH
Q 032030           80 I-PR-KGGPGITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIF  138 (148)
Q Consensus        80 ~-~~-~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~  138 (148)
                      . .. ...-+.-..+-++++|.|-....+.    +.....+  -+.||..++  +|++++.
T Consensus       145 ~~~~~~~~~~~~~~~~lI~TKlDe~~~~G~----~l~~~~~--~~~Pi~~i~--~Gq~v~D  197 (213)
T d1vmaa2         145 GLVQAKIFKEAVNVTGIILTKLDGTAKGGI----TLAIARE--LGIPIKFIG--VGEKAED  197 (213)
T ss_dssp             HHHHHHHHHHHSCCCEEEEECGGGCSCTTH----HHHHHHH--HCCCEEEEE--CSSSGGG
T ss_pred             hhhhhhhhccccCCceEEEecccCCCcccH----HHHHHHH--HCCCEEEEe--CCCCccc
Confidence            1 11 0000112247999999998765443    3333332  336888887  4666643

>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=89.48  E-value=0.36  Score=34.49  Aligned_cols=115  Identities=16%  Similarity=0.068  Sum_probs=62.6

Q ss_pred             cCCCeeeeec--cchhhchHHHHHhhhhcCCCEEEEecCCceee--------eee-------ccccCceEEEEEeCCCCC
Q 032030           16 TGGCPHAAIR--EDISINLGPLEELSNLFKADLLLCESGGDNLA--------ANF-------SRELADYIIYIIDVSGGD   78 (148)
Q Consensus        16 ~nGcicc~i~--~dl~~~~~al~~l~~~~~~D~IliEtsG~~~~--------~~~-------~~~~~d~~i~vvDa~~~~   78 (148)
                      ..|+.+-..+  +|+...+....+.....++|+|+|-|.|....        ..+       .+..-+..+.|+|+..+.
T Consensus        62 ~l~v~~~~~~~~~d~~~~l~~~~~~a~~~~~d~ilIDTaGr~~~d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~~~  141 (211)
T d2qy9a2          62 RNNIPVIAQHTGADSASVIFDAIQAAKARNIDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQ  141 (211)
T ss_dssp             HTTCCEECCSTTCCHHHHHHHHHHHHHHTTCSEEEECCCCCGGGHHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGGTH
T ss_pred             hcCCcccccccCCCHHHHHHHHHHHHHHcCCCEEEeccCCCccccHHHHHHHHHHHHHHhhhcccCcceeeeehhcccCc
Confidence            3567766553  44543333222223345899999999996421        011       011134578889988764


Q ss_pred             CccccCCC--CcceeeEEEEecCCCCCchhhhHHHHHHHHHhcCCCCcEEEEEecCCCCHHH
Q 032030           79 KIPRKGGP--GITQADLLVINKTDLASAIGADLAVMERDALRMRDGGPFIFAQVGWVIGIIF  138 (148)
Q Consensus        79 ~~~~~~~~--qi~~ADivViNK~DL~~~~~~~l~~~~~~i~~~np~a~vi~tSa~~g~gi~~  138 (148)
                      +.......  +.-.-+-++++|.|-....+.-    .....+  .+.||..++  +|++++.
T Consensus       142 ~~~~~~~~~~~~~~~~~lIlTKlDe~~~~G~~----l~~~~~--~~~Pi~~i~--~Gq~v~D  195 (211)
T d2qy9a2         142 NAVSQAKLFHEAVGLTGITLTKLDGTAKGGVI----FSVADQ--FGIPIRYIG--VGERIED  195 (211)
T ss_dssp             HHHHHHHHHHHHSCCCEEEEECCTTCTTTTHH----HHHHHH--HCCCEEEEE--CSSSGGG
T ss_pred             chHHHHhhhhhccCCceEEEeecCCCCCccHH----HHHHHH--HCCCEEEEe--CCCCccc
Confidence            32110000  0112368999999987664443    233332  346888888  4666643

>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=89.23  E-value=0.11  Score=38.69  Aligned_cols=70  Identities=17%  Similarity=0.170  Sum_probs=39.7

Q ss_pred             CEEEEecCCceee--eee-ccccCceEEEEEeCCCCCCccc------cCCCCcceeeEEEEecCCCCCchhhhHHHHHHH
Q 032030           45 DLLLCESGGDNLA--ANF-SRELADYIIYIIDVSGGDKIPR------KGGPGITQADLLVINKTDLASAIGADLAVMERD  115 (148)
Q Consensus        45 D~IliEtsG~~~~--~~~-~~~~~d~~i~vvDa~~~~~~~~------~~~~qi~~ADivViNK~DL~~~~~~~l~~~~~~  115 (148)
                      -+-+|.|.|-...  ... .-..+|..|.|+|+..|...+.      ....+++  -++++||.|........++.+++.
T Consensus        68 ~~n~iDtPGh~dF~~e~~~al~~~D~avlvvda~~Gv~~~t~~~~~~~~~~~~p--~~i~iNk~D~~~~~~~~l~~~~~~  145 (267)
T d2dy1a2          68 RVFLLDAPGYGDFVGEIRGALEAADAALVAVSAEAGVQVGTERAWTVAERLGLP--RMVVVTKLDKGGDYYALLEDLRST  145 (267)
T ss_dssp             EEEEEECCCSGGGHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHTTCC--EEEEEECGGGCCCHHHHHHHHHHH
T ss_pred             ceeEEccCchhhhhhhhhhhhcccCceEEEeeccCCccchhHHHHHhhhhcccc--cccccccccccccchhhhhhHHHH
Confidence            3566677775321  000 0124688999999998865321      1123455  699999999854422333334433


Q ss_pred             H
Q 032030          116 A  116 (148)
Q Consensus       116 i  116 (148)
                      +
T Consensus       146 l  146 (267)
T d2dy1a2         146 L  146 (267)
T ss_dssp             H
T ss_pred             h
Confidence            3

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=88.86  E-value=0.19  Score=33.51  Aligned_cols=40  Identities=18%  Similarity=0.078  Sum_probs=27.1

Q ss_pred             cCCCeeeeeccchhhchHHHHHhhhhcCCCEEEEecCCce
Q 032030           16 TGGCPHAAIREDISINLGPLEELSNLFKADLLLCESGGDN   55 (148)
Q Consensus        16 ~nGcicc~i~~dl~~~~~al~~l~~~~~~D~IliEtsG~~   55 (148)
                      .++|.||.+.......+.....+.....+|+|++|+.+..
T Consensus        66 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~iivEg~~~~  105 (165)
T d1xjca_          66 EGDGLLQLHLRRPLWRLDDVLALYAPLRLDLVLVEGYKQE  105 (165)
T ss_dssp             EETTEEEEEECCSCCCHHHHHHHHGGGCCSEEEEECCTTS
T ss_pred             cChHHHHHHhhccccchhhHHHHHhhcccCeEeeeccccc
Confidence            4677777776554444444444455568999999999975

>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=80.52  E-value=0.43  Score=36.94  Aligned_cols=100  Identities=10%  Similarity=-0.039  Sum_probs=55.0

Q ss_pred             CCCEEEEecCCceeee--------eeccccCceEEEEEeCCCCCC---ccc-cCCCCcceeeEEEEecCCCCCc------
Q 032030           43 KADLLLCESGGDNLAA--------NFSRELADYIIYIIDVSGGDK---IPR-KGGPGITQADLLVINKTDLASA------  104 (148)
Q Consensus        43 ~~D~IliEtsG~~~~~--------~~~~~~~d~~i~vvDa~~~~~---~~~-~~~~qi~~ADivViNK~DL~~~------  104 (148)
                      .+.++++-|.|.....        .+.....|+++.+.|..-...   +.. ......+  -++|+||+|...+      
T Consensus       106 ~~~~~l~DtPG~~~~~~~~~~~~~~~~~~~~d~~l~~~~~~~~~~d~~l~~~l~~~~k~--~~~V~nK~D~~~~~~~~~~  183 (400)
T d1tq4a_         106 IPNVVFWDLPGIGSTNFPPDTYLEKMKFYEYDFFIIISATRFKKNDIDIAKAISMMKKE--FYFVRTKVDSDITNEADGE  183 (400)
T ss_dssp             CTTEEEEECCCGGGSSCCHHHHHHHTTGGGCSEEEEEESSCCCHHHHHHHHHHHHTTCE--EEEEECCHHHHHHHHHTTC
T ss_pred             CCeEEEEeCCCcccccccHHHHHHHhhhhcceEEEEecCCCCCHHHHHHHHHHHHcCCC--EEEEEeCcccccchhhhcc
Confidence            4568899999985321        111234677777776432111   000 1111334  6999999996311      


Q ss_pred             -----hhhhHHHH----HHHHHhc-CCCCcEEEEEecC--CCCHHHHHHhhh
Q 032030          105 -----IGADLAVM----ERDALRM-RDGGPFIFAQVGW--VIGIIFTLSITH  144 (148)
Q Consensus       105 -----~~~~l~~~----~~~i~~~-np~a~vi~tSa~~--g~gi~~l~~~~~  144 (148)
                           ....++.+    .+.+++. .+..+|+.+|...  ..|+++|.+.+.
T Consensus       184 ~~~~~~e~~l~~ir~~~~~~l~~~~~~~~~vflvS~~~~~~~d~~~L~~~l~  235 (400)
T d1tq4a_         184 PQTFDKEKVLQDIRLNCVNTFRENGIAEPPIFLLSNKNVCHYDFPVLMDKLI  235 (400)
T ss_dssp             CTTCCHHHHHHHHHHHHHHHHHHTTCSSCCEEECCTTCTTSTTHHHHHHHHH
T ss_pred             cccccHHHHHHHHHHHHHHHHHHcCCCCCCEEEecCCcccccCHHHHHHHHH
Confidence                 01223333    3334443 3567899988754  348888887753