Psyllid ID: psy5780

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100------
Protein Sequence
MYIFVGWPDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLCNEPINTDNTNSPITLSNDTKSIRNKCNC
Secondary Structure (PSIPRED)
cEEEEccccccccEEEEEEcccccccccccHHHHHHHHHHcccccEEEEccccccccHHHHHHHHHHHHHHHHcccccccccccccccccEEEccccccccccccc
Secondary Structure Prediction (SSPRO)
cEEEEccccccccEEEEcccccHHHccEccHHHHHHHHHHcccccEEEEEcccccccHHHHHHHHHHHHHHHccccccccccccccccccEEcccccccccccccc
Coil and Loop (DISEMBL)
myifvgwpdsahdsrvwsnkcdleserevdfneaeemgeyvPEIHYVMETSAKDSTNVEEAFYCLANELKnrqsatlcnepintdntnspitlsndtksirnkcnc
Flexible Loop (DISEMBL)
myifvgwpdsahdsrvwsnkcdleserevdfneaEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLcnepintdntnspitlsndtksirnkcnc
Low Complexity Region (SEG)
MYIFVGWPDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLCNEPINTDNTNSPITLSNDTKSIRNKCNC
Disordered region (IsUnstruct)
*YIFVGWPDSAHDSRVWSNKCD**************MGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL*************************************
Disordered Region (DISOPRED)
MYIFVGWPDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL**********************************CNC
Disordered Region (DISEMBL)
MYIFVGWPDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLCNEPINTDNTNSPITLSNDT*********
Disordered Region (DISPRO)
MYIFVGWPDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATL*****************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MYIFVGWPDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLCNEPINTDNTNSPITLSNDTKSIRNKCNC
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	106	2.2.26 [Sep-21-2011]
P34139	202	Ras-related protein Rab-1	yes	N/A	0.773	0.405	0.390	7e-08
P40392	202	Ras-related protein RIC1	yes	N/A	0.641	0.336	0.407	7e-07
Q53B90	210	Ras-related protein Rab-4	yes	N/A	0.764	0.385	0.404	1e-06
Q8CG50	210	Ras-related protein Rab-4	yes	N/A	0.764	0.385	0.404	1e-06
Q86YS6	212	Ras-related protein Rab-4	yes	N/A	0.764	0.382	0.393	1e-06
A6NDJ8	181	Putative Rab-43-like prot	no	N/A	0.764	0.447	0.393	1e-06
Q05974	205	Ras-related protein Rab-1	N/A	N/A	0.754	0.390	0.362	1e-06
Q3ZC27	217	Ras-related protein Rab-1	yes	N/A	0.820	0.400	0.351	2e-06
Q39571	203	GTP-binding protein YPTC1	N/A	N/A	0.735	0.384	0.367	4e-06
O76173	201	Ras-related protein Rab-1	no	N/A	0.490	0.258	0.448	5e-06

>sp|P34139|RAB1A_DICDI Ras-related protein Rab-1A OS=Dictyostelium discoideum GN=rab1A PE=2 SV=2

 Score = 55.8 bits (133), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 34/87 (39%), Positives = 54/87 (62%), Gaps = 5/87 (5%)

Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATL 77
            NK DL +++ VDFN A+   + + +I + +ETSAK STNVE+AF  +A E+KNR +A+ 
Sbjct: 120 GNKSDLVAKKVVDFNTAKAFADSL-QIPF-LETSAKQSTNVEQAFMTMATEIKNRLTAS- 176

Query: 78  CNEPINTDNTNSPITLSNDTKSIRNKC 104
             +P  T + N  +  S+   S ++ C
Sbjct: 177 --QPTQTVDKNKVVPGSSAPISPKSGC 201

Dictyostelium discoideum (taxid: 44689)

>sp|P40392|RIC1_ORYSJ Ras-related protein RIC1 OS=Oryza sativa subsp. japonica GN=RIC1 PE=2 SV=2

 Score = 52.8 bits (125), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 33/81 (40%), Positives = 45/81 (55%), Gaps = 13/81 (16%)

Query: 18  SNKCDLESEREVDFNE----AEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR- 72
            NKCDL   R V +      A+E+G  +P     +ETSAKD+TNVE+AF  +A E+KNR 
Sbjct: 120 GNKCDLAENRVVSYEAGKALADEIG--IP----FLETSAKDATNVEKAFMTMAGEIKNRM 173

Query: 73  --QSATLCNEPINTDNTNSPI 91
             Q AT  ++P        P+
Sbjct: 174 ASQPATNASKPATVQMRGQPV 194

Possesses GTPase activity.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q53B90|RAB43_RAT Ras-related protein Rab-43 OS=Rattus norvegicus GN=Rab43 PE=2 SV=1

 Score = 52.0 bits (123), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 36/89 (40%), Positives = 48/89 (53%), Gaps = 8/89 (8%)

Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATL 77
            NK DL   REV   EA+ + E+  +I   +ETSAKDS+NVEEAF  +A EL  R    +
Sbjct: 128 GNKSDLADLREVPLAEAQSLAEHY-DILCAIETSAKDSSNVEEAFTRVATELIMRHGGPM 186

Query: 78  CNEPINTDNTNSPITLSNDTKSIRNKCNC 106
            +E  NTD+      +  D+K I     C
Sbjct: 187 FSEK-NTDH------IQLDSKDIAESWGC 208

Rattus norvegicus (taxid: 10116)

>sp|Q8CG50|RAB43_MOUSE Ras-related protein Rab-43 OS=Mus musculus GN=Rab43 PE=1 SV=1

 Score = 52.0 bits (123), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 36/89 (40%), Positives = 48/89 (53%), Gaps = 8/89 (8%)

Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATL 77
            NK DL   REV   EA+ + E+  +I   +ETSAKDS+NVEEAF  +A EL  R    +
Sbjct: 128 GNKSDLADFREVPLAEAQSLAEHY-DILCAIETSAKDSSNVEEAFTRVATELIMRHGGPM 186

Query: 78  CNEPINTDNTNSPITLSNDTKSIRNKCNC 106
            +E  NTD+      +  D+K I     C
Sbjct: 187 FSEK-NTDH------IQLDSKDIAESWGC 208

Mus musculus (taxid: 10090)

>sp|Q86YS6|RAB43_HUMAN Ras-related protein Rab-43 OS=Homo sapiens GN=RAB43 PE=1 SV=1

 Score = 52.0 bits (123), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 35/89 (39%), Positives = 46/89 (51%), Gaps = 8/89 (8%)

Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATL 77
            NK DL   REV   EA+ + E+  +I   +ETSAKDS+NVEEAF  +A EL  R    L
Sbjct: 130 GNKSDLSELREVSLAEAQSLAEHY-DILCAIETSAKDSSNVEEAFLRVATELIMRHGGPL 188

Query: 78  CNEPINTDNTNSPITLSNDTKSIRNKCNC 106
            +E        SP  +  ++K I     C
Sbjct: 189 FSE-------KSPDHIQLNSKDIGEGWGC 210

Homo sapiens (taxid: 9606)

>sp|A6NDJ8|RB43L_HUMAN Putative Rab-43-like protein ENSP00000330714 OS=Homo sapiens PE=5 SV=3

 Score = 51.6 bits (122), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 35/89 (39%), Positives = 46/89 (51%), Gaps = 8/89 (8%)

Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATL 77
            NK DL   REV   EA+ + E+  +I   +ETSAKDS+NVEEAF  +A EL  R    L
Sbjct: 99  GNKSDLSELREVSLAEAQSLAEHY-DILCAIETSAKDSSNVEEAFLRVATELIMRHGGPL 157

Query: 78  CNEPINTDNTNSPITLSNDTKSIRNKCNC 106
            +E        SP  +  ++K I     C
Sbjct: 158 FSE-------KSPDHIQLNSKDIGEGWGC 179

Homo sapiens (taxid: 9606)

>sp|Q05974|RAB1A_LYMST Ras-related protein Rab-1A OS=Lymnaea stagnalis GN=RAB1A PE=2 SV=1

 Score = 51.6 bits (122), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 33/91 (36%), Positives = 51/91 (56%), Gaps = 11/91 (12%)

Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHY-VMETSAKDSTNVEEAFYCLANELKNRQSAT 76
            NK DL +++ VDF  A+E   Y  ++    +ETSAK++TNVE+AF  +A E+KNR    
Sbjct: 123 GNKSDLTTKKVVDFTTAKE---YADQLGIPFLETSAKNATNVEQAFMTMAAEIKNRMG-- 177

Query: 77  LCNEPINTDNTNSP-ITLSNDTKSIRNKCNC 106
               PI   + + P + +++ T    NK  C
Sbjct: 178 ----PITAASDSKPSVKINSSTPVSANKGGC 204

Probably required for transit of protein from the ER through Golgi compartment.

Lymnaea stagnalis (taxid: 6523)

>sp|Q3ZC27|RAB19_BOVIN Ras-related protein Rab-19 OS=Bos taurus GN=RAB19 PE=2 SV=1

 Score = 51.2 bits (121), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 32/91 (35%), Positives = 50/91 (54%), Gaps = 4/91 (4%)

Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATL 77
            NKCDL  +R V F +A  + E    +  V+ETSAK+S N++E F  +A EL  R S  L
Sbjct: 129 GNKCDLWEKRHVLFEDACILAEKYGLLA-VLETSAKESKNIDEVFVLMARELMARHSLPL 187

Query: 78  CNE--PINTDNTNSPITLSNDTKSIRNKCNC 106
             E  P +    ++P+ ++   +  +N+C C
Sbjct: 188 YGEGAPGSLPLESTPVLMAPAPRE-KNQCTC 217

Bos taurus (taxid: 9913)

>sp|Q39571|YPTC1_CHLRE GTP-binding protein YPTC1 OS=Chlamydomonas reinhardtii GN=YPTC1 PE=3 SV=1

 Score = 50.1 bits (118), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 32/87 (36%), Positives = 51/87 (58%), Gaps = 9/87 (10%)

Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHY-VMETSAKDSTNVEEAFYCLANELKNRQSAT 76
            NK DL S++ V+++ A+   +   EI    +ETSAK++TNVE+AF  +A E+KNR    
Sbjct: 120 GNKSDLTSKKVVEYSVAKAFAD---EIGIPFLETSAKNATNVEQAFMTMAAEIKNR---- 172

Query: 77  LCNEPINTDNTNSPITLSNDTKSIRNK 103
           + ++PI T     P+    + K I +K
Sbjct: 173 MASQPIPT-KAGGPVVRPQEGKPINSK 198

Protein transport. Probably involved in vesicular traffic.

Chlamydomonas reinhardtii (taxid: 3055)

>sp|O76173|RAB1C_DICDI Ras-related protein Rab-1C OS=Dictyostelium discoideum GN=Rab1C PE=2 SV=1

 Score = 49.7 bits (117), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 26/58 (44%), Positives = 39/58 (67%), Gaps = 6/58 (10%)

Query: 16  VWSNKCDLESEREVDFNEAEEMGEY--VPEIHYVMETSAKDSTNVEEAFYCLANELKN 71
           +  NKCDL S+R VDF  A++  +   +P    +METSAK+ST ++EAF  LA+++K 
Sbjct: 143 IVGNKCDLNSKRAVDFKIAKKFADELNIP----IMETSAKESTAIDEAFIKLASDIKK 196

Dictyostelium discoideum (taxid: 44689)

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	106
195375225	220	GJ12523 [Drosophila virilis] gi|19415356	0.811	0.390	0.534	1e-16
195135342	219	GI16780 [Drosophila mojavensis] gi|19391	0.556	0.269	0.661	5e-15
195137528	122	GI18299 [Drosophila mojavensis] gi|19390	0.575	0.5	0.639	5e-15
195325951	219	GM25038 [Drosophila sechellia] gi|194118	0.547	0.264	0.655	2e-14
17737545	219	Rab19, isoform A [Drosophila melanogaste	0.547	0.264	0.655	2e-14
125980342	219	GA20071 [Drosophila pseudoobscura pseudo	0.547	0.264	0.655	2e-14
157116294	219	rab 19, 41 and [Aedes aegypti] gi|108876	0.698	0.337	0.512	4e-14
195427457	219	GK17190 [Drosophila willistoni] gi|19415	0.801	0.388	0.5	6e-14
91086487	221	PREDICTED: similar to rab 19, 41 and [Tr	0.773	0.371	0.454	8e-13
170027760	219	rab 19 [Culex quinquefasciatus] gi|16786	0.801	0.388	0.478	1e-12

>gi|195375225|ref|XP_002046402.1| GJ12523 [Drosophila virilis] gi|194153560|gb|EDW68744.1| GJ12523 [Drosophila virilis]

 Score = 90.5 bits (223), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 47/88 (53%), Positives = 61/88 (69%), Gaps = 2/88 (2%)

Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATL 77
            NKCDLE+EREVDF EA +M +Y+PEI +VMETSAK++TNVE+AF CLA ELK++  A+ 
Sbjct: 133 GNKCDLEAEREVDFEEARQMCQYIPEILFVMETSAKENTNVEDAFRCLATELKHQHDASS 192

Query: 78  CNEPINTDNTNSPITLSNDTKSIRNKCN 105
             E  N D+    +  S   KS  + CN
Sbjct: 193 VQE--NLDDNTVQLGQSKPLKSCSSSCN 218

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195135342|ref|XP_002012093.1| GI16780 [Drosophila mojavensis] gi|193918357|gb|EDW17224.1| GI16780 [Drosophila mojavensis]

 Score = 85.1 bits (209), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 39/59 (66%), Positives = 49/59 (83%)

Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSAT 76
            NKCDLESEREVDF EA +M +Y+PEI +VMETSAK++TNVE+AF CLA ELK +  ++
Sbjct: 133 GNKCDLESEREVDFEEARQMCQYIPEILFVMETSAKENTNVEDAFRCLATELKRQHDSS 191

Source: Drosophila mojavensis

Species: Drosophila mojavensis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195137528|ref|XP_002012570.1| GI18299 [Drosophila mojavensis] gi|193906585|gb|EDW05452.1| GI18299 [Drosophila mojavensis]

 Score = 85.1 bits (209), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 39/61 (63%), Positives = 50/61 (81%)

Query: 16 VWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSA 75
          +  NKCDLESEREVDF EA +M +Y+PEI +VMETSAK++TNVE+AF CLA ELK +  +
Sbjct: 34 LIGNKCDLESEREVDFEEARQMCQYIPEILFVMETSAKENTNVEDAFRCLATELKRQHDS 93

Query: 76 T 76
          +
Sbjct: 94 S 94

Source: Drosophila mojavensis

Species: Drosophila mojavensis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195325951|ref|XP_002029694.1| GM25038 [Drosophila sechellia] gi|194118637|gb|EDW40680.1| GM25038 [Drosophila sechellia]

 Score = 83.6 bits (205), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 38/58 (65%), Positives = 47/58 (81%)

Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSA 75
            NKCDLE +REVDF EA +M +Y+PEI +VMETSAK++ NVE+AF CLANELK +  A
Sbjct: 133 GNKCDLEEQREVDFEEARQMCQYIPEILFVMETSAKENMNVEDAFRCLANELKRQHDA 190

Source: Drosophila sechellia

Species: Drosophila sechellia

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|17737545|ref|NP_523970.1| Rab19, isoform A [Drosophila melanogaster] gi|442630989|ref|NP_001261575.1| Rab19, isoform B [Drosophila melanogaster] gi|194865952|ref|XP_001971685.1| GG14295 [Drosophila erecta] gi|195491260|ref|XP_002093486.1| GE20724 [Drosophila yakuba] gi|195588689|ref|XP_002084090.1| GD14074 [Drosophila simulans] gi|2313047|dbj|BAA21712.1| rab-related protein 3 [Drosophila melanogaster] gi|7295127|gb|AAF50452.1| Rab19, isoform A [Drosophila melanogaster] gi|17945955|gb|AAL49022.1| RE48347p [Drosophila melanogaster] gi|190653468|gb|EDV50711.1| GG14295 [Drosophila erecta] gi|194179587|gb|EDW93198.1| GE20724 [Drosophila yakuba] gi|194196099|gb|EDX09675.1| GD14074 [Drosophila simulans] gi|220948860|gb|ACL86973.1| Rab-RP3-PA [synthetic construct] gi|440215482|gb|AGB94270.1| Rab19, isoform B [Drosophila melanogaster]

 Score = 83.2 bits (204), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 38/58 (65%), Positives = 47/58 (81%)

Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSA 75
            NKCDLE +REVDF EA +M +Y+PEI +VMETSAK++ NVE+AF CLANELK +  A
Sbjct: 133 GNKCDLEEQREVDFEEARQMCQYIPEILFVMETSAKENMNVEDAFRCLANELKRQHDA 190

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|125980342|ref|XP_001354195.1| GA20071 [Drosophila pseudoobscura pseudoobscura] gi|195167530|ref|XP_002024586.1| GL22545 [Drosophila persimilis] gi|54642500|gb|EAL31247.1| GA20071 [Drosophila pseudoobscura pseudoobscura] gi|194107991|gb|EDW30034.1| GL22545 [Drosophila persimilis]

 Score = 83.2 bits (204), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 38/58 (65%), Positives = 47/58 (81%)

Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSA 75
            NKCDLE+EREVDF EA +M +Y+PEI +VMETSAK++ NVE+AF CLA ELK +  A
Sbjct: 133 GNKCDLETEREVDFEEARQMCQYIPEILFVMETSAKENMNVEDAFRCLATELKRQHDA 190

Source: Drosophila pseudoobscura pseudoobscura

Species: Drosophila pseudoobscura

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157116294|ref|XP_001652810.1| rab 19, 41 and [Aedes aegypti] gi|108876535|gb|EAT40760.1| AAEL007525-PA [Aedes aegypti]

 Score = 82.0 bits (201), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 41/80 (51%), Positives = 55/80 (68%), Gaps = 6/80 (7%)

Query: 16  VWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSA 75
           V  NKCDL++ REV+F EA+ M +Y+PEI +VMETSAKD+ N+E+AF  LA ELK R   
Sbjct: 131 VIGNKCDLDAIREVEFAEAQTMCQYIPEIMFVMETSAKDNRNIEDAFMTLATELKRR--- 187

Query: 76  TLCNEPINTDNTNSPITLSN 95
              ++ I+ D+T   ITL  
Sbjct: 188 ---HDNISADDTTDGITLGQ 204

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195427457|ref|XP_002061793.1| GK17190 [Drosophila willistoni] gi|194157878|gb|EDW72779.1| GK17190 [Drosophila willistoni]

 Score = 81.6 bits (200), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 44/88 (50%), Positives = 55/88 (62%), Gaps = 3/88 (3%)

Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATL 77
            NKCDL+ EREVDF EA +M +Y+PEI +VMETSAK + NVE+AF CLA ELK +  A  
Sbjct: 133 GNKCDLDEEREVDFEEARQMCQYIPEILFVMETSAKSNMNVEDAFRCLATELKRQHDA-- 190

Query: 78  CNEPINTDNTNSPITLSNDTKSIRNKCN 105
            N     D+    +  S   KS  + CN
Sbjct: 191 -NNVQEVDDHTITLGQSKPLKSCSSSCN 217

Source: Drosophila willistoni

Species: Drosophila willistoni

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91086487|ref|XP_970606.1| PREDICTED: similar to rab 19, 41 and [Tribolium castaneum] gi|270009806|gb|EFA06254.1| hypothetical protein TcasGA2_TC009113 [Tribolium castaneum]

 Score = 77.8 bits (190), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 40/88 (45%), Positives = 59/88 (67%), Gaps = 6/88 (6%)

Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATL 77
            NK D+ES REV+F EAE M +Y+PE+ +V+E SAKD++N+EEAF CLA ELK R     
Sbjct: 133 GNKADMESLREVEFEEAEAMCQYMPEVLFVLEASAKDNSNIEEAFLCLATELKRRHD--- 189

Query: 78  CNEPINTDNTNSPITLSNDTKSIRNKCN 105
            N  +  D+ +  + L  D++++  KC+
Sbjct: 190 -NGMLGNDDDDDTVKL-GDSRAV-TKCS 214

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170027760|ref|XP_001841765.1| rab 19 [Culex quinquefasciatus] gi|167862335|gb|EDS25718.1| rab 19 [Culex quinquefasciatus]

 Score = 77.0 bits (188), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 44/92 (47%), Positives = 58/92 (63%), Gaps = 7/92 (7%)

Query: 16  VWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSA 75
           V  NK DL++ REV+F EA+ M +Y+PEI +VMETSAKD+ N+E+AF  LA ELK R   
Sbjct: 131 VVGNKSDLDAIREVEFAEAQTMCQYIPEIMFVMETSAKDNRNIEDAFMTLATELKRR--- 187

Query: 76  TLCNEPINTDNTNSPITLSND-TKSIRNKCNC 106
              ++ I TD+    ITL    T S+ N   C
Sbjct: 188 ---HDNITTDDVPDGITLGQGMTLSVSNCSLC 216

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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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	106
FB|FBgn0015793	219	Rab19 "Rab19" [Drosophila mela	0.764	0.369	0.544	9.5e-18
DICTYBASE|DDB_G0283757	202	rab1A "Rab GTPase" [Dictyostel	0.764	0.400	0.395	2.9e-09
UNIPROTKB|F1P1G4	212	RAB43 "Uncharacterized protein	0.632	0.316	0.470	3.6e-09
ZFIN|ZDB-GENE-090312-110	201	si:ch73-131e21.5 "si:ch73-131e	0.707	0.373	0.405	1.6e-08
MGI|MGI:1917084	210	Rab43 "RAB43, member RAS oncog	0.754	0.380	0.431	2.2e-08
RGD|1565300	210	Rab43 "RAB43, member RAS oncog	0.754	0.380	0.431	2.2e-08
UNIPROTKB|E2RRA2	217	RAB19 "Uncharacterized protein	0.811	0.396	0.388	3.4e-08
POMBASE|SPAC9E9.07c	200	ypt2 "GTPase Ypt2" [Schizosacc	0.745	0.395	0.348	5.3e-08
ZFIN|ZDB-GENE-060825-25	208	zgc:153788 "zgc:153788" [Danio	0.622	0.317	0.426	6.3e-08
ZFIN|ZDB-GENE-040426-873	201	rab1ba "zRAB1B, member RAS onc	0.698	0.368	0.384	7e-08

FB|FBgn0015793 Rab19 "Rab19" [Drosophila melanogaster (taxid:7227)]

 Score = 216 (81.1 bits), Expect = 9.5e-18, P = 9.5e-18
 Identities = 49/90 (54%), Positives = 59/90 (65%)

Query:    19 NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLC 78
             NKCDLE +REVDF EA +M +Y+PEI +VMETSAK++ NVE+AF CLANELK +  A   
Sbjct:   134 NKCDLEEQREVDFEEARQMCQYIPEILFVMETSAKENMNVEDAFRCLANELKRQHDANNV 193

Query:    79 NE-PINTDNTNSPITLSNDT--KSIRNKCN 105
              E P NT      ITL      KS  + CN
Sbjct:   194 EEVPENT------ITLGQGKPLKSCSSSCN 217

GO:0005525 "GTP binding" evidence=ISS

GO:0005097 "Rab GTPase activator activity" evidence=ISS

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

GO:0015031 "protein transport" evidence=IEA

GO:0031982 "vesicle" evidence=ISS

DICTYBASE|DDB_G0283757 rab1A "Rab GTPase" [Dictyostelium discoideum (taxid:44689)]

 Score = 136 (52.9 bits), Expect = 2.9e-09, P = 2.9e-09
 Identities = 34/86 (39%), Positives = 54/86 (62%)

Query:    19 NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLC 78
             NK DL +++ VDFN A+   + + +I + +ETSAK STNVE+AF  +A E+KNR +A+  
Sbjct:   121 NKSDLVAKKVVDFNTAKAFADSL-QIPF-LETSAKQSTNVEQAFMTMATEIKNRLTAS-- 176

Query:    79 NEPINTDNTNSPITLSNDTKSIRNKC 104
              +P  T + N  +  S+   S ++ C
Sbjct:   177 -QPTQTVDKNKVVPGSSAPISPKSGC 201

GO:0015031 "protein transport" evidence=IEA

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

GO:0005525 "GTP binding" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0044351 "macropinocytosis" evidence=RCA

UNIPROTKB|F1P1G4 RAB43 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 135 (52.6 bits), Expect = 3.6e-09, P = 3.6e-09
 Identities = 32/68 (47%), Positives = 40/68 (58%)

Query:    19 NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLC 78
             NK DL   REV   EA+ + E    I   +ETSAKDS+NVEEAF  +A EL  R    + 
Sbjct:   130 NKSDLSDLREVQLEEAQSLAERYDNIICAIETSAKDSSNVEEAFVKMATELMMRHGGPMF 189

Query:    79 NEPINTDN 86
             +E  NTD+
Sbjct:   190 SEK-NTDS 196

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

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

ZFIN|ZDB-GENE-090312-110 si:ch73-131e21.5 "si:ch73-131e21.5" [Danio rerio (taxid:7955)]

 Score = 129 (50.5 bits), Expect = 1.6e-08, P = 1.6e-08
 Identities = 32/79 (40%), Positives = 48/79 (60%)

Query:    19 NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS--AT 76
             NKCDL +++ VD+  A+E  + +  I + +ETSAK STNVE+AF  +A E+K R    AT
Sbjct:   121 NKCDLTTKKVVDYTAAKEFADSL-SIPF-LETSAKSSTNVEQAFMTMAAEIKKRMGPGAT 178

Query:    77 LCNEPINTDNTNSPITLSN 95
                E  N    ++P+  S+
Sbjct:   179 AGAEKSNLKIHSTPVKTSS 197

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

MGI|MGI:1917084 Rab43 "RAB43, member RAS oncogene family" [Mus musculus (taxid:10090)]

 Score = 128 (50.1 bits), Expect = 2.2e-08, P = 2.2e-08
 Identities = 38/88 (43%), Positives = 49/88 (55%)

Query:    19 NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLC 78
             NK DL   REV   EA+ + E+  +I   +ETSAKDS+NVEEAF  +A EL  R    + 
Sbjct:   129 NKSDLADFREVPLAEAQSLAEHY-DILCAIETSAKDSSNVEEAFTRVATELIMRHGGPMF 187

Query:    79 NEPINTDNTNSPITLSNDTKSIRNKCNC 106
             +E  NTD+    I L  D+K I     C
Sbjct:   188 SEK-NTDH----IQL--DSKDIAESWGC 208

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=ISO

GO:0005525 "GTP binding" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=ISO

GO:0005886 "plasma membrane" evidence=IEA

GO:0006184 "GTP catabolic process" evidence=ISO

GO:0007030 "Golgi organization" evidence=ISO

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

GO:0015031 "protein transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0035526 "retrograde transport, plasma membrane to Golgi" evidence=ISO

GO:0045335 "phagocytic vesicle" evidence=ISO

GO:0090382 "phagosome maturation" evidence=ISO

RGD|1565300 Rab43 "RAB43, member RAS oncogene family" [Rattus norvegicus (taxid:10116)]

 Score = 128 (50.1 bits), Expect = 2.2e-08, P = 2.2e-08
 Identities = 38/88 (43%), Positives = 49/88 (55%)

Query:    19 NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLC 78
             NK DL   REV   EA+ + E+  +I   +ETSAKDS+NVEEAF  +A EL  R    + 
Sbjct:   129 NKSDLADLREVPLAEAQSLAEHY-DILCAIETSAKDSSNVEEAFTRVATELIMRHGGPMF 187

Query:    79 NEPINTDNTNSPITLSNDTKSIRNKCNC 106
             +E  NTD+    I L  D+K I     C
Sbjct:   188 SEK-NTDH----IQL--DSKDIAESWGC 208

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

GO:0005525 "GTP binding" evidence=IEA

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

GO:0006184 "GTP catabolic process" evidence=ISO;ISS

GO:0007030 "Golgi organization" evidence=ISO;ISS

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

GO:0015031 "protein transport" evidence=IEA

GO:0030670 "phagocytic vesicle membrane" evidence=IEA

GO:0035526 "retrograde transport, plasma membrane to Golgi" evidence=ISO;ISS

GO:0045335 "phagocytic vesicle" evidence=ISO;ISS

GO:0090382 "phagosome maturation" evidence=ISO;ISS

UNIPROTKB|E2RRA2 RAB19 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 127 (49.8 bits), Expect = 3.4e-08, P = 3.4e-08
 Identities = 35/90 (38%), Positives = 50/90 (55%)

Query:    19 NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLC 78
             NKCDL  +R V F +A  + E    +  V+ETSAK+S NV+E F  +A EL  R S  L 
Sbjct:   130 NKCDLWEKRHVLFEDACTLAEKYGLLA-VLETSAKESKNVDEVFTLMARELIARNSLHLL 188

Query:    79 NE-PINTDNTNS-PITLSNDTKSIRNKCNC 106
              E  +++   +S P+ L+ D K  +  C C
Sbjct:   189 GERTLDSPAPDSRPVVLAQDPKE-KTHCMC 217

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

POMBASE|SPAC9E9.07c ypt2 "GTPase Ypt2" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 124 (48.7 bits), Expect = 5.3e-08, P = 5.3e-08
 Identities = 30/86 (34%), Positives = 50/86 (58%)

Query:    19 NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLC 78
             NKCD E +R+V F + + + + +  + + +E SAK + NV+EAF+ LA E+K +Q     
Sbjct:   122 NKCDCEDQRQVSFEQGQALADELG-VKF-LEASAKTNVNVDEAFFTLAREIK-KQKIDAE 178

Query:    79 NEPINTDNTNSPITLSNDTKSIRNKC 104
             NE  N  N    + L ND ++++  C
Sbjct:   179 NEFSNQANN---VDLGND-RTVKRCC 200

GO:0003924 "GTPase activity" evidence=TAS

GO:0005525 "GTP binding" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0005886 "plasma membrane" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IC

GO:0006887 "exocytosis" evidence=IMP

GO:0006893 "Golgi to plasma membrane transport" evidence=ISO

GO:0006906 "vesicle fusion" evidence=ISO

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

ZFIN|ZDB-GENE-060825-25 zgc:153788 "zgc:153788" [Danio rerio (taxid:7955)]

 Score = 124 (48.7 bits), Expect = 6.3e-08, P = 6.3e-08
 Identities = 29/68 (42%), Positives = 41/68 (60%)

Query:    19 NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLC 78
             NKCDL   REV   +A+ M   +  +  + ETSAKDS+NV+EAF  +A+EL  R    + 
Sbjct:   126 NKCDLSESREVPLEDAQTMAHQLDFVSAI-ETSAKDSSNVDEAFNKMASELILRHGGPMF 184

Query:    79 NEPINTDN 86
              E + TD+
Sbjct:   185 TENV-TDS 191

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

GO:0000166 "nucleotide binding" evidence=IEA

ZFIN|ZDB-GENE-040426-873 rab1ba "zRAB1B, member RAS oncogene family a" [Danio rerio (taxid:7955)]

 Score = 123 (48.4 bits), Expect = 7.0e-08, P = 7.0e-08
 Identities = 30/78 (38%), Positives = 48/78 (61%)

Query:    19 NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS--AT 76
             NKCDL +++ VD+  A+E  + +  I + +ETSAK++TNVE+AF  +A E+K R    AT
Sbjct:   121 NKCDLTTKKVVDYTTAKEFADSLA-IPF-LETSAKNATNVEQAFMTMAAEIKKRMGPGAT 178

Query:    77 LCNEPINTDNTNSPITLS 94
                +  N    ++P+  S
Sbjct:   179 TGGDKPNLKIESTPVRQS 196

GO:0005525 "GTP binding" evidence=IEA

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

GO:0015031 "protein transport" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

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Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	106
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	8e-18
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	6e-17
pfam00071	162	pfam00071, Ras, Ras family	2e-14
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	2e-14
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	5e-13
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	4e-12
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	5e-12
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	1e-11
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	1e-11
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	5e-11
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	7e-11
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	1e-10
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	1e-10
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	3e-10
PTZ00369	189	PTZ00369, PTZ00369, Ras-like protein; Provisional	6e-10
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	2e-09
cd04145	164	cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3	3e-09
cd04138	162	cd04138, H_N_K_Ras_like, Ras GTPase family contain	5e-09
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	9e-09
cd04139	163	cd04139, RalA_RalB, Ral (Ras-like) family containi	1e-07
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	2e-07
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	3e-07
cd04176	163	cd04176, Rap2, Rap2 family GTPase consists of Rap2	5e-07
cd04136	164	cd04136, Rap_like, Rap-like family consists of Rap	7e-07
cd04175	164	cd04175, Rap1, Rap1 family GTPase consists of Rap1	3e-06
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	4e-06
cd04144	190	cd04144, Ras2, Rat sarcoma (Ras) family 2 of small	5e-06
cd04143	247	cd04143, Rhes_like, Ras homolog enriched in striat	9e-06
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	1e-05
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	5e-05
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	5e-05
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	6e-05
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	7e-05
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	1e-04
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	1e-04
cd04177	168	cd04177, RSR1, RSR1/Bud1p family GTPase	1e-04
cd04140	165	cd04140, ARHI_like, A Ras homolog member I (ARHI)	5e-04
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	0.001
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	0.002
cd01854	211	cd01854, YjeQ_EngC, Ribosomal interacting GTPase Y	0.003
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	0.003
cd04101	167	cd04101, RabL4, Rab GTPase-like family 4 (Rab-like	0.003

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

 Score = 73.2 bits (180), Expect = 8e-18
 Identities = 29/51 (56%), Positives = 37/51 (72%), Gaps = 1/51 (1%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
           NKCDLE +REV F EA  + E+   +  V+ETSAK+S+NVEEAF  +A EL
Sbjct: 116 NKCDLEEQREVLFEEACTLAEHYGIL-AVLETSAKESSNVEEAFLLMATEL 165

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

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

 Score = 71.0 bits (175), Expect = 6e-17
 Identities = 27/54 (50%), Positives = 31/54 (57%), Gaps = 2/54 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR 72
           NK DLE +R+V   EAE   E         ETSAK +TNVEEAF  LA E+  R
Sbjct: 113 NKSDLEEQRQVSREEAEAFAEE--HGLPFFETSAKTNTNVEEAFEELAREILKR 164

Rab GTPases are implicated in vesicle trafficking. Length = 164

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

 Score = 64.5 bits (158), Expect = 2e-14
 Identities = 26/54 (48%), Positives = 32/54 (59%), Gaps = 4/54 (7%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIH-YVMETSAKDSTNVEEAFYCLANELKN 71
           NKCDLE +R V   E E + +   E+    METSAK + NVEEAF  LA E+  
Sbjct: 112 NKCDLEDQRVVSTEEGEALAK---ELGLPFMETSAKTNENVEEAFEELAREILK 162

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

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

 Score = 64.7 bits (158), Expect = 2e-14
 Identities = 27/54 (50%), Positives = 39/54 (72%), Gaps = 2/54 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR 72
           NKCDL  ++ VD+ EA+E  + +  I + +ETSAK++TNVEEAF  +A E+K R
Sbjct: 115 NKCDLTDKKVVDYTEAKEFADEL-GIPF-LETSAKNATNVEEAFMTMAREIKKR 166

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

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

 Score = 61.6 bits (150), Expect = 5e-13
 Identities = 28/91 (30%), Positives = 46/91 (50%), Gaps = 10/91 (10%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYV--METSAKDSTNVEEAFYCLANE-LKNRQSA 75
           NKCDL+ ER     + E+M ++  E  ++   ETSAK++ N+EEA   L    LKN +  
Sbjct: 118 NKCDLKKERL--AKDPEQMDQFCKENGFIGWFETSAKENINIEEAMRFLVKNILKNDK-- 173

Query: 76  TLCNEPINTDNTNSPITLSNDTKSIRNKCNC 106
                     + ++ I L  +T + ++K  C
Sbjct: 174 ---GLQSPEPDEDNVIDLKQETTTSKSKSCC 201

Rab38/Rab32 subfamily. Rab32 and Rab38 are members of the Rab family of small GTPases. Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 201

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

 Score = 58.3 bits (142), Expect = 4e-12
 Identities = 25/52 (48%), Positives = 30/52 (57%), Gaps = 4/52 (7%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIH-YVMETSAKDSTNVEEAFYCLANEL 69
           NK DLES+R+V   EA+   EY  E     METSAK   NV E F  +A +L
Sbjct: 114 NKADLESKRQVSTEEAQ---EYADENGLLFMETSAKTGENVNELFTEIARKL 162

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

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

 Score = 58.2 bits (142), Expect = 5e-12
 Identities = 22/48 (45%), Positives = 29/48 (60%), Gaps = 2/48 (4%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLA 66
           NK DLE ER+V   EA++  +    + +  ETSAK   NV+EAF  LA
Sbjct: 113 NKSDLEDERQVSTEEAQQFAKE-NGLLF-FETSAKTGENVDEAFESLA 158

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

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

 Score = 57.2 bits (139), Expect = 1e-11
 Identities = 23/51 (45%), Positives = 29/51 (56%), Gaps = 2/51 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
           NK DLE +R V  +EAEE  + V   H+  ETSAK    +EE F  LA  +
Sbjct: 113 NKIDLERQRVVSKSEAEEYAKSVGAKHF--ETSAKTGKGIEELFLSLAKRM 161

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

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

 Score = 56.9 bits (138), Expect = 1e-11
 Identities = 25/55 (45%), Positives = 34/55 (61%), Gaps = 4/55 (7%)

Query: 19  NKCDLESEREVDFNEAEEMG-EYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR 72
           NKCD+E +R V   E E +  EY   I + +ETSAK + NVEEAF  LA ++  +
Sbjct: 116 NKCDMEEKRVVSKEEGEALAREY--GIKF-LETSAKANINVEEAFLTLAKDILKK 167

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

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

 Score = 56.3 bits (136), Expect = 5e-11
 Identities = 25/55 (45%), Positives = 35/55 (63%), Gaps = 2/55 (3%)

Query: 20  KCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS 74
           KCDLES+R+V   EAE++ + +  + Y+ ETSA+   NVEEAF  L  E+  R  
Sbjct: 118 KCDLESQRQVTREEAEKLAKDLG-MKYI-ETSARTGDNVEEAFELLTQEIYERIK 170

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

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

 Score = 55.3 bits (134), Expect = 7e-11
 Identities = 24/54 (44%), Positives = 33/54 (61%), Gaps = 2/54 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR 72
           NKCDLE+ER V   E +E+        + +ETSAK+  NV+EAFY L  E++  
Sbjct: 115 NKCDLENERVVSTEEGKELARQWG-CPF-LETSAKERINVDEAFYDLVREIRKS 166

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

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

 Score = 54.5 bits (132), Expect = 1e-10
 Identities = 23/52 (44%), Positives = 31/52 (59%), Gaps = 4/52 (7%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHY-VMETSAKDSTNVEEAFYCLANEL 69
           NKCDLE+ER+V   E E + E   E     +ETSAK + N++E F  L  E+
Sbjct: 112 NKCDLENERQVSTEEGEALAE---EWGCPFLETSAKTNINIDELFNTLVREI 160

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

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

 Score = 54.5 bits (132), Expect = 1e-10
 Identities = 25/52 (48%), Positives = 33/52 (63%), Gaps = 2/52 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK 70
           NKCDLESER V   E +E+        + +ETSAK+  NV+EAFY L  E++
Sbjct: 113 NKCDLESERVVSTEEGKELARQWG-CPF-LETSAKERVNVDEAFYDLVREIR 162

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades. Length = 164

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

 Score = 53.7 bits (130), Expect = 3e-10
 Identities = 23/53 (43%), Positives = 28/53 (52%), Gaps = 6/53 (11%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYV--METSAKDSTNVEEAFYCLANEL 69
           NK DL   R V   EA+   E     + +  +ETSA D TNVEEAF  L  E+
Sbjct: 116 NKSDLRHLRAVPTEEAKAFAEK----NGLSFIETSALDGTNVEEAFKQLLTEI 164

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

>gnl|CDD|240385 PTZ00369, PTZ00369, Ras-like protein; Provisional

 Score = 52.9 bits (127), Expect = 6e-10
 Identities = 24/52 (46%), Positives = 33/52 (63%), Gaps = 2/52 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK 70
           NKCDL+SER+V   E +E+ +        +ETSAK   NV+EAFY L  E++
Sbjct: 118 NKCDLDSERQVSTGEGQELAKSFGIPF--LETSAKQRVNVDEAFYELVREIR 167

Length = 189

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

 Score = 51.5 bits (124), Expect = 2e-09
 Identities = 21/57 (36%), Positives = 34/57 (59%), Gaps = 2/57 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLA-NELKNRQS 74
           NK DLE +R+V   +A++  +    I Y  ETSAK++ NV++AF  +A   L+  + 
Sbjct: 117 NKIDLEEKRQVSTKKAQQWCKSKGNIPYF-ETSAKEAINVDQAFETIARLALEQEKE 172

Rab7 subfamily. Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 172

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

 Score = 50.9 bits (122), Expect = 3e-09
 Identities = 21/45 (46%), Positives = 31/45 (68%), Gaps = 2/45 (4%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFY 63
           NK DLE +R+V   E +E+   + +I Y +ETSAKD  NV++AF+
Sbjct: 115 NKADLEHQRQVSREEGQELARQL-KIPY-IETSAKDRVNVDKAFH 157

The M-Ras/R-Ras-like subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

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

 Score = 50.5 bits (121), Expect = 5e-09
 Identities = 22/52 (42%), Positives = 31/52 (59%), Gaps = 3/52 (5%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK 70
           NKCDL + R V   + +++ +    I Y+ ETSAK    VEEAFY L  E++
Sbjct: 114 NKCDLAA-RTVSTRQGQDLAKSY-GIPYI-ETSAKTRQGVEEAFYTLVREIR 162

H-Ras/N-Ras/K-Ras subfamily. H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1. Others are proposed to play negative regulatory roles in oncogenesis, including RASSF and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 162

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

 Score = 49.7 bits (119), Expect = 9e-09
 Identities = 27/51 (52%), Positives = 31/51 (60%), Gaps = 2/51 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
           NKCDLES REV + E E        I   METSAK ++NVEEAF   A E+
Sbjct: 117 NKCDLESRREVSYEEGEAFAREHGLIF--METSAKTASNVEEAFINTAKEI 165

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

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

 Score = 46.7 bits (111), Expect = 1e-07
 Identities = 23/52 (44%), Positives = 33/52 (63%), Gaps = 2/52 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK 70
           NKCDLE +R+V   EA  + E    ++YV ETSAK   NV++ F+ L  E++
Sbjct: 113 NKCDLEDKRQVSVEEAANLAEQW-GVNYV-ETSAKTRANVDKVFFDLVREIR 162

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

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

 Score = 46.4 bits (110), Expect = 2e-07
 Identities = 27/56 (48%), Positives = 32/56 (57%), Gaps = 6/56 (10%)

Query: 19  NKCDLESEREVDFNEAEEMG-EY-VPEIHYVMETSAKDSTNVEEAFYCLANELKNR 72
           NK D+  ER V   + E +  EY VP     METSAK   NVE AF  +A ELK+R
Sbjct: 114 NKADMSGERVVKREDGERLAKEYGVP----FMETSAKTGLNVELAFTAVAKELKHR 165

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

>gnl|CDD|133314 cd04114, Rab30, Rab GTPase family 30 (Rab30)

 Score = 45.7 bits (108), Expect = 3e-07
 Identities = 24/51 (47%), Positives = 29/51 (56%), Gaps = 2/51 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
           NK DL   REV    AEE  +   +  Y +ETSAK+S NVE+ F  LA  L
Sbjct: 120 NKIDLAERREVSQQRAEEFSD--AQDMYYLETSAKESDNVEKLFLDLACRL 168

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

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

 Score = 45.2 bits (107), Expect = 5e-07
 Identities = 22/51 (43%), Positives = 26/51 (50%), Gaps = 2/51 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
           NK DLESEREV   E   + E        METSAK  T V E F  +  ++
Sbjct: 114 NKVDLESEREVSSAEGRALAEEWGCPF--METSAKSKTMVNELFAEIVRQM 162

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

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

 Score = 44.5 bits (105), Expect = 7e-07
 Identities = 21/51 (41%), Positives = 28/51 (54%), Gaps = 1/51 (1%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
           NKCDLE ER V   E + +        + +ETSAK   NV+E FY L  ++
Sbjct: 114 NKCDLEDERVVSKEEGQNLARQWGNCPF-LETSAKSKINVDEIFYDLVRQI 163

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

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

 Score = 42.9 bits (101), Expect = 3e-06
 Identities = 20/53 (37%), Positives = 26/53 (49%), Gaps = 2/53 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN 71
           NKCDLE ER V   + + +          +ETSAK   NV E FY L  ++  
Sbjct: 114 NKCDLEDERVVGKEQGQNLARQWGC--AFLETSAKAKINVNEIFYDLVRQINR 164

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

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

 Score = 42.2 bits (100), Expect = 4e-06
 Identities = 18/51 (35%), Positives = 27/51 (52%), Gaps = 2/51 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
           NK DL  +R+V   E E+  +      + +ETSAK   NV++ F  +A  L
Sbjct: 113 NKTDLSDKRQVSTEEGEKKAK-ENNAMF-IETSAKAGHNVKQLFKKIAQAL 161

Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 161

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

 Score = 42.5 bits (100), Expect = 5e-06
 Identities = 24/57 (42%), Positives = 29/57 (50%), Gaps = 12/57 (21%)

Query: 19  NKCDLESEREVDFNE----AEEMG-EYVPEIHYVMETSAKDSTNVEEAFYCLANELK 70
           NKCD   EREV   E    A  +G E++       E SAK + NVE AFY L   L+
Sbjct: 114 NKCDKVYEREVSTEEGAALARRLGCEFI-------EASAKTNVNVERAFYTLVRALR 163

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

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

 Score = 42.0 bits (99), Expect = 9e-06
 Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 1/48 (2%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLA 66
           NK D +  REV  +E E++        Y  E SAK ++N++E F  L 
Sbjct: 121 NKADRDFPREVQRDEVEQLVGGDENCAYF-EVSAKKNSNLDEMFRALF 167

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

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

 Score = 41.3 bits (97), Expect = 1e-05
 Identities = 20/56 (35%), Positives = 28/56 (50%), Gaps = 6/56 (10%)

Query: 19  NKCDLESEREVDFNEAEEMGEY--VPEIHYVMETSAKDSTNVEEAFYCLANELKNR 72
           NK DL  +REV   +A E+ +   +P      ETSA    NVE+A   L + +  R
Sbjct: 128 NKADLPDQREVSERQARELADKYGIPYF----ETSAATGQNVEKAVETLLDLIMKR 179

The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated insulin secretion, making it a potential target for diabetes therapy. When bound to JFC1 in prostate cells, Rab27a is believed to regulate the exocytosis of prostate- specific markers. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 180

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

 Score = 39.7 bits (93), Expect = 5e-05
 Identities = 17/49 (34%), Positives = 21/49 (42%), Gaps = 1/49 (2%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLAN 67
           NK DL  EREV+     E    +  +    E SAK    V+E F  L  
Sbjct: 114 NKIDLLEEREVEELLRLEELAKILGVPVF-EVSAKTGEGVDELFEKLIE 161

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

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

 Score = 39.9 bits (93), Expect = 5e-05
 Identities = 21/44 (47%), Positives = 24/44 (54%), Gaps = 2/44 (4%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAF 62
           NKCDL   R V   E E+  +    I   ME SAK + NVEEAF
Sbjct: 119 NKCDLAHRRAVSTEEGEQFAKEHGLI--FMEASAKTAQNVEEAF 160

Length = 210

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

 Score = 39.4 bits (92), Expect = 6e-05
 Identities = 18/44 (40%), Positives = 28/44 (63%), Gaps = 2/44 (4%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAF 62
           NK DLE++R+V + EA++  +    +   +E SAK   NVE+AF
Sbjct: 115 NKADLEAQRDVTYEEAKQFADENGLL--FLECSAKTGENVEDAF 156

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

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

 Score = 39.3 bits (92), Expect = 7e-05
 Identities = 20/56 (35%), Positives = 31/56 (55%), Gaps = 5/56 (8%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKD---STNVEEAFYCLANELKN 71
           NKCDL  + +V  + A+   +       + ETSAKD   + +VE  F  LA++LK+
Sbjct: 117 NKCDLREQIQVPTDLAQRFAD--AHSMPLFETSAKDPSENDHVEAIFMTLAHKLKS 170

Rab33B/Rab33A subfamily. Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 170

>gnl|CDD|206696 cd04113, Rab4, Rab GTPase family 4 (Rab4)

 Score = 38.6 bits (90), Expect = 1e-04
 Identities = 21/44 (47%), Positives = 26/44 (59%), Gaps = 2/44 (4%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAF 62
           NK DLE +REV F EA    +    + + +ETSA    NVEEAF
Sbjct: 113 NKKDLEDDREVTFLEASRFAQE-NGLLF-LETSALTGENVEEAF 154

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

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

 Score = 38.4 bits (90), Expect = 1e-04
 Identities = 21/51 (41%), Positives = 29/51 (56%), Gaps = 4/51 (7%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYV-METSAKDSTNVEEAFYCLANE 68
           NK DL  ER+V   E +++ E         +E+SAK++ NVEEAF  L  E
Sbjct: 114 NKSDLHMERQVSAEEGKKLAE---SWGAAFLESSAKENENVEEAFELLIEE 161

Rheb (Ras Homolog Enriched in Brain) subfamily. Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that leads to cell growth and cell-cycle progression. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Length = 180

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

 Score = 38.2 bits (89), Expect = 1e-04
 Identities = 16/44 (36%), Positives = 25/44 (56%), Gaps = 1/44 (2%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAF 62
           NK DLE +R+V   +   + +    + +  ETSA+  TNV+E F
Sbjct: 114 NKADLEDDRQVSREDGVSLSQQWGNVPF-YETSARKRTNVDEVF 156

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

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

 Score = 36.7 bits (85), Expect = 5e-04
 Identities = 20/50 (40%), Positives = 25/50 (50%), Gaps = 4/50 (8%)

Query: 19  NKCDLESEREVDFNEAEEMG-EYVPEIHYVMETSAKDSTNVEEAFYCLAN 67
           NKCD    REV  +E   +   +       METSAK + NV+E F  L N
Sbjct: 116 NKCDESPSREVSSSEGAALARTWNCAF---METSAKTNHNVQELFQELLN 162

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

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

 Score = 35.7 bits (82), Expect = 0.001
 Identities = 15/44 (34%), Positives = 25/44 (56%), Gaps = 2/44 (4%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAF 62
           NKCD+E ER V      ++ + +    +  E SAK++ NV++ F
Sbjct: 114 NKCDMEDERVVSAERGRQLADQLGFEFF--EASAKENINVKQVF 155

The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 165

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

 Score = 35.2 bits (81), Expect = 0.002
 Identities = 21/86 (24%), Positives = 36/86 (41%), Gaps = 4/86 (4%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLC 78
           NK D    + V+  +A +          + ETSAK++ NVEE F C+   +   +   L 
Sbjct: 118 NKNDDPERKVVETEDAYKFAG--QMGISLFETSAKENINVEEMFNCITELVLRAKKDNLA 175

Query: 79  NEPINTDNTNSPITLSNDTKSIRNKC 104
            +       N  + L  ++K  +  C
Sbjct: 176 KQ--QQQQQNDVVKLPKNSKRKKRCC 199

Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells. Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 199

>gnl|CDD|206747 cd01854, YjeQ_EngC, Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases

 Score = 35.1 bits (82), Expect = 0.003
 Identities = 17/58 (29%), Positives = 27/58 (46%), Gaps = 10/58 (17%)

Query: 19 NKCDLESEREVDFNEAEEMGEYVPEIHY-VMETSAKDSTNVEEAFYCLANELKNRQSA 75
          NK DL  + E++    E +  Y  ++ Y V+  SAK    ++E    L   LK + S 
Sbjct: 41 NKADLVDDEELE----ELLEIYE-KLGYPVLAVSAKTGEGLDE----LRELLKGKTSV 89

YjeQ (YloQ in Bacillus subtilis) is a ribosomal small subunit-dependent GTPase; hence also known as RsgA. YjeQ is a late-stage ribosomal biogenesis factor involved in the 30S subunit maturation, and it 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. Length = 211

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

 Score = 35.0 bits (80), Expect = 0.003
 Identities = 17/51 (33%), Positives = 31/51 (60%), Gaps = 1/51 (1%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
           NK D E++RE+   + E+  + +  + +  E SAKD+ NV+E F  L +++
Sbjct: 113 NKLDCETDREITRQQGEKFAQQITGMRFC-EASAKDNFNVDEIFLKLVDDI 162

Rab12 was first identified in canine cells, where it was localized to the Golgi complex. The specific function of Rab12 remains unknown, and inconsistent results about its cellular localization have been reported. More recent studies have identified Rab12 associated with post-Golgi vesicles, or with other small vesicle-like structures but not with the Golgi complex. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 202

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

 Score = 34.8 bits (80), Expect = 0.003
 Identities = 20/48 (41%), Positives = 25/48 (52%), Gaps = 2/48 (4%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLA 66
           NKCDL   REVD  +A+ + +      Y  ETSAK+    E  F  LA
Sbjct: 118 NKCDLTDRREVDAAQAQALAQANTLKFY--ETSAKEGVGYEAPFLSLA 163

RabL4 (Rab-like4) subfamily. RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown. Length = 167

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	106
KOG0092|consensus	200		99.69
KOG0084|consensus	205		99.68
KOG0078|consensus	207		99.66
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.59
KOG0091|consensus	213		99.59
KOG0394|consensus	210		99.55
PTZ00099	176	rab6; Provisional	99.52
KOG0094|consensus	221		99.52
KOG0087|consensus	222		99.51
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	99.49
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.49
KOG0093|consensus	193		99.49
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.49
KOG0079|consensus	198		99.48
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.45
KOG0088|consensus	218		99.44
PLN03110	216	Rab GTPase; Provisional	99.44
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.44
KOG0097|consensus	215		99.43
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.43
KOG0098|consensus	216		99.41
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	99.41
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	99.41
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.4
KOG0086|consensus	214		99.39
KOG0080|consensus	209		99.39
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.38
KOG0083|consensus	192		99.36
PLN03118	211	Rab family protein; Provisional	99.35
KOG0081|consensus	219		99.35
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.35
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	99.34
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.34
KOG0395|consensus	196		99.32
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.32
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	99.32
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.31
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.29
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	99.29
PLN03108	210	Rab family protein; Provisional	99.29
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	99.29
PTZ00369	189	Ras-like protein; Provisional	99.29
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.25
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.25
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.24
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.23
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.23
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.23
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.22
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.22
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	99.21
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.21
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.21
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.2
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.2
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.19
KOG0095|consensus	213		99.19
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.19
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.19
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.18
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.18
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.18
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.17
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.17
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.16
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.15
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.15
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.14
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.14
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.14
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.14
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.12
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.11
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.1
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.1
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.1
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.08
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.08
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.08
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.07
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.07
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.06
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.05
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.04
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.04
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.03
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.01
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	98.99
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	98.99
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	98.98
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	98.97
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	98.97
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	98.97
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	98.96
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	98.95
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	98.93
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	98.93
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	98.92
PLN00223	181	ADP-ribosylation factor; Provisional	98.92
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	98.86
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	98.86
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	98.85
PTZ00133	182	ADP-ribosylation factor; Provisional	98.84
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	98.82
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	98.81
PRK04213	201	GTP-binding protein; Provisional	98.81
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	98.81
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	98.81
PRK12299	335	obgE GTPase CgtA; Reviewed	98.79
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	98.79
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	98.78
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	98.77
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	98.77
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	98.76
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	98.73
PRK15467	158	ethanolamine utilization protein EutP; Provisional	98.72
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	98.71
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	98.7
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	98.7
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	98.69
KOG0393|consensus	198		98.67
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	98.67
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	98.67
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	98.66
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	98.65
KOG4252|consensus	246		98.63
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	98.62
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	98.59
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	98.55
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	98.54
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	98.52
cd01881	176	Obg_like The Obg-like subfamily consists of five w	98.52
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	98.46
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.45
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	98.43
smart00178	184	SAR Sar1p-like members of the Ras-family of small	98.4
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	98.4
PRK15494	339	era GTPase Era; Provisional	98.39
PRK03003	472	GTP-binding protein Der; Reviewed	98.38
PRK00089	292	era GTPase Era; Reviewed	98.38
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	98.37
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	98.37
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	98.37
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	98.36
PRK12297	424	obgE GTPase CgtA; Reviewed	98.35
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	98.35
KOG4423|consensus	229		98.34
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	98.34
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	98.33
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	98.31
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	98.31
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.3
TIGR00101	199	ureG urease accessory protein UreG. This model rep	98.29
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	98.29
PRK12296	500	obgE GTPase CgtA; Reviewed	98.27
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	98.27
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	98.27
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	98.26
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	98.25
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	98.25
cd00881	189	GTP_translation_factor GTP translation factor fami	98.25
cd01896	233	DRG The developmentally regulated GTP-binding prot	98.24
PRK12288	347	GTPase RsgA; Reviewed	98.22
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	98.21
PRK12289	352	GTPase RsgA; Reviewed	98.19
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	98.19
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	98.16
PRK03003	472	GTP-binding protein Der; Reviewed	98.15
PRK12298	390	obgE GTPase CgtA; Reviewed	98.14
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	98.14
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.13
KOG3883|consensus	198		98.13
PRK00098	298	GTPase RsgA; Reviewed	98.13
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	98.1
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.09
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	98.07
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	98.05
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.02
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	98.0
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	98.0
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	97.99
PRK11058	426	GTPase HflX; Provisional	97.97
COG1159	298	Era GTPase [General function prediction only]	97.96
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	97.96
PRK05433	600	GTP-binding protein LepA; Provisional	97.95
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	97.93
PRK00093	435	GTP-binding protein Der; Reviewed	97.91
PRK13796	365	GTPase YqeH; Provisional	97.88
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	97.87
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	97.86
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	97.86
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	97.85
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	97.85
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	97.84
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	97.84
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	97.82
PRK00093	435	GTP-binding protein Der; Reviewed	97.81
PRK04000	411	translation initiation factor IF-2 subunit gamma;	97.76
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	97.76
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	97.76
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	97.68
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	97.68
KOG0462|consensus	650		97.67
COG2262	411	HflX GTPases [General function prediction only]	97.65
COG1162	301	Predicted GTPases [General function prediction onl	97.65
KOG1707|consensus	625		97.65
CHL00189	742	infB translation initiation factor 2; Provisional	97.65
PRK01889	356	GTPase RsgA; Reviewed	97.64
KOG0096|consensus	216		97.64
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	97.61
PRK05306	787	infB translation initiation factor IF-2; Validated	97.61
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	97.57
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	97.57
COG1100	219	GTPase SAR1 and related small G proteins [General	97.56
PRK09563	287	rbgA GTPase YlqF; Reviewed	97.52
COG0536	369	Obg Predicted GTPase [General function prediction	97.5
PRK13768	253	GTPase; Provisional	97.49
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	97.48
KOG1489|consensus	366		97.48
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	97.45
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	97.42
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	97.39
PRK09866	741	hypothetical protein; Provisional	97.38
COG1160	444	Predicted GTPases [General function prediction onl	97.36
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	97.32
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	97.3
COG0486	454	ThdF Predicted GTPase [General function prediction	97.3
KOG0075|consensus	186		97.29
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	97.27
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	97.25
KOG0070|consensus	181		97.22
COG1160	444	Predicted GTPases [General function prediction onl	97.22
KOG0073|consensus	185		97.21
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	97.1
PRK09435	332	membrane ATPase/protein kinase; Provisional	97.06
KOG0072|consensus	182		96.99
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	96.97
PRK12317	425	elongation factor 1-alpha; Reviewed	96.95
PRK14845	1049	translation initiation factor IF-2; Provisional	96.95
PRK04004	586	translation initiation factor IF-2; Validated	96.9
KOG3905|consensus	473		96.83
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	96.76
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	96.75
KOG1673|consensus	205		96.74
KOG1532|consensus	366		96.74
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	96.72
KOG0076|consensus	197		96.7
PRK12736	394	elongation factor Tu; Reviewed	96.65
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	96.6
KOG1145|consensus	683		96.57
PLN00023	334	GTP-binding protein; Provisional	96.54
COG0218	200	Predicted GTPase [General function prediction only	96.49
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	96.45
COG1163	365	DRG Predicted GTPase [General function prediction	96.44
PRK10218	607	GTP-binding protein; Provisional	96.22
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	96.2
KOG1490|consensus	620		96.11
COG2229	187	Predicted GTPase [General function prediction only	96.0
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	95.87
TIGR00485	394	EF-Tu translation elongation factor TU. This align	95.81
PLN00043	447	elongation factor 1-alpha; Provisional	95.71
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	95.7
KOG1423|consensus	379		95.7
PRK12735	396	elongation factor Tu; Reviewed	95.61
PRK09602	396	translation-associated GTPase; Reviewed	95.58
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	95.55
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	95.43
KOG0071|consensus	180		95.39
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	95.36
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	95.08
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	94.69
CHL00071	409	tufA elongation factor Tu	94.66
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	94.62
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	94.53
KOG0466|consensus	466		94.27
KOG1144|consensus	1064		93.92
PTZ00141	446	elongation factor 1- alpha; Provisional	93.63
COG3276	447	SelB Selenocysteine-specific translation elongatio	93.58
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	93.29
PRK12740	668	elongation factor G; Reviewed	93.22
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	93.17
COG1084	346	Predicted GTPase [General function prediction only	92.96
PLN03127	447	Elongation factor Tu; Provisional	92.9
COG5258	527	GTPBP1 GTPase [General function prediction only]	92.51
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	92.45
PRK00741	526	prfC peptide chain release factor 3; Provisional	92.41
PRK00049	396	elongation factor Tu; Reviewed	92.3
KOG1191|consensus	531		92.04
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	91.98
PRK13351	687	elongation factor G; Reviewed	91.72
COG1161	322	Predicted GTPases [General function prediction onl	90.83
KOG0461|consensus	522		90.05
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	89.82
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	89.67
PLN03126	478	Elongation factor Tu; Provisional	89.49
PRK12739	691	elongation factor G; Reviewed	89.22
cd04105	203	SR_beta Signal recognition particle receptor, beta	89.0
KOG1424|consensus	562		88.65
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	88.17
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	87.97
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	87.8
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	87.45
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	86.7
KOG0077|consensus	193		86.12
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	85.79
PF14331	266	ImcF-related_N: ImcF-related N-terminal domain	85.6
KOG2485|consensus	335		84.57
KOG2423|consensus	572		84.5
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	84.25
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	83.44
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	83.41
KOG1143|consensus	591		82.14
PF08438	109	MMR_HSR1_C: GTPase of unknown function C-terminal;	80.26

>KOG0092|consensus

Probab=99.69  E-value=1.1e-16  Score=104.05  Aligned_cols=90  Identities=27%  Similarity=0.368  Sum_probs=73.1

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhccccCCCCCCCC-CC
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLCNEPINTD-NT   87 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~~~~~~~~~~~~-~~   87 (106)
                      .+++.+.|||||+||.+.+.+..+++..+++.. +..| ||||||++.||+++|..|++.++....      ..... +.
T Consensus       108 ~~~~vialvGNK~DL~~~R~V~~~ea~~yAe~~-gll~-~ETSAKTg~Nv~~if~~Ia~~lp~~~~------~~~~~~~~  179 (200)
T KOG0092|consen  108 SPNIVIALVGNKADLLERREVEFEEAQAYAESQ-GLLF-FETSAKTGENVNEIFQAIAEKLPCSDP------QERQGLPN  179 (200)
T ss_pred             CCCeEEEEecchhhhhhcccccHHHHHHHHHhc-CCEE-EEEecccccCHHHHHHHHHHhccCccc------cccccccc
Confidence            378899999999999998999999999999999 9999 999999999999999999999998876      22221 11


Q ss_pred             C-CCeeeCCC-CCCCCCCccC
Q psy5780          88 N-SPITLSND-TKSIRNKCNC  106 (106)
Q Consensus        88 ~-~~i~l~~~-~~~~~~~CcC  106 (106)
                      . .++++... ..+.+++|||
T Consensus       180 ~~~g~~l~~~~~~~~~~~~C~  200 (200)
T KOG0092|consen  180 RRQGVDLNSNQEPARPSGCCA  200 (200)
T ss_pred             cccceecccCCCCcCcCCcCC
Confidence            1 55666643 3344788886

>KOG0084|consensus

Probab=99.68  E-value=3.2e-16  Score=102.24  Aligned_cols=93  Identities=34%  Similarity=0.457  Sum_probs=75.6

Q ss_pred             ecCCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcc-eEEEcccCCCCCHHHHHHHHHHHHHHhhccccCCCCCCC
Q psy5780           6 GWPDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIH-YVMETSAKDSTNVEEAFYCLANELKNRQSATLCNEPINT   84 (106)
Q Consensus         6 ~~~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~~~~~~~~~~~   84 (106)
                      .+...++|.+|||||+|+.+.+.++.++++.|+..+ +++ | +|||||++.||++.|..|+..+..++.      ....
T Consensus       109 ~~~~~~v~~lLVGNK~Dl~~~~~v~~~~a~~fa~~~-~~~~f-~ETSAK~~~NVe~~F~~la~~lk~~~~------~~~~  180 (205)
T KOG0084|consen  109 RYASENVPKLLVGNKCDLTEKRVVSTEEAQEFADEL-GIPIF-LETSAKDSTNVEDAFLTLAKELKQRKG------LHVK  180 (205)
T ss_pred             hhccCCCCeEEEeeccccHhheecCHHHHHHHHHhc-CCcce-eecccCCccCHHHHHHHHHHHHHHhcc------cCCC
Confidence            345678999999999999999999999999999999 888 9 999999999999999999999999887      4444


Q ss_pred             CC--CCCCeeeCCCCCCC-CCCccC
Q psy5780          85 DN--TNSPITLSNDTKSI-RNKCNC  106 (106)
Q Consensus        85 ~~--~~~~i~l~~~~~~~-~~~CcC  106 (106)
                      ..  +.+++.+...+..+ .++||+
T Consensus       181 ~~~~~~~~~ql~~~p~~~~~~~~C~  205 (205)
T KOG0084|consen  181 WSTASLESVQLKGTPVKKSNGGCCE  205 (205)
T ss_pred             CCcCCCCceeeCCCCcccccCCCCC
Confidence            44  23777777522223 555775

>KOG0078|consensus

Probab=99.66  E-value=3.9e-16  Score=102.70  Aligned_cols=68  Identities=32%  Similarity=0.453  Sum_probs=63.0

Q ss_pred             eecCCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           5 VGWPDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         5 ~~~~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      +....+++|++|||||+|+..++.++.+.++.++.++ ++.| +|||||+|.||++.|..|++.+.++..
T Consensus       111 ~e~a~~~v~~~LvGNK~D~~~~R~V~~e~ge~lA~e~-G~~F-~EtSAk~~~NI~eaF~~La~~i~~k~~  178 (207)
T KOG0078|consen  111 DEHASDDVVKILVGNKCDLEEKRQVSKERGEALAREY-GIKF-FETSAKTNFNIEEAFLSLARDILQKLE  178 (207)
T ss_pred             HhhCCCCCcEEEeeccccccccccccHHHHHHHHHHh-CCeE-EEccccCCCCHHHHHHHHHHHHHhhcc
Confidence            3445679999999999999999999999999999999 9999 999999999999999999999997765

>cd04126 Rab20 Rab20 subfamily

Probab=99.59  E-value=8.3e-15  Score=98.40  Aligned_cols=89  Identities=26%  Similarity=0.312  Sum_probs=65.7

Q ss_pred             CCCCeEEEEEecCCCCC-------------------CCCCCHHHHHHHhhhcCC-------------cceEEEcccCCCC
Q psy5780           9 DSAHDSRVWSNKCDLES-------------------EREVDFNEAEEMGEYVPE-------------IHYVMETSAKDST   56 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~-------------------~~~~~~~~~~~~~~~~~~-------------~~~~~~~Sa~~~~   56 (106)
                      .+++|+||||||+||.+                   .+.+..+++..+++..+.             ..| +|+||++|.
T Consensus        98 ~~~~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~~~~r~v~~~e~~~~a~~~~~~~~~~~~~~~~~~~~~-~E~SA~tg~  176 (220)
T cd04126          98 NEDCLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKMLDEDLSPAAEKMC-FETSAKTGY  176 (220)
T ss_pred             CCCCcEEEEEECcccccccccccccccccccccccccccCCHHHHHHHHHHhCccccccccccccccceE-EEeeCCCCC
Confidence            35799999999999975                   467888889999887721             579 999999999


Q ss_pred             CHHHHHHHHHHHHHHhhccccCCCCCCCCCC--CCCeeeCCCCCCCCCCcc
Q psy5780          57 NVEEAFYCLANELKNRQSATLCNEPINTDNT--NSPITLSNDTKSIRNKCN  105 (106)
Q Consensus        57 ~v~~lf~~l~~~i~~~~~~~~~~~~~~~~~~--~~~i~l~~~~~~~~~~Cc  105 (106)
                      ||+++|..+++.+.....      ......+  +..+.+. +.+.++++||
T Consensus       177 ~V~elf~~i~~~~~~~~~------~~~~~~~~~~~~~~~~-~~~~~~~~~~  220 (220)
T cd04126         177 NVDELFEYLFNLVLPLIL------AQRAEANRTQGTVNLP-NPKRSKSKCC  220 (220)
T ss_pred             CHHHHHHHHHHHHHHHHH------hhhhhhhhhhccccCC-CcccCCCCCC
Confidence            999999999998887765      2222111  2556665 3333466665

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

>KOG0091|consensus

Probab=99.59  E-value=9.1e-15  Score=93.44  Aligned_cols=89  Identities=29%  Similarity=0.375  Sum_probs=72.5

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhccccCCCCCCCCCCC-
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLCNEPINTDNTN-   88 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~~~~~~~~~~~~~~~-   88 (106)
                      .++.+.|||.|+||...++++.++++.+++.+ ++.| +||||++|.||++.|..+++.+.....      +++..... 
T Consensus       115 ~k~VFlLVGhKsDL~SqRqVt~EEaEklAa~h-gM~F-VETSak~g~NVeEAF~mlaqeIf~~i~------qGeik~edg  186 (213)
T KOG0091|consen  115 DKVVFLLVGHKSDLQSQRQVTAEEAEKLAASH-GMAF-VETSAKNGCNVEEAFDMLAQEIFQAIQ------QGEIKLEDG  186 (213)
T ss_pred             CeeEEEEeccccchhhhccccHHHHHHHHHhc-CceE-EEecccCCCcHHHHHHHHHHHHHHHHh------cCceeeeec
Confidence            46778999999999999999999999999999 9999 999999999999999999999999887      65544433 


Q ss_pred             -CCeeeCCCCC--------CCCCCccC
Q psy5780          89 -SPITLSNDTK--------SIRNKCNC  106 (106)
Q Consensus        89 -~~i~l~~~~~--------~~~~~CcC  106 (106)
                       .+++...+..        ..++.|||
T Consensus       187 w~gvKSsrpn~i~~s~~~~~P~k~c~C  213 (213)
T KOG0091|consen  187 WGGVKSSRPNQIPRSPSRKQPSKPCQC  213 (213)
T ss_pred             cccccccCCCcCCCcccccCCCCCCCC
Confidence             5555432111        11778888

>KOG0394|consensus

Probab=99.55  E-value=2.7e-14  Score=92.63  Aligned_cols=90  Identities=28%  Similarity=0.383  Sum_probs=69.6

Q ss_pred             CCCeEEEEEecCCCCC--CCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhccccCCCCCC--CC
Q psy5780          10 SAHDSRVWSNKCDLES--EREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLCNEPIN--TD   85 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~~~~~~~~~~--~~   85 (106)
                      ...|+||+|||+|+..  .+.++...++.|+...+.++| ||||||...||++.|..+++.++....      ...  ..
T Consensus       117 e~FPFVilGNKiD~~~~~~r~VS~~~Aq~WC~s~gnipy-fEtSAK~~~NV~~AFe~ia~~aL~~E~------~~~~~~~  189 (210)
T KOG0394|consen  117 ETFPFVILGNKIDVDGGKSRQVSEKKAQTWCKSKGNIPY-FETSAKEATNVDEAFEEIARRALANED------REIAELA  189 (210)
T ss_pred             CcccEEEEcccccCCCCccceeeHHHHHHHHHhcCCcee-EEecccccccHHHHHHHHHHHHHhccc------hhhhhhh
Confidence            4689999999999965  378899999999998878999 999999999999999999999998876      211  11


Q ss_pred             CCCCCeeeCCCCCCCCCCccC
Q psy5780          86 NTNSPITLSNDTKSIRNKCNC  106 (106)
Q Consensus        86 ~~~~~i~l~~~~~~~~~~CcC  106 (106)
                      .-...+.+..+..+.+++|.|
T Consensus       190 ~~~d~i~~~~~~~~~~~~c~c  210 (210)
T KOG0394|consen  190 DYSDQIVLSTKANNQSSGCEC  210 (210)
T ss_pred             hcCcccccccccccCCCCCCC
Confidence            122566666444444556666

>PTZ00099 rab6; Provisional

Probab=99.52  E-value=1.3e-13  Score=89.67  Aligned_cols=63  Identities=27%  Similarity=0.297  Sum_probs=55.5

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      +++|++|||||+||.+.+.+..+++..++..+ +..| +++||++|.||+++|.+|++.+++...
T Consensus        84 ~~~piilVgNK~DL~~~~~v~~~e~~~~~~~~-~~~~-~e~SAk~g~nV~~lf~~l~~~l~~~~~  146 (176)
T PTZ00099         84 KDVIIALVGNKTDLGDLRKVTYEEGMQKAQEY-NTMF-HETSAKAGHNIKVLFKKIAAKLPNLDN  146 (176)
T ss_pred             CCCeEEEEEECcccccccCCCHHHHHHHHHHc-CCEE-EEEECCCCCCHHHHHHHHHHHHHhccc
Confidence            57899999999999766667777788888888 7789 999999999999999999999988655

>KOG0094|consensus

Probab=99.52  E-value=5.1e-14  Score=92.09  Aligned_cols=62  Identities=29%  Similarity=0.361  Sum_probs=58.2

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ++-++|||||.||.+++++..+++...++++ +..| +++||+.|.||.++|..++..+++...
T Consensus       128 ~viI~LVGnKtDL~dkrqvs~eEg~~kAkel-~a~f-~etsak~g~NVk~lFrrIaa~l~~~~~  189 (221)
T KOG0094|consen  128 DVIIFLVGNKTDLSDKRQVSIEEGERKAKEL-NAEF-IETSAKAGENVKQLFRRIAAALPGMEV  189 (221)
T ss_pred             ceEEEEEcccccccchhhhhHHHHHHHHHHh-CcEE-EEecccCCCCHHHHHHHHHHhccCccc
Confidence            5889999999999999999999999999999 8899 999999999999999999999998865

>KOG0087|consensus

Probab=99.51  E-value=7.3e-14  Score=92.16  Aligned_cols=66  Identities=33%  Similarity=0.358  Sum_probs=60.8

Q ss_pred             cCCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           7 WPDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         7 ~~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..+++++++|||||+||...+.++.+++..+++.. +..| ++|||+++.||+..|..+...|.+...
T Consensus       115 had~nivimLvGNK~DL~~lraV~te~~k~~Ae~~-~l~f-~EtSAl~~tNVe~aF~~~l~~I~~~vs  180 (222)
T KOG0087|consen  115 HADSNIVIMLVGNKSDLNHLRAVPTEDGKAFAEKE-GLFF-LETSALDATNVEKAFERVLTEIYKIVS  180 (222)
T ss_pred             cCCCCeEEEEeecchhhhhccccchhhhHhHHHhc-CceE-EEecccccccHHHHHHHHHHHHHHHHH
Confidence            46689999999999999998999999999999999 9999 999999999999999999988887754

>cd04121 Rab40 Rab40 subfamily

Probab=99.49  E-value=2.3e-13  Score=89.47  Aligned_cols=63  Identities=22%  Similarity=0.246  Sum_probs=57.4

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      +++|+||||||.||...+.++.+++..+++.+ ++.| +++||++|.||+++|.++++.+.....
T Consensus       109 ~~~piilVGNK~DL~~~~~v~~~~~~~~a~~~-~~~~-~e~SAk~g~~V~~~F~~l~~~i~~~~~  171 (189)
T cd04121         109 PGVPKILVGNRLHLAFKRQVATEQAQAYAERN-GMTF-FEVSPLCNFNITESFTELARIVLMRHG  171 (189)
T ss_pred             CCCCEEEEEECccchhccCCCHHHHHHHHHHc-CCEE-EEecCCCCCCHHHHHHHHHHHHHHhcC
Confidence            68999999999999877778888999999988 8899 999999999999999999998876655

This subfamily contains Rab40a, Rab40b, and Rab40c, which are all highly homologous. In rat, Rab40c is localized to the perinuclear recycling compartment (PRC), and is distributed in a tissue-specific manor, with high expression in brain, heart, kidney, and testis, low expression in lung and liver, and no expression in spleen and skeletal muscle. Rab40c is highly expressed in differentiated oligodendrocytes but minimally expressed in oligodendrocyte progenitors, suggesting a role in the vesicular transport of myelin components. Unlike most other Ras-superfamily proteins, Rab40c was shown to have a much lower affinity for GTP, and an affinity for GDP that is lower than for GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide d

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.49  E-value=2.5e-13  Score=89.52  Aligned_cols=64  Identities=27%  Similarity=0.373  Sum_probs=55.8

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCC-cceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPE-IHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..++|++|||||+|+.+.+.+..+++..+++.+ + ..+ +++||+++.||+++|.+|++.+.+...
T Consensus       108 ~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~-~~~~~-~e~Sak~~~~v~e~f~~l~~~l~~~~~  172 (201)
T cd04107         108 GEPIPCLLLANKCDLKKRLAKDGEQMDQFCKEN-GFIGW-FETSAKEGINIEEAMRFLVKNILANDK  172 (201)
T ss_pred             CCCCcEEEEEECCCcccccccCHHHHHHHHHHc-CCceE-EEEeCCCCCCHHHHHHHHHHHHHHhch
Confidence            367999999999999765667788888888888 6 689 999999999999999999999887754

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.

>KOG0093|consensus

Probab=99.49  E-value=4.7e-14  Score=88.84  Aligned_cols=66  Identities=26%  Similarity=0.470  Sum_probs=61.8

Q ss_pred             cCCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           7 WPDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         7 ~~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      +.-.++|+|||||||||.+++.++.+.++.++.+. |..| ||+|||.+.||.++|+.++..|-+++.
T Consensus       122 ysw~naqvilvgnKCDmd~eRvis~e~g~~l~~~L-Gfef-FEtSaK~NinVk~~Fe~lv~~Ic~kms  187 (193)
T KOG0093|consen  122 YSWDNAQVILVGNKCDMDSERVISHERGRQLADQL-GFEF-FETSAKENINVKQVFERLVDIICDKMS  187 (193)
T ss_pred             eeccCceEEEEecccCCccceeeeHHHHHHHHHHh-ChHH-hhhcccccccHHHHHHHHHHHHHHHhh
Confidence            34478999999999999999999999999999999 9999 999999999999999999999988877

>cd04144 Ras2 Ras2 subfamily

Probab=99.49  E-value=2.8e-13  Score=88.60  Aligned_cols=63  Identities=33%  Similarity=0.514  Sum_probs=54.9

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++||||+|+...+.+....+..++..+ +..+ +++||++|.||+++|.++++.+.++..
T Consensus       105 ~~~piilvgNK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~e~SAk~~~~v~~l~~~l~~~l~~~~~  167 (190)
T cd04144         105 ADVPIMIVGNKCDKVYEREVSTEEGAALARRL-GCEF-IEASAKTNVNVERAFYTLVRALRQQRQ  167 (190)
T ss_pred             CCCCEEEEEEChhccccCccCHHHHHHHHHHh-CCEE-EEecCCCCCCHHHHHHHHHHHHHHhhc
Confidence            57899999999999766677777777788888 7889 999999999999999999998876655

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.

>KOG0079|consensus

Probab=99.48  E-value=8.6e-14  Score=87.77  Aligned_cols=88  Identities=26%  Similarity=0.389  Sum_probs=70.6

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhccccCCCCCCCCC-C
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLCNEPINTDN-T   87 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~~~~~~~~~~~~~-~   87 (106)
                      .+.+|-+|||||.|+++.+.+..++++.|+... ++.+ ||||||+..|++..|..|.+.+...+.      ...... .
T Consensus       110 cdsv~~vLVGNK~d~~~RrvV~t~dAr~~A~~m-gie~-FETSaKe~~NvE~mF~cit~qvl~~k~------r~~~~~~r  181 (198)
T KOG0079|consen  110 CDSVPKVLVGNKNDDPERRVVDTEDARAFALQM-GIEL-FETSAKENENVEAMFHCITKQVLQAKL------RESVEQQR  181 (198)
T ss_pred             CccccceecccCCCCccceeeehHHHHHHHHhc-Cchh-eehhhhhcccchHHHHHHHHHHHHHHH------hhcHHHHh
Confidence            367999999999999999999999999999999 9999 999999999999999999999998874      222222 2


Q ss_pred             CCCeeeCCCCCCCCCCcc
Q psy5780          88 NSPITLSNDTKSIRNKCN  105 (106)
Q Consensus        88 ~~~i~l~~~~~~~~~~Cc  105 (106)
                      ...+.|..+..+ ++.||
T Consensus       182 ~~~~~l~~n~~~-~~k~c  198 (198)
T KOG0079|consen  182 ADAVSLKDNSKS-TKKCC  198 (198)
T ss_pred             hcceEeccCCCc-cccCC
Confidence            277777744322 44564

>cd04112 Rab26 Rab26 subfamily

Probab=99.45  E-value=1.1e-12  Score=85.92  Aligned_cols=63  Identities=37%  Similarity=0.453  Sum_probs=55.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++|+||+|+...+.+..+++..+...+ +.++ +++||++|.|++++|.+|++.+.+...
T Consensus       105 ~~~piiiv~NK~Dl~~~~~~~~~~~~~l~~~~-~~~~-~e~Sa~~~~~v~~l~~~l~~~~~~~~~  167 (191)
T cd04112         105 EDVVIMLLGNKADMSGERVVKREDGERLAKEY-GVPF-METSAKTGLNVELAFTAVAKELKHRKY  167 (191)
T ss_pred             CCCcEEEEEEcccchhccccCHHHHHHHHHHc-CCeE-EEEeCCCCCCHHHHHHHHHHHHHHhcc
Confidence            47899999999999766666777778888888 7899 999999999999999999999987754

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.

>KOG0088|consensus

Probab=99.44  E-value=3.6e-13  Score=85.86  Aligned_cols=64  Identities=39%  Similarity=0.475  Sum_probs=58.8

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      +-.+.+++||||+||++.+.++.+++..+++.. +..| ++|||+.+.||.++|..|...+.++.+
T Consensus       116 Gnei~l~IVGNKiDLEeeR~Vt~qeAe~YAesv-GA~y-~eTSAk~N~Gi~elFe~Lt~~MiE~~s  179 (218)
T KOG0088|consen  116 GNEIELLIVGNKIDLEEERQVTRQEAEAYAESV-GALY-METSAKDNVGISELFESLTAKMIEHSS  179 (218)
T ss_pred             CCeeEEEEecCcccHHHhhhhhHHHHHHHHHhh-chhh-eecccccccCHHHHHHHHHHHHHHHhh
Confidence            356889999999999999999999999999999 9999 999999999999999999998888753

>PLN03110 Rab GTPase; Provisional

Probab=99.44  E-value=1.9e-12  Score=86.52  Aligned_cols=64  Identities=33%  Similarity=0.359  Sum_probs=55.6

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..++|+++|+||+||...+.+..+.+..+...+ ++++ +++||+++.|++++|..+++.+.+...
T Consensus       115 ~~~~piiiv~nK~Dl~~~~~~~~~~~~~l~~~~-~~~~-~e~SA~~g~~v~~lf~~l~~~i~~~~~  178 (216)
T PLN03110        115 DSNIVIMMAGNKSDLNHLRSVAEEDGQALAEKE-GLSF-LETSALEATNVEKAFQTILLEIYHIIS  178 (216)
T ss_pred             CCCCeEEEEEEChhcccccCCCHHHHHHHHHHc-CCEE-EEEeCCCCCCHHHHHHHHHHHHHHHhh
Confidence            357999999999999777777777788888878 8899 999999999999999999998877543

>cd04110 Rab35 Rab35 subfamily

Probab=99.44  E-value=1.3e-12  Score=86.07  Aligned_cols=63  Identities=27%  Similarity=0.340  Sum_probs=55.2

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..+|+++||||+|+.+...+..+.+..+.... +..+ |++||+++.||+++|.+|++.+.....
T Consensus       109 ~~~piivVgNK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~e~Sa~~~~gi~~lf~~l~~~~~~~~~  171 (199)
T cd04110         109 DDVCKVLVGNKNDDPERKVVETEDAYKFAGQM-GISL-FETSAKENINVEEMFNCITELVLRAKK  171 (199)
T ss_pred             CCCCEEEEEECcccccccccCHHHHHHHHHHc-CCEE-EEEECCCCcCHHHHHHHHHHHHHHhhh
Confidence            56899999999999876666777778888888 7889 999999999999999999999987765

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

>KOG0097|consensus

Probab=99.43  E-value=1.3e-12  Score=82.08  Aligned_cols=66  Identities=33%  Similarity=0.456  Sum_probs=61.8

Q ss_pred             cCCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           7 WPDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         7 ~~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      +..|+..++++|||.||+..+.++.+++..|+++. +..| ++.||++|.||++.|-+.++.+.+..+
T Consensus       112 ltnpnt~i~lignkadle~qrdv~yeeak~faeen-gl~f-le~saktg~nvedafle~akkiyqniq  177 (215)
T KOG0097|consen  112 LTNPNTVIFLIGNKADLESQRDVTYEEAKEFAEEN-GLMF-LEASAKTGQNVEDAFLETAKKIYQNIQ  177 (215)
T ss_pred             cCCCceEEEEecchhhhhhcccCcHHHHHHHHhhc-CeEE-EEecccccCcHHHHHHHHHHHHHHhhh
Confidence            46688999999999999999999999999999999 9999 999999999999999999999998865

>cd04111 Rab39 Rab39 subfamily

Probab=99.43  E-value=2.3e-12  Score=85.84  Aligned_cols=63  Identities=40%  Similarity=0.545  Sum_probs=55.8

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..+|++||+||.|+.+...+..+++..+++.+ +..+ +++||+++.||+++|..|++.+.++..
T Consensus       108 ~~~~iilvgNK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~e~Sak~g~~v~e~f~~l~~~~~~~~~  170 (211)
T cd04111         108 HRPVFILVGHKCDLESQRQVTREEAEKLAKDL-GMKY-IETSARTGDNVEEAFELLTQEIYERIK  170 (211)
T ss_pred             CCCeEEEEEEccccccccccCHHHHHHHHHHh-CCEE-EEEeCCCCCCHHHHHHHHHHHHHHHhh
Confidence            45788999999999876677888888888888 7899 999999999999999999999887755

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.

>KOG0098|consensus

Probab=99.41  E-value=4.1e-13  Score=87.37  Aligned_cols=65  Identities=37%  Similarity=0.433  Sum_probs=61.2

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..+++.++|+|||+||...+.++.++++.|++++ +..| ++|||+++.||++.|...+..|..+.+
T Consensus       108 ~~~NmvImLiGNKsDL~~rR~Vs~EEGeaFA~eh-gLif-mETSakt~~~VEEaF~nta~~Iy~~~q  172 (216)
T KOG0098|consen  108 SNENMVIMLIGNKSDLEARREVSKEEGEAFAREH-GLIF-METSAKTAENVEEAFINTAKEIYRKIQ  172 (216)
T ss_pred             cCCCcEEEEEcchhhhhccccccHHHHHHHHHHc-Ccee-ehhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            4589999999999999999999999999999999 9999 999999999999999999999988865

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=99.41  E-value=3.3e-12  Score=86.49  Aligned_cols=63  Identities=17%  Similarity=0.229  Sum_probs=54.7

Q ss_pred             CCCeEEEEEecCCCCC------------CCCCCHHHHHHHhhhcCCc-ceEEEcccCCCC-CHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLES------------EREVDFNEAEEMGEYVPEI-HYVMETSAKDST-NVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~-~v~~lf~~l~~~i~~~~~   74 (106)
                      +++|+||||||+||.+            .+.+..+++..+++.+ +. .| |||||++|. ||+++|..+++.+.+...
T Consensus       116 ~~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e~~~~a~~~-~~~~~-~EtSAktg~~~V~e~F~~~~~~~~~~~~  192 (232)
T cd04174         116 PSTRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCALAKQL-GAEVY-LECSAFTSEKSIHSIFRSASLLCLNKLS  192 (232)
T ss_pred             CCCCEEEEEECcccccccchhhhhccccCCcCCHHHHHHHHHHc-CCCEE-EEccCCcCCcCHHHHHHHHHHHHHHhcc
Confidence            5789999999999964            2568888999999999 77 69 999999998 899999999998887643

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.

>cd04120 Rab12 Rab12 subfamily

Probab=99.41  E-value=2.5e-12  Score=85.41  Aligned_cols=65  Identities=26%  Similarity=0.448  Sum_probs=55.6

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..++|+++||||+||.+.+.+...++..+++.+.++.| ++|||++|.||+++|.++++.+.+...
T Consensus       103 ~~~~piilVgNK~DL~~~~~v~~~~~~~~a~~~~~~~~-~etSAktg~gV~e~F~~l~~~~~~~~~  167 (202)
T cd04120         103 SEDAELLLVGNKLDCETDREISRQQGEKFAQQITGMRF-CEASAKDNFNVDEIFLKLVDDILKKMP  167 (202)
T ss_pred             CCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCEE-EEecCCCCCCHHHHHHHHHHHHHHhCc
Confidence            36799999999999987777888888888876436789 999999999999999999998877644

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

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.40  E-value=1.7e-12  Score=83.84  Aligned_cols=63  Identities=29%  Similarity=0.396  Sum_probs=56.3

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      +++|+++||||+|+.+.+.+..+++..+++.+ +++| +++||++|.||+++|.++++.+.+...
T Consensus       106 ~~~piilvgNK~Dl~~~~~v~~~~~~~~a~~~-~~~~-~e~Sa~~~~~v~~~f~~l~~~~~~~~~  168 (172)
T cd04141         106 EDIPLVLVGNKVDLESQRQVTTEEGRNLAREF-NCPF-FETSAALRHYIDDAFHGLVREIRRKES  168 (172)
T ss_pred             CCCCEEEEEEChhhhhcCccCHHHHHHHHHHh-CCEE-EEEecCCCCCHHHHHHHHHHHHHHhcc
Confidence            57999999999999877778888888888888 8899 999999999999999999998887654

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

>KOG0086|consensus

Probab=99.39  E-value=1.5e-12  Score=82.69  Aligned_cols=79  Identities=34%  Similarity=0.370  Sum_probs=69.7

Q ss_pred             cCCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhccccCCCCCCCCC
Q psy5780           7 WPDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLCNEPINTDN   86 (106)
Q Consensus         7 ~~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~~~~~~~~~~~~~   86 (106)
                      +..+++.+||+|||.||.+.++++..++..|+++. .+.+ .|+||++|+||++.|-..++.|..+..      .++.++
T Consensus       110 lAs~nIvviL~GnKkDL~~~R~VtflEAs~FaqEn-el~f-lETSa~TGeNVEEaFl~c~~tIl~kIE------~GElDP  181 (214)
T KOG0086|consen  110 LASPNIVVILCGNKKDLDPEREVTFLEASRFAQEN-ELMF-LETSALTGENVEEAFLKCARTILNKIE------SGELDP  181 (214)
T ss_pred             hCCCcEEEEEeCChhhcChhhhhhHHHHHhhhccc-ceee-eeecccccccHHHHHHHHHHHHHHHHh------hcCCCH
Confidence            46689999999999999999999999999999988 8889 999999999999999999999999988      777766


Q ss_pred             CC--CCeee
Q psy5780          87 TN--SPITL   93 (106)
Q Consensus        87 ~~--~~i~l   93 (106)
                      ..  .+|..
T Consensus       182 er~gsGIQY  190 (214)
T KOG0086|consen  182 ERMGSGIQY  190 (214)
T ss_pred             HHccccccc
Confidence            55  44543

>KOG0080|consensus

Probab=99.39  E-value=6.7e-13  Score=84.74  Aligned_cols=65  Identities=29%  Similarity=0.282  Sum_probs=60.4

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..+++..++||||+|-.+.+.++.+++..|++.+ +..| +|+||++.+||+..|++++.+|.+...
T Consensus       114 tn~diikmlVgNKiDkes~R~V~reEG~kfAr~h-~~LF-iE~SAkt~~~V~~~FeelveKIi~tp~  178 (209)
T KOG0080|consen  114 TNPDIIKMLVGNKIDKESERVVDREEGLKFARKH-RCLF-IECSAKTRENVQCCFEELVEKIIETPS  178 (209)
T ss_pred             CCccHhHhhhcccccchhcccccHHHHHHHHHhh-CcEE-EEcchhhhccHHHHHHHHHHHHhcCcc
Confidence            4478899999999998878899999999999999 9999 999999999999999999999998866

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.38  E-value=1.5e-12  Score=85.93  Aligned_cols=57  Identities=18%  Similarity=0.129  Sum_probs=50.8

Q ss_pred             CCCeEEEEEecCCCCC-------------------CCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLES-------------------EREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~-------------------~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      +++|++|||||+||.+                   .+.++.+++..+++.+ ++.| +|+||++|.||+++|..+++.
T Consensus       119 ~~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~-~~~~-~E~SAkt~~~V~e~F~~~~~~  194 (195)
T cd01873         119 PRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILPPETGRAVAKEL-GIPY-YETSVVTQFGVKDVFDNAIRA  194 (195)
T ss_pred             CCCCEEEEEEchhccccccchhhhcccccccccccCCccCHHHHHHHHHHh-CCEE-EEcCCCCCCCHHHHHHHHHHh
Confidence            5789999999999964                   3568888999999999 8899 999999999999999999864

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.

>KOG0083|consensus

Probab=99.36  E-value=3.3e-13  Score=83.97  Aligned_cols=65  Identities=40%  Similarity=0.538  Sum_probs=59.5

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ....+.++++|||+|+..++.+..+++..+++.+ +++| +|+||++|.||+-.|..|++++.+..-
T Consensus       100 ~k~~v~l~llgnk~d~a~er~v~~ddg~kla~~y-~ipf-metsaktg~nvd~af~~ia~~l~k~~~  164 (192)
T KOG0083|consen  100 AKEAVALMLLGNKCDLAHERAVKRDDGEKLAEAY-GIPF-METSAKTGFNVDLAFLAIAEELKKLKM  164 (192)
T ss_pred             HHhhHhHhhhccccccchhhccccchHHHHHHHH-CCCc-eeccccccccHhHHHHHHHHHHHHhcc
Confidence            4467889999999999888889999999999999 9999 999999999999999999999988765

>PLN03118 Rab family protein; Provisional

Probab=99.35  E-value=1.1e-11  Score=82.26  Aligned_cols=63  Identities=32%  Similarity=0.316  Sum_probs=54.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++|+||+|+...+.+..+....+...+ +..| +++||+++.|++++|..|++.+.....
T Consensus       119 ~~~~~ilv~NK~Dl~~~~~i~~~~~~~~~~~~-~~~~-~e~SAk~~~~v~~l~~~l~~~~~~~~~  181 (211)
T PLN03118        119 QDCVKMLVGNKVDRESERDVSREEGMALAKEH-GCLF-LECSAKTRENVEQCFEELALKIMEVPS  181 (211)
T ss_pred             CCCCEEEEEECccccccCccCHHHHHHHHHHc-CCEE-EEEeCCCCCCHHHHHHHHHHHHHhhhh
Confidence            46899999999999866666777777777777 7889 999999999999999999999987643

>KOG0081|consensus

Probab=99.35  E-value=2.8e-12  Score=81.88  Aligned_cols=66  Identities=32%  Similarity=0.374  Sum_probs=59.8

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhcccc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATL   77 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~~~~   77 (106)
                      .+-.++++|||+||++.+.+...++..++.++ +++| |||||-+|.||++..+.+...+++++...+
T Consensus       123 E~PDivlcGNK~DL~~~R~Vs~~qa~~La~ky-glPY-fETSA~tg~Nv~kave~LldlvM~Rie~~v  188 (219)
T KOG0081|consen  123 ENPDIVLCGNKADLEDQRVVSEDQAAALADKY-GLPY-FETSACTGTNVEKAVELLLDLVMKRIEQCV  188 (219)
T ss_pred             CCCCEEEEcCccchhhhhhhhHHHHHHHHHHh-CCCe-eeeccccCcCHHHHHHHHHHHHHHHHHHHH
Confidence            45568999999999999999999999999999 9999 999999999999999999999998877433

>cd04125 RabA_like RabA-like subfamily

Probab=99.35  E-value=1.5e-11  Score=80.11  Aligned_cols=64  Identities=36%  Similarity=0.406  Sum_probs=55.5

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..++|+++|+||+|+.+.+.+..+.+..++... ++++ +++||+++.|++++|.++++.+.++..
T Consensus       103 ~~~~~~ivv~nK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~evSa~~~~~i~~~f~~l~~~~~~~~~  166 (188)
T cd04125         103 RENVIKVIVANKSDLVNNKVVDSNIAKSFCDSL-NIPF-FETSAKQSINVEEAFILLVKLIIKRLE  166 (188)
T ss_pred             CCCCeEEEEEECCCCcccccCCHHHHHHHHHHc-CCeE-EEEeCCCCCCHHHHHHHHHHHHHHHhh
Confidence            346899999999999876667777777888777 7889 999999999999999999999987765

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.

>cd04133 Rop_like Rop subfamily

Probab=99.34  E-value=3.7e-12  Score=82.84  Aligned_cols=59  Identities=20%  Similarity=0.294  Sum_probs=51.1

Q ss_pred             CCCeEEEEEecCCCCCCC----------CCCHHHHHHHhhhcCCc-ceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESER----------EVDFNEAEEMGEYVPEI-HYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~----------~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      +++|++|||||+||.+.+          .+..+++..+++.+ +. .| +|+||+++.||+++|..+++.+.
T Consensus       104 ~~~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a~~~-~~~~~-~E~SAk~~~nV~~~F~~~~~~~~  173 (176)
T cd04133         104 PNVPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEELRKQI-GAAAY-IECSSKTQQNVKAVFDAAIKVVL  173 (176)
T ss_pred             CCCCEEEEEeChhhccChhhhhhccCCCCCCHHHHHHHHHHc-CCCEE-EECCCCcccCHHHHHHHHHHHHh
Confidence            579999999999996542          47788899999988 76 69 99999999999999999998763

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,

>cd04118 Rab24 Rab24 subfamily

Probab=99.34  E-value=1.7e-11  Score=80.01  Aligned_cols=63  Identities=27%  Similarity=0.457  Sum_probs=51.4

Q ss_pred             CCCeEEEEEecCCCCCC----CCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESE----REVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      +++|+++|+||+|+.+.    ..+....+..++..+ +..+ +++||+++.||+++|..+++.+.+...
T Consensus       104 ~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~-~~~~-~~~Sa~~~~gv~~l~~~i~~~~~~~~~  170 (193)
T cd04118         104 EHCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFADEI-KAQH-FETSSKTGQNVDELFQKVAEDFVSRAN  170 (193)
T ss_pred             CCCCEEEEEEcccccccccccCccCHHHHHHHHHHc-CCeE-EEEeCCCCCCHHHHHHHHHHHHHHhcc
Confidence            47999999999998532    234555667777777 7889 999999999999999999999976644

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

>KOG0395|consensus

Probab=99.32  E-value=8.3e-12  Score=82.61  Aligned_cols=65  Identities=34%  Similarity=0.450  Sum_probs=58.7

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ....+|+++||||+||...+.++.+++..++..+ +..| +|+||+.+.+|+++|..|++.+.....
T Consensus       105 ~~~~~PivlVGNK~Dl~~~R~V~~eeg~~la~~~-~~~f-~E~Sak~~~~v~~~F~~L~r~~~~~~~  169 (196)
T KOG0395|consen  105 GRDDVPIILVGNKCDLERERQVSEEEGKALARSW-GCAF-IETSAKLNYNVDEVFYELVREIRLPRE  169 (196)
T ss_pred             CcCCCCEEEEEEcccchhccccCHHHHHHHHHhc-CCcE-EEeeccCCcCHHHHHHHHHHHHHhhhc
Confidence            3356899999999999988899999999999999 8899 999999999999999999999887433

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.32  E-value=1.3e-11  Score=80.15  Aligned_cols=63  Identities=29%  Similarity=0.324  Sum_probs=53.7

Q ss_pred             CCCeEEEEEecCCCCCC----CCCCHHHHHHHhhhcCCc-ceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESE----REVDFNEAEEMGEYVPEI-HYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~----~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      +++|+++||||.|+...    +.+...++..++..+ +. .+ +++||++|.||+++|..+++.+.....
T Consensus       104 ~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~-~~~~~-~e~Sa~~~~~v~~~f~~l~~~~~~~~~  171 (187)
T cd04132         104 PGTPIMLVGLKTDLRKDKNLDRKVTPAQAESVAKKQ-GAFAY-LECSAKTMENVEEVFDTAIEEALKKEG  171 (187)
T ss_pred             CCCCEEEEEeChhhhhCccccCCcCHHHHHHHHHHc-CCcEE-EEccCCCCCCHHHHHHHHHHHHHhhhh
Confidence            57999999999999643    245667778888888 66 89 999999999999999999999988766

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.

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=99.32  E-value=6.3e-12  Score=82.11  Aligned_cols=59  Identities=22%  Similarity=0.316  Sum_probs=51.1

Q ss_pred             CCCeEEEEEecCCCCC------------CCCCCHHHHHHHhhhcCCc-ceEEEcccCCCCC-HHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLES------------EREVDFNEAEEMGEYVPEI-HYVMETSAKDSTN-VEEAFYCLANELK   70 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~-v~~lf~~l~~~i~   70 (106)
                      +++|++|||||+||.+            .+.+..+++..+++.+ +. .| +|+||+++.| |+++|..+++...
T Consensus       108 ~~~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~-~~~~~-~E~SAk~~~n~v~~~F~~~~~~~~  180 (182)
T cd04172         108 PNTKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGANMAKQI-GAATY-IECSALQSENSVRDIFHVATLACV  180 (182)
T ss_pred             CCCCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHHHHHHHc-CCCEE-EECCcCCCCCCHHHHHHHHHHHHh
Confidence            5799999999999964            2458888999999999 74 89 9999999998 9999999988543

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

>cd04122 Rab14 Rab14 subfamily

Probab=99.31  E-value=1.3e-11  Score=78.73  Aligned_cols=61  Identities=31%  Similarity=0.473  Sum_probs=53.9

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .++.|+++||||+|+.+.+.+..+++..+++.. +..+ +++||++|.||+++|..+++.+.+
T Consensus       105 ~~~~~iiiv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~e~Sa~~~~~i~e~f~~l~~~~~~  165 (166)
T cd04122         105 NPNTVIFLIGNKADLEAQRDVTYEEAKQFADEN-GLLF-LECSAKTGENVEDAFLETAKKIYQ  165 (166)
T ss_pred             CCCCeEEEEEECcccccccCcCHHHHHHHHHHc-CCEE-EEEECCCCCCHHHHHHHHHHHHhh
Confidence            467899999999999877777778888888888 8899 999999999999999999988754

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

>cd04127 Rab27A Rab27a subfamily

Probab=99.29  E-value=1.6e-11  Score=79.17  Aligned_cols=61  Identities=36%  Similarity=0.442  Sum_probs=54.2

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      ++.|+++|+||+|+.+.+.+..+++..+++.+ +.++ +++||+++.|++++|..|++.+.++
T Consensus       119 ~~~piiiv~nK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~e~Sak~~~~v~~l~~~l~~~~~~~  179 (180)
T cd04127         119 ENPDIVLCGNKADLEDQRQVSEEQAKALADKY-GIPY-FETSAATGTNVEKAVERLLDLVMKR  179 (180)
T ss_pred             CCCcEEEEEeCccchhcCccCHHHHHHHHHHc-CCeE-EEEeCCCCCCHHHHHHHHHHHHHhh
Confidence            57899999999999876677777888899888 8899 9999999999999999999887654

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

>cd01875 RhoG RhoG subfamily

Probab=99.29  E-value=1.4e-11  Score=80.82  Aligned_cols=60  Identities=18%  Similarity=0.272  Sum_probs=50.6

Q ss_pred             CCCeEEEEEecCCCCCCC------------CCCHHHHHHHhhhcCC-cceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESER------------EVDFNEAEEMGEYVPE-IHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~------------~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      +++|++|||||.||.+..            .+..+++..+++.+ + ..| +++||++|.||+++|..+++.+..
T Consensus       106 ~~~piilvgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~-~~~~~-~e~SAk~g~~v~e~f~~l~~~~~~  178 (191)
T cd01875         106 PNVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGALAKQI-HAVKY-LECSALNQDGVKEVFAEAVRAVLN  178 (191)
T ss_pred             CCCCEEEEEeChhhhcChhhHHHHhhccCCCCCHHHHHHHHHHc-CCcEE-EEeCCCCCCCHHHHHHHHHHHHhc
Confidence            579999999999996532            35667788888888 6 689 999999999999999999987753

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

>PLN03108 Rab family protein; Provisional

Probab=99.29  E-value=5.2e-11  Score=79.21  Aligned_cols=64  Identities=33%  Similarity=0.461  Sum_probs=56.7

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .+++|+++|+||+|+...+.+..+++..+++.+ +..+ +++||+++.||+++|.++++.+.++..
T Consensus       109 ~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~e~Sa~~~~~v~e~f~~l~~~~~~~~~  172 (210)
T PLN03108        109 NANMTIMLIGNKCDLAHRRAVSTEEGEQFAKEH-GLIF-MEASAKTAQNVEEAFIKTAAKIYKKIQ  172 (210)
T ss_pred             CCCCcEEEEEECccCccccCCCHHHHHHHHHHc-CCEE-EEEeCCCCCCHHHHHHHHHHHHHHHhh
Confidence            357999999999999877777888888899888 8899 999999999999999999999887654

>cd04131 Rnd Rnd subfamily

Probab=99.29  E-value=1.2e-11  Score=80.50  Aligned_cols=59  Identities=19%  Similarity=0.230  Sum_probs=50.7

Q ss_pred             CCCeEEEEEecCCCCC------------CCCCCHHHHHHHhhhcCCc-ceEEEcccCCCCC-HHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLES------------EREVDFNEAEEMGEYVPEI-HYVMETSAKDSTN-VEEAFYCLANELK   70 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~-v~~lf~~l~~~i~   70 (106)
                      +++|++|||||+||.+            .+.+..+++..+++.+ +. .| +|+||++|+| |+++|..+++...
T Consensus       104 ~~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~-~~~~~-~E~SA~~~~~~v~~~F~~~~~~~~  176 (178)
T cd04131         104 PNTKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQGCAIAKQL-GAEIY-LECSAFTSEKSVRDIFHVATMACL  176 (178)
T ss_pred             CCCCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHHHHHHHHHh-CCCEE-EECccCcCCcCHHHHHHHHHHHHh
Confidence            6899999999999964            2357888999999999 75 79 9999999995 9999999988544

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.

>PTZ00369 Ras-like protein; Provisional

Probab=99.29  E-value=1.7e-11  Score=80.04  Aligned_cols=64  Identities=39%  Similarity=0.590  Sum_probs=55.0

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..++|+++|+||+|+.+.+.+...++..+.+.+ +.++ +++||+++.||+++|.++++.+.+...
T Consensus       108 ~~~~piiiv~nK~Dl~~~~~i~~~~~~~~~~~~-~~~~-~e~Sak~~~gi~~~~~~l~~~l~~~~~  171 (189)
T PTZ00369        108 KDRVPMILVGNKCDLDSERQVSTGEGQELAKSF-GIPF-LETSAKQRVNVDEAFYELVREIRKYLK  171 (189)
T ss_pred             CCCCCEEEEEECcccccccccCHHHHHHHHHHh-CCEE-EEeeCCCCCCHHHHHHHHHHHHHHHhh
Confidence            358999999999999766666777777787777 7889 999999999999999999998887754

>cd04134 Rho3 Rho3 subfamily

Probab=99.25  E-value=3.3e-11  Score=78.81  Aligned_cols=63  Identities=27%  Similarity=0.371  Sum_probs=50.2

Q ss_pred             CCCeEEEEEecCCCCCCC------------CCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          10 SAHDSRVWSNKCDLESER------------EVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~------------~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      +++|+++||||+||.+..            .+..+++..++...+...| +++||++|.||+++|.++++.+....
T Consensus       103 ~~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~-~e~SAk~~~~v~e~f~~l~~~~~~~~  177 (189)
T cd04134         103 PGVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAKRINALRY-LECSAKLNRGVNEAFTEAARVALNVR  177 (189)
T ss_pred             CCCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEE-EEccCCcCCCHHHHHHHHHHHHhccc
Confidence            579999999999997543            2445566777777624689 99999999999999999998886443

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.

>cd04117 Rab15 Rab15 subfamily

Probab=99.25  E-value=2.6e-11  Score=77.25  Aligned_cols=57  Identities=25%  Similarity=0.358  Sum_probs=51.2

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      .++|+++||||.|+...+.+..+++..+++.+ +.+| +++||+++.||+++|.+|++.
T Consensus       104 ~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~e~Sa~~~~~v~~~f~~l~~~  160 (161)
T cd04117         104 EGVQKILIGNKADEEQKRQVGDEQGNKLAKEY-GMDF-FETSACTNSNIKESFTRLTEL  160 (161)
T ss_pred             CCCeEEEEEECcccccccCCCHHHHHHHHHHc-CCEE-EEEeCCCCCCHHHHHHHHHhh
Confidence            47999999999999877777888888888888 7899 999999999999999999865

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

>cd04175 Rap1 Rap1 subgroup

Probab=99.24  E-value=2.8e-11  Score=76.88  Aligned_cols=60  Identities=33%  Similarity=0.482  Sum_probs=51.0

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      ..++|+++|+||+|+.....+....+..+++.+ +.++ +++||+++.|++++|.++++.+.
T Consensus       104 ~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~~v~~~~~~l~~~l~  163 (164)
T cd04175         104 TEDVPMILVGNKCDLEDERVVGKEQGQNLARQW-GCAF-LETSAKAKINVNEIFYDLVRQIN  163 (164)
T ss_pred             CCCCCEEEEEECCcchhccEEcHHHHHHHHHHh-CCEE-EEeeCCCCCCHHHHHHHHHHHhh
Confidence            367999999999999766666666677777778 7899 99999999999999999987663

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

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.23  E-value=2.3e-11  Score=77.65  Aligned_cols=58  Identities=22%  Similarity=0.200  Sum_probs=48.5

Q ss_pred             CCCeEEEEEecCCCC--CCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLE--SEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      +++|+++||||.||.  ..+.+..+++..+++....+.| ++|||+++.||+++|..+++.
T Consensus        98 ~~~piilvgnK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~-~e~SAk~~~~i~~~f~~~~~~  157 (158)
T cd04103          98 SEIPLILVGTQDAISESNPRVIDDARARQLCADMKRCSY-YETCATYGLNVERVFQEAAQK  157 (158)
T ss_pred             CCCCEEEEeeHHHhhhcCCcccCHHHHHHHHHHhCCCcE-EEEecCCCCCHHHHHHHHHhh
Confidence            578999999999985  3456777777788876525789 999999999999999999865

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.

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.23  E-value=6e-11  Score=75.78  Aligned_cols=61  Identities=39%  Similarity=0.627  Sum_probs=53.6

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      ..++|+++||||+|+.+.+.+..+++..+++.+ +.++ +++||+++.||+++|.++++.+..
T Consensus       106 ~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~~v~~~~~~i~~~~~~  166 (167)
T cd01867         106 SEDVERMLVGNKCDMEEKRVVSKEEGEALADEY-GIKF-LETSAKANINVEEAFFTLAKDIKK  166 (167)
T ss_pred             CCCCcEEEEEECcccccccCCCHHHHHHHHHHc-CCEE-EEEeCCCCCCHHHHHHHHHHHHHh
Confidence            357899999999999876667777788888888 7899 999999999999999999998864

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

>cd01865 Rab3 Rab3 subfamily

Probab=99.23  E-value=5.7e-11  Score=75.76  Aligned_cols=60  Identities=27%  Similarity=0.470  Sum_probs=51.8

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .++|+++|+||+|+.+.+.+..+....+.+.. ++++ +++||+++.|++++|.++++.+..
T Consensus       105 ~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gv~~l~~~l~~~~~~  164 (165)
T cd01865         105 DNAQVILVGNKCDMEDERVVSSERGRQLADQL-GFEF-FEASAKENINVKQVFERLVDIICD  164 (165)
T ss_pred             CCCCEEEEEECcccCcccccCHHHHHHHHHHc-CCEE-EEEECCCCCCHHHHHHHHHHHHHh
Confidence            57899999999999876666677777788877 7889 999999999999999999987754

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

>cd04140 ARHI_like ARHI subfamily

Probab=99.22  E-value=4.3e-11  Score=76.31  Aligned_cols=56  Identities=38%  Similarity=0.413  Sum_probs=48.4

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLAN   67 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~   67 (106)
                      +++|+++|+||+|+.+.+.+....+..++..+ +..+ +++||++|.||+++|.+|++
T Consensus       107 ~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~e~SA~~g~~v~~~f~~l~~  162 (165)
T cd04140         107 EKIPIMLVGNKCDESHKREVSSNEGAACATEW-NCAF-METSAKTNHNVQELFQELLN  162 (165)
T ss_pred             CCCCEEEEEECccccccCeecHHHHHHHHHHh-CCcE-EEeecCCCCCHHHHHHHHHh
Confidence            67999999999999765666666777777777 7889 99999999999999999875

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

>cd04109 Rab28 Rab28 subfamily

Probab=99.22  E-value=7.4e-11  Score=78.64  Aligned_cols=61  Identities=26%  Similarity=0.204  Sum_probs=53.8

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .++|+++|+||+||.+.+.+..+.+..+++.+ +..+ +++||++|.||+++|.++++.+...
T Consensus       108 ~~~piilVgNK~DL~~~~~v~~~~~~~~~~~~-~~~~-~~iSAktg~gv~~lf~~l~~~l~~~  168 (215)
T cd04109         108 TQPLVVLVGNKTDLEHNRTVKDDKHARFAQAN-GMES-CLVSAKTGDRVNLLFQQLAAELLGV  168 (215)
T ss_pred             CCceEEEEEECcccccccccCHHHHHHHHHHc-CCEE-EEEECCCCCCHHHHHHHHHHHHHhc
Confidence            45789999999999876777878888888888 7889 9999999999999999999988765

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

>cd01874 Cdc42 Cdc42 subfamily

Probab=99.21  E-value=5.4e-11  Score=77.01  Aligned_cols=59  Identities=14%  Similarity=0.199  Sum_probs=48.8

Q ss_pred             CCCeEEEEEecCCCCCC------------CCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESE------------REVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      +++|++|||||+|+.+.            +.+..+++..+++..+...| +++||++|.||+++|+.+++..
T Consensus       104 ~~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~a~~~~~~~~-~e~SA~tg~~v~~~f~~~~~~~  174 (175)
T cd01874         104 PKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLARDLKAVKY-VECSALTQKGLKNVFDEAILAA  174 (175)
T ss_pred             CCCCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHHHHHhCCcEE-EEecCCCCCCHHHHHHHHHHHh
Confidence            57999999999998643            45677778888877723689 9999999999999999998743

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

>cd04136 Rap_like Rap-like subfamily

Probab=99.21  E-value=5.5e-11  Score=75.17  Aligned_cols=58  Identities=34%  Similarity=0.448  Sum_probs=49.7

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .++|+++|+||+|+.+.+.+..+.+..+.+.+ +.++ +++||+++.|++++|.++++.+
T Consensus       105 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~~v~~l~~~l~~~~  162 (163)
T cd04136         105 ENVPMVLVGNKCDLEDERVVSREEGQALARQW-GCPF-YETSAKSKINVDEVFADLVRQI  162 (163)
T ss_pred             CCCCEEEEEECccccccceecHHHHHHHHHHc-CCeE-EEecCCCCCCHHHHHHHHHHhc
Confidence            57999999999999766666666677777888 6889 9999999999999999998754

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.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.21  E-value=8.2e-11  Score=74.60  Aligned_cols=59  Identities=42%  Similarity=0.599  Sum_probs=51.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      .++|+++|+||+|+.+.+.+..+....+.+.+ +.++ +++||+++.|++++|.+|++.+.
T Consensus       104 ~~~pii~v~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~~i~~l~~~l~~~~~  162 (164)
T smart00173      104 DDVPIVLVGNKCDLESERVVSTEEGKELARQW-GCPF-LETSAKERVNVDEAFYDLVREIR  162 (164)
T ss_pred             CCCCEEEEEECccccccceEcHHHHHHHHHHc-CCEE-EEeecCCCCCHHHHHHHHHHHHh
Confidence            47899999999999766666667777788888 7899 99999999999999999998764

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

>cd04142 RRP22 RRP22 subfamily

Probab=99.20  E-value=8e-11  Score=77.83  Aligned_cols=64  Identities=20%  Similarity=0.074  Sum_probs=52.5

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhh-hcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGE-YVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..++|+++|+||+|+...+.+..+.+..++. .+ +.+| |++||++|.||+++|..+++.+.....
T Consensus       114 ~~~~piiivgNK~Dl~~~~~~~~~~~~~~~~~~~-~~~~-~e~Sak~g~~v~~lf~~i~~~~~~~~~  178 (198)
T cd04142         114 NKEPPIVVVGNKRDQQRHRFAPRHVLSVLVRKSW-KCGY-LECSAKYNWHILLLFKELLISATTRGR  178 (198)
T ss_pred             CCCCCEEEEEECccccccccccHHHHHHHHHHhc-CCcE-EEecCCCCCCHHHHHHHHHHHhhccCC
Confidence            4679999999999997666666666666644 45 7899 999999999999999999988876654

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.

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

Probab=99.20  E-value=8.6e-11  Score=74.33  Aligned_cols=59  Identities=37%  Similarity=0.502  Sum_probs=50.4

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      ..++|+++|+||+|+...+.+..+.+..+.+.. +.++ +++||++|.||+++|..+++.+
T Consensus       105 ~~~~piiiv~NK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~~i~~l~~~l~~~~  163 (164)
T cd04145         105 RDEFPMILVGNKADLEHQRKVSREEGQELARKL-KIPY-IETSAKDRLNVDKAFHDLVRVI  163 (164)
T ss_pred             CCCCCEEEEeeCccccccceecHHHHHHHHHHc-CCcE-EEeeCCCCCCHHHHHHHHHHhh
Confidence            357899999999999766666666777788877 7899 9999999999999999998764

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

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

Probab=99.19  E-value=1.1e-10  Score=73.80  Aligned_cols=59  Identities=37%  Similarity=0.478  Sum_probs=54.4

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      .++|++|||||.|+.+.+.++.+++..++..+ +..| +++||+++.||.++|..+++.+.
T Consensus       103 ~~~~iivvg~K~D~~~~~~v~~~~~~~~~~~~-~~~~-~e~Sa~~~~~v~~~f~~~i~~i~  161 (162)
T PF00071_consen  103 EDIPIIVVGNKSDLSDEREVSVEEAQEFAKEL-GVPY-FEVSAKNGENVKEIFQELIRKIL  161 (162)
T ss_dssp             TTSEEEEEEETTTGGGGSSSCHHHHHHHHHHT-TSEE-EEEBTTTTTTHHHHHHHHHHHHH
T ss_pred             ccccceeeeccccccccccchhhHHHHHHHHh-CCEE-EEEECCCCCCHHHHHHHHHHHHh
Confidence            47999999999999877788999999999999 7999 99999999999999999998875

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 ....

>KOG0095|consensus

Probab=99.19  E-value=7.7e-12  Score=79.20  Aligned_cols=65  Identities=34%  Similarity=0.417  Sum_probs=57.3

Q ss_pred             cCCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780           7 WPDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus         7 ~~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      +...++-.||||||+|+.+.+.++...+++|.+.. ...| +|+||++..||+.+|..++-.+....
T Consensus       108 yan~kvlkilvgnk~d~~drrevp~qigeefs~~q-dmyf-letsakea~nve~lf~~~a~rli~~a  172 (213)
T KOG0095|consen  108 YANNKVLKILVGNKIDLADRREVPQQIGEEFSEAQ-DMYF-LETSAKEADNVEKLFLDLACRLISEA  172 (213)
T ss_pred             HhhcceEEEeeccccchhhhhhhhHHHHHHHHHhh-hhhh-hhhcccchhhHHHHHHHHHHHHHHHH
Confidence            45567889999999999988899999999999988 8889 99999999999999999987666554

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=99.19  E-value=2.5e-10  Score=76.86  Aligned_cols=63  Identities=17%  Similarity=0.255  Sum_probs=52.6

Q ss_pred             CCCeEEEEEecCCCCCC------------CCCCHHHHHHHhhhcCC-cceEEEcccCCCCC-HHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESE------------REVDFNEAEEMGEYVPE-IHYVMETSAKDSTN-VEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~-v~~lf~~l~~~i~~~~~   74 (106)
                      +++|++|||||+||.+.            ..+..+++..+++.. + ..| +|+||+++.+ |+++|..+++....+..
T Consensus       104 ~~~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~g~~~ak~~-~~~~y-~E~SAk~~~~~V~~~F~~~~~~~~~~~~  180 (222)
T cd04173         104 PNAKVVLVGCKLDMRTDLATLRELSKQRLIPVTHEQGTVLAKQV-GAVSY-VECSSRSSERSVRDVFHVATVASLGRGH  180 (222)
T ss_pred             CCCCEEEEEECcccccchhhhhhhhhccCCccCHHHHHHHHHHc-CCCEE-EEcCCCcCCcCHHHHHHHHHHHHHhccC
Confidence            68999999999999642            136778889999998 6 589 9999999985 99999999987776544

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

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.19  E-value=6.3e-11  Score=76.63  Aligned_cols=58  Identities=16%  Similarity=0.248  Sum_probs=48.6

Q ss_pred             CCCeEEEEEecCCCCCC------------CCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESE------------REVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      +++|++|||||+||.+.            +.+..+++..+++.++...| +++||++|.|++++|..+++.
T Consensus       104 ~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~-~e~Sa~~~~~i~~~f~~l~~~  173 (174)
T cd01871         104 PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKY-LECSALTQKGLKTVFDEAIRA  173 (174)
T ss_pred             CCCCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEE-EEecccccCCHHHHHHHHHHh
Confidence            57999999999999642            24677888888888823589 999999999999999999864

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

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.18  E-value=7.6e-11  Score=75.03  Aligned_cols=60  Identities=27%  Similarity=0.335  Sum_probs=51.8

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCC-CHHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDST-NVEEAFYCLANELK   70 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~-~v~~lf~~l~~~i~   70 (106)
                      ..++|+++|+||+|+...+.+..+++..+++.. +..| +++||+++. ||+++|..+++.+.
T Consensus       104 ~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~e~Sa~~~~~~v~~~f~~l~~~~~  164 (165)
T cd04146         104 DREIPVILVGNKADLLHYRQVSTEEGEKLASEL-GCLF-FEVSAAEDYDGVHSVFHELCREVR  164 (165)
T ss_pred             CCCCCEEEEEECCchHHhCccCHHHHHHHHHHc-CCEE-EEeCCCCCchhHHHHHHHHHHHHh
Confidence            357999999999999766677777788888888 7899 999999994 99999999998764

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

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.18  E-value=1.3e-10  Score=73.97  Aligned_cols=60  Identities=43%  Similarity=0.696  Sum_probs=52.8

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      +++|+++|+||.|+.....+..+.+..+++.+ +.++ +++||++|.||+++|..+++.+.+
T Consensus       106 ~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~~v~~~~~~i~~~~~~  165 (166)
T cd01869         106 ENVNKLLVGNKCDLTDKRVVDYSEAQEFADEL-GIPF-LETSAKNATNVEQAFMTMAREIKK  165 (166)
T ss_pred             CCCcEEEEEEChhcccccCCCHHHHHHHHHHc-CCeE-EEEECCCCcCHHHHHHHHHHHHHh
Confidence            57899999999999776677777788888888 8899 999999999999999999987753

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

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.18  E-value=1.3e-10  Score=73.53  Aligned_cols=59  Identities=31%  Similarity=0.302  Sum_probs=51.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      .+.|+++|+||+|+.+.+.+..+.+..+.... +..+ +++||+++.|++++|..|++.+.
T Consensus       109 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~l~  167 (168)
T cd04119         109 ENIVVVVCANKIDLTKHRAVSEDEGRLWAESK-GFKY-FETSACTGEGVNEMFQTLFSSIV  167 (168)
T ss_pred             CCceEEEEEEchhcccccccCHHHHHHHHHHc-CCeE-EEEECCCCCCHHHHHHHHHHHHh
Confidence            46899999999999755566777777788888 7889 99999999999999999998765

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.

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

Probab=99.17  E-value=7.8e-11  Score=75.43  Aligned_cols=59  Identities=20%  Similarity=0.292  Sum_probs=49.7

Q ss_pred             CCCeEEEEEecCCCCCCC------------CCCHHHHHHHhhhcCCc-ceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESER------------EVDFNEAEEMGEYVPEI-HYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~------------~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      +++|+++||||+|+....            .+..+++..+++.+ +. .+ +++||+++.||+++|..+++.+.
T Consensus       101 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~-~~~~~-~e~Sa~~~~~v~~lf~~l~~~~~  172 (174)
T smart00174      101 PNTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEALAKRI-GAVKY-LECSALTQEGVREVFEEAIRAAL  172 (174)
T ss_pred             CCCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHHHHHc-CCcEE-EEecCCCCCCHHHHHHHHHHHhc
Confidence            589999999999996532            26667778888888 54 89 99999999999999999998764

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

>cd04129 Rho2 Rho2 subfamily

Probab=99.17  E-value=1.6e-10  Score=75.31  Aligned_cols=63  Identities=19%  Similarity=0.200  Sum_probs=51.0

Q ss_pred             CCCeEEEEEecCCCCC----------CCCCCHHHHHHHhhhcCC-cceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLES----------EREVDFNEAEEMGEYVPE-IHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~----------~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      +++|+++||||+|+.+          .+.+..+.+..+++.+ + ..+ |++||++|.||+++|+.+++.+.....
T Consensus       104 ~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~-~e~Sa~~~~~v~~~f~~l~~~~~~~~~  177 (187)
T cd04129         104 PNVPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGKRVAKEI-GAKKY-MECSALTGEGVDDVFEAATRAALLVRK  177 (187)
T ss_pred             CCCCEEEEeeChhhhhCcccccccccCCcCCHHHHHHHHHHh-CCcEE-EEccCCCCCCHHHHHHHHHHHHhcccC
Confidence            5799999999999854          2334556677778877 5 489 999999999999999999988766544

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).

>cd04148 RGK RGK subfamily

Probab=99.16  E-value=1.8e-10  Score=77.31  Aligned_cols=63  Identities=25%  Similarity=0.341  Sum_probs=54.5

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+|+|+||+|+.+.+.+..+++..++..+ +..+ +++||+++.||+++|..+++.+.....
T Consensus       105 ~~~piilV~NK~Dl~~~~~v~~~~~~~~a~~~-~~~~-~e~SA~~~~gv~~l~~~l~~~~~~~~~  167 (221)
T cd04148         105 EDRPIILVGNKSDLARSREVSVQEGRACAVVF-DCKF-IETSAGLQHNVDELLEGIVRQIRLRRD  167 (221)
T ss_pred             CCCCEEEEEEChhccccceecHHHHHHHHHHc-CCeE-EEecCCCCCCHHHHHHHHHHHHHhhhc
Confidence            57999999999999776777777777788877 7889 999999999999999999998875544

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

>cd04176 Rap2 Rap2 subgroup

Probab=99.15  E-value=1.4e-10  Score=73.49  Aligned_cols=58  Identities=38%  Similarity=0.405  Sum_probs=49.2

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .++|+++|+||+|+.....+....+..+...+ +.++ +++||+++.|++++|.++++.+
T Consensus       105 ~~~piviv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~~v~~l~~~l~~~l  162 (163)
T cd04176         105 EKVPIILVGNKVDLESEREVSSAEGRALAEEW-GCPF-METSAKSKTMVNELFAEIVRQM  162 (163)
T ss_pred             CCCCEEEEEECccchhcCccCHHHHHHHHHHh-CCEE-EEecCCCCCCHHHHHHHHHHhc
Confidence            67999999999999765566666677777777 7889 9999999999999999998754

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

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.15  E-value=2.5e-10  Score=72.00  Aligned_cols=60  Identities=40%  Similarity=0.581  Sum_probs=50.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .++|+++|+||+|+.............+...+ +.++ +++||+++.|++++|..+++.+.+
T Consensus       104 ~~~piiiv~NK~D~~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~~~~  163 (164)
T cd04139         104 DNVPLLLVGNKCDLEDKRQVSSEEAANLARQW-GVPY-VETSAKTRQNVEKAFYDLVREIRQ  163 (164)
T ss_pred             CCCCEEEEEEccccccccccCHHHHHHHHHHh-CCeE-EEeeCCCCCCHHHHHHHHHHHHHh
Confidence            57999999999999764445566666777777 7899 999999999999999999887753

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

>cd01866 Rab2 Rab2 subfamily

Probab=99.14  E-value=2.8e-10  Score=72.81  Aligned_cols=61  Identities=44%  Similarity=0.611  Sum_probs=53.2

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .+++|+++|+||.|+.+...+..+++..++... +..+ +++||+++.|++++|..+++.+.+
T Consensus       107 ~~~~pvivv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~e~Sa~~~~~i~~~~~~~~~~~~~  167 (168)
T cd01866         107 NSNMTIMLIGNKCDLESRREVSYEEGEAFAKEH-GLIF-METSAKTASNVEEAFINTAKEIYE  167 (168)
T ss_pred             CCCCcEEEEEECcccccccCCCHHHHHHHHHHc-CCEE-EEEeCCCCCCHHHHHHHHHHHHHh
Confidence            368999999999999866667777888888888 8899 999999999999999999988754

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

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

Probab=99.14  E-value=2.3e-10  Score=75.88  Aligned_cols=60  Identities=25%  Similarity=0.328  Sum_probs=49.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      +++|++|||||+|+.. +.+..+. ..++... ++.| +++||+++.||+++|.+|++.+.+..
T Consensus        98 ~~~piilvgNK~Dl~~-~~v~~~~-~~~~~~~-~~~~-~e~SAk~~~~v~~~F~~l~~~i~~~~  157 (200)
T smart00176       98 ENIPIVLCGNKVDVKD-RKVKAKS-ITFHRKK-NLQY-YDISAKSNYNFEKPFLWLARKLIGDP  157 (200)
T ss_pred             CCCCEEEEEECccccc-ccCCHHH-HHHHHHc-CCEE-EEEeCCCCCCHHHHHHHHHHHHHhcc
Confidence            5799999999999864 3444443 4566667 7899 99999999999999999999987653

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

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

Probab=99.14  E-value=2.2e-10  Score=72.06  Aligned_cols=57  Identities=39%  Similarity=0.589  Sum_probs=47.9

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .++|+++|+||+|+.+ +.+.......+.+.. +.++ +++||++|.|++++|.++++.+
T Consensus       105 ~~~piivv~nK~Dl~~-~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~~  161 (162)
T cd04138         105 DDVPMVLVGNKCDLAA-RTVSSRQGQDLAKSY-GIPY-IETSAKTRQGVEEAFYTLVREI  161 (162)
T ss_pred             CCCCEEEEEECccccc-ceecHHHHHHHHHHh-CCeE-EEecCCCCCCHHHHHHHHHHHh
Confidence            5789999999999975 345556677777777 7889 9999999999999999998754

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.

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.14  E-value=2.2e-10  Score=72.40  Aligned_cols=57  Identities=28%  Similarity=0.321  Sum_probs=50.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      .++|+++|+||+|+.....+..+++..+++.. ++++ +++||+++.|++++|.+|+..
T Consensus       105 ~~~p~iiv~nK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~~~Sa~~~~~v~~l~~~l~~~  161 (162)
T cd04106         105 GDIPMVLVQTKIDLLDQAVITNEEAEALAKRL-QLPL-FRTSVKDDFNVTELFEYLAEK  161 (162)
T ss_pred             CCCCEEEEEEChhcccccCCCHHHHHHHHHHc-CCeE-EEEECCCCCCHHHHHHHHHHh
Confidence            57999999999999776667777788888888 8899 999999999999999998754

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

>cd01868 Rab11_like Rab11-like

Probab=99.12  E-value=3.7e-10  Score=71.71  Aligned_cols=58  Identities=41%  Similarity=0.434  Sum_probs=50.3

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .++|+++|+||.|+...+.+..++...+.... +..+ +++||++|.|++++|+.+++.+
T Consensus       107 ~~~pi~vv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~~v~~l~~~l~~~i  164 (165)
T cd01868         107 SNIVIMLVGNKSDLRHLRAVPTEEAKAFAEKN-GLSF-IETSALDGTNVEEAFKQLLTEI  164 (165)
T ss_pred             CCCeEEEEEECccccccccCCHHHHHHHHHHc-CCEE-EEEECCCCCCHHHHHHHHHHHh
Confidence            36899999999999876667777777888777 7889 9999999999999999998765

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

>cd04177 RSR1 RSR1 subgroup

Probab=99.11  E-value=4.2e-10  Score=71.94  Aligned_cols=62  Identities=27%  Similarity=0.385  Sum_probs=51.7

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      ..++|+++|+||.|+...+.+..+....+.+.++..++ +++||+++.|++++|.++++.+..
T Consensus       104 ~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~-~~~SA~~~~~i~~~f~~i~~~~~~  165 (168)
T cd04177         104 SDNVPMVLVGNKADLEDDRQVSREDGVSLSQQWGNVPF-YETSARKRTNVDEVFIDLVRQIIC  165 (168)
T ss_pred             CCCCCEEEEEEChhccccCccCHHHHHHHHHHcCCceE-EEeeCCCCCCHHHHHHHHHHHHhh
Confidence            45799999999999976666666677777777723789 999999999999999999987653

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

>cd04116 Rab9 Rab9 subfamily

Probab=99.10  E-value=3.6e-10  Score=72.14  Aligned_cols=57  Identities=37%  Similarity=0.383  Sum_probs=48.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      .++|+++|+||+|+. .+.+..+++..+++.++...+ +++||+++.|+.++|..+++.
T Consensus       113 ~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~-~e~Sa~~~~~v~~~~~~~~~~  169 (170)
T cd04116         113 ESFPFVVLGNKNDIP-ERQVSTEEAQAWCRENGDYPY-FETSAKDATNVAAAFEEAVRR  169 (170)
T ss_pred             CCCcEEEEEECcccc-ccccCHHHHHHHHHHCCCCeE-EEEECCCCCCHHHHHHHHHhh
Confidence            578999999999996 445677778888887723579 999999999999999999875

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

>cd04113 Rab4 Rab4 subfamily

Probab=99.10  E-value=3.5e-10  Score=71.54  Aligned_cols=59  Identities=36%  Similarity=0.400  Sum_probs=51.7

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      ..+++|+++|+||.|+.+...+..++...+.... +..+ +++||+++.|++++|.++++.
T Consensus       102 ~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~~i~~~~~~~~~~  160 (161)
T cd04113         102 ASPNIVVILVGNKSDLADQREVTFLEASRFAQEN-GLLF-LETSALTGENVEEAFLKCARS  160 (161)
T ss_pred             CCCCCeEEEEEEchhcchhccCCHHHHHHHHHHc-CCEE-EEEECCCCCCHHHHHHHHHHh
Confidence            3478999999999999776667777788888888 7899 999999999999999999875

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

>cd01864 Rab19 Rab19 subfamily

Probab=99.10  E-value=4.4e-10  Score=71.52  Aligned_cols=59  Identities=47%  Similarity=0.549  Sum_probs=49.2

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      ..++|+++|+||+|+...+.+....+..+++..+...+ +++||++|.|++++|..+++.
T Consensus       106 ~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~e~Sa~~~~~v~~~~~~l~~~  164 (165)
T cd01864         106 ASNVVLLLIGNKCDLEEQREVLFEEACTLAEKNGMLAV-LETSAKESQNVEEAFLLMATE  164 (165)
T ss_pred             CCCCcEEEEEECcccccccccCHHHHHHHHHHcCCcEE-EEEECCCCCCHHHHHHHHHHh
Confidence            46799999999999987666677777788877723478 999999999999999999865

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.

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.08  E-value=4.4e-10  Score=75.30  Aligned_cols=61  Identities=26%  Similarity=0.372  Sum_probs=49.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|++|||||+|+.. +.+..+.. .+.... +..| |++||++|.||+++|.+|++.+.+...
T Consensus       116 ~~~piilvgNK~Dl~~-~~v~~~~~-~~~~~~-~~~~-~e~SAk~~~~i~~~f~~l~~~~~~~~~  176 (219)
T PLN03071        116 ENIPIVLCGNKVDVKN-RQVKAKQV-TFHRKK-NLQY-YEISAKSNYNFEKPFLYLARKLAGDPN  176 (219)
T ss_pred             CCCcEEEEEEchhhhh-ccCCHHHH-HHHHhc-CCEE-EEcCCCCCCCHHHHHHHHHHHHHcCcc
Confidence            5799999999999964 33444444 566666 7899 999999999999999999998876543

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.08  E-value=5.1e-10  Score=71.72  Aligned_cols=58  Identities=33%  Similarity=0.450  Sum_probs=51.4

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCC---CCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKD---STNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~---~~~v~~lf~~l~~~i   69 (106)
                      .++|+++|+||+|+...+.+....+..+++.+ ...| +++||++   +.+++++|..+++.+
T Consensus       108 ~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~e~Sa~~~~~~~~i~~~f~~l~~~~  168 (170)
T cd04115         108 NEVPRILVGNKCDLREQIQVPTDLAQRFADAH-SMPL-FETSAKDPSENDHVEAIFMTLAHKL  168 (170)
T ss_pred             CCCCEEEEEECccchhhcCCCHHHHHHHHHHc-CCcE-EEEeccCCcCCCCHHHHHHHHHHHh
Confidence            57999999999999877777777788888888 7899 9999999   999999999998766

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

>cd04135 Tc10 TC10 subfamily

Probab=99.08  E-value=5.9e-10  Score=71.35  Aligned_cols=60  Identities=13%  Similarity=0.196  Sum_probs=48.6

Q ss_pred             CCCCeEEEEEecCCCCCC------------CCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESE------------REVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .+++|+++||||+|+.+.            ..+..+++..+++..+...+ +++||+++.||+++|+.+++.+
T Consensus       102 ~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~-~e~Sa~~~~gi~~~f~~~~~~~  173 (174)
T cd04135         102 APNVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKLAKEIGAHCY-VECSALTQKGLKTVFDEAILAI  173 (174)
T ss_pred             CCCCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEE-EEecCCcCCCHHHHHHHHHHHh
Confidence            468999999999998643            24566677788877723479 9999999999999999998765

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

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.07  E-value=7.8e-10  Score=70.08  Aligned_cols=58  Identities=26%  Similarity=0.327  Sum_probs=48.8

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      +++|+++|+||+|+.+...+....+..+...+ +..+ +++||+++.|++++|..+++.+
T Consensus       106 ~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~~  163 (164)
T cd04101         106 KHMPGVLVGNKMDLADKAEVTDAQAQAFAQAN-QLKF-FKTSALRGVGYEEPFESLARAF  163 (164)
T ss_pred             CCCCEEEEEECcccccccCCCHHHHHHHHHHc-CCeE-EEEeCCCCCChHHHHHHHHHHh
Confidence            46899999999999766666666666666667 7789 9999999999999999998764

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.

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

Probab=99.07  E-value=5.5e-10  Score=71.54  Aligned_cols=58  Identities=28%  Similarity=0.353  Sum_probs=47.0

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      ++|+++||||+|+.. +.+.. ....+.+.. ...+ +++||+++.||+++|.+|++.+.+.
T Consensus       104 ~~piiiv~nK~Dl~~-~~~~~-~~~~~~~~~-~~~~-~e~Sa~~~~~v~~~f~~l~~~~~~~  161 (166)
T cd00877         104 NIPIVLCGNKVDIKD-RKVKA-KQITFHRKK-NLQY-YEISAKSNYNFEKPFLWLARKLLGN  161 (166)
T ss_pred             CCcEEEEEEchhccc-ccCCH-HHHHHHHHc-CCEE-EEEeCCCCCChHHHHHHHHHHHHhc
Confidence            799999999999973 33333 344566666 7889 9999999999999999999988764

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

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.06  E-value=9.3e-10  Score=69.48  Aligned_cols=60  Identities=43%  Similarity=0.480  Sum_probs=52.3

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      +++|+++|+||+|+.....+..+....+.+.. +..+ +++||+++.|++++|..+.+.+.+
T Consensus       104 ~~~pivvv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~-~e~Sa~~~~~i~~l~~~i~~~~~~  163 (164)
T smart00175      104 PNVVIMLVGNKSDLEDQRQVSREEAEAFAEEH-GLPF-FETSAKTNTNVEEAFEELAREILK  163 (164)
T ss_pred             CCCeEEEEEEchhcccccCCCHHHHHHHHHHc-CCeE-EEEeCCCCCCHHHHHHHHHHHHhh
Confidence            67999999999999765566777777888888 7889 999999999999999999988764

Rab GTPases are implicated in vesicle trafficking.

>cd04128 Spg1 Spg1p

Probab=99.05  E-value=7.8e-10  Score=72.11  Aligned_cols=61  Identities=20%  Similarity=0.153  Sum_probs=47.0

Q ss_pred             CCCeEEEEEecCCCCC-----CCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          10 SAHDSRVWSNKCDLES-----EREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~-----~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      ..+| ++||||+||..     ......+++..+++.+ +..+ +++||++|.||+++|.++++.+.+..
T Consensus       104 ~~~p-ilVgnK~Dl~~~~~~~~~~~~~~~~~~~a~~~-~~~~-~e~SAk~g~~v~~lf~~l~~~l~~~~  169 (182)
T cd04128         104 TAIP-ILVGTKYDLFADLPPEEQEEITKQARKYAKAM-KAPL-IFCSTSHSINVQKIFKIVLAKAFDLP  169 (182)
T ss_pred             CCCE-EEEEEchhccccccchhhhhhHHHHHHHHHHc-CCEE-EEEeCCCCCCHHHHHHHHHHHHHhcC
Confidence            4566 68999999952     1112234566777888 7889 99999999999999999999887643

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

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.04  E-value=1.3e-09  Score=70.24  Aligned_cols=60  Identities=22%  Similarity=0.163  Sum_probs=48.2

Q ss_pred             CCeEEEEEecCCCCCCCC--CCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          11 AHDSRVWSNKCDLESERE--VDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      +.|+++|+||.|+.+...  +..+.+..+...+ +..+ +++||+++.||+++|..+++.+.+.
T Consensus       106 ~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~-~e~Sa~~g~~v~~lf~~l~~~~~~~  167 (170)
T cd04108         106 SVLLFLVGTKKDLSSPAQYALMEQDAIKLAAEM-QAEY-WSVSALSGENVREFFFRVAALTFEL  167 (170)
T ss_pred             CCeEEEEEEChhcCccccccccHHHHHHHHHHc-CCeE-EEEECCCCCCHHHHHHHHHHHHHHc
Confidence            478999999999965432  3345566777777 7789 9999999999999999999887653

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

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

Probab=99.04  E-value=2.1e-09  Score=69.27  Aligned_cols=63  Identities=32%  Similarity=0.468  Sum_probs=52.8

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .+.|+|+|+||+|+...+.+.......+.+.+ +..+ +++||+++.|++++|.++.+.+.+...
T Consensus       105 ~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gv~~l~~~l~~~~~~~~~  167 (180)
T cd04137         105 ESVPIVLVGNKSDLHTQRQVSTEEGKELAESW-GAAF-LESSARENENVEEAFELLIEEIEKVEN  167 (180)
T ss_pred             CCCCEEEEEEchhhhhcCccCHHHHHHHHHHc-CCeE-EEEeCCCCCCHHHHHHHHHHHHHHhcC
Confidence            57899999999999765555655666677777 7789 999999999999999999998877655

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=99.03  E-value=2.1e-09  Score=68.39  Aligned_cols=63  Identities=35%  Similarity=0.437  Sum_probs=52.2

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      .++|+++|+||+|+........+....+.+..+...+ +++||++|.|++++|..+.+.+.+..
T Consensus       108 ~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~~~Sa~~~~gv~~l~~~i~~~~~~~~  170 (172)
T cd01862         108 ENFPFVVLGNKIDLEEKRQVSTKKAQQWCQSNGNIPY-FETSAKEAINVEQAFETIARKALEQE  170 (172)
T ss_pred             CCceEEEEEECcccccccccCHHHHHHHHHHcCCceE-EEEECCCCCCHHHHHHHHHHHHHhcc
Confidence            3799999999999975555566777777777733789 99999999999999999998887763

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-

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.01  E-value=1.8e-09  Score=68.30  Aligned_cols=58  Identities=38%  Similarity=0.448  Sum_probs=50.6

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      +++|+++|+||+|+.+......+....+.... +..+ +++||++|.|++++|.++++.+
T Consensus       105 ~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~~v~~l~~~l~~~l  162 (163)
T cd01860         105 PNIIIALVGNKADLESKRQVSTEEAQEYADEN-GLLF-FETSAKTGENVNELFTEIAKKL  162 (163)
T ss_pred             CCCeEEEEEECccccccCcCCHHHHHHHHHHc-CCEE-EEEECCCCCCHHHHHHHHHHHh
Confidence            67999999999999766666777777888888 7889 9999999999999999998875

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

>cd04114 Rab30 Rab30 subfamily

Probab=98.99  E-value=3e-09  Score=67.70  Aligned_cols=59  Identities=41%  Similarity=0.499  Sum_probs=49.1

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      ..++|+++|+||+|+.+.+.+..+....+.+.. ...+ +++||++|.|++++|..+++.+
T Consensus       110 ~~~~~~i~v~NK~D~~~~~~i~~~~~~~~~~~~-~~~~-~~~Sa~~~~gv~~l~~~i~~~~  168 (169)
T cd04114         110 NNKVITILVGNKIDLAERREVSQQRAEEFSDAQ-DMYY-LETSAKESDNVEKLFLDLACRL  168 (169)
T ss_pred             CCCCeEEEEEECcccccccccCHHHHHHHHHHc-CCeE-EEeeCCCCCCHHHHHHHHHHHh
Confidence            357999999999999766666666666777666 6788 9999999999999999998764

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.

>cd04123 Rab21 Rab21 subfamily

Probab=98.99  E-value=2.8e-09  Score=66.94  Aligned_cols=58  Identities=38%  Similarity=0.436  Sum_probs=49.6

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .++|+++|+||+|+.....+..+....+.... +..+ +++|++++.|++++|.++++.+
T Consensus       104 ~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~-~~~s~~~~~gi~~~~~~l~~~~  161 (162)
T cd04123         104 NNISLVIVGNKIDLERQRVVSKSEAEEYAKSV-GAKH-FETSAKTGKGIEELFLSLAKRM  161 (162)
T ss_pred             CCCeEEEEEECcccccccCCCHHHHHHHHHHc-CCEE-EEEeCCCCCCHHHHHHHHHHHh
Confidence            37999999999999866666666677777777 7889 9999999999999999998765

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

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=98.98  E-value=1.8e-09  Score=69.38  Aligned_cols=55  Identities=24%  Similarity=0.329  Sum_probs=46.2

Q ss_pred             CCCeEEEEEecCCCCC------------CCCCCHHHHHHHhhhcCCc-ceEEEcccCCCCCHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLES------------EREVDFNEAEEMGEYVPEI-HYVMETSAKDSTNVEEAFYCLA   66 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~lf~~l~   66 (106)
                      +++|+++|+||.|+..            .+.+..+++..+++.. +. .+ +++||+++.||+++|+.+.
T Consensus       103 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~-~~~~~-~e~Sa~~~~~v~~lf~~~~  170 (173)
T cd04130         103 PKAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAEKI-GACEY-IECSALTQKNLKEVFDTAI  170 (173)
T ss_pred             CCCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHHHHHHHh-CCCeE-EEEeCCCCCCHHHHHHHHH
Confidence            5799999999999863            3456777788888887 65 89 9999999999999998875

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,

>cd04143 Rhes_like Rhes_like subfamily

Probab=98.97  E-value=2.8e-09  Score=72.80  Aligned_cols=59  Identities=29%  Similarity=0.308  Sum_probs=48.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .++|+|+|+||+|+...+.+..+++..+........+ +++||+++.||+++|..|++..
T Consensus       112 ~~~piIivgNK~Dl~~~~~v~~~ei~~~~~~~~~~~~-~evSAktg~gI~elf~~L~~~~  170 (247)
T cd04143         112 VKIPMVICGNKADRDFPREVQRDEVEQLVGGDENCAY-FEVSAKKNSNLDEMFRALFSLA  170 (247)
T ss_pred             CCCcEEEEEECccchhccccCHHHHHHHHHhcCCCEE-EEEeCCCCCCHHHHHHHHHHHh
Confidence            5799999999999976556677776666553325679 9999999999999999998754

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

>cd04158 ARD1 ARD1 subfamily

Probab=98.97  E-value=3.1e-09  Score=68.15  Aligned_cols=62  Identities=15%  Similarity=0.125  Sum_probs=46.3

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcC-----CcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVP-----EIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~-----~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .+.|+++|+||+|+.+  .+..++...+.....     .+.+ +++||++|.||+++|.+|++.+.....
T Consensus        99 ~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~-~~~Sa~~g~gv~~~f~~l~~~~~~~~~  165 (169)
T cd04158          99 RDALLLIFANKQDVAG--ALSVEEMTELLSLHKLCCGRSWYI-QGCDARSGMGLYEGLDWLSRQLVAAGV  165 (169)
T ss_pred             CCCCEEEEEeCcCccc--CCCHHHHHHHhCCccccCCCcEEE-EeCcCCCCCCHHHHHHHHHHHHhhccc
Confidence            3589999999999964  345555555544220     1367 899999999999999999988776543

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

>cd04124 RabL2 RabL2 subfamily

Probab=98.97  E-value=2.7e-09  Score=67.88  Aligned_cols=58  Identities=24%  Similarity=0.159  Sum_probs=46.5

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      +++|+++|+||+|+...  . ......+.+.. +.++ +++||+++.|++++|..+++.+.++
T Consensus       103 ~~~p~ivv~nK~Dl~~~--~-~~~~~~~~~~~-~~~~-~~~Sa~~~~gv~~l~~~l~~~~~~~  160 (161)
T cd04124         103 PEIPCIVVANKIDLDPS--V-TQKKFNFAEKH-NLPL-YYVSAADGTNVVKLFQDAIKLAVSY  160 (161)
T ss_pred             CCCcEEEEEECccCchh--H-HHHHHHHHHHc-CCeE-EEEeCCCCCCHHHHHHHHHHHHHhc
Confidence            47999999999998532  1 23345566666 7889 9999999999999999999888765

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

>cd01870 RhoA_like RhoA-like subfamily

Probab=98.96  E-value=3.8e-09  Score=67.60  Aligned_cols=59  Identities=27%  Similarity=0.314  Sum_probs=45.8

Q ss_pred             CCCeEEEEEecCCCCCC------------CCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESE------------REVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      +++|+++|+||+|+.+.            ..+....+..++...+...+ +++||++|.||+++|.++++.+
T Consensus       104 ~~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~~~~~~~~~~~-~~~Sa~~~~~v~~lf~~l~~~~  174 (175)
T cd01870         104 PNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANKIGAFGY-MECSAKTKEGVREVFEMATRAA  174 (175)
T ss_pred             CCCCEEEEeeChhcccChhhhhhhhhccCCCccHHHHHHHHHHcCCcEE-EEeccccCcCHHHHHHHHHHHh
Confidence            57999999999998642            12344556666766623579 9999999999999999998654

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

>cd01892 Miro2 Miro2 subfamily

Probab=98.95  E-value=2e-09  Score=69.20  Aligned_cols=59  Identities=17%  Similarity=0.146  Sum_probs=46.3

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCc-ceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEI-HYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      .++|+++|+||+|+.+...........+.+.+ +. .+ +++||+++.|++++|..+++.+.
T Consensus       107 ~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~-~~~~~-~~~Sa~~~~~v~~lf~~l~~~~~  166 (169)
T cd01892         107 GEIPCLFVAAKADLDEQQQRYEVQPDEFCRKL-GLPPP-LHFSSKLGDSSNELFTKLATAAQ  166 (169)
T ss_pred             CCCeEEEEEEcccccccccccccCHHHHHHHc-CCCCC-EEEEeccCccHHHHHHHHHHHhh
Confidence            47999999999999654433333455666666 54 57 99999999999999999998764

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.

>cd00876 Ras Ras family

Probab=98.93  E-value=3.8e-09  Score=66.21  Aligned_cols=57  Identities=37%  Similarity=0.520  Sum_probs=49.7

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      .++|+++|+||+|+.....+..+.+..+...+ +.++ +++||+++.|++++|..|++.
T Consensus       103 ~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~-~~~S~~~~~~i~~l~~~l~~~  159 (160)
T cd00876         103 EDIPIVLVGNKCDLENERQVSKEEGKALAKEW-GCPF-IETSAKDNINIDEVFKLLVRE  159 (160)
T ss_pred             CCCcEEEEEECCcccccceecHHHHHHHHHHc-CCcE-EEeccCCCCCHHHHHHHHHhh
Confidence            57999999999999865666777788888888 7889 999999999999999999865

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

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

Probab=98.93  E-value=2.4e-09  Score=68.03  Aligned_cols=55  Identities=22%  Similarity=0.094  Sum_probs=42.9

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      +.|+++|+||+|+.....+..  ...+.... ...+ +++||+++.|++++|.++.+.+
T Consensus       113 ~~pvilv~NK~Dl~~~~~~~~--~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~~  167 (168)
T cd01897         113 NKPVIVVLNKIDLLTFEDLSE--IEEEEELE-GEEV-LKISTLTEEGVDEVKNKACELL  167 (168)
T ss_pred             cCCeEEEEEccccCchhhHHH--HHHhhhhc-cCce-EEEEecccCCHHHHHHHHHHHh
Confidence            789999999999975433221  33444444 6789 9999999999999999998765

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.

>cd01861 Rab6 Rab6 subfamily

Probab=98.92  E-value=5.2e-09  Score=66.00  Aligned_cols=56  Identities=32%  Similarity=0.379  Sum_probs=48.3

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      ++|+++|+||+|+.+.+.+..++...+.+.. +..+ +++||+++.|++++|.++.+.
T Consensus       105 ~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~~v~~l~~~i~~~  160 (161)
T cd01861         105 DVIIVLVGNKTDLSDKRQVSTEEGEKKAKEL-NAMF-IETSAKAGHNVKELFRKIASA  160 (161)
T ss_pred             CCEEEEEEEChhccccCccCHHHHHHHHHHh-CCEE-EEEeCCCCCCHHHHHHHHHHh
Confidence            6999999999999665666777777777777 7889 999999999999999999764

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

>PLN00223 ADP-ribosylation factor; Provisional

Probab=98.92  E-value=7e-09  Score=67.51  Aligned_cols=60  Identities=20%  Similarity=0.178  Sum_probs=42.6

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhc----CCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYV----PEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~----~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      +++|++||+||.|+.+.  ...++........    ..+.+ +++||++|+||+++|.+|++.+.++
T Consensus       117 ~~~piilv~NK~Dl~~~--~~~~~~~~~l~l~~~~~~~~~~-~~~Sa~~g~gv~e~~~~l~~~~~~~  180 (181)
T PLN00223        117 RDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQRHWYI-QSTCATSGEGLYEGLDWLSNNIANK  180 (181)
T ss_pred             CCCCEEEEEECCCCCCC--CCHHHHHHHhCccccCCCceEE-EeccCCCCCCHHHHHHHHHHHHhhc
Confidence            57899999999999753  2333333332211    01245 7899999999999999999887654

>cd04149 Arf6 Arf6 subfamily

Probab=98.86  E-value=8.7e-09  Score=66.19  Aligned_cols=55  Identities=18%  Similarity=0.111  Sum_probs=41.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhh---c-CCcceEEEcccCCCCCHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEY---V-PEIHYVMETSAKDSTNVEEAFYCLAN   67 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~---~-~~~~~~~~~Sa~~~~~v~~lf~~l~~   67 (106)
                      +++|++||+||+|+.+.  +..++...+...   . ....+ +++||++|.||+++|.+|++
T Consensus       109 ~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~-~~~SAk~g~gv~~~~~~l~~  167 (168)
T cd04149         109 RDALLLVFANKQDLPDA--MKPHEIQEKLGLTRIRDRNWYV-QPSCATSGDGLYEGLTWLSS  167 (168)
T ss_pred             cCCcEEEEEECcCCccC--CCHHHHHHHcCCCccCCCcEEE-EEeeCCCCCChHHHHHHHhc
Confidence            46899999999998642  345555554321   1 13468 99999999999999999864

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

>cd01863 Rab18 Rab18 subfamily

Probab=98.86  E-value=1.3e-08  Score=64.27  Aligned_cols=57  Identities=30%  Similarity=0.346  Sum_probs=47.5

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      ..++|+++|+||+|+.. .....+....+.... +..+ +++||++|.|++++|..+.+.
T Consensus       104 ~~~~~~~iv~nK~D~~~-~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~~~~~~~~~  160 (161)
T cd01863         104 NNDIVKMLVGNKIDKEN-REVTREEGLKFARKH-NMLF-IETSAKTRDGVQQAFEELVEK  160 (161)
T ss_pred             CCCCcEEEEEECCcccc-cccCHHHHHHHHHHc-CCEE-EEEecCCCCCHHHHHHHHHHh
Confidence            46799999999999973 344566677788877 8889 999999999999999998764

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

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=98.85  E-value=1e-08  Score=63.64  Aligned_cols=53  Identities=25%  Similarity=0.213  Sum_probs=41.3

Q ss_pred             CeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHH
Q psy5780          12 HDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLA   66 (106)
Q Consensus        12 ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~   66 (106)
                      .|+++|+||+|+.+. ....+....+.+..+..++ +++||+++.|++++|..++
T Consensus        89 ~p~ilv~NK~Dl~~~-~~~~~~~~~~~~~~~~~~~-~~~Sa~~~~gi~~l~~~l~  141 (142)
T TIGR02528        89 KPVIGLVTKIDLAEA-DVDIERAKELLETAGAEPI-FEISSVDEQGLEALVDYLN  141 (142)
T ss_pred             CCeEEEEEeeccCCc-ccCHHHHHHHHHHcCCCcE-EEEecCCCCCHHHHHHHHh
Confidence            499999999999643 3445556667766623479 9999999999999998874

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.

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=98.84  E-value=2.2e-08  Score=65.18  Aligned_cols=61  Identities=18%  Similarity=0.105  Sum_probs=42.7

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhc----CCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYV----PEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~----~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      .++|++||+||.|+.+..  ...+........    ..+.+ +++||++|.|++++|.+|++.+.+++
T Consensus       117 ~~~piilv~NK~Dl~~~~--~~~~i~~~l~~~~~~~~~~~~-~~~Sa~tg~gv~e~~~~l~~~i~~~~  181 (182)
T PTZ00133        117 RDAVLLVFANKQDLPNAM--STTEVTEKLGLHSVRQRNWYI-QGCCATTAQGLYEGLDWLSANIKKSM  181 (182)
T ss_pred             cCCCEEEEEeCCCCCCCC--CHHHHHHHhCCCcccCCcEEE-EeeeCCCCCCHHHHHHHHHHHHHHhc
Confidence            468999999999986422  223322221111    02346 79999999999999999998887765

>cd01893 Miro1 Miro1 subfamily

Probab=98.82  E-value=1.2e-08  Score=65.19  Aligned_cols=60  Identities=25%  Similarity=0.184  Sum_probs=43.3

Q ss_pred             CCCeEEEEEecCCCCCCCCCC--HHHHHHHhhhcCC-cceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVD--FNEAEEMGEYVPE-IHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~--~~~~~~~~~~~~~-~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      +++|+++|+||+|+.+.....  .+....+...++. ..+ +++||+++.|++++|+.+++.+.
T Consensus       102 ~~~pviiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~-~e~Sa~~~~~v~~lf~~~~~~~~  164 (166)
T cd01893         102 VKVPIILVGNKSDLRDGSSQAGLEEEMLPIMNEFREIETC-VECSAKTLINVSEVFYYAQKAVL  164 (166)
T ss_pred             CCCCEEEEEEchhcccccchhHHHHHHHHHHHHHhcccEE-EEeccccccCHHHHHHHHHHHhc
Confidence            579999999999997544321  2223333333323 378 99999999999999999987764

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.

>cd04154 Arl2 Arl2 subfamily

Probab=98.81  E-value=1.5e-08  Score=65.01  Aligned_cols=54  Identities=19%  Similarity=0.093  Sum_probs=41.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhh-----hcCCcceEEEcccCCCCCHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGE-----YVPEIHYVMETSAKDSTNVEEAFYCLAN   67 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~~~Sa~~~~~v~~lf~~l~~   67 (106)
                      .++|+++|+||+|+.+..  ..+....+..     .. .+++ +++||++|.|++++|.+++.
T Consensus       114 ~~~p~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~g~gi~~l~~~l~~  172 (173)
T cd04154         114 AGATLLILANKQDLPGAL--SEEEIREALELDKISSH-HWRI-QPCSAVTGEGLLQGIDWLVD  172 (173)
T ss_pred             cCCCEEEEEECcccccCC--CHHHHHHHhCccccCCC-ceEE-EeccCCCCcCHHHHHHHHhc
Confidence            679999999999996532  3344444432     23 5679 99999999999999998864

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.

>PRK04213 GTP-binding protein; Provisional

Probab=98.81  E-value=1.2e-08  Score=67.03  Aligned_cols=58  Identities=22%  Similarity=0.174  Sum_probs=43.4

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCc---------ceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEI---------HYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~---------~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      .++|+++|+||+|+.+..   .+....+.+.+ +.         .+ +++||++| |++++|.+|++.+.+..
T Consensus       129 ~~~p~iiv~NK~Dl~~~~---~~~~~~~~~~~-~~~~~~~~~~~~~-~~~SA~~g-gi~~l~~~l~~~~~~~~  195 (201)
T PRK04213        129 LGIPPIVAVNKMDKIKNR---DEVLDEIAERL-GLYPPWRQWQDII-APISAKKG-GIEELKEAIRKRLHEAK  195 (201)
T ss_pred             cCCCeEEEEECccccCcH---HHHHHHHHHHh-cCCccccccCCcE-EEEecccC-CHHHHHHHHHHhhcCcc
Confidence            579999999999986432   22344444444 32         58 99999999 99999999998876543

>cd00879 Sar1 Sar1 subfamily

Probab=98.81  E-value=1.3e-08  Score=66.15  Aligned_cols=56  Identities=21%  Similarity=0.136  Sum_probs=42.9

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhc---------------CCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYV---------------PEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~---------------~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      .+.|+++|+||+|+..  .+..+....+....               ....+ +++||++++|++++|.+|++.
T Consensus       119 ~~~pvivv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~Sa~~~~gv~e~~~~l~~~  189 (190)
T cd00879         119 ANVPFLILGNKIDLPG--AVSEEELRQALGLYGTTTGKGVSLKVSGIRPIEV-FMCSVVKRQGYGEAFRWLSQY  189 (190)
T ss_pred             cCCCEEEEEeCCCCCC--CcCHHHHHHHhCcccccccccccccccCceeEEE-EEeEecCCCChHHHHHHHHhh
Confidence            5699999999999864  44555665554321               12468 999999999999999999865

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.

>cd04147 Ras_dva Ras-dva subfamily

Probab=98.81  E-value=2.8e-08  Score=65.37  Aligned_cols=59  Identities=34%  Similarity=0.267  Sum_probs=45.4

Q ss_pred             CCCeEEEEEecCCCCC-CCCCCHHHHHHHhh-hcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLES-EREVDFNEAEEMGE-YVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~-~~~~~~~~~~~~~~-~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      .++|+++|+||.|+.. .+.+.......... .+ +..+ +++||++|.|++++|.++++.+.
T Consensus       103 ~~~piilv~NK~Dl~~~~~~v~~~~~~~~~~~~~-~~~~-~~~Sa~~g~gv~~l~~~l~~~~~  163 (198)
T cd04147         103 KFVPIVVVGNKADSLEEERQVPAKDALSTVELDW-NCGF-VETSAKDNENVLEVFKELLRQAN  163 (198)
T ss_pred             CCCcEEEEEEccccccccccccHHHHHHHHHhhc-CCcE-EEecCCCCCCHHHHHHHHHHHhh
Confidence            5799999999999865 34444444443333 34 5788 99999999999999999998775

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.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=98.79  E-value=2.1e-08  Score=71.25  Aligned_cols=63  Identities=19%  Similarity=0.056  Sum_probs=48.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .+.|+++|+||+|+.+...+.......+.... ...+ +++||++++||+++|.+|.+.+.+...
T Consensus       270 ~~kp~IIV~NKiDL~~~~~~~~~~~~~~~~~~-~~~i-~~iSAktg~GI~eL~~~L~~~l~~~~~  332 (335)
T PRK12299        270 ADKPRILVLNKIDLLDEEEEREKRAALELAAL-GGPV-FLISAVTGEGLDELLRALWELLEEARR  332 (335)
T ss_pred             ccCCeEEEEECcccCCchhHHHHHHHHHHHhc-CCCE-EEEEcCCCCCHHHHHHHHHHHHHhhhc
Confidence            36899999999999754433333344444555 6789 999999999999999999998876544

>cd00157 Rho Rho (Ras homology) family

Probab=98.79  E-value=1.6e-08  Score=64.21  Aligned_cols=56  Identities=23%  Similarity=0.276  Sum_probs=45.0

Q ss_pred             CCCeEEEEEecCCCCCCCC-----------CCHHHHHHHhhhcCCc-ceEEEcccCCCCCHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESERE-----------VDFNEAEEMGEYVPEI-HYVMETSAKDSTNVEEAFYCLAN   67 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~-----------~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~lf~~l~~   67 (106)
                      +++|+++|+||+|+.+...           +..+.+..+...+ +. .+ +++||+++.|++++|..+++
T Consensus       103 ~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~~~~-~~~~~-~~~Sa~~~~gi~~l~~~i~~  170 (171)
T cd00157         103 PNVPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLAKEI-GAIGY-MECSALTQEGVKEVFEEAIR  170 (171)
T ss_pred             CCCCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHHHHh-CCeEE-EEeecCCCCCHHHHHHHHhh
Confidence            4799999999999875442           3455666777777 55 89 99999999999999998865

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

>cd00154 Rab Rab family

Probab=98.78  E-value=2.6e-08  Score=61.93  Aligned_cols=55  Identities=38%  Similarity=0.459  Sum_probs=47.2

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLA   66 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~   66 (106)
                      .+.|+++|+||+|+........+....+...+ +.++ +++||+++.|++++|.+|+
T Consensus       104 ~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~-~~~sa~~~~~i~~~~~~i~  158 (159)
T cd00154         104 ENIPIILVGNKIDLEDQRQVSTEEAQQFAKEN-GLLF-FETSAKTGENVEELFQSLA  158 (159)
T ss_pred             CCCcEEEEEEcccccccccccHHHHHHHHHHc-CCeE-EEEecCCCCCHHHHHHHHh
Confidence            56999999999999644556677778888887 8899 9999999999999999875

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

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=98.77  E-value=4.7e-09  Score=67.14  Aligned_cols=56  Identities=27%  Similarity=0.172  Sum_probs=41.6

Q ss_pred             CCCeEEEEEecCCCCCCCCCCH----HHHHHHhhhcCCcceEEEcccCC------CCCHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDF----NEAEEMGEYVPEIHYVMETSAKD------STNVEEAFYCLAN   67 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~----~~~~~~~~~~~~~~~~~~~Sa~~------~~~v~~lf~~l~~   67 (106)
                      +++|+++|+||.|+...+.+..    ..+..+++.. ++.+ |++||++      ++||.++|+.+..
T Consensus        98 ~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~-~~~~-~~~Sa~~~~s~~~~~~v~~~~~~~~~  163 (164)
T cd04162          98 PDLPLVVLANKQDLPAARSVQEIHKELELEPIARGR-RWIL-QGTSLDDDGSPSRMEAVKDLLSQLIN  163 (164)
T ss_pred             CCCcEEEEEeCcCCcCCCCHHHHHHHhCChhhcCCC-ceEE-EEeeecCCCChhHHHHHHHHHHHHhc
Confidence            6899999999999976543221    1234445555 7788 9999988      9999999988753

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.

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=98.77  E-value=9.3e-09  Score=70.17  Aligned_cols=55  Identities=18%  Similarity=0.257  Sum_probs=42.4

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLAN   67 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~   67 (106)
                      .++|+++|+||+||.+...+..+....+ ..+ ++.+ |++||+++.|++++|..+.+
T Consensus        66 ~~i~~vIV~NK~DL~~~~~~~~~~~~~~-~~~-g~~v-~~~SAktg~gi~eLf~~l~~  120 (245)
T TIGR00157        66 QNIEPIIVLNKIDLLDDEDMEKEQLDIY-RNI-GYQV-LMTSSKNQDGLKELIEALQN  120 (245)
T ss_pred             CCCCEEEEEECcccCCCHHHHHHHHHHH-HHC-CCeE-EEEecCCchhHHHHHhhhcC
Confidence            6799999999999975443333333333 446 7889 99999999999999988764

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

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

Probab=98.76  E-value=6.1e-09  Score=67.29  Aligned_cols=57  Identities=23%  Similarity=0.139  Sum_probs=39.5

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhc----CCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYV----PEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~----~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .++|++||+||.||.+..  ..++........    ....+ +++||++|.||+++|.+|++.+
T Consensus       113 ~~~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~-~~~Sa~~g~gv~e~~~~l~~~~  173 (175)
T smart00177      113 RDAVILVFANKQDLPDAM--KAAEITEKLGLHSIRDRNWYI-QPTCATSGDGLYEGLTWLSNNL  173 (175)
T ss_pred             cCCcEEEEEeCcCcccCC--CHHHHHHHhCccccCCCcEEE-EEeeCCCCCCHHHHHHHHHHHh
Confidence            468999999999996432  222322222111    12346 7999999999999999998765

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

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=98.73  E-value=7.5e-09  Score=65.85  Aligned_cols=54  Identities=22%  Similarity=0.204  Sum_probs=37.8

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHH-HHHHhh----hcCCcceEEEcccCCCCCHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNE-AEEMGE----YVPEIHYVMETSAKDSTNVEEAFYCLAN   67 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~-~~~~~~----~~~~~~~~~~~Sa~~~~~v~~lf~~l~~   67 (106)
                      .+.|++||+||+|+.+..  ...+ ...+..    .. .+.+ +++||++|.||+++|.+|++
T Consensus       100 ~~~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~-~~~~-~~~Sak~g~gv~~~~~~l~~  158 (159)
T cd04150         100 RDAVLLVFANKQDLPNAM--SAAEVTDKLGLHSLRNR-NWYI-QATCATSGDGLYEGLDWLSN  158 (159)
T ss_pred             cCCCEEEEEECCCCCCCC--CHHHHHHHhCccccCCC-CEEE-EEeeCCCCCCHHHHHHHHhc
Confidence            358999999999996432  2222 222221    12 3457 89999999999999999864

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

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=98.72  E-value=5.2e-08  Score=62.19  Aligned_cols=60  Identities=15%  Similarity=0.138  Sum_probs=46.4

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCC--cceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPE--IHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .+.|+++++||+|+.+.   ..+....+.+.. +  .++ +++||++++|++++|..+++.+.+...
T Consensus        90 ~~~~ii~v~nK~Dl~~~---~~~~~~~~~~~~-~~~~p~-~~~Sa~~g~gi~~l~~~l~~~~~~~~~  151 (158)
T PRK15467         90 VSKRQIAVISKTDMPDA---DVAATRKLLLET-GFEEPI-FELNSHDPQSVQQLVDYLASLTKQEEA  151 (158)
T ss_pred             CCCCeEEEEEccccCcc---cHHHHHHHHHHc-CCCCCE-EEEECCCccCHHHHHHHHHHhchhhhc
Confidence            45789999999998642   344556666666 4  489 999999999999999999887765533

>cd01890 LepA LepA subfamily

Probab=98.71  E-value=4e-08  Score=63.06  Aligned_cols=56  Identities=18%  Similarity=0.189  Sum_probs=41.4

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCc---ceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEI---HYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~---~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .++|+++|+||+|+.+..  .......+.+.+ +.   .+ +++||++|.|++++|..+++.+
T Consensus       118 ~~~~iiiv~NK~Dl~~~~--~~~~~~~~~~~~-~~~~~~~-~~~Sa~~g~gi~~l~~~l~~~~  176 (179)
T cd01890         118 NNLEIIPVINKIDLPSAD--PERVKQQIEDVL-GLDPSEA-ILVSAKTGLGVEDLLEAIVERI  176 (179)
T ss_pred             cCCCEEEEEECCCCCcCC--HHHHHHHHHHHh-CCCcccE-EEeeccCCCCHHHHHHHHHhhC
Confidence            578999999999986422  122233444444 33   48 9999999999999999998765

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.

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=98.70  E-value=5e-08  Score=63.43  Aligned_cols=62  Identities=19%  Similarity=0.195  Sum_probs=45.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhh--c---CCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEY--V---PEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~--~---~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++|+||+|+...  ........+...  .   ....+ +++||+++.|++++|.+|++.+.+...
T Consensus       108 ~~~p~iiv~NK~D~~~~--~~~~~~~~~~~~~~~~~~~~~~~-~~~SA~~~~gi~~l~~~l~~~l~~~~~  174 (183)
T cd04152         108 QGVPVLVLANKQDLPNA--LSVSEVEKLLALHELSASTPWHV-QPACAIIGEGLQEGLEKLYEMILKRRK  174 (183)
T ss_pred             CCCcEEEEEECcCcccc--CCHHHHHHHhCccccCCCCceEE-EEeecccCCCHHHHHHHHHHHHHHHHh
Confidence            57899999999998642  233333333321  1   12457 999999999999999999998876655

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.

>cd01898 Obg Obg subfamily

Probab=98.70  E-value=3.7e-08  Score=62.61  Aligned_cols=56  Identities=25%  Similarity=0.157  Sum_probs=42.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhh-cCCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEY-VPEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      .+.|+++|+||+|+.+.... ......+... . ...+ +++||+++.|++++|.++++.
T Consensus       113 ~~~p~ivv~NK~Dl~~~~~~-~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~i~~~  169 (170)
T cd01898         113 LEKPRIVVLNKIDLLDEEEL-FELLKELLKELW-GKPV-FPISALTGEGLDELLRKLAEL  169 (170)
T ss_pred             cccccEEEEEchhcCCchhh-HHHHHHHHhhCC-CCCE-EEEecCCCCCHHHHHHHHHhh
Confidence            36899999999999754433 2333344444 3 5678 999999999999999998764

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.

>cd04157 Arl6 Arl6 subfamily

Probab=98.69  E-value=5.1e-08  Score=61.43  Aligned_cols=54  Identities=15%  Similarity=0.113  Sum_probs=38.6

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhh-----hcCCcceEEEcccCCCCCHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGE-----YVPEIHYVMETSAKDSTNVEEAFYCLAN   67 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~~~Sa~~~~~v~~lf~~l~~   67 (106)
                      .++|+++|+||+|+.+..  ..........     .. ...+ +++||++|.|++++|.+|++
T Consensus       103 ~~~p~iiv~NK~Dl~~~~--~~~~~~~~l~~~~~~~~-~~~~-~~~Sa~~g~gv~~~~~~l~~  161 (162)
T cd04157         103 RRVPILFFANKMDLPDAL--TAVKITQLLGLENIKDK-PWHI-FASNALTGEGLDEGVQWLQA  161 (162)
T ss_pred             CCCCEEEEEeCccccCCC--CHHHHHHHhCCccccCc-eEEE-EEeeCCCCCchHHHHHHHhc
Confidence            579999999999996432  2222222211     12 3458 99999999999999999864

Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases. Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development. Arl6 is also believed to have a role in cilia or flagella function. Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p. Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation. At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism. Older literature suggests that A

>KOG0393|consensus

Probab=98.67  E-value=3.8e-08  Score=65.08  Aligned_cols=63  Identities=19%  Similarity=0.246  Sum_probs=53.6

Q ss_pred             CCCCeEEEEEecCCCCCC------------CCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780           9 DSAHDSRVWSNKCDLESE------------REVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .+++|+||||+|.||.++            ..++.+++..+++..+-..| +|+||++..|+.++|+..++.....
T Consensus       107 cp~vpiiLVGtk~DLr~d~~~~~~l~~~~~~~Vt~~~g~~lA~~iga~~y-~EcSa~tq~~v~~vF~~a~~~~l~~  181 (198)
T KOG0393|consen  107 CPNVPIILVGTKADLRDDPSTLEKLQRQGLEPVTYEQGLELAKEIGAVKY-LECSALTQKGVKEVFDEAIRAALRP  181 (198)
T ss_pred             CCCCCEEEEeehHHhhhCHHHHHHHHhccCCcccHHHHHHHHHHhCccee-eeehhhhhCCcHHHHHHHHHHHhcc
Confidence            378999999999999743            25777888899999844789 9999999999999999998877654

>cd04151 Arl1 Arl1 subfamily

Probab=98.67  E-value=1.9e-08  Score=63.58  Aligned_cols=54  Identities=22%  Similarity=0.207  Sum_probs=38.4

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHH-HHhh----hcCCcceEEEcccCCCCCHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAE-EMGE----YVPEIHYVMETSAKDSTNVEEAFYCLAN   67 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~-~~~~----~~~~~~~~~~~Sa~~~~~v~~lf~~l~~   67 (106)
                      .++|+++|+||+|+.+..  ...... .+..    .. +.++ +++||+++.|++++|++|++
T Consensus        99 ~~~piiiv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~  157 (158)
T cd04151          99 KGAVLLVFANKQDMPGAL--SEAEISEKLGLSELKDR-TWSI-FKTSAIKGEGLDEGMDWLVN  157 (158)
T ss_pred             cCCcEEEEEeCCCCCCCC--CHHHHHHHhCccccCCC-cEEE-EEeeccCCCCHHHHHHHHhc
Confidence            478999999999986432  222222 2211    11 3468 99999999999999999875

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.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=98.67  E-value=6.7e-08  Score=61.30  Aligned_cols=55  Identities=22%  Similarity=0.206  Sum_probs=40.9

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhc------CCcceEEEcccCCCCCHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYV------PEIHYVMETSAKDSTNVEEAFYCLAN   67 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~------~~~~~~~~~Sa~~~~~v~~lf~~l~~   67 (106)
                      .++|+++|+||+|+...  ........+.+..      ...++ +++||++|.|++++|.+|++
T Consensus       106 ~~~p~ilv~NK~D~~~~--~~~~~~~~~~~~~~~~~~~~~~~~-~~~Sa~~g~gv~e~~~~l~~  166 (167)
T cd04160         106 EGVPLLILANKQDLPDA--LSVEEIKEVFQDKAEEIGRRDCLV-LPVSALEGTGVREGIEWLVE  166 (167)
T ss_pred             cCCCEEEEEEccccccC--CCHHHHHHHhccccccccCCceEE-EEeeCCCCcCHHHHHHHHhc
Confidence            57999999999998653  3334444443321      13578 99999999999999999875

Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=98.66  E-value=3.7e-08  Score=62.08  Aligned_cols=54  Identities=22%  Similarity=0.119  Sum_probs=38.6

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHh------hhcCCcceEEEcccCCCCCHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMG------EYVPEIHYVMETSAKDSTNVEEAFYCLAN   67 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~------~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~   67 (106)
                      .++|+++|+||+|+...  ....+.....      ... ++++ +++||++|+||+++|++|++
T Consensus       100 ~~~piilv~nK~Dl~~~--~~~~~i~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gv~~~~~~i~~  159 (160)
T cd04156         100 KGVPVVLLANKQDLPGA--LTAEEITRRFKLKKYCSDR-DWYV-QPCSAVTGEGLAEAFRKLAS  159 (160)
T ss_pred             cCCCEEEEEECcccccC--cCHHHHHHHcCCcccCCCC-cEEE-EecccccCCChHHHHHHHhc
Confidence            57999999999998642  2222222221      112 4568 99999999999999999864

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

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

Probab=98.65  E-value=9.7e-08  Score=59.81  Aligned_cols=56  Identities=18%  Similarity=0.211  Sum_probs=44.4

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      .++|+++|+||+|+.+...+... ...+...+ +.++ +++||.++.|++++|..+.+.
T Consensus       100 ~~~~~iiv~NK~Dl~~~~~~~~~-~~~~~~~~-~~~~-~~iSa~~~~~~~~l~~~l~~~  155 (158)
T cd01879         100 LGLPVVVALNMIDEAEKRGIKID-LDKLSELL-GVPV-VPTSARKGEGIDELKDAIAEL  155 (158)
T ss_pred             cCCCEEEEEehhhhcccccchhh-HHHHHHhh-CCCe-EEEEccCCCCHHHHHHHHHHH
Confidence            57899999999999755433332 34566666 7789 999999999999999988765

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.

>KOG4252|consensus

Probab=98.63  E-value=3.6e-08  Score=64.34  Aligned_cols=66  Identities=26%  Similarity=0.329  Sum_probs=58.4

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhcccc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATL   77 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~~~~   77 (106)
                      .++|.++|-||+||.++..+...+.+.+++.. ...+ +.+|++...||..+|..|++.+.+++..++
T Consensus       123 ~~IPtV~vqNKIDlveds~~~~~evE~lak~l-~~Rl-yRtSvked~NV~~vF~YLaeK~~q~~kq~~  188 (246)
T KOG4252|consen  123 ERIPTVFVQNKIDLVEDSQMDKGEVEGLAKKL-HKRL-YRTSVKEDFNVMHVFAYLAEKLTQQKKQSL  188 (246)
T ss_pred             ccCCeEEeeccchhhHhhhcchHHHHHHHHHh-hhhh-hhhhhhhhhhhHHHHHHHHHHHHHHHHHHh
Confidence            57999999999999988888888888888888 7888 999999999999999999998888766433

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=98.62  E-value=1.5e-07  Score=60.57  Aligned_cols=54  Identities=22%  Similarity=0.194  Sum_probs=39.3

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHH-HHHh----hhcCCcceEEEcccCCCCCHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEA-EEMG----EYVPEIHYVMETSAKDSTNVEEAFYCLAN   67 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~-~~~~----~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~   67 (106)
                      .++|+++++||+|+...  ...++. ..+.    ... .+.+ +++||++|.||+++|.+|++
T Consensus       115 ~~~p~viv~NK~Dl~~~--~~~~~i~~~l~~~~~~~~-~~~~-~~~SA~~g~gi~e~~~~l~~  173 (174)
T cd04153         115 RKAVLLVLANKQDLKGA--MTPAEISESLGLTSIRDH-TWHI-QGCCALTGEGLPEGLDWIAS  173 (174)
T ss_pred             cCCCEEEEEECCCCCCC--CCHHHHHHHhCcccccCC-ceEE-EecccCCCCCHHHHHHHHhc
Confidence            46899999999998642  233332 2222    223 4578 99999999999999999874

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.

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=98.59  E-value=2.4e-07  Score=61.54  Aligned_cols=61  Identities=25%  Similarity=0.319  Sum_probs=48.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++|+||+|+.+. .+..+ ...+.... ++.+ +++||+++.|++++|.+|++.+.....
T Consensus       112 ~~~~i~lv~nK~Dl~~~-~~~~~-~~~~~~~~-~~~~-~e~Sa~~~~~v~~~f~~ia~~l~~~p~  172 (215)
T PTZ00132        112 ENIPIVLVGNKVDVKDR-QVKAR-QITFHRKK-NLQY-YDISAKSNYNFEKPFLWLARRLTNDPN  172 (215)
T ss_pred             CCCCEEEEEECccCccc-cCCHH-HHHHHHHc-CCEE-EEEeCCCCCCHHHHHHHHHHHHhhccc
Confidence            57899999999998643 23333 33556666 7889 999999999999999999998876644

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

Probab=98.55  E-value=9.6e-08  Score=60.13  Aligned_cols=55  Identities=20%  Similarity=0.102  Sum_probs=40.2

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhh-----hcCCcceEEEcccCCCCCHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGE-----YVPEIHYVMETSAKDSTNVEEAFYCLAN   67 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~~~Sa~~~~~v~~lf~~l~~   67 (106)
                      ..+.|+++|+||+|+....  ..++......     .. ..++ +++||++|.|++++|..|..
T Consensus        98 ~~~~piiiv~nK~D~~~~~--~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gv~~~~~~l~~  157 (158)
T cd00878          98 LKGVPLLIFANKQDLPGAL--SVSELIEKLGLEKILGR-RWHI-QPCSAVTGDGLDEGLDWLLQ  157 (158)
T ss_pred             cCCCcEEEEeeccCCcccc--CHHHHHHhhChhhccCC-cEEE-EEeeCCCCCCHHHHHHHHhh
Confidence            3579999999999987533  2233333222     23 4579 99999999999999998864

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

>cd01878 HflX HflX subfamily

Probab=98.54  E-value=6.8e-08  Score=63.57  Aligned_cols=52  Identities=23%  Similarity=0.127  Sum_probs=39.8

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      .++|+++|+||+|+.+....     ....... ..++ +++||+++.|++++|.+|.+.
T Consensus       152 ~~~~viiV~NK~Dl~~~~~~-----~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~L~~~  203 (204)
T cd01878         152 EDIPMILVLNKIDLLDDEEL-----EERLEAG-RPDA-VFISAKTGEGLDELLEAIEEL  203 (204)
T ss_pred             CCCCEEEEEEccccCChHHH-----HHHhhcC-CCce-EEEEcCCCCCHHHHHHHHHhh
Confidence            46899999999998643221     1333344 5678 999999999999999998764

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.

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=98.52  E-value=2.6e-07  Score=65.63  Aligned_cols=57  Identities=26%  Similarity=0.231  Sum_probs=43.7

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .+.|+++|+||+|+.+... ..+....+.+.. +..+ +++||++++|++++|..+.+.+
T Consensus       272 ~~kp~IIV~NK~DL~~~~~-~~~~~~~l~~~~-~~~v-i~iSAktg~GI~eL~~~I~~~l  328 (329)
T TIGR02729       272 AEKPRIVVLNKIDLLDEEE-LAELLKELKKAL-GKPV-FPISALTGEGLDELLYALAELL  328 (329)
T ss_pred             ccCCEEEEEeCccCCChHH-HHHHHHHHHHHc-CCcE-EEEEccCCcCHHHHHHHHHHHh
Confidence            4689999999999965432 223344455556 6789 9999999999999999998754

This model describes a univeral, mostly one-gene-per-genome GTP-binding protein that associates with ribosomal subunits and appears to play a role in ribosomal RNA maturation. This GTPase, related to the nucleolar protein Obg, is designated CgtA in bacteria. Mutations in this gene are pleiotropic, but it appears that effects on cellular functions such as chromosome partition may be secondary to the effect on ribosome structure. Recent work done in Vibrio cholerae shows an essential role in the stringent response, in which RelA-dependent ability to synthesize the alarmone ppGpp is required for deletion of this GTPase to be lethal.

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

Probab=98.52  E-value=1.4e-07  Score=60.14  Aligned_cols=57  Identities=19%  Similarity=0.159  Sum_probs=41.4

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      .+.|+++|+||+|+.................. ...+ +++||+++.|++++++.+.+.
T Consensus       119 ~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gl~~l~~~l~~~  175 (176)
T cd01881         119 TAKPVIYVLNKIDLDDAEELEEELVRELALEE-GAEV-VPISAKTEEGLDELIRAIYEL  175 (176)
T ss_pred             hhCCeEEEEEchhcCchhHHHHHHHHHHhcCC-CCCE-EEEehhhhcCHHHHHHHHHhh
Confidence            37899999999999754432222122333334 6678 999999999999999988754

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

>cd01894 EngA1 EngA1 subfamily

Probab=98.46  E-value=3.4e-07  Score=57.10  Aligned_cols=52  Identities=13%  Similarity=0.043  Sum_probs=39.2

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCc-ceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEI-HYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      .+.|+++|+||+|+.+....     ....... +. .+ +++|++++.|++++|+++++.
T Consensus       104 ~~~piiiv~nK~D~~~~~~~-----~~~~~~~-~~~~~-~~~Sa~~~~gv~~l~~~l~~~  156 (157)
T cd01894         104 SKKPVILVVNKVDNIKEEDE-----AAEFYSL-GFGEP-IPISAEHGRGIGDLLDAILEL  156 (157)
T ss_pred             cCCCEEEEEECcccCChHHH-----HHHHHhc-CCCCe-EEEecccCCCHHHHHHHHHhh
Confidence            46899999999998753321     2222334 33 78 999999999999999999865

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.

>cd01855 YqeH YqeH

Probab=98.45  E-value=1.1e-06  Score=57.37  Aligned_cols=60  Identities=18%  Similarity=0.101  Sum_probs=42.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHh-----hhc--CCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMG-----EYV--PEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~-----~~~--~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .+.|+++|+||+|+.+.. ........+.     +..  ....+ +.+||+++.|+++++..+.+.++.
T Consensus        60 ~~~~~ilV~NK~Dl~~~~-~~~~~~~~~~~~~~~~~~~~~~~~i-~~vSA~~~~gi~eL~~~l~~~l~~  126 (190)
T cd01855          60 GNNPVILVGNKIDLLPKD-KNLVRIKNWLRAKAAAGLGLKPKDV-ILISAKKGWGVEELINAIKKLAKK  126 (190)
T ss_pred             CCCcEEEEEEchhcCCCC-CCHHHHHHHHHHHHHhhcCCCcccE-EEEECCCCCCHHHHHHHHHHHhhc
Confidence            468999999999986432 2233333332     222  01268 999999999999999999887753

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.

>cd04171 SelB SelB subfamily

Probab=98.43  E-value=3.7e-07  Score=57.39  Aligned_cols=53  Identities=23%  Similarity=0.105  Sum_probs=37.3

Q ss_pred             eEEEEEecCCCCCCCC--CCHHHHHHHhhh---cCCcceEEEcccCCCCCHHHHHHHHHH
Q psy5780          13 DSRVWSNKCDLESERE--VDFNEAEEMGEY---VPEIHYVMETSAKDSTNVEEAFYCLAN   67 (106)
Q Consensus        13 p~ilv~nK~Dl~~~~~--~~~~~~~~~~~~---~~~~~~~~~~Sa~~~~~v~~lf~~l~~   67 (106)
                      |+++|+||+|+.+...  ..........+.   . +.++ +++||+++.|++++|..+.+
T Consensus       106 ~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~~v~~l~~~l~~  163 (164)
T cd04171         106 RGLVVLTKADLVDEDWLELVEEEIRELLAGTFLA-DAPI-FPVSAVTGEGIEELKEYLDE  163 (164)
T ss_pred             cEEEEEECccccCHHHHHHHHHHHHHHHHhcCcC-CCcE-EEEeCCCCcCHHHHHHHHhh
Confidence            8999999999964321  111222333332   3 5689 99999999999999988764

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

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

Probab=98.40  E-value=1e-06  Score=57.29  Aligned_cols=56  Identities=14%  Similarity=0.037  Sum_probs=41.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhc-----------CCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYV-----------PEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      .++|+++|+||+|+..  .+..++........           +...+ +++||++++|+++++++|.+.
T Consensus       117 ~~~piliv~NK~Dl~~--~~~~~~i~~~l~l~~~~~~~~~~~~~~~~i-~~~Sa~~~~g~~~~~~wl~~~  183 (184)
T smart00178      117 ATVPFLILGNKIDAPY--AASEDELRYALGLTNTTGSKGKVGVRPLEV-FMCSVVRRMGYGEGFKWLSQY  183 (184)
T ss_pred             cCCCEEEEEeCccccC--CCCHHHHHHHcCCCcccccccccCCceeEE-EEeecccCCChHHHHHHHHhh
Confidence            5789999999999863  34455544433211           13458 999999999999999999764

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

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=98.40  E-value=5.4e-07  Score=68.37  Aligned_cols=58  Identities=14%  Similarity=0.165  Sum_probs=47.1

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      +.++|+++|+||+|+.+...+. .....+.+.. +.++ +++||++|+|++++|+.+.+..
T Consensus        97 ~~~~PiIIVlNK~Dl~~~~~i~-~d~~~L~~~l-g~pv-v~tSA~tg~Gi~eL~~~i~~~~  154 (591)
T TIGR00437        97 ELGIPMILALNLVDEAEKKGIR-IDEEKLEERL-GVPV-VPTSATEGRGIERLKDAIRKAI  154 (591)
T ss_pred             hcCCCEEEEEehhHHHHhCCCh-hhHHHHHHHc-CCCE-EEEECCCCCCHHHHHHHHHHHh
Confidence            4579999999999986544443 3456677778 8899 9999999999999999998653

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.

>PRK15494 era GTPase Era; Provisional

Probab=98.39  E-value=2.5e-07  Score=65.91  Aligned_cols=60  Identities=18%  Similarity=0.160  Sum_probs=44.1

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhc-CCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYV-PEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      ..+.|.++|+||+|+.+.   .......+.... +...+ |++||++|.|++++|.+|++.++..
T Consensus       158 ~~~~p~IlViNKiDl~~~---~~~~~~~~l~~~~~~~~i-~~iSAktg~gv~eL~~~L~~~l~~~  218 (339)
T PRK15494        158 SLNIVPIFLLNKIDIESK---YLNDIKAFLTENHPDSLL-FPISALSGKNIDGLLEYITSKAKIS  218 (339)
T ss_pred             hcCCCEEEEEEhhcCccc---cHHHHHHHHHhcCCCcEE-EEEeccCccCHHHHHHHHHHhCCCC
Confidence            345788899999998643   133444444433 23578 9999999999999999998877654

>PRK03003 GTP-binding protein Der; Reviewed

Probab=98.38  E-value=7e-07  Score=66.08  Aligned_cols=64  Identities=22%  Similarity=0.144  Sum_probs=43.3

Q ss_pred             CCCCeEEEEEecCCCCCCCCC--CHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780           9 DSAHDSRVWSNKCDLESEREV--DFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      ..++|+|+|+||+||.+....  ...............++ +++||++|.||+++|..+++.+....
T Consensus       320 ~~~~piIiV~NK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~-~~~SAk~g~gv~~lf~~i~~~~~~~~  385 (472)
T PRK03003        320 EAGRALVLAFNKWDLVDEDRRYYLEREIDRELAQVPWAPR-VNISAKTGRAVDKLVPALETALESWD  385 (472)
T ss_pred             HcCCCEEEEEECcccCChhHHHHHHHHHHHhcccCCCCCE-EEEECCCCCCHHHHHHHHHHHHHHhc
Confidence            367899999999999642210  01111111122224688 99999999999999999988775443

>PRK00089 era GTPase Era; Reviewed

Probab=98.38  E-value=3e-07  Score=63.82  Aligned_cols=61  Identities=25%  Similarity=0.205  Sum_probs=45.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .+.|+++|+||+|+.............+.+.++...+ +.+||+++.|+++++..+.+.++.
T Consensus       112 ~~~pvilVlNKiDl~~~~~~l~~~~~~l~~~~~~~~i-~~iSA~~~~gv~~L~~~L~~~l~~  172 (292)
T PRK00089        112 VKTPVILVLNKIDLVKDKEELLPLLEELSELMDFAEI-VPISALKGDNVDELLDVIAKYLPE  172 (292)
T ss_pred             cCCCEEEEEECCcCCCCHHHHHHHHHHHHhhCCCCeE-EEecCCCCCCHHHHHHHHHHhCCC
Confidence            4689999999999973322222334445554434678 999999999999999999887754

>TIGR00436 era GTP-binding protein Era

Probab=98.37  E-value=2e-07  Score=64.26  Aligned_cols=62  Identities=11%  Similarity=-0.052  Sum_probs=43.9

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      ..+.|+++|+||+|+.+... .......+....+...+ +++||++|.|+++++..+.+.++..
T Consensus       105 ~~~~p~ilV~NK~Dl~~~~~-~~~~~~~~~~~~~~~~v-~~iSA~~g~gi~~L~~~l~~~l~~~  166 (270)
T TIGR00436       105 NLKRPVVLTRNKLDNKFKDK-LLPLIDKYAILEDFKDI-VPISALTGDNTSFLAAFIEVHLPEG  166 (270)
T ss_pred             hcCCCEEEEEECeeCCCHHH-HHHHHHHHHhhcCCCce-EEEecCCCCCHHHHHHHHHHhCCCC
Confidence            35789999999999864322 12233344444423478 9999999999999999998776543

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

>cd04155 Arl3 Arl3 subfamily

Probab=98.37  E-value=1.5e-06  Score=55.37  Aligned_cols=55  Identities=22%  Similarity=0.217  Sum_probs=37.6

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhc----CCcceEEEcccCCCCCHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYV----PEIHYVMETSAKDSTNVEEAFYCLAN   67 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~----~~~~~~~~~Sa~~~~~v~~lf~~l~~   67 (106)
                      .++|+++++||+|+.+..  ............    ....+ +++||++|+|++++|++|++
T Consensus       114 ~~~p~ivv~nK~D~~~~~--~~~~i~~~l~~~~~~~~~~~~-~~~Sa~~~~gi~~~~~~l~~  172 (173)
T cd04155         114 AGVPVLVFANKQDLATAA--PAEEIAEALNLHDLRDRTWHI-QACSAKTGEGLQEGMNWVCK  172 (173)
T ss_pred             cCCCEEEEEECCCCccCC--CHHHHHHHcCCcccCCCeEEE-EEeECCCCCCHHHHHHHHhc
Confidence            468999999999986432  222222222111    01247 89999999999999999975

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.

>cd04163 Era Era subfamily

Probab=98.37  E-value=9.1e-07  Score=55.25  Aligned_cols=57  Identities=23%  Similarity=0.161  Sum_probs=41.2

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      +.|+++|+||+|+........+....+....+..++ +++|++++.|++++|..|.+.
T Consensus       111 ~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~~~s~~~~~~~~~l~~~l~~~  167 (168)
T cd04163         111 KTPVILVLNKIDLVKDKEDLLPLLEKLKELGPFAEI-FPISALKGENVDELLEEIVKY  167 (168)
T ss_pred             CCCEEEEEEchhccccHHHHHHHHHHHHhccCCCce-EEEEeccCCChHHHHHHHHhh
Confidence            589999999999873222222333344444434688 999999999999999988764

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.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=98.36  E-value=1.6e-06  Score=53.44  Aligned_cols=52  Identities=19%  Similarity=0.171  Sum_probs=38.5

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHH
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCL   65 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l   65 (106)
                      ++|+++|+||.|+.... ........+.... ...+ +++||+++.|+.++|..|
T Consensus       108 ~~p~ivv~nK~D~~~~~-~~~~~~~~~~~~~-~~~~-~~~sa~~~~gv~~~~~~l  159 (161)
T TIGR00231       108 NVPIILVGNKIDLRDAK-LKTHVAFLFAKLN-GEPI-IPLSAETGKNIDSAFKIV  159 (161)
T ss_pred             CCcEEEEEEcccCCcch-hhHHHHHHHhhcc-CCce-EEeecCCCCCHHHHHHHh
Confidence            78999999999986533 2222223333333 6679 999999999999999876

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.

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=98.35  E-value=2.4e-06  Score=62.60  Aligned_cols=59  Identities=24%  Similarity=0.256  Sum_probs=46.4

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .+.|.++|+||+||...    .+....+.+.. ...+ +.+||++++|+++++.+|.+.+.+...
T Consensus       273 ~~kP~IVV~NK~DL~~~----~e~l~~l~~~l-~~~i-~~iSA~tgeGI~eL~~~L~~~l~~~~~  331 (424)
T PRK12297        273 LERPQIVVANKMDLPEA----EENLEEFKEKL-GPKV-FPISALTGQGLDELLYAVAELLEETPE  331 (424)
T ss_pred             cCCcEEEEEeCCCCcCC----HHHHHHHHHHh-CCcE-EEEeCCCCCCHHHHHHHHHHHHHhCcc
Confidence            36899999999998432    23445566666 5778 999999999999999999988876543

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

Probab=98.35  E-value=1.2e-06  Score=54.48  Aligned_cols=51  Identities=22%  Similarity=0.158  Sum_probs=40.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .+.|+++|+||+|+.+....       ..... ..++ +++||+++.|+++++.+|.+.+
T Consensus       106 ~~~~vi~v~nK~D~~~~~~~-------~~~~~-~~~~-~~~Sa~~~~~v~~l~~~l~~~~  156 (157)
T cd04164         106 ADKPIIVVLNKSDLLPDSEL-------LSLLA-GKPI-IAISAKTGEGLDELKEALLELA  156 (157)
T ss_pred             cCCCEEEEEEchhcCCcccc-------ccccC-CCce-EEEECCCCCCHHHHHHHHHHhh
Confidence            57899999999998754322       22334 5688 9999999999999999987654

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.

>KOG4423|consensus

Probab=98.34  E-value=2.1e-06  Score=56.45  Aligned_cols=65  Identities=22%  Similarity=0.241  Sum_probs=51.5

Q ss_pred             CCCCeEEEEEecCCCCCCCCCC-HHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVD-FNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      +..+|+++..||+|........ ...+..+.+.++...+ ++||+|.+.|++++...+++.+..+..
T Consensus       133 g~Pv~~vllankCd~e~~a~~~~~~~~d~f~kengf~gw-tets~Kenkni~Ea~r~lVe~~lvnd~  198 (229)
T KOG4423|consen  133 GTPVPCVLLANKCDQEKSAKNEATRQFDNFKKENGFEGW-TETSAKENKNIPEAQRELVEKILVNDE  198 (229)
T ss_pred             CCcchheeccchhccChHhhhhhHHHHHHHHhccCccce-eeeccccccChhHHHHHHHHHHHhhcc
Confidence            3568999999999986433222 3456677788856789 999999999999999999998887754

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=98.34  E-value=3.8e-07  Score=58.39  Aligned_cols=55  Identities=20%  Similarity=0.103  Sum_probs=38.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHH------HHHhhhc-CCcceEEEcccCCC------CCHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEA------EEMGEYV-PEIHYVMETSAKDS------TNVEEAFYCLAN   67 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~------~~~~~~~-~~~~~~~~~Sa~~~------~~v~~lf~~l~~   67 (106)
                      .++|+++|+||.|+.....  ..+.      ..+++.. ..+.+ +++||++|      .|+.+.|+||.+
T Consensus        99 ~~~piliv~NK~Dl~~~~~--~~~i~~~~~l~~~~~~~~~~~~~-~~~Sa~~g~~~~~~~g~~~~~~wl~~  166 (167)
T cd04161          99 SGKPILVLANKQDKKNALL--GADVIEYLSLEKLVNENKSLCHI-EPCSAIEGLGKKIDPSIVEGLRWLLA  166 (167)
T ss_pred             cCCcEEEEEeCCCCcCCCC--HHHHHHhcCcccccCCCCceEEE-EEeEceeCCCCccccCHHHHHHHHhc
Confidence            4789999999999975432  2221      1222222 12456 78999998      899999999964

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.

>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=98.33  E-value=4e-06  Score=54.28  Aligned_cols=57  Identities=21%  Similarity=0.208  Sum_probs=42.8

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhh--c---CCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEY--V---PEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~--~---~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .++|+++++||.|+.+  ....++.......  .   ..+.+ +.+||.+|+|+.+.|++|.+.+
T Consensus       114 ~~~piLIl~NK~D~~~--~~~~~~i~~~l~l~~l~~~~~~~v-~~~sa~~g~Gv~e~l~WL~~~~  175 (175)
T PF00025_consen  114 KDIPILILANKQDLPD--AMSEEEIKEYLGLEKLKNKRPWSV-FSCSAKTGEGVDEGLEWLIEQI  175 (175)
T ss_dssp             TTSEEEEEEESTTSTT--SSTHHHHHHHTTGGGTTSSSCEEE-EEEBTTTTBTHHHHHHHHHHHH
T ss_pred             ccceEEEEeccccccC--cchhhHHHhhhhhhhcccCCceEE-EeeeccCCcCHHHHHHHHHhcC
Confidence            4799999999999864  3445555444321  1   14567 9999999999999999998764

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 ....

>cd04159 Arl10_like Arl10-like subfamily

Probab=98.31  E-value=8e-07  Score=55.20  Aligned_cols=54  Identities=24%  Similarity=0.190  Sum_probs=38.4

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHh-----hhcCCcceEEEcccCCCCCHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMG-----EYVPEIHYVMETSAKDSTNVEEAFYCLAN   67 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~   67 (106)
                      .++|+++|+||.|+.+...  ........     ... ...+ +++|++++.|++++|.+|++
T Consensus       100 ~~~p~iiv~nK~D~~~~~~--~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~  158 (159)
T cd04159         100 EGIPLLVLGNKNDLPGALS--VDELIEQMNLKSITDR-EVSC-YSISCKEKTNIDIVLDWLIK  158 (159)
T ss_pred             cCCCEEEEEeCccccCCcC--HHHHHHHhCcccccCC-ceEE-EEEEeccCCChHHHHHHHhh
Confidence            5789999999999865432  22222111     112 3578 99999999999999999865

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.

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=98.31  E-value=2.5e-06  Score=51.81  Aligned_cols=57  Identities=40%  Similarity=0.435  Sum_probs=41.8

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHH-HHHHhhhcCCcceEEEcccCCCCCHHHHHHHHH
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNE-AEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLA   66 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~-~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~   66 (106)
                      ...++|+++|+||+|+.......... ........ ..++ +++|+..+.|+.+++.+|.
T Consensus        99 ~~~~~~~ivv~nk~D~~~~~~~~~~~~~~~~~~~~-~~~~-~~~s~~~~~~i~~~~~~l~  156 (157)
T cd00882          99 EGENIPIILVGNKIDLPEERVVSEEELAEQLAKEL-GVPY-FETSAKTGENVEELFEELA  156 (157)
T ss_pred             ccCCCcEEEEEeccccccccchHHHHHHHHHHhhc-CCcE-EEEecCCCCChHHHHHHHh
Confidence            44689999999999987543322221 22333444 7889 9999999999999999875

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

>cd01859 MJ1464 MJ1464

Probab=98.30  E-value=1.2e-06  Score=55.41  Aligned_cols=58  Identities=17%  Similarity=0.071  Sum_probs=42.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .+.|+++|+||+|+.+...  ......+.+.. +.++ +.+||+++.|+++++..+.+.++.
T Consensus        40 ~~~p~iiv~NK~Dl~~~~~--~~~~~~~~~~~-~~~~-~~iSa~~~~gi~~L~~~l~~~~~~   97 (156)
T cd01859          40 LGKKLLIVLNKADLVPKEV--LEKWKSIKESE-GIPV-VYVSAKERLGTKILRRTIKELAKI   97 (156)
T ss_pred             CCCcEEEEEEhHHhCCHHH--HHHHHHHHHhC-CCcE-EEEEccccccHHHHHHHHHHHHhh
Confidence            4689999999999853211  11111233344 6678 999999999999999999887754

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.

>TIGR00101 ureG urease accessory protein UreG

Probab=98.29  E-value=2.1e-06  Score=56.99  Aligned_cols=54  Identities=17%  Similarity=0.118  Sum_probs=38.7

Q ss_pred             EEEEecCCCCCCCCCCHHHHHHHhhh-cCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          15 RVWSNKCDLESEREVDFNEAEEMGEY-VPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        15 ilv~nK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      ++++||+|+.+......+......+. .+..++ |++||++|+|++++|+++.+..
T Consensus       141 ~~~~~k~d~~~~~~~~~~~~~~~~~~~~~~~~i-~~~Sa~~g~gi~el~~~i~~~~  195 (199)
T TIGR00101       141 LLVINKIDLAPMVGADLGVMERDAKKMRGEKPF-IFTNLKTKEGLDTVIDWIEHYA  195 (199)
T ss_pred             EEEEEhhhccccccccHHHHHHHHHHhCCCCCE-EEEECCCCCCHHHHHHHHHhhc
Confidence            78999999974212223333333333 336789 9999999999999999998654

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.

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

Probab=98.29  E-value=7.9e-07  Score=58.86  Aligned_cols=57  Identities=14%  Similarity=0.167  Sum_probs=38.5

Q ss_pred             eEEEEEecCCCCCCCCCC--HHHHHHHhhhc--CCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          13 DSRVWSNKCDLESEREVD--FNEAEEMGEYV--PEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        13 p~ilv~nK~Dl~~~~~~~--~~~~~~~~~~~--~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      |+++|+||+|+.+.....  .+....+...+  .+.++ +.+||+++.|++++|..+.+.++
T Consensus       139 ~iiivvNK~Dl~~~~~~~~~~~~i~~~~~~~~~~~~~i-~~vSA~~g~gi~~L~~~l~~~l~  199 (203)
T cd01888         139 HIIIVQNKIDLVKEEQALENYEQIKKFVKGTIAENAPI-IPISAQLKYNIDVLLEYIVKKIP  199 (203)
T ss_pred             cEEEEEEchhccCHHHHHHHHHHHHHHHhccccCCCcE-EEEeCCCCCCHHHHHHHHHHhCC
Confidence            689999999986422111  12222333221  14678 99999999999999999987653

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

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=98.27  E-value=2.4e-06  Score=63.62  Aligned_cols=62  Identities=21%  Similarity=0.177  Sum_probs=45.7

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .+.|+|+|+||+|+.+...+. +......... ++.+ |.+||+++.|+++++.+|.+.+.....
T Consensus       283 ~~kP~IVVlNKiDL~da~el~-e~l~~~l~~~-g~~V-f~ISA~tgeGLdEL~~~L~ell~~~r~  344 (500)
T PRK12296        283 AERPRLVVLNKIDVPDARELA-EFVRPELEAR-GWPV-FEVSAASREGLRELSFALAELVEEARA  344 (500)
T ss_pred             cCCCEEEEEECccchhhHHHH-HHHHHHHHHc-CCeE-EEEECCCCCCHHHHHHHHHHHHHhhhc
Confidence            368999999999996433211 1222233445 6789 999999999999999999988876543

>cd01895 EngA2 EngA2 subfamily

Probab=98.27  E-value=3.2e-06  Score=53.27  Aligned_cols=58  Identities=17%  Similarity=0.149  Sum_probs=39.9

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHH-HHHhhhc---CCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEA-EEMGEYV---PEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~-~~~~~~~---~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      .+.|+++|+||+|+.+......... ....+.+   +..++ +.+||+++.|+++++..+.+.
T Consensus       112 ~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~Sa~~~~~i~~~~~~l~~~  173 (174)
T cd01895         112 EGKALVIVVNKWDLVEKDSKTMKEFKKEIRRKLPFLDYAPI-VFISALTGQGVDKLFDAIDEV  173 (174)
T ss_pred             cCCCEEEEEeccccCCccHHHHHHHHHHHHhhcccccCCce-EEEeccCCCCHHHHHHHHHHh
Confidence            4689999999999875421122221 2222222   13578 999999999999999988753

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.

>cd00880 Era_like Era (E

Probab=98.27  E-value=1.8e-06  Score=53.23  Aligned_cols=58  Identities=17%  Similarity=0.064  Sum_probs=40.8

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHH---HHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNE---AEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~---~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      ..++|+++|+||+|+..........   ........ ..++ +++||+++.|+++++..+.+.
T Consensus       102 ~~~~~~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~-~~~sa~~~~~v~~l~~~l~~~  162 (163)
T cd00880         102 ERGKPVLLVLNKIDLLPEEEEEELLELRLLILLLLL-GLPV-IAVSALTGEGIDELREALIEA  162 (163)
T ss_pred             hcCCeEEEEEEccccCChhhHHHHHHHHHhhccccc-CCce-EEEeeeccCCHHHHHHHHHhh
Confidence            4689999999999987543222110   11112223 6789 999999999999999998764

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

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=98.26  E-value=2.1e-06  Score=57.03  Aligned_cols=56  Identities=20%  Similarity=0.246  Sum_probs=39.5

Q ss_pred             CeEEEEEecCCCCCCCCCCHHHHHHHhhhc-CCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          12 HDSRVWSNKCDLESEREVDFNEAEEMGEYV-PEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        12 ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      .|.++++||+|+.+.............+.. +..++ +++||+++.|++++|+++.+.
T Consensus       149 ~a~iiv~NK~Dl~~~~~~~~~~~~~~l~~~~~~~~i-~~~Sa~~g~gv~~l~~~i~~~  205 (207)
T TIGR00073       149 EADLIVINKADLAEAVGFDVEKMKADAKKINPEAEI-ILMSLKTGEGLDEWLEFLEGQ  205 (207)
T ss_pred             hCCEEEEEHHHccccchhhHHHHHHHHHHhCCCCCE-EEEECCCCCCHHHHHHHHHHh
Confidence            467999999999643222222333333332 35789 999999999999999999764

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

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=98.25  E-value=3.4e-06  Score=61.41  Aligned_cols=61  Identities=16%  Similarity=0.139  Sum_probs=41.6

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHH-HHhhh---cCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAE-EMGEY---VPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~-~~~~~---~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .+.|+++|+||+|+.+... ..+... .....   .++.++ +++||++|.|++++|..+.+.....
T Consensus       282 ~~~~iiiv~NK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~v-i~~SA~~g~~v~~l~~~i~~~~~~~  346 (429)
T TIGR03594       282 AGKALVIVVNKWDLVKDEK-TREEFKKELRRKLPFLDFAPI-VFISALTGQGVDKLLDAIDEVYENA  346 (429)
T ss_pred             cCCcEEEEEECcccCCCHH-HHHHHHHHHHHhcccCCCCce-EEEeCCCCCCHHHHHHHHHHHHHHh
Confidence            5789999999999862111 111111 11111   224689 9999999999999999998766543

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.

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

Probab=98.25  E-value=2.6e-06  Score=53.84  Aligned_cols=59  Identities=20%  Similarity=0.135  Sum_probs=39.2

Q ss_pred             CCCeEEEEEecCCCCCCCCCC-HHHHHHHhh----hc-CCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVD-FNEAEEMGE----YV-PEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~-~~~~~~~~~----~~-~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .++|+++|+||+|+....... ......+..    .+ ...++ +++||+++.|++++|.+|.+..
T Consensus       101 ~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~Sa~~~~gi~~l~~~l~~~~  165 (168)
T cd01887         101 ANVPFIVALNKIDKPNANPERVKNELSELGLQGEDEWGGDVQI-VPTSAKTGEGIDDLLEAILLLA  165 (168)
T ss_pred             cCCCEEEEEEceecccccHHHHHHHHHHhhccccccccCcCcE-EEeecccCCCHHHHHHHHHHhh
Confidence            578999999999986422100 011111111    11 13578 9999999999999999997654

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.

>cd00881 GTP_translation_factor GTP translation factor family

Probab=98.25  E-value=2.2e-06  Score=55.03  Aligned_cols=60  Identities=22%  Similarity=0.205  Sum_probs=42.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCC--HHHHHHHhhhc-------------CCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVD--FNEAEEMGEYV-------------PEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~--~~~~~~~~~~~-------------~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      .+.|+++|+||+|+.......  ........+..             ...++ +++||+++.|++++|..+.+.++
T Consensus       113 ~~~~i~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v-~~~Sa~~g~gi~~l~~~l~~~l~  187 (189)
T cd00881         113 GGLPIIVAINKIDRVGEEDLEEVLREIKELLGLIGFISTKEEGTRNGLLVPI-VPGSALTGIGVEELLEAIVEHLP  187 (189)
T ss_pred             CCCCeEEEEECCCCcchhcHHHHHHHHHHHHccccccchhhhhcccCCcceE-EEEecccCcCHHHHHHHHHhhCC
Confidence            478999999999987422211  12223333221             14678 99999999999999999987763

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.

>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=98.24  E-value=4.3e-06  Score=56.64  Aligned_cols=51  Identities=22%  Similarity=0.112  Sum_probs=39.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      ..+|.++|+||+|+.+     .++...++..   ..+ +++||+++.|++++|+.+.+.+
T Consensus       175 ~y~p~iiV~NK~Dl~~-----~~~~~~~~~~---~~~-~~~SA~~g~gi~~l~~~i~~~L  225 (233)
T cd01896         175 VYIPCLYVYNKIDLIS-----IEELDLLARQ---PNS-VVISAEKGLNLDELKERIWDKL  225 (233)
T ss_pred             eEeeEEEEEECccCCC-----HHHHHHHhcC---CCE-EEEcCCCCCCHHHHHHHHHHHh
Confidence            3579999999999853     3344444443   357 9999999999999999998754

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.

>PRK12288 GTPase RsgA; Reviewed

Probab=98.22  E-value=2.3e-06  Score=61.20  Aligned_cols=58  Identities=17%  Similarity=0.131  Sum_probs=41.7

Q ss_pred             CCCCeEEEEEecCCCCCCCCC-CHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREV-DFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      ..++|.++|+||+||.+.... ............ ++++ +.+||+++.|+++++..+...
T Consensus       148 ~~~i~~VIVlNK~DL~~~~~~~~~~~~~~~y~~~-g~~v-~~vSA~tg~GideL~~~L~~k  206 (347)
T PRK12288        148 TLGIEPLIVLNKIDLLDDEGRAFVNEQLDIYRNI-GYRV-LMVSSHTGEGLEELEAALTGR  206 (347)
T ss_pred             hcCCCEEEEEECccCCCcHHHHHHHHHHHHHHhC-CCeE-EEEeCCCCcCHHHHHHHHhhC
Confidence            357899999999999643210 111222334456 7789 999999999999999888654

>cd01889 SelB_euk SelB subfamily

Probab=98.21  E-value=2.8e-06  Score=55.48  Aligned_cols=59  Identities=22%  Similarity=0.100  Sum_probs=40.3

Q ss_pred             CCeEEEEEecCCCCCCCCC--CHHHHHHH-hhh-----cCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          11 AHDSRVWSNKCDLESEREV--DFNEAEEM-GEY-----VPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~--~~~~~~~~-~~~-----~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      ++|+++|+||+|+......  ..+..... ...     ..++++ +.+||+++.|+++++..+..+++
T Consensus       120 ~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v-i~iSa~~g~gi~~L~~~l~~~~~  186 (192)
T cd01889         120 CKKLIVVLNKIDLIPEEERERKIEKMKKKLQKTLEKTRFKNSPI-IPVSAKPGGGEAELGKDLNNLIV  186 (192)
T ss_pred             CCCEEEEEECcccCCHHHHHHHHHHHHHHHHHHHHhcCcCCCCE-EEEeccCCCCHHHHHHHHHhccc
Confidence            6799999999998632211  11112211 111     125789 99999999999999999987764

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

>PRK12289 GTPase RsgA; Reviewed

Probab=98.19  E-value=3.1e-06  Score=60.66  Aligned_cols=56  Identities=18%  Similarity=0.121  Sum_probs=41.6

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .++|++||+||+||.+...  ..........+ ++.+ +.+||+++.|+++++..+...+
T Consensus       119 ~~ip~ILVlNK~DLv~~~~--~~~~~~~~~~~-g~~v-~~iSA~tg~GI~eL~~~L~~ki  174 (352)
T PRK12289        119 TGLEIVLCLNKADLVSPTE--QQQWQDRLQQW-GYQP-LFISVETGIGLEALLEQLRNKI  174 (352)
T ss_pred             CCCCEEEEEEchhcCChHH--HHHHHHHHHhc-CCeE-EEEEcCCCCCHHHHhhhhccce
Confidence            5789999999999964321  12223334466 7789 9999999999999998887543

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=98.19  E-value=3.6e-06  Score=54.74  Aligned_cols=59  Identities=12%  Similarity=0.044  Sum_probs=41.9

Q ss_pred             CCCeEEEEEecCCCCCCCCCC--HHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVD--FNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      .++|+++++||+|+.+.....  ........... ...+ +++||+++.|++++|..|.+.+.
T Consensus       134 ~~~~~iiv~nK~Dl~~~~~~~~~~~~i~~~l~~~-~~~~-~~~Sa~~~~gi~~l~~~i~~~~~  194 (196)
T PRK00454        134 YGIPVLIVLTKADKLKKGERKKQLKKVRKALKFG-DDEV-ILFSSLKKQGIDELRAAIAKWLA  194 (196)
T ss_pred             cCCcEEEEEECcccCCHHHHHHHHHHHHHHHHhc-CCce-EEEEcCCCCCHHHHHHHHHHHhc
Confidence            468999999999986432211  11233333433 5688 99999999999999999887654

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=98.16  E-value=3.6e-06  Score=62.03  Aligned_cols=52  Identities=21%  Similarity=0.153  Sum_probs=41.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .+.|+++|+||+|+.+.....        ... ...+ +++||+++.|+++++..+.+.+..
T Consensus       320 ~~~piiiV~NK~DL~~~~~~~--------~~~-~~~~-i~iSAktg~GI~~L~~~L~~~l~~  371 (449)
T PRK05291        320 KDKPVIVVLNKADLTGEIDLE--------EEN-GKPV-IRISAKTGEGIDELREAIKELAFG  371 (449)
T ss_pred             CCCCcEEEEEhhhccccchhh--------hcc-CCce-EEEEeeCCCCHHHHHHHHHHHHhh
Confidence            478999999999996433211        233 5678 999999999999999999988754

>PRK03003 GTP-binding protein Der; Reviewed

Probab=98.15  E-value=4.3e-06  Score=61.94  Aligned_cols=56  Identities=16%  Similarity=0.032  Sum_probs=40.7

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .++|+++|+||+|+....   .+. ..+.... .... +++||++|.|++++|+.+++.+++
T Consensus       145 ~~~piilV~NK~Dl~~~~---~~~-~~~~~~g-~~~~-~~iSA~~g~gi~eL~~~i~~~l~~  200 (472)
T PRK03003        145 SGKPVILAANKVDDERGE---ADA-AALWSLG-LGEP-HPVSALHGRGVGDLLDAVLAALPE  200 (472)
T ss_pred             cCCCEEEEEECccCCccc---hhh-HHHHhcC-CCCe-EEEEcCCCCCcHHHHHHHHhhccc
Confidence            578999999999986421   121 2222221 2256 889999999999999999988865

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=98.14  E-value=7.4e-06  Score=59.46  Aligned_cols=60  Identities=23%  Similarity=0.147  Sum_probs=43.9

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHHhhhcC-CcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEMGEYVP-EIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      +.|+++|+||+|+.....+ .+....+.+..+ ...+ +.+||+++.|+++++..|.+.+.+.
T Consensus       275 ~kP~IlVlNKiDl~~~~el-~~~l~~l~~~~~~~~~V-i~ISA~tg~GIdeLl~~I~~~L~~~  335 (390)
T PRK12298        275 EKPRWLVFNKIDLLDEEEA-EERAKAIVEALGWEGPV-YLISAASGLGVKELCWDLMTFIEEN  335 (390)
T ss_pred             CCCEEEEEeCCccCChHHH-HHHHHHHHHHhCCCCCE-EEEECCCCcCHHHHHHHHHHHhhhC
Confidence            5899999999998643322 223334444431 2368 9999999999999999999888764

>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=98.14  E-value=1.2e-07  Score=60.70  Aligned_cols=55  Identities=18%  Similarity=0.251  Sum_probs=42.0

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHH
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCL   65 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l   65 (106)
                      .+.++|+++|.||+|+..+..+.. ....+.+.. +.++ +.+||+++.|+++++..+
T Consensus       102 ~e~g~P~vvvlN~~D~a~~~g~~i-d~~~Ls~~L-g~pv-i~~sa~~~~g~~~L~~~I  156 (156)
T PF02421_consen  102 LELGIPVVVVLNKMDEAERKGIEI-DAEKLSERL-GVPV-IPVSARTGEGIDELKDAI  156 (156)
T ss_dssp             HHTTSSEEEEEETHHHHHHTTEEE--HHHHHHHH-TS-E-EEEBTTTTBTHHHHHHHH
T ss_pred             HHcCCCEEEEEeCHHHHHHcCCEE-CHHHHHHHh-CCCE-EEEEeCCCcCHHHHHhhC
Confidence            446899999999999865444332 245566778 8899 999999999999998764

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 ....

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.13  E-value=6.9e-06  Score=52.10  Aligned_cols=60  Identities=12%  Similarity=0.066  Sum_probs=41.4

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      ...++|+|+|.||+|+.+...+ ......+.... +..+ +.+||+++.|+++++..+.+...
T Consensus        26 ~~~~~p~IiVlNK~Dl~~~~~~-~~~~~~~~~~~-~~~i-i~vSa~~~~gi~~L~~~i~~~~~   85 (155)
T cd01849          26 KEKGKKLILVLNKADLVPKEVL-RKWLAYLRHSY-PTIP-FKISATNGQGIEKKESAFTKQTN   85 (155)
T ss_pred             hcCCCCEEEEEechhcCCHHHH-HHHHHHHHhhC-CceE-EEEeccCCcChhhHHHHHHHHhH
Confidence            3467999999999998542211 11112233334 5667 89999999999999998876543

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.

>KOG3883|consensus

Probab=98.13  E-value=7.6e-06  Score=52.36  Aligned_cols=64  Identities=30%  Similarity=0.323  Sum_probs=56.3

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ...+|+++.+||+|+.+.+.+....+..|++.. .+.+ ++++|.+...+-+.|..++..+..-..
T Consensus       116 KKEvpiVVLaN~rdr~~p~~vd~d~A~~Wa~rE-kvkl-~eVta~dR~sL~epf~~l~~rl~~pqs  179 (198)
T KOG3883|consen  116 KKEVPIVVLANKRDRAEPREVDMDVAQIWAKRE-KVKL-WEVTAMDRPSLYEPFTYLASRLHQPQS  179 (198)
T ss_pred             cccccEEEEechhhcccchhcCHHHHHHHHhhh-heeE-EEEEeccchhhhhHHHHHHHhccCCcc
Confidence            357999999999999888889999999999998 8999 999999999999999999877655544

>PRK00098 GTPase RsgA; Reviewed

Probab=98.13  E-value=3.8e-06  Score=58.89  Aligned_cols=56  Identities=23%  Similarity=0.195  Sum_probs=41.0

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLAN   67 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~   67 (106)
                      ..++|+++|+||+||.+... .........+.. ++++ +.+||+++.|+++++..+..
T Consensus       109 ~~~ip~iIVlNK~DL~~~~~-~~~~~~~~~~~~-g~~v-~~vSA~~g~gi~~L~~~l~g  164 (298)
T PRK00098        109 ANGIKPIIVLNKIDLLDDLE-EARELLALYRAI-GYDV-LELSAKEGEGLDELKPLLAG  164 (298)
T ss_pred             HCCCCEEEEEEhHHcCCCHH-HHHHHHHHHHHC-CCeE-EEEeCCCCccHHHHHhhccC
Confidence            35789999999999963221 112233445556 7789 99999999999999987753

>TIGR01393 lepA GTP-binding protein LepA

Probab=98.10  E-value=7.5e-06  Score=62.32  Aligned_cols=58  Identities=21%  Similarity=0.201  Sum_probs=42.5

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCc---ceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEI---HYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~---~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .++|+++|+||+|+....  .......+.+.+ +.   .+ +.+||++|.|++++|+.|++.++.
T Consensus       121 ~~ipiIiViNKiDl~~~~--~~~~~~el~~~l-g~~~~~v-i~vSAktG~GI~~Lle~I~~~lp~  181 (595)
T TIGR01393       121 NDLEIIPVINKIDLPSAD--PERVKKEIEEVI-GLDASEA-ILASAKTGIGIEEILEAIVKRVPP  181 (595)
T ss_pred             cCCCEEEEEECcCCCccC--HHHHHHHHHHHh-CCCcceE-EEeeccCCCCHHHHHHHHHHhCCC
Confidence            578999999999986422  122233444444 33   48 999999999999999999887653

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.

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.09  E-value=1.5e-05  Score=57.29  Aligned_cols=55  Identities=18%  Similarity=0.260  Sum_probs=40.4

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHH----HhhhcCCc---ceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEE----MGEYVPEI---HYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~----~~~~~~~~---~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      +.|+++|+||+||.++ .+..+....    +.+.. ++   .+ +.+||+++.|++++|..+.+.
T Consensus        90 ~~piilV~NK~DLl~k-~~~~~~~~~~l~~~~k~~-g~~~~~i-~~vSAk~g~gv~eL~~~l~~~  151 (360)
T TIGR03597        90 GNPVLLVGNKIDLLPK-SVNLSKIKEWMKKRAKEL-GLKPVDI-ILVSAKKGNGIDELLDKIKKA  151 (360)
T ss_pred             CCCEEEEEEchhhCCC-CCCHHHHHHHHHHHHHHc-CCCcCcE-EEecCCCCCCHHHHHHHHHHH
Confidence            6799999999999653 233333333    34455 54   48 999999999999999988654

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.

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

Probab=98.07  E-value=8.7e-06  Score=53.80  Aligned_cols=53  Identities=21%  Similarity=0.197  Sum_probs=42.8

Q ss_pred             EEEEecCCCCCCCCCCHHHHHHHhhhc-CCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          15 RVWSNKCDLESEREVDFNEAEEMGEYV-PEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        15 ilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      ++|.||.||.+......+.+.+-+++. |..++ +++|+++|+|+++++.++...
T Consensus       146 llVInK~DLa~~v~~dlevm~~da~~~np~~~i-i~~n~ktg~G~~~~~~~i~~~  199 (202)
T COG0378         146 LLVINKTDLAPYVGADLEVMARDAKEVNPEAPI-IFTNLKTGEGLDEWLRFIEPQ  199 (202)
T ss_pred             EEEEehHHhHHHhCccHHHHHHHHHHhCCCCCE-EEEeCCCCcCHHHHHHHHHhh
Confidence            689999999876666667776666553 57899 999999999999998888654

>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=98.05  E-value=6.4e-06  Score=53.74  Aligned_cols=60  Identities=18%  Similarity=0.061  Sum_probs=39.4

Q ss_pred             CCCeEEEEEecCCCCCCCC--CCHHHHHHHhhhc--C---CcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESERE--VDFNEAEEMGEYV--P---EIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~--~~~~~~~~~~~~~--~---~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      .++|+++|.||+|+...+.  +..+....+.+..  +   ..++ +.+||++|.|+++|++.+.+.++
T Consensus       121 ~~~p~ivvlNK~D~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v-i~~Sa~~g~gi~~Ll~~l~~~~P  187 (188)
T PF00009_consen  121 LGIPIIVVLNKMDLIEKELEEIIEEIKEKLLKEYGENGEEIVPV-IPISALTGDGIDELLEALVELLP  187 (188)
T ss_dssp             TT-SEEEEEETCTSSHHHHHHHHHHHHHHHHHHTTSTTTSTEEE-EEEBTTTTBTHHHHHHHHHHHS-
T ss_pred             cccceEEeeeeccchhhhHHHHHHHHHHHhccccccCccccceE-EEEecCCCCCHHHHHHHHHHhCc
Confidence            5789999999999862110  0011111232222  1   2578 99999999999999999988765

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 ....

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.02  E-value=9e-06  Score=56.71  Aligned_cols=54  Identities=17%  Similarity=0.083  Sum_probs=40.2

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLAN   67 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~   67 (106)
                      .++|+++|+||+||.+...  ......+.... ++++ +.+||+++.|+++++..+..
T Consensus       108 ~~ip~iIVlNK~DL~~~~~--~~~~~~~~~~~-g~~v-~~vSA~~g~gi~~L~~~L~~  161 (287)
T cd01854         108 AGIEPVIVLTKADLLDDEE--EELELVEALAL-GYPV-LAVSAKTGEGLDELREYLKG  161 (287)
T ss_pred             cCCCEEEEEEHHHCCChHH--HHHHHHHHHhC-CCeE-EEEECCCCccHHHHHhhhcc
Confidence            5789999999999964311  11223334446 7889 99999999999999887764

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.

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

Probab=98.00  E-value=2.6e-05  Score=49.33  Aligned_cols=53  Identities=21%  Similarity=0.179  Sum_probs=41.3

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCc-ceEEEcccCCCCCHHHHHHHHH
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEI-HYVMETSAKDSTNVEEAFYCLA   66 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~lf~~l~   66 (106)
                      +.|+|-|.||+|+... ....+.+..+.+.. |. .. |++|+.+++||++|.+.|-
T Consensus        89 ~~pvIGVITK~Dl~~~-~~~i~~a~~~L~~a-G~~~i-f~vS~~~~eGi~eL~~~L~  142 (143)
T PF10662_consen   89 NKPVIGVITKIDLPSD-DANIERAKKWLKNA-GVKEI-FEVSAVTGEGIEELKDYLE  142 (143)
T ss_pred             CCCEEEEEECccCccc-hhhHHHHHHHHHHc-CCCCe-EEEECCCCcCHHHHHHHHh
Confidence            5799999999999732 22345666777776 54 57 9999999999999988763

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

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=98.00  E-value=1.8e-05  Score=56.74  Aligned_cols=51  Identities=20%  Similarity=0.086  Sum_probs=37.3

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      .+.|+++|+||+|+.+...     ..... .. ...+ +.+||+++.|+++++..|.+.
T Consensus       300 ~~~piIlV~NK~Dl~~~~~-----v~~~~-~~-~~~~-i~iSAktg~GI~eL~~~I~~~  350 (351)
T TIGR03156       300 EDIPQLLVYNKIDLLDEPR-----IERLE-EG-YPEA-VFVSAKTGEGLDLLLEAIAER  350 (351)
T ss_pred             CCCCEEEEEEeecCCChHh-----HHHHH-hC-CCCE-EEEEccCCCCHHHHHHHHHhh
Confidence            4789999999999864221     11111 12 3468 999999999999999988754

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).

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=97.99  E-value=2.2e-05  Score=57.93  Aligned_cols=56  Identities=20%  Similarity=0.092  Sum_probs=43.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++|+||+|+...   .   ...+.+.+ +.++ +++||++ .||+++|..+.+.+.+...
T Consensus       309 ~~~piIlV~NK~Dl~~~---~---~~~~~~~~-~~~~-~~vSak~-~gI~~~~~~L~~~i~~~~~  364 (442)
T TIGR00450       309 SKKPFILVLNKIDLKIN---S---LEFFVSSK-VLNS-SNLSAKQ-LKIKALVDLLTQKINAFYS  364 (442)
T ss_pred             CCCCEEEEEECccCCCc---c---hhhhhhhc-CCce-EEEEEec-CCHHHHHHHHHHHHHHHhc
Confidence            47899999999998642   1   12344555 6788 9999998 6999999999998876543

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.

>PRK11058 GTPase HflX; Provisional

Probab=97.97  E-value=1.9e-05  Score=57.99  Aligned_cols=57  Identities=16%  Similarity=0.121  Sum_probs=40.2

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcc-eEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIH-YVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      ..++|+++|+||+|+.+...   ... .. ... +.+ + +.+||++|.|+++++..+.+.+...
T Consensus       307 ~~~~pvIiV~NKiDL~~~~~---~~~-~~-~~~-~~~~~-v~ISAktG~GIdeL~e~I~~~l~~~  364 (426)
T PRK11058        307 AHEIPTLLVMNKIDMLDDFE---PRI-DR-DEE-NKPIR-VWLSAQTGAGIPLLFQALTERLSGE  364 (426)
T ss_pred             cCCCCEEEEEEcccCCCchh---HHH-HH-Hhc-CCCce-EEEeCCCCCCHHHHHHHHHHHhhhc
Confidence            35799999999999864211   111 11 112 333 6 8899999999999999999888543

>COG1159 Era GTPase [General function prediction only]

Probab=97.96  E-value=5.7e-06  Score=57.70  Aligned_cols=63  Identities=16%  Similarity=0.102  Sum_probs=45.9

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      .+.|++++.||+|..............+....++..+ +.+||+.|.|++.|...+...+++..
T Consensus       113 ~~~pvil~iNKID~~~~~~~l~~~~~~~~~~~~f~~i-vpiSA~~g~n~~~L~~~i~~~Lpeg~  175 (298)
T COG1159         113 TKTPVILVVNKIDKVKPKTVLLKLIAFLKKLLPFKEI-VPISALKGDNVDTLLEIIKEYLPEGP  175 (298)
T ss_pred             cCCCeEEEEEccccCCcHHHHHHHHHHHHhhCCcceE-EEeeccccCCHHHHHHHHHHhCCCCC
Confidence            3579999999999865443212333334444445678 99999999999999998888776553

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=97.96  E-value=2.1e-05  Score=60.94  Aligned_cols=60  Identities=18%  Similarity=0.054  Sum_probs=42.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHH-HHhh---hcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAE-EMGE---YVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~-~~~~---~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .++|+++|+||+||.+...  .+... .+..   ..+..++ +.+||++|.||+++|..+.+.+...
T Consensus       560 ~~~piIiV~NK~DL~~~~~--~~~~~~~~~~~l~~~~~~~i-i~iSAktg~gv~~L~~~i~~~~~~~  623 (712)
T PRK09518        560 AGRALVLVFNKWDLMDEFR--RQRLERLWKTEFDRVTWARR-VNLSAKTGWHTNRLAPAMQEALESW  623 (712)
T ss_pred             cCCCEEEEEEchhcCChhH--HHHHHHHHHHhccCCCCCCE-EEEECCCCCCHHHHHHHHHHHHHHh
Confidence            5789999999999964321  11111 1111   1224577 8999999999999999998877654

>PRK05433 GTP-binding protein LepA; Provisional

Probab=97.95  E-value=2.7e-05  Score=59.43  Aligned_cols=59  Identities=19%  Similarity=0.192  Sum_probs=42.7

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCc---ceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEI---HYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~---~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .++|+++|+||+|+....  .......+.... +.   .+ +.+||++|.|++++++.|.+.++.-
T Consensus       125 ~~lpiIvViNKiDl~~a~--~~~v~~ei~~~l-g~~~~~v-i~iSAktG~GI~~Ll~~I~~~lp~P  186 (600)
T PRK05433        125 NDLEIIPVLNKIDLPAAD--PERVKQEIEDVI-GIDASDA-VLVSAKTGIGIEEVLEAIVERIPPP  186 (600)
T ss_pred             CCCCEEEEEECCCCCccc--HHHHHHHHHHHh-CCCcceE-EEEecCCCCCHHHHHHHHHHhCccc
Confidence            578999999999986422  122223343434 33   48 9999999999999999998877643

>cd01858 NGP_1 NGP-1

Probab=97.93  E-value=2.2e-05  Score=49.85  Aligned_cols=56  Identities=13%  Similarity=-0.006  Sum_probs=37.6

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      +.|+|+|.||+|+.++.. .......+.+.+ .... +.+||+.+.|+++++..+....
T Consensus        39 ~~p~ilVlNKiDl~~~~~-~~~~~~~~~~~~-~~~~-~~iSa~~~~~~~~L~~~l~~~~   94 (157)
T cd01858          39 HKHLIFVLNKCDLVPTWV-TARWVKILSKEY-PTIA-FHASINNPFGKGSLIQLLRQFS   94 (157)
T ss_pred             CCCEEEEEEchhcCCHHH-HHHHHHHHhcCC-cEEE-EEeeccccccHHHHHHHHHHHH
Confidence            489999999999864321 111222333333 3335 7899999999999988886543

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=97.91  E-value=2.8e-05  Score=56.77  Aligned_cols=60  Identities=17%  Similarity=0.159  Sum_probs=40.6

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHh---hhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMG---EYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~---~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .+.|+++|+||+|+.+... ..+......   ...+..++ +++||+++.|++++|..+.+...+
T Consensus       283 ~~~~~ivv~NK~Dl~~~~~-~~~~~~~~~~~l~~~~~~~i-~~~SA~~~~gv~~l~~~i~~~~~~  345 (435)
T PRK00093        283 AGRALVIVVNKWDLVDEKT-MEEFKKELRRRLPFLDYAPI-VFISALTGQGVDKLLEAIDEAYEN  345 (435)
T ss_pred             cCCcEEEEEECccCCCHHH-HHHHHHHHHHhcccccCCCE-EEEeCCCCCCHHHHHHHHHHHHHH
Confidence            4689999999999863221 111111111   12225689 999999999999999988765543

>PRK13796 GTPase YqeH; Provisional

Probab=97.88  E-value=5.5e-05  Score=54.50  Aligned_cols=55  Identities=16%  Similarity=0.207  Sum_probs=39.8

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHH----HhhhcCCc---ceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEE----MGEYVPEI---HYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~----~~~~~~~~---~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      +.|+++|+||+||.+. ....+....    +.+.. ++   .+ +.+||+++.|+++++..+.+.
T Consensus        96 ~kpviLViNK~DLl~~-~~~~~~i~~~l~~~~k~~-g~~~~~v-~~vSAk~g~gI~eL~~~I~~~  157 (365)
T PRK13796         96 NNPVLLVGNKADLLPK-SVKKNKVKNWLRQEAKEL-GLRPVDV-VLISAQKGHGIDELLEAIEKY  157 (365)
T ss_pred             CCCEEEEEEchhhCCC-ccCHHHHHHHHHHHHHhc-CCCcCcE-EEEECCCCCCHHHHHHHHHHh
Confidence            6799999999999643 222333333    34444 44   57 999999999999999998654

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=97.87  E-value=2e-05  Score=49.23  Aligned_cols=58  Identities=12%  Similarity=0.012  Sum_probs=39.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCC--HHHHHHHhh-hcCCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVD--FNEAEEMGE-YVPEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~--~~~~~~~~~-~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      .+.|+++|+||+|+.......  ........+ .....++ +++||+++.++.++++.|.+.
T Consensus       109 ~~~~vi~v~nK~D~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~Sa~~~~~~~~l~~~l~~~  169 (170)
T cd01876         109 LGIPFLVVLTKADKLKKSELAKALKEIKKELKLFEIDPPI-ILFSSLKGQGIDELRALIEKW  169 (170)
T ss_pred             cCCCEEEEEEchhcCChHHHHHHHHHHHHHHHhccCCCce-EEEecCCCCCHHHHHHHHHHh
Confidence            357999999999985332111  111222222 1224678 999999999999999998764

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.

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

Probab=97.86  E-value=2.6e-05  Score=51.00  Aligned_cols=50  Identities=20%  Similarity=0.086  Sum_probs=32.9

Q ss_pred             CCCeEEEEEecCCCCCCCC-CCHHHHHHHh-------hhcCCcceEEEcccCCCCCHHHH
Q psy5780          10 SAHDSRVWSNKCDLESERE-VDFNEAEEMG-------EYVPEIHYVMETSAKDSTNVEEA   61 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~-~~~~~~~~~~-------~~~~~~~~~~~~Sa~~~~~v~~l   61 (106)
                      .++|+++|+||+|+..... ...+....+.       ... ++++ +.+||++|.|+.++
T Consensus       116 ~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~i-v~~Sa~~g~~~~~~  173 (194)
T cd01891         116 LGLKPIVVINKIDRPDARPEEVVDEVFDLFIELGATEEQL-DFPV-LYASAKNGWASLNL  173 (194)
T ss_pred             cCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHhCCccccC-ccCE-EEeehhcccccccc
Confidence            5789999999999964321 1122233333       123 5689 99999999887444

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

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=97.86  E-value=4.6e-05  Score=58.02  Aligned_cols=54  Identities=13%  Similarity=0.036  Sum_probs=38.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhh-------hcC-CcceEEEcccCCCCCHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGE-------YVP-EIHYVMETSAKDSTNVEEAFYCLAN   67 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~-------~~~-~~~~~~~~Sa~~~~~v~~lf~~l~~   67 (106)
                      .++|+++++||+|+...   ..+.......       .++ ...+ +++||++|.|++++|..+..
T Consensus       186 ~~vPiIVviNKiDl~~~---~~e~v~~~L~~~g~~~~~~~~~~~~-v~iSAktGeGI~eLl~~I~~  247 (587)
T TIGR00487       186 ANVPIIVAINKIDKPEA---NPDRVKQELSEYGLVPEDWGGDTIF-VPVSALTGDGIDELLDMILL  247 (587)
T ss_pred             cCCCEEEEEECcccccC---CHHHHHHHHHHhhhhHHhcCCCceE-EEEECCCCCChHHHHHhhhh
Confidence            57999999999998642   1222222222       221 2468 99999999999999999864

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.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=97.85  E-value=3.7e-05  Score=59.68  Aligned_cols=59  Identities=17%  Similarity=0.030  Sum_probs=42.3

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      ...++|+|+|+||+|+....    .....+.... .... +++||++|.||+++|.++++.+...
T Consensus       380 r~~~~pvIlV~NK~D~~~~~----~~~~~~~~lg-~~~~-~~iSA~~g~GI~eLl~~i~~~l~~~  438 (712)
T PRK09518        380 RRAGKPVVLAVNKIDDQASE----YDAAEFWKLG-LGEP-YPISAMHGRGVGDLLDEALDSLKVA  438 (712)
T ss_pred             HhcCCCEEEEEECcccccch----hhHHHHHHcC-CCCe-EEEECCCCCCchHHHHHHHHhcccc
Confidence            34689999999999986421    1222222222 2356 8999999999999999999888653

>cd01856 YlqF YlqF

Probab=97.85  E-value=4.7e-05  Score=49.04  Aligned_cols=57  Identities=18%  Similarity=0.109  Sum_probs=40.3

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      +.|+++|.||+|+.+...  ......+.+.. +..+ +.+||+++.|++++...+.+.++.
T Consensus        46 ~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~-~~~v-i~iSa~~~~gi~~L~~~l~~~l~~  102 (171)
T cd01856          46 NKPRIIVLNKADLADPKK--TKKWLKYFESK-GEKV-LFVNAKSGKGVKKLLKAAKKLLKD  102 (171)
T ss_pred             CCCEEEEEehhhcCChHH--HHHHHHHHHhc-CCeE-EEEECCCcccHHHHHHHHHHHHHH
Confidence            579999999999863211  11122233333 4567 999999999999999999887653

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.

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=97.84  E-value=3.1e-05  Score=58.86  Aligned_cols=62  Identities=21%  Similarity=0.090  Sum_probs=43.4

Q ss_pred             CCCe-EEEEEecCCCCCCCCC--CHHHHHHHhhhc---CCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHD-SRVWSNKCDLESEREV--DFNEAEEMGEYV---PEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip-~ilv~nK~Dl~~~~~~--~~~~~~~~~~~~---~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .++| +++|+||+|+.+...+  ..++...+...+   .+.++ +++||++|.|+++++..+...+...
T Consensus       101 lgi~~iIVVlNK~Dlv~~~~~~~~~~ei~~~l~~~~~~~~~~i-i~vSA~tG~GI~eL~~~L~~l~~~~  168 (581)
T TIGR00475       101 LGIPHTIVVITKADRVNEEEIKRTEMFMKQILNSYIFLKNAKI-FKTSAKTGQGIGELKKELKNLLESL  168 (581)
T ss_pred             cCCCeEEEEEECCCCCCHHHHHHHHHHHHHHHHHhCCCCCCcE-EEEeCCCCCCchhHHHHHHHHHHhC
Confidence            4678 9999999999753321  112333444333   14679 9999999999999999887766544

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.

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=97.84  E-value=4.2e-05  Score=53.54  Aligned_cols=56  Identities=23%  Similarity=0.239  Sum_probs=39.2

Q ss_pred             CeEEEEEecCCCCCCCCCCHHHHHHHh-hhcCCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          12 HDSRVWSNKCDLESEREVDFNEAEEMG-EYVPEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        12 ip~ilv~nK~Dl~~~~~~~~~~~~~~~-~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      ..-++|.||+||.+......+...... +..+...+ |.+||++++|+++|..+|.++
T Consensus       231 ~ADIVVLNKiDLl~~~~~dle~~~~~lr~lnp~a~I-~~vSA~tGeGld~L~~~L~~~  287 (290)
T PRK10463        231 AASLMLLNKVDLLPYLNFDVEKCIACAREVNPEIEI-ILISATSGEGMDQWLNWLETQ  287 (290)
T ss_pred             cCcEEEEEhHHcCcccHHHHHHHHHHHHhhCCCCcE-EEEECCCCCCHHHHHHHHHHh
Confidence            455899999999753222223333333 33457789 999999999999999998763

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=97.82  E-value=1.5e-05  Score=62.23  Aligned_cols=59  Identities=7%  Similarity=0.074  Sum_probs=47.2

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .+.++|+++|+||+|+.+.+.+. .....+.+.. +.++ +.+||++++|++++++.+.+..
T Consensus       109 ~e~giPvIvVlNK~Dl~~~~~i~-id~~~L~~~L-G~pV-vpiSA~~g~GIdeL~~~I~~~~  167 (772)
T PRK09554        109 LELGIPCIVALNMLDIAEKQNIR-IDIDALSARL-GCPV-IPLVSTRGRGIEALKLAIDRHQ  167 (772)
T ss_pred             HHcCCCEEEEEEchhhhhccCcH-HHHHHHHHHh-CCCE-EEEEeecCCCHHHHHHHHHHhh
Confidence            34579999999999987554443 3456677778 8899 9999999999999998887654

>PRK00093 GTP-binding protein Der; Reviewed

Probab=97.81  E-value=5.9e-05  Score=55.11  Aligned_cols=52  Identities=19%  Similarity=0.138  Sum_probs=38.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCc-ceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEI-HYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      .+.|+++|+||+|+.+.    ......+. .. +. .+ +++||++|.|++++|+.+...
T Consensus       108 ~~~piilv~NK~D~~~~----~~~~~~~~-~l-g~~~~-~~iSa~~g~gv~~l~~~I~~~  160 (435)
T PRK00093        108 SNKPVILVVNKVDGPDE----EADAYEFY-SL-GLGEP-YPISAEHGRGIGDLLDAILEE  160 (435)
T ss_pred             cCCcEEEEEECccCccc----hhhHHHHH-hc-CCCCC-EEEEeeCCCCHHHHHHHHHhh
Confidence            47899999999997531    12222332 34 33 58 999999999999999999873

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

Probab=97.76  E-value=4.4e-05  Score=55.77  Aligned_cols=57  Identities=18%  Similarity=0.229  Sum_probs=39.3

Q ss_pred             eEEEEEecCCCCCCCCCC--HHHHHHHhhhc--CCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          13 DSRVWSNKCDLESEREVD--FNEAEEMGEYV--PEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        13 p~ilv~nK~Dl~~~~~~~--~~~~~~~~~~~--~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      |+++|+||+|+.+.....  .+....+.+..  ...++ +++||+++.|++++++.|...++
T Consensus       141 ~iiVVlNK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~i-i~vSA~~g~gI~~L~~~L~~~l~  201 (411)
T PRK04000        141 NIVIVQNKIDLVSKERALENYEQIKEFVKGTVAENAPI-IPVSALHKVNIDALIEAIEEEIP  201 (411)
T ss_pred             cEEEEEEeeccccchhHHHHHHHHHHHhccccCCCCeE-EEEECCCCcCHHHHHHHHHHhCC
Confidence            689999999986532211  12233333221  14678 99999999999999999987664

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=97.76  E-value=8.4e-05  Score=54.16  Aligned_cols=57  Identities=19%  Similarity=0.130  Sum_probs=42.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .+.|+++|+||+|+.+....    ...+ ...+...+ +++||++|.|++++++.+.+.+...
T Consensus       106 ~~~piilVvNK~D~~~~~~~----~~~~-~~lg~~~~-~~vSa~~g~gv~~ll~~i~~~l~~~  162 (429)
T TIGR03594       106 SGKPVILVANKIDGKKEDAV----AAEF-YSLGFGEP-IPISAEHGRGIGDLLDAILELLPEE  162 (429)
T ss_pred             hCCCEEEEEECccCCccccc----HHHH-HhcCCCCe-EEEeCCcCCChHHHHHHHHHhcCcc
Confidence            57899999999998653321    1222 23413378 9999999999999999998877553

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.

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

Probab=97.76  E-value=6.5e-05  Score=55.73  Aligned_cols=60  Identities=17%  Similarity=0.199  Sum_probs=44.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCc---ceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEI---HYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~---~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      .+..+|.|.||+||+...  ......+...-. |+   .. +.+|||+|.||+++++.+++.++-=.
T Consensus       127 ~~LeIiPViNKIDLP~Ad--pervk~eIe~~i-Gid~~da-v~~SAKtG~gI~~iLe~Iv~~iP~P~  189 (603)
T COG0481         127 NNLEIIPVLNKIDLPAAD--PERVKQEIEDII-GIDASDA-VLVSAKTGIGIEDVLEAIVEKIPPPK  189 (603)
T ss_pred             cCcEEEEeeecccCCCCC--HHHHHHHHHHHh-CCCcchh-eeEecccCCCHHHHHHHHHhhCCCCC
Confidence            567899999999998533  222333444444 43   46 88999999999999999998886443

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

Probab=97.68  E-value=0.00017  Score=44.76  Aligned_cols=53  Identities=25%  Similarity=0.178  Sum_probs=40.8

Q ss_pred             CeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHH
Q psy5780          12 HDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLAN   67 (106)
Q Consensus        12 ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~   67 (106)
                      .|+|-|.+|+||+++..+  +....|..+.+.-++ |++|+.+..||++++..|..
T Consensus        91 k~vIgvVTK~DLaed~dI--~~~~~~L~eaGa~~I-F~~s~~d~~gv~~l~~~L~~  143 (148)
T COG4917          91 KKVIGVVTKADLAEDADI--SLVKRWLREAGAEPI-FETSAVDNQGVEELVDYLAS  143 (148)
T ss_pred             cceEEEEecccccchHhH--HHHHHHHHHcCCcce-EEEeccCcccHHHHHHHHHh
Confidence            459999999999865443  345666666634467 99999999999999988864

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=97.68  E-value=0.00016  Score=50.12  Aligned_cols=59  Identities=19%  Similarity=0.128  Sum_probs=41.3

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      +.|+|+|.||+||.+...  ......+.+.. +..+ +.+||+++.|++++...+.+.+.+..
T Consensus        48 ~kp~IiVlNK~DL~~~~~--~~~~~~~~~~~-~~~v-i~iSa~~~~gi~~L~~~i~~~~~~~~  106 (276)
T TIGR03596        48 NKPRLIVLNKADLADPAV--TKQWLKYFEEK-GIKA-LAINAKKGKGVKKIIKAAKKLLKEKN  106 (276)
T ss_pred             CCCEEEEEEccccCCHHH--HHHHHHHHHHc-CCeE-EEEECCCcccHHHHHHHHHHHHHHhh
Confidence            579999999999853211  11112222334 5678 99999999999999988887776543

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.

>KOG0462|consensus

Probab=97.67  E-value=8.8e-05  Score=55.75  Aligned_cols=60  Identities=23%  Similarity=0.169  Sum_probs=42.7

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhc--CCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYV--PEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~--~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .+..+|.|.||+|++..+.  ........+.+  +..+. +-+|||+|.|++++++++++.++-=
T Consensus       176 ~~L~iIpVlNKIDlp~adp--e~V~~q~~~lF~~~~~~~-i~vSAK~G~~v~~lL~AII~rVPpP  237 (650)
T KOG0462|consen  176 AGLAIIPVLNKIDLPSADP--ERVENQLFELFDIPPAEV-IYVSAKTGLNVEELLEAIIRRVPPP  237 (650)
T ss_pred             cCCeEEEeeeccCCCCCCH--HHHHHHHHHHhcCCccce-EEEEeccCccHHHHHHHHHhhCCCC
Confidence            5678999999999986442  11122222222  24578 9999999999999999998887543

>COG2262 HflX GTPases [General function prediction only]

Probab=97.65  E-value=9.5e-05  Score=53.67  Aligned_cols=60  Identities=17%  Similarity=-0.044  Sum_probs=42.3

Q ss_pred             cCCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780           7 WPDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus         7 ~~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      +...++|+|+|.||+|+..+..     ........ .-.. +.+||+++.|++.++..|.+.+....
T Consensus       300 l~~~~~p~i~v~NKiD~~~~~~-----~~~~~~~~-~~~~-v~iSA~~~~gl~~L~~~i~~~l~~~~  359 (411)
T COG2262         300 IGADEIPIILVLNKIDLLEDEE-----ILAELERG-SPNP-VFISAKTGEGLDLLRERIIELLSGLR  359 (411)
T ss_pred             cCCCCCCEEEEEecccccCchh-----hhhhhhhc-CCCe-EEEEeccCcCHHHHHHHHHHHhhhcc
Confidence            3446699999999999754332     11122222 1146 88999999999999999998887553

>COG1162 Predicted GTPases [General function prediction only]

Probab=97.65  E-value=2.9e-05  Score=54.44  Aligned_cols=60  Identities=23%  Similarity=0.189  Sum_probs=45.5

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      ..++..++|.||+||.++......+.......+ ++.+ +.+|++++.+++++...+...+.
T Consensus       108 ~~gi~pvIvlnK~DL~~~~~~~~~~~~~~y~~~-gy~v-~~~s~~~~~~~~~l~~~l~~~~s  167 (301)
T COG1162         108 AGGIEPVIVLNKIDLLDDEEAAVKELLREYEDI-GYPV-LFVSAKNGDGLEELAELLAGKIT  167 (301)
T ss_pred             HcCCcEEEEEEccccCcchHHHHHHHHHHHHhC-CeeE-EEecCcCcccHHHHHHHhcCCeE
Confidence            356788888999999865432223455567778 8999 99999999999998887765543

>KOG1707|consensus

Probab=97.65  E-value=2.4e-05  Score=58.87  Aligned_cols=62  Identities=21%  Similarity=0.148  Sum_probs=44.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHH-HHHHhhhcCCc-ceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNE-AEEMGEYVPEI-HYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~-~~~~~~~~~~~-~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .++|+||||||+|+.+...-+.+. ....+..+..+ .. +++||++..++.++|+...+.+.--
T Consensus       114 ~~~PVILvGNK~d~~~~~~~s~e~~~~pim~~f~EiEtc-iecSA~~~~n~~e~fYyaqKaVihP  177 (625)
T KOG1707|consen  114 HETPVILVGNKSDNGDNENNSDEVNTLPIMIAFAEIETC-IECSALTLANVSELFYYAQKAVIHP  177 (625)
T ss_pred             ccCCEEEEeeccCCccccccchhHHHHHHHHHhHHHHHH-HhhhhhhhhhhHhhhhhhhheeecc
Confidence            579999999999987544332232 44444444222 46 9999999999999999877666544

>CHL00189 infB translation initiation factor 2; Provisional

Probab=97.65  E-value=0.00017  Score=56.27  Aligned_cols=56  Identities=16%  Similarity=0.092  Sum_probs=39.5

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHH-HH------hhhcC-CcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAE-EM------GEYVP-EIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~-~~------~~~~~-~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .++|+|+|+||+|+....   ..... .+      ...++ ..++ +++||++|.|++++|..+....
T Consensus       346 ~~iPiIVViNKiDl~~~~---~e~v~~eL~~~~ll~e~~g~~vpv-v~VSAktG~GIdeLle~I~~l~  409 (742)
T CHL00189        346 ANVPIIVAINKIDKANAN---TERIKQQLAKYNLIPEKWGGDTPM-IPISASQGTNIDKLLETILLLA  409 (742)
T ss_pred             cCceEEEEEECCCccccC---HHHHHHHHHHhccchHhhCCCceE-EEEECCCCCCHHHHHHhhhhhh
Confidence            579999999999986422   11111 11      12231 2578 9999999999999999987653

>PRK01889 GTPase RsgA; Reviewed

Probab=97.64  E-value=3.1e-05  Score=55.60  Aligned_cols=54  Identities=19%  Similarity=0.234  Sum_probs=37.9

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLA   66 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~   66 (106)
                      ..+++.++|.||+||.++.   .+....+.....++++ +.+|++++.|+++|...+.
T Consensus       140 ~~~i~piIVLNK~DL~~~~---~~~~~~~~~~~~g~~V-i~vSa~~g~gl~~L~~~L~  193 (356)
T PRK01889        140 ESGAEPVIVLTKADLCEDA---EEKIAEVEALAPGVPV-LAVSALDGEGLDVLAAWLS  193 (356)
T ss_pred             HcCCCEEEEEEChhcCCCH---HHHHHHHHHhCCCCcE-EEEECCCCccHHHHHHHhh
Confidence            3678889999999997531   1122222222226788 9999999999999887764

>KOG0096|consensus

Probab=97.64  E-value=1.9e-05  Score=51.98  Aligned_cols=60  Identities=25%  Similarity=0.354  Sum_probs=45.3

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      .++|++++|||.|..... +. .....+-... .+.+ +++||+++.|.+.-|.++++.+....
T Consensus       113 ~NiPiv~cGNKvDi~~r~-~k-~k~v~~~rkk-nl~y-~~iSaksn~NfekPFl~LarKl~G~p  172 (216)
T KOG0096|consen  113 ENIPIVLCGNKVDIKARK-VK-AKPVSFHRKK-NLQY-YEISAKSNYNFERPFLWLARKLTGDP  172 (216)
T ss_pred             cCCCeeeeccceeccccc-cc-cccceeeecc-ccee-EEeecccccccccchHHHhhhhcCCC
Confidence            579999999999986533 11 1122333444 6789 99999999999999999999886554

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=97.61  E-value=0.00011  Score=56.31  Aligned_cols=59  Identities=14%  Similarity=0.070  Sum_probs=39.5

Q ss_pred             CCCe-EEEEEecCCCCCCCCCC--HHHHHHHhhhc--CCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHD-SRVWSNKCDLESEREVD--FNEAEEMGEYV--PEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip-~ilv~nK~Dl~~~~~~~--~~~~~~~~~~~--~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .++| +|+|+||+|+.+...+.  .++...+....  ...++ +.+||++|.|+++++..|....
T Consensus       102 lgi~~iIVVlNKiDlv~~~~~~~v~~ei~~~l~~~~~~~~~i-i~VSA~tG~gI~~L~~~L~~~~  165 (614)
T PRK10512        102 TGNPMLTVALTKADRVDEARIAEVRRQVKAVLREYGFAEAKL-FVTAATEGRGIDALREHLLQLP  165 (614)
T ss_pred             cCCCeEEEEEECCccCCHHHHHHHHHHHHHHHHhcCCCCCcE-EEEeCCCCCCCHHHHHHHHHhh
Confidence            3566 47999999986432211  12233343333  12678 9999999999999999887643

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=97.61  E-value=0.00017  Score=56.66  Aligned_cols=55  Identities=18%  Similarity=0.152  Sum_probs=38.7

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHH-H------Hhhhc-CCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAE-E------MGEYV-PEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~-~------~~~~~-~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      .++|+|+++||+|+....   ..... .      +.+.+ +.+++ +++||++|.||+++|+.|...
T Consensus       388 ~~vPiIVviNKiDl~~a~---~e~V~~eL~~~~~~~e~~g~~vp~-vpvSAktG~GI~eLle~I~~~  450 (787)
T PRK05306        388 AGVPIIVAINKIDKPGAN---PDRVKQELSEYGLVPEEWGGDTIF-VPVSAKTGEGIDELLEAILLQ  450 (787)
T ss_pred             cCCcEEEEEECccccccC---HHHHHHHHHHhcccHHHhCCCceE-EEEeCCCCCCchHHHHhhhhh
Confidence            579999999999996421   11111 1      12223 12679 999999999999999998753

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=97.57  E-value=0.00011  Score=53.64  Aligned_cols=57  Identities=18%  Similarity=0.250  Sum_probs=38.6

Q ss_pred             eEEEEEecCCCCCCCCC--CHHHHHHHhhhc--CCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          13 DSRVWSNKCDLESEREV--DFNEAEEMGEYV--PEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        13 p~ilv~nK~Dl~~~~~~--~~~~~~~~~~~~--~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      |+++|+||+|+.+....  ..++...+....  ...++ +++||+++.|++++++.|...++
T Consensus       136 ~iIVvvNK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~i-i~vSA~~g~gi~~L~e~L~~~l~  196 (406)
T TIGR03680       136 NIVIVQNKIDLVSKEKALENYEEIKEFVKGTVAENAPI-IPVSALHNANIDALLEAIEKFIP  196 (406)
T ss_pred             eEEEEEEccccCCHHHHHHHHHHHHhhhhhcccCCCeE-EEEECCCCCChHHHHHHHHHhCC
Confidence            58999999998643211  112222232221  14578 99999999999999999987664

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

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

Probab=97.57  E-value=5.6e-05  Score=48.83  Aligned_cols=49  Identities=10%  Similarity=0.025  Sum_probs=32.1

Q ss_pred             CCCeEEEEEecCCCCCCCCC--CHHHHHHHhhhc-CCcceEEEcccCCCCCHH
Q psy5780          10 SAHDSRVWSNKCDLESEREV--DFNEAEEMGEYV-PEIHYVMETSAKDSTNVE   59 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~--~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~v~   59 (106)
                      .++|+++|+||+|+.+....  ..+......... ....+ |++||++|+|++
T Consensus       128 ~~~pviiv~nK~D~~~~~~~~~~~~~i~~~l~~~~~~~~v-~~~Sa~~g~gi~  179 (179)
T TIGR03598       128 RGIPVLIVLTKADKLKKSELNKQLKKIKKALKKDADDPSV-QLFSSLKKTGID  179 (179)
T ss_pred             cCCCEEEEEECcccCCHHHHHHHHHHHHHHHhhccCCCce-EEEECCCCCCCC
Confidence            47899999999998642211  122233344443 12478 999999999973

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.

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=97.56  E-value=0.00045  Score=45.62  Aligned_cols=64  Identities=28%  Similarity=0.197  Sum_probs=43.9

Q ss_pred             CCCeEEEEEecCCCCCCC------------CCCHHHHHHHhhhc--CCcceEEEcccC--CCCCHHHHHHHHHHHHHHhh
Q psy5780          10 SAHDSRVWSNKCDLESER------------EVDFNEAEEMGEYV--PEIHYVMETSAK--DSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~------------~~~~~~~~~~~~~~--~~~~~~~~~Sa~--~~~~v~~lf~~l~~~i~~~~   73 (106)
                      .++|+++|+||+||....            ..............  ....+ +++|++  ++.+|+++|..+.+.+....
T Consensus       110 ~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~s~~~~~~~~v~~~~~~~~~~~~~~~  188 (219)
T COG1100         110 DDVPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPAL-LETSAKSLTGPNVNELFKELLRKLLEEI  188 (219)
T ss_pred             CCceEEEEecccccccchhHHHHHHhhhhcCcchhhhHhHHhhhhhcccce-eEeecccCCCcCHHHHHHHHHHHHHHhh
Confidence            469999999999997653            22222222211111  02348 999999  99999999999999887654


Q ss_pred             c
Q psy5780          74 S   74 (106)
Q Consensus        74 ~   74 (106)
                      .
T Consensus       189 ~  189 (219)
T COG1100         189 E  189 (219)
T ss_pred             h
Confidence            3

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=97.52  E-value=0.00035  Score=48.73  Aligned_cols=58  Identities=21%  Similarity=0.144  Sum_probs=41.4

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      +.|+++|.||+||.+...  ......+.+.. +..+ +.+||+++.|++++...+...+.+.
T Consensus        51 ~kp~iiVlNK~DL~~~~~--~~~~~~~~~~~-~~~v-i~vSa~~~~gi~~L~~~l~~~l~~~  108 (287)
T PRK09563         51 NKPRLLILNKSDLADPEV--TKKWIEYFEEQ-GIKA-LAINAKKGQGVKKILKAAKKLLKEK  108 (287)
T ss_pred             CCCEEEEEEchhcCCHHH--HHHHHHHHHHc-CCeE-EEEECCCcccHHHHHHHHHHHHHHH
Confidence            679999999999853211  11222223344 5678 8999999999999999888777655

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=97.50  E-value=0.00025  Score=50.64  Aligned_cols=62  Identities=21%  Similarity=0.155  Sum_probs=41.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEE-cccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVME-TSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~-~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      .+.|.+||.||+|+.............+.+.. ++.. +. +||.+++|++++...+.+.+.+..
T Consensus       274 ~~K~~ivv~NKiD~~~~~e~~~~~~~~l~~~~-~~~~-~~~ISa~t~~g~~~L~~~~~~~l~~~~  336 (369)
T COG0536         274 AEKPRIVVLNKIDLPLDEEELEELKKALAEAL-GWEV-FYLISALTREGLDELLRALAELLEETK  336 (369)
T ss_pred             ccCceEEEEeccCCCcCHHHHHHHHHHHHHhc-CCCc-ceeeehhcccCHHHHHHHHHHHHHHhh
Confidence            35789999999996533221222223333333 3332 22 999999999999999988887774

>PRK13768 GTPase; Provisional

Probab=97.49  E-value=0.00031  Score=48.24  Aligned_cols=58  Identities=21%  Similarity=0.154  Sum_probs=40.5

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHH----------------------------Hhhhc-CCcceEEEcccCCCCCHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEE----------------------------MGEYV-PEIHYVMETSAKDSTNVEE   60 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~----------------------------~~~~~-~~~~~~~~~Sa~~~~~v~~   60 (106)
                      .++|+++|.||+|+.+....  +....                            ..+.. ....+ +.+|+++++|+++
T Consensus       161 ~~~~~i~v~nK~D~~~~~~~--~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~~~v-i~iSa~~~~gl~~  237 (253)
T PRK13768        161 LGLPQIPVLNKADLLSEEEL--ERILKWLEDPEYLLEELKLEKGLQGLLSLELLRALEETGLPVRV-IPVSAKTGEGFDE  237 (253)
T ss_pred             cCCCEEEEEEhHhhcCchhH--HHHHHHHhCHHHHHHHHhcccchHHHHHHHHHHHHHHHCCCCcE-EEEECCCCcCHHH
Confidence            57899999999998654321  11111                            11122 13578 9999999999999


Q ss_pred             HHHHHHHHHH
Q psy5780          61 AFYCLANELK   70 (106)
Q Consensus        61 lf~~l~~~i~   70 (106)
                      +...|.+.+.
T Consensus       238 L~~~I~~~l~  247 (253)
T PRK13768        238 LYAAIQEVFC  247 (253)
T ss_pred             HHHHHHHHcC
Confidence            9999987764

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=97.48  E-value=0.00044  Score=52.82  Aligned_cols=25  Identities=20%  Similarity=0.178  Sum_probs=21.5

Q ss_pred             cceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          44 IHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        44 ~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .++ +.+||++|+|++++...+....
T Consensus       191 v~i-VpVSA~tGeGideLl~~l~~l~  215 (590)
T TIGR00491       191 VAI-IPISAITGEGIPELLTMLAGLA  215 (590)
T ss_pred             ceE-EEeecCCCCChhHHHHHHHHHH
Confidence            578 9999999999999998886543

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.

>KOG1489|consensus

Probab=97.48  E-value=0.00023  Score=50.42  Aligned_cols=54  Identities=22%  Similarity=0.255  Sum_probs=39.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLAN   67 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~   67 (106)
                      .+-|.++|.||+|+++.+   ......+++...+..+ +.+||+++++++++...|.+
T Consensus       311 ~~rp~liVaNKiD~~eae---~~~l~~L~~~lq~~~V-~pvsA~~~egl~~ll~~lr~  364 (366)
T KOG1489|consen  311 ADRPALIVANKIDLPEAE---KNLLSSLAKRLQNPHV-VPVSAKSGEGLEELLNGLRE  364 (366)
T ss_pred             ccCceEEEEeccCchhHH---HHHHHHHHHHcCCCcE-EEeeeccccchHHHHHHHhh
Confidence            457899999999986322   1223556666534458 99999999999999877654

>cd04165 GTPBP1_like GTPBP1-like

Probab=97.45  E-value=0.00032  Score=47.36  Aligned_cols=57  Identities=11%  Similarity=0.050  Sum_probs=36.0

Q ss_pred             CCCCeEEEEEecCCCCCCCCCC--HHHHHHHhhh------------------------c-CCcceEEEcccCCCCCHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVD--FNEAEEMGEY------------------------V-PEIHYVMETSAKDSTNVEEA   61 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~--~~~~~~~~~~------------------------~-~~~~~~~~~Sa~~~~~v~~l   61 (106)
                      ..++|+++|.||+|+.+.....  ......+...                        + ...++ |.+||.+|.|++++
T Consensus       136 ~~~ip~ivvvNK~D~~~~~~~~~~~~~l~~~L~~~g~~~~p~~~~~~~~~~~~~~~~~~~~~~pi-~~vSavtg~Gi~~L  214 (224)
T cd04165         136 ALNIPVFVVVTKIDLAPANILQETLKDLKRILKVPGVRKLPVPVKSDDDVVLAASNFSSERIVPI-FQVSNVTGEGLDLL  214 (224)
T ss_pred             HcCCCEEEEEECccccCHHHHHHHHHHHHHHhcCCCccccceeeecccceeehhhcCCccccCcE-EEeeCCCccCHHHH
Confidence            3578999999999986432211  1111222221                        1 02378 99999999999988


Q ss_pred             HHHHH
Q psy5780          62 FYCLA   66 (106)
Q Consensus        62 f~~l~   66 (106)
                      ...|.
T Consensus       215 ~~~L~  219 (224)
T cd04165         215 HAFLN  219 (224)
T ss_pred             HHHHH
Confidence            76653

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

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=97.42  E-value=0.00033  Score=46.57  Aligned_cols=47  Identities=15%  Similarity=0.003  Sum_probs=32.4

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHH----HHHHhhhcCCcceEEEcccCCCCC
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNE----AEEMGEYVPEIHYVMETSAKDSTN   57 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~----~~~~~~~~~~~~~~~~~Sa~~~~~   57 (106)
                      ..++|++|||||+||.+.+.+....    ...++++. +++. ++.+++....
T Consensus       127 ~~~~PiilVGnK~Dl~~~r~~~~~~~~~~~~~ia~~~-~~~~-i~~~c~~~~~  177 (202)
T cd04102         127 GNQIPLLVIGTKLDQIPEKESSGNLVLTARGFVAEQG-NAEE-INLNCTNGRL  177 (202)
T ss_pred             CCCceEEEEEECccchhhcccchHHHhhHhhhHHHhc-CCce-EEEecCCccc
Confidence            3579999999999997655444432    23456667 7887 8777765443

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

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=97.39  E-value=0.00026  Score=44.15  Aligned_cols=44  Identities=20%  Similarity=0.058  Sum_probs=30.5

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCC
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTN   57 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~   57 (106)
                      .+.|+++|.||+|+.++..  ......+.+.. +..+ +.+||+++.+
T Consensus        41 ~~k~~iivlNK~DL~~~~~--~~~~~~~~~~~-~~~i-i~iSa~~~~~   84 (141)
T cd01857          41 PRKKNILLLNKADLLTEEQ--RKAWAEYFKKE-GIVV-VFFSALKENA   84 (141)
T ss_pred             CCCcEEEEEechhcCCHHH--HHHHHHHHHhc-CCeE-EEEEecCCCc
Confidence            4789999999999864321  12233445555 6778 9999998764

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.

>PRK09866 hypothetical protein; Provisional

Probab=97.38  E-value=0.00073  Score=52.13  Aligned_cols=55  Identities=18%  Similarity=0.051  Sum_probs=37.6

Q ss_pred             CeEEEEEecCCCCCCCCCCHHHHHHHhh----h--cCCcceEEEcccCCCCCHHHHHHHHHH
Q psy5780          12 HDSRVWSNKCDLESEREVDFNEAEEMGE----Y--VPEIHYVMETSAKDSTNVEEAFYCLAN   67 (106)
Q Consensus        12 ip~ilv~nK~Dl~~~~~~~~~~~~~~~~----~--~~~~~~~~~~Sa~~~~~v~~lf~~l~~   67 (106)
                      .|+++|.||+|+.+......+....+..    .  .+...+ |.+||+.|.|+++++..+.+
T Consensus       290 ~PVILVVNKIDl~dreeddkE~Lle~V~~~L~q~~i~f~eI-fPVSAlkG~nid~LLdeI~~  350 (741)
T PRK09866        290 VPLYVLVNKFDQQDRNSDDADQVRALISGTLMKGCITPQQI-FPVSSMWGYLANRARHELAN  350 (741)
T ss_pred             CCEEEEEEcccCCCcccchHHHHHHHHHHHHHhcCCCCceE-EEEeCCCCCCHHHHHHHHHh
Confidence            5999999999986432212333333321    1  113468 99999999999999988865

>COG1160 Predicted GTPases [General function prediction only]

Probab=97.36  E-value=0.00077  Score=49.61  Aligned_cols=56  Identities=16%  Similarity=-0.029  Sum_probs=42.9

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      ..+.|++||.||+|-..    ......+|.... .... +.+||..|.|+.+|.+++.+.++
T Consensus       110 ~~~kpviLvvNK~D~~~----~e~~~~efyslG-~g~~-~~ISA~Hg~Gi~dLld~v~~~l~  165 (444)
T COG1160         110 RSKKPVILVVNKIDNLK----AEELAYEFYSLG-FGEP-VPISAEHGRGIGDLLDAVLELLP  165 (444)
T ss_pred             hcCCCEEEEEEcccCch----hhhhHHHHHhcC-CCCc-eEeehhhccCHHHHHHHHHhhcC
Confidence            35699999999999542    123344455444 5678 99999999999999999999885

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=97.32  E-value=0.00089  Score=50.06  Aligned_cols=58  Identities=17%  Similarity=0.103  Sum_probs=39.3

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHH------hhhcC-CcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEM------GEYVP-EIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~------~~~~~-~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      ...++|+++..||+|.++...  .....++      .+.|+ ...+ +.+||++|+|+++|+..++-.
T Consensus       104 k~a~vP~iVAiNKiDk~~~np--~~v~~el~~~gl~~E~~gg~v~~-VpvSA~tg~Gi~eLL~~ill~  168 (509)
T COG0532         104 KAAGVPIVVAINKIDKPEANP--DKVKQELQEYGLVPEEWGGDVIF-VPVSAKTGEGIDELLELILLL  168 (509)
T ss_pred             HHCCCCEEEEEecccCCCCCH--HHHHHHHHHcCCCHhhcCCceEE-EEeeccCCCCHHHHHHHHHHH
Confidence            346899999999999874321  1111222      22341 2467 999999999999999877643

>TIGR00750 lao LAO/AO transport system ATPase

Probab=97.30  E-value=0.00029  Score=49.45  Aligned_cols=58  Identities=19%  Similarity=0.157  Sum_probs=38.0

Q ss_pred             CCeEEEEEecCCCCCCCCCCH--H----HHHHHhhh---cCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          11 AHDSRVWSNKCDLESEREVDF--N----EAEEMGEY---VPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~--~----~~~~~~~~---~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      ++|.++|.||+|+........  .    ....+.+.   + ..++ +.+||+++.|+++++.++.+.+.
T Consensus       172 ~~~~ivv~NK~Dl~~~~~~~~~~~~~~~~l~~l~~~~~~~-~~~v-~~iSA~~g~Gi~~L~~~i~~~~~  238 (300)
T TIGR00750       172 EIADIYVVNKADGEGATNVTIARLMLALALEEIRRREDGW-RPPV-LTTSAVEGRGIDELWDAIEEHKT  238 (300)
T ss_pred             hhccEEEEEcccccchhHHHHHHHHHHHHHhhccccccCC-CCCE-EEEEccCCCCHHHHHHHHHHHHH
Confidence            567899999999864321100  0    00111111   2 2458 99999999999999999987644

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.

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=97.30  E-value=0.00081  Score=49.64  Aligned_cols=57  Identities=18%  Similarity=0.095  Sum_probs=42.0

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      ..+.|+++|.||.||........     . +..++.++ +.+|+++++|++.+...|.+.+...
T Consensus       322 ~~~~~~i~v~NK~DL~~~~~~~~-----~-~~~~~~~~-i~iSa~t~~Gl~~L~~~i~~~~~~~  378 (454)
T COG0486         322 PKKKPIIVVLNKADLVSKIELES-----E-KLANGDAI-ISISAKTGEGLDALREAIKQLFGKG  378 (454)
T ss_pred             ccCCCEEEEEechhcccccccch-----h-hccCCCce-EEEEecCccCHHHHHHHHHHHHhhc
Confidence            35689999999999976443111     1 22224568 9999999999999999888777665

>KOG0075|consensus

Probab=97.29  E-value=0.0002  Score=45.68  Aligned_cols=57  Identities=19%  Similarity=0.138  Sum_probs=39.9

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhc----CCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYV----PEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~----~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .++|+++.|||.|++.  .+.......-....    ..+.. |.+|+++..|++.+..+|.+.-
T Consensus       121 ~gip~LVLGnK~d~~~--AL~~~~li~rmgL~sitdREvcC-~siScke~~Nid~~~~Wli~hs  181 (186)
T KOG0075|consen  121 TGIPLLVLGNKIDLPG--ALSKIALIERMGLSSITDREVCC-FSISCKEKVNIDITLDWLIEHS  181 (186)
T ss_pred             cCCcEEEecccccCcc--cccHHHHHHHhCccccccceEEE-EEEEEcCCccHHHHHHHHHHHh
Confidence            4689999999999874  33333322221111    13467 9999999999999999998754

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=97.27  E-value=0.00051  Score=51.03  Aligned_cols=57  Identities=16%  Similarity=0.216  Sum_probs=37.6

Q ss_pred             eEEEEEecCCCCCCCCCC--HHHHHHHhhh--cCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          13 DSRVWSNKCDLESEREVD--FNEAEEMGEY--VPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        13 p~ilv~nK~Dl~~~~~~~--~~~~~~~~~~--~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      ++|+|.||+|+.+.....  .++...+...  ....++ +.+||++|.|++.|++.|.+.++
T Consensus       173 ~iIVvlNKiDlv~~~~~~~~~~ei~~~l~~~~~~~~~i-ipVSA~~G~nI~~Ll~~L~~~lp  233 (460)
T PTZ00327        173 HIIILQNKIDLVKEAQAQDQYEEIRNFVKGTIADNAPI-IPISAQLKYNIDVVLEYICTQIP  233 (460)
T ss_pred             cEEEEEecccccCHHHHHHHHHHHHHHHHhhccCCCeE-EEeeCCCCCCHHHHHHHHHhhCC
Confidence            578899999986432211  1112222221  125688 99999999999999988876554

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=97.25  E-value=0.00043  Score=50.74  Aligned_cols=50  Identities=22%  Similarity=0.098  Sum_probs=33.2

Q ss_pred             CeEEEEEecCCCCCCCCC----CHHHHHHHhhhcC----CcceEEEcccCCCCCHHHHH
Q psy5780          12 HDSRVWSNKCDLESEREV----DFNEAEEMGEYVP----EIHYVMETSAKDSTNVEEAF   62 (106)
Q Consensus        12 ip~ilv~nK~Dl~~~~~~----~~~~~~~~~~~~~----~~~~~~~~Sa~~~~~v~~lf   62 (106)
                      .++++|+||+|+.+....    ...+...+.+..+    .+++ +++||++|.|+++++
T Consensus       142 ~~iIVviNK~Dl~~~~~~~~~~~~~ei~~~~~~~g~~~~~~~~-i~iSA~~g~ni~~~~  199 (426)
T TIGR00483       142 NQLIVAINKMDSVNYDEEEFEAIKKEVSNLIKKVGYNPDTVPF-IPISAWNGDNVIKKS  199 (426)
T ss_pred             CeEEEEEEChhccCccHHHHHHHHHHHHHHHHHcCCCcccceE-EEeeccccccccccc
Confidence            478899999999642111    1223444555441    2578 999999999998754

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.

>KOG0070|consensus

Probab=97.22  E-value=0.00085  Score=43.88  Aligned_cols=59  Identities=25%  Similarity=0.224  Sum_probs=42.6

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhh-----hcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGE-----YVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .++|+++.+||.|++..  .+..+......     .. .+.+ ..++|.+|.|+.+.++++...+..+
T Consensus       117 ~~~~llv~aNKqD~~~a--ls~~ei~~~L~l~~l~~~-~w~i-q~~~a~~G~GL~egl~wl~~~~~~~  180 (181)
T KOG0070|consen  117 RNAPLLVFANKQDLPGA--LSAAEITNKLGLHSLRSR-NWHI-QSTCAISGEGLYEGLDWLSNNLKKR  180 (181)
T ss_pred             CCceEEEEechhhcccc--CCHHHHHhHhhhhccCCC-CcEE-eeccccccccHHHHHHHHHHHHhcc
Confidence            57999999999999753  33333332222     12 3456 7899999999999999999887653

>COG1160 Predicted GTPases [General function prediction only]

Probab=97.22  E-value=0.0015  Score=48.14  Aligned_cols=63  Identities=16%  Similarity=0.158  Sum_probs=42.9

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHH----HhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEE----MGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~----~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      +.+.++++|.||.|+.+......+....    .....++.+. +.+||+++.++.++|..+.+.....
T Consensus       287 ~~g~~~vIvvNKWDl~~~~~~~~~~~k~~i~~~l~~l~~a~i-~~iSA~~~~~i~~l~~~i~~~~~~~  353 (444)
T COG1160         287 EAGRGIVIVVNKWDLVEEDEATMEEFKKKLRRKLPFLDFAPI-VFISALTGQGLDKLFEAIKEIYECA  353 (444)
T ss_pred             HcCCCeEEEEEccccCCchhhHHHHHHHHHHHHhccccCCeE-EEEEecCCCChHHHHHHHHHHHHHh
Confidence            3578999999999987643223333221    1222235678 9999999999999998886654443

>KOG0073|consensus

Probab=97.21  E-value=0.0025  Score=41.28  Aligned_cols=59  Identities=24%  Similarity=0.303  Sum_probs=44.9

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHH------HHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEA------EEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~------~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .+.|++++.||.|+..  .+..+..      ..+++.. .+++ +.+||.+|+++.+-|+++...+.++
T Consensus       116 aG~~~Lvlank~dl~~--~l~~~~i~~~~~L~~l~ks~-~~~l-~~cs~~tge~l~~gidWL~~~l~~r  180 (185)
T KOG0073|consen  116 AGAPLLVLANKQDLPG--ALSLEEISKALDLEELAKSH-HWRL-VKCSAVTGEDLLEGIDWLCDDLMSR  180 (185)
T ss_pred             cCCceEEEEecCcCcc--ccCHHHHHHhhCHHHhcccc-CceE-EEEeccccccHHHHHHHHHHHHHHH
Confidence            3579999999999973  2333322      2334555 6788 9999999999999999999888764

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=97.10  E-value=0.00085  Score=51.33  Aligned_cols=61  Identities=16%  Similarity=0.133  Sum_probs=41.3

Q ss_pred             CCCCeEEEEEecCCCCCCCCC-CHHHHHHHhh-------hcCCcceEEEcccCCCC----------CHHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREV-DFNEAEEMGE-------YVPEIHYVMETSAKDST----------NVEEAFYCLANELK   70 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~-~~~~~~~~~~-------~~~~~~~~~~~Sa~~~~----------~v~~lf~~l~~~i~   70 (106)
                      ..++|+|+|+||+|+...+.. ...+...+..       .. .+++ +.+||++|.          |++.+|+.+++.++
T Consensus       114 ~~~ip~IVviNKiD~~~a~~~~v~~ei~~l~~~~g~~~e~l-~~pv-l~~SA~~g~~~~~~~~~~~gi~~Lld~Iv~~lP  191 (594)
T TIGR01394       114 ELGLKPIVVINKIDRPSARPDEVVDEVFDLFAELGADDEQL-DFPI-VYASGRAGWASLDLDDPSDNMAPLFDAIVRHVP  191 (594)
T ss_pred             HCCCCEEEEEECCCCCCcCHHHHHHHHHHHHHhhccccccc-cCcE-EechhhcCcccccCcccccCHHHHHHHHHHhCC
Confidence            357899999999998643210 0122222221       23 4578 999999996          79999999888775


Q ss_pred             H
Q psy5780          71 N   71 (106)
Q Consensus        71 ~   71 (106)
                      .
T Consensus       192 ~  192 (594)
T TIGR01394       192 A  192 (594)
T ss_pred             C
Confidence            3

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.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=97.06  E-value=0.0015  Score=46.68  Aligned_cols=59  Identities=12%  Similarity=0.108  Sum_probs=38.6

Q ss_pred             EEEEEecCCCCCCCCCC--HHHHHHHhhh-------cCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          14 SRVWSNKCDLESEREVD--FNEAEEMGEY-------VPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        14 ~ilv~nK~Dl~~~~~~~--~~~~~~~~~~-------~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      -++|.||+|+.......  ..+.......       + ..++ +.+||+++.||++++..+.+.+.....
T Consensus       197 DIiVVNKaDl~~~~~a~~~~~el~~~L~l~~~~~~~w-~~pV-i~vSA~~g~GIdeL~~~I~~~~~~l~~  264 (332)
T PRK09435        197 DLIVINKADGDNKTAARRAAAEYRSALRLLRPKDPGW-QPPV-LTCSALEGEGIDEIWQAIEDHRAALTA  264 (332)
T ss_pred             heEEeehhcccchhHHHHHHHHHHHHHhcccccccCC-CCCE-EEEECCCCCCHHHHHHHHHHHHHHhcc
Confidence            38999999986432110  1111111111       2 2478 999999999999999999987764443

>KOG0072|consensus

Probab=96.99  E-value=0.00059  Score=43.43  Aligned_cols=59  Identities=24%  Similarity=0.209  Sum_probs=40.9

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHH-----hhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEM-----GEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~-----~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .+..++++.||.|....  ....++...     .+.. .+.+ |++||.+|+|+++.++++.+.+..+
T Consensus       118 q~a~llv~anKqD~~~~--~t~~E~~~~L~l~~Lk~r-~~~I-v~tSA~kg~Gld~~~DWL~~~l~~~  181 (182)
T KOG0072|consen  118 QHAKLLVFANKQDYSGA--LTRSEVLKMLGLQKLKDR-IWQI-VKTSAVKGEGLDPAMDWLQRPLKSR  181 (182)
T ss_pred             cCceEEEEeccccchhh--hhHHHHHHHhChHHHhhh-eeEE-EeeccccccCCcHHHHHHHHHHhcc
Confidence            34678899999998632  122222111     1222 4678 9999999999999999999887653

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=96.97  E-value=0.00087  Score=51.46  Aligned_cols=61  Identities=15%  Similarity=0.145  Sum_probs=48.5

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .+-++|++++.|.+|...++.+.. +...+.+.. +.++ +.+||++|.|++++...+.+....
T Consensus       105 lE~g~p~ilaLNm~D~A~~~Gi~I-D~~~L~~~L-GvPV-v~tvA~~g~G~~~l~~~i~~~~~~  165 (653)
T COG0370         105 LELGIPMILALNMIDEAKKRGIRI-DIEKLSKLL-GVPV-VPTVAKRGEGLEELKRAIIELAES  165 (653)
T ss_pred             HHcCCCeEEEeccHhhHHhcCCcc-cHHHHHHHh-CCCE-EEEEeecCCCHHHHHHHHHHhccc
Confidence            346789999999999876655443 356677888 9999 999999999999998888754433

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=96.95  E-value=0.0011  Score=48.66  Aligned_cols=49  Identities=24%  Similarity=0.159  Sum_probs=32.1

Q ss_pred             eEEEEEecCCCCCCCC----CCHHHHHHHhhhcC----CcceEEEcccCCCCCHHHHH
Q psy5780          13 DSRVWSNKCDLESERE----VDFNEAEEMGEYVP----EIHYVMETSAKDSTNVEEAF   62 (106)
Q Consensus        13 p~ilv~nK~Dl~~~~~----~~~~~~~~~~~~~~----~~~~~~~~Sa~~~~~v~~lf   62 (106)
                      |+++|+||+|+.+...    ...++...+.+..+    ..++ +.+||++|.|+++++
T Consensus       141 ~iivviNK~Dl~~~~~~~~~~~~~~i~~~l~~~g~~~~~~~i-i~iSA~~g~gi~~~~  197 (425)
T PRK12317        141 QLIVAINKMDAVNYDEKRYEEVKEEVSKLLKMVGYKPDDIPF-IPVSAFEGDNVVKKS  197 (425)
T ss_pred             eEEEEEEccccccccHHHHHHHHHHHHHHHHhhCCCcCcceE-EEeecccCCCccccc
Confidence            6899999999864211    01123344444441    2468 999999999998754

>PRK14845 translation initiation factor IF-2; Provisional

Probab=96.95  E-value=0.0029  Score=51.26  Aligned_cols=27  Identities=19%  Similarity=0.237  Sum_probs=22.0

Q ss_pred             CcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          43 EIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        43 ~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      ..++ +.+||++|+|+++|...|.....
T Consensus       647 ~v~i-VpVSA~tGeGId~Ll~~l~~l~~  673 (1049)
T PRK14845        647 TVAI-VPVSAKTGEGIPELLMMVAGLAQ  673 (1049)
T ss_pred             CceE-EEEEcCCCCCHHHHHHHHHHhhH
Confidence            3578 99999999999999987765443

>PRK04004 translation initiation factor IF-2; Validated

Probab=96.90  E-value=0.0042  Score=47.51  Aligned_cols=25  Identities=20%  Similarity=0.267  Sum_probs=21.2

Q ss_pred             cceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          44 IHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        44 ~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .++ +.+||++|.|+++++..+....
T Consensus       193 v~i-vpiSA~tGeGi~dLl~~i~~~~  217 (586)
T PRK04004        193 VAI-VPVSAKTGEGIPDLLMVLAGLA  217 (586)
T ss_pred             ceE-eeccCCCCCChHHHHHHHHHHH
Confidence            578 9999999999999998876543

>KOG3905|consensus

Probab=96.83  E-value=0.0043  Score=44.57  Aligned_cols=63  Identities=16%  Similarity=0.132  Sum_probs=48.1

Q ss_pred             CCCCeEEEEEecCCCC----CCCC-------CCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780           9 DSAHDSRVWSNKCDLE----SERE-------VDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~----~~~~-------~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      .-++|+++|.+|+|..    ....       +.....+.|+-++ +... |.||+|...|++-+...|+..+....
T Consensus       220 NlGi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lRkFCLr~-GaaL-iyTSvKE~KNidllyKYivhr~yG~~  293 (473)
T KOG3905|consen  220 NLGIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLRKFCLRY-GAAL-IYTSVKETKNIDLLYKYIVHRSYGFP  293 (473)
T ss_pred             cCCCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHHHHHHHc-Ccee-EEeecccccchHHHHHHHHHHhcCcc
Confidence            3579999999999982    1111       1123356778888 8899 99999999999999999988877654

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

Probab=96.76  E-value=0.00074  Score=45.19  Aligned_cols=47  Identities=19%  Similarity=0.079  Sum_probs=28.9

Q ss_pred             CeEEEEEecCCCCCC--CCC----CHHHHHHHhhhcC----CcceEEEcccCCCCCHH
Q psy5780          12 HDSRVWSNKCDLESE--REV----DFNEAEEMGEYVP----EIHYVMETSAKDSTNVE   59 (106)
Q Consensus        12 ip~ilv~nK~Dl~~~--~~~----~~~~~~~~~~~~~----~~~~~~~~Sa~~~~~v~   59 (106)
                      .|+++|+||+|+...  ...    .......+.+..+    .+++ +.+||++|.|++
T Consensus       138 ~~iiivvNK~Dl~~~~~~~~~~~~i~~~l~~~l~~~~~~~~~~~i-i~iSA~tg~gi~  194 (219)
T cd01883         138 KQLIVAVNKMDDVTVNWSEERYDEIKKELSPFLKKVGYNPKDVPF-IPISGLTGDNLI  194 (219)
T ss_pred             CeEEEEEEccccccccccHHHHHHHHHHHHHHHHHcCCCcCCceE-EEeecCcCCCCC
Confidence            578889999998631  100    0111222233331    2568 999999999986

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

>cd01899 Ygr210 Ygr210 subfamily

Probab=96.75  E-value=0.0023  Score=45.44  Aligned_cols=59  Identities=15%  Similarity=0.111  Sum_probs=41.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHH-HHHHHHHHhh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFY-CLANELKNRQ   73 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~-~l~~~i~~~~   73 (106)
                      ...|+|+|+||.|+.....    ....+....+...+ +.+||+.+.+++++.+ .+.+.+++..
T Consensus       213 t~KPvI~VlNK~Dl~~~~~----~~~~l~~~~~~~~i-I~iSA~~e~~L~~L~~~~i~~~lPe~~  272 (318)
T cd01899         213 RSKPMVIAANKADIPDAEN----NISKLRLKYPDEIV-VPTSAEAELALRRAAKQGLIKYDPGDS  272 (318)
T ss_pred             cCCcEEEEEEHHHccChHH----HHHHHHhhCCCCeE-EEEeCcccccHHHHHHhhHHHhCCCCC
Confidence            4589999999999753221    11222223324578 9999999999999987 5887776543

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.

>KOG1673|consensus

Probab=96.74  E-value=0.002  Score=41.59  Aligned_cols=63  Identities=21%  Similarity=0.171  Sum_probs=44.8

Q ss_pred             CCCCCeEEEEEecCCCCCC-----CCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780           8 PDSAHDSRVWSNKCDLESE-----REVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~-----~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      .+..+| |+||+|.|+.-.     +.....+++.+++.. .... |.+|+....||..+|..+..++....
T Consensus       122 NktAiP-ilvGTKyD~fi~lp~e~Q~~I~~qar~YAk~m-nAsL-~F~Sts~sINv~KIFK~vlAklFnL~  189 (205)
T KOG1673|consen  122 NKTAIP-ILVGTKYDLFIDLPPELQETISRQARKYAKVM-NASL-FFCSTSHSINVQKIFKIVLAKLFNLP  189 (205)
T ss_pred             CCccce-EEeccchHhhhcCCHHHHHHHHHHHHHHHHHh-CCcE-EEeeccccccHHHHHHHHHHHHhCCc
Confidence            334566 578999996421     111223456677777 7888 99999999999999998877776553

>KOG1532|consensus

Probab=96.74  E-value=0.0061  Score=42.85  Aligned_cols=63  Identities=11%  Similarity=0.178  Sum_probs=41.3

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHH--------------------------hhhcCCcceEEEcccCCCCCHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEM--------------------------GEYVPEIHYVMETSAKDSTNVEEAF   62 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~--------------------------~~~~~~~~~~~~~Sa~~~~~v~~lf   62 (106)
                      .-++|+|+|.||+|+.+.. +..+.+..|                          .+-+.++.. +.+|+.+|.|.+++|
T Consensus       179 ktklp~ivvfNK~Dv~d~~-fa~eWm~DfE~FqeAl~~~~~~y~s~l~~SmSL~leeFY~~lrt-v~VSs~tG~G~ddf~  256 (366)
T KOG1532|consen  179 KTKLPFIVVFNKTDVSDSE-FALEWMTDFEAFQEALNEAESSYMSNLTRSMSLMLEEFYRSLRT-VGVSSVTGEGFDDFF  256 (366)
T ss_pred             hccCCeEEEEecccccccH-HHHHHHHHHHHHHHHHHhhccchhHHhhhhHHHHHHHHHhhCce-EEEecccCCcHHHHH
Confidence            3578999999999996431 111111111                          011123567 899999999999999


Q ss_pred             HHHHHHHHHhh
Q psy5780          63 YCLANELKNRQ   73 (106)
Q Consensus        63 ~~l~~~i~~~~   73 (106)
                      ..+-..+-++.
T Consensus       257 ~av~~~vdEy~  267 (366)
T KOG1532|consen  257 TAVDESVDEYE  267 (366)
T ss_pred             HHHHHHHHHHH
Confidence            88876665543

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=96.72  E-value=0.0016  Score=43.21  Aligned_cols=47  Identities=26%  Similarity=0.203  Sum_probs=29.2

Q ss_pred             eEEEEEecCCCCCCCCC----CHHHHHHHhhhcC--CcceEEEcccCCCCCHHH
Q psy5780          13 DSRVWSNKCDLESEREV----DFNEAEEMGEYVP--EIHYVMETSAKDSTNVEE   60 (106)
Q Consensus        13 p~ilv~nK~Dl~~~~~~----~~~~~~~~~~~~~--~~~~~~~~Sa~~~~~v~~   60 (106)
                      ++|+|+||+|+......    .......+...++  ..++ +.+||+++.|+++
T Consensus       132 ~iIvviNK~D~~~~~~~~~~~i~~~~~~~~~~~~~~~~~i-i~iSA~~g~ni~~  184 (208)
T cd04166         132 HVVVAVNKMDLVDYSEEVFEEIVADYLAFAAKLGIEDITF-IPISALDGDNVVS  184 (208)
T ss_pred             cEEEEEEchhcccCCHHHHHHHHHHHHHHHHHcCCCCceE-EEEeCCCCCCCcc
Confidence            46778999998642210    0112233344441  2458 9999999999875

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.

>KOG0076|consensus

Probab=96.70  E-value=0.0016  Score=42.57  Aligned_cols=61  Identities=23%  Similarity=0.273  Sum_probs=44.7

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHH---hhhc--CCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEM---GEYV--PEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~---~~~~--~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      .++|+++..||.|+.+...  ..+....   ++..  +...+ ..+||.+|+||++-..++++.+.++.
T Consensus       125 eg~p~L~lankqd~q~~~~--~~El~~~~~~~e~~~~rd~~~-~pvSal~gegv~egi~w~v~~~~kn~  190 (197)
T KOG0076|consen  125 EGAPVLVLANKQDLQNAME--AAELDGVFGLAELIPRRDNPF-QPVSALTGEGVKEGIEWLVKKLEKNV  190 (197)
T ss_pred             cCCchhhhcchhhhhhhhh--HHHHHHHhhhhhhcCCccCcc-ccchhhhcccHHHHHHHHHHHHhhcc
Confidence            5799999999999875332  2222222   1222  24578 99999999999999999999988773

>PRK12736 elongation factor Tu; Reviewed

Probab=96.65  E-value=0.0033  Score=45.80  Aligned_cols=59  Identities=20%  Similarity=0.150  Sum_probs=35.2

Q ss_pred             CCCe-EEEEEecCCCCCCCCCC---HHHHHHHhhhcC----CcceEEEcccCCCC--------CHHHHHHHHHHHH
Q psy5780          10 SAHD-SRVWSNKCDLESEREVD---FNEAEEMGEYVP----EIHYVMETSAKDST--------NVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip-~ilv~nK~Dl~~~~~~~---~~~~~~~~~~~~----~~~~~~~~Sa~~~~--------~v~~lf~~l~~~i   69 (106)
                      .++| +|++.||+|+.+.....   ..+...+....+    ..++ +.+||+++.        ++..+++.+.+.+
T Consensus       126 ~g~~~~IvviNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~~~~~i-i~vSa~~g~~~~~~~~~~i~~Ll~~l~~~l  200 (394)
T PRK12736        126 VGVPYLVVFLNKVDLVDDEELLELVEMEVRELLSEYDFPGDDIPV-IRGSALKALEGDPKWEDAIMELMDAVDEYI  200 (394)
T ss_pred             cCCCEEEEEEEecCCcchHHHHHHHHHHHHHHHHHhCCCcCCccE-EEeeccccccCCCcchhhHHHHHHHHHHhC
Confidence            4678 67889999986432211   112333333331    2578 999999984        4556666555544

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=96.60  E-value=0.002  Score=46.03  Aligned_cols=61  Identities=15%  Similarity=0.221  Sum_probs=43.2

Q ss_pred             eEEEEEecCCCCCCCC--CCHHHHHHHhhhc--CCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          13 DSRVWSNKCDLESERE--VDFNEAEEMGEYV--PEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        13 p~ilv~nK~Dl~~~~~--~~~~~~~~~~~~~--~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .+|+|-||+||.++..  ...++...|.+-.  .+.++ +.+||..+.|++.+++.|.+.++.-..
T Consensus       142 ~iiIvQNKIDlV~~E~AlE~y~qIk~FvkGt~Ae~aPI-IPiSA~~~~NIDal~e~i~~~IptP~r  206 (415)
T COG5257         142 NIIIVQNKIDLVSRERALENYEQIKEFVKGTVAENAPI-IPISAQHKANIDALIEAIEKYIPTPER  206 (415)
T ss_pred             eEEEEecccceecHHHHHHHHHHHHHHhcccccCCCce-eeehhhhccCHHHHHHHHHHhCCCCcc
Confidence            5788999999975322  1223334444321  14588 999999999999999999998876544

>KOG1145|consensus

Probab=96.57  E-value=0.01  Score=45.18  Aligned_cols=56  Identities=16%  Similarity=0.036  Sum_probs=39.0

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHh------hhc-CCcceEEEcccCCCCCHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMG------EYV-PEIHYVMETSAKDSTNVEEAFYCLAN   67 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~------~~~-~~~~~~~~~Sa~~~~~v~~lf~~l~~   67 (106)
                      ..++|+|+..||+|-+...  ......++.      +.+ +...+ +++||++|+|++.|-+.+.-
T Consensus       251 ~A~VpiVvAinKiDkp~a~--pekv~~eL~~~gi~~E~~GGdVQv-ipiSAl~g~nl~~L~eaill  313 (683)
T KOG1145|consen  251 SANVPIVVAINKIDKPGAN--PEKVKRELLSQGIVVEDLGGDVQV-IPISALTGENLDLLEEAILL  313 (683)
T ss_pred             hcCCCEEEEEeccCCCCCC--HHHHHHHHHHcCccHHHcCCceeE-EEeecccCCChHHHHHHHHH
Confidence            4689999999999976322  222233332      233 23578 99999999999998887753

>PLN00023 GTP-binding protein; Provisional

Probab=96.54  E-value=0.0042  Score=44.40  Aligned_cols=31  Identities=19%  Similarity=0.086  Sum_probs=24.3

Q ss_pred             CCeEEEEEecCCCCCCC---C---CCHHHHHHHhhhc
Q psy5780          11 AHDSRVWSNKCDLESER---E---VDFNEAEEMGEYV   41 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~---~---~~~~~~~~~~~~~   41 (106)
                      ++|++|||||+||...+   .   +..+.+..|++.+
T Consensus       151 ~ipIILVGNK~DL~~~~~~r~~s~~~~e~a~~~A~~~  187 (334)
T PLN00023        151 PVPYIVIGNKADIAPKEGTRGSSGNLVDAARQWVEKQ  187 (334)
T ss_pred             CCcEEEEEECccccccccccccccccHHHHHHHHHHc
Confidence            58999999999997542   2   3567888888876

>COG0218 Predicted GTPase [General function prediction only]

Probab=96.49  E-value=0.0032  Score=41.89  Aligned_cols=62  Identities=16%  Similarity=0.022  Sum_probs=39.4

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCH--HHHH-HHhhhcCCcc--eEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDF--NEAE-EMGEYVPEIH--YVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~--~~~~-~~~~~~~~~~--~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      ...++|+++|.||+|-........  .... .+.... ...  + +.+|+.++.|++++...|.+.+..
T Consensus       132 ~~~~i~~~vv~tK~DKi~~~~~~k~l~~v~~~l~~~~-~~~~~~-~~~ss~~k~Gi~~l~~~i~~~~~~  198 (200)
T COG0218         132 LELGIPVIVVLTKADKLKKSERNKQLNKVAEELKKPP-PDDQWV-VLFSSLKKKGIDELKAKILEWLKE  198 (200)
T ss_pred             HHcCCCeEEEEEccccCChhHHHHHHHHHHHHhcCCC-CccceE-EEEecccccCHHHHHHHHHHHhhc
Confidence            446899999999999654322111  1111 122222 222  6 788999999999998888776543

>cd01884 EF_Tu EF-Tu subfamily

Probab=96.45  E-value=0.0082  Score=39.66  Aligned_cols=48  Identities=19%  Similarity=0.086  Sum_probs=29.6

Q ss_pred             CCCe-EEEEEecCCCCCCCCCC---HHHHHHHhhhc----CCcceEEEcccCCCCCH
Q psy5780          10 SAHD-SRVWSNKCDLESEREVD---FNEAEEMGEYV----PEIHYVMETSAKDSTNV   58 (106)
Q Consensus        10 ~~ip-~ilv~nK~Dl~~~~~~~---~~~~~~~~~~~----~~~~~~~~~Sa~~~~~v   58 (106)
                      .++| +|+|.||+|+.......   ..+...+....    ..+++ +.+||++|.|+
T Consensus       116 ~~~~~iIvviNK~D~~~~~~~~~~~~~~i~~~l~~~g~~~~~v~i-ipiSa~~g~n~  171 (195)
T cd01884         116 VGVPYIVVFLNKADMVDDEELLELVEMEVRELLSKYGFDGDNTPI-VRGSALKALEG  171 (195)
T ss_pred             cCCCcEEEEEeCCCCCCcHHHHHHHHHHHHHHHHHhcccccCCeE-EEeeCccccCC
Confidence            4576 77899999985322111   11233333333    13578 99999999985

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.

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=96.44  E-value=0.013  Score=41.85  Aligned_cols=51  Identities=24%  Similarity=0.187  Sum_probs=39.2

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      -+|-++|.||+|+..     .+....+.+..   .+ +.+||+.+.|++++.+.|.+.+-
T Consensus       239 Y~p~l~v~NKiD~~~-----~e~~~~l~~~~---~~-v~isa~~~~nld~L~e~i~~~L~  289 (365)
T COG1163         239 YKPALYVVNKIDLPG-----LEELERLARKP---NS-VPISAKKGINLDELKERIWDVLG  289 (365)
T ss_pred             eeeeEEEEecccccC-----HHHHHHHHhcc---ce-EEEecccCCCHHHHHHHHHHhhC
Confidence            579999999999864     33444444433   56 88999999999999998877654

>PRK10218 GTP-binding protein; Provisional

Probab=96.22  E-value=0.012  Score=45.25  Aligned_cols=59  Identities=12%  Similarity=0.111  Sum_probs=38.8

Q ss_pred             CCCeEEEEEecCCCCCCCCC-CHHHHHHHhh-------hcCCcceEEEcccCCCC----------CHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREV-DFNEAEEMGE-------YVPEIHYVMETSAKDST----------NVEEAFYCLANELK   70 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~-~~~~~~~~~~-------~~~~~~~~~~~Sa~~~~----------~v~~lf~~l~~~i~   70 (106)
                      .++|.++|+||+|+...+.. ...+...+..       .. .+++ +.+||++|.          ++..|++.+.+.++
T Consensus       119 ~gip~IVviNKiD~~~a~~~~vl~ei~~l~~~l~~~~~~~-~~PV-i~~SA~~G~~~~~~~~~~~~i~~Lld~Ii~~iP  195 (607)
T PRK10218        119 YGLKPIVVINKVDRPGARPDWVVDQVFDLFVNLDATDEQL-DFPI-VYASALNGIAGLDHEDMAEDMTPLYQAIVDHVP  195 (607)
T ss_pred             cCCCEEEEEECcCCCCCchhHHHHHHHHHHhccCcccccc-CCCE-EEeEhhcCcccCCccccccchHHHHHHHHHhCC
Confidence            57899999999998643210 1112222221       12 4678 999999998          57888887777665

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=96.20  E-value=0.017  Score=38.01  Aligned_cols=63  Identities=13%  Similarity=0.042  Sum_probs=40.1

Q ss_pred             CCeEEEEEecCCCCCCCC-------CCHHH----HHHH----hhh--cCCcceEEEcccC--CCCCHHHHHHHHHHHHHH
Q psy5780          11 AHDSRVWSNKCDLESERE-------VDFNE----AEEM----GEY--VPEIHYVMETSAK--DSTNVEEAFYCLANELKN   71 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~-------~~~~~----~~~~----~~~--~~~~~~~~~~Sa~--~~~~v~~lf~~l~~~i~~   71 (106)
                      +.|+++|+||+|+.....       ...++    ....    ...  .....+ |-+|+.  .+.++..+.+.+...+++
T Consensus       107 ~~~~ilV~nK~D~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~~~~~p~v-~~vS~~~~~~~~~~~l~~~~~~~l~~  185 (197)
T cd04104         107 GKKFYFVRTKVDRDLSNEQRSKPRSFNREQVLQEIRDNCLENLQEAGVSEPPV-FLVSNFDPSDYDFPKLRETLLKDLPA  185 (197)
T ss_pred             CCCEEEEEecccchhhhhhccccccccHHHHHHHHHHHHHHHHHHcCCCCCCE-EEEeCCChhhcChHHHHHHHHHHhhH
Confidence            579999999999832111       00111    1111    111  112367 999998  678999999999999987


Q ss_pred             hhc
Q psy5780          72 RQS   74 (106)
Q Consensus        72 ~~~   74 (106)
                      .+.
T Consensus       186 ~~~  188 (197)
T cd04104         186 HKR  188 (197)
T ss_pred             HHH
Confidence            654

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

>KOG1490|consensus

Probab=96.11  E-value=0.02  Score=43.23  Aligned_cols=61  Identities=13%  Similarity=0.034  Sum_probs=41.7

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHH--HHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEA--EEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~--~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .+.|+|+|.||+|+.....+..+..  ......-+.+++ +++|..+.+||-++....-+.++.
T Consensus       280 aNK~~IlvlNK~D~m~~edL~~~~~~ll~~~~~~~~v~v-~~tS~~~eegVm~Vrt~ACe~LLa  342 (620)
T KOG1490|consen  280 ANKVTILVLNKIDAMRPEDLDQKNQELLQTIIDDGNVKV-VQTSCVQEEGVMDVRTTACEALLA  342 (620)
T ss_pred             cCCceEEEeecccccCccccCHHHHHHHHHHHhccCceE-EEecccchhceeeHHHHHHHHHHH
Confidence            4689999999999876555554332  222223325789 999999999998776555544443

>COG2229 Predicted GTPase [General function prediction only]

Probab=96.00  E-value=0.036  Score=36.46  Aligned_cols=54  Identities=17%  Similarity=0.056  Sum_probs=40.0

Q ss_pred             CeEEEEEecCCCCCCCCCCHHHHHHHhhhc-CCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          12 HDSRVWSNKCDLESEREVDFNEAEEMGEYV-PEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        12 ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      +|+++..||.||.+..  +.+..+++.+.. -..++ ++++|..+.++.+.+..+...
T Consensus       122 ip~vVa~NK~DL~~a~--ppe~i~e~l~~~~~~~~v-i~~~a~e~~~~~~~L~~ll~~  176 (187)
T COG2229         122 IPVVVAINKQDLFDAL--PPEKIREALKLELLSVPV-IEIDATEGEGARDQLDVLLLK  176 (187)
T ss_pred             CCEEEEeeccccCCCC--CHHHHHHHHHhccCCCce-eeeecccchhHHHHHHHHHhh
Confidence            9999999999998643  455555554433 26788 999999999988877766533

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=95.87  E-value=0.0075  Score=45.03  Aligned_cols=48  Identities=27%  Similarity=0.239  Sum_probs=30.1

Q ss_pred             eEEEEEecCCCCCCCCCCHHH----HHHHhhhc---CCcceEEEcccCCCCCHHHH
Q psy5780          13 DSRVWSNKCDLESEREVDFNE----AEEMGEYV---PEIHYVMETSAKDSTNVEEA   61 (106)
Q Consensus        13 p~ilv~nK~Dl~~~~~~~~~~----~~~~~~~~---~~~~~~~~~Sa~~~~~v~~l   61 (106)
                      ++|+|+||+|+.+........    ...+....   ...++ +.+||++|.|++++
T Consensus       162 ~iIvvvNKiD~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~i-ipvSA~~g~ni~~~  216 (474)
T PRK05124        162 HLVVAVNKMDLVDYSEEVFERIREDYLTFAEQLPGNLDIRF-VPLSALEGDNVVSQ  216 (474)
T ss_pred             ceEEEEEeeccccchhHHHHHHHHHHHHHHHhcCCCCCceE-EEEEeecCCCcccc
Confidence            678899999986422111111    12222332   13678 99999999999764

>TIGR00485 EF-Tu translation elongation factor TU

Probab=95.81  E-value=0.018  Score=41.89  Aligned_cols=46  Identities=22%  Similarity=0.151  Sum_probs=28.6

Q ss_pred             CCCeEE-EEEecCCCCCCCCCC---HHHHHHHhhhcCC----cceEEEcccCCCC
Q psy5780          10 SAHDSR-VWSNKCDLESEREVD---FNEAEEMGEYVPE----IHYVMETSAKDST   56 (106)
Q Consensus        10 ~~ip~i-lv~nK~Dl~~~~~~~---~~~~~~~~~~~~~----~~~~~~~Sa~~~~   56 (106)
                      .++|.+ +|+||+|+.+.....   ..+...+.+.++.    +++ +.+||+++.
T Consensus       126 ~gi~~iIvvvNK~Dl~~~~~~~~~~~~~i~~~l~~~~~~~~~~~i-i~vSa~~g~  179 (394)
T TIGR00485       126 VGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSEYDFPGDDTPI-IRGSALKAL  179 (394)
T ss_pred             cCCCEEEEEEEecccCCHHHHHHHHHHHHHHHHHhcCCCccCccE-EECcccccc
Confidence            467765 689999986432211   1234444554411    689 999999885

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.

>PLN00043 elongation factor 1-alpha; Provisional

Probab=95.71  E-value=0.013  Score=43.53  Aligned_cols=50  Identities=18%  Similarity=0.114  Sum_probs=32.2

Q ss_pred             CCCe-EEEEEecCCCCCCCC------CCHHHHHHHhhhcC----CcceEEEcccCCCCCHHH
Q psy5780          10 SAHD-SRVWSNKCDLESERE------VDFNEAEEMGEYVP----EIHYVMETSAKDSTNVEE   60 (106)
Q Consensus        10 ~~ip-~ilv~nK~Dl~~~~~------~~~~~~~~~~~~~~----~~~~~~~~Sa~~~~~v~~   60 (106)
                      .++| +|+++||+|+.+...      ...++...+.+..+    .++| +++||++|.|+.+
T Consensus       143 ~gi~~iIV~vNKmD~~~~~~~~~~~~~i~~ei~~~l~~~g~~~~~~~~-ipiSa~~G~ni~~  203 (447)
T PLN00043        143 LGVKQMICCCNKMDATTPKYSKARYDEIVKEVSSYLKKVGYNPDKIPF-VPISGFEGDNMIE  203 (447)
T ss_pred             cCCCcEEEEEEcccCCchhhhHHHHHHHHHHHHHHHHHcCCCcccceE-EEEeccccccccc
Confidence            4675 688899999862111      01233455555551    2579 9999999999853

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

Probab=95.70  E-value=0.023  Score=40.19  Aligned_cols=31  Identities=16%  Similarity=0.177  Sum_probs=25.6

Q ss_pred             CcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          43 EIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        43 ~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..++ +.|||.+|+|+++++..+.+.......
T Consensus       228 ~ppv-~~t~A~~g~Gi~~L~~ai~~h~~~~~~  258 (323)
T COG1703         228 RPPV-VTTSALEGEGIDELWDAIEDHRKFLTE  258 (323)
T ss_pred             CCce-eEeeeccCCCHHHHHHHHHHHHHHHHh
Confidence            3468 999999999999999998877665544

>KOG1423|consensus

Probab=95.70  E-value=0.017  Score=41.22  Aligned_cols=27  Identities=11%  Similarity=0.027  Sum_probs=22.6

Q ss_pred             ceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          45 HYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        45 ~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .+ |.+||++|.||+++-++|....+..
T Consensus       247 ~v-F~vSaL~G~GikdlkqyLmsqa~~g  273 (379)
T KOG1423|consen  247 RV-FMVSALYGEGIKDLKQYLMSQAPPG  273 (379)
T ss_pred             eE-EEEecccccCHHHHHHHHHhcCCCC
Confidence            47 9999999999999999987665443

>PRK12735 elongation factor Tu; Reviewed

Probab=95.61  E-value=0.022  Score=41.57  Aligned_cols=59  Identities=19%  Similarity=0.188  Sum_probs=35.9

Q ss_pred             CCCeEE-EEEecCCCCCCCCCC---HHHHHHHhhhcC----CcceEEEcccCCCC----------CHHHHHHHHHHHH
Q psy5780          10 SAHDSR-VWSNKCDLESEREVD---FNEAEEMGEYVP----EIHYVMETSAKDST----------NVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~i-lv~nK~Dl~~~~~~~---~~~~~~~~~~~~----~~~~~~~~Sa~~~~----------~v~~lf~~l~~~i   69 (106)
                      .++|.+ ++.||+|+.+.....   ..+...+.+.++    .+++ +.+||+++.          ++..+++.|...+
T Consensus       126 ~gi~~iivvvNK~Dl~~~~~~~~~~~~ei~~~l~~~~~~~~~~~i-i~~Sa~~g~n~~~~~~w~~~~~~Ll~~l~~~~  202 (396)
T PRK12735        126 VGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYDFPGDDTPI-IRGSALKALEGDDDEEWEAKILELMDAVDSYI  202 (396)
T ss_pred             cCCCeEEEEEEecCCcchHHHHHHHHHHHHHHHHHcCCCcCceeE-EecchhccccCCCCCcccccHHHHHHHHHhcC
Confidence            468866 579999986422111   113334444431    2678 999999985          5666666665544

>PRK09602 translation-associated GTPase; Reviewed

Probab=95.58  E-value=0.011  Score=43.33  Aligned_cols=54  Identities=20%  Similarity=0.150  Sum_probs=36.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHH-HHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEE-AFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~-lf~~l~~~i   69 (106)
                      ...|+|+|.||.|+....    .....+.+. ++..+ +.+||+.+.++++ +...+++.+
T Consensus       216 t~KPvI~VlNK~D~~~~~----~~l~~i~~~-~~~~v-vpISA~~e~~l~~~l~~~i~~~l  270 (396)
T PRK09602        216 ISKPMVIAANKADLPPAE----ENIERLKEE-KYYIV-VPTSAEAELALRRAAKAGLIDYI  270 (396)
T ss_pred             cCCCEEEEEEchhcccch----HHHHHHHhc-CCCcE-EEEcchhhhhHHHHHHHhHHhhC
Confidence            458999999999975321    112223222 36678 9999999999988 555554443

>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=95.55  E-value=0.012  Score=40.72  Aligned_cols=58  Identities=12%  Similarity=0.032  Sum_probs=32.4

Q ss_pred             eEEEEEecCCCCCCCCCCH--HHHHHHhhh----cCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          13 DSRVWSNKCDLESEREVDF--NEAEEMGEY----VPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        13 p~ilv~nK~Dl~~~~~~~~--~~~~~~~~~----~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .=|+|.||.|.+.......  ..+..+...    | ..++ +.+||.++.|++++++.|.+.....
T Consensus       169 aDi~vVNKaD~~gA~~~~~~l~~~l~l~~~~~~~W-~ppV-~~tsA~~~~Gi~eL~~~i~~~~~~l  232 (266)
T PF03308_consen  169 ADIFVVNKADRPGADRTVRDLRSMLHLLREREDGW-RPPV-LKTSALEGEGIDELWEAIDEHRDYL  232 (266)
T ss_dssp             -SEEEEE--SHHHHHHHHHHHHHHHHHCSTSCTSB---EE-EEEBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             ccEEEEeCCChHHHHHHHHHHHHHHhhccccccCC-CCCE-EEEEeCCCCCHHHHHHHHHHHHHHH
Confidence            3478899999642111111  111122221    2 3478 9999999999999998887654433

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.

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=95.43  E-value=0.024  Score=41.46  Aligned_cols=47  Identities=23%  Similarity=0.246  Sum_probs=29.1

Q ss_pred             eEEEEEecCCCCCCCCCCH----HHHHHHhhhc--CCcceEEEcccCCCCCHHH
Q psy5780          13 DSRVWSNKCDLESEREVDF----NEAEEMGEYV--PEIHYVMETSAKDSTNVEE   60 (106)
Q Consensus        13 p~ilv~nK~Dl~~~~~~~~----~~~~~~~~~~--~~~~~~~~~Sa~~~~~v~~   60 (106)
                      ++++|+||+|+.+......    +....+.+..  ...++ +.+||++|.|+++
T Consensus       135 ~iivviNK~D~~~~~~~~~~~i~~~~~~~~~~~~~~~~~i-ipiSA~~g~ni~~  187 (406)
T TIGR02034       135 HVVLAVNKMDLVDYDEEVFENIKKDYLAFAEQLGFRDVTF-IPLSALKGDNVVS  187 (406)
T ss_pred             cEEEEEEecccccchHHHHHHHHHHHHHHHHHcCCCCccE-EEeecccCCCCcc
Confidence            4788999999864221111    1122233333  12468 9999999999875

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).

>KOG0071|consensus

Probab=95.39  E-value=0.044  Score=34.94  Aligned_cols=57  Identities=19%  Similarity=0.156  Sum_probs=41.5

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhc----CCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYV----PEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~----~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .++|+++.+||-|+++.  ...++...+.+..    ..+.+ ..++|.+|.++.+-|.++...+
T Consensus       117 ~~~~~LvlANkQDlp~A--~~pqei~d~leLe~~r~~~W~v-qp~~a~~gdgL~eglswlsnn~  177 (180)
T KOG0071|consen  117 RDAIILILANKQDLPDA--MKPQEIQDKLELERIRDRNWYV-QPSCALSGDGLKEGLSWLSNNL  177 (180)
T ss_pred             hcceEEEEecCcccccc--cCHHHHHHHhccccccCCccEe-eccccccchhHHHHHHHHHhhc
Confidence            46799999999999854  3455555554322    12446 8999999999999999987654

>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=95.36  E-value=0.017  Score=39.46  Aligned_cols=58  Identities=19%  Similarity=0.111  Sum_probs=32.5

Q ss_pred             CCCeEEEEEecCCCCCCCC----------------------CCHHHHHHHhhhcCCc-ceEEEcccCCCCCHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESERE----------------------VDFNEAEEMGEYVPEI-HYVMETSAKDSTNVEEAFYCLA   66 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~----------------------~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~lf~~l~   66 (106)
                      .+.|.|.|.||+|+.+...                      ...+........+... .+ +.+|+.+++++++++..+-
T Consensus       155 ~~lP~vnvlsK~Dl~~~~~~~~l~~~~d~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~f-~pls~~~~~~~~~L~~~id  233 (238)
T PF03029_consen  155 LELPHVNVLSKIDLLSKYLEFILEWFEDPDSLEDLLESDYKKLNEEIAELLDDFGLVIRF-IPLSSKDGEGMEELLAAID  233 (238)
T ss_dssp             HTSEEEEEE--GGGS-HHHHHHHHHHHSHHHHHHHHHT-HHHHHHHHHHHCCCCSSS----EE-BTTTTTTHHHHHHHHH
T ss_pred             CCCCEEEeeeccCcccchhHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHhhcCCCceE-EEEECCChHHHHHHHHHHH
Confidence            4689999999999975110                      0001112222333233 68 9999999999999987765


Q ss_pred             HH
Q psy5780          67 NE   68 (106)
Q Consensus        67 ~~   68 (106)
                      +.
T Consensus       234 ~a  235 (238)
T PF03029_consen  234 KA  235 (238)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=95.08  E-value=0.044  Score=41.08  Aligned_cols=62  Identities=15%  Similarity=0.029  Sum_probs=45.4

Q ss_pred             CCCeEEEEEecCCCCC----CCC-------CCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          10 SAHDSRVWSNKCDLES----ERE-------VDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~----~~~-------~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      .++|++||.+|+|...    ...       +....++.++-.+ |..+ |-||++...+++.++..|...+....
T Consensus       195 lGipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~~cL~y-GAsL-~yts~~~~~n~~~L~~yi~h~l~~~~  267 (472)
T PF05783_consen  195 LGIPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRTFCLKY-GASL-IYTSVKEEKNLDLLYKYILHRLYGFP  267 (472)
T ss_pred             cCcceEEEEecccHHHHHhhhcccchhhHHHHHHHHHHHHHhc-CCeE-EEeeccccccHHHHHHHHHHHhccCC
Confidence            4799999999999631    111       1122345667778 8888 88999999999988888877776554

The light intermediate chains (LICs) of cytoplasmic dynein consist of multiple isoforms, which undergo post-translational modification to produce a large number of species. DLIC1 is known to be involved in assembly, organisation, and function of centrosomes and mitotic spindles when bound to pericentrin [, ]. DLIC2 is a subunit of cytoplasmic dynein 2 that may play a role in maintaining Golgi organisation by binding cytoplasmic dynein 2 to its Golgi-associated cargo [].

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=94.69  E-value=0.01  Score=35.27  Aligned_cols=41  Identities=34%  Similarity=0.281  Sum_probs=27.6

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVE   59 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~   59 (106)
                      ..++|.++++||.|+.+...+.        ... ...+ +++|++++.|+.
T Consensus        75 k~dl~~~~~~nk~dl~~~~~~~--------~~~-~~~~-~~~s~~~~~~~~  115 (124)
T smart00010       75 KSDLPILVGGNRDVLEEERQVA--------TEE-GLEF-AETSAKTPEEGE  115 (124)
T ss_pred             CCCCcEEEEeechhhHhhCcCC--------HHH-HHHH-HHHhCCCcchhh
Confidence            4568888999999974322222        222 3356 888999999874

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

>CHL00071 tufA elongation factor Tu

Probab=94.66  E-value=0.046  Score=40.07  Aligned_cols=48  Identities=21%  Similarity=0.061  Sum_probs=29.6

Q ss_pred             CCCe-EEEEEecCCCCCCCCCC---HHHHHHHhhhcC----CcceEEEcccCCCCCH
Q psy5780          10 SAHD-SRVWSNKCDLESEREVD---FNEAEEMGEYVP----EIHYVMETSAKDSTNV   58 (106)
Q Consensus        10 ~~ip-~ilv~nK~Dl~~~~~~~---~~~~~~~~~~~~----~~~~~~~~Sa~~~~~v   58 (106)
                      .++| +|++.||+|+.+.....   ..+...+.+..+    .+++ +.+||.+|.|+
T Consensus       126 ~g~~~iIvvvNK~D~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~i-i~~Sa~~g~n~  181 (409)
T CHL00071        126 VGVPNIVVFLNKEDQVDDEELLELVELEVRELLSKYDFPGDDIPI-VSGSALLALEA  181 (409)
T ss_pred             cCCCEEEEEEEccCCCCHHHHHHHHHHHHHHHHHHhCCCCCcceE-EEcchhhcccc
Confidence            5688 67899999986432211   112333444331    2678 99999998753

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=94.62  E-value=0.062  Score=41.51  Aligned_cols=48  Identities=19%  Similarity=0.220  Sum_probs=29.5

Q ss_pred             CeEEEEEecCCCCCCCCCCH----HHHHHHhhhc--CCcceEEEcccCCCCCHHH
Q psy5780          12 HDSRVWSNKCDLESEREVDF----NEAEEMGEYV--PEIHYVMETSAKDSTNVEE   60 (106)
Q Consensus        12 ip~ilv~nK~Dl~~~~~~~~----~~~~~~~~~~--~~~~~~~~~Sa~~~~~v~~   60 (106)
                      .++|+|.||+|+.+......    .+...+.+..  ...++ +.+||++|.|+++
T Consensus       158 ~~iivvvNK~D~~~~~~~~~~~i~~~i~~~~~~~~~~~~~i-ipiSA~~g~ni~~  211 (632)
T PRK05506        158 RHVVLAVNKMDLVDYDQEVFDEIVADYRAFAAKLGLHDVTF-IPISALKGDNVVT  211 (632)
T ss_pred             CeEEEEEEecccccchhHHHHHHHHHHHHHHHHcCCCCccE-EEEecccCCCccc
Confidence            46788999999864221101    1122233343  12468 9999999999874

>cd04168 TetM_like Tet(M)-like subfamily

Probab=94.53  E-value=0.21  Score=33.94  Aligned_cols=26  Identities=15%  Similarity=0.134  Sum_probs=21.2

Q ss_pred             cceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          44 IHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        44 ~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      +++ |.-||.++.||..+++.+.+.++
T Consensus       210 ~Pv-~~gsa~~~~Gv~~ll~~~~~~~p  235 (237)
T cd04168         210 FPV-YHGSALKGIGIEELLEGITKLFP  235 (237)
T ss_pred             EEE-EEccccCCcCHHHHHHHHHHhcC
Confidence            467 77899999999999988887654

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.

>KOG0466|consensus

Probab=94.27  E-value=0.044  Score=39.26  Aligned_cols=60  Identities=13%  Similarity=0.104  Sum_probs=42.5

Q ss_pred             eEEEEEecCCCCCCCC--CCHHHHHHHhhhc--CCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          13 DSRVWSNKCDLESERE--VDFNEAEEMGEYV--PEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        13 p~ilv~nK~Dl~~~~~--~~~~~~~~~~~~~--~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      -++++-||+||..+.+  ...++...|....  .+.++ +.+||.-+.|++.+.+.+++.++.-.
T Consensus       181 hiiilQNKiDli~e~~A~eq~e~I~kFi~~t~ae~aPi-iPisAQlkyNId~v~eyivkkIPvPv  244 (466)
T KOG0466|consen  181 HIIILQNKIDLIKESQALEQHEQIQKFIQGTVAEGAPI-IPISAQLKYNIDVVCEYIVKKIPVPV  244 (466)
T ss_pred             eEEEEechhhhhhHHHHHHHHHHHHHHHhccccCCCce-eeehhhhccChHHHHHHHHhcCCCCc
Confidence            5788899999965332  1223334444331  24688 99999999999999999998887543

>KOG1144|consensus

Probab=93.92  E-value=0.12  Score=40.93  Aligned_cols=29  Identities=14%  Similarity=0.138  Sum_probs=25.2

Q ss_pred             ceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          45 HYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        45 ~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .+ +.|||.+|+||.+|+..|+.....++.
T Consensus       663 si-VPTSA~sGeGipdLl~llv~ltQk~m~  691 (1064)
T KOG1144|consen  663 SI-VPTSAISGEGIPDLLLLLVQLTQKTMV  691 (1064)
T ss_pred             Ee-eecccccCCCcHHHHHHHHHHHHHHHH
Confidence            45 799999999999999999988777765

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=93.63  E-value=0.069  Score=39.68  Aligned_cols=50  Identities=18%  Similarity=0.078  Sum_probs=29.5

Q ss_pred             CCCe-EEEEEecCCCCC--CCC--C--CHHHHHHHhhhcC----CcceEEEcccCCCCCHHH
Q psy5780          10 SAHD-SRVWSNKCDLES--ERE--V--DFNEAEEMGEYVP----EIHYVMETSAKDSTNVEE   60 (106)
Q Consensus        10 ~~ip-~ilv~nK~Dl~~--~~~--~--~~~~~~~~~~~~~----~~~~~~~~Sa~~~~~v~~   60 (106)
                      .++| +|++.||+|...  ...  +  ...+...+....+    .+++ +.+||.+|.|+.+
T Consensus       143 ~gi~~iiv~vNKmD~~~~~~~~~~~~~i~~~i~~~l~~~g~~~~~~~~-ipiSa~~g~ni~~  203 (446)
T PTZ00141        143 LGVKQMIVCINKMDDKTVNYSQERYDEIKKEVSAYLKKVGYNPEKVPF-IPISGWQGDNMIE  203 (446)
T ss_pred             cCCCeEEEEEEccccccchhhHHHHHHHHHHHHHHHHhcCCCcccceE-EEeecccCCCccc
Confidence            4677 568999999532  110  0  0122233333221    3578 9999999999854

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=93.58  E-value=0.11  Score=38.42  Aligned_cols=58  Identities=19%  Similarity=0.200  Sum_probs=39.1

Q ss_pred             CCeE-EEEEecCCCCCCCCCCHHHHHHHhhh--cCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          11 AHDS-RVWSNKCDLESEREVDFNEAEEMGEY--VPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        11 ~ip~-ilv~nK~Dl~~~~~~~~~~~~~~~~~--~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      +++- ++|.||+|..+...+. +........  +...++ |.+|+++|+||++|...|.+..-
T Consensus       102 gi~~giivltk~D~~d~~r~e-~~i~~Il~~l~l~~~~i-~~~s~~~g~GI~~Lk~~l~~L~~  162 (447)
T COG3276         102 GIKNGIIVLTKADRVDEARIE-QKIKQILADLSLANAKI-FKTSAKTGRGIEELKNELIDLLE  162 (447)
T ss_pred             CCCceEEEEeccccccHHHHH-HHHHHHHhhcccccccc-cccccccCCCHHHHHHHHHHhhh
Confidence            4454 8999999987543211 111111111  335678 99999999999999999988773

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=93.29  E-value=0.11  Score=37.90  Aligned_cols=46  Identities=24%  Similarity=0.211  Sum_probs=30.4

Q ss_pred             eEEEEEecCCCCCCCCCCHH----HHHHHhhhcC--CcceEEEcccCCCCCHH
Q psy5780          13 DSRVWSNKCDLESEREVDFN----EAEEMGEYVP--EIHYVMETSAKDSTNVE   59 (106)
Q Consensus        13 p~ilv~nK~Dl~~~~~~~~~----~~~~~~~~~~--~~~~~~~~Sa~~~~~v~   59 (106)
                      -++|..||+||.+..+...+    +...|++..+  ...+ +.+||..|.||-
T Consensus       141 hvvvAVNKmDLvdy~e~~F~~I~~dy~~fa~~L~~~~~~~-IPiSAl~GDNV~  192 (431)
T COG2895         141 HVVVAVNKMDLVDYSEEVFEAIVADYLAFAAQLGLKDVRF-IPISALLGDNVV  192 (431)
T ss_pred             EEEEEEeeecccccCHHHHHHHHHHHHHHHHHcCCCcceE-EechhccCCccc
Confidence            45777999999875442222    2234555551  2368 999999999973

>PRK12740 elongation factor G; Reviewed

Probab=93.22  E-value=0.29  Score=38.10  Aligned_cols=28  Identities=14%  Similarity=0.140  Sum_probs=24.0

Q ss_pred             cceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          44 IHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        44 ~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      +++ |..||++|.|++.+++.+...++.-
T Consensus       237 ~Pv-~~gSA~~~~Gv~~LLd~i~~~lPsp  264 (668)
T PRK12740        237 VPV-FCGSALKNKGVQRLLDAVVDYLPSP  264 (668)
T ss_pred             EEE-EeccccCCccHHHHHHHHHHHCCCh
Confidence            457 8899999999999999999887644

>cd04167 Snu114p Snu114p subfamily

Probab=93.17  E-value=0.059  Score=35.73  Aligned_cols=15  Identities=20%  Similarity=-0.057  Sum_probs=13.0

Q ss_pred             CCCeEEEEEecCCCC
Q psy5780          10 SAHDSRVWSNKCDLE   24 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~   24 (106)
                      .++|+++|+||+|+.
T Consensus       122 ~~~p~iiviNK~D~~  136 (213)
T cd04167         122 EGLPIVLVINKIDRL  136 (213)
T ss_pred             cCCCEEEEEECcccC
Confidence            458999999999975

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.

>COG1084 Predicted GTPase [General function prediction only]

Probab=92.96  E-value=0.18  Score=36.26  Aligned_cols=57  Identities=16%  Similarity=0.031  Sum_probs=37.4

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      +.|+++|.||+|+.+...  .+.........++... ...++..+.+++.+...+.+...
T Consensus       280 ~~p~v~V~nK~D~~~~e~--~~~~~~~~~~~~~~~~-~~~~~~~~~~~d~~~~~v~~~a~  336 (346)
T COG1084         280 KAPIVVVINKIDIADEEK--LEEIEASVLEEGGEEP-LKISATKGCGLDKLREEVRKTAL  336 (346)
T ss_pred             CCCeEEEEecccccchhH--HHHHHHHHHhhccccc-cceeeeehhhHHHHHHHHHHHhh
Confidence            479999999999875433  2333333343324446 77788888888877776665543

>PLN03127 Elongation factor Tu; Provisional

Probab=92.90  E-value=0.13  Score=38.28  Aligned_cols=60  Identities=22%  Similarity=0.200  Sum_probs=32.5

Q ss_pred             CCCe-EEEEEecCCCCCCCCCCH---HHHHHHhhhc----CCcceEEEcccC---CCCC-------HHHHHHHHHHHHH
Q psy5780          10 SAHD-SRVWSNKCDLESEREVDF---NEAEEMGEYV----PEIHYVMETSAK---DSTN-------VEEAFYCLANELK   70 (106)
Q Consensus        10 ~~ip-~ilv~nK~Dl~~~~~~~~---~~~~~~~~~~----~~~~~~~~~Sa~---~~~~-------v~~lf~~l~~~i~   70 (106)
                      .++| +|++.||+|+.+......   .+...+....    ..+++ +.+||.   ++.|       +..+++.+...++
T Consensus       175 ~gip~iIvviNKiDlv~~~~~~~~i~~~i~~~l~~~~~~~~~vpi-ip~Sa~sa~~g~n~~~~~~~i~~Ll~~l~~~lp  252 (447)
T PLN03127        175 VGVPSLVVFLNKVDVVDDEELLELVEMELRELLSFYKFPGDEIPI-IRGSALSALQGTNDEIGKNAILKLMDAVDEYIP  252 (447)
T ss_pred             cCCCeEEEEEEeeccCCHHHHHHHHHHHHHHHHHHhCCCCCcceE-EEeccceeecCCCcccccchHHHHHHHHHHhCC
Confidence            5688 478899999864222111   1112222221    02567 777775   4555       5666666655543

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=92.51  E-value=0.28  Score=36.28  Aligned_cols=61  Identities=13%  Similarity=0.025  Sum_probs=35.7

Q ss_pred             CCCeEEEEEecCCCCCCCCCC--HHHH-----------------------HHHhhhcC-CcceEEEcccCCCCCHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVD--FNEA-----------------------EEMGEYVP-EIHYVMETSAKDSTNVEEAFY   63 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~--~~~~-----------------------~~~~~~~~-~~~~~~~~Sa~~~~~v~~lf~   63 (106)
                      -++|+|+|.+|+|+.++..+.  .++.                       ....+... -.++ |.+|+-+|+|++- +.
T Consensus       254 ~~lPviVvvTK~D~~~ddr~~~v~~ei~~~Lk~v~Rip~~vk~~~d~v~aa~a~k~~~~vvPi-~~tSsVTg~Gldl-L~  331 (527)
T COG5258         254 MELPVIVVVTKIDMVPDDRFQGVVEEISALLKRVGRIPLIVKDTDDVVLAAKAMKAGRGVVPI-FYTSSVTGEGLDL-LD  331 (527)
T ss_pred             hcCCEEEEEEecccCcHHHHHHHHHHHHHHHHHhcccceeeeccchhHHhhhhhhcCCceEEE-EEEecccCccHHH-HH
Confidence            468999999999996542110  0000                       11111110 2478 9999999999864 44


Q ss_pred             HHHHHHHHh
Q psy5780          64 CLANELKNR   72 (106)
Q Consensus        64 ~l~~~i~~~   72 (106)
                      .+...++..
T Consensus       332 e~f~~Lp~r  340 (527)
T COG5258         332 EFFLLLPKR  340 (527)
T ss_pred             HHHHhCCcc
Confidence            454455544

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=92.45  E-value=0.18  Score=32.63  Aligned_cols=16  Identities=25%  Similarity=0.154  Sum_probs=13.9

Q ss_pred             CCCeEEEEEecCCCCC
Q psy5780          10 SAHDSRVWSNKCDLES   25 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~   25 (106)
                      .+.|+|+|.||+||.+
T Consensus        29 ~~kp~IlVlNK~DL~~   44 (172)
T cd04178          29 GNKKLVLVLNKIDLVP   44 (172)
T ss_pred             CCCCEEEEEehhhcCC
Confidence            4689999999999964

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

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=92.41  E-value=0.48  Score=36.08  Aligned_cols=28  Identities=14%  Similarity=-0.005  Sum_probs=24.3

Q ss_pred             cceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          44 IHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        44 ~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .++ |.-||.++.||..+++.+++.++.=
T Consensus       249 ~PV-~~GSA~~n~Gv~~LLd~i~~~~P~P  276 (526)
T PRK00741        249 TPV-FFGSALNNFGVQEFLDAFVEWAPAP  276 (526)
T ss_pred             EEE-EEeecccCcCHHHHHHHHHHHCCCC
Confidence            457 8899999999999999999888743

>PRK00049 elongation factor Tu; Reviewed

Probab=92.30  E-value=0.38  Score=35.20  Aligned_cols=46  Identities=22%  Similarity=0.203  Sum_probs=26.9

Q ss_pred             CCCeEE-EEEecCCCCCCCCCC---HHHHHHHhhhc----CCcceEEEcccCCCC
Q psy5780          10 SAHDSR-VWSNKCDLESEREVD---FNEAEEMGEYV----PEIHYVMETSAKDST   56 (106)
Q Consensus        10 ~~ip~i-lv~nK~Dl~~~~~~~---~~~~~~~~~~~----~~~~~~~~~Sa~~~~   56 (106)
                      .++|.+ ++.||+|+.+.....   ..+...+....    ...++ +.+||+++.
T Consensus       126 ~g~p~iiVvvNK~D~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~i-v~iSa~~g~  179 (396)
T PRK00049        126 VGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYDFPGDDTPI-IRGSALKAL  179 (396)
T ss_pred             cCCCEEEEEEeecCCcchHHHHHHHHHHHHHHHHhcCCCccCCcE-EEeeccccc
Confidence            468876 579999986422111   11222333332    13678 999999875

>KOG1191|consensus

Probab=92.04  E-value=0.18  Score=37.98  Aligned_cols=64  Identities=19%  Similarity=0.061  Sum_probs=40.8

Q ss_pred             CCCeEEEEEecCCCCCCC-CCCHHHHHHHhhh--cCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESER-EVDFNEAEEMGEY--VPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~-~~~~~~~~~~~~~--~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..-|+|++.||.|+..+- ..+... ..+...  .+..+.+.++|+++++|++.|...+.+.+...-.
T Consensus       388 ~~~~~i~~~nk~D~~s~~~~~~~~~-~~~~~~~~~~~~~i~~~vs~~tkeg~~~L~~all~~~~~~~~  454 (531)
T KOG1191|consen  388 EKQRIILVANKSDLVSKIPEMTKIP-VVYPSAEGRSVFPIVVEVSCTTKEGCERLSTALLNIVERLVV  454 (531)
T ss_pred             cccceEEEechhhccCccccccCCc-eeccccccCcccceEEEeeechhhhHHHHHHHHHHHHHHhhc
Confidence            457899999999997541 111100 111111  1122332679999999999999999887776644

>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1)

Probab=91.98  E-value=0.13  Score=27.61  Aligned_cols=13  Identities=31%  Similarity=0.153  Sum_probs=8.9

Q ss_pred             CCCeEEEEEecCC
Q psy5780          10 SAHDSRVWSNKCD   22 (106)
Q Consensus        10 ~~ip~ilv~nK~D   22 (106)
                      ++.|+++|.||+|
T Consensus        46 ~~~P~i~V~nK~D   58 (58)
T PF06858_consen   46 PNKPVIVVLNKID   58 (58)
T ss_dssp             TTS-EEEEE--TT
T ss_pred             CCCCEEEEEeccC
Confidence            4789999999998

The NOG1 family includes eukaryotic, bacterial and archaeal proteins. In Saccharomyces cerevisiae, the NOG1 gene has been shown to be essential for cell viability, suggesting that NOG1 may play an important role in nucleolar functions. In particular, NOG1 is believed to be functionally linked to ribosome biogenesis, which occurs in the nucleolus. In eukaryotes, NOG1 mutants were found to disrupt the biogenesis of the 60S ribosomal subunit []. The DRG and OBG proteins as well as the prokaryotic NOG-like proteins are homologous throughout their length to the amino half of eukaryotic NOG1, which contains the GTP binding motifs (IPR006073 from INTERPRO); the N-terminal GTP-binding motif is required for function.; GO: 0005525 GTP binding; PDB: 2E87_A.

>PRK13351 elongation factor G; Reviewed

Probab=91.72  E-value=0.6  Score=36.49  Aligned_cols=28  Identities=14%  Similarity=0.144  Sum_probs=23.7

Q ss_pred             cceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          44 IHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        44 ~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .++ |..||+++.||+.|++.++..++.-
T Consensus       253 ~PV-~~gSA~~~~Gv~~LLd~I~~~lPsP  280 (687)
T PRK13351        253 VPV-LFGSALKNIGIEPLLDAVVDYLPSP  280 (687)
T ss_pred             EEE-EecccCcCccHHHHHHHHHHHCCCh
Confidence            356 7889999999999999999887654

>COG1161 Predicted GTPases [General function prediction only]

Probab=90.83  E-value=0.39  Score=34.22  Aligned_cols=49  Identities=18%  Similarity=0.056  Sum_probs=31.5

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHH
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAF   62 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf   62 (106)
                      +.|.++|+||.||.+.. +.......+.... +... +.++++.+.++..+.
T Consensus        61 ~k~~i~vlNK~DL~~~~-~~~~W~~~~~~~~-~~~~-~~v~~~~~~~~~~i~  109 (322)
T COG1161          61 EKPKLLVLNKADLAPKE-VTKKWKKYFKKEE-GIKP-IFVSAKSRQGGKKIR  109 (322)
T ss_pred             cCCcEEEEehhhcCCHH-HHHHHHHHHHhcC-CCcc-EEEEeecccCccchH
Confidence            34669999999997543 2333344445554 5556 777888777766555

>KOG0461|consensus

Probab=90.05  E-value=0.77  Score=33.68  Aligned_cols=59  Identities=27%  Similarity=0.241  Sum_probs=30.4

Q ss_pred             eEEEEEecCCCCCCCC--CCHHH-HHHHh---hh--c-CCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          13 DSRVWSNKCDLESERE--VDFNE-AEEMG---EY--V-PEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        13 p~ilv~nK~Dl~~~~~--~~~~~-~~~~~---~~--~-~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      ..++|.||+|+..+.+  -..+. .....   +.  + +..++ +++||+.|.--++...++.+.+..+
T Consensus       124 klvvvinkid~lpE~qr~ski~k~~kk~~KtLe~t~f~g~~PI-~~vsa~~G~~~~~~i~eL~e~l~s~  191 (522)
T KOG0461|consen  124 KLVVVINKIDVLPENQRASKIEKSAKKVRKTLESTGFDGNSPI-VEVSAADGYFKEEMIQELKEALESR  191 (522)
T ss_pred             ceEEEEeccccccchhhhhHHHHHHHHHHHHHHhcCcCCCCce-eEEecCCCccchhHHHHHHHHHHHh
Confidence            4678889999754321  11111 11121   11  2 12678 9999999944444444444434333

>cd00066 G-alpha G protein alpha subunit

Probab=89.82  E-value=0.73  Score=32.72  Aligned_cols=63  Identities=24%  Similarity=0.230  Sum_probs=40.5

Q ss_pred             CCCeEEEEEecCCCCCCC----------------CCCHHHHHHHhhh-----c----CCcceEEEcccCCCCCHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESER----------------EVDFNEAEEMGEY-----V----PEIHYVMETSAKDSTNVEEAFYC   64 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~----------------~~~~~~~~~~~~~-----~----~~~~~~~~~Sa~~~~~v~~lf~~   64 (106)
                      .++|++|++||.|+....                .-..+.+..+...     .    ..+.. ..|+|.+-.++..+|..
T Consensus       227 ~~~pill~~NK~D~f~~ki~~~~l~~~fp~y~g~~~~~~~~~~~i~~~F~~~~~~~~~~~~~-~~t~a~Dt~~i~~vf~~  305 (317)
T cd00066         227 ANTSIILFLNKKDLFEEKIKKSPLTDYFPDYTGPPNDYEEAAKFIRKKFLDLNRNPNKEIYP-HFTCATDTENIRFVFDA  305 (317)
T ss_pred             cCCCEEEEccChHHHHHhhcCCCccccCCCCCCCCCCHHHHHHHHHHHHHHhhcCCCCeEEE-EeccccchHHHHHHHHH
Confidence            478999999999974210                1122233332211     1    02344 67899999999999999


Q ss_pred             HHHHHHHhh
Q psy5780          65 LANELKNRQ   73 (106)
Q Consensus        65 l~~~i~~~~   73 (106)
                      +.+.|....
T Consensus       306 v~~~i~~~~  314 (317)
T cd00066         306 VKDIILQNN  314 (317)
T ss_pred             HHHHHHHHH
Confidence            988887653

The alpha subunit of G proteins contains the guanine nucleotide binding site. The heterotrimeric GNP-binding proteins are signal transducers that communicate signals from many hormones, neurotransmitters, chemokines, and autocrine and paracrine factors. Extracellular signals are received by receptors, which activate the G proteins, which in turn route the signals to several distinct intracellular signaling pathways. The alpha subunit of G proteins is a weak GTPase. In the resting state, heterotrimeric G proteins are associated at the cytosolic face of the plasma membrane and the alpha subunit binds to GDP. Upon activation by a receptor GDP is replaced with GTP, and the G-alpha/GTP complex dissociates from the beta and gamma subunits. This results in activation of downstream signaling pathways, such as cAMP synthesis by adenylyl cyclase, which is terminated when GTP is hydrolized and the heterotrimers reconstitute.

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=89.67  E-value=0.4  Score=33.31  Aligned_cols=16  Identities=19%  Similarity=0.088  Sum_probs=14.0

Q ss_pred             CCCeEEEEEecCCCCC
Q psy5780          10 SAHDSRVWSNKCDLES   25 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~   25 (106)
                      .++|++++.||+|+.+
T Consensus       115 ~~~p~ivviNK~D~~~  130 (270)
T cd01886         115 YNVPRIAFVNKMDRTG  130 (270)
T ss_pred             cCCCEEEEEECCCCCC
Confidence            5789999999999864

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

>PLN03126 Elongation factor Tu; Provisional

Probab=89.49  E-value=0.36  Score=36.31  Aligned_cols=47  Identities=21%  Similarity=0.077  Sum_probs=28.1

Q ss_pred             CCCe-EEEEEecCCCCCCCCCCH---HHHHHHhhhc----CCcceEEEcccCCCCC
Q psy5780          10 SAHD-SRVWSNKCDLESEREVDF---NEAEEMGEYV----PEIHYVMETSAKDSTN   57 (106)
Q Consensus        10 ~~ip-~ilv~nK~Dl~~~~~~~~---~~~~~~~~~~----~~~~~~~~~Sa~~~~~   57 (106)
                      .++| +|++.||+|+.+......   .+...+....    ..+++ +.+||.++.+
T Consensus       195 ~gi~~iIvvvNK~Dl~~~~~~~~~i~~~i~~~l~~~g~~~~~~~~-vp~Sa~~g~n  249 (478)
T PLN03126        195 VGVPNMVVFLNKQDQVDDEELLELVELEVRELLSSYEFPGDDIPI-ISGSALLALE  249 (478)
T ss_pred             cCCCeEEEEEecccccCHHHHHHHHHHHHHHHHHhcCCCcCcceE-EEEEcccccc
Confidence            4678 678899999864221111   1233333332    14578 8999988854

>PRK12739 elongation factor G; Reviewed

Probab=89.22  E-value=1.4  Score=34.59  Aligned_cols=26  Identities=15%  Similarity=0.111  Sum_probs=22.3

Q ss_pred             ceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          45 HYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        45 ~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      ++ +..||.++.|++.+++.|++.++.
T Consensus       254 Pv-~~gSa~~~~Gv~~LLd~I~~~lPs  279 (691)
T PRK12739        254 PV-LCGSAFKNKGVQPLLDAVVDYLPS  279 (691)
T ss_pred             EE-EeccccCCccHHHHHHHHHHHCCC
Confidence            56 778999999999999999888764

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=89.00  E-value=0.55  Score=31.01  Aligned_cols=16  Identities=25%  Similarity=0.104  Sum_probs=14.3

Q ss_pred             CCCeEEEEEecCCCCC
Q psy5780          10 SAHDSRVWSNKCDLES   25 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~   25 (106)
                      +++|+++|+||.|+..
T Consensus       108 ~~~pvliv~NK~Dl~~  123 (203)
T cd04105         108 NKIPVLIACNKQDLFT  123 (203)
T ss_pred             CCCCEEEEecchhhcc
Confidence            6899999999999864

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

>KOG1424|consensus

Probab=88.65  E-value=0.49  Score=36.00  Aligned_cols=41  Identities=20%  Similarity=0.021  Sum_probs=26.9

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCC
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKD   54 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~   54 (106)
                      +..-.+|+.||.||....+  ......+.... ++++ +..||..
T Consensus       204 ~~K~~~LLvNKaDLl~~~q--r~aWa~YF~~~-ni~~-vf~SA~~  244 (562)
T KOG1424|consen  204 PSKANVLLVNKADLLPPEQ--RVAWAEYFRQN-NIPV-VFFSALA  244 (562)
T ss_pred             cccceEEEEehhhcCCHHH--HHHHHHHHHhc-CceE-EEEeccc
Confidence            3456788899999975332  22234445555 6888 8888876

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=88.17  E-value=0.34  Score=36.25  Aligned_cols=56  Identities=5%  Similarity=0.010  Sum_probs=33.2

Q ss_pred             cCCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccC--CCCCHHHHHHHHH
Q psy5780           7 WPDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAK--DSTNVEEAFYCLA   66 (106)
Q Consensus         7 ~~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~--~~~~v~~lf~~l~   66 (106)
                      +...++|+++|.||.|-....  .......+.+.+ +.++ +.+|+.  +...|..++..+.
T Consensus       176 Lk~~~kPfiivlN~~dp~~~e--t~~l~~~l~eky-~vpv-l~v~c~~l~~~DI~~il~~vL  233 (492)
T TIGR02836       176 LKELNKPFIILLNSTHPYHPE--TEALRQELEEKY-DVPV-LAMDVESMRESDILSVLEEVL  233 (492)
T ss_pred             HHhcCCCEEEEEECcCCCCch--hHHHHHHHHHHh-CCce-EEEEHHHcCHHHHHHHHHHHH
Confidence            455789999999999932211  233344566667 6776 666653  3333444444443

A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis.

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=87.97  E-value=0.47  Score=35.11  Aligned_cols=48  Identities=25%  Similarity=0.273  Sum_probs=30.8

Q ss_pred             eEEEEEecCCCCCCCCCCHHH----HHHHhhhcC----CcceEEEcccCCCCCHHHH
Q psy5780          13 DSRVWSNKCDLESEREVDFNE----AEEMGEYVP----EIHYVMETSAKDSTNVEEA   61 (106)
Q Consensus        13 p~ilv~nK~Dl~~~~~~~~~~----~~~~~~~~~----~~~~~~~~Sa~~~~~v~~l   61 (106)
                      .+|++.||.|+.+..+-..++    ...+.+..+    ...| +.+|+..|.|+.+.
T Consensus       147 ~lIVavNKMD~v~wde~rf~ei~~~v~~l~k~~G~~~~~v~F-IPiSg~~G~Nl~~~  202 (428)
T COG5256         147 QLIVAVNKMDLVSWDEERFEEIVSEVSKLLKMVGYNPKDVPF-IPISGFKGDNLTKK  202 (428)
T ss_pred             eEEEEEEcccccccCHHHHHHHHHHHHHHHHHcCCCccCCeE-EecccccCCccccc
Confidence            578889999998654322222    222333331    2569 99999999998553

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=87.80  E-value=0.92  Score=30.63  Aligned_cols=15  Identities=20%  Similarity=-0.008  Sum_probs=13.1

Q ss_pred             CCCeEEEEEecCCCC
Q psy5780          10 SAHDSRVWSNKCDLE   24 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~   24 (106)
                      .++|+++|+||+|+.
T Consensus       124 ~~~p~ilviNKiD~~  138 (222)
T cd01885         124 ERVKPVLVINKIDRL  138 (222)
T ss_pred             cCCCEEEEEECCCcc
Confidence            468999999999975

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

>cd01850 CDC_Septin CDC/Septin

Probab=87.45  E-value=0.51  Score=32.85  Aligned_cols=41  Identities=15%  Similarity=-0.112  Sum_probs=26.6

Q ss_pred             CCCeEEEEEecCCCCCCCC--CCHHHHHHHhhhcCCcceEEEccc
Q psy5780          10 SAHDSRVWSNKCDLESERE--VDFNEAEEMGEYVPEIHYVMETSA   52 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~Sa   52 (106)
                      .++|+++|+||+|+.....  ............+ ++.+ |....
T Consensus       142 ~~v~vi~VinK~D~l~~~e~~~~k~~i~~~l~~~-~i~~-~~~~~  184 (276)
T cd01850         142 KRVNIIPVIAKADTLTPEELKEFKQRIMEDIEEH-NIKI-YKFPE  184 (276)
T ss_pred             ccCCEEEEEECCCcCCHHHHHHHHHHHHHHHHHc-CCce-ECCCC
Confidence            3689999999999854221  1223344556667 7888 86654

Septins are a conserved family of GTP-binding proteins associated with diverse processes in dividing and non-dividing cells. They were first discovered in the budding yeast S. cerevisiae as a set of genes (CDC3, CDC10, CDC11 and CDC12) required for normal bud morphology. Septins are also present in metazoan cells, where they are required for cytokinesis in some systems, and implicated in a variety of other processes involving organization of the cell cortex and exocytosis. In humans, 12 septin genes generate dozens of polypeptides, many of which comprise heterooligomeric complexes. Since septin mutants are commonly defective in cytokinesis and formation of the neck formation of the neck filaments/septin rings, septins have been considered to be the primary constituents of the neck filaments. Septins belong to the GTPase superfamily for their conserved GTPase motifs and enzymatic activities.

>cd04169 RF3 RF3 subfamily

Probab=86.70  E-value=1.7  Score=30.11  Aligned_cols=16  Identities=25%  Similarity=0.148  Sum_probs=13.9

Q ss_pred             CCCeEEEEEecCCCCC
Q psy5780          10 SAHDSRVWSNKCDLES   25 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~   25 (106)
                      .++|+++++||+|+..
T Consensus       122 ~~~P~iivvNK~D~~~  137 (267)
T cd04169         122 RGIPIITFINKLDREG  137 (267)
T ss_pred             cCCCEEEEEECCccCC
Confidence            5789999999999864

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.

>KOG0077|consensus

Probab=86.12  E-value=0.42  Score=31.33  Aligned_cols=55  Identities=15%  Similarity=0.135  Sum_probs=33.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHH---hhhcC-------------CcceEEEcccCCCCCHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEM---GEYVP-------------EIHYVMETSAKDSTNVEEAFYCLAN   67 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~---~~~~~-------------~~~~~~~~Sa~~~~~v~~lf~~l~~   67 (106)
                      .++|+++.+||+|.+...  ..++....   ....+             -+.+ |.+|...+.+..+.|.++..
T Consensus       120 a~vp~lilgnKId~p~a~--se~~l~~~l~l~~~t~~~~~v~~~~~~~rp~ev-fmcsi~~~~gy~e~fkwl~q  190 (193)
T KOG0077|consen  120 ATVPFLILGNKIDIPYAA--SEDELRFHLGLSNFTTGKGKVNLTDSNVRPLEV-FMCSIVRKMGYGEGFKWLSQ  190 (193)
T ss_pred             hcCcceeecccccCCCcc--cHHHHHHHHHHHHHhcccccccccCCCCCeEEE-EEEEEEccCccceeeeehhh
Confidence            579999999999987543  22222111   11100             0246 77787777776677766654

>smart00275 G_alpha G protein alpha subunit

Probab=85.79  E-value=0.63  Score=33.45  Aligned_cols=63  Identities=22%  Similarity=0.252  Sum_probs=39.8

Q ss_pred             CCCeEEEEEecCCCCCCC--------------C-CCHHHHHHHhh-----hcC-----CcceEEEcccCCCCCHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESER--------------E-VDFNEAEEMGE-----YVP-----EIHYVMETSAKDSTNVEEAFYC   64 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~--------------~-~~~~~~~~~~~-----~~~-----~~~~~~~~Sa~~~~~v~~lf~~   64 (106)
                      .++|++|++||.|+....              . -..+.+..+..     ...     .+.+ ..|+|.+-.++..+|..
T Consensus       250 ~~~piil~~NK~D~~~~Kl~~~~l~~~fp~y~g~~~~~~~~~yi~~~F~~~~~~~~~r~~y~-h~t~a~Dt~~~~~v~~~  328 (342)
T smart00275      250 ANTSIILFLNKIDLFEEKIKKVPLVDYFPDYKGPNDYEAAAKFIKQKFLRLNRNSSRKSIYH-HFTCATDTRNIRVVFDA  328 (342)
T ss_pred             cCCcEEEEEecHHhHHHHhCCCchhccCCCCCCCCCHHHHHHHHHHHHHHhccCCCCceEEE-EEeeecccHHHHHHHHH
Confidence            468999999999984210              0 11222222211     110     2344 67889999999999998


Q ss_pred             HHHHHHHhh
Q psy5780          65 LANELKNRQ   73 (106)
Q Consensus        65 l~~~i~~~~   73 (106)
                      +...|.+..
T Consensus       329 v~~~I~~~~  337 (342)
T smart00275      329 VKDIILQRN  337 (342)
T ss_pred             HHHHHHHHH
Confidence            888777653

Subunit of G proteins that contains the guanine nucleotide binding site

>PF14331 ImcF-related_N: ImcF-related N-terminal domain

Probab=85.60  E-value=1  Score=31.21  Aligned_cols=60  Identities=22%  Similarity=0.227  Sum_probs=31.9

Q ss_pred             CCCCeEEEEEecCCCCCCC-----CCCHHHHHHHhhhcCCcceEEEcccCCCCC---HHHHHHHHHHHHHHhh
Q psy5780           9 DSAHDSRVWSNKCDLESER-----EVDFNEAEEMGEYVPEIHYVMETSAKDSTN---VEEAFYCLANELKNRQ   73 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~-----~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~---v~~lf~~l~~~i~~~~   73 (106)
                      +..+|+.+|.||+|+...=     ..+.   ....+.+ |..+ -.........   +++.|..+.+.+....
T Consensus        67 g~~~PVYvv~Tk~D~l~GF~ef~~~L~~---~~r~q~l-G~t~-~~~~~~~~~~~~~~~~~~~~l~~~L~~~~  134 (266)
T PF14331_consen   67 GVRLPVYVVFTKCDLLPGFDEFFSDLSE---EEREQVL-GFTF-PYDEDADGDAWAWFDEEFDELVARLNARV  134 (266)
T ss_pred             CCCCCeEeeeECCCcccCHHHHHHhCCH---HHHhCCc-cccc-CCccccccchHHHHHHHHHHHHHHHHHHH
Confidence            4679999999999986311     0111   1112334 4332 2222233333   6777777766666553

>KOG2485|consensus

Probab=84.57  E-value=1.4  Score=31.64  Aligned_cols=17  Identities=24%  Similarity=0.221  Sum_probs=14.4

Q ss_pred             CCCeEEEEEecCCCCCC
Q psy5780          10 SAHDSRVWSNKCDLESE   26 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~   26 (106)
                      +..|-|+|.||+||.+.
T Consensus        72 ~~k~riiVlNK~DLad~   88 (335)
T KOG2485|consen   72 PPKPRIIVLNKMDLADP   88 (335)
T ss_pred             CCCceEEEEecccccCc
Confidence            36788999999999874

>KOG2423|consensus

Probab=84.50  E-value=2.1  Score=32.01  Aligned_cols=37  Identities=19%  Similarity=0.141  Sum_probs=25.1

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcce
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHY   46 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~   46 (106)
                      .+..-+|+|.||+||.. ..++......+.+.+|.+.|
T Consensus       242 ~phKHli~vLNKvDLVP-twvt~~Wv~~lSkeyPTiAf  278 (572)
T KOG2423|consen  242 KPHKHLIYVLNKVDLVP-TWVTAKWVRHLSKEYPTIAF  278 (572)
T ss_pred             CCcceeEEEeecccccc-HHHHHHHHHHHhhhCcceee
Confidence            35667899999999974 33455555666666655554

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=84.25  E-value=2.8  Score=27.09  Aligned_cols=32  Identities=28%  Similarity=0.092  Sum_probs=23.3

Q ss_pred             HHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHH
Q psy5780          33 EAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLA   66 (106)
Q Consensus        33 ~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~   66 (106)
                      ......+.. ++++ +.+|++++.+++++...+.
T Consensus         3 ~~~~~y~~~-gy~v-~~~S~~~~~g~~~l~~~l~   34 (161)
T PF03193_consen    3 ELLEQYEKL-GYPV-FFISAKTGEGIEELKELLK   34 (161)
T ss_dssp             HHHHHHHHT-TSEE-EE-BTTTTTTHHHHHHHHT
T ss_pred             HHHHHHHHc-CCcE-EEEeCCCCcCHHHHHHHhc
Confidence            344556677 8888 9999999999988876554

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

>cd01882 BMS1 Bms1

Probab=83.44  E-value=2  Score=28.92  Aligned_cols=48  Identities=6%  Similarity=-0.146  Sum_probs=27.1

Q ss_pred             CCCeE-EEEEecCCCCCCCCCCH---HHHHH-Hhh-hcCCcceEEEcccCCCCCH
Q psy5780          10 SAHDS-RVWSNKCDLESEREVDF---NEAEE-MGE-YVPEIHYVMETSAKDSTNV   58 (106)
Q Consensus        10 ~~ip~-ilv~nK~Dl~~~~~~~~---~~~~~-~~~-~~~~~~~~~~~Sa~~~~~v   58 (106)
                      .++|. ++|.||.|+.+......   ..... +.. ..++.++ +.+||++.-.+
T Consensus       131 ~g~p~vi~VvnK~D~~~~~~~~~~~~~~l~~~~~~~~~~~~ki-~~iSa~~~~~~  184 (225)
T cd01882         131 HGFPRVMGVLTHLDLFKKNKTLRKTKKRLKHRFWTEVYQGAKL-FYLSGIVHGRY  184 (225)
T ss_pred             cCCCeEEEEEeccccCCcHHHHHHHHHHHHHHHHHhhCCCCcE-EEEeeccCCCC
Confidence            45675 45999999863221001   11111 222 2335688 99999988554

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.

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=83.41  E-value=3.2  Score=28.48  Aligned_cols=17  Identities=24%  Similarity=0.309  Sum_probs=14.4

Q ss_pred             CCCCeEEEEEecCCCCC
Q psy5780           9 DSAHDSRVWSNKCDLES   25 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~   25 (106)
                      ..++|.++|+||+|+..
T Consensus       114 ~~~~p~iivvNK~D~~~  130 (268)
T cd04170         114 EAGIPRIIFINKMDRER  130 (268)
T ss_pred             HcCCCEEEEEECCccCC
Confidence            35789999999999864

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

>KOG1143|consensus

Probab=82.14  E-value=3.7  Score=30.60  Aligned_cols=52  Identities=12%  Similarity=0.017  Sum_probs=32.7

Q ss_pred             CCCCeEEEEEecCCCCCCCCC------------------------CHHHHHHHhhh---cCCcceEEEcccCCCCCHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREV------------------------DFNEAEEMGEY---VPEIHYVMETSAKDSTNVEEA   61 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~------------------------~~~~~~~~~~~---~~~~~~~~~~Sa~~~~~v~~l   61 (106)
                      ..++|+.++.+|+||.++..+                        ...++...++.   .+-.++ |.+|.-+|++++-+
T Consensus       301 AL~iPfFvlvtK~Dl~~~~~~~~tv~~l~nll~~~Gc~kvp~~Vt~~ddAv~Aaq~~~s~nivPi-f~vSsVsGegl~ll  379 (591)
T KOG1143|consen  301 ALNIPFFVLVTKMDLVDRQGLKKTVKDLSNLLAKAGCTKVPKRVTTKDDAVKAAQELCSGNIVPI-FAVSSVSGEGLRLL  379 (591)
T ss_pred             HhCCCeEEEEEeeccccchhHHHHHHHHHHHHhhcCccccceEeechHHHHHHHHHhccCCceeE-EEEeecCccchhHH
Confidence            368999999999999764211                        11111111111   113578 99999999998654

>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=80.26  E-value=2.2  Score=25.83  Aligned_cols=32  Identities=31%  Similarity=0.320  Sum_probs=18.6

Q ss_pred             EEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccC
Q psy5780          17 WSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAK   53 (106)
Q Consensus        17 v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~   53 (106)
                      ++||+|++.    ..+-...+.+.++...+ +.+||.
T Consensus         1 AaNK~D~~~----a~~ni~kl~~~~~~~~v-Vp~SA~   32 (109)
T PF08438_consen    1 AANKADLPA----ADENIEKLKEKYPDEPV-VPTSAA   32 (109)
T ss_dssp             EEE-GGG-S-----HHHHHHHHHHHTT-EE-EEE-HH
T ss_pred             CCccccccc----cHhHHHHHHHhCCCCce-eeccHH
Confidence            589999753    34455666666646778 899974

; PDB: 1WXQ_A.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	106
2hup_A	201	Crystal Structure Of Human Rab43 In Complex With Gd		3e-07
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		1e-06
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		1e-06
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		1e-06
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		2e-06
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		2e-06
4fmc_B	171	Espg-Rab1 Complex Length = 171		2e-06
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		2e-06
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		3e-06
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		4e-06
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		5e-06
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		7e-06
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		8e-06
2fg5_A	192	Crystal Structure Of Human Rab31 In Complex With A		2e-05
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		4e-05
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		5e-05
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		1e-04
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		1e-04
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		1e-04
1n6n_A	170	Crystal Structure Of Human Rab5a A30r Mutant Comple		3e-04
1tu3_A	171	Crystal Structure Of Rab5 Complex With Rabaptin5 C-		3e-04
1n6r_A	170	Crystal Structure Of Human Rab5a A30l Mutant Comple		3e-04
1yzt_A	184	Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Leng		3e-04
1n6o_A	170	Crystal Structure Of Human Rab5a A30k Mutant Comple		3e-04
1n6h_A	170	Crystal Structure Of Human Rab5a Length = 170		3e-04
1n6i_A	170	Crystal Structure Of Human Rab5a A30p Mutant Comple		3e-04
3mjh_A	168	Crystal Structure Of Human Rab5a In Complex With Th		3e-04
1yzu_A	170	Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Leng		3e-04
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		3e-04
1n6p_A	170	Crystal Structure Of Human Rab5a A30e Mutant Comple		3e-04
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		6e-04
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		6e-04
1z0d_A	167	Gdp-bound Rab5c Gtpase Length = 167		6e-04
3con_A	190	Crystal Structure Of The Human Nras Gtpase Bound Wi		6e-04
1huq_A	164	1.8a Crystal Structure Of The Monomeric Gtpase Rab5		6e-04

>pdb|2HUP|A Chain A, Crystal Structure Of Human Rab43 In Complex With Gdp Length = 201

Iteration: 1
 Score = 50.4 bits (119), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 29/60 (48%), Positives = 36/60 (60%), Gaps = 1/60 (1%)
Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATL 77
            NK DL   REV   EA+ + E+  +I   +ETSAKDS+NVEEAF  +A EL  R    L
Sbjct: 141 GNKSDLSELREVSLAEAQSLAEHY-DILCAIETSAKDSSNVEEAFLRVATELIMRHGGPL 199

>pdb|3TKL|A Chain A, Crystal Structure Of The Gtp-Bound Rab1a In Complex With The Coiled- Coil Domain Of Lida From Legionella Pneumophila Length = 196

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 24/59 (40%), Positives = 38/59 (64%), Gaps = 6/59 (10%)
Query: 18  SNKCDLESEREVDFNEAEEMGEY--VPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS 74
            NKCDL +++ VD+  A+E  +   +P     +ETSAK++TNVE++F  +A E+K R  
Sbjct: 128 GNKCDLTTKKVVDYTTAKEFADSLGIP----FLETSAKNATNVEQSFMTMAAEIKKRMG 182

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 24/59 (40%), Positives = 38/59 (64%), Gaps = 6/59 (10%)
Query: 18  SNKCDLESEREVDFNEAEEMGEY--VPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS 74
            NKCDL +++ VD+  A+E  +   +P     +ETSAK++TNVE++F  +A E+K R  
Sbjct: 137 GNKCDLTTKKVVDYTTAKEFADSLGIP----FLETSAKNATNVEQSFMTMAAEIKKRMG 191

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 24/57 (42%), Positives = 38/57 (66%), Gaps = 6/57 (10%)
Query: 18  SNKCDLESEREVDFNEAEEMGEY--VPEIHYVMETSAKDSTNVEEAFYCLANELKNR 72
            NKCDL +++ VD+  A+E  +   +P     +ETSAK++TNVE++F  +A E+K R
Sbjct: 111 GNKCDLTTKKVVDYTTAKEFADSLGIP----FLETSAKNATNVEQSFMTMAAEIKKR 163

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 30/91 (32%), Positives = 46/91 (50%), Gaps = 6/91 (6%)
Query: 18  SNKCDLESEREVDFNEAEEMGEY--VPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSA 75
            NKCDL+ +R V+++ A+E  +   +P     +ETSA DSTNVE+AF  +A ++K   S 
Sbjct: 120 GNKCDLKDKRVVEYDVAKEFADANKMP----FLETSALDSTNVEDAFLTMARQIKESMSQ 175
Query: 76  TLCNEPINTDNTNSPITLSNDTKSIRNKCNC 106
              NE          + L   + +    C C
Sbjct: 176 QNLNETTQKKEDKGNVNLKGQSLTNTGGCCC 206

>pdb|3SFV|A Chain A, Crystal Structure Of The Gdp-Bound Rab1a S25n Mutant In Complex With The Coiled-Coil Domain Of Lida From Legionella Pneumophila Length = 181

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 24/57 (42%), Positives = 38/57 (66%), Gaps = 6/57 (10%)
Query: 18  SNKCDLESEREVDFNEAEEMGEY--VPEIHYVMETSAKDSTNVEEAFYCLANELKNR 72
            NKCDL +++ VD+  A+E  +   +P     +ETSAK++TNVE++F  +A E+K R
Sbjct: 128 GNKCDLTTKKVVDYTTAKEFADSLGIP----FLETSAKNATNVEQSFMTMAAEIKKR 180

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 24/57 (42%), Positives = 38/57 (66%), Gaps = 6/57 (10%)
Query: 18  SNKCDLESEREVDFNEAEEMGEY--VPEIHYVMETSAKDSTNVEEAFYCLANELKNR 72
            NKCDL +++ VD+  A+E  +   +P     +ETSAK++TNVE++F  +A E+K R
Sbjct: 118 GNKCDLTTKKVVDYTTAKEFADSLGIP----FLETSAKNATNVEQSFMTMAAEIKKR 170

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 24/57 (42%), Positives = 38/57 (66%), Gaps = 6/57 (10%)
Query: 18  SNKCDLESEREVDFNEAEEMGEY--VPEIHYVMETSAKDSTNVEEAFYCLANELKNR 72
            NKCDL +++ VD+  A+E  +   +P     +ETSAK++TNVE++F  +A E+K R
Sbjct: 118 GNKCDLTTKKVVDYTTAKEFADSLGIP----FLETSAKNATNVEQSFMTMAAEIKKR 170

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 27/66 (40%), Positives = 40/66 (60%), Gaps = 6/66 (9%)
Query: 18  SNKCDLESEREVDFNEAEEMGEY--VPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSA 75
            NKCDL+ +R V+++ A+E  +   +P     +ETSA DSTNVE+AF  +A ++K   S 
Sbjct: 120 GNKCDLKDKRVVEYDVAKEFADANKMP----FLETSALDSTNVEDAFLTMARQIKESMSQ 175
Query: 76  TLCNEP 81
              NE 
Sbjct: 176 QNLNET 181

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score = 46.6 bits (109), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 25/55 (45%), Positives = 37/55 (67%), Gaps = 2/55 (3%)
Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR 72
            NKCDL S+R V  +E  E+ +    I ++ ETSAK++ NVE+AF+ +A E+K R
Sbjct: 121 GNKCDLVSKRVVTSDEGRELAD-SHGIKFI-ETSAKNAYNVEQAFHTMAGEIKKR 173

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score = 45.8 bits (107), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 24/57 (42%), Positives = 37/57 (64%), Gaps = 6/57 (10%)
Query: 18  SNKCDLESEREVDFNEAEEMGEY--VPEIHYVMETSAKDSTNVEEAFYCLANELKNR 72
            NKCDL +++ VD+  A+E  +   +P     +ETSAK++TNVE++F   A E+K R
Sbjct: 145 GNKCDLTTKKVVDYTTAKEFADSLGIP----FLETSAKNATNVEQSFXTXAAEIKKR 197

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score = 45.4 bits (106), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 23/57 (40%), Positives = 37/57 (64%), Gaps = 6/57 (10%)
Query: 20  KCDLESEREVDFNEAEEMGEY--VPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS 74
           KCDL +++ VD+  A+E  +   +P     +ETSAK++TNVE++F  +A E+K R  
Sbjct: 122 KCDLTTKKVVDYTTAKEFADSLGIP----FLETSAKNATNVEQSFMTMAAEIKKRMG 174

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score = 45.4 bits (106), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 24/55 (43%), Positives = 37/55 (67%), Gaps = 6/55 (10%)
Query: 18  SNKCDLESEREVDFNEAEEMGEY--VPEIHYVMETSAKDSTNVEEAFYCLANELK 70
            NKCDL+ +R V+++ A+E  +   +P     +ETSA DSTNVE+AF  +A ++K
Sbjct: 133 GNKCDLKDKRVVEYDVAKEFADANKMP----FLETSALDSTNVEDAFLTMARQIK 183

>pdb|2FG5|A Chain A, Crystal Structure Of Human Rab31 In Complex With A Gtp Analogue Length = 192

Iteration: 1
 Score = 43.9 bits (102), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/54 (40%), Positives = 34/54 (62%), Gaps = 2/54 (3%)
Query: 16  VWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
           +  NKCDL   REV   +A+E  E +  I  V+ETSAK++ N+EE F  ++ ++
Sbjct: 133 IAGNKCDLSDIREVPLKDAKEYAESIGAI--VVETSAKNAINIEELFQGISRQI 184

>pdb|3JZA|A Chain A, Crystal Structure Of Human Rab1b In Complex With The Gef Domain Of DrraSIDM FROM LEGIONELLA PNEUMOPHILA Length = 175

Iteration: 1
 Score = 42.7 bits (99), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 24/59 (40%), Positives = 36/59 (61%), Gaps = 6/59 (10%)
Query: 18  SNKCDLESEREVDFNEAEEMGEY--VPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS 74
            NK DL +++ VD   A+E  +   +P     +ETSAK++TNVE+AF  +A E+K R  
Sbjct: 121 GNKSDLTTKKVVDNTTAKEFADSLGIP----FLETSAKNATNVEQAFMTMAAEIKKRMG 175

>pdb|4I1O|A Chain A, Crystal Structure Of The Legionella Pneumophila Gap Domain Of Lepb In Complex With Rab1b Bound To Gdp And Bef3 Length = 181

Iteration: 1
 Score = 42.7 bits (99), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 24/59 (40%), Positives = 36/59 (61%), Gaps = 6/59 (10%)
Query: 18  SNKCDLESEREVDFNEAEEMGEY--VPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS 74
            NK DL +++ VD   A+E  +   +P     +ETSAK++TNVE+AF  +A E+K R  
Sbjct: 121 GNKSDLTTKKVVDNTTAKEFADSLGIP----FLETSAKNATNVEQAFMTMAAEIKKRMG 175

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score = 41.2 bits (95), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 23/60 (38%), Positives = 37/60 (61%), Gaps = 6/60 (10%)
Query: 16  VWSNKCDLESEREVDFNEAEEMGEYVPEIHYV--METSAKDSTNVEEAFYCLANELKNRQ 73
           +  NKCD+  +R+V    ++E GE +   + +  METSAK + NVE AF+ LA ++K + 
Sbjct: 116 ILGNKCDVNDKRQV----SKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKM 171

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score = 41.2 bits (95), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 26/52 (50%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
            NK DLES REV   E E        I   METSAK ++NVEEAF   A E+
Sbjct: 122 GNKSDLESRREVKKEEGEAFAREHGLI--FMETSAKTASNVEEAFINTAKEI 171

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score = 41.2 bits (95), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 23/60 (38%), Positives = 37/60 (61%), Gaps = 6/60 (10%)
Query: 16  VWSNKCDLESEREVDFNEAEEMGEYVPEIHYV--METSAKDSTNVEEAFYCLANELKNRQ 73
           +  NKCD+  +R+V    ++E GE +   + +  METSAK + NVE AF+ LA ++K + 
Sbjct: 118 ILGNKCDVNDKRQV----SKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKM 173

>pdb|1N6N|A Chain A, Crystal Structure Of Human Rab5a A30r Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/52 (44%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
            NK DL ++R VDF EA+   +        METSAK S NV E F  +A +L
Sbjct: 118 GNKADLANKRAVDFQEAQSYAD--DNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|1TU3|A Chain A, Crystal Structure Of Rab5 Complex With Rabaptin5 C-Terminal Domain Length = 171

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/52 (44%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
            NK DL ++R VDF EA+   +        METSAK S NV E F  +A +L
Sbjct: 119 GNKADLANKRAVDFQEAQSYAD--DNSLLFMETSAKTSMNVNEIFMAIAKKL 168

>pdb|1N6R|A Chain A, Crystal Structure Of Human Rab5a A30l Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/52 (44%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
            NK DL ++R VDF EA+   +        METSAK S NV E F  +A +L
Sbjct: 118 GNKADLANKRAVDFQEAQSYAD--DNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|1YZT|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Length = 184

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/54 (42%), Positives = 27/54 (50%), Gaps = 2/54 (3%)
Query: 16  VWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
           +  NK DLE ER V   EAE   E V   HY   TSAK +  +EE F  L   +
Sbjct: 130 IVGNKIDLEKERHVSIQEAESYAESVGAKHY--HTSAKQNKGIEELFLDLCKRM 181

>pdb|1N6O|A Chain A, Crystal Structure Of Human Rab5a A30k Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/52 (44%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
            NK DL ++R VDF EA+   +        METSAK S NV E F  +A +L
Sbjct: 118 GNKADLANKRAVDFQEAQSYAD--DNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|1N6H|A Chain A, Crystal Structure Of Human Rab5a Length = 170

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/52 (44%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
            NK DL ++R VDF EA+   +        METSAK S NV E F  +A +L
Sbjct: 118 GNKADLANKRAVDFQEAQSYAD--DNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|1N6I|A Chain A, Crystal Structure Of Human Rab5a A30p Mutant Complex With Gdp Length = 170

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/52 (44%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
            NK DL ++R VDF EA+   +        METSAK S NV E F  +A +L
Sbjct: 118 GNKADLANKRAVDFQEAQSYAD--DNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|3MJH|A Chain A, Crystal Structure Of Human Rab5a In Complex With The C2h2 Zinc Finger Of Eea1 Length = 168

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/52 (44%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
            NK DL ++R VDF EA+   +        METSAK S NV E F  +A +L
Sbjct: 117 GNKADLANKRAVDFQEAQSYAD--DNSLLFMETSAKTSMNVNEIFMAIAKKL 166

>pdb|1YZU|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Length = 170

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/54 (42%), Positives = 27/54 (50%), Gaps = 2/54 (3%)
Query: 16  VWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
           +  NK DLE ER V   EAE   E V   HY   TSAK +  +EE F  L   +
Sbjct: 116 IVGNKIDLEKERHVSIQEAESYAESVGAKHY--HTSAKQNKGIEELFLDLCKRM 167

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/54 (42%), Positives = 27/54 (50%), Gaps = 2/54 (3%)
Query: 16  VWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
           +  NK DLE ER V   EAE   E V   HY   TSAK +  +EE F  L   +
Sbjct: 116 IVGNKIDLEKERHVSIQEAESYAESVGAKHY--HTSAKQNKGIEELFLDLCKRM 167

>pdb|1N6P|A Chain A, Crystal Structure Of Human Rab5a A30e Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 23/52 (44%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
            NK DL ++R VDF EA+   +        METSAK S NV E F  +A +L
Sbjct: 118 GNKADLANKRAVDFQEAQSYAD--DNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 25/52 (48%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
            NK DL   REV    AEE  E   +  Y +ETSAK+S NVE+ F  LA  L
Sbjct: 138 GNKIDLAERREVSQQRAEEFSE--AQDMYYLETSAKESDNVEKLFLDLACRL 187

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 22/52 (42%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
            NK DL S+R V+F EA+   +        METSAK + NV E F  +A +L
Sbjct: 117 GNKADLASKRAVEFQEAQAYAD--DNSLLFMETSAKTAMNVNEIFMAIAKKL 166

>pdb|1Z0D|A Chain A, Gdp-bound Rab5c Gtpase Length = 167

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 22/52 (42%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
            NK DL S+R V+F EA+   +        METSAK + NV E F  +A +L
Sbjct: 117 GNKADLASKRAVEFQEAQAYAD--DNSLLFMETSAKTAMNVNEIFMAIAKKL 166

>pdb|3CON|A Chain A, Crystal Structure Of The Human Nras Gtpase Bound With Gdp Length = 190

Iteration: 1
 Score = 38.9 bits (89), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 25/64 (39%), Positives = 35/64 (54%), Gaps = 7/64 (10%)
Query: 16  VWSNKCDLESEREVDFNEAEEMGEY--VPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ 73
           +  NKCDL + R VD  +A E+ +   +P I    ETSAK    VE+AFY L  E++  +
Sbjct: 131 LVGNKCDLPT-RTVDTKQAHELAKSYGIPFI----ETSAKTRQGVEDAFYTLVREIRQYR 185
Query: 74  SATL 77
              L
Sbjct: 186 MKKL 189

>pdb|1HUQ|A Chain A, 1.8a Crystal Structure Of The Monomeric Gtpase Rab5c (Mouse) Length = 164

Iteration: 1
 Score = 38.9 bits (89), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 22/52 (42%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 18  SNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
            NK DL S+R V+F EA+   +        METSAK + NV E F  +A +L
Sbjct: 115 GNKADLASKRAVEFQEAQAYAD--DNSLLFMETSAKTAMNVNEIFMAIAKKL 164

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	106
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	8e-21
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	7e-19
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	1e-18
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	3e-18
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	1e-17
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	1e-17
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	1e-17
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	1e-17
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	2e-17
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	2e-17
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	2e-17
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	3e-17
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	3e-17
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	3e-17
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	4e-17
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	4e-17
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	6e-17
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	7e-17
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	7e-17
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	7e-17
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	8e-17
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	8e-17
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	9e-17
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	9e-17
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	9e-17
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	9e-17
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	1e-16
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	1e-16
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	1e-16
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	1e-16
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	1e-16
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	2e-16
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	2e-16
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	2e-16
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	2e-16
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	3e-16
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	3e-16
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	3e-16
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	3e-16
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	4e-16
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	5e-16
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	7e-16
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	8e-16
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	1e-15
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	1e-15
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	1e-15
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	1e-15
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	2e-15
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	4e-15
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	4e-15
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	4e-15
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	5e-15
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	1e-14
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	1e-14
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	1e-14
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	2e-14
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	2e-14
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	2e-14
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	2e-14
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	2e-14
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	3e-14
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	4e-14
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	2e-13
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	2e-13
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	2e-13
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	2e-13
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	9e-13
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	1e-12
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	1e-10
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	2e-09
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	2e-08
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	5e-05
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	7e-05
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	1e-04
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	9e-04

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A* Length = 206

 Score = 81.6 bits (202), Expect = 8e-21
 Identities = 29/88 (32%), Positives = 47/88 (53%), Gaps = 2/88 (2%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLC 78
           NKCDL+ +R V+++ A+E  +   ++ + +ETSA DSTNVE+AF  +A ++K   S    
Sbjct: 121 NKCDLKDKRVVEYDVAKEFADA-NKMPF-LETSALDSTNVEDAFLTMARQIKESMSQQNL 178

Query: 79  NEPINTDNTNSPITLSNDTKSIRNKCNC 106
           NE          + L   + +    C C
Sbjct: 179 NETTQKKEDKGNVNLKGQSLTNTGGCCC 206

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens} Length = 192

 Score = 76.1 bits (188), Expect = 7e-19
 Identities = 17/54 (31%), Positives = 32/54 (59%), Gaps = 1/54 (1%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR 72
           NK D E++RE+   + E+  + +  + +  E SAKD+ NV+E F  L +++  +
Sbjct: 139 NKLDCETDREITRQQGEKFAQQITGMRF-CEASAKDNFNVDEIFLKLVDDILKK 191

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens} Length = 201

 Score = 75.4 bits (186), Expect = 1e-18
 Identities = 29/59 (49%), Positives = 36/59 (61%), Gaps = 1/59 (1%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATL 77
           NK DL   REV   EA+ + E+  +I   +ETSAKDS+NVEEAF  +A EL  R    L
Sbjct: 142 NKSDLSELREVSLAEAQSLAEHY-DILCAIETSAKDSSNVEEAFLRVATELIMRHGGPL 199

>3bbp_A RAB-6, RAS-related protein RAB-6A; golgi complex, GRIP domain, RAB GTPase, ARL GTPase, golgin, RAB effector, clAsp protein; HET: GTP; 3.00A {Homo sapiens} Length = 211

 Score = 74.7 bits (184), Expect = 3e-18
 Identities = 22/88 (25%), Positives = 36/88 (40%), Gaps = 7/88 (7%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLC 78
           NK DL  +R+V   E E   + +  +   +ETSAK   NV++ F  +A  L   +S    
Sbjct: 129 NKTDLADKRQVSIEEGERKAKELNVMF--IETSAKAGYNVKQLFRRVAAALPGMES---- 182

Query: 79  NEPINTDNTNSPITLSNDTKSIRNKCNC 106
                +      I L    +   ++  C
Sbjct: 183 -TQDRSREDMIDIKLEKPQEQPVSEGGC 209

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8 Length = 203

 Score = 73.5 bits (181), Expect = 1e-17
 Identities = 20/77 (25%), Positives = 36/77 (46%), Gaps = 2/77 (2%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLC 78
           NKCD+E ER V      ++ +++    +  E SAKD+ NV++ F  L + +  + S +L 
Sbjct: 121 NKCDMEDERVVSSERGRQLADHL-GFEF-FEASAKDNINVKQTFERLVDVICEKMSESLD 178

Query: 79  NEPINTDNTNSPITLSN 95
                         L++
Sbjct: 179 TADPAVTGAKQGPQLTD 195

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 Length = 172

 Score = 72.5 bits (179), Expect = 1e-17
 Identities = 24/57 (42%), Positives = 31/57 (54%), Gaps = 2/57 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSA 75
           NKCD    REV  +EAE +     +  + METSAK + NV+E F  L N  K R  +
Sbjct: 117 NKCDESPSREVQSSEAEALARTW-KCAF-METSAKLNHNVKELFQELLNLEKRRTVS 171

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D* Length = 167

 Score = 72.1 bits (178), Expect = 1e-17
 Identities = 19/52 (36%), Positives = 27/52 (51%), Gaps = 1/52 (1%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK 70
           NKCDLE ER V   + + +        + +E+SAK   NV E FY L  ++ 
Sbjct: 116 NKCDLEDERVVGKEQGQNLARQWCNCAF-LESSAKSKINVNEIFYDLVRQIN 166

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens} Length = 206

 Score = 73.0 bits (180), Expect = 1e-17
 Identities = 27/86 (31%), Positives = 43/86 (50%), Gaps = 9/86 (10%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLC 78
           NK DLE +R+V   EA+   E    ++Y +ETSAK   NV++ F+ L  E++ R+     
Sbjct: 127 NKSDLEDKRQVSVEEAKNRAEQW-NVNY-VETSAKTRANVDKVFFDLMREIRARKME--- 181

Query: 79  NEPINTDNTNSPITLSNDTKSIRNKC 104
               ++   N      +  K IR +C
Sbjct: 182 ----DSKEKNGKKKRKSLAKRIRERC 203

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A* Length = 199

 Score = 72.7 bits (179), Expect = 2e-17
 Identities = 25/84 (29%), Positives = 35/84 (41%), Gaps = 2/84 (2%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLC 78
           NK DL   R V  +EA    E    + + +ETSA DSTNVEEAF  +  E+    S    
Sbjct: 118 NKSDLRHLRAVPTDEARAFAEKN-NLSF-IETSALDSTNVEEAFKNILTEIYRIVSQKQI 175

Query: 79  NEPINTDNTNSPITLSNDTKSIRN 102
            +    D +     +        +
Sbjct: 176 ADRAAHDESPGNNVVDISVPPTTD 199

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score = 71.8 bits (177), Expect = 2e-17
 Identities = 16/55 (29%), Positives = 24/55 (43%), Gaps = 2/55 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ 73
           NK DL   REV   E   +   +    + +ETSA    N  E F     +++ R+
Sbjct: 117 NKSDLARSREVSLEEGRHLAGTL-SCKH-IETSAALHHNTRELFEGAVRQIRLRR 169

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A* Length = 166

 Score = 71.8 bits (177), Expect = 2e-17
 Identities = 16/55 (29%), Positives = 26/55 (47%), Gaps = 2/55 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ 73
           NK DL   REV  +E         +  + +ETSA    NV+  F  +  +++ R+
Sbjct: 114 NKSDLVRSREVSVDEGRACAVVF-DCKF-IETSAALHHNVQALFEGVVRQIRLRR 166

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A* Length = 183

 Score = 71.8 bits (177), Expect = 3e-17
 Identities = 22/63 (34%), Positives = 33/63 (52%), Gaps = 2/63 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLC 78
           NKCD+  +R+V     E++      I + METSAK + NVE AF+ LA ++K +      
Sbjct: 121 NKCDVNDKRQVSKERGEKLAL-DYGIKF-METSAKANINVENAFFTLARDIKAKMDKNWK 178

Query: 79  NEP 81
              
Sbjct: 179 ATA 181

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 180

 Score = 71.4 bits (176), Expect = 3e-17
 Identities = 22/56 (39%), Positives = 30/56 (53%), Gaps = 2/56 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS 74
           NK D   ER V   + E++ +    + + METSAK   NV+ AF  +A ELK R  
Sbjct: 124 NKVDSAHERVVKREDGEKLAKEY-GLPF-METSAKTGLNVDLAFTAIAKELKRRSM 177

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A* Length = 168

 Score = 71.4 bits (176), Expect = 3e-17
 Identities = 21/54 (38%), Positives = 33/54 (61%), Gaps = 2/54 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR 72
           NK DLE +R+V   EA+   +    ++Y +ETSAK   NV++ F+ L  E++ R
Sbjct: 117 NKSDLEDKRQVSVEEAKNRADQW-NVNY-VETSAKTRANVDKVFFDLMREIRAR 168

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A* Length = 195

 Score = 71.5 bits (176), Expect = 4e-17
 Identities = 22/59 (37%), Positives = 30/59 (50%), Gaps = 2/59 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATL 77
           NK DLE +R V   EA E+ E    I Y  ETSA + TN+  A   L + +  R   ++
Sbjct: 135 NKSDLEDQRAVKEEEARELAEKY-GIPY-FETSAANGTNISHAIEMLLDLIMKRMERSV 191

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A* Length = 187

 Score = 71.4 bits (176), Expect = 4e-17
 Identities = 22/55 (40%), Positives = 34/55 (61%), Gaps = 2/55 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ 73
           NK DLE +R+V   EA+   E    ++Y +ETSAK   NV++ F+ L  E++ R+
Sbjct: 131 NKSDLEDKRQVSVEEAKNRAEQW-NVNY-VETSAKTRANVDKVFFDLMREIRARK 183

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A* Length = 168

 Score = 70.6 bits (174), Expect = 6e-17
 Identities = 16/54 (29%), Positives = 27/54 (50%), Gaps = 2/54 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR 72
           NK DL  +  +   EAE + + + ++ +   TS K+  NV E F  LA +   +
Sbjct: 117 NKIDLLDDSCIKNEEAEGLAKRL-KLRF-YRTSVKEDLNVSEVFKYLAEKHLQK 168

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A* Length = 217

 Score = 71.6 bits (176), Expect = 7e-17
 Identities = 22/70 (31%), Positives = 31/70 (44%), Gaps = 2/70 (2%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLC 78
           NK DL  +REV+  +A E+ +    I Y  ETSA    NVE+A   L + +  R    + 
Sbjct: 149 NKADLPDQREVNERQARELADKY-GIPY-FETSAATGQNVEKAVETLLDLIMKRMEQCVE 206

Query: 79  NEPINTDNTN 88
              I      
Sbjct: 207 KTQIPDTVNG 216

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A* Length = 181

 Score = 70.6 bits (174), Expect = 7e-17
 Identities = 24/59 (40%), Positives = 31/59 (52%), Gaps = 2/59 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATL 77
           NK DLES+R+V  +EA   G     + Y  E SAK   NV+EAF  L   ++  Q   L
Sbjct: 122 NKADLESQRQVPRSEASAFGASH-HVAY-FEASAKLRLNVDEAFEQLVRAVRKYQEQEL 178

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score = 70.7 bits (174), Expect = 7e-17
 Identities = 18/62 (29%), Positives = 29/62 (46%), Gaps = 2/62 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLC 78
           NK D    + V+  +A +    +  I    ETSAK++ NVEE F C+   +   +   L 
Sbjct: 121 NKNDDPERKVVETEDAYKFAGQM-GIQL-FETSAKENVNVEEMFNCITELVLRAKKDNLA 178

Query: 79  NE 80
            +
Sbjct: 179 KQ 180

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens} Length = 193

 Score = 70.7 bits (174), Expect = 8e-17
 Identities = 24/56 (42%), Positives = 30/56 (53%), Gaps = 2/56 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS 74
           NK DL   REV   EA    E    + + +ETSA DSTNVE AF  +  E+  + S
Sbjct: 138 NKSDLSQAREVPTEEARMFAENN-GLLF-LETSALDSTNVELAFETVLKEIFAKVS 191

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A* Length = 186

 Score = 70.7 bits (174), Expect = 8e-17
 Identities = 23/56 (41%), Positives = 33/56 (58%), Gaps = 2/56 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS 74
           NK DL+++REV F EA    +   E+ + +ETSA    NVEEAF   A ++ N+  
Sbjct: 123 NKKDLDADREVTFLEASRFAQEN-ELMF-LETSALTGENVEEAFVQCARKILNKIE 176

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens} Length = 175

 Score = 70.3 bits (173), Expect = 9e-17
 Identities = 18/55 (32%), Positives = 25/55 (45%), Gaps = 2/55 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ 73
           NK DL   REV   E         +  + +ETSA    NV E F  +  +L+ R+
Sbjct: 119 NKADLARCREVSVEEGRACAVVF-DCKF-IETSATLQHNVAELFEGVVRQLRLRR 171

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A* Length = 189

 Score = 70.3 bits (173), Expect = 9e-17
 Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 2/56 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS 74
           NKCDLE ER V   +   + +      +  E SAK++ NV++ F  L + +  + +
Sbjct: 135 NKCDLEDERVVPAEDGRRLADD-LGFEF-FEASAKENINVKQVFERLVDVICEKMN 188

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score = 70.7 bits (174), Expect = 9e-17
 Identities = 24/56 (42%), Positives = 39/56 (69%), Gaps = 2/56 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS 74
           NKCDL +++ VD+  A+E  + +  I + +ETSAK++TNVE++F  +A E+K R  
Sbjct: 129 NKCDLTTKKVVDYTTAKEFADSL-GIPF-LETSAKNATNVEQSFMTMAAEIKKRMG 182

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* Length = 181

 Score = 70.2 bits (173), Expect = 9e-17
 Identities = 15/58 (25%), Positives = 27/58 (46%), Gaps = 2/58 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSAT 76
           NK DL  ER + + E + + E      + +E+SAK++    + F  +  E +    A 
Sbjct: 119 NKKDLHMERVISYEEGKALAESW-NAAF-LESSAKENQTAVDVFRRIILEAEKMDGAC 174

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8 Length = 192

 Score = 70.3 bits (173), Expect = 1e-16
 Identities = 21/57 (36%), Positives = 32/57 (56%), Gaps = 2/57 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSA 75
           NKCDL   REV   +A+E  E +  I   +ETSAK++ N+EE F  ++ ++      
Sbjct: 136 NKCDLSDIREVPLKDAKEYAESIGAIV--VETSAKNAINIEELFQGISRQIPPLDPH 190

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} Length = 191

 Score = 70.3 bits (173), Expect = 1e-16
 Identities = 18/58 (31%), Positives = 33/58 (56%), Gaps = 2/58 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSAT 76
           NKCD+E ER V   + + + E +    +  E SAK++ +V +AF  L + + ++ S +
Sbjct: 136 NKCDMEEERVVPTEKGQLLAEQL-GFDF-FEASAKENISVRQAFERLVDAICDKMSDS 191

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens} Length = 199

 Score = 70.4 bits (173), Expect = 1e-16
 Identities = 24/54 (44%), Positives = 38/54 (70%), Gaps = 2/54 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR 72
           NKCDL +++ VD+  A+E  +    I + +ETSAK++TNVE++F  +A E+K R
Sbjct: 146 NKCDLTTKKVVDYTTAKEFADS-LGIPF-LETSAKNATNVEQSFMTMAAEIKKR 197

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens} Length = 200

 Score = 70.4 bits (173), Expect = 1e-16
 Identities = 24/56 (42%), Positives = 31/56 (55%), Gaps = 2/56 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS 74
           NK DL+ EREV F EA    +   E+ + +ETSA    NVEEAF   A  + N+  
Sbjct: 138 NKKDLDPEREVTFLEASRFAQEN-ELMF-LETSALTGENVEEAFLKCARTILNKID 191

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B* Length = 181

 Score = 69.9 bits (172), Expect = 1e-16
 Identities = 23/58 (39%), Positives = 31/58 (53%), Gaps = 4/58 (6%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIH-YVMETSAKDSTNVEEAFYCLANELKNRQSA 75
           NK DL   R+V   +A+   +   E   + METSAK +TNV+E FY +A  L   Q  
Sbjct: 125 NKSDLLDARKVTAEDAQTYAQ---ENGLFFMETSAKTATNVKEIFYEIARRLPRVQPT 179

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A* Length = 191

 Score = 69.9 bits (172), Expect = 2e-16
 Identities = 24/54 (44%), Positives = 30/54 (55%), Gaps = 2/54 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR 72
           NK DLES R+V   E E        + + METSAK + NVEEAF   A E+  +
Sbjct: 134 NKSDLESRRDVKREEGEAFAREH-GLIF-METSAKTACNVEEAFINTAKEIYRK 185

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens} Length = 195

 Score = 69.9 bits (172), Expect = 2e-16
 Identities = 16/56 (28%), Positives = 24/56 (42%), Gaps = 2/56 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS 74
           NK DL   REV   E   +   +    + +ETSA    N  E F     +++ R+ 
Sbjct: 138 NKSDLARSREVSLEEGRHLAGTL-SCKH-IETSAALHHNTRELFEGAVRQIRLRRG 191

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B* Length = 207

 Score = 70.0 bits (172), Expect = 2e-16
 Identities = 26/88 (29%), Positives = 39/88 (44%), Gaps = 5/88 (5%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLC 78
           NK DLE  R+V    A+        I Y  ETSAK++ NVE+AF  +A     +++    
Sbjct: 125 NKIDLE-NRQVATKRAQAWCYSKNNIPY-FETSAKEAINVEQAFQTIARNALKQETE--- 179

Query: 79  NEPINTDNTNSPITLSNDTKSIRNKCNC 106
            E  N       +  +   K+    C+C
Sbjct: 180 VELYNEFPEPIKLDKNERAKASAESCSC 207

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 213

 Score = 70.1 bits (172), Expect = 2e-16
 Identities = 23/84 (27%), Positives = 39/84 (46%), Gaps = 3/84 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLC 78
           NK D+E  R V  ++ E + + +  I + +E+SAK+  NV E F+ LA  ++ +  +   
Sbjct: 133 NKSDME-TRVVTADQGEALAKEL-GIPF-IESSAKNDDNVNEIFFTLAKLIQEKIDSNKL 189

Query: 79  NEPINTDNTNSPITLSNDTKSIRN 102
               N    N  I   +   S  N
Sbjct: 190 VGVGNGKEGNISINSGSGNSSKSN 213

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 201

 Score = 69.6 bits (171), Expect = 3e-16
 Identities = 25/56 (44%), Positives = 30/56 (53%), Gaps = 2/56 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS 74
           NK DL   REV    AEE  E   +  Y +ETSAK+S NVE+ F  LA  L +   
Sbjct: 139 NKIDLAERREVSQQRAEEFSE--AQDMYYLETSAKESDNVEKLFLDLACRLISEAR 192

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A* Length = 170

 Score = 68.7 bits (169), Expect = 3e-16
 Identities = 22/52 (42%), Positives = 25/52 (48%), Gaps = 2/52 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK 70
           NK DLE ER V   EAE   E V   H    TSAK +  +EE F  L   + 
Sbjct: 119 NKIDLEKERHVSIQEAESYAESVGAKH--YHTSAKQNKGIEELFLDLCKRMI 168

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8 Length = 211

 Score = 69.7 bits (171), Expect = 3e-16
 Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 2/56 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS 74
           NK DL   REV  +E         +  + +ETSA    NV+E F  +  +++ R+ 
Sbjct: 153 NKSDLVRCREVSVSEGRACAVVF-DCKF-IETSAAVQHNVKELFEGIVRQVRLRRD 206

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score = 69.2 bits (170), Expect = 3e-16
 Identities = 16/58 (27%), Positives = 30/58 (51%), Gaps = 2/58 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSAT 76
           NK DL  EREV   E +++ E      + ME+SA+++   +  F  +  E+   +++ 
Sbjct: 137 NKADLSPEREVQAVEGKKLAESW-GATF-MESSARENQLTQGIFTKVIQEIARVENSY 192

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A* Length = 182

 Score = 68.8 bits (169), Expect = 4e-16
 Identities = 19/58 (32%), Positives = 31/58 (53%), Gaps = 2/58 (3%)

Query: 19  NKCDLE-SEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSA 75
           NK D E S++ V    A+E+ + + +I     TSAK++ NV+ AF  +A     +  A
Sbjct: 126 NKIDAEESKKIVSEKSAQELAKSLGDIPL-FLTSAKNAINVDTAFEEIARSALQQNQA 182

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi} Length = 218

 Score = 69.3 bits (170), Expect = 5e-16
 Identities = 14/63 (22%), Positives = 24/63 (38%), Gaps = 2/63 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLC 78
           NK D+++ +++      E+ +      Y  E SAK + N    F  LA     R      
Sbjct: 125 NKIDIKNRQKISKKLVMEVLKGK-NYEY-FEISAKTAHNFGLPFLHLARIFTGRPDLIFV 182

Query: 79  NEP 81
           +  
Sbjct: 183 SNV 185

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R* Length = 167

 Score = 67.9 bits (167), Expect = 7e-16
 Identities = 22/52 (42%), Positives = 29/52 (55%), Gaps = 2/52 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK 70
           NK DLESEREV  +E   + E      + METSAK  T V+E F  +  ++ 
Sbjct: 116 NKVDLESEREVSSSEGRALAEEW-GCPF-METSAKSKTMVDELFAEIVRQMN 165

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B* Length = 191

 Score = 68.0 bits (167), Expect = 8e-16
 Identities = 22/51 (43%), Positives = 28/51 (54%), Gaps = 2/51 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
           NK DL   R V  +EA    E    + + +ETSA DSTNVE AF  +  E+
Sbjct: 142 NKSDLRHLRAVPTDEARAFAEKN-GLSF-IETSALDSTNVEAAFQTILTEI 190

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A* Length = 170

 Score = 67.1 bits (165), Expect = 1e-15
 Identities = 19/53 (35%), Positives = 30/53 (56%), Gaps = 4/53 (7%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIH-YVMETSAKDSTNVEEAFYCLANELK 70
           NKCDL   REV   +A++  +    IH   +ETSAK++ N+ E F  ++  + 
Sbjct: 119 NKCDLTDVREVMERDAKDYAD---SIHAIFVETSAKNAININELFIEISRRIP 168

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A* Length = 177

 Score = 67.5 bits (166), Expect = 1e-15
 Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 2/55 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ 73
           NK D+  ER+V   EA+       +  Y  ETSAKD+TNV  AF      +   +
Sbjct: 124 NKIDIS-ERQVSTEEAQAWCRDNGDYPY-FETSAKDATNVAAAFEEAVRRVLATE 176

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A* Length = 170

 Score = 67.2 bits (165), Expect = 1e-15
 Identities = 23/53 (43%), Positives = 30/53 (56%), Gaps = 4/53 (7%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIH-YVMETSAKDSTNVEEAFYCLANELK 70
           NK DL ++R VDF EA+   +   +     METSAK S NV E F  +A +L 
Sbjct: 119 NKADLANKRAVDFQEAQSYAD---DNSLLFMETSAKTSMNVNEIFMAIAKKLP 168

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A* Length = 192

 Score = 67.7 bits (166), Expect = 1e-15
 Identities = 17/57 (29%), Positives = 26/57 (45%), Gaps = 2/57 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSA 75
           NK DL   REV  +E              +ETSA    NV+E F  +  +++ R+ +
Sbjct: 122 NKSDLVRXREVSVSEGRAXAVVFDXKF--IETSAAVQHNVKELFEGIVRQVRLRRDS 176

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A* Length = 179

 Score = 67.2 bits (165), Expect = 2e-15
 Identities = 20/52 (38%), Positives = 30/52 (57%), Gaps = 2/52 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK 70
           NK DLE++R+V + EA++  E        +E SAK   NVE+AF   A ++ 
Sbjct: 128 NKADLEAQRDVTYEEAKQFAE--ENGLLFLEASAKTGENVEDAFLEAAKKIY 177

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A* Length = 178

 Score = 66.0 bits (162), Expect = 4e-15
 Identities = 13/56 (23%), Positives = 20/56 (35%), Gaps = 2/56 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS 74
           NK DLE  R +   +     +           SAK   +V   F  +A E+   + 
Sbjct: 123 NKIDLEHMRTIKPEKHLRFCQEN-GFSS-HFVSAKTGDSVFLCFQKVAAEILGIKL 176

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A* Length = 183

 Score = 66.0 bits (162), Expect = 4e-15
 Identities = 20/55 (36%), Positives = 31/55 (56%), Gaps = 3/55 (5%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDST-NVEEAFYCLANELKNR 72
           NK DL   R+V  ++ +EM      I Y +ETSAKD   NV++ F+ L   ++ +
Sbjct: 131 NKVDLMHLRKVTRDQGKEMATKY-NIPY-IETSAKDPPLNVDKTFHDLVRVIRQQ 183

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae} Length = 223

 Score = 66.6 bits (163), Expect = 4e-15
 Identities = 25/99 (25%), Positives = 43/99 (43%), Gaps = 13/99 (13%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLC 78
           NK DL   R V   E++   +   ++ +  ETSA +S NV++AF  L N +  + S    
Sbjct: 126 NKSDLAHLRAVPTEESKTFAQEN-QLLF-TETSALNSENVDKAFEELINTIYQKVSKHQM 183

Query: 79  NEPINTDNTNSPITLSNDTKSI-----------RNKCNC 106
           +   ++ N N+    + +  +I            N  NC
Sbjct: 184 DLGDSSANGNANGASAPNGPTISLTPTPNENKKANGNNC 222

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 196

 Score = 66.1 bits (162), Expect = 5e-15
 Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 5/59 (8%)

Query: 19  NKCDLESEREVDFNEAEEM-GEYVPEIHYVMETSAKDS-TNVEEAFYCLANELKNRQSA 75
           NK DL+  R+V   E E++  E      +  E SA     N+ E FY L  E++ R+  
Sbjct: 140 NKADLDHSRQVSTEEGEKLATEL--ACAF-YECSACTGEGNITEIFYELCREVRRRRMV 195

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A* Length = 179

 Score = 64.9 bits (159), Expect = 1e-14
 Identities = 18/51 (35%), Positives = 28/51 (54%), Gaps = 2/51 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
           NK DL  +R+V   E E   + +  + + +ETSAK   NV++ F  +A  L
Sbjct: 127 NKTDLSDKRQVSTEEGERKAKEL-NVMF-IETSAKAGYNVKQLFRRVAAAL 175

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B* Length = 189

 Score = 64.9 bits (159), Expect = 1e-14
 Identities = 21/56 (37%), Positives = 32/56 (57%), Gaps = 5/56 (8%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAK---DSTNVEEAFYCLANELKN 71
           NKCDL S  +V  + A++  +    +    ETSAK   D+ +VE  F  LA++LK+
Sbjct: 135 NKCDLRSAIQVPTDLAQKFADTH-SMPL-FETSAKNPNDNDHVEAIFMTLAHKLKS 188

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} Length = 184

 Score = 64.9 bits (159), Expect = 1e-14
 Identities = 12/57 (21%), Positives = 24/57 (42%), Gaps = 3/57 (5%)

Query: 19  NKCDL--ESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ 73
            +  +   + R +D + A ++   +    Y  ET A    NVE  F  +A ++   +
Sbjct: 127 TQDAISAANPRVIDDSRARKLSTDLKRCTY-YETCATYGLNVERVFQDVAQKVVALR 182

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A* Length = 189

 Score = 64.5 bits (158), Expect = 2e-14
 Identities = 24/88 (27%), Positives = 39/88 (44%), Gaps = 18/88 (20%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLC 78
           NKCDL   R VD  +A+++      I + +ETSAK    V++AFY L  E++  +     
Sbjct: 117 NKCDLP-SRTVDTKQAQDLARSY-GIPF-IETSAKTRQGVDDAFYTLVREIRKHK----- 168

Query: 79  NEPINTDNTNSPITLSNDTKSIRNKCNC 106
                       ++     K  ++K  C
Sbjct: 169 ----------EKMSKDGKKKKKKSKTKC 186

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A Length = 170

 Score = 64.1 bits (157), Expect = 2e-14
 Identities = 18/54 (33%), Positives = 32/54 (59%), Gaps = 3/54 (5%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR 72
           NK D+E  R V  ++ E + + +  I + +E+SAK+  NV E F+ LA  ++ +
Sbjct: 116 NKSDME-TRVVTADQGEALAKEL-GIPF-IESSAKNDDNVNEIFFTLAKLIQEK 166

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 199

 Score = 64.2 bits (157), Expect = 2e-14
 Identities = 25/86 (29%), Positives = 38/86 (44%), Gaps = 11/86 (12%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLC 78
           NKCD   +REVD  EA+ + +   +  + METSAK + NV+E F  L      R      
Sbjct: 122 NKCDET-QREVDTREAQAVAQEW-KCAF-METSAKMNYNVKELFQELLTLETRRN----- 173

Query: 79  NEPINTDNTNSPITLSNDTKSIRNKC 104
              ++ +           T  ++ KC
Sbjct: 174 ---MSLNIDGKRSGKQKRTDRVKGKC 196

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A Length = 178

 Score = 63.8 bits (156), Expect = 2e-14
 Identities = 12/55 (21%), Positives = 21/55 (38%), Gaps = 1/55 (1%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ 73
           ++    S R V    A  +   +    Y  ET A    NV+  F  +A ++   +
Sbjct: 118 DRISASSPRVVGDARARALXADMKRCSY-YETXATYGLNVDRVFQEVAQKVVTLR 171

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens} Length = 199

 Score = 64.2 bits (157), Expect = 2e-14
 Identities = 20/60 (33%), Positives = 30/60 (50%), Gaps = 8/60 (13%)

Query: 19  NKCDL------ESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR 72
           NK D+      E ++ V  +  E++        +  ETSAKD +N+ EA   LA E+K R
Sbjct: 141 NKADIRDTAATEGQKCVPGHFGEKLAMTY-GALF-CETSAKDGSNIVEAVLHLAREVKKR 198

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A* Length = 190

 Score = 63.8 bits (156), Expect = 3e-14
 Identities = 24/59 (40%), Positives = 33/59 (55%), Gaps = 3/59 (5%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATL 77
           NKCDL   R VD  +A E+ +    I + +ETSAK    VE+AFY L  E++  +   L
Sbjct: 134 NKCDLP-TRTVDTKQAHELAKSY-GIPF-IETSAKTRQGVEDAFYTLVREIRQYRMKKL 189

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8 Length = 195

 Score = 63.4 bits (155), Expect = 4e-14
 Identities = 18/56 (32%), Positives = 25/56 (44%), Gaps = 3/56 (5%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS 74
           NK D E  REVD NE  +       + + +E SAK    V+ AF  L  ++     
Sbjct: 129 NKIDKE-NREVDRNEGLKFARKH-SMLF-IEASAKTCDGVQCAFEELVEKIIQTPG 181

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ... Length = 166

 Score = 61.7 bits (151), Expect = 2e-13
 Identities = 21/52 (40%), Positives = 30/52 (57%), Gaps = 3/52 (5%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK 70
           NK DL   R V+  +A+++      I Y +ETSAK    VE+AFY L  E++
Sbjct: 116 NKSDLA-ARTVESRQAQDLARSY-GIPY-IETSAKTRQGVEDAFYTLVREIR 164

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens} Length = 255

 Score = 62.7 bits (152), Expect = 2e-13
 Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 5/53 (9%)

Query: 19  NKCDLESEREVDFNEAEEMGEY-VPEIHYVMETSAKDSTNVEEAFYCLANELK 70
            KCD   ER +       + +  +     V+ETSA+ + NV+ AF  L   + 
Sbjct: 206 TKCDEGVERYIRDAHTFALSKKNLQ----VVETSARSNVNVDLAFSTLVQLID 254

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score = 62.1 bits (151), Expect = 2e-13
 Identities = 17/54 (31%), Positives = 29/54 (53%), Gaps = 3/54 (5%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR 72
           NK D   + +VD  E ++  +    + + ++TSAK  TN++  FY LA E+   
Sbjct: 155 NKIDKN-KFQVDILEVQKYAQDN-NLLF-IQTSAKTGTNIKNIFYMLAEEIYKN 205

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 1qg4_A* 3ea5_A* 1qg2_A* 1byu_A* 3ran_A* 3gjx_C* ... Length = 221

 Score = 62.3 bits (152), Expect = 2e-13
 Identities = 14/65 (21%), Positives = 25/65 (38%), Gaps = 8/65 (12%)

Query: 19  NKCDLESEREVDFNE--AEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSAT 76
           NK D++  +    +     +       + Y  + SAK + N E+ F  LA +L    +  
Sbjct: 127 NKVDIKDRKVKAKSIVFHRKKN-----LQY-YDISAKSNYNFEKPFLWLARKLIGDPNLE 180

Query: 77  LCNEP 81
               P
Sbjct: 181 FVAMP 185

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens} Length = 187

 Score = 59.9 bits (146), Expect = 9e-13
 Identities = 13/54 (24%), Positives = 22/54 (40%), Gaps = 5/54 (9%)

Query: 19  NKCDLESEREVDFNEAEEM-GEYVPEIHYVMETSAKDS-TNVEEAFYCLANELK 70
           NK D+   R+V   E   + G +     +  E SA     +V+  F+    E +
Sbjct: 135 NKLDMAQYRQVTKAEGVALAGRF--GCLF-FEVSACLDFEHVQHVFHEAVREAR 185

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score = 60.0 bits (146), Expect = 1e-12
 Identities = 11/58 (18%), Positives = 22/58 (37%), Gaps = 4/58 (6%)

Query: 19  NKCDLESER-EVDFNEAEEMGEYVPEIHYVMETSAK-DSTNVEEAFYCLANELKNRQS 74
           NK DL  +R +V  + A++       + +  + SA     + +  F  +A        
Sbjct: 140 NKTDLPPQRHQVRLDMAQDWATTN-TLDF-FDVSANPPGKDADAPFLSIATTFYRNYE 195

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score = 55.8 bits (134), Expect = 1e-10
 Identities = 12/57 (21%), Positives = 19/57 (33%), Gaps = 4/57 (7%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIH-YVMETSAKDSTNVEEAFYCLANELKNRQS 74
           NK D      ++  +  E     P I       S K+   VE     L + + +  S
Sbjct: 158 NKIDENPSYNIEQKKINE---RFPAIENRFHRISCKNGDGVESIAKSLKSAVLHPDS 211

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B* Length = 184

 Score = 50.8 bits (122), Expect = 2e-09
 Identities = 10/61 (16%), Positives = 22/61 (36%), Gaps = 6/61 (9%)

Query: 19  NKCDLESEREVDFNEAEEMGEY-----VPEIH-YVMETSAKDSTNVEEAFYCLANELKNR 72
              D+  E++     ++   E       P I  Y    + ++S  + +    + NE  N 
Sbjct: 120 THLDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATEESDALAKLRKTIINESLNF 179

Query: 73  Q 73
           +
Sbjct: 180 K 180

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 170

 Score = 48.3 bits (115), Expect = 2e-08
 Identities = 17/57 (29%), Positives = 26/57 (45%), Gaps = 5/57 (8%)

Query: 19  NKCD---LESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR 72
           NK D      ER+V   E E++ E    +    ETSAK   NV + F  +  ++  +
Sbjct: 116 NKIDXLQEGGERKVAREEGEKLAEEKGLLF--FETSAKTGENVNDVFLGIGEKIPLK 170

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* Length = 194

 Score = 39.2 bits (92), Expect = 5e-05
 Identities = 10/46 (21%), Positives = 21/46 (45%), Gaps = 3/46 (6%)

Query: 19  NKCDL--ESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAF 62
            K DL  +   +V   E +++ + +  + Y +E S+     + E F
Sbjct: 135 LKVDLRKDGSDDVTKQEGDDLCQKLGCVAY-IEASSVAKIGLNEVF 179

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana} Length = 212

 Score = 38.9 bits (91), Expect = 7e-05
 Identities = 12/53 (22%), Positives = 21/53 (39%), Gaps = 9/53 (16%)

Query: 19  NKCDL--------ESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFY 63
            K DL        +    +   + EE+ + +    Y +E S+K   NV+  F 
Sbjct: 121 TKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAY-IECSSKTQQNVKAVFD 172

>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 Length = 301

 Score = 38.3 bits (90), Expect = 1e-04
 Identities = 17/57 (29%), Positives = 28/57 (49%), Gaps = 6/57 (10%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSA 75
           NK DL  E ++   +  E+ E    ++ +++TSAK    +EE    L   LK + S 
Sbjct: 123 NKMDLYDEDDLR--KVRELEEIYSGLYPIVKTSAKTGMGIEE----LKEYLKGKIST 173

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C Length = 182

 Score = 35.8 bits (83), Expect = 9e-04
 Identities = 12/54 (22%), Positives = 23/54 (42%), Gaps = 11/54 (20%)

Query: 19  NKCDLESERE----------VDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAF 62
            K DL  +++          +   + EE+ + +    Y +E S+K   NV+  F
Sbjct: 120 TKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAY-IECSSKSQENVKGVF 172

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	106
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	99.78
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.6
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.47
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.45
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.4
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.37
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.36
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.36
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.33
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.33
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.31
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.31
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.31
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.31
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.31
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.3
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.3
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.29
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.29
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.29
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.28
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.28
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.27
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.27
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.26
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.26
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.26
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.26
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.26
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.26
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.25
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.25
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.25
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.24
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.24
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.24
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.24
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.24
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.23
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.23
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.23
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.22
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.22
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.22
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.22
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.22
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.21
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.2
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.2
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.2
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.2
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.18
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.17
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.17
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.17
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.17
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.17
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.17
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.16
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.16
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.16
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.15
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.15
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.15
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.15
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.14
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.14
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.14
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.14
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.13
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.12
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.11
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.1
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.09
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.08
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.08
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.07
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.07
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.05
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.04
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.04
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.03
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.02
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.02
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.0
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	98.99
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	98.98
3llu_A	196	RAS-related GTP-binding protein C; structural geno	98.97
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	98.96
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	98.96
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	98.96
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	98.94
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	98.94
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	98.93
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	98.92
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	98.45
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	98.92
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	98.92
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	98.92
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	98.91
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	98.89
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	98.86
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	98.85
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	98.84
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	98.83
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	98.83
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	98.83
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	98.82
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	98.79
2fh5_B	214	SR-beta, signal recognition particle receptor beta	98.77
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	98.77
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	98.76
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	98.76
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	98.75
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	98.73
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	98.71
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	98.7
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	98.67
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	98.66
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	98.66
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	98.65
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	98.65
2hf9_A	226	Probable hydrogenase nickel incorporation protein	98.63
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	98.61
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	98.61
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	98.6
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	98.55
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	98.55
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	98.51
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	98.49
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	98.44
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	98.44
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	98.44
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	98.42
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	98.42
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	98.42
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	98.36
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	98.36
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.35
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	98.34
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	98.3
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	98.25
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	98.22
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	98.22
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	98.19
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	98.19
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	98.19
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.16
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	98.16
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	98.15
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	98.11
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	98.03
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	98.02
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	98.0
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	98.0
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	97.99
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	97.99
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	97.98
1wb1_A	482	Translation elongation factor SELB; selenocysteine	97.94
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	97.93
1nrj_B	218	SR-beta, signal recognition particle receptor beta	97.9
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	97.9
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	97.88
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	97.86
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	97.8
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	97.76
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	97.75
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	97.75
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	97.74
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	97.73
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	97.68
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	97.55
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	97.5
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	97.5
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	97.5
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	97.47
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	97.45
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	97.43
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	97.42
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	97.37
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	97.35
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	97.35
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	97.33
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	97.26
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	97.25
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	97.22
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	97.22
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	97.22
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	97.22
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	97.18
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	97.13
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	97.1
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	97.06
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	96.97
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	96.96
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	96.92
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	96.79
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	96.76
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	96.73
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	96.49
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	96.15
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	95.7
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	95.28
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	94.92
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	94.84
1wxq_A	397	GTP-binding protein; structural genomics, riken st	94.53
2ged_A	193	SR-beta, signal recognition particle receptor beta	94.3
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	93.66
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	92.93
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	88.64
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	87.66
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	87.19
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	86.63
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	85.56

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=99.78  E-value=1.9e-19  Score=119.37  Aligned_cols=64  Identities=31%  Similarity=0.382  Sum_probs=55.9

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .+++|++|||||+||.+.+.++.+++..+++.+ ++.| +++||++|.||+++|..|++.+.....
T Consensus       116 ~~~~piilVgNK~Dl~~~r~V~~~e~~~~a~~~-~~~~-~e~SAktg~nV~e~F~~i~~~i~~~~~  179 (216)
T 4dkx_A          116 GSDVIIMLVGNKTDLADKRQVSIEEGERKAKEL-NVMF-IETSAKAGYNVKQLFRRVAAALPGMES  179 (216)
T ss_dssp             TTSSEEEEEEECTTCGGGCCSCHHHHHHHHHHH-TCEE-EEEBTTTTBSHHHHHHHHHHHC-----
T ss_pred             CCCCeEEEEeeccchHhcCcccHHHHhhHHHHh-CCee-EEEeCCCCcCHHHHHHHHHHHHHhhhc
Confidence            478999999999999988889999999999999 8999 999999999999999999999887655

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=99.60  E-value=3.4e-15  Score=96.84  Aligned_cols=64  Identities=39%  Similarity=0.585  Sum_probs=56.8

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..++|+++|+||+|+.+.+.+..+.+..++..+ ++++ +++||++|.||+++|.+|.+.+.+...
T Consensus       111 ~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~g~gi~~l~~~l~~~i~~~~~  174 (206)
T 2bcg_Y          111 TSTVLKLLVGNKCDLKDKRVVEYDVAKEFADAN-KMPF-LETSALDSTNVEDAFLTMARQIKESMS  174 (206)
T ss_dssp             CTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHT-TCCE-EECCTTTCTTHHHHHHHHHHHHHHHCC
T ss_pred             CCCCCEEEEEECCCCccccccCHHHHHHHHHHc-CCeE-EEEeCCCCCCHHHHHHHHHHHHHHHHh
Confidence            467999999999999877777888888888888 8899 999999999999999999999987754

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=99.47  E-value=2.7e-14  Score=92.30  Aligned_cols=62  Identities=35%  Similarity=0.419  Sum_probs=52.4

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhh-hcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGE-YVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++|+||+|+. .+.+..+.+..+.. .. +..+ +++||++|.|++++|.+|++.+.+...
T Consensus       116 ~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~g~gi~~l~~~l~~~~~~~~~  178 (207)
T 1vg8_A          116 ENFPFVVLGNKIDLE-NRQVATKRAQAWCYSKN-NIPY-FETSAKEAINVEQAFQTIARNALKQET  178 (207)
T ss_dssp             GGSCEEEEEECTTSS-CCCSCHHHHHHHHHHTT-SCCE-EECBTTTTBSHHHHHHHHHHHHHHHHH
T ss_pred             CCCcEEEEEECCCCc-ccccCHHHHHHHHHhcC-CceE-EEEeCCCCCCHHHHHHHHHHHHHHhcc
Confidence            578999999999997 34566677777777 45 7899 999999999999999999999887654

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=99.45  E-value=1.7e-13  Score=88.36  Aligned_cols=63  Identities=35%  Similarity=0.512  Sum_probs=55.9

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++|+||+|+.+.+.+..+++..++..+ +..+ +++||++|.||+++|.+|++.+.++..
T Consensus       118 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~g~gi~~l~~~l~~~i~~~~~  180 (206)
T 2bov_A          118 ENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQW-NVNY-VETSAKTRANVDKVFFDLMREIRARKM  180 (206)
T ss_dssp             SCCCEEEEEECTTCGGGCCSCHHHHHHHHHHH-TCEE-EEECTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEEeccCccccccccHHHHHHHHHHh-CCeE-EEEeCCCCCCHHHHHHHHHHHHHHccc
Confidence            58999999999999876677888888888888 8899 999999999999999999999887643

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=99.40  E-value=8.6e-13  Score=86.92  Aligned_cols=63  Identities=27%  Similarity=0.323  Sum_probs=54.7

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+||||||+||.+.+.+..+++..++..+ ++.+ +++||++|.||+++|..+++.+.....
T Consensus       144 ~~~piilVgNK~DL~~~r~v~~~e~~~~a~~~-~~~~-~e~SAk~g~~v~elf~~l~~~i~~~~~  206 (211)
T 2g3y_A          144 EDIPIILVGNKSDLVRCREVSVSEGRACAVVF-DCKF-IETSAAVQHNVKELFEGIVRQVRLRRD  206 (211)
T ss_dssp             TTSCEEEEEECTTCGGGCCSCHHHHHHHHHHH-TCEE-EECBTTTTBSHHHHHHHHHHHHHHHCC
T ss_pred             CCCcEEEEEEChHHhcCceEeHHHHHHHHHHc-CCEE-EEEeCCCCCCHHHHHHHHHHHHHHhcc
Confidence            57999999999999866677777777888888 7899 999999999999999999998865543

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=99.37  E-value=2.7e-12  Score=79.98  Aligned_cols=62  Identities=26%  Similarity=0.320  Sum_probs=54.9

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .+++|+++|+||+|+.+.+.+..+.+..++..+ +.++ +++||++|.|++++|.++.+.+.++
T Consensus       104 ~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~~~~~  165 (166)
T 3q72_A          104 TDDVPIILVGNKSDLVRSREVSVDEGRACAVVF-DCKF-IETSAALHHNVQALFEGVVRQIRLR  165 (166)
T ss_dssp             --CCCEEEEEECTTCCSSCCSCHHHHHHHHHHT-TCEE-EECBGGGTBSHHHHHHHHHHHHHHH
T ss_pred             CCCCCEEEEEeccccccccccCHHHHHHHHHHh-CCcE-EEeccCCCCCHHHHHHHHHHHHHhc
Confidence            368999999999999877788888888888888 8899 9999999999999999999988764

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=99.36  E-value=3e-12  Score=80.34  Aligned_cols=63  Identities=29%  Similarity=0.328  Sum_probs=54.6

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++|+||+|+.+.+.+..+++..++..+ +.++ +++||++|.||+++|.+|++.+..+..
T Consensus       110 ~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~~~Sa~~g~gi~~l~~~l~~~~~~~~~  172 (175)
T 2nzj_A          110 DHVPIILVGNKADLARCREVSVEEGRACAVVF-DCKF-IETSATLQHNVAELFEGVVRQLRLRRR  172 (175)
T ss_dssp             --CCEEEEEECTTCTTTCCSCHHHHHHHHHHH-TSEE-EECBTTTTBSHHHHHHHHHHHHHHHHC
T ss_pred             CCCCEEEEEEChhhccccccCHHHHHHHHHHc-CCeE-EEEecCCCCCHHHHHHHHHHHHHHhhc
Confidence            57999999999999877777878888888888 8899 999999999999999999999877654

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=99.36  E-value=2.6e-12  Score=80.28  Aligned_cols=61  Identities=26%  Similarity=0.297  Sum_probs=55.4

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .++|+++|+||+|+.+.+.+..+.+..+++.+ +.++ +++||+++.|++++|..+++.+..+
T Consensus       108 ~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~~v~~l~~~l~~~i~~~  168 (169)
T 3q85_A          108 HDLPVILVGNKSDLARSREVSLEEGRHLAGTL-SCKH-IETSAALHHNTRELFEGAVRQIRLR  168 (169)
T ss_dssp             SCCCEEEEEECTTCGGGCCSCHHHHHHHHHHT-TCEE-EECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             CCCCEEEEeeCcchhhcccCCHHHHHHHHHHc-CCcE-EEecCccCCCHHHHHHHHHHHHHhc
Confidence            48999999999999877778888889999999 8899 9999999999999999999988654

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.33  E-value=2.2e-12  Score=84.70  Aligned_cols=64  Identities=31%  Similarity=0.372  Sum_probs=53.4

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..++|++||+||+|+.+.+.+..+.+..++..+ ++.+ +++||+++.||+++|.+|++.+.++..
T Consensus       116 ~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~i~~~~~  179 (223)
T 3cpj_B          116 DDNVAVGLIGNKSDLAHLRAVPTEESKTFAQEN-QLLF-TETSALNSENVDKAFEELINTIYQKVS  179 (223)
T ss_dssp             C--CEEEEEECCGGGGGGCCSCHHHHHHHHHHT-TCEE-EECCCC-CCCHHHHHHHHHHHHTTCC-
T ss_pred             CCCCeEEEEEECcccccccccCHHHHHHHHHHc-CCEE-EEEeCCCCCCHHHHHHHHHHHHHHHhh
Confidence            357999999999999876677778888888888 8899 999999999999999999999887654

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=99.33  E-value=5.8e-12  Score=81.41  Aligned_cols=63  Identities=25%  Similarity=0.298  Sum_probs=55.5

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++|+||+|+.+.+.+..+++..++..+ +..+ +++||+++.||+++|..+++.+.+...
T Consensus       129 ~~~piilv~nK~Dl~~~~~v~~~~~~~~a~~~-~~~~-~e~Sa~~~~~v~~lf~~l~~~i~~~~~  191 (195)
T 3cbq_A          129 HDLPVILVGNKSDLARSREVSLEEGRHLAGTL-SCKH-IETSAALHHNTRELFEGAVRQIRLRRG  191 (195)
T ss_dssp             SCCCEEEEEECTTCTTTCCSCHHHHHHHHHHT-TCEE-EEEBTTTTBSHHHHHHHHHHHHHTTC-
T ss_pred             CCCCEEEEeechhccccCCcCHHHHHHHHHHh-CCEE-EEEcCCCCCCHHHHHHHHHHHHHHhcC
Confidence            57999999999999877778888888898888 7899 999999999999999999998876543

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.31  E-value=1.3e-11  Score=78.89  Aligned_cols=64  Identities=38%  Similarity=0.642  Sum_probs=57.5

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..++|+++|+||+|+.+.+.+....+..++..+ +.++ +++||+++.||+++|.+|++.+.++..
T Consensus       119 ~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~g~gv~~l~~~l~~~i~~~~~  182 (196)
T 3tkl_A          119 SENVNKLLVGNKCDLTTKKVVDYTTAKEFADSL-GIPF-LETSAKNATNVEQSFMTMAAEIKKRMG  182 (196)
T ss_dssp             CTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHT-TCCE-EEECTTTCTTHHHHHHHHHHHHHHHC-
T ss_pred             CCCCCEEEEEECcccccccccCHHHHHHHHHHc-CCcE-EEEeCCCCCCHHHHHHHHHHHHHHHhc
Confidence            458999999999999887778888888899998 8999 999999999999999999999988765

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=99.31  E-value=7.4e-12  Score=79.40  Aligned_cols=63  Identities=35%  Similarity=0.578  Sum_probs=55.0

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..++|+++|+||+|+.+ +.+..+.+..++..+ +.++ +++||++|.|++++|.+|.+.+.+...
T Consensus       107 ~~~~p~i~v~nK~Dl~~-~~~~~~~~~~~~~~~-~~~~-~~~Sa~~g~gi~~l~~~l~~~~~~~~~  169 (189)
T 4dsu_A          107 SEDVPMVLVGNKCDLPS-RTVDTKQAQDLARSY-GIPF-IETSAKTRQGVDDAFYTLVREIRKHKE  169 (189)
T ss_dssp             CSCCCEEEEEECTTSSS-CSSCHHHHHHHHHHH-TCCE-EECCTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             CCCCcEEEEEECccCcc-cccCHHHHHHHHHHc-CCeE-EEEeCCCCCCHHHHHHHHHHHHHHhhh
Confidence            46899999999999974 456777888888888 8899 999999999999999999999987755

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=99.31  E-value=9.3e-12  Score=80.25  Aligned_cols=63  Identities=27%  Similarity=0.334  Sum_probs=54.2

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++|+||+|+...+.+..+.+..++..+ +..+ +++||++|.||+++|..+++.+.....
T Consensus       113 ~~~piilV~NK~Dl~~~r~v~~~~~~~~a~~~-~~~~-~e~SA~~g~~v~~lf~~l~~~~~~~~~  175 (192)
T 2cjw_A          113 EDIPIILVGNKSDLVRXREVSVSEGRAXAVVF-DXKF-IETSAAVQHNVKELFEGIVRQVRLRRD  175 (192)
T ss_dssp             SCCCEEEEEECTTCGGGCCSCHHHHHHHHHHT-TCEE-EECBTTTTBSHHHHHHHHHHHHHHHHS
T ss_pred             CCCeEEEEEechhhhccccccHHHHHHHHHHh-CCce-EEeccccCCCHHHHHHHHHHHHHhhcc
Confidence            57999999999999766667777777777778 7899 999999999999999999998865543

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=99.31  E-value=1e-11  Score=78.63  Aligned_cols=61  Identities=31%  Similarity=0.398  Sum_probs=55.6

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccC-CCCCHHHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAK-DSTNVEEAFYCLANELKN   71 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~-~~~~v~~lf~~l~~~i~~   71 (106)
                      ..++|+++|+||+|+.+.+.+..+++..++..+ +.++ +++||+ ++.||+++|..|++.+.+
T Consensus       121 ~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~~~Sa~~~~~~v~~l~~~l~~~i~~  182 (183)
T 3kkq_A          121 RESFPMILVANKVDLMHLRKVTRDQGKEMATKY-NIPY-IETSAKDPPLNVDKTFHDLVRVIRQ  182 (183)
T ss_dssp             SSCCCEEEEEECTTCSTTCCSCHHHHHHHHHHH-TCCE-EEEBCSSSCBSHHHHHHHHHHHHHH
T ss_pred             CCCCcEEEEEECCCchhccCcCHHHHHHHHHHh-CCeE-EEeccCCCCCCHHHHHHHHHHHHhh
Confidence            468999999999999887788888899999999 8999 999999 999999999999988765

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=99.31  E-value=9.4e-12  Score=78.85  Aligned_cols=64  Identities=34%  Similarity=0.579  Sum_probs=52.0

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .+++|+++|+||+|+.+.+.+..+.+..+++.+ ++.+ +++||+++.||+++|..|++.+.++..
T Consensus       111 ~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~~~Sa~~~~~i~~l~~~l~~~i~~~~~  174 (183)
T 2fu5_C          111 SADVEKMILGNKCDVNDKRQVSKERGEKLALDY-GIKF-METSAKANINVENAFFTLARDIKAKMD  174 (183)
T ss_dssp             CTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHH-TCEE-EECCC---CCHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCEEEEEECccCCccCcCCHHHHHHHHHHc-CCeE-EEEeCCCCCCHHHHHHHHHHHHHHHhh
Confidence            357999999999999876777888888898888 8899 999999999999999999999887655

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.30  E-value=8.6e-12  Score=79.88  Aligned_cols=64  Identities=28%  Similarity=0.429  Sum_probs=56.9

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..++|+++|+||+|+.+.+.+..+.+..++..+ ++.+ +++||+++.||+++|..|++.+.++..
T Consensus       126 ~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~i~~~~~  189 (191)
T 3dz8_A          126 WDNAQVILVGNKCDMEEERVVPTEKGQLLAEQL-GFDF-FEASAKENISVRQAFERLVDAICDKMS  189 (191)
T ss_dssp             CTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHH-TCEE-EECBTTTTBSHHHHHHHHHHHHHHHC-
T ss_pred             CCCCCEEEEEECCCCccccccCHHHHHHHHHHc-CCeE-EEEECCCCCCHHHHHHHHHHHHHHhcc
Confidence            368999999999999877778888888899888 8899 999999999999999999999987754

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=99.30  E-value=5.2e-12  Score=79.93  Aligned_cols=64  Identities=22%  Similarity=0.310  Sum_probs=55.1

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..++|+++|+||+|+.+.+.+..+.+..+++.+ +..+ +++||+++.|++++|..+++.+.+...
T Consensus       109 ~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~~v~~l~~~l~~~~~~~~~  172 (181)
T 3t5g_A          109 KVQIPIMLVGNKKDLHMERVISYEEGKALAESW-NAAF-LESSAKENQTAVDVFRRIILEAEKMDG  172 (181)
T ss_dssp             ---CCEEEEEECTTCTTTCCSCHHHHHHHHHHT-TCEE-EECCTTSHHHHHHHHHHHHHHHHTC--
T ss_pred             CCCCCEEEEEECccchhcceecHHHHHHHHHHh-CCcE-EEEecCCCCCHHHHHHHHHHHHHHhcC
Confidence            458999999999999877888888999999999 8899 999999999999999999999887655

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=99.29  E-value=1.3e-11  Score=77.93  Aligned_cols=64  Identities=19%  Similarity=0.183  Sum_probs=54.1

Q ss_pred             CCCeEEEEEecCCCC--CCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLE--SEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      +++|+++|+||+|+.  ..+.+..+++..++..+++..+ +++||++|.||+++|..+++.+.+...
T Consensus       107 ~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~-~~~Sa~~~~~i~~lf~~l~~~~~~~~~  172 (178)
T 2iwr_A          107 GGLALALVGTQDRISASSPRVVGDARARALXADMKRCSY-YETXATYGLNVDRVFQEVAQKVVTLRK  172 (178)
T ss_dssp             CCCEEEEEEECTTCBTTBCCCSCHHHHHHHHHHHSSEEE-EEEBTTTTBTHHHHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEEECccccccccCcCCHHHHHHHHHhhcCCeE-EEEeccccCCHHHHHHHHHHHHHHHHh
Confidence            689999999999994  4456777888888776536889 999999999999999999998877654

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=99.29  E-value=1.4e-11  Score=78.91  Aligned_cols=64  Identities=39%  Similarity=0.439  Sum_probs=57.0

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..++|+++|+||+|+.+.+.+..+++..++..+ ++.+ +++||+++.||+++|.+|++.+.++..
T Consensus       124 ~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~i~~~~~  187 (191)
T 2a5j_A          124 SSNMVIMLIGNKSDLESRRDVKREEGEAFAREH-GLIF-METSAKTACNVEEAFINTAKEIYRKIQ  187 (191)
T ss_dssp             CTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHH-TCEE-EEECTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCEEEEEECcccCCccccCHHHHHHHHHHc-CCEE-EEEeCCCCCCHHHHHHHHHHHHHHHHH
Confidence            368999999999999876677788888888888 8899 999999999999999999999988765

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=99.29  E-value=1.4e-11  Score=79.74  Aligned_cols=64  Identities=45%  Similarity=0.511  Sum_probs=56.6

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCc-ceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEI-HYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..++|++||+||+|+.+.+.+..+++..++... ++ .+ +++||+++.||+++|.+|++.+.++..
T Consensus       132 ~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~-~~~~~-~~~SA~~g~gi~~l~~~l~~~i~~~~~  196 (201)
T 2hup_A          132 GSNIVQLLIGNKSDLSELREVSLAEAQSLAEHY-DILCA-IETSAKDSSNVEEAFLRVATELIMRHG  196 (201)
T ss_dssp             CTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHT-TCSEE-EECBTTTTBSHHHHHHHHHHHHHHHTT
T ss_pred             CCCCCEEEEEECCccccccccCHHHHHHHHHHc-CCCEE-EEEeCCCCCCHHHHHHHHHHHHHHhcc
Confidence            367999999999999876677888888888888 77 89 999999999999999999999987654

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.28  E-value=3.3e-12  Score=81.82  Aligned_cols=61  Identities=36%  Similarity=0.385  Sum_probs=51.8

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      +++|+++|+||+|+.+ +.+..+.+..++..+ ++.+ +++||+++.||+++|.+|.+.+.++.
T Consensus       113 ~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~~~~~~  173 (199)
T 2gf0_A          113 EDIPVMLVGNKCDETQ-REVDTREAQAVAQEW-KCAF-METSAKMNYNVKELFQELLTLETRRN  173 (199)
T ss_dssp             GGSCEEEEEECTTCSS-CSSCHHHHHHHHHHH-TCEE-EECBTTTTBSHHHHHHHHHHHCSSSC
T ss_pred             CCCCEEEEEECccCCc-cccCHHHHHHHHHHh-CCeE-EEEecCCCCCHHHHHHHHHHHHhhhh
Confidence            4789999999999975 456677778888888 8899 99999999999999999988775543

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=99.28  E-value=1.5e-11  Score=77.94  Aligned_cols=64  Identities=36%  Similarity=0.433  Sum_probs=57.1

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..++|+++|+||+|+.+.+.+...++..++... ++.+ +++||+++.|++++|.++++.+.++..
T Consensus       113 ~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~~~~~~~  176 (186)
T 2bme_A          113 SQNIVIILCGNKKDLDADREVTFLEASRFAQEN-ELMF-LETSALTGENVEEAFVQCARKILNKIE  176 (186)
T ss_dssp             CTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHT-TCEE-EECCTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             CCCCcEEEEEECcccccccccCHHHHHHHHHHc-CCEE-EEecCCCCCCHHHHHHHHHHHHHHHhh
Confidence            468999999999999766677778888888888 8899 999999999999999999999988766

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=99.27  E-value=1.7e-11  Score=79.27  Aligned_cols=64  Identities=38%  Similarity=0.438  Sum_probs=56.9

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..++|+++|+||+|+.+.+.+...++..++... ++.+ +++||+++.||+++|.+|++.+.++..
T Consensus       128 ~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~~~SA~~g~gi~~l~~~l~~~i~~~~~  191 (200)
T 2o52_A          128 SPNIVVILCGNKKDLDPEREVTFLEASRFAQEN-ELMF-LETSALTGENVEEAFLKCARTILNKID  191 (200)
T ss_dssp             CTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHT-TCEE-EEECTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             CCCCcEEEEEECCCcccccccCHHHHHHHHHHc-CCEE-EEEeCCCCCCHHHHHHHHHHHHHHHHh
Confidence            468999999999999766677777888888888 8899 999999999999999999999988766

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=99.27  E-value=1.3e-11  Score=77.50  Aligned_cols=61  Identities=33%  Similarity=0.488  Sum_probs=53.5

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      ..++|+++|+||+|+.+.+.+..+++..++..+ ++.+ +++||+++.|++++|.++++.+.+
T Consensus       118 ~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~i~~  178 (179)
T 1z0f_A          118 NPNTVIILIGNKADLEAQRDVTYEEAKQFAEEN-GLLF-LEASAKTGENVEDAFLEAAKKIYQ  178 (179)
T ss_dssp             CTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHT-TCEE-EECCTTTCTTHHHHHHHHHHHHC-
T ss_pred             CCCCcEEEEEECcccccccccCHHHHHHHHHHc-CCEE-EEEeCCCCCCHHHHHHHHHHHHhh
Confidence            468999999999999776677778888888888 8899 999999999999999999987753

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=99.26  E-value=1.8e-11  Score=78.30  Aligned_cols=64  Identities=20%  Similarity=0.214  Sum_probs=54.6

Q ss_pred             CCCeEEEEEecCCCC--CCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLE--SEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++|+||+|+.  ..+.+..+++..++..++...+ +++||+++.||+++|.++++.+.++..
T Consensus       118 ~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~-~e~Sa~~~~gv~~lf~~l~~~i~~~~~  183 (184)
T 3ihw_A          118 SEVPMVLVGTQDAISAANPRVIDDSRARKLSTDLKRCTY-YETCATYGLNVERVFQDVAQKVVALRK  183 (184)
T ss_dssp             GGSCEEEEEECTTCBTTBCCCSCHHHHHHHHHHTTTCEE-EEEBTTTTBTHHHHHHHHHHHHHHHC-
T ss_pred             CCCCEEEEEECcccccccccccCHHHHHHHHHHcCCCeE-EEecCCCCCCHHHHHHHHHHHHHHHhc
Confidence            578999999999994  4566788888889988833899 999999999999999999998887643

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=99.26  E-value=2.2e-11  Score=76.63  Aligned_cols=64  Identities=36%  Similarity=0.438  Sum_probs=56.7

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..++|+++|+||+|+.+.+.+..+.+..++... +..+ +++||+++.|++++|.+|.+.+.+...
T Consensus       112 ~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~~~Sa~~~~gv~~l~~~l~~~~~~~~~  175 (181)
T 2fn4_A          112 RDDFPVVLVGNKADLESQRQVPRSEASAFGASH-HVAY-FEASAKLRLNVDEAFEQLVRAVRKYQE  175 (181)
T ss_dssp             SSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHT-TCEE-EECBTTTTBSHHHHHHHHHHHHHHHTT
T ss_pred             CCCCCEEEEEECcccccccccCHHHHHHHHHHc-CCeE-EEecCCCCCCHHHHHHHHHHHHHHhhc
Confidence            468999999999999876677788888888888 8899 999999999999999999999987655

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=99.26  E-value=1.2e-11  Score=76.78  Aligned_cols=60  Identities=33%  Similarity=0.506  Sum_probs=53.4

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .++|+++|+||+|+.+.+.+..+++..++..+ +.++ +++||+++.|++++|.++++.+.+
T Consensus       108 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~i~~  167 (168)
T 1u8z_A          108 ENVPFLLVGNKSDLEDKRQVSVEEAKNRADQW-NVNY-VETSAKTRANVDKVFFDLMREIRA  167 (168)
T ss_dssp             TTSCEEEEEECGGGGGGCCSCHHHHHHHHHHH-TCEE-EECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             CCCcEEEEEECccccccCccCHHHHHHHHHHc-CCeE-EEeCCCCCCCHHHHHHHHHHHHHh
Confidence            57999999999999876677788888888888 8899 999999999999999999988754

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=99.26  E-value=2e-11  Score=77.96  Aligned_cols=63  Identities=27%  Similarity=0.461  Sum_probs=55.9

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++|+||+|+.+.+.+..+.+..+++.+ ++.+ +++||+++.|++++|.+|++.+.++..
T Consensus       126 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~g~gi~~l~~~l~~~i~~~~~  188 (189)
T 2gf9_A          126 DNAQVILVGNKCDLEDERVVPAEDGRRLADDL-GFEF-FEASAKENINVKQVFERLVDVICEKMN  188 (189)
T ss_dssp             TTCEEEEEEECTTCGGGCCSCHHHHHHHHHHH-TCEE-EECBTTTTBSHHHHHHHHHHHHHHHHT
T ss_pred             CCCCEEEEEECcccccccCCCHHHHHHHHHHc-CCeE-EEEECCCCCCHHHHHHHHHHHHHHHhc
Confidence            58999999999999876677777888888888 8899 999999999999999999999887643

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=99.26  E-value=2.2e-11  Score=77.00  Aligned_cols=63  Identities=35%  Similarity=0.512  Sum_probs=56.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++|+||+|+.+.+.+..+++..+++.+ ++++ +++||+++.||+++|.+|.+.+.++..
T Consensus       122 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~i~~~~~  184 (187)
T 2a9k_A          122 ENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQW-NVNY-VETSAKTRANVDKVFFDLMREIRARKM  184 (187)
T ss_dssp             TTCCEEEEEECGGGGGGCCSCHHHHHHHHHHT-TCEE-EECCTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEEECccccccCccCHHHHHHHHHHc-CCeE-EEeCCCCCCCHHHHHHHHHHHHHHhhc
Confidence            48999999999999876667788888888888 8899 999999999999999999999887654

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=99.26  E-value=1.9e-11  Score=76.94  Aligned_cols=63  Identities=27%  Similarity=0.346  Sum_probs=56.5

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      +++|+++|+||+|+.+.+.+..+.+..++..+ +.++ +++||+++.|++++|.++.+.+.+...
T Consensus       112 ~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~~~~~~~  174 (181)
T 3tw8_B          112 DDVCRILVGNKNDDPERKVVETEDAYKFAGQM-GIQL-FETSAKENVNVEEMFNCITELVLRAKK  174 (181)
T ss_dssp             TTSEEEEEEECTTCGGGCCSCHHHHHHHHHHH-TCCE-EECBTTTTBSHHHHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCchhcccCHHHHHHHHHHc-CCeE-EEEECCCCCCHHHHHHHHHHHHHHHhh
Confidence            57999999999999877777878888888888 8899 999999999999999999999887765

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.25  E-value=2.1e-11  Score=79.28  Aligned_cols=64  Identities=39%  Similarity=0.452  Sum_probs=56.4

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..++|+++|+||+|+.+.+.+..+.+..++... ++.+ +++||+++.||+++|.++++.+.++..
T Consensus       129 ~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~~~Sa~~g~gv~~l~~~l~~~i~~~~~  192 (201)
T 2ew1_A          129 SNKVITVLVGNKIDLAERREVSQQRAEEFSEAQ-DMYY-LETSAKESDNVEKLFLDLACRLISEAR  192 (201)
T ss_dssp             CTTCEEEEEEECGGGGGGCSSCHHHHHHHHHHH-TCCE-EECCTTTCTTHHHHHHHHHHHHHHHHC
T ss_pred             CCCCCEEEEEECCCCccccccCHHHHHHHHHHc-CCEE-EEEeCCCCCCHHHHHHHHHHHHHHHHh
Confidence            467999999999999876677788888888888 8899 999999999999999999999887654

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=99.25  E-value=3.1e-11  Score=76.87  Aligned_cols=61  Identities=15%  Similarity=0.084  Sum_probs=54.6

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCc-ceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEI-HYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++|+||+|+.+  .+..+++..+++.+ +. .+ +++||+++.||+++|.+|++.+.++..
T Consensus       134 ~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~-~~~~~-~~~Sa~~~~gv~~l~~~l~~~i~~~~~  195 (198)
T 3t1o_A          134 DDVPIVIQVNKRDLPD--ALPVEMVRAVVDPE-GKFPV-LEAVATEGKGVFETLKEVSRLVLARVA  195 (198)
T ss_dssp             TSSCEEEEEECTTSTT--CCCHHHHHHHHCTT-CCSCE-EECBGGGTBTHHHHHHHHHHHHHHHHC
T ss_pred             CCCCEEEEEEchhccc--ccCHHHHHHHHHhc-CCceE-EEEecCCCcCHHHHHHHHHHHHHHHhh
Confidence            6899999999999975  36778888898888 77 99 999999999999999999999988765

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=99.25  E-value=2e-11  Score=75.83  Aligned_cols=61  Identities=31%  Similarity=0.465  Sum_probs=52.5

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      ..++|+++|+||+|+.+.+.+..+.+..+++.+++..+ +++||++|.|++++|.+|.+.+.
T Consensus       106 ~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~~~Sa~~~~gi~~l~~~l~~~i~  166 (167)
T 1c1y_A          106 TEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAF-LESSAKSKINVNEIFYDLVRQIN  166 (167)
T ss_dssp             CSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEE-EECBTTTTBSHHHHHHHHHHHHT
T ss_pred             cCCCcEEEEEECccccccccCCHHHHHHHHHHccCCcE-EEecCCCCCCHHHHHHHHHHHHh
Confidence            36899999999999987667777888888877646789 99999999999999999988763

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.24  E-value=3.4e-11  Score=75.87  Aligned_cols=62  Identities=35%  Similarity=0.439  Sum_probs=54.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      .++|+++|+||+|+.+.+.+..+.+..+++.+ ++.+ +++||+++.|++++|.++.+.+.++.
T Consensus       115 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~~~~~~  176 (180)
T 2g6b_A          115 HDVALMLLGNKVDSAHERVVKREDGEKLAKEY-GLPF-METSAKTGLNVDLAFTAIAKELKRRS  176 (180)
T ss_dssp             TTCEEEEEEECCSTTSCCCSCHHHHHHHHHHH-TCCE-EECCTTTCTTHHHHHHHHHHHHHC--
T ss_pred             CCCcEEEEEECcccCcccccCHHHHHHHHHHc-CCeE-EEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            68999999999999877777888888888888 8899 99999999999999999998886543

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=99.24  E-value=1.3e-11  Score=77.03  Aligned_cols=60  Identities=35%  Similarity=0.388  Sum_probs=53.6

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .++|+++|+||+|+.+.+.+..+++..+++.. +..+ +++||+++.|++++|.+|++.+.+
T Consensus       110 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~~~~  169 (170)
T 1z08_A          110 NEICLCIVGNKIDLEKERHVSIQEAESYAESV-GAKH-YHTSAKQNKGIEELFLDLCKRMIE  169 (170)
T ss_dssp             GGSEEEEEEECGGGGGGCCSCHHHHHHHHHHT-TCEE-EEEBTTTTBSHHHHHHHHHHHHHC
T ss_pred             CCCeEEEEEECcccccccccCHHHHHHHHHHc-CCeE-EEecCCCCCCHHHHHHHHHHHHhh
Confidence            57899999999999876677888888888888 8899 999999999999999999988764

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.24  E-value=2.5e-11  Score=78.02  Aligned_cols=63  Identities=29%  Similarity=0.426  Sum_probs=55.9

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCC-CHHHHHHHHHHHHHHhh
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDST-NVEEAFYCLANELKNRQ   73 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~-~v~~lf~~l~~~i~~~~   73 (106)
                      ..++|+++|+||+|+.+.+.+..+++..++..+ ++.+ +++||+++. ||+++|.+|++.+.++.
T Consensus       130 ~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~~~Sa~~g~~gi~~l~~~l~~~i~~~~  193 (196)
T 2atv_A          130 PKNVTLILVGNKADLDHSRQVSTEEGEKLATEL-ACAF-YECSACTGEGNITEIFYELCREVRRRR  193 (196)
T ss_dssp             TSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHH-TSEE-EECCTTTCTTCHHHHHHHHHHHHHHHH
T ss_pred             CCCCcEEEEEECcccccccccCHHHHHHHHHHh-CCeE-EEECCCcCCcCHHHHHHHHHHHHHhhc
Confidence            368999999999999876677888888888888 8899 999999999 99999999999987764

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.24  E-value=3e-11  Score=77.54  Aligned_cols=63  Identities=27%  Similarity=0.463  Sum_probs=54.1

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      ..++|+++|+||+|+.+.+.+..+++..+++...+..+ +++||+++.||+++|.+|.+.+.++
T Consensus       129 ~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~-~~~SA~~g~gi~~l~~~l~~~i~~~  191 (192)
T 2il1_A          129 SEDAELLLVGNKLDCETDREITRQQGEKFAQQITGMRF-CEASAKDNFNVDEIFLKLVDDILKK  191 (192)
T ss_dssp             CTTCEEEEEEECGGGGGGCCSCHHHHHHHHHTSTTCEE-EECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             CCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCeE-EEEeCCCCCCHHHHHHHHHHHHHHh
Confidence            45899999999999987667777778888877437889 9999999999999999999988754

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=99.24  E-value=9.8e-12  Score=79.63  Aligned_cols=60  Identities=22%  Similarity=0.236  Sum_probs=53.9

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEccc-CCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSA-KDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa-~~~~~v~~lf~~l~~~i~~   71 (106)
                      .++|+++|+||+|+.+.+.+..+++..++..+ ++.+ +++|| +++.||+++|..+++.+.+
T Consensus       126 ~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~e~Sa~~~g~gv~~lf~~l~~~i~~  186 (187)
T 3c5c_A          126 RSIPALLLGNKLDMAQYRQVTKAEGVALAGRF-GCLF-FEVSACLDFEHVQHVFHEAVREARR  186 (187)
T ss_dssp             CCCCEEEEEECGGGGGGCSSCHHHHHHHHHHH-TCEE-EECCSSSCSHHHHHHHHHHHHHHHC
T ss_pred             CCCCEEEEEECcchhhcCccCHHHHHHHHHHc-CCcE-EEEeecCccccHHHHHHHHHHHHhh
Confidence            58999999999999876778888888999988 8899 99999 8999999999999988754

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=99.23  E-value=2.2e-11  Score=76.81  Aligned_cols=63  Identities=35%  Similarity=0.435  Sum_probs=53.6

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      .+++|+++|+||+|+.+.+.+..+++..++..+ ++.+ +++||+++.|++++|.+|++.+.+..
T Consensus       115 ~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~g~gi~~l~~~l~~~~~~~~  177 (181)
T 2efe_B          115 NPNMVMALAGNKSDLLDARKVTAEDAQTYAQEN-GLFF-METSAKTATNVKEIFYEIARRLPRVQ  177 (181)
T ss_dssp             CTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHT-TCEE-EECCSSSCTTHHHHHHHHHHTCC---
T ss_pred             CCCCcEEEEEECCcccccccCCHHHHHHHHHHc-CCEE-EEEECCCCCCHHHHHHHHHHHHHhcC
Confidence            368999999999999877777888888888888 8899 99999999999999999988776543

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=99.23  E-value=3.9e-11  Score=76.75  Aligned_cols=64  Identities=38%  Similarity=0.399  Sum_probs=56.2

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..++|+++|+||+|+.+.+.+..+.+..++... ++.+ +++||+++.||+++|.+|.+.+.++..
T Consensus       128 ~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~i~~~~~  191 (193)
T 2oil_A          128 EATIVVMLVGNKSDLSQAREVPTEEARMFAENN-GLLF-LETSALDSTNVELAFETVLKEIFAKVS  191 (193)
T ss_dssp             CTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHT-TCEE-EEECTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEEECCCcccccccCHHHHHHHHHHc-CCEE-EEEeCCCCCCHHHHHHHHHHHHHHHhh
Confidence            368999999999999876667778888888888 8899 999999999999999999999887654

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=99.23  E-value=2.9e-11  Score=77.47  Aligned_cols=63  Identities=16%  Similarity=0.247  Sum_probs=54.2

Q ss_pred             CCCeEEEEEecCCCCCC--CCCCHHHHHHHhhhcCCcc-eEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESE--REVDFNEAEEMGEYVPEIH-YVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      +++|+++|+||+|+.+.  +.+..+.+..+++.+ +.. + +++||+++.||+++|..+++.+.++..
T Consensus       126 ~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~-~~~Sa~~~~gi~~l~~~l~~~i~~~~~  191 (194)
T 3reg_A          126 DTAKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKL-GCVAY-IEASSVAKIGLNEVFEKSVDCIFSNKP  191 (194)
T ss_dssp             TTSEEEEEEECGGGCCTTTTCCCHHHHHHHHHHH-TCSCE-EECBTTTTBSHHHHHHHHHHHHHCSCC
T ss_pred             CCCCEEEEEEChhhccCCCCcccHHHHHHHHHhc-CCCEE-EEeecCCCCCHHHHHHHHHHHHHhcCC
Confidence            57999999999999753  567788888899888 766 9 999999999999999999998876543

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=99.22  E-value=5.7e-11  Score=73.97  Aligned_cols=63  Identities=29%  Similarity=0.479  Sum_probs=53.7

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .+++|+++|+||+|+. .+.+..+.+..+++.+ ++++ +++||+++.|++++|..+.+.+.++..
T Consensus       106 ~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gv~~l~~~l~~~~~~~~~  168 (170)
T 1g16_A          106 NDEAQLLLVGNKSDME-TRVVTADQGEALAKEL-GIPF-IESSAKNDDNVNEIFFTLAKLIQEKID  168 (170)
T ss_dssp             CTTCEEEEEEECTTCT-TCCSCHHHHHHHHHHH-TCCE-EECBTTTTBSHHHHHHHHHHHHHHTC-
T ss_pred             CCCCcEEEEEECccCC-cCccCHHHHHHHHHHc-CCeE-EEEECCCCCCHHHHHHHHHHHHHHHhh
Confidence            3589999999999994 4456777788888888 8899 999999999999999999999877643

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=99.22  E-value=4.1e-11  Score=77.20  Aligned_cols=63  Identities=29%  Similarity=0.478  Sum_probs=56.6

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++|+||+|+.+.+.+..+.+..++..+ ++.+ +++||+++.||+++|.+|.+.+.++..
T Consensus       112 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~i~~~~~  174 (203)
T 1zbd_A          112 DNAQVLLVGNKCDMEDERVVSSERGRQLADHL-GFEF-FEASAKDNINVKQTFERLVDVICEKMS  174 (203)
T ss_dssp             SSCEEEEEEECTTCTTSCCSCHHHHHHHHHHH-TCEE-EECBTTTTBSSHHHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEEECcccCcccccCHHHHHHHHHHC-CCeE-EEEECCCCCCHHHHHHHHHHHHHHHHH
Confidence            58999999999999877777888888888888 8899 999999999999999999999887754

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=99.22  E-value=1.2e-11  Score=77.08  Aligned_cols=59  Identities=39%  Similarity=0.521  Sum_probs=51.8

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .+++|+++|+||+|+.+.+.+..+++..++... ++.+ +++||+++.|++++|.+|++.+
T Consensus       109 ~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~g~gi~~l~~~i~~~~  167 (170)
T 1r2q_A          109 SPNIVIALSGNKADLANKRAVDFQEAQSYADDN-SLLF-METSAKTSMNVNEIFMAIAKKL  167 (170)
T ss_dssp             CTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHT-TCEE-EECCTTTCTTHHHHHHHHHHTS
T ss_pred             CCCCcEEEEEECccCccccccCHHHHHHHHHHc-CCeE-EEEeCCCCCCHHHHHHHHHHHH
Confidence            468999999999999766667777888888888 8899 9999999999999999998765

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.22  E-value=1.2e-11  Score=79.87  Aligned_cols=64  Identities=25%  Similarity=0.336  Sum_probs=55.3

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..++|+++|+||+|+.+.+.+....+..++..+ +..+ +++||+++.||+++|..|++.+.+...
T Consensus       127 ~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~~~Sa~~~~~v~~l~~~l~~~i~~~~~  190 (201)
T 3oes_A          127 KTRVPVVLVGNKADLSPEREVQAVEGKKLAESW-GATF-MESSARENQLTQGIFTKVIQEIARVEN  190 (201)
T ss_dssp             --CCCEEEEEECTTCGGGCCSCHHHHHHHHHHH-TCEE-EECCTTCHHHHHHHHHHHHHHHHHC--
T ss_pred             CCCCCEEEEEECccCccccccCHHHHHHHHHHh-CCeE-EEEeCCCCCCHHHHHHHHHHHHHhhhh
Confidence            357899999999999877778888888899988 8899 999999999999999999999887755

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=99.22  E-value=4.1e-11  Score=76.06  Aligned_cols=63  Identities=37%  Similarity=0.447  Sum_probs=56.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++|+||+|+.+.+.+..+.+..++..+ ++.+ +++||+++.|++++|..|.+.+.++..
T Consensus       126 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~~v~~l~~~l~~~~~~~~~  188 (195)
T 3bc1_A          126 ENPDIVLCGNKSDLEDQRAVKEEEARELAEKY-GIPY-FETSAANGTNISHAIEMLLDLIMKRME  188 (195)
T ss_dssp             SSCCEEEEEECTTCGGGCCSCHHHHHHHHHHH-TCCE-EECCTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEEECcccccccccCHHHHHHHHHHc-CCCE-EEEECCCCCCHHHHHHHHHHHHHHHhh
Confidence            68999999999999876677778888888888 8899 999999999999999999999887755

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=99.21  E-value=5.1e-11  Score=77.53  Aligned_cols=63  Identities=35%  Similarity=0.430  Sum_probs=56.3

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++|+||+|+.+.+.+..+.+..++..+ ++.+ +++||+++.||+++|.+|.+.+.++..
T Consensus       140 ~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~~~Sa~~g~gi~~l~~~l~~~i~~~~~  202 (217)
T 2f7s_A          140 ENPDIVLIGNKADLPDQREVNERQARELADKY-GIPY-FETSAATGQNVEKAVETLLDLIMKRME  202 (217)
T ss_dssp             TCCEEEEEEECTTCGGGCCSCHHHHHHHHHHT-TCCE-EEEBTTTTBTHHHHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCccccccccCHHHHHHHHHHC-CCcE-EEEECCCCCCHHHHHHHHHHHHHHHhh
Confidence            68999999999999876677788888888888 8899 999999999999999999999887654

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=99.20  E-value=1.7e-11  Score=75.96  Aligned_cols=61  Identities=36%  Similarity=0.387  Sum_probs=53.5

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      ..++|+++|+||+|+.+.+.+..+.+..++..+ +.++ +++||+++.|++++|.++.+.+.+
T Consensus       106 ~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~~~~  166 (167)
T 1kao_A          106 YEKVPVILVGNKVDLESEREVSSSEGRALAEEW-GCPF-METSAKSKTMVDELFAEIVRQMNY  166 (167)
T ss_dssp             TSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHH-TSCE-EEECTTCHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCEEEEEECCcccccccCCHHHHHHHHHHh-CCCE-EEecCCCCcCHHHHHHHHHHHHhh
Confidence            358999999999999776677778888888888 8899 999999999999999999987753

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=99.20  E-value=2.6e-11  Score=75.44  Aligned_cols=60  Identities=27%  Similarity=0.360  Sum_probs=53.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .++|+++|+||+|+.+.+.+..+.+..+++.+ ++.+ +++||+++.|++++|.+|.+.+.+
T Consensus       108 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~~i~~l~~~l~~~~~~  167 (168)
T 1z2a_A          108 GDIPTALVQNKIDLLDDSCIKNEEAEGLAKRL-KLRF-YRTSVKEDLNVSEVFKYLAEKHLQ  167 (168)
T ss_dssp             CSCCEEEEEECGGGGGGCSSCHHHHHHHHHHH-TCEE-EECBTTTTBSSHHHHHHHHHHHHC
T ss_pred             CCCCEEEEEECcccCcccccCHHHHHHHHHHc-CCeE-EEEecCCCCCHHHHHHHHHHHHhh
Confidence            47899999999999876667778888888888 8899 999999999999999999988764

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.20  E-value=8.8e-11  Score=75.93  Aligned_cols=62  Identities=29%  Similarity=0.475  Sum_probs=54.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++|+||+|+. .+.+..+.+..++..+ ++++ +++||+++.||+++|.+|.+.+.++..
T Consensus       124 ~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~~~~~~~  185 (213)
T 3cph_A          124 DEAQLLLVGNKSDME-TRVVTADQGEALAKEL-GIPF-IESSAKNDDNVNEIFFTLAKLIQEKID  185 (213)
T ss_dssp             TCSEEEEEEECTTCS-SCCSCHHHHHHHHHHH-TCCE-EECBTTTTBSSHHHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCc-ccccCHHHHHHHHHHc-CCEE-EEEeCCCCCCHHHHHHHHHHHHHHHHh
Confidence            479999999999994 4556777788888888 8899 999999999999999999999988755

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=99.20  E-value=2.9e-11  Score=75.31  Aligned_cols=61  Identities=28%  Similarity=0.424  Sum_probs=53.2

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      ..+++|+++|+||+|+.+.+.+..+....++..+ +..+ +++||+++.|++++|..|.+.+.
T Consensus       108 ~~~~~~iilv~nK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~~~Sa~~~~~i~~l~~~i~~~i~  168 (170)
T 1z0j_A          108 GPPSIVVAIAGNKCDLTDVREVMERDAKDYADSI-HAIF-VETSAKNAININELFIEISRRIP  168 (170)
T ss_dssp             SCTTSEEEEEEECTTCGGGCCSCHHHHHHHHHHT-TCEE-EECBTTTTBSHHHHHHHHHHHCC
T ss_pred             CCCCCcEEEEEECCccccccccCHHHHHHHHHHc-CCEE-EEEeCCCCcCHHHHHHHHHHHHh
Confidence            3578999999999999876677788888888888 8899 99999999999999999987653

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.18  E-value=3.9e-11  Score=75.43  Aligned_cols=61  Identities=21%  Similarity=0.134  Sum_probs=52.6

Q ss_pred             CCe-EEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          11 AHD-SRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        11 ~ip-~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      +.| +++|+||+|+.+.+.+..+.+..+++.+ ++++ +++||+++.||+++|.+|++.+.+..
T Consensus       114 ~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~~~~~~  175 (178)
T 2hxs_A          114 TQPLVALVGNKIDLEHMRTIKPEKHLRFCQEN-GFSS-HFVSAKTGDSVFLCFQKVAAEILGIK  175 (178)
T ss_dssp             CCCEEEEEEECGGGGGGCSSCHHHHHHHHHHH-TCEE-EEECTTTCTTHHHHHHHHHHHHTTCC
T ss_pred             CCCeEEEEEEccccccccccCHHHHHHHHHHc-CCcE-EEEeCCCCCCHHHHHHHHHHHHHhhh
Confidence            455 7999999999876677778888888888 8899 99999999999999999999886553

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=99.17  E-value=1.5e-10  Score=72.65  Aligned_cols=61  Identities=33%  Similarity=0.359  Sum_probs=51.5

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .++|+++|+||+|+. .+.+..+.+..++....+..+ +++||+++.|++++|.++++.+.++
T Consensus       115 ~~~p~i~v~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~-~~~Sa~~~~gi~~l~~~l~~~~~~~  175 (177)
T 1wms_A          115 ESFPFVILGNKIDIS-ERQVSTEEAQAWCRDNGDYPY-FETSAKDATNVAAAFEEAVRRVLAT  175 (177)
T ss_dssp             TTSCEEEEEECTTCS-SCSSCHHHHHHHHHHTTCCCE-EECCTTTCTTHHHHHHHHHHHHHTC
T ss_pred             CCCcEEEEEECCccc-ccccCHHHHHHHHHhcCCceE-EEEeCCCCCCHHHHHHHHHHHHHhh
Confidence            678999999999997 455677778888773327899 9999999999999999999988654

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.17  E-value=1.4e-10  Score=74.23  Aligned_cols=59  Identities=12%  Similarity=0.183  Sum_probs=50.9

Q ss_pred             CCCeEEEEEecCCCCCC------------CCCCHHHHHHHhhhcCCc-ceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESE------------REVDFNEAEEMGEYVPEI-HYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      +++|+++|+||+|+.+.            +.+..+++..++..+ +. .+ +++||+++.||+++|.+|++.+.
T Consensus       121 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~-~~~~~-~~~Sa~~g~gi~~l~~~l~~~i~  192 (194)
T 2atx_A          121 PNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEI-GACCY-VECSALTQKGLKTVFDEAIIAIL  192 (194)
T ss_dssp             TTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHH-TCSCE-EECCTTTCTTHHHHHHHHHHHHH
T ss_pred             CCCCEEEEEEChhhcccccchhhcccccCcccCHHHHHHHHHHc-CCcEE-EEeeCCCCCCHHHHHHHHHHHHh
Confidence            48999999999999753            356778888888888 65 89 99999999999999999998775

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=99.17  E-value=3.6e-11  Score=78.66  Aligned_cols=63  Identities=17%  Similarity=0.241  Sum_probs=53.7

Q ss_pred             CCCeEEEEEecCCCCCC------------CCCCHHHHHHHhhhcCCc-ceEEEcccCCCCC-HHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESE------------REVDFNEAEEMGEYVPEI-HYVMETSAKDSTN-VEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~-v~~lf~~l~~~i~~~~~   74 (106)
                      +++|++||+||+|+.+.            +.+..+++..++..+ ++ .+ +++||+++.| |+++|..+++.+.....
T Consensus       130 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~-~~~~~-~e~SA~~g~g~v~~lf~~l~~~~~~~~~  206 (214)
T 3q3j_B          130 PSTRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQL-GAEIY-LEGSAFTSEKSIHSIFRTASMLCLNKPS  206 (214)
T ss_dssp             TTSEEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHH-TCSEE-EECCTTTCHHHHHHHHHHHHHHHHC---
T ss_pred             CCCCEEEEEEChhhccchhhhhhhcccccCccCHHHHHHHHHHc-CCCEE-EEeccCCCcccHHHHHHHHHHHHhccCc
Confidence            58999999999999753            567888899999998 77 89 9999999998 99999999998876654

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=99.17  E-value=3.4e-11  Score=77.20  Aligned_cols=61  Identities=33%  Similarity=0.445  Sum_probs=52.6

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .++|+++|+||+|+.+.+.+..+++..+++.+ ++.+ +++||+++.|++++|..|.+.+.+.
T Consensus       127 ~~~piiiv~NK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~i~~~  187 (192)
T 2fg5_A          127 ENIVMAIAGNKCDLSDIREVPLKDAKEYAESI-GAIV-VETSAKNAINIEELFQGISRQIPPL  187 (192)
T ss_dssp             TTCEEEEEEECGGGGGGCCSCHHHHHHHHHTT-TCEE-EECBTTTTBSHHHHHHHHHHTCC--
T ss_pred             CCCcEEEEEECcccccccccCHHHHHHHHHHc-CCEE-EEEeCCCCcCHHHHHHHHHHHHHhh
Confidence            58999999999999766677788888898888 8899 9999999999999999998876543

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=99.17  E-value=1.5e-10  Score=72.76  Aligned_cols=64  Identities=27%  Similarity=0.316  Sum_probs=52.6

Q ss_pred             CCCeEEEEEecCCCCC-CCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLES-EREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++|+||+|+.+ .+.+..+.+..++....+..+ +++||+++.|++++|.+|.+.+.++..
T Consensus       117 ~~~p~ilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~-~~~Sa~~~~gi~~l~~~l~~~~~~~~~  181 (182)
T 1ky3_A          117 ETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPL-FLTSAKNAINVDTAFEEIARSALQQNQ  181 (182)
T ss_dssp             TTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCE-EEEBTTTTBSHHHHHHHHHHHHHHHHC
T ss_pred             CCCcEEEEEECCccccccccCCHHHHHHHHHhcCCCeE-EEEecCCCCCHHHHHHHHHHHHHHhhc
Confidence            6899999999999953 344667777788774337889 999999999999999999998877643

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi}

Probab=99.17  E-value=5.3e-11  Score=77.51  Aligned_cols=63  Identities=24%  Similarity=0.265  Sum_probs=53.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++|+||+|+.+.+.+..+.+..++... +..+ +++||++|.||+++|.+|++.+.+...
T Consensus       116 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~g~gv~~l~~~l~~~~~~~~~  178 (218)
T 4djt_A          116 NEAPIVVCANKIDIKNRQKISKKLVMEVLKGK-NYEY-FEISAKTAHNFGLPFLHLARIFTGRPD  178 (218)
T ss_dssp             SSSCEEEEEECTTCC----CCHHHHHHHTTTC-CCEE-EEEBTTTTBTTTHHHHHHHHHHHCCTT
T ss_pred             CCCCEEEEEECCCCccccccCHHHHHHHHHHc-CCcE-EEEecCCCCCHHHHHHHHHHHHhcccc
Confidence            46899999999999877677888888888888 8899 999999999999999999999987755

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=99.16  E-value=5.4e-11  Score=76.65  Aligned_cols=60  Identities=30%  Similarity=0.318  Sum_probs=50.8

Q ss_pred             CCCeEEEEEecCCCC------CCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLE------SEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~------~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .++|+++|+||+|+.      ..+.+..+.+..++..+ ++.+ +++||+++.||+++|.+|++.+.+
T Consensus       132 ~~~piilv~NK~Dl~~~~~~~~~~~v~~~~~~~~~~~~-~~~~-~~~SA~~g~gv~el~~~l~~~i~~  197 (199)
T 2p5s_A          132 ETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTY-GALF-CETSAKDGSNIVEAVLHLAREVKK  197 (199)
T ss_dssp             --CCEEEEEECGGGHHHHHHTTCCCCCHHHHHHHHHHH-TCEE-EECCTTTCTTHHHHHHHHHHHHTC
T ss_pred             CCCCEEEEEECcccccccccccccccCHHHHHHHHHHc-CCeE-EEeeCCCCCCHHHHHHHHHHHHHh
Confidence            579999999999996      34567777888888888 8899 999999999999999999988753

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.16  E-value=2.8e-11  Score=75.32  Aligned_cols=59  Identities=29%  Similarity=0.374  Sum_probs=50.9

Q ss_pred             CCCCeEEEEEecCCCCCC---CCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESE---REVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~---~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      ..++|+++|+||+|+.+.   +.+..+....++..+ ++.+ +++||+++.|++++|.+|.+.+
T Consensus       106 ~~~~piilv~nK~Dl~~~~~~~~v~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~i  167 (170)
T 1ek0_A          106 SKDIIIALVGNKIDXLQEGGERKVAREEGEKLAEEK-GLLF-FETSAKTGENVNDVFLGIGEKI  167 (170)
T ss_dssp             CTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHH-TCEE-EECCTTTCTTHHHHHHHHHTTS
T ss_pred             CCCCcEEEEEECCCccccccccCCCHHHHHHHHHHc-CCEE-EEEeCCCCCCHHHHHHHHHHHH
Confidence            468999999999999754   567777788888888 8899 9999999999999999998755

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=99.16  E-value=6.9e-11  Score=75.42  Aligned_cols=61  Identities=33%  Similarity=0.438  Sum_probs=50.5

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCC---CCHHHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDS---TNVEEAFYCLANELKN   71 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~---~~v~~lf~~l~~~i~~   71 (106)
                      ..++|+++|+||+|+.+.+.+..+.+..++..+ ++.+ +++||+++   .||+++|.+|++.+.+
T Consensus       125 ~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~~~Sa~~~~~~~~i~~l~~~l~~~i~~  188 (189)
T 1z06_A          125 ANDIPRILVGNKCDLRSAIQVPTDLAQKFADTH-SMPL-FETSAKNPNDNDHVEAIFMTLAHKLKS  188 (189)
T ss_dssp             CSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHT-TCCE-EECCSSSGGGGSCHHHHHHHHC-----
T ss_pred             CCCCCEEEEEECccccccceeCHHHHHHHHHHc-CCEE-EEEeCCcCCcccCHHHHHHHHHHHHhh
Confidence            468999999999999876677888888888888 8899 99999999   9999999999887753

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.15  E-value=1.3e-10  Score=74.77  Aligned_cols=63  Identities=21%  Similarity=0.210  Sum_probs=53.7

Q ss_pred             CCCeEEEEEecCCCCC------------CCCCCHHHHHHHhhhcCCc-ceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLES------------EREVDFNEAEEMGEYVPEI-HYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      +++|+++|+||+|+.+            .+.+..+.+..++..+ +. .+ +++||+++.||+++|.++++.+.+...
T Consensus       123 ~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~-~~~~~-~~~Sa~~g~gi~~l~~~l~~~~~~~~~  198 (201)
T 2q3h_A          123 PKAPIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEI-KAASY-IECSALTQKNLKEVFDAAIVAGIQYSD  198 (201)
T ss_dssp             SSSCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHH-TCSEE-EECCTTTCTTHHHHHHHHHHHHHHHHC
T ss_pred             CCCCEEEEEECHhhhhchhhhhhhcccccccCCHHHHHHHHHhc-CCcEE-EEEecCCCCCHHHHHHHHHHHHhcccc
Confidence            4899999999999975            2456777788888887 65 89 999999999999999999999887654

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=99.15  E-value=3.4e-11  Score=75.56  Aligned_cols=60  Identities=32%  Similarity=0.378  Sum_probs=52.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .++|+++|+||+|+.+.+.+..+....++... +..+ +++||+++.|++++|..|.+.+.+
T Consensus       118 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~~i~~l~~~l~~~~~~  177 (179)
T 2y8e_A          118 SDVIIMLVGNKTDLSDKRQVSTEEGERKAKEL-NVMF-IETSAKAGYNVKQLFRRVAAALPG  177 (179)
T ss_dssp             TSSEEEEEEECGGGGGGCCSCHHHHHHHHHHH-TCEE-EEEBTTTTBSHHHHHHHHHHTCC-
T ss_pred             CCCcEEEEEECCcccccCcCCHHHHHHHHHHc-CCeE-EEEeCCCCCCHHHHHHHHHHHHhh
Confidence            57999999999999876677778888888888 8899 999999999999999999876643

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=99.15  E-value=1.7e-10  Score=71.27  Aligned_cols=59  Identities=36%  Similarity=0.538  Sum_probs=51.4

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .++|+++|+||+|+.+ +....+....+.+.+ ++++ +++||+++.|++++|.++.+.+.+
T Consensus       107 ~~~p~iiv~nK~Dl~~-~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~~~~  165 (166)
T 2ce2_X          107 DDVPMVLVGNKSDLAA-RTVESRQAQDLARSY-GIPY-IETSAKTRQGVEDAFYTLVREIRQ  165 (166)
T ss_dssp             SCCCEEEEEECTTCSC-CCSCHHHHHHHHHHH-TCCE-EEECTTTCTTHHHHHHHHHHHHHT
T ss_pred             CCCcEEEEEEchhhhh-cccCHHHHHHHHHHc-CCeE-EEecCCCCCCHHHHHHHHHHHHHh
Confidence            4799999999999976 456677788888888 8899 999999999999999999988754

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.15  E-value=8.9e-11  Score=75.47  Aligned_cols=63  Identities=16%  Similarity=0.304  Sum_probs=45.1

Q ss_pred             CCCeEEEEEecCCCCC-CCCCCHHHHHHHhhhcCCcceEEEcccCC-CCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLES-EREVDFNEAEEMGEYVPEIHYVMETSAKD-STNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~-~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++|+||+|+.+ .+.+..+++..+++.+ ++.+ +++||++ +.|++++|.+|.+.+.+...
T Consensus       131 ~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~-~~~~-~~~Sa~~~~~gi~~l~~~i~~~~~~~~~  195 (208)
T 2yc2_C          131 RPLRAVLVANKTDLPPQRHQVRLDMAQDWATTN-TLDF-FDVSANPPGKDADAPFLSIATTFYRNYE  195 (208)
T ss_dssp             SCCEEEEEEECC-------CCCHHHHHHHHHHT-TCEE-EECCC-------CHHHHHHHHHHHHHHH
T ss_pred             cCCcEEEEEECcccchhhccCCHHHHHHHHHHc-CCEE-EEeccCCCCcCHHHHHHHHHHHHHHHHH
Confidence            5899999999999987 6677888888999888 8899 9999999 99999999999998876543

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.14  E-value=3e-11  Score=75.30  Aligned_cols=59  Identities=39%  Similarity=0.406  Sum_probs=50.8

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      +++|+++|+||+|+.+.+.+....+..+...+ +.++ +++||+++.|++++|.+|.+.+.
T Consensus       108 ~~~pii~v~nK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~~~  166 (172)
T 2erx_A          108 ESIPIMLVGNKCDESPSREVQSSEAEALARTW-KCAF-METSAKLNHNVKELFQELLNLEK  166 (172)
T ss_dssp             -CCCEEEEEECGGGGGGCCSCHHHHHHHHHHH-TCEE-EECBTTTTBSHHHHHHHHHHTCC
T ss_pred             CCCCEEEEEEccccccccccCHHHHHHHHHHh-CCeE-EEecCCCCcCHHHHHHHHHHHHh
Confidence            57999999999999876677777778888888 8899 99999999999999999987653

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=99.14  E-value=1.8e-10  Score=74.38  Aligned_cols=59  Identities=25%  Similarity=0.275  Sum_probs=50.7

Q ss_pred             CCCeEEEEEecCCCCCC------------CCCCHHHHHHHhhhcCCc-ceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESE------------REVDFNEAEEMGEYVPEI-HYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      +++|+++|+||+|+.+.            +.+..+++..++... +. .+ +++||+++.||+++|..|.+.+.
T Consensus       128 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~-~~~~~-~~~SA~~g~gi~~l~~~i~~~~l  199 (201)
T 2gco_A          128 PNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRI-SAFGY-LECSAKTKEGVREVFEMATRAGL  199 (201)
T ss_dssp             TTCCEEEEEECGGGTTCHHHHHHHHTTTCCCCCHHHHHHHHHHT-TCSEE-EECCTTTCTTHHHHHHHHHHHHH
T ss_pred             CCCCEEEEEecHHhhcCccchhhhcccccCcCCHHHHHHHHHhC-CCcEE-EEeeCCCCCCHHHHHHHHHHHHh
Confidence            48999999999999764            456777788888888 65 89 99999999999999999998775

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=99.14  E-value=2.8e-10  Score=72.44  Aligned_cols=62  Identities=37%  Similarity=0.568  Sum_probs=53.7

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++|+||+|+.+ +.+..+.+..+++.+ ++++ +++||+++.|++++|.+|++.+.+...
T Consensus       125 ~~~p~ilv~nK~Dl~~-~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~~~~~~~  186 (190)
T 3con_A          125 DDVPMVLVGNKCDLPT-RTVDTKQAHELAKSY-GIPF-IETSAKTRQGVEDAFYTLVREIRQYRM  186 (190)
T ss_dssp             SCCCEEEEEECTTCSC-CCSCHHHHHHHHHHH-TCCE-EECCTTTCTTHHHHHHHHHHHHHHHC-
T ss_pred             CCCeEEEEEECCcCCc-ccCCHHHHHHHHHHc-CCeE-EEEeCCCCCCHHHHHHHHHHHHHHHHH
Confidence            5799999999999976 456677888888888 8899 999999999999999999999887654

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=99.14  E-value=1.2e-10  Score=75.94  Aligned_cols=63  Identities=25%  Similarity=0.295  Sum_probs=52.5

Q ss_pred             CCCeEEEEEecCCCCCCC------------CCCHHHHHHHhhhcCCc-ceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESER------------EVDFNEAEEMGEYVPEI-HYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~------------~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      +++|+++|+||+|+.+..            .+..+++..+++.+ +. .+ +++||++|.||+++|..|++.+.+...
T Consensus       137 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~-~~~~~-~~~SA~~g~gi~el~~~l~~~~~~~~~  212 (214)
T 2j1l_A          137 KKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSV-GAVAY-LECSARLHDNVHAVFQEAAEVALSSRG  212 (214)
T ss_dssp             SSCCEEEEEECGGGGSCHHHHHHHHHTTCCCCCHHHHHHHHHHT-TCSEE-EECBTTTTBSHHHHHHHHHHHHHHC--
T ss_pred             CCCCEEEEEEChhhhccchhhhhhcccccCcccHHHHHHHHHhc-CCCEE-EEecCCCCCCHHHHHHHHHHHHHHhhc
Confidence            579999999999997542            56677788888888 65 89 999999999999999999998876543

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=99.13  E-value=2.9e-10  Score=72.35  Aligned_cols=62  Identities=29%  Similarity=0.321  Sum_probs=53.5

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++|+||+|+.+ +.+..+.+..++..+ ++.+ +++||+++.|++++|.+|.+.+.+...
T Consensus       120 ~~~p~ilv~nK~Dl~~-~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~~~~~~~  181 (195)
T 1x3s_A          120 NDIVNMLVGNKIDKEN-REVDRNEGLKFARKH-SMLF-IEASAKTCDGVQCAFEELVEKIIQTPG  181 (195)
T ss_dssp             SCCEEEEEEECTTSSS-CCSCHHHHHHHHHHT-TCEE-EECCTTTCTTHHHHHHHHHHHHHTSGG
T ss_pred             CCCcEEEEEECCcCcc-cccCHHHHHHHHHHc-CCEE-EEecCCCCCCHHHHHHHHHHHHHhhhh
Confidence            5799999999999953 456777788888888 8899 999999999999999999999876543

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=99.12  E-value=2.8e-10  Score=74.91  Aligned_cols=62  Identities=23%  Similarity=0.184  Sum_probs=48.7

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHH---HHHHHhhhcCC--cceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFN---EAEEMGEYVPE--IHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~---~~~~~~~~~~~--~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      +++|+++|+||+|+.+.+.+...   ....+.... +  ..+ +++||++|.||+++|.+|++.+.+..
T Consensus       141 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~~-~~~SA~~g~gi~~l~~~l~~~i~~~~  207 (228)
T 2qu8_A          141 SNKSIVIGFNKIDKCNMDSLSIDNKLLIKQILDNV-KNPIKF-SSFSTLTGVGVEQAKITACELLKNDQ  207 (228)
T ss_dssp             -CCCEEEEEECGGGCC--CCCHHHHHHHHHHHHHC-CSCEEE-EECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             cCCcEEEEEeCcccCCchhhHHHHHHHHHHHHHhc-CCCceE-EEEecccCCCHHHHHHHHHHHHHHHH
Confidence            37999999999999876666554   345556665 5  789 99999999999999999999887654

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.11  E-value=2.2e-10  Score=74.22  Aligned_cols=62  Identities=24%  Similarity=0.315  Sum_probs=52.1

Q ss_pred             CCCeEEEEEecCCCCCC------------CCCCHHHHHHHhhhcCCc-ceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          10 SAHDSRVWSNKCDLESE------------REVDFNEAEEMGEYVPEI-HYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      +++|+++|+||+|+.+.            +.+..+.+..++... +. .+ +++||+++.||+++|..|++.+.+..
T Consensus       128 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~-~~~~~-~~~SA~~g~gi~el~~~l~~~i~~~~  202 (207)
T 2fv8_A          128 PNVPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRI-QAYDY-LECSAKTKEGVREVFETATRAALQKR  202 (207)
T ss_dssp             TTCCEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHT-TCSEE-EECCTTTCTTHHHHHHHHHHHHHSCC
T ss_pred             CCCCEEEEEEchhhhccccchhhhhhcccCCCCHHHHHHHHHhc-CCCEE-EEeeCCCCCCHHHHHHHHHHHHHHHh
Confidence            48999999999999754            446677778888887 55 89 99999999999999999999887543

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=99.10  E-value=5.3e-10  Score=71.20  Aligned_cols=60  Identities=28%  Similarity=0.385  Sum_probs=51.9

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      ++|+++|+||+| ...+.+..+++..++..+ ++.+ +++||+++.|++++|.+|.+.+.++.
T Consensus       147 ~~piilv~NK~D-~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~~i~~l~~~l~~~~~~~~  206 (208)
T 3clv_A          147 NYIIILVANKID-KNKFQVDILEVQKYAQDN-NLLF-IQTSAKTGTNIKNIFYMLAEEIYKNI  206 (208)
T ss_dssp             CCEEEEEEECTT-CC-CCSCHHHHHHHHHHT-TCEE-EEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEECCC-cccccCCHHHHHHHHHHc-CCcE-EEEecCCCCCHHHHHHHHHHHHHHhc
Confidence            489999999999 444567778888888888 8899 99999999999999999999887654

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=99.09  E-value=9.9e-11  Score=74.47  Aligned_cols=61  Identities=20%  Similarity=0.302  Sum_probs=51.1

Q ss_pred             CCCeEEEEEecCCCCCC------------CCCCHHHHHHHhhhcCCcceEEEcccC-CCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESE------------REVDFNEAEEMGEYVPEIHYVMETSAK-DSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~~~~~~~~Sa~-~~~~v~~lf~~l~~~i~~   71 (106)
                      +++|+++|+||+|+.+.            +.+..+++..+++.++...+ +++||+ ++.||+++|..+++.+.+
T Consensus       110 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~-~e~Sa~~~~~gi~~l~~~i~~~~l~  183 (184)
T 1m7b_A          110 PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATY-IECSALQSENSVRDIFHVATLACVN  183 (184)
T ss_dssp             TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEE-EECBTTTBHHHHHHHHHHHHHHHHT
T ss_pred             CCCCEEEEEEcchhhcchhhHhhhhhcccCCCCHHHHHHHHHHcCCcEE-EEeeecCCCcCHHHHHHHHHHHHhc
Confidence            57999999999999742            45777888888888723789 999999 689999999999988764

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=99.08  E-value=9.4e-11  Score=73.93  Aligned_cols=59  Identities=20%  Similarity=0.304  Sum_probs=49.4

Q ss_pred             CCCeEEEEEecCCCCCCCC----------CCHHHHHHHhhhcCCc-ceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESERE----------VDFNEAEEMGEYVPEI-HYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      +++|+++|+||+|+.+.+.          +..+++..++..+ +. .+ +++||+++.|++++|..+++.+.
T Consensus       111 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~v~~~~~~~~~~~~-~~~~~-~~~Sa~~~~gi~~l~~~l~~~i~  180 (182)
T 3bwd_D          111 PGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLI-GAPAY-IECSSKSQENVKGVFDAAIRVVL  180 (182)
T ss_dssp             TTCCEEEEEECHHHHTCHHHHHHC--CCCCCHHHHHHHHHHH-TCSEE-EECCTTTCTTHHHHHHHHHHHHS
T ss_pred             CCCCEEEEEechhhhcCcccccccccCCCCCHHHHHHHHHHc-CCCEE-EEEECCCCCCHHHHHHHHHHHHh
Confidence            4799999999999965433          3667778888888 64 89 99999999999999999988764

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=99.08  E-value=2.5e-10  Score=72.10  Aligned_cols=61  Identities=15%  Similarity=0.201  Sum_probs=51.4

Q ss_pred             CCCeEEEEEecCCCCCC------------CCCCHHHHHHHhhhcCCc-ceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESE------------REVDFNEAEEMGEYVPEI-HYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      +++|+++|+||+|+.+.            +.+..+++..++..+ +. ++ +++||++|.|++++|..+.+.+.+.
T Consensus       108 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~-~~~~~-~~~Sa~~g~gi~~l~~~l~~~~~~~  181 (186)
T 1mh1_A          108 PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEI-GAVKY-LECSALTQRGLKTVFDEAIRAVLCP  181 (186)
T ss_dssp             TTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHT-TCSEE-EECCTTTCTTHHHHHHHHHHHHSCC
T ss_pred             CCCCEEEEeEcccccccchhhhhhcccccccCCHHHHHHHHHhc-CCcEE-EEecCCCccCHHHHHHHHHHHHhcc
Confidence            48999999999999653            456777788888888 65 89 9999999999999999999887543

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.07  E-value=1.8e-10  Score=73.61  Aligned_cols=61  Identities=16%  Similarity=0.147  Sum_probs=46.4

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHH-H-----hhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEE-M-----GEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~-~-----~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++|+||+|+.+...  .++... +     ++.. ++.+ +++||+++.||+++|.+|++.+.+...
T Consensus       126 ~~~piilv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~g~gv~~l~~~l~~~~~~~~~  192 (199)
T 4bas_A          126 GRVPFLFFANKMDAAGAKT--AAELVEILDLTTLMGDH-PFVI-FASNGLKGTGVHEGFSWLQETASRQSG  192 (199)
T ss_dssp             CBCCEEEEEECTTSTTCCC--HHHHHHHHTHHHHHTTS-CEEE-EECBTTTTBTHHHHHHHHHHHHHHHC-
T ss_pred             CCCCEEEEEECcCCCCCCC--HHHHHHHhcchhhccCC-eeEE-EEeeCCCccCHHHHHHHHHHHHHHHhc
Confidence            3899999999999976432  222211 1     1345 7789 999999999999999999999987755

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.07  E-value=8.1e-11  Score=76.34  Aligned_cols=63  Identities=19%  Similarity=0.267  Sum_probs=51.6

Q ss_pred             CCCeEEEEEecCCCCCCCC--------CCHHHHHHHhhhcCCc-ceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESERE--------VDFNEAEEMGEYVPEI-HYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~--------~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      +++|+++|+||+|+.+.+.        +..+++..++..+ +. .+ +++||+++.||+++|..+++.+.+...
T Consensus       112 ~~~piilv~nK~Dl~~~~~~~~~~~~~v~~~~~~~~~~~~-~~~~~-~~~Sa~~g~gi~~l~~~l~~~~~~~~~  183 (212)
T 2j0v_A          112 PNVPIVLVGTKLDLRDDKGYLADHTNVITSTQGEELRKQI-GAAAY-IECSSKTQQNVKAVFDTAIKVVLQPPR  183 (212)
T ss_dssp             TTCCEEEEEECHHHHTCHHHHHTCSSCCCHHHHHHHHHHH-TCSEE-EECCTTTCTTHHHHHHHHHHHHHCC--
T ss_pred             CCCCEEEEEeCHHhhhCccccccccCCCCHHHHHHHHHHc-CCceE-EEccCCCCCCHHHHHHHHHHHHhhhhh
Confidence            4899999999999975432        3667778888888 64 89 999999999999999999998876644

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=99.05  E-value=2.3e-10  Score=74.49  Aligned_cols=61  Identities=20%  Similarity=0.302  Sum_probs=51.0

Q ss_pred             CCCeEEEEEecCCCCCC------------CCCCHHHHHHHhhhcCCcceEEEcccC-CCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESE------------REVDFNEAEEMGEYVPEIHYVMETSAK-DSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~~~~~~~~Sa~-~~~~v~~lf~~l~~~i~~   71 (106)
                      +++|+++|+||+|+.+.            +.+..+++..+++.++...+ +++||+ ++.||+++|..+++.+.+
T Consensus       131 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~-~e~SAk~~~~gv~~lf~~l~~~~l~  204 (205)
T 1gwn_A          131 PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATY-IECSALQSENSVRDIFHVATLACVN  204 (205)
T ss_dssp             TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEE-EECCTTTCHHHHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEEechhhccchhhhhhhcccccCCCCHHHHHHHHHHcCCCEE-EEeeeccCCcCHHHHHHHHHHHHhh
Confidence            57999999999999742            45777888888888723689 999999 689999999999988765

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=99.04  E-value=1.6e-10  Score=74.91  Aligned_cols=59  Identities=15%  Similarity=0.269  Sum_probs=48.5

Q ss_pred             CCCeEEEEEecCCCCCCC------------CCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESER------------EVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~------------~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      +++|+++|+||+|+.+..            .+..+++..+++..+..++ +++||++|.||+++|.++.+.+
T Consensus       133 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~-~~~SA~~g~gi~~l~~~l~~~~  203 (204)
T 4gzl_A          133 PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKY-LECSALTQRGLKTVFDEAIRAV  203 (204)
T ss_dssp             SSCCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEE-EECCTTTCTTHHHHHHHHHHTT
T ss_pred             CCCCEEEEEechhhccchhhhhhhhccccccccHHHHHHHHHhcCCcEE-EEeeCCCCCCHHHHHHHHHHHh
Confidence            589999999999997543            2667778888888833469 9999999999999999998754

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=99.04  E-value=5.9e-10  Score=70.67  Aligned_cols=60  Identities=22%  Similarity=0.146  Sum_probs=47.6

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCc-------ceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEI-------HYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-------~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++|+||+|+....   .+....+++.+ +.       .+ +++||++|.||+++|.++++.+.+...
T Consensus       121 ~~~piilv~nK~Dl~~~~---~~~~~~~~~~~-~~~~~~~~~~~-~~~Sa~~~~~v~~l~~~l~~~~~~~~~  187 (190)
T 2cxx_A          121 LDIPTIVAVNKLDKIKNV---QEVINFLAEKF-EVPLSEIDKVF-IPISAKFGDNIERLKNRIFEVIRERQG  187 (190)
T ss_dssp             TTCCEEEEEECGGGCSCH---HHHHHHHHHHH-TCCGGGHHHHE-EECCTTTCTTHHHHHHHHHHHHHHC--
T ss_pred             cCCceEEEeehHhccCcH---HHHHHHHHHHh-hhhhhccCCcE-EEEecCCCCCHHHHHHHHHHhcchhhc
Confidence            579999999999997543   44566666666 43       48 999999999999999999998877654

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=99.03  E-value=7e-11  Score=73.38  Aligned_cols=59  Identities=22%  Similarity=0.179  Sum_probs=41.9

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhh-----hcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGE-----YVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      +++|+++|+||+|+.+..  ..........     .. ++++ +++||+++.|++++|.++++.+.++
T Consensus       100 ~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~i~~~  163 (164)
T 1r8s_A          100 RDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRHR-NWYI-QATCATSGDGLYEGLDWLSNQLRNQ  163 (164)
T ss_dssp             TTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCSSC-CEEE-EECBTTTTBTHHHHHHHHHHHC---
T ss_pred             cCCeEEEEEECcCCcCCC--CHHHHHHHhCcccccCc-cEEE-EEcccCCCcCHHHHHHHHHHHHhhc
Confidence            589999999999997532  2233222221     23 4578 9999999999999999999887654

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=99.02  E-value=1.7e-10  Score=72.00  Aligned_cols=59  Identities=27%  Similarity=0.281  Sum_probs=44.2

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHH-H----hhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEE-M----GEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~-~----~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .++|+++|+||+|+.+...  ...... +    .... ++.+ +++||+++.|++++|.++++.+.++
T Consensus       107 ~~~piilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~i~~~  170 (171)
T 1upt_A          107 RKAILVVFANKQDMEQAMT--SSEMANSLGLPALKDR-KWQI-FKTSATKGTGLDEAMEWLVETLKSR  170 (171)
T ss_dssp             TTCEEEEEEECTTSTTCCC--HHHHHHHHTGGGCTTS-CEEE-EECCTTTCTTHHHHHHHHHHHHHTC
T ss_pred             CCCEEEEEEECCCCcCCCC--HHHHHHHhCchhccCC-ceEE-EECcCCCCcCHHHHHHHHHHHHhhc
Confidence            6899999999999975432  222222 2    2233 5679 9999999999999999999888653

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.02  E-value=1.5e-11  Score=79.23  Aligned_cols=62  Identities=39%  Similarity=0.666  Sum_probs=45.4

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      ..++|+++|+||+|+.+.+.+..+.+..++..+ ++++ +++||+++.||+++|.+|++.+.++
T Consensus       136 ~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~~vSA~~g~gv~~l~~~l~~~l~~~  197 (199)
T 3l0i_B          136 SENVNKLLVGNKCDLTTKKVVDYTTAKEFADSL-GIPF-LETSAKNATNVEQSFMTMAAEIKKR  197 (199)
T ss_dssp             -CCSEEEEC-CCSSCC--CCCCSCC-CHHHHTT-TCCB-CCCCC---HHHHHHHHHHTTTTTTT
T ss_pred             cCCCCEEEEEECccCCccccCCHHHHHHHHHHc-CCeE-EEEECCCCCCHHHHHHHHHHHHHHh
Confidence            358999999999999876666655667788888 8899 9999999999999999998766543

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=99.00  E-value=8.5e-11  Score=73.74  Aligned_cols=57  Identities=14%  Similarity=0.209  Sum_probs=45.9

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .++|+++|+||+|+...+.+.. .+..+++.+ +.++ +++||++|.||+++|..+++.+
T Consensus       107 ~~~p~ilv~nK~Dl~~~~~~~~-~~~~~~~~~-~~~~-~~~SA~~~~~v~~l~~~l~~~~  163 (165)
T 2wji_A          107 MGANLLLALNKMDLAKSLGIEI-DVDKLEKIL-GVKV-VPLSAAKKMGIEELKKAISIAV  163 (165)
T ss_dssp             TTCCEEEEEECHHHHHHTTCCC-CHHHHHHHH-TSCE-EECBGGGTBSHHHHHHHHHHHT
T ss_pred             cCCCEEEEEEchHhccccChhh-HHHHHHHHh-CCCE-EEEEcCCCCCHHHHHHHHHHHh
Confidence            4799999999999864333332 356677777 7889 9999999999999999998765

>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=98.99  E-value=4.5e-10  Score=75.53  Aligned_cols=58  Identities=28%  Similarity=0.348  Sum_probs=46.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      .++|++||+||+||.+.+.+  +.+..++....++.+ +++||+++.||+++|.+|++.+.
T Consensus       197 ~~~piilV~NK~Dl~~~~~v--~~~~~~~~~~~~~~~-~e~SAk~g~gv~elf~~l~~~l~  254 (255)
T 3c5h_A          197 TKKPIVVVLTKCDEGVERYI--RDAHTFALSKKNLQV-VETSARSNVNVDLAFSTLVQLID  254 (255)
T ss_dssp             TTCCEEEEEECGGGBCHHHH--HHHHHHHHTSSSCCE-EECBTTTTBSHHHHHHHHHHHHH
T ss_pred             CCCCEEEEEEcccccccHHH--HHHHHHHHhcCCCeE-EEEECCCCCCHHHHHHHHHHHhc
Confidence            57999999999999654433  455666655227789 99999999999999999988764

>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=98.98  E-value=8.2e-10  Score=71.30  Aligned_cols=56  Identities=16%  Similarity=0.099  Sum_probs=44.5

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhc----------------CCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYV----------------PEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~----------------~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      .++|+++|+||+|+.+  .+..+++..+....                ....+ +++||++|.||+++|.+|++.
T Consensus       125 ~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~SA~~g~gv~~l~~~l~~~  196 (198)
T 1f6b_A          125 ANVPILILGNKIDRPE--AISEERLREMFGLYGQTTGKGSVSLKELNARPLEV-FMCSVLKRQGYGEGFRWMAQY  196 (198)
T ss_dssp             TTSCEEEEEECTTSTT--CCCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEE-EECBTTTTBSHHHHHHHHHTT
T ss_pred             CCCcEEEEEECCCccc--cCCHHHHHHHhCcccccccccccccccccCceEEE-EEEECCCCCCHHHHHHHHHHh
Confidence            5799999999999975  45666666665421                14679 999999999999999998754

>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=98.97  E-value=3.6e-10  Score=72.65  Aligned_cols=58  Identities=21%  Similarity=0.344  Sum_probs=45.2

Q ss_pred             CCCCeEEEEEecCCCCCC-------CCCCHHHHHHHhh----hcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESE-------REVDFNEAEEMGE----YVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~-------~~~~~~~~~~~~~----~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .+++|++||+||+||.+.       +.+....+..++.    .+ ++.+ +++||++ .||+++|..+++.+
T Consensus       127 ~~~~piilv~nK~Dl~~~~~~~~~~~~v~~~~~~~~~~~~~~~~-~~~~-~e~Sa~~-~~v~~~f~~l~~~l  195 (196)
T 3llu_A          127 NPDMNFEVFIHKVDGLSDDHKIETQRDIHQRANDDLADAGLEKL-HLSF-YLTSIYD-HSIFEAFSKVVQKL  195 (196)
T ss_dssp             CTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHHTTCTTS-CEEE-EEECTTS-THHHHHHHHHHHHT
T ss_pred             CCCCcEEEEEeccccCchhhhhHHHhHHHHHHHHHHHHhhhhcC-Ccce-EEEEech-hhHHHHHHHHHHHh
Confidence            358999999999998642       2333444555666    56 7889 9999999 99999999998765

>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=98.96  E-value=1e-09  Score=70.37  Aligned_cols=56  Identities=18%  Similarity=0.070  Sum_probs=44.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhc-----------CCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYV-----------PEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      .++|+++|+||+|+.+  .+..++...+....           .+..+ +++||+++.||+++|.+|++.
T Consensus       123 ~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~Sa~~g~gi~~l~~~l~~~  189 (190)
T 1m2o_B          123 KDVPFVILGNKIDAPN--AVSEAELRSALGLLNTTGSQRIEGQRPVEV-FMCSVVMRNGYLEAFQWLSQY  189 (190)
T ss_dssp             TTCCEEEEEECTTSTT--CCCHHHHHHHTTCSSCCC---CCSSCCEEE-EECBTTTTBSHHHHHHHHHTT
T ss_pred             cCCCEEEEEECCCCcC--CCCHHHHHHHhCCccccccccccccceEEE-EEeECCcCCCHHHHHHHHHhh
Confidence            6799999999999975  45566666655431           15679 999999999999999998753

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=98.96  E-value=5.1e-10  Score=71.12  Aligned_cols=61  Identities=16%  Similarity=0.083  Sum_probs=45.7

Q ss_pred             CCCeEEEEEecCCCCCCCC--CCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESERE--VDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .++|+++|+||+|+.+...  ...+....+....+..++ +++||+++.||+++|.+|.+.+.+
T Consensus       132 ~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~-~~~Sa~~~~gv~~l~~~l~~~l~~  194 (195)
T 3pqc_A          132 LNIPFTIVLTKMDKVKMSERAKKLEEHRKVFSKYGEYTI-IPTSSVTGEGISELLDLISTLLKE  194 (195)
T ss_dssp             TTCCEEEEEECGGGSCGGGHHHHHHHHHHHHHSSCCSCE-EECCTTTCTTHHHHHHHHHHHHC-
T ss_pred             cCCCEEEEEEChhcCChHHHHHHHHHHHHHHhhcCCCce-EEEecCCCCCHHHHHHHHHHHhhc
Confidence            4689999999999974332  222334555555435789 999999999999999999987754

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=98.96  E-value=3.6e-10  Score=71.96  Aligned_cols=60  Identities=18%  Similarity=0.154  Sum_probs=44.9

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHh-----hhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMG-----EYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      .++|+++|+||+|+.+..  ...+.....     ... ++.+ +++||+++.|++++|.++.+.+.++.
T Consensus       122 ~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~i~~~~  186 (189)
T 2x77_A          122 RKSLLLIFANKQDLPDAA--SEAEIAEQLGVSSIMNR-TWTI-VKSSSKTGDGLVEGMDWLVERLREQG  186 (189)
T ss_dssp             TTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSS-CEEE-EECCTTTCTTHHHHHHHHHHHHHHTC
T ss_pred             CCCeEEEEEECCCCcCCC--CHHHHHHHhChhhccCC-ceEE-EEccCCCccCHHHHHHHHHHHHHhcc
Confidence            589999999999997542  222222221     223 4578 99999999999999999999887654

>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=98.94  E-value=2e-10  Score=73.76  Aligned_cols=57  Identities=19%  Similarity=0.135  Sum_probs=42.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhh-----hcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGE-----YVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      .++|+++|+||+|+.+..  ..++......     .. ++.+ +++||+++.||+++|.+|++.+.
T Consensus       129 ~~~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~-~~~~-~~~SA~~g~gi~~l~~~l~~~i~  190 (192)
T 2b6h_A          129 RDAVLLVFANKQDMPNAM--PVSELTDKLGLQHLRSR-TWYV-QATCATQGTGLYDGLDWLSHELS  190 (192)
T ss_dssp             TTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCSSC-CEEE-EECBTTTTBTHHHHHHHHHHHTT
T ss_pred             CCCeEEEEEECCCCCCCC--CHHHHHHHhCcccccCC-ceEE-EECcCCCcCCHHHHHHHHHHHHh
Confidence            579999999999997532  2233222211     22 4578 99999999999999999988764

>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=98.94  E-value=2.2e-09  Score=68.17  Aligned_cols=59  Identities=17%  Similarity=0.133  Sum_probs=42.4

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHh-----hhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMG-----EYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .++|+++|+||+|+.+..  ..++.....     ... +..+ +++||++|.||+++|.++++.+.++
T Consensus       116 ~~~piilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~g~gi~~l~~~l~~~~~~~  179 (181)
T 1fzq_A          116 SCVPVLIFANKQDLLTAA--PASEIAEGLNLHTIRDR-VWQI-QSCSALTGEGVQDGMNWVCKNVNAK  179 (181)
T ss_dssp             TTCCEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSS-CEEE-EECCTTTCTTHHHHHHHHHHTC---
T ss_pred             cCCCEEEEEECcCcccCC--CHHHHHHHhCchhccCC-ceEE-EEccCCCCCCHHHHHHHHHHHHHhc
Confidence            679999999999997543  233333222     123 4678 9999999999999999998877554

>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=98.93  E-value=4.3e-09  Score=66.65  Aligned_cols=59  Identities=19%  Similarity=0.182  Sum_probs=45.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhh-----hcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGE-----YVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .++|+++|+||+|+.+..  ..+.......     .. ++++ +++||+++.|++++|.++.+.+.++
T Consensus       118 ~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~i~~~  181 (186)
T 1ksh_A          118 AGATLLIFANKQDLPGAL--SCNAIQEALELDSIRSH-HWRI-QGCSAVTGEDLLPGIDWLLDDISSR  181 (186)
T ss_dssp             TTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSS-CEEE-EECCTTTCTTHHHHHHHHHHHHHTC
T ss_pred             CCCcEEEEEeCccCCCCC--CHHHHHHHhChhhccCC-ceEE-EEeeCCCCCCHHHHHHHHHHHHHhc
Confidence            579999999999997543  2333333322     23 5689 9999999999999999999888654

>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=98.92  E-value=1.6e-09  Score=74.24  Aligned_cols=60  Identities=15%  Similarity=0.210  Sum_probs=51.4

Q ss_pred             CCCeEEEEEecCCCCCC------------CCCCHHHHHHHhhhcCCc-ceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESE------------REVDFNEAEEMGEYVPEI-HYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      +++|+++|+||+|+.+.            +.+..+.+..+++.. +. .+ +++||++|.||+++|..|++.+..
T Consensus       258 ~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~-~~~~~-~~~Sa~~~~gi~~l~~~l~~~~~~  330 (332)
T 2wkq_A          258 PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEI-GAVKY-LECSALTQRGLKTVFDEAIRAVLC  330 (332)
T ss_dssp             TTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHT-TCSEE-EECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             CCCcEEEEEEchhcccccchhhhccccccccccHHHHHHHHHHc-CCcEE-EEecCCCCcCHHHHHHHHHHHHhc
Confidence            38999999999999653            457778888888888 65 89 999999999999999999988754

>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=98.45  E-value=1.2e-10  Score=75.26  Aligned_cols=57  Identities=16%  Similarity=0.258  Sum_probs=46.2

Q ss_pred             CCeEEEEEecCCCCCCC------------CCCHHHHHHHhhhcCCc-ceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          11 AHDSRVWSNKCDLESER------------EVDFNEAEEMGEYVPEI-HYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~------------~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      ++|+++|+||+|+.+..            .+..+.+..+++.+ +. ++ +++||++|.||+++|..|++.+
T Consensus       134 ~~piilv~NK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~-~~~~~-~~vSA~~g~gi~~l~~~l~~~i  203 (204)
T 3th5_A          134 NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEI-GAVKY-LECSALTQRGLKTVFDEAIRAV  203 (204)
Confidence            79999999999997532            34445566677777 65 89 9999999999999999998765

>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=98.92  E-value=5.8e-10  Score=72.85  Aligned_cols=61  Identities=21%  Similarity=0.286  Sum_probs=49.6

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      +++|+++|+||+|+.+... .. ....++... +..+ +++||+++.||+++|.+|.+.+.....
T Consensus       118 ~~~p~ilv~nK~Dl~~~~~-~~-~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~l~~~~~  178 (221)
T 3gj0_A          118 ENIPIVLCGNKVDIKDRKV-KA-KSIVFHRKK-NLQY-YDISAKSNYNFEKPFLWLARKLIGDPN  178 (221)
T ss_dssp             TTCCEEEEEECTTSSSCSS-CG-GGCCHHHHH-TCEE-EECBGGGTBTTTHHHHHHHHHHHTCTT
T ss_pred             CCCCEEEEEECCccccccc-cH-HHHHHHHHc-CCEE-EEEeCCCCCCHHHHHHHHHHHHHhCcc
Confidence            4799999999999975432 22 345566667 7899 999999999999999999999887654

>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=98.92  E-value=5.8e-10  Score=71.04  Aligned_cols=63  Identities=14%  Similarity=0.100  Sum_probs=45.8

Q ss_pred             CCCeEEEEEecCCCCCCCCCC---HHHHHHHhhhcCCcc----eEEEcccCCCC-CHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVD---FNEAEEMGEYVPEIH----YVMETSAKDST-NVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~---~~~~~~~~~~~~~~~----~~~~~Sa~~~~-~v~~lf~~l~~~i~~~~~   74 (106)
                      +++|+++||||+|+.+.+.+.   ...+..+++.+ +..    + +++||+++. ++++++..+.+.+.+.+.
T Consensus       111 ~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~-~~~Sa~~~~~~~~~l~~~i~~~~~~~~~  181 (184)
T 2zej_A          111 SSSPVILVGTHLDVSDEKQRKACMSKITKELLNKR-GFPAIRDY-HFVNATEESDALAKLRKTIINESLNFKI  181 (184)
T ss_dssp             TTCEEEEEEECGGGCCHHHHHHHHHHHHHHTTTCT-TSCEEEEE-EECCTTSCCHHHHHHHHHHHHHHHCC--
T ss_pred             CCCcEEEEEECCCcccchhhHHHHHHHHHHHHHhc-CCcchhhe-EEEecccCchhHHHHHHHHHHHHhcccc
Confidence            579999999999997533221   12334555556 555    8 999999997 999999999888876543

>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=98.92  E-value=3.8e-09  Score=67.29  Aligned_cols=58  Identities=16%  Similarity=0.159  Sum_probs=44.2

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhh-----hcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGE-----YVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .++|+++|+||+|+.+.  ...++...+..     .. ++.+ +++||+++.||+++|.+|.+.+.+
T Consensus       125 ~~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gi~~l~~~l~~~i~~  187 (190)
T 2h57_A          125 RRIPILFFANKMDLRDA--VTSVKVSQLLCLENIKDK-PWHI-CASDAIKGEGLQEGVDWLQDQIQT  187 (190)
T ss_dssp             SCCCEEEEEECTTSTTC--CCHHHHHHHHTGGGCCSS-CEEE-EECBTTTTBTHHHHHHHHHHHC--
T ss_pred             CCCeEEEEEeCcCcccC--CCHHHHHHHhChhhccCC-ceEE-EEccCCCCcCHHHHHHHHHHHHHH
Confidence            58999999999999753  34445554442     23 5689 999999999999999999887654

>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=98.91  E-value=6.4e-09  Score=65.54  Aligned_cols=62  Identities=19%  Similarity=0.176  Sum_probs=46.3

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhc----CCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYV----PEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~----~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      ..++|+++|+||+|+.+.  ...++........    .++.+ +++||+++.|++++|.+|.+.+.+++
T Consensus       117 ~~~~piilv~nK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~-~~~Sa~~~~gi~~l~~~l~~~~~~~q  182 (183)
T 1moz_A          117 LQDAALLVFANKQDQPGA--LSASEVSKELNLVELKDRSWSI-VASSAIKGEGITEGLDWLIDVIKEEQ  182 (183)
T ss_dssp             TSSCEEEEEEECTTSTTC--CCHHHHHHHTTTTTCCSSCEEE-EEEBGGGTBTHHHHHHHHHHHHHHHH
T ss_pred             hCCCeEEEEEECCCCCCC--CCHHHHHHHhCcccccCCceEE-EEccCCCCcCHHHHHHHHHHHHHhcc
Confidence            368999999999999753  2344444433211    14578 99999999999999999999887653

>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=98.89  E-value=1.9e-09  Score=68.70  Aligned_cols=59  Identities=14%  Similarity=0.067  Sum_probs=43.7

Q ss_pred             CCCeEEEEEecCCCCCCCCCCH--HHHHH-HhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDF--NEAEE-MGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~--~~~~~-~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      .++|+++|+||+|+.+.+.+..  +.... +.... +..+ +++||+++.||+++|.+|.+.+.
T Consensus       133 ~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~gv~~l~~~l~~~l~  194 (195)
T 1svi_A          133 YGIPVIVIATKADKIPKGKWDKHAKVVRQTLNIDP-EDEL-ILFSSETKKGKDEAWGAIKKMIN  194 (195)
T ss_dssp             TTCCEEEEEECGGGSCGGGHHHHHHHHHHHHTCCT-TSEE-EECCTTTCTTHHHHHHHHHHHHT
T ss_pred             cCCCEEEEEECcccCChHHHHHHHHHHHHHHcccC-CCce-EEEEccCCCCHHHHHHHHHHHhc
Confidence            5789999999999976443221  22222 32233 6789 99999999999999999988763

>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=98.86  E-value=1.9e-08  Score=64.68  Aligned_cols=64  Identities=41%  Similarity=0.418  Sum_probs=55.3

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..+.|+++|+||+|+.+.+.+....+..++... ++.+ +++||+++.|++++|..+.+.+.+...
T Consensus       108 ~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~-~~~~-~d~Sal~~~~i~~l~~~l~~~~~~~~~  171 (199)
T 2f9l_A          108 DSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKN-NLSF-IETSALDSTNVEEAFKNILTEIYRIVS  171 (199)
T ss_dssp             CTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHT-TCEE-EECCTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEEECcccccccCcCHHHHHHHHHHc-CCeE-EEEeCCCCCCHHHHHHHHHHHHHHHHh
Confidence            357899999999999866667777788888887 8889 999999999999999999998887654

>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=98.85  E-value=1.1e-08  Score=65.04  Aligned_cols=59  Identities=15%  Similarity=0.160  Sum_probs=44.5

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhh-----hcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGE-----YVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .++|+++|+||+|+.+.  ...++......     .. ++.+ +++||+++.|++++|.+|++.+...
T Consensus       116 ~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~-~~~~-~~~Sa~~g~gi~~l~~~l~~~~~~~  179 (187)
T 1zj6_A          116 RKAGLLIFANKQDVKEC--MTVAEISQFLKLTSIKDH-QWHI-QACCALTGEGLCQGLEWMMSRLKIR  179 (187)
T ss_dssp             TTCEEEEEEECTTSTTC--CCHHHHHHHHTGGGCCSS-CEEE-EECBTTTTBTHHHHHHHHHHHHCC-
T ss_pred             CCCeEEEEEECCCCcCC--CCHHHHHHHhChhhhcCC-CcEE-EEccCCCCcCHHHHHHHHHHHHHHH
Confidence            67999999999999753  33444433322     23 5689 9999999999999999999877544

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=98.84  E-value=6.3e-10  Score=70.58  Aligned_cols=62  Identities=15%  Similarity=0.238  Sum_probs=49.3

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      ..++|+++|+||+|+...+.+. .....+.+.+ +..+ +++||+++.|++++|..+++.+.+..
T Consensus       110 ~~~~piilv~nK~Dl~~~~~~~-~~~~~~~~~~-~~~~-~~~Sa~~~~~v~~l~~~i~~~~~~~~  171 (188)
T 2wjg_A          110 EMGANLLLALNKMDLAKSLGIE-IDVDKLEKIL-GVKV-VPLSAAKKMGIEELKKAISIAVKDKK  171 (188)
T ss_dssp             TTTCCEEEEEECHHHHHHTTCC-CCHHHHHHHH-TSCE-EECBGGGTBSHHHHHHHHHHHHTTC-
T ss_pred             hcCCCEEEEEEhhhccccccch-HHHHHHHHHh-CCCe-EEEEecCCCCHHHHHHHHHHHHHhcc
Confidence            3578999999999986443333 2456677777 7899 99999999999999999998886554

>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=98.83  E-value=6.2e-10  Score=71.04  Aligned_cols=58  Identities=26%  Similarity=0.186  Sum_probs=42.3

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhh-----hcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGE-----YVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .++|+++|+||+|+.+..  ..........     .. +..+ +++||+++.||+++|.+|++.+.+
T Consensus       123 ~~~piilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~-~~~~-~~~SA~~g~gv~~l~~~l~~~~~~  185 (188)
T 1zd9_A          123 QGIPVLVLGNKRDLPGAL--DEKELIEKMNLSAIQDR-EICC-YSISCKEKDNIDITLQWLIQHSKS  185 (188)
T ss_dssp             TTCCEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSS-CEEE-EECCTTTCTTHHHHHHHHHHTCC-
T ss_pred             CCCCEEEEEECCCCccCC--CHHHHHHHhChhhhccC-CeeE-EEEECCCCCCHHHHHHHHHHHHHh
Confidence            689999999999997532  2333222221     23 5678 999999999999999999876644

>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=98.83  E-value=7.2e-09  Score=65.60  Aligned_cols=55  Identities=11%  Similarity=0.117  Sum_probs=41.7

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhh-----hcCCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGE-----YVPEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      .++|+++|+||+|+.+.  ...++......     .. ++.+ +++||+++.||+++|.+|++.
T Consensus       121 ~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~-~~~~-~~~Sa~~g~gi~~l~~~l~~~  180 (181)
T 2h17_A          121 RKAGLLIFANKQDVKEC--MTVAEISQFLKLTSIKDH-QWHI-QACCALTGEGLCQGLEWMMSR  180 (181)
T ss_dssp             TTCEEEEEEECTTSTTC--CCHHHHHHHTTGGGCCSS-CEEE-EECBTTTTBTHHHHHHHHHTC
T ss_pred             CCCeEEEEEECCCcccC--CCHHHHHHHhCcccccCC-ceEE-EEccCCCCcCHHHHHHHHHhh
Confidence            68999999999999753  23444444332     23 5689 999999999999999998754

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=98.83  E-value=9.7e-10  Score=67.84  Aligned_cols=53  Identities=13%  Similarity=0.071  Sum_probs=41.3

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCc-ceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEI-HYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .++|+++|+||+|+.+..    +.+..+. .+ +. .+ +++||+++.|++++|.++++.+
T Consensus       107 ~~~p~ilv~nK~Dl~~~~----~~~~~~~-~~-~~~~~-~~~Sa~~~~gv~~l~~~l~~~l  160 (161)
T 2dyk_A          107 KGKPVILVATKVDDPKHE----LYLGPLY-GL-GFGDP-IPTSSEHARGLEELLEAIWERL  160 (161)
T ss_dssp             HTCCEEEEEECCCSGGGG----GGCGGGG-GG-SSCSC-EECBTTTTBSHHHHHHHHHHHC
T ss_pred             cCCCEEEEEECcccccch----HhHHHHH-hC-CCCCe-EEEecccCCChHHHHHHHHHhC
Confidence            478999999999997532    2233344 45 45 79 9999999999999999998764

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=98.82  E-value=1.6e-08  Score=63.37  Aligned_cols=61  Identities=11%  Similarity=-0.039  Sum_probs=44.4

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcC------C--cceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVP------E--IHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~------~--~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++|+||+|+.+.   ..+..........      +  ..+ +++||+++.||+++|.+|++.+.....
T Consensus       106 ~~~p~ilv~nK~Dl~~~---~~~~~~~~~~~~~~~~~~~~~~~~~-~~~Sa~~~~gv~~l~~~l~~~~~~~~~  174 (178)
T 2lkc_A          106 ANVPIIVAINKMDKPEA---NPDRVMQELMEYNLVPEEWGGDTIF-CKLSAKTKEGLDHLLEMILLVSEMEEL  174 (178)
T ss_dssp             GSCCEEEEEETTTSSCS---CHHHHHHHHTTTTCCBTTTTSSEEE-EECCSSSSHHHHHHHHHHHHHHHHTTT
T ss_pred             CCCCEEEEEECccCCcC---CHHHHHHHHHhcCcChhHcCCcccE-EEEecCCCCCHHHHHHHHHHhhhhhcc
Confidence            57899999999999753   2223332222210      1  578 999999999999999999988776644

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=98.79  E-value=2e-09  Score=74.95  Aligned_cols=59  Identities=22%  Similarity=0.172  Sum_probs=43.4

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhh-----hcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGE-----YVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      +++|++||+||+|+.+...  .+.......     .. ++.+ +++||+++.||+++|..|++.+.++
T Consensus       265 ~~~piilV~NK~Dl~~~~~--~~~i~~~~~~~~~~~~-~~~~-~~vSAk~g~gi~el~~~l~~~l~~~  328 (329)
T 3o47_A          265 RDAVLLVFANKQDLPNAMN--AAEITDKLGLHSLRHR-NWYI-QATCATSGDGLYEGLDWLSNQLRNQ  328 (329)
T ss_dssp             TTCEEEEEEECTTSTTCCC--HHHHHHHHTCTTCCSS-CEEE-EECBTTTTBTHHHHHHHHHHHHTC-
T ss_pred             CCCeEEEEEECccCCcccC--HHHHHHHhchhhhhcC-CCEE-EEEECCCCcCHHHHHHHHHHHHHhc
Confidence            5899999999999975432  233322221     12 4578 9999999999999999999887543

>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=98.77  E-value=1.8e-09  Score=69.97  Aligned_cols=25  Identities=24%  Similarity=0.409  Sum_probs=20.3

Q ss_pred             CcceEEEcccCCC------CCHHHHHHHHHHH
Q psy5780          43 EIHYVMETSAKDS------TNVEEAFYCLANE   68 (106)
Q Consensus        43 ~~~~~~~~Sa~~~------~~v~~lf~~l~~~   68 (106)
                      ...| +++||++|      .||+++|.+|++.
T Consensus       183 ~~~~-~e~SAk~g~~~~~~~gv~~lf~~l~~~  213 (214)
T 2fh5_B          183 KVEF-LECSAKGGRGDTGSADIQDLEKWLAKI  213 (214)
T ss_dssp             CEEE-EECBCC-------CCBCHHHHHHHHHH
T ss_pred             cEEE-EEeeccCCCccccccChHHHHHHHHHh
Confidence            4569 99999999      9999999999875

>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=98.77  E-value=5.1e-09  Score=72.10  Aligned_cols=54  Identities=26%  Similarity=0.284  Sum_probs=42.7

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCC--cceEEEcccCCCCCHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPE--IHYVMETSAKDSTNVEEAFYCLAN   67 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~~v~~lf~~l~~   67 (106)
                      .++|++||+||+||.+.+.+  ++...+++.+ .  +.+ +++||+++.||+++|..+..
T Consensus       114 ~~~piilv~NK~DL~~~~~v--~~~~~~~~~~-~~~~~~-~~~SAktg~gv~~lf~~l~g  169 (301)
T 1u0l_A          114 NELETVMVINKMDLYDEDDL--RKVRELEEIY-SGLYPI-VKTSAKTGMGIEELKEYLKG  169 (301)
T ss_dssp             TTCEEEEEECCGGGCCHHHH--HHHHHHHHHH-TTTSCE-EECCTTTCTTHHHHHHHHSS
T ss_pred             CCCCEEEEEeHHHcCCchhH--HHHHHHHHHH-hhhCcE-EEEECCCCcCHHHHHHHhcC
Confidence            57999999999999754322  3355666666 5  789 99999999999999987764

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=98.76  E-value=1.1e-09  Score=76.63  Aligned_cols=61  Identities=28%  Similarity=0.314  Sum_probs=47.7

Q ss_pred             CCCCeEEEEEecCCCCCC-------CCCCHHHHHHHhhh----cCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780           9 DSAHDSRVWSNKCDLESE-------REVDFNEAEEMGEY----VPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~-------~~~~~~~~~~~~~~----~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .+++|+++||||+||.+.       +.+..+.+..+++.    + ++.| |+|||++ .+|.++|..+++.+..+
T Consensus       104 ~~~ipillvgNK~DL~~~~~R~~~~R~V~~~~~~~la~~~~~~~-~i~f-~eTSAkd-~nV~eAFs~iv~~li~~  175 (331)
T 3r7w_B          104 NPSINIEVLIHKVDGLSEDFKVDAQRDIMQRTGEELLELGLDGV-QVSF-YLTSIFD-HSIYEAFSRIVQKLIPE  175 (331)
T ss_dssp             CTTCEEEEECCCCCSSCSHHHHHHHHHHHHHHHHTTSSSSCSCC-CEEE-ECCCSSS-SHHHHHHHHHHTTSSTT
T ss_pred             CCCCcEEEEEECcccCchhhhhhHHHHhhHHHHHHHHhhccccc-CceE-EEeccCC-CcHHHHHHHHHHHHHhh
Confidence            368999999999999754       23555556666664    5 7899 9999998 59999999998766544

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=98.76  E-value=9.6e-09  Score=75.53  Aligned_cols=61  Identities=18%  Similarity=0.146  Sum_probs=48.5

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      ++.|+|+|+||+|+.+.+.+..+....+.... +.++ +++||++|.||+++|..+++.+...
T Consensus       149 ~~~pvilV~NK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~~vSA~~g~gi~eL~~~l~~~~~~~  209 (535)
T 3dpu_A          149 GKSPVIVVMNKIDENPSYNIEQKKINERFPAI-ENRF-HRISCKNGDGVESIAKSLKSAVLHP  209 (535)
T ss_dssp             SSCCEEEEECCTTTCTTCCCCHHHHHHHCGGG-TTCE-EECCC-----CTTHHHHHHHHHTCT
T ss_pred             CCCCEEEEEECCCcccccccCHHHHHHHHHhc-CCce-EEEecCcccCHHHHHHHHHHHHhcc
Confidence            46999999999999877777777788888888 7889 9999999999999999999887654

>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=98.75  E-value=3.8e-08  Score=63.02  Aligned_cols=59  Identities=41%  Similarity=0.452  Sum_probs=51.2

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      ..+.|+++|+||+||.+.+.+....+..++... ++.+ +++||+++.+++++|+.|.+.+
T Consensus       132 ~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~-~~~~-ld~Sald~~~v~~l~~~l~~~i  190 (191)
T 1oix_A          132 DSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKN-GLSF-IETSALDSTNVEAAFQTILTEI  190 (191)
T ss_dssp             CTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHT-TCEE-EECCTTTCTTHHHHHHHHHHHH
T ss_pred             CCCCcEEEEEECcccccccccCHHHHHHHHHHc-CCEE-EEEeCCCCCCHHHHHHHHHHHh
Confidence            357899999999999866666777788888888 8899 9999999999999999998765

>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=98.73  E-value=2.2e-08  Score=72.40  Aligned_cols=64  Identities=16%  Similarity=0.058  Sum_probs=49.6

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhc----CCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYV----PEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~----~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++|+||+|+.+.+....++........    ++.++ +++||++|.||+++|..+.+.+.....
T Consensus       305 ~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~SA~~g~gv~~l~~~i~~~~~~~~~  372 (456)
T 4dcu_A          305 AGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPI-LFMSALTKKRIHTLMPAIIKASENHSL  372 (456)
T ss_dssp             TTCEEEEEEECGGGSCCCSSHHHHHHHHHHHHCGGGTTSCE-EECCTTTCTTGGGHHHHHHHHHHHHTC
T ss_pred             cCCCEEEEEEChhcCCCchHHHHHHHHHHHHhcccCCCCCE-EEEcCCCCcCHHHHHHHHHHHHHHhcc
Confidence            57899999999999876655555554444332    24689 999999999999999999988866644

>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=98.71  E-value=4.5e-09  Score=74.08  Aligned_cols=62  Identities=24%  Similarity=0.239  Sum_probs=49.4

Q ss_pred             CCCeEEEEEecCCCCCCC---------------CCCHHHHHHHhh-----------hcCCcceEEEcccCCCCCHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESER---------------EVDFNEAEEMGE-----------YVPEIHYVMETSAKDSTNVEEAFY   63 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~---------------~~~~~~~~~~~~-----------~~~~~~~~~~~Sa~~~~~v~~lf~   63 (106)
                      .++|+|||+||+||...+               .+..+++..++.           .. .+.+ ++|||+++.||.++|.
T Consensus       259 ~~~piiLv~NK~DL~~~ki~~~~l~~~fp~~~g~~~~~e~~~~~~~~f~~l~~~~~~~-~~~~-~etSA~~~~nV~~vF~  336 (353)
T 1cip_A          259 TDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTK-EIYT-HFTCATDTKNVQFVFD  336 (353)
T ss_dssp             TTSEEEEEEECHHHHHHHHTTSCGGGTCTTCCSCSCHHHHHHHHHHHHHTTCSCTTTC-CEEE-EECCTTCHHHHHHHHH
T ss_pred             cCCcEEEEEECcCchhhhccccchhhcccccCCCCCHHHHHHHHHHHHHHhhcccCCC-ceEE-EEEECcCchhHHHHHH
Confidence            579999999999985321               255667777765           24 6788 9999999999999999


Q ss_pred             HHHHHHHHhh
Q psy5780          64 CLANELKNRQ   73 (106)
Q Consensus        64 ~l~~~i~~~~   73 (106)
                      ++++.+.+..
T Consensus       337 ~v~~~i~~~~  346 (353)
T 1cip_A          337 AVTDVIIKNN  346 (353)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHHHH
Confidence            9999887653

>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=98.70  E-value=3.8e-09  Score=66.76  Aligned_cols=53  Identities=21%  Similarity=0.146  Sum_probs=40.2

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .++|+++|+||+|+.+...       .++... +..+ +++||+++.||+++|..|.+.+..
T Consensus       114 ~~~p~ilv~NK~Dl~~~~~-------~~~~~~-~~~~-~~~SA~~g~gv~~l~~~l~~~~~~  166 (172)
T 2gj8_A          114 AKLPITVVRNKADITGETL-------GMSEVN-GHAL-IRLSARTGEGVDVLRNHLKQSMGF  166 (172)
T ss_dssp             TTCCEEEEEECHHHHCCCC-------EEEEET-TEEE-EECCTTTCTTHHHHHHHHHHHC--
T ss_pred             cCCCEEEEEECccCCcchh-------hhhhcc-CCce-EEEeCCCCCCHHHHHHHHHHHhhh
Confidence            4799999999999854221       122334 6789 999999999999999999876643

>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=98.67  E-value=8.4e-09  Score=69.62  Aligned_cols=59  Identities=12%  Similarity=0.057  Sum_probs=47.9

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      ..++|+++|+||+|+...+.+.. ....+.+.+ ++++ +++||++|.|++++|..+.+.+.
T Consensus       108 ~~~~pvilv~NK~Dl~~~~~i~~-~~~~l~~~l-g~~v-i~~SA~~g~gi~el~~~i~~~~~  166 (258)
T 3a1s_A          108 EMEKKVILAMTAIDEAKKTGMKI-DRYELQKHL-GIPV-VFTSSVTGEGLEELKEKIVEYAQ  166 (258)
T ss_dssp             TTTCCEEEEEECHHHHHHTTCCB-CHHHHHHHH-CSCE-EECCTTTCTTHHHHHHHHHHHHH
T ss_pred             hcCCCEEEEEECcCCCCccchHH-HHHHHHHHc-CCCE-EEEEeeCCcCHHHHHHHHHHHhh
Confidence            35799999999999865444332 356677788 8899 99999999999999999988764

>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=98.66  E-value=4.3e-08  Score=67.62  Aligned_cols=63  Identities=16%  Similarity=0.040  Sum_probs=49.3

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhc-CCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYV-PEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      ..++|+++|+||+|+.............+.+.+ ....+ +++||++|.|++++|..+.+.+.+.
T Consensus       120 ~~~~pvilV~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~i-~~vSA~~g~gv~~L~~~l~~~l~~~  183 (308)
T 3iev_A          120 PLNKPVIVVINKIDKIGPAKNVLPLIDEIHKKHPELTEI-VPISALKGANLDELVKTILKYLPEG  183 (308)
T ss_dssp             GGCCCEEEEEECGGGSSSGGGGHHHHHHHHHHCTTCCCE-EECBTTTTBSHHHHHHHHHHHSCBC
T ss_pred             hcCCCEEEEEECccCCCCHHHHHHHHHHHHHhccCCCeE-EEEeCCCCCCHHHHHHHHHHhCccC
Confidence            357999999999999733444455566676666 24789 9999999999999999998877543

>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=98.66  E-value=1.4e-08  Score=69.99  Aligned_cols=55  Identities=20%  Similarity=0.156  Sum_probs=42.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCC-HHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVD-FNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLA   66 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~   66 (106)
                      .++|+++|+||+||.+...+. .+....+++.. ++.+ +++||+++.|++++|..+.
T Consensus       109 ~~~~~ilV~NK~DL~~~~~v~~~~~~~~~~~~~-g~~~-~~~SA~~g~gi~~L~~~l~  164 (302)
T 2yv5_A          109 FKVEPVIVFNKIDLLNEEEKKELERWISIYRDA-GYDV-LKVSAKTGEGIDELVDYLE  164 (302)
T ss_dssp             TTCEEEEEECCGGGCCHHHHHHHHHHHHHHHHT-TCEE-EECCTTTCTTHHHHHHHTT
T ss_pred             CCCCEEEEEEcccCCCccccHHHHHHHHHHHHC-CCeE-EEEECCCCCCHHHHHhhcc
Confidence            579999999999997533211 23345556667 7889 9999999999999997764

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=98.65  E-value=1.8e-08  Score=65.54  Aligned_cols=64  Identities=16%  Similarity=0.224  Sum_probs=42.7

Q ss_pred             CCCeEEEEEecCCCCCCCCCC--HHHHHH-Hhhh-----cCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVD--FNEAEE-MGEY-----VPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~--~~~~~~-~~~~-----~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++|+||+|+.+.....  ...... +...     ....++ +++||+++.||+++|..|.+.+.....
T Consensus       143 ~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~-~~~SA~~g~gv~~l~~~l~~~~~~~~~  214 (223)
T 4dhe_A          143 TGKPIHSLLTKCDKLTRQESINALRATQKSLDAYRDAGYAGKLTV-QLFSALKRTGLDDAHALIESWLRPAAA  214 (223)
T ss_dssp             GCCCEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHHTCCSCEEE-EEEBTTTTBSHHHHHHHHHHHHC----
T ss_pred             cCCCEEEEEeccccCChhhHHHHHHHHHHHHHhhhhcccCCCCeE-EEeecCCCcCHHHHHHHHHHhcCccCC
Confidence            578999999999986532211  111112 2221     126789 999999999999999999988865543

>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=98.65  E-value=7.8e-09  Score=70.39  Aligned_cols=57  Identities=14%  Similarity=0.096  Sum_probs=46.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .++|+++|+||+|+...+.+. .....+.+.+ ++++ +++||++|.|++++|..+++.+
T Consensus       106 ~~~p~ilv~NK~Dl~~~~~~~-~~~~~l~~~l-g~~v-i~~SA~~g~gi~el~~~i~~~~  162 (272)
T 3b1v_A          106 TGIPVTIALNMIDVLDGQGKK-INVDKLSYHL-GVPV-VATSALKQTGVDQVVKKAAHTT  162 (272)
T ss_dssp             TCSCEEEEEECHHHHHHTTCC-CCHHHHHHHH-TSCE-EECBTTTTBSHHHHHHHHHHSC
T ss_pred             cCCCEEEEEEChhhCCcCCcH-HHHHHHHHHc-CCCE-EEEEccCCCCHHHHHHHHHHHH
Confidence            579999999999986443333 2356677778 8899 9999999999999999997754

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=98.63  E-value=4.2e-08  Score=64.01  Aligned_cols=57  Identities=18%  Similarity=0.251  Sum_probs=43.2

Q ss_pred             EEEEEecCCCCCCCCCCHHHHHHHhhhc-CCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          14 SRVWSNKCDLESEREVDFNEAEEMGEYV-PEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        14 ~ilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .++|+||+|+.+......+....+...+ ++.++ +++||++|.|++++|..+.+.+..
T Consensus       167 ~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~-~~~Sa~~g~gv~~l~~~l~~~~~~  224 (226)
T 2hf9_A          167 DLIVINKIDLADAVGADIKKMENDAKRINPDAEV-VLLSLKTMEGFDKVLEFIEKSVKE  224 (226)
T ss_dssp             SEEEEECGGGHHHHTCCHHHHHHHHHHHCTTSEE-EECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             CEEEEeccccCchhHHHHHHHHHHHHHhCCCCeE-EEEEecCCCCHHHHHHHHHHHHHh
Confidence            3999999998643334455555555543 25689 999999999999999999887754

>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=98.61  E-value=1.3e-08  Score=71.14  Aligned_cols=62  Identities=23%  Similarity=0.185  Sum_probs=49.2

Q ss_pred             CCCeEEEEEecCCCCCCC----------------CCCHHHHHHHh----------hhcCCcceEEEcccCCCCCHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESER----------------EVDFNEAEEMG----------EYVPEIHYVMETSAKDSTNVEEAFY   63 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~----------------~~~~~~~~~~~----------~~~~~~~~~~~~Sa~~~~~v~~lf~   63 (106)
                      .++|++|++||+||.+.+                ....+.+..+.          ... ++.+ ++|||+++.||..+|.
T Consensus       233 ~~~~iiL~~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~e~a~~fi~~~F~~~~~~~~~-~i~~-~~TsA~d~~nV~~vF~  310 (327)
T 3ohm_A          233 QNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDK-IIYS-HFTCATDTENIRFVFA  310 (327)
T ss_dssp             TTCEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSCHHHHHHHHHHHHHSSCTTTTS-CEEE-EECCTTCHHHHHHHHH
T ss_pred             CCceEEEEEECchhhhhhhccchHhhhchhccCCCCCHHHHHHHHHHHHHhhcccccC-CcEE-EEEEeecCHHHHHHHH
Confidence            579999999999986422                35666777663          234 5678 8999999999999999


Q ss_pred             HHHHHHHHhh
Q psy5780          64 CLANELKNRQ   73 (106)
Q Consensus        64 ~l~~~i~~~~   73 (106)
                      .+++.+.++.
T Consensus       311 ~v~~~Il~~~  320 (327)
T 3ohm_A          311 AVKDTILQLN  320 (327)
T ss_dssp             HHHHHHHHTT
T ss_pred             HHHHHHHHHh
Confidence            9999998764

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=98.60  E-value=5.9e-08  Score=68.10  Aligned_cols=58  Identities=17%  Similarity=0.115  Sum_probs=46.3

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      ++|+++|+||+|+.....  .+....++... +.++ +++||++|+||+++|.++.+.+...
T Consensus       280 ~~piilV~NK~Dl~~~~~--~~~~~~~~~~~-~~~~-~~iSA~~g~gi~~l~~~i~~~l~~~  337 (357)
T 2e87_A          280 DLPFLVVINKIDVADEEN--IKRLEKFVKEK-GLNP-IKISALKGTGIDLVKEEIIKTLRPL  337 (357)
T ss_dssp             TSCEEEEECCTTTCCHHH--HHHHHHHHHHT-TCCC-EECBTTTTBTHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECcccCChHH--HHHHHHHHHhc-CCCe-EEEeCCCCcCHHHHHHHHHHHHHHH
Confidence            799999999999865332  23344555566 7889 9999999999999999999888654

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=98.55  E-value=2.7e-08  Score=71.61  Aligned_cols=59  Identities=15%  Similarity=0.027  Sum_probs=49.3

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .++|+++|+||+|+.+....  +....+.+.+ +.++ +++||+++.|++++|..|.+.+.+.
T Consensus       139 ~~~piIvV~NK~Dl~~~~~~--~~~~~l~~~~-g~~v-~~vSAktg~gI~eL~~~L~~~l~~~  197 (423)
T 3qq5_A          139 MEIPFVVVVNKIDVLGEKAE--ELKGLYESRY-EAKV-LLVSALQKKGFDDIGKTISEILPGD  197 (423)
T ss_dssp             TTCCEEEECCCCTTTTCCCT--HHHHHSSCCT-TCCC-CCCSSCCTTSTTTHHHHHHHHSCCC
T ss_pred             cCCCEEEEEeCcCCCCccHH--HHHHHHHHHc-CCCE-EEEECCCCCCHHHHHHHHHHhhhhh
Confidence            47999999999999865543  4566677777 7899 9999999999999999999888554

>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=98.55  E-value=2.4e-08  Score=70.61  Aligned_cols=62  Identities=16%  Similarity=0.150  Sum_probs=47.3

Q ss_pred             CCCeEEEEEecCCCCCCC----------------CCCHHHHHHHh--------h---hcCCcceEEEcccCCCCCHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESER----------------EVDFNEAEEMG--------E---YVPEIHYVMETSAKDSTNVEEAF   62 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~----------------~~~~~~~~~~~--------~---~~~~~~~~~~~Sa~~~~~v~~lf   62 (106)
                      .++|+|||+||+||...+                .+..+++..+.        .   .. .+.+ ++|||+++.||.++|
T Consensus       267 ~~~piILv~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~~e~~~~~~~~f~~l~~~~~~~-~~~~-~~tSA~d~~nV~~vF  344 (362)
T 1zcb_A          267 SNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQR-PLYH-HFTTAINTENIRLVF  344 (362)
T ss_dssp             TTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC---CCEE-EECCTTCHHHHHHHH
T ss_pred             CCCCEEEEEEChhhhhhhccccchhhcCccccCCCCCHHHHHHHHHHHHHHhhcccCCC-ceEE-EEEecCCchhHHHHH
Confidence            579999999999985321                25566666654        1   23 5678 999999999999999


Q ss_pred             HHHHHHHHHhh
Q psy5780          63 YCLANELKNRQ   73 (106)
Q Consensus        63 ~~l~~~i~~~~   73 (106)
                      ..+.+.+.+..
T Consensus       345 ~~v~~~i~~~~  355 (362)
T 1zcb_A          345 RDVKDTILHDN  355 (362)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999887654

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=98.51  E-value=1.8e-07  Score=67.20  Aligned_cols=63  Identities=14%  Similarity=0.134  Sum_probs=46.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHH-HHhhh---cCCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAE-EMGEY---VPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~-~~~~~---~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      .+.|+++|+||+|+.+.+....++.. ...+.   ..+.++ +++||++|.||+++|..+.+.+.+..
T Consensus       285 ~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~SA~tg~~v~~l~~~i~~~~~~~~  351 (436)
T 2hjg_A          285 AGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPI-LFMSALTKKRIHTLMPAIIKASENHS  351 (436)
T ss_dssp             TTCEEEEEEECGGGSCCCTTHHHHHHHHHHHHCGGGTTSCE-EECCTTTCTTGGGHHHHHHHHHHHHT
T ss_pred             cCCcEEEEEECccCCCcchHHHHHHHHHHHHhcccCCCCCE-EEEecccCCCHHHHHHHHHHHHHHhh
Confidence            57999999999999765544332222 22221   226789 99999999999999999988877643

>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=98.49  E-value=4.5e-08  Score=69.03  Aligned_cols=63  Identities=21%  Similarity=0.246  Sum_probs=44.9

Q ss_pred             CCCeEEEEEecCCCCCCCC--C-------------------CHHHHHHHhhh---------------cCCcceEEEcccC
Q psy5780          10 SAHDSRVWSNKCDLESERE--V-------------------DFNEAEEMGEY---------------VPEIHYVMETSAK   53 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~--~-------------------~~~~~~~~~~~---------------~~~~~~~~~~Sa~   53 (106)
                      +++|++|||||+||.+.+.  +                   ..+++..++..               ...+.+ ++|||+
T Consensus       249 ~~~piiLvgNK~DL~~~k~~~v~l~~~~~fp~y~~~~~~~~~~~~a~~~~~~~f~~l~~~~~~~~~~~~~~~~-~eTSA~  327 (354)
T 2xtz_A          249 EKTSFMLFLNKFDIFEKKVLDVPLNVCEWFRDYQPVSSGKQEIEHAYEFVKKKFEELYYQNTAPDRVDRVFKI-YRTTAL  327 (354)
T ss_dssp             SSCEEEEEEECHHHHHHHTTTSCGGGSGGGTTCCCCSSHHHHHHHHHHHHHHHHHHHHHHTCCTTTTTSCEEE-EECCTT
T ss_pred             CCCeEEEEEECcchhhhhcccccccccccccccccccCCCcCHHHHHHHHHHHHHHhhhccccccccCcceEE-EEEEee
Confidence            5799999999999853211  1                   13445555321               113457 899999


Q ss_pred             CCCCHHHHHHHHHHHHHHhh
Q psy5780          54 DSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        54 ~~~~v~~lf~~l~~~i~~~~   73 (106)
                      ++.||.++|.++++.+.+..
T Consensus       328 d~~nV~~vF~~v~~~I~~~~  347 (354)
T 2xtz_A          328 DQKLVKKTFKLVDETLRRRN  347 (354)
T ss_dssp             CHHHHHHHHHHHHHHHHHHH
T ss_pred             cchhHHHHHHHHHHHHHHHH
Confidence            99999999999999887653

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=98.44  E-value=1e-07  Score=65.70  Aligned_cols=57  Identities=21%  Similarity=0.171  Sum_probs=45.1

Q ss_pred             CCCeEEEEEecCCCCC--CCC----CCHHHHHHHhhhcCC---cceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLES--ERE----VDFNEAEEMGEYVPE---IHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~--~~~----~~~~~~~~~~~~~~~---~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      +++|+++|+||+|+.+  .+.    +..+.+..+++.+ +   .++ +++||++ .++.++|..+++.+
T Consensus       114 ~~~piilv~NK~Dl~~~~~r~~~~~v~~~~~~~~~~~~-g~~~~~~-~~tSa~~-~~i~e~~~~iv~~l  179 (307)
T 3r7w_A          114 PDAKIFVLLHKMDLVQLDKREELFQIMMKNLSETSSEF-GFPNLIG-FPTSIWD-ESLYKAWSQIVCSL  179 (307)
T ss_dssp             TTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHTT-TCCSCEE-EECCTTS-SHHHHHHHHHHHTT
T ss_pred             CCCeEEEEEecccccchhhhhHHHHHHHHHHHHHHHHc-CCCCeEE-EEeeecC-ChHHHHHHHHHHHH
Confidence            5899999999999975  332    3445667788887 5   789 9999999 89999998887643

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=98.44  E-value=1.1e-07  Score=61.77  Aligned_cols=62  Identities=18%  Similarity=0.180  Sum_probs=44.2

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHHhhhc-CCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEMGEYV-PEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      ++|.++|+||+|+.+......+......... +..++ +++||++|.|++++|..|.+.+....
T Consensus       154 ~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~i-~~~Sa~~g~gi~~l~~~l~~~~~~~~  216 (221)
T 2wsm_A          154 RVADLIVINKVALAEAVGADVEKMKADAKLINPRAKI-IEMDLKTGKGFEEWIDFLRGILNVHS  216 (221)
T ss_dssp             HTCSEEEEECGGGHHHHTCCHHHHHHHHHHHCTTSEE-EECBTTTTBTHHHHHHHHHHHHC---
T ss_pred             hcCCEEEEecccCCcchhhHHHHHHHHHHHhCCCCeE-EEeecCCCCCHHHHHHHHHHHHHHHH
Confidence            4789999999998643223445555554443 24688 99999999999999999988775543

>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=98.44  E-value=5.5e-07  Score=65.78  Aligned_cols=56  Identities=18%  Similarity=0.151  Sum_probs=43.6

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      +.|+++|+||+|+.+.  +..+....+.. + +.++ +++||+++.|++++|..|.+.+..
T Consensus       350 ~~piivV~NK~DL~~~--~~~~~~~~~~~-~-~~~~-i~iSAktg~Gi~eL~~~l~~~~~~  405 (482)
T 1xzp_A          350 NKRYLVVINKVDVVEK--INEEEIKNKLG-T-DRHM-VKISALKGEGLEKLEESIYRETQE  405 (482)
T ss_dssp             TSSEEEEEEECSSCCC--CCHHHHHHHHT-C-STTE-EEEEGGGTCCHHHHHHHHHHHTHH
T ss_pred             CCCEEEEEECcccccc--cCHHHHHHHhc-C-CCcE-EEEECCCCCCHHHHHHHHHHHHhh
Confidence            6899999999999653  34444444432 3 4689 999999999999999999987664

>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=98.42  E-value=6.8e-07  Score=64.31  Aligned_cols=62  Identities=23%  Similarity=0.172  Sum_probs=44.9

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHH-HHhhh---cCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAE-EMGEY---VPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~-~~~~~---~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .+.|+++|+||+|+.+.+....+... .+...   ..+.++ +++||++|.||+++|..+.+.+...
T Consensus       291 ~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~SA~~g~gv~~l~~~i~~~~~~~  356 (439)
T 1mky_A          291 RGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPL-IFTSADKGWNIDRMIDAMNLAYASY  356 (439)
T ss_dssp             TTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCE-EECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             cCCCEEEEEECccCCCchhhHHHHHHHHHHHHhccCCCCcE-EEEECCCCCCHHHHHHHHHHHHHhh
Confidence            57899999999999764443333222 12121   225689 9999999999999999998877654

>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=98.42  E-value=5e-08  Score=65.92  Aligned_cols=58  Identities=21%  Similarity=0.229  Sum_probs=46.1

Q ss_pred             CeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          12 HDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        12 ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      +|+++|+||+|+.+.+.+.. ....+.+.+ +.++ +++||+++.|++++|..+.+.+...
T Consensus       110 ~p~ilv~NK~Dl~~~~~~~~-~~~~l~~~l-g~~~-~~~Sa~~g~gi~~l~~~i~~~~~~~  167 (271)
T 3k53_A          110 KNIILVLNKFDLLKKKGAKI-DIKKMRKEL-GVPV-IPTNAKKGEGVEELKRMIALMAEGK  167 (271)
T ss_dssp             CSEEEEEECHHHHHHHTCCC-CHHHHHHHH-SSCE-EECBGGGTBTHHHHHHHHHHHHHTC
T ss_pred             CCEEEEEEChhcCcccccHH-HHHHHHHHc-CCcE-EEEEeCCCCCHHHHHHHHHHHHhcc
Confidence            99999999999864332222 245666777 8899 9999999999999999998877544

>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=98.42  E-value=4.1e-08  Score=66.21  Aligned_cols=59  Identities=12%  Similarity=0.128  Sum_probs=45.7

Q ss_pred             cCCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780           7 WPDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus         7 ~~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      +...++|+++|+||+|+.+.+.+.. ....+.+.+ +.++ +++||++|.|++++|..+.+.
T Consensus       106 l~~~~~pvilv~NK~Dl~~~~~~~~-~~~~l~~~l-g~~v-i~~SA~~g~gi~el~~~i~~~  164 (256)
T 3iby_A          106 LFELGKPVVVALNMMDIAEHRGISI-DTEKLESLL-GCSV-IPIQAHKNIGIPALQQSLLHC  164 (256)
T ss_dssp             HTTSCSCEEEEEECHHHHHHTTCEE-CHHHHHHHH-CSCE-EECBGGGTBSHHHHHHHHHTC
T ss_pred             HHHcCCCEEEEEEChhcCCcCCcHH-HHHHHHHHc-CCCE-EEEECCCCCCHHHHHHHHHhh
Confidence            3446899999999999864333221 234466777 8899 999999999999999999765

>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=98.36  E-value=2.4e-07  Score=65.04  Aligned_cols=57  Identities=21%  Similarity=0.279  Sum_probs=45.2

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCC--cceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPE--IHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .++|+++|+||+|+...    .+....+.+.+ .  ..+ +++||+++.|++++|..|.+.+.+.
T Consensus       273 ~~~p~ilV~NK~Dl~~~----~e~~~~l~~~l-~~~~~v-~~iSA~tg~gi~eL~~~l~~~l~~~  331 (342)
T 1lnz_A          273 TERPQIIVANKMDMPEA----AENLEAFKEKL-TDDYPV-FPISAVTREGLRELLFEVANQLENT  331 (342)
T ss_dssp             TTSCBCBEEECTTSTTH----HHHHHHHHHHC-CSCCCB-CCCSSCCSSTTHHHHHHHHHHHTSC
T ss_pred             cCCCEEEEEECccCCCC----HHHHHHHHHHh-hcCCCE-EEEECCCCcCHHHHHHHHHHHHhhC
Confidence            47899999999998642    23345565655 3  678 9999999999999999999887544

>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=98.36  E-value=1e-06  Score=64.23  Aligned_cols=55  Identities=13%  Similarity=0.103  Sum_probs=42.5

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      ++|+++|+||+|+.+....   ....+.+.. ..++ +++||+++.|++++|.+|.+.+.
T Consensus       343 ~~piIvV~NK~Dl~~~~~~---~~~~l~~~~-~~~~-i~vSAktg~GI~eL~~~i~~~~~  397 (476)
T 3gee_A          343 AAKFLTVANKLDRAANADA---LIRAIADGT-GTEV-IGISALNGDGIDTLKQHMGDLVK  397 (476)
T ss_dssp             TSEEEEEEECTTSCTTTHH---HHHHHHHHH-TSCE-EECBTTTTBSHHHHHHHHTHHHH
T ss_pred             CCCEEEEEECcCCCCccch---hHHHHHhcC-CCce-EEEEECCCCCHHHHHHHHHHHHh
Confidence            6899999999999765432   123343432 3578 99999999999999999998886

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.35  E-value=1e-06  Score=62.31  Aligned_cols=57  Identities=14%  Similarity=0.149  Sum_probs=42.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHH----hhhcCCc---ceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEM----GEYVPEI---HYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~----~~~~~~~---~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .+.|+++|+||+||.+.. ...+....+    ++.. ++   .+ +.+||+++.|+++++..+.+..
T Consensus        95 ~~~p~ilV~NK~DL~~~~-~~~~~~~~~l~~~~~~~-g~~~~~v-~~iSA~~g~gi~~L~~~l~~~~  158 (368)
T 3h2y_A           95 GNNKVLLVGNKADLIPKS-VKHDKVKHWMRYSAKQL-GLKPEDV-FLISAAKGQGIAELADAIEYYR  158 (368)
T ss_dssp             SSSCEEEEEECGGGSCTT-SCHHHHHHHHHHHHHHT-TCCCSEE-EECCTTTCTTHHHHHHHHHHHH
T ss_pred             CCCcEEEEEEChhcCCcc-cCHHHHHHHHHHHHHHc-CCCcccE-EEEeCCCCcCHHHHHhhhhhhc
Confidence            378999999999997543 233333333    4555 55   78 9999999999999999886543

>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=98.34  E-value=3.2e-08  Score=67.21  Aligned_cols=58  Identities=9%  Similarity=0.055  Sum_probs=44.6

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      .++|+++|+||+|+.+.+.+. .....+.+.+ +.++ +++||++|.|++++|..+.+.+.
T Consensus       111 ~~~p~ivv~NK~Dl~~~~~~~-~~~~~l~~~l-g~~~-i~~SA~~g~gi~el~~~i~~~~~  168 (274)
T 3i8s_A          111 LGIPCIVALNMLDIAEKQNIR-IEIDALSARL-GCPV-IPLVSTRGRGIEALKLAIDRYKA  168 (274)
T ss_dssp             HTCCEEEEEECHHHHHHTTEE-ECHHHHHHHH-TSCE-EECCCGGGHHHHHHHHHHHTCCC
T ss_pred             cCCCEEEEEECccchhhhhHH-HHHHHHHHhc-CCCE-EEEEcCCCCCHHHHHHHHHHHHh
Confidence            478999999999986433221 1235566777 7899 99999999999999998876553

>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=98.30  E-value=1.7e-07  Score=66.01  Aligned_cols=62  Identities=16%  Similarity=0.049  Sum_probs=38.8

Q ss_pred             CCCeEEEEEecCCCCCCCCCCH--HHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDF--NEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~--~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+|+|+||+|+...+.+..  ..+..+...+ ++++ +++||+++.+ ++.|..+.+.+.....
T Consensus       173 ~~~piIlV~NK~Dl~~~~ev~~~k~~i~~~~~~~-~i~~-~~~Sa~~~~~-~e~~~~l~~~i~~~ip  236 (361)
T 2qag_A          173 NKVNIVPVIAKADTLTLKERERLKKRILDEIEEH-NIKI-YHLPDAESDE-DEDFKEQTRLLKASIP  236 (361)
T ss_dssp             S-SCEEEEEECCSSSCHHHHHHHHHHHHHHTTCC--CCS-CCCC----------CHHHHHHHHHTCS
T ss_pred             cCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHC-CCCE-EeCCCcCCCc-chhHHHHHHHHHhcCC
Confidence            5799999999999875443332  3455666777 8899 9999999999 8899999888877643

>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=98.25  E-value=2.9e-07  Score=65.90  Aligned_cols=30  Identities=17%  Similarity=0.078  Sum_probs=25.7

Q ss_pred             CcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          43 EIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        43 ~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      .+.+ ++|||+++.||.++|..+.+.+.+..
T Consensus       358 ~~~~-~~TSA~d~~nV~~vF~~v~~~I~~~~  387 (402)
T 1azs_C          358 YCYP-HFTCAVDTENIRRVFNDCRDIIQRMH  387 (402)
T ss_dssp             CEEE-EECCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             ccEE-EEEEeecCcCHHHHHHHHHHHHHHHH
Confidence            4567 89999999999999999988887653

>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=98.22  E-value=3.1e-07  Score=63.25  Aligned_cols=61  Identities=16%  Similarity=0.007  Sum_probs=39.8

Q ss_pred             CCCeEEEEEecCCCCCCCCC--CHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          10 SAHDSRVWSNKCDLESEREV--DFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      .++++++|+||.|+...+.+  ..+.+..+++.+ ++.+ +++||+++ |++++|..+++.+....
T Consensus       154 ~~~~iilV~~K~Dl~~~~e~~~~~~~~~~~~~~~-~~~~-~e~Sa~~~-~v~e~f~~l~~~i~~~~  216 (301)
T 2qnr_A          154 NKVNIVPVIAKADTLTLKERERLKKRILDEIEEH-NIKI-YHLPDAES-DEDEDFKEQTRLLKASI  216 (301)
T ss_dssp             TTSCEEEEECCGGGSCHHHHHHHHHHHHHHHHHT-TCCC-CCCC----------CHHHHHHHHTTC
T ss_pred             hcCCEEEEEEeCCCCCHHHHHHHHHHHHHHHHHc-CCeE-EecCCccc-cccHHHHHHHHHhhcCC
Confidence            45799999999998753322  224556777888 8899 99999999 99999999999887654

>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=98.22  E-value=2.3e-06  Score=61.04  Aligned_cols=58  Identities=16%  Similarity=0.253  Sum_probs=37.0

Q ss_pred             CeEEEEEecCCCCCCCCC--CHHHHHHHhhhc--CCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          12 HDSRVWSNKCDLESEREV--DFNEAEEMGEYV--PEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        12 ip~ilv~nK~Dl~~~~~~--~~~~~~~~~~~~--~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      .|+++|+||+|+.+....  ..++...+....  ...++ +++||++|.|++++++.|.+.++
T Consensus       136 ~~iivv~NK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~-i~vSA~~g~gi~~L~~~l~~~i~  197 (408)
T 1s0u_A          136 DKIIIVQNKIDLVDEKQAEENYEQIKEFVKGTIAENAPI-IPISAHHEANIDVLLKAIQDFIP  197 (408)
T ss_dssp             CCEEEEEECTTSSCTTTTTTHHHHHHHHHTTSTTTTCCE-EEC------CHHHHHHHHHHHSC
T ss_pred             CeEEEEEEccCCCCHHHHHHHHHHHHHHHhhcCCCCCeE-EEeeCCCCCCHHHHHHHHHHhCC
Confidence            379999999999764332  234445555542  25689 99999999999999999987654

>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=98.19  E-value=1.3e-06  Score=60.01  Aligned_cols=61  Identities=15%  Similarity=0.111  Sum_probs=44.6

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCc-ceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEI-HYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      ..+.|+++|+||+|+...+....+....+.+.+ +. .+ +.+||+++.|++++++.+.+.++.
T Consensus       114 ~~~~P~ilvlNK~D~~~~~~~~~~~l~~l~~~~-~~~~~-i~iSA~~g~~v~~l~~~i~~~l~~  175 (301)
T 1ega_A          114 EGKAPVILAVNKVDNVQEKADLLPHLQFLASQM-NFLDI-VPISAETGLNVDTIAAIVRKHLPE  175 (301)
T ss_dssp             SSSSCEEEEEESTTTCCCHHHHHHHHHHHHTTS-CCSEE-EECCTTTTTTHHHHHHHHHTTCCB
T ss_pred             hcCCCEEEEEECcccCccHHHHHHHHHHHHHhc-CcCce-EEEECCCCCCHHHHHHHHHHhCCc
Confidence            357999999999998752222223345555556 44 68 999999999999999998876543

>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=98.19  E-value=3.9e-07  Score=62.78  Aligned_cols=56  Identities=23%  Similarity=0.127  Sum_probs=40.7

Q ss_pred             CCeEEEEEecCCCCCCCC-CCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          11 AHDSRVWSNKCDLESERE-VDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      ++|+++|+||+|+.+... + .+....+   .+...+ +++||+++.|++++|..+.+.+++
T Consensus       117 ~~p~ilV~NK~Dl~~~~~~~-~~~~~~~---~~~~~~-~~iSA~~g~gv~~l~~~l~~~l~~  173 (301)
T 1wf3_A          117 KVPILLVGNKLDAAKYPEEA-MKAYHEL---LPEAEP-RMLSALDERQVAELKADLLALMPE  173 (301)
T ss_dssp             TSCEEEEEECGGGCSSHHHH-HHHHHHT---STTSEE-EECCTTCHHHHHHHHHHHHTTCCB
T ss_pred             CCCEEEEEECcccCCchHHH-HHHHHHh---cCcCcE-EEEeCCCCCCHHHHHHHHHHhccc
Confidence            799999999999864322 1 1122222   324578 999999999999999999876643

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=98.19  E-value=2.5e-06  Score=63.81  Aligned_cols=58  Identities=24%  Similarity=0.231  Sum_probs=44.4

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCc---ceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEI---HYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~---~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .++|+|+|+||+|+.+..  .......+.+.+ +.   .+ +++||++|.||+++|+.+.+.++.
T Consensus       122 ~~ipiIvViNKiDl~~a~--~~~v~~ei~~~l-g~~~~~v-i~vSAktg~GI~~Ll~~I~~~lp~  182 (599)
T 3cb4_D          122 MDLEVVPVLNKIDLPAAD--PERVAEEIEDIV-GIDATDA-VRCSAKTGVGVQDVLERLVRDIPP  182 (599)
T ss_dssp             TTCEEEEEEECTTSTTCC--HHHHHHHHHHHT-CCCCTTC-EEECTTTCTTHHHHHHHHHHHSCC
T ss_pred             CCCCEEEeeeccCccccc--HHHHHHHHHHHh-CCCcceE-EEeecccCCCchhHHHHHhhcCCC
Confidence            478999999999997533  233344555555 44   58 999999999999999999887654

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.16  E-value=3.3e-06  Score=59.66  Aligned_cols=56  Identities=14%  Similarity=0.124  Sum_probs=41.1

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHH----hhhcCCc---ceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEM----GEYVPEI---HYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~----~~~~~~~---~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      +.|+++|+||+||.+.. ...+....+    ++.. +.   .+ +.+||+++.|+++++..+.+..
T Consensus        98 ~~piilV~NK~DLl~~~-~~~~~~~~~l~~~~~~~-g~~~~~v-~~iSA~~g~gi~~L~~~I~~~~  160 (369)
T 3ec1_A           98 DNPILLVGNKADLLPRS-VKYPKLLRWMRRMAEEL-GLCPVDV-CLVSAAKGIGMAKVMEAINRYR  160 (369)
T ss_dssp             TSCEEEEEECGGGSCTT-CCHHHHHHHHHHHHHTT-TCCCSEE-EECBTTTTBTHHHHHHHHHHHH
T ss_pred             CCCEEEEEEChhcCCCc-cCHHHHHHHHHHHHHHc-CCCcccE-EEEECCCCCCHHHHHHHHHhhc
Confidence            68999999999997542 223333333    4455 54   68 9999999999999998886544

>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=98.16  E-value=2e-06  Score=61.80  Aligned_cols=57  Identities=19%  Similarity=0.234  Sum_probs=42.9

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHH-HHHhhhcCCc-ceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEA-EEMGEYVPEI-HYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~-~~~~~~~~~~-~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .++|+++|+||+|+.+.  . .... ..+. .. +. .+ +++||++|.|++++|+.+++.+++.
T Consensus       109 ~~~p~ilv~NK~D~~~~--~-~~~~~~~~~-~l-g~~~~-~~iSA~~g~gv~~L~~~i~~~l~~~  167 (439)
T 1mky_A          109 STVDTILVANKAENLRE--F-EREVKPELY-SL-GFGEP-IPVSAEHNINLDTMLETIIKKLEEK  167 (439)
T ss_dssp             HTCCEEEEEESCCSHHH--H-HHHTHHHHG-GG-SSCSC-EECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             cCCCEEEEEeCCCCccc--c-HHHHHHHHH-hc-CCCCE-EEEeccCCCCHHHHHHHHHHhcccc
Confidence            47899999999998531  0 1222 3444 34 44 78 9999999999999999999988754

>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=98.15  E-value=3.2e-06  Score=63.26  Aligned_cols=58  Identities=21%  Similarity=0.169  Sum_probs=44.4

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCc---ceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEI---HYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~---~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .++|+++|+||+|+....  .......+...+ +.   .+ +++||++|.||+++|+.+++.++.
T Consensus       124 ~~ipiIvviNKiDl~~a~--~~~v~~el~~~l-g~~~~~v-i~vSAktg~GI~~Lle~I~~~lp~  184 (600)
T 2ywe_A          124 QDLVIIPVINKIDLPSAD--VDRVKKQIEEVL-GLDPEEA-ILASAKEGIGIEEILEAIVNRIPP  184 (600)
T ss_dssp             TTCEEEEEEECTTSTTCC--HHHHHHHHHHTS-CCCGGGC-EECBTTTTBSHHHHHHHHHHHSCC
T ss_pred             CCCCEEEEEeccCccccC--HHHHHHHHHHhh-CCCcccE-EEEEeecCCCchHHHHHHHHhccc
Confidence            578999999999997533  223344555555 44   58 999999999999999999887753

>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=98.11  E-value=3.1e-06  Score=61.53  Aligned_cols=56  Identities=13%  Similarity=0.068  Sum_probs=41.2

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      +.|+++|+||+|+.+...+.  ....+.  . ..++ +++||+++.|++++|..|.+.+...
T Consensus       330 ~~piivV~NK~Dl~~~~~~~--~~~~~~--~-~~~~-i~iSAktg~Gi~eL~~~i~~~~~~~  385 (462)
T 3geh_A          330 HRPLILVMNKIDLVEKQLIT--SLEYPE--N-ITQI-VHTAAAQKQGIDSLETAILEIVQTG  385 (462)
T ss_dssp             TSCEEEEEECTTSSCGGGST--TCCCCT--T-CCCE-EEEBTTTTBSHHHHHHHHHHHHTTS
T ss_pred             CCcEEEEEECCCCCcchhhH--HHHHhc--c-CCcE-EEEECCCCCCHHHHHHHHHHHHhcc
Confidence            47999999999997544322  000011  2 5678 9999999999999999999877543

>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=98.03  E-value=9.4e-07  Score=62.05  Aligned_cols=61  Identities=16%  Similarity=0.182  Sum_probs=44.3

Q ss_pred             CCCeEEEEEecCCCCCCC---------------CCCHHHHHHHhhhc--------------------------CCcceEE
Q psy5780          10 SAHDSRVWSNKCDLESER---------------EVDFNEAEEMGEYV--------------------------PEIHYVM   48 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~---------------~~~~~~~~~~~~~~--------------------------~~~~~~~   48 (106)
                      .++|++|++||+||...+               ....+.+..+....                          ..+.+ +
T Consensus       227 ~~~piiLv~NK~DL~~eki~~~~l~~~fp~y~g~~~~e~a~~~i~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~iy~-h  305 (340)
T 4fid_A          227 KGAVKLIFLNKMDLFEEKLTKVPLNTIFPEYTGGDNAVMGAQYIQQLFTGKLQTEEMNISGADGTANIEGAVNEKVYT-N  305 (340)
T ss_dssp             TTSEEEEEEECHHHHHHHHHHSCGGGTCTTCCCTTCHHHHHHHHHHHHHTTSEEEESCC--------------CEEEE-E
T ss_pred             CCCeEEEEEECchhhhhhcCcchHHHhhhhhcCCCCHHHHHHHHHHhcccccchhhhhccccccccccccccCcceEE-E
Confidence            579999999999985311               12344444433221                          13667 9


Q ss_pred             EcccCCCCCHHHHHHHHHHHHHH
Q psy5780          49 ETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        49 ~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      +|||++..||..+|..+.+.|.+
T Consensus       306 ~TsA~dt~nv~~vF~~v~~~Il~  328 (340)
T 4fid_A          306 PTNATDGSNIKRVFMLAVDVIMK  328 (340)
T ss_dssp             EECTTCHHHHHHHHHHHHHHHHH
T ss_pred             EEEeeCcHHHHHHHHHHHHHHHH
Confidence            99999999999999999999887

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=98.02  E-value=1.7e-06  Score=62.12  Aligned_cols=58  Identities=14%  Similarity=0.030  Sum_probs=40.3

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      ...++|+++|+||+|+.+...    ....+. ..+...+ +++||++|.|++++|+.+.+.+.+
T Consensus       108 ~~~~~pvilv~NK~D~~~~~~----~~~~~~-~lg~~~~-~~iSA~~g~gv~~L~~~i~~~l~~  165 (436)
T 2hjg_A          108 YRTKKPVVLAVNKLDNTEMRA----NIYDFY-SLGFGEP-YPISGTHGLGLGDLLDAVAEHFKN  165 (436)
T ss_dssp             TTCCSCEEEEEECCCC---------CCCSSG-GGSSCCC-EECBTTTTBTHHHHHHHHHHTGGG
T ss_pred             HHcCCCEEEEEECccCccchh----hHHHHH-HcCCCCe-EEEeCcCCCChHHHHHHHHHhcCc
Confidence            456899999999999864321    111222 2312378 999999999999999999887764

>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=98.00  E-value=3.9e-06  Score=59.83  Aligned_cols=58  Identities=14%  Similarity=0.185  Sum_probs=40.9

Q ss_pred             CeEEEEEecCCCCCCCC--CCHHHHHHHhhhc--CCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          12 HDSRVWSNKCDLESERE--VDFNEAEEMGEYV--PEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        12 ip~ilv~nK~Dl~~~~~--~~~~~~~~~~~~~--~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      .|+++|+||+|+.+...  ...++...+....  ...++ +++||+++.|++++++.|.+.++
T Consensus       138 ~~iivviNK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~-i~vSA~~g~gi~~L~~~l~~~~~  199 (410)
T 1kk1_A          138 KNIIIAQNKIELVDKEKALENYRQIKEFIEGTVAENAPI-IPISALHGANIDVLVKAIEDFIP  199 (410)
T ss_dssp             CCEEEEEECGGGSCHHHHHHHHHHHHHHHTTSTTTTCCE-EECBTTTTBSHHHHHHHHHHHSC
T ss_pred             CcEEEEEECccCCCHHHHHHHHHHHHHHHHhcCcCCCeE-EEeeCCCCCCHHHHHHHHHHhCC
Confidence            47899999999875321  1122334444431  25689 99999999999999999987664

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=98.00  E-value=8.2e-07  Score=60.17  Aligned_cols=64  Identities=20%  Similarity=-0.014  Sum_probs=42.7

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhh--cCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEY--VPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~--~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      ...+.|+++|+||+|+.+...............  .+...+ +++||+++.|++++|..+.+...-.
T Consensus       189 ~~~~~~~i~V~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~v-~~~SA~~~~gi~~l~~~l~~~~~~~  254 (299)
T 2aka_B          189 DPQGQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGV-VNRSQKDIDGKKDITAALAAERKFF  254 (299)
T ss_dssp             CTTCSSEEEEEECGGGSCTTCCCHHHHTTCSSCCTTCEEEC-CCCCCBCTTSCBCHHHHHHHHHHHH
T ss_pred             CCCCCeEEEEEEccccCCCCchHHHHHhCCcCcCCCCcEEE-ECCChhhccccccHHHHHHHHHHHH
Confidence            345789999999999976443222222210001  112467 8999999999999999998755433

>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=97.99  E-value=8.3e-06  Score=55.68  Aligned_cols=59  Identities=12%  Similarity=0.076  Sum_probs=43.7

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .+.|.++|+||+||.+...  .+....+.+.. +.++ +.+||+++.|+++++..+.+.+..+
T Consensus        49 ~~kp~ilVlNK~DL~~~~~--~~~~~~~~~~~-g~~~-i~iSA~~~~gi~~L~~~i~~~l~~~  107 (282)
T 1puj_A           49 KNKPRIMLLNKADKADAAV--TQQWKEHFENQ-GIRS-LSINSVNGQGLNQIVPASKEILQEK  107 (282)
T ss_dssp             SSSCEEEEEECGGGSCHHH--HHHHHHHHHTT-TCCE-EECCTTTCTTGGGHHHHHHHHHHHH
T ss_pred             CCCCEEEEEECcccCCHHH--HHHHHHHHHhc-CCcE-EEEECCCcccHHHHHHHHHHHHHHH
Confidence            4689999999999975211  12233444455 6788 9999999999999999888777643

>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=97.99  E-value=1.1e-05  Score=58.00  Aligned_cols=60  Identities=17%  Similarity=0.066  Sum_probs=45.6

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..|.++|+||+|+...  ............. +..+ +.+||+++.|+++++..|.+.+.+...
T Consensus       269 ~~P~ILVlNKlDl~~~--~~~~~l~~~l~~~-g~~v-i~iSA~~g~gi~eL~~~i~~~l~~~~~  328 (416)
T 1udx_A          269 RRPSLVALNKVDLLEE--EAVKALADALARE-GLAV-LPVSALTGAGLPALKEALHALVRSTPP  328 (416)
T ss_dssp             HSCEEEEEECCTTSCH--HHHHHHHHHHHTT-TSCE-EECCTTTCTTHHHHHHHHHHHHHTSCC
T ss_pred             cCCEEEEEECCChhhH--HHHHHHHHHHHhc-CCeE-EEEECCCccCHHHHHHHHHHHHHhccc
Confidence            4789999999998643  1222333444455 6789 999999999999999999999876644

>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=97.98  E-value=3.4e-06  Score=59.13  Aligned_cols=59  Identities=19%  Similarity=0.133  Sum_probs=40.6

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHHhh----------hcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEMGE----------YVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~----------~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      ++|.++|+||+|+.+..... .....+..          .+ +.++ +.+||++|.|+++++..|.+.+...
T Consensus       217 ~~p~ivVlNK~Dl~~~~~~~-~~~~~l~~~l~~~~~~~~~~-~~~v-i~iSA~~g~Gi~~L~~~i~~~~~~~  285 (355)
T 3p32_A          217 ELADIVVVNKADGEHHKEAR-LAARELSAAIRLIYPREALW-RPPV-LTMSAVEGRGLAELWDTVERHRQVL  285 (355)
T ss_dssp             GGCSEEEEECCCGGGHHHHH-HHHHHHHHHHHHHSTTCCSC-CCCE-EEEBGGGTBSHHHHHHHHHHHHHHH
T ss_pred             hcCCEEEEECCCCcChhHHH-HHHHHHHHHHhhccccccCC-CCce-EEEEcCCCCCHHHHHHHHHHHHHHh
Confidence            36899999999986321111 11111211          12 4678 9999999999999999998887653

>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=97.94  E-value=6.8e-06  Score=59.94  Aligned_cols=60  Identities=17%  Similarity=0.048  Sum_probs=42.3

Q ss_pred             CCCeEEEEEecCCCCCCCCC--CHHHHHHHhhh---cCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREV--DFNEAEEMGEY---VPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~--~~~~~~~~~~~---~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      .++|+++|+||+|+.+....  ..++...+...   +...++ +++||++|.|++++++.|.+.+.
T Consensus       124 ~~ip~IvviNK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~i-i~vSA~~g~gI~~L~~~L~~~i~  188 (482)
T 1wb1_A          124 FNIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSI-IPISAKTGFGVDELKNLIITTLN  188 (482)
T ss_dssp             TTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCE-EECCTTTCTTHHHHHHHHHHHHH
T ss_pred             cCCCEEEEEECCCcccchhHHHHHHHHHHHHhhhcccccceE-EEEECcCCCCHHHHHHHHHHhhc
Confidence            46899999999999742111  11222333322   114679 99999999999999999998876

>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=97.93  E-value=1.8e-05  Score=52.55  Aligned_cols=60  Identities=22%  Similarity=0.096  Sum_probs=41.3

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHH----------------------------hhhc-CCcceEEEcccCCCCCHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEM----------------------------GEYV-PEIHYVMETSAKDSTNVEE   60 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~----------------------------~~~~-~~~~~~~~~Sa~~~~~v~~   60 (106)
                      .++|+++|+||+|+.....+  .....+                            .+.+ +...+ +++||+++.|+++
T Consensus       170 ~~~p~~iv~NK~D~~~~~~~--~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~-~~~SA~~~~gi~~  246 (262)
T 1yrb_A          170 LGATTIPALNKVDLLSEEEK--ERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRV-LYLSAKTREGFED  246 (262)
T ss_dssp             HTSCEEEEECCGGGCCHHHH--HHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCC-EECCTTTCTTHHH
T ss_pred             cCCCeEEEEecccccccccH--HHHHHHHhChHHHHHHHhccccccchhHhHHHHHHHHhcCcccc-eEEEecCcccHHH
Confidence            36899999999998643211  111111                            1233 13478 9999999999999


Q ss_pred             HHHHHHHHHHHh
Q psy5780          61 AFYCLANELKNR   72 (106)
Q Consensus        61 lf~~l~~~i~~~   72 (106)
                      ++..+.+.+..-
T Consensus       247 l~~~i~~~~~~~  258 (262)
T 1yrb_A          247 LETLAYEHYCTC  258 (262)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHhccc
Confidence            999998877543

>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=97.90  E-value=2.5e-06  Score=55.13  Aligned_cols=47  Identities=19%  Similarity=0.123  Sum_probs=28.0

Q ss_pred             CCCCeEEEEEecCCCCCCCCCC------HHHHHHHhhhcCCcceEEEcccCCCCC
Q psy5780           9 DSAHDSRVWSNKCDLESEREVD------FNEAEEMGEYVPEIHYVMETSAKDSTN   57 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~------~~~~~~~~~~~~~~~~~~~~Sa~~~~~   57 (106)
                      ..++|+++|+||+|+.+...+.      .+.+..+.... +..+ +++||+++.+
T Consensus       118 ~~~~p~ilv~nK~Dl~~~~~~~~~~~~l~~~~~~~~~~~-~~~~-~~~Sa~~~~~  170 (218)
T 1nrj_B          118 ENGIDILIACNKSELFTARPPSKIKDALESEIQKVIERR-KKSL-NEVERKINEE  170 (218)
T ss_dssp             TTCCCEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHHH-HHHH-HC--------
T ss_pred             cCCCCEEEEEEchHhcccCCHHHHHHHHHHHHHHHHHHH-hccc-cccccccccc
Confidence            3689999999999997655433      23345565666 6789 9999998876

>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=97.90  E-value=8.2e-06  Score=58.05  Aligned_cols=59  Identities=15%  Similarity=0.225  Sum_probs=40.2

Q ss_pred             CeEEEEEecCCCCCCCCCC--HHHHHHHhhhc--CCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          12 HDSRVWSNKCDLESEREVD--FNEAEEMGEYV--PEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        12 ip~ilv~nK~Dl~~~~~~~--~~~~~~~~~~~--~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .|+++|+||+|+.+.....  .++...+....  ...++ +++||++|.|++++|+.|.+.++.
T Consensus       130 ~~iivviNK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~i-i~vSA~~g~gi~~L~~~l~~~l~~  192 (403)
T 3sjy_A          130 KNLIIVQNKVDVVSKEEALSQYRQIKQFTKGTWAENVPI-IPVSALHKINIDSLIEGIEEYIKT  192 (403)
T ss_dssp             CCEEEEEECGGGSCHHHHHHHHHHHHHHHTTSTTTTCCE-EECBTTTTBSHHHHHHHHHHHSCC
T ss_pred             CCEEEEEECccccchHHHHHHHHHHHHHHHhhCCCCCEE-EEEECCCCcChHHHHHHHHHhCCC
Confidence            4899999999997532111  11222233222  14579 999999999999999999876643

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=97.88  E-value=1.4e-05  Score=56.45  Aligned_cols=60  Identities=7%  Similarity=-0.021  Sum_probs=42.8

Q ss_pred             CCCeE-EEEEe-cCCCCCCCCCCH--HHHHHHhhhc--CCcceEEE--cccCC---CCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDS-RVWSN-KCDLESEREVDF--NEAEEMGEYV--PEIHYVME--TSAKD---STNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~-ilv~n-K~Dl~~~~~~~~--~~~~~~~~~~--~~~~~~~~--~Sa~~---~~~v~~lf~~l~~~i~~   71 (106)
                      .++|. |+|+| |+|+ +...+..  ++...+.+.+  ...++ ++  +||++   +.|+++++..|.+.+..
T Consensus       110 ~~i~~~ivvvNNK~Dl-~~~~~~~~~~~i~~~l~~~~~~~~~i-i~~~~SA~~~~~g~gi~~L~~~l~~~~~~  180 (370)
T 2elf_A          110 LGFKHGIIALTRSDST-HMHAIDELKAKLKVITSGTVLQDWEC-ISLNTNKSAKNPFEGVDELKARINEVAEK  180 (370)
T ss_dssp             TTCCEEEEEECCGGGS-CHHHHHHHHHHHHHHTTTSTTTTCEE-EECCCCTTSSSTTTTHHHHHHHHHHHHHH
T ss_pred             cCCCeEEEEEEeccCC-CHHHHHHHHHHHHHHHHhcCCCceEE-EecccccccCcCCCCHHHHHHHHHhhccc
Confidence            35787 88999 9998 4322111  3344555443  13688 99  99999   99999999999887764

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=97.86  E-value=7.1e-06  Score=60.70  Aligned_cols=60  Identities=18%  Similarity=0.078  Sum_probs=41.4

Q ss_pred             CCCCeEEEEEecCCCCCCCC--CCHHHHHHH---hhhc-CCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESERE--VDFNEAEEM---GEYV-PEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~--~~~~~~~~~---~~~~-~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      ..++|+++|+||+|+.+...  +.. ....+   ...+ ...++ +++||++|.|++++|+.+...+.
T Consensus       102 ~~~vPiIVViNKiDl~~~~~~~v~~-~l~~~~~~~e~~~~~~~i-v~vSAktG~GI~eLle~I~~l~~  167 (537)
T 3izy_P          102 DAHVPIVLAINKCDKAEADPEKVKK-ELLAYDVVCEDYGGDVQA-VHVSALTGENMMALAEATIALAE  167 (537)
T ss_dssp             TTTCCEEECCBSGGGTTTSCCSSSS-HHHHTTSCCCCSSSSEEE-CCCCSSSSCSSHHHHHHHHHHHT
T ss_pred             HcCCcEEEEEecccccccchHHHHH-HHHhhhhhHHhcCCCceE-EEEECCCCCCchhHHHHHHHhhh
Confidence            35789999999999964321  121 12221   1222 13578 99999999999999999987654

>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=97.80  E-value=2.7e-06  Score=61.17  Aligned_cols=61  Identities=11%  Similarity=0.014  Sum_probs=31.4

Q ss_pred             CCCeEEEEEecCCCCCCCCCCH--HHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDF--NEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~--~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .++|+|+|+||+|+...+.+..  ..+..++..+ ++.+ +++|++++.+++++|..+...++-.
T Consensus       166 ~~v~iIlVinK~Dll~~~ev~~~k~~i~~~~~~~-~i~~-~~~sa~~~~~v~~~~~~l~~~iPfa  228 (418)
T 2qag_C          166 EKVNIIPLIAKADTLTPEECQQFKKQIMKEIQEH-KIKI-YEFPETDDEEENKLVKKIKDRLPLA  228 (418)
T ss_dssp             TTSEEEEEEESTTSSCHHHHHHHHHHHHHHHHHH-TCCC-CCCC-----------------CCEE
T ss_pred             ccCcEEEEEEcccCccHHHHHHHHHHHHHHHHHc-CCeE-EeCCCCCCcCHHHHHHHHHhhCCcc
Confidence            3789999999999865433332  3455566677 8899 9999999999999988887766543

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=97.76  E-value=2.6e-06  Score=57.57  Aligned_cols=60  Identities=12%  Similarity=0.013  Sum_probs=32.2

Q ss_pred             CCeEEEEEecCCCCCCCCCCH--HHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          11 AHDSRVWSNKCDLESEREVDF--NEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~--~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      ++|+|+|+||+|+........  .......... ++.+ +.+||+++.|+++++..|.+.++-.
T Consensus       144 ~~pvi~V~nK~D~~~~~e~~~~~~~i~~~l~~~-~i~v-~~~sa~~~~~~~~l~~~l~~~~p~~  205 (274)
T 3t5d_A          144 KVNIIPLIAKADTLTPEECQQFKKQIMKEIQEH-KIKI-YEFPETDDEEENKLVKKIKDRLPLA  205 (274)
T ss_dssp             TSCEEEEESSGGGSCHHHHHHHHHHHHHHHHHT-TCCC-CCC-----------CHHHHHTCSEE
T ss_pred             cCCEEEEEeccCCCCHHHHHHHHHHHHHHHHHc-CCeE-EcCCCCCChhHHHHHHHHhcCCCcE
Confidence            799999999999864222111  1223334456 7889 9999999999999999888766543

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=97.75  E-value=4.1e-05  Score=56.51  Aligned_cols=27  Identities=19%  Similarity=0.079  Sum_probs=23.9

Q ss_pred             ceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          45 HYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        45 ~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      ++ |.+||+++.||+++++.+++.++.-
T Consensus       252 PV-~~gSA~~~~GV~~Lld~i~~~~p~p  278 (528)
T 3tr5_A          252 PI-FFGSAINNFGVGELLDAFVKEAPPP  278 (528)
T ss_dssp             EE-EECBGGGTBSHHHHHHHHHHHSCCC
T ss_pred             EE-EeccccCCccHHHHHHHHHHhCCCC
Confidence            67 8999999999999999999887644

>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=97.75  E-value=5.7e-06  Score=59.74  Aligned_cols=58  Identities=14%  Similarity=0.020  Sum_probs=37.3

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      ...++|+++|+||+|+.+..    .....+.... .... +.+||++|.|++++|+.+.+.+..
T Consensus       128 ~~~~~pvilV~NK~D~~~~~----~~~~e~~~lg-~~~~-~~iSA~~g~gv~~L~~~i~~~l~~  185 (456)
T 4dcu_A          128 YRTKKPVVLAVNKLDNTEMR----ANIYDFYSLG-FGEP-YPISGTHGLGLGDLLDAVAEHFKN  185 (456)
T ss_dssp             TTCCSCEEEEEECC-------------CCSGGGS-SSSE-EECCTTTCTTHHHHHHHHHTTGGG
T ss_pred             HHcCCCEEEEEECccchhhh----hhHHHHHHcC-CCce-EEeecccccchHHHHHHHHhhccc
Confidence            44689999999999986322    1112222222 3467 899999999999999999876643

>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=97.74  E-value=8e-05  Score=52.54  Aligned_cols=64  Identities=19%  Similarity=0.058  Sum_probs=43.2

Q ss_pred             CCCeEEEEEecCCCCCCCCCC-HHHHHHHhhhc--CCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVD-FNEAEEMGEYV--PEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~-~~~~~~~~~~~--~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+|+|+||+|+.+..... ...+..+...+  +...+ +++||+++.|+++++..|.+.+.....
T Consensus       291 ~~~p~ilV~NK~Dl~~~~~~~~~~~~~~l~~~l~~~~~~~-~~~SA~~g~gi~~L~~~I~~~l~~~~~  357 (364)
T 2qtf_A          291 SGKPILVTLNKIDKINGDLYKKLDLVEKLSKELYSPIFDV-IPISALKRTNLELLRDKIYQLATQLSL  357 (364)
T ss_dssp             CSCCEEEEEECGGGCCSCHHHHHHHHHHHHHHHCSCEEEE-EECBTTTTBSHHHHHHHHHHHHHHHC-
T ss_pred             CCCCEEEEEECCCCCCchHHHHHHHHHHHHHHhcCCCCcE-EEEECCCCcCHHHHHHHHHHHhcccCC
Confidence            578999999999986532100 01121222222  13468 999999999999999999988776544

>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=97.73  E-value=0.00015  Score=54.27  Aligned_cols=29  Identities=14%  Similarity=0.111  Sum_probs=25.1

Q ss_pred             cceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          44 IHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        44 ~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      .++ +.+||++|.|+++++..+...++...
T Consensus       192 vpv-v~vSA~tG~GI~eLl~~I~~~~~~~~  220 (594)
T 1g7s_A          192 VSI-IPISAITGEGIPELLTMLMGLAQQYL  220 (594)
T ss_dssp             EEE-EECCTTTCTTHHHHHHHHHHHHHHHC
T ss_pred             ceE-EEEeccCCCCchhHHHHHHhhccccc
Confidence            378 99999999999999999998877543

>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=97.68  E-value=3.8e-05  Score=49.15  Aligned_cols=61  Identities=15%  Similarity=0.032  Sum_probs=42.1

Q ss_pred             CCCeEEEEEecCCCCCCCC--CCHHHHHHHhhhcC-CcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESERE--VDFNEAEEMGEYVP-EIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~--~~~~~~~~~~~~~~-~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .++|+++|+||+|+.+...  .....+..+....+ .+.+ +++||+++.|+++++..|.+.+.+
T Consensus       136 ~~~~~~~v~nK~D~~s~~~~~~~~~~~~~~~~~~~~~~~~-~~~Sal~~~~~~~l~~~l~~~~~~  199 (210)
T 1pui_A          136 SNIAVLVLLTKADKLASGARKAQLNMVREAVLAFNGDVQV-ETFSSLKKQGVDKLRQKLDTWFSE  199 (210)
T ss_dssp             TTCCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGCSCEEE-EECBTTTTBSHHHHHHHHHHHHC-
T ss_pred             cCCCeEEEEecccCCCchhHHHHHHHHHHHHHhcCCCCce-EEEeecCCCCHHHHHHHHHHHHhh
Confidence            4689999999999864321  11223444444441 3567 899999999999999998876644

>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=97.55  E-value=0.00012  Score=48.54  Aligned_cols=59  Identities=12%  Similarity=-0.066  Sum_probs=42.5

Q ss_pred             CCCeEEEEEecC-CCCCCCCCCHHHHHHHhhh---cCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKC-DLESEREVDFNEAEEMGEY---VPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~-Dl~~~~~~~~~~~~~~~~~---~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .++|++|.+||. |++.  ..+..+.......   ...+.+ +.+||++|+|+.+.++||++.+..
T Consensus       161 ~gapLLVlANKqqDlp~--Ams~~EI~e~L~L~~l~R~W~I-q~csA~TGeGL~EGLdWL~~~l~~  223 (227)
T 3l82_B          161 SGRPLLVLSCISQGDVK--RMPCFYLAHELHLNLLNHPWLV-QDTEAETLTGFLNGIEWILEEVES  223 (227)
T ss_dssp             SCSCEEEEEEESSTTSC--BCCHHHHHHHTTGGGGCSCEEE-EEEETTTCTTHHHHHHHHTTTTTT
T ss_pred             CCCeEEEEeCCCcCccC--CCCHHHHHHHcCCcCCCCCEEE-EEeECCCCcCHHHHHHHHHHHHHh
Confidence            578999999996 6753  4555554443321   114567 899999999999999999876643

>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=97.50  E-value=2.6e-05  Score=55.42  Aligned_cols=60  Identities=18%  Similarity=0.102  Sum_probs=40.1

Q ss_pred             CCCe-EEEEEecCCCCCCCCC---CHHHHHHHhhhcC----CcceEEEcccCCCCC----------HHHHHHHHHHHHH
Q psy5780          10 SAHD-SRVWSNKCDLESEREV---DFNEAEEMGEYVP----EIHYVMETSAKDSTN----------VEEAFYCLANELK   70 (106)
Q Consensus        10 ~~ip-~ilv~nK~Dl~~~~~~---~~~~~~~~~~~~~----~~~~~~~~Sa~~~~~----------v~~lf~~l~~~i~   70 (106)
                      .++| +++|+||+|+.+....   ...+...+.+.++    ..++ +++||+++.|          ++++++.|.+.++
T Consensus       117 ~~vp~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-i~~SA~~g~n~~~~~~~~g~i~~Ll~~l~~~~p  194 (397)
T 1d2e_A          117 IGVEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKGEETPI-IVGSALCALEQRDPELGLKSVQKLLDAVDTYIP  194 (397)
T ss_dssp             TTCCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCTTTSCE-EECCHHHHHTTCCTTTTHHHHHHHHHHHHHHSC
T ss_pred             cCCCeEEEEEECcccCCCHHHHHHHHHHHHHHHHHcCCCcccCcE-EEeehhhcccccCCCccCCcHHHHHHHHHHhCC
Confidence            4688 6899999998742110   1123445555551    2589 9999999765          7888888776554

>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=97.50  E-value=1.3e-05  Score=58.87  Aligned_cols=57  Identities=21%  Similarity=0.124  Sum_probs=37.9

Q ss_pred             CCCeEEEEEecCCCCCCC--CCCHHH--HHHHhhhcC-CcceEEEcccCCCCCHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESER--EVDFNE--AEEMGEYVP-EIHYVMETSAKDSTNVEEAFYCLAN   67 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~--~~~~~~--~~~~~~~~~-~~~~~~~~Sa~~~~~v~~lf~~l~~   67 (106)
                      .++|+++++||+|+.+..  .+..+.  ...+.+.++ ..++ +++||++|.|++++|+.+..
T Consensus       102 ~~vPiIVviNKiDl~~~~~~~v~~~l~~~~~~~~~~~~~~~~-v~vSAktG~gI~eLle~I~~  163 (501)
T 1zo1_I          102 AQVPVVVAVNKIDKPEADPDRVKNELSQYGILPEEWGGESQF-VHVSAKAGTGIDELLDAILL  163 (501)
T ss_dssp             TTCCEEEEEECSSSSTTCCCCTTCCCCCCCCCTTCCSSSCEE-EECCTTTCTTCTTHHHHTTT
T ss_pred             cCceEEEEEEeccccccCHHHHHHHHHHhhhhHHHhCCCccE-EEEeeeeccCcchhhhhhhh
Confidence            578999999999996421  111100  000112231 2579 99999999999999998864

>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=97.50  E-value=0.00011  Score=55.62  Aligned_cols=28  Identities=11%  Similarity=0.007  Sum_probs=24.5

Q ss_pred             cceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          44 IHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        44 ~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .++ +.+||+++.||+++|+.+++.++.-
T Consensus       248 ~pv-~~~SA~~~~Gv~~Ll~~i~~~lp~p  275 (665)
T 2dy1_A          248 YPV-ALASGEREIGVLPLLELILEALPSP  275 (665)
T ss_dssp             EEE-EECBTTTTBSHHHHHHHHHHHSCCH
T ss_pred             eEE-EEeecccCcCHHHHHHHHHHhCCCc
Confidence            468 9999999999999999999887643

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=97.47  E-value=8.2e-05  Score=53.60  Aligned_cols=53  Identities=21%  Similarity=0.090  Sum_probs=34.6

Q ss_pred             CCCe-EEEEEecCCCCCCCC------CCHHHHHHHhhhcC-----CcceEEEcccCCCCCHHHHHH
Q psy5780          10 SAHD-SRVWSNKCDLESERE------VDFNEAEEMGEYVP-----EIHYVMETSAKDSTNVEEAFY   63 (106)
Q Consensus        10 ~~ip-~ilv~nK~Dl~~~~~------~~~~~~~~~~~~~~-----~~~~~~~~Sa~~~~~v~~lf~   63 (106)
                      .++| +|+|+||+|+.....      ....+...+.+..+     ..++ +++||++|.|+++++.
T Consensus       153 ~~v~~iIvviNK~Dl~~~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~~-i~iSA~~G~ni~~l~~  217 (439)
T 3j2k_7          153 AGVKHLIVLINKMDDPTVNWSNERYEECKEKLVPFLKKVGFNPKKDIHF-MPCSGLTGANLKEQSD  217 (439)
T ss_pred             cCCCeEEEEeecCCCcccchHHHHHHHHHHHHHHHHHHhcccccCCeeE-EEeeccCCcccccccc
Confidence            4577 899999999853210      01122333444431     2468 9999999999998665

>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=97.45  E-value=2.5e-05  Score=55.58  Aligned_cols=47  Identities=19%  Similarity=0.131  Sum_probs=31.0

Q ss_pred             CCCe-EEEEEecCCCCCCCCC---CHHHHHHHhhhcC----CcceEEEcccCCCCC
Q psy5780          10 SAHD-SRVWSNKCDLESEREV---DFNEAEEMGEYVP----EIHYVMETSAKDSTN   57 (106)
Q Consensus        10 ~~ip-~ilv~nK~Dl~~~~~~---~~~~~~~~~~~~~----~~~~~~~~Sa~~~~~   57 (106)
                      .++| +++|+||+|+.+....   ...+...+.+.++    ..++ +++||++|.|
T Consensus       126 ~~ip~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-i~~SA~~g~~  180 (405)
T 2c78_A          126 VGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPGDEVPV-IRGSALLALE  180 (405)
T ss_dssp             TTCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTTSCTTTSCE-EECCHHHHHH
T ss_pred             cCCCEEEEEEECccccCcHHHHHHHHHHHHHHHHHhcccccCCCE-EEccHHHhhh
Confidence            4688 8899999999742110   1123444555541    2679 9999999987

>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=97.43  E-value=0.00012  Score=51.08  Aligned_cols=59  Identities=14%  Similarity=0.110  Sum_probs=38.6

Q ss_pred             CCeEEEEEecCCCCCCCCCCH--HHHHHHhhhcC------CcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          11 AHDSRVWSNKCDLESEREVDF--NEAEEMGEYVP------EIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~--~~~~~~~~~~~------~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      ++|.++|+||+|+.....+..  ..........+      ...+ +.+||++|.|+++++..|.+.+.
T Consensus       194 ~~p~ivv~NK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~v-i~iSA~~g~gi~~L~~~l~~~~~  260 (341)
T 2p67_A          194 EVADLIVINKDDGDNHTNVAIARHMYESALHILRRKYDEWQPRV-LTCSALEKRGIDEIWHAIIDFKT  260 (341)
T ss_dssp             HHCSEEEECCCCTTCHHHHHHHHHHHHHHHHHSCCSBTTBCCEE-EECBGGGTBSHHHHHHHHHHHHH
T ss_pred             cccCEEEEECCCCCChHHHHHHHHHHHHHHHhccccccCCCCcE-EEeeCCCCCCHHHHHHHHHHHHH
Confidence            468899999999864211110  01111111111      3467 99999999999999999988765

>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=97.42  E-value=3.9e-05  Score=55.10  Aligned_cols=51  Identities=22%  Similarity=0.106  Sum_probs=35.2

Q ss_pred             CC-eEEEEEecCCCCCCCC--C--CHHHHHHHhhhcCC-----cceEEEcccCCCCCHHHHHH
Q psy5780          11 AH-DSRVWSNKCDLESERE--V--DFNEAEEMGEYVPE-----IHYVMETSAKDSTNVEEAFY   63 (106)
Q Consensus        11 ~i-p~ilv~nK~Dl~~~~~--~--~~~~~~~~~~~~~~-----~~~~~~~Sa~~~~~v~~lf~   63 (106)
                      ++ |+|+|+||+|+.+...  +  ...+...+.+.+ +     .++ +++||++|.|++++|.
T Consensus       156 ~~~~iIvviNK~Dl~~~~~~~~~~i~~~~~~~~~~~-g~~~~~~~~-i~vSA~~g~gi~~~~~  216 (434)
T 1zun_B          156 GIKHIVVAINKMDLNGFDERVFESIKADYLKFAEGI-AFKPTTMAF-VPMSALKGDNVVNKSE  216 (434)
T ss_dssp             TCCEEEEEEECTTTTTSCHHHHHHHHHHHHHHHHTT-TCCCSEEEE-EECCTTTCTTTSSCCT
T ss_pred             CCCeEEEEEEcCcCCcccHHHHHHHHHHHHHHHHHh-CCCccCceE-EEEeccCCCCcccccc
Confidence            45 5899999999975221  0  122344555556 4     678 9999999999988543

>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=97.37  E-value=0.00016  Score=51.03  Aligned_cols=54  Identities=15%  Similarity=0.112  Sum_probs=37.1

Q ss_pred             CCCeEEEEEecCCCCCCCCC-CHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREV-DFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCL   65 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l   65 (106)
                      .++|.+||.||+||.++... ..+.....+... ++++ +.+||.++.|++++...+
T Consensus       159 ~~~~~iivlNK~DL~~~~~~~~~~~~~~~y~~~-G~~v-~~~Sa~~~~gl~~L~~~~  213 (358)
T 2rcn_A          159 LQVEPLIVLNKIDLLDDEGMDFVNEQMDIYRNI-GYRV-LMVSSHTQDGLKPLEEAL  213 (358)
T ss_dssp             HTCEEEEEEECGGGCCHHHHHHHHHHHHHHHTT-TCCE-EECBTTTTBTHHHHHHHH
T ss_pred             cCCCEEEEEECccCCCchhHHHHHHHHHHHHhC-CCcE-EEEecCCCcCHHHHHHhc
Confidence            46889999999999753210 011122334456 7888 999999999999886543

>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=97.35  E-value=0.00047  Score=47.69  Aligned_cols=59  Identities=12%  Similarity=-0.080  Sum_probs=42.7

Q ss_pred             CCCeEEEEEec-CCCCCCCCCCHHHHHHHhhh---cCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNK-CDLESEREVDFNEAEEMGEY---VPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK-~Dl~~~~~~~~~~~~~~~~~---~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .++|++|.+|| -|++.  ..+..+.......   ...+.+ +.+||.+|+|+.+.+++|++.+..
T Consensus       246 ~~apLLVfANKkQDlp~--Ams~~EI~e~L~L~~l~r~W~I-q~csA~tGeGL~EGldWL~~~l~~  308 (312)
T 3l2o_B          246 SGRPLLVLSCISQGDVK--RMPCFYLAHELHLNLLNHPWLV-QDTEAETLTGFLNGIEWILEEVES  308 (312)
T ss_dssp             TTCCEEEEEEESSTTSC--BCCHHHHHHHTTGGGGCSCEEE-EEEETTTCTTHHHHHHHHHHHSCC
T ss_pred             CCCeEEEEeCCcccccC--CCCHHHHHHHcCCccCCCcEEE-EecccCCCcCHHHHHHHHHHHHHh
Confidence            57999999997 58853  4455554443221   114567 999999999999999999987743

>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=97.35  E-value=5.5e-05  Score=52.91  Aligned_cols=61  Identities=10%  Similarity=0.053  Sum_probs=42.5

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      ...+.|+|+|+||+|+.+...........+.... +..| +.+|+.++.++++.+..+.....
T Consensus       200 ~~~~~~~i~V~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~v~~~s~~~i~~~~~~~~~~~~  260 (360)
T 3t34_A          200 DPSGDRTFGVLTKIDLMDKGTDAVEILEGRSFKL-KYPW-VGVVNRSQADINKNVDMIAARKR  260 (360)
T ss_dssp             CTTCTTEEEEEECGGGCCTTCCSHHHHTTSSSCC-SSCC-EEECCCCHHHHHTTCCHHHHHHH
T ss_pred             cccCCCEEEEEeCCccCCCcccHHHHHcCccccc-cCCe-EEEEECChHHhccCCCHHHHHHH
Confidence            4457899999999999765544444344344445 6789 99999999888877655444333

>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=97.33  E-value=0.00012  Score=53.20  Aligned_cols=48  Identities=17%  Similarity=0.097  Sum_probs=31.0

Q ss_pred             CeEEEEEecCCCCCCCCCCHH----HHHHHhhhcC----CcceEEEcccCCCCCHHH
Q psy5780          12 HDSRVWSNKCDLESEREVDFN----EAEEMGEYVP----EIHYVMETSAKDSTNVEE   60 (106)
Q Consensus        12 ip~ilv~nK~Dl~~~~~~~~~----~~~~~~~~~~----~~~~~~~~Sa~~~~~v~~   60 (106)
                      .|+|+|+||+|+.+......+    ....+....+    ..++ +++||++|.|+++
T Consensus       172 ~~iIvviNK~Dl~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~-i~iSA~~g~gi~e  227 (483)
T 3p26_A          172 HNLIIAMNKMDNVDWSQQRFEEIKSKLLPYLVDIGFFEDNINW-VPISGFSGEGVYK  227 (483)
T ss_dssp             CCEEEEEECGGGGTTCHHHHHHHHHHHHHHHHHHTCCGGGEEE-EECCSSSCTTSSS
T ss_pred             CcEEEEEECcCcccchHHHHHHHHHHHHHHHHHcCCCcccceE-EEEeeecCCCccc
Confidence            359999999999753322222    2222333221    3578 9999999999875

>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=97.26  E-value=0.0007  Score=46.02  Aligned_cols=62  Identities=11%  Similarity=0.044  Sum_probs=38.2

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcc---cCC---CCCHHHHHHHHHHHHHH
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETS---AKD---STNVEEAFYCLANELKN   71 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~S---a~~---~~~v~~lf~~l~~~i~~   71 (106)
                      ...+.|+++|+||+|+.+......+........+ +..+ +++|   +.+   +.|+.+++..+.+.+..
T Consensus       195 ~~~~~~~i~v~NK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~~v~~~sa~~~~~~~gv~~l~~~~~~~~~~  262 (315)
T 1jwy_B          195 DPEGKRTIGVITKLDLMDKGTDAMEVLTGRVIPL-TLGF-IGVINRSQEDIIAKKSIRESLKSEILYFKN  262 (315)
T ss_dssp             CSSCSSEEEEEECTTSSCSSCCCHHHHTTSSSCC-TTCE-EECCCCCHHHHSSSCCHHHHHHHHHHHHHT
T ss_pred             CCCCCcEEEEEcCcccCCcchHHHHHHhCCCccC-CCCe-EEEecCChhhhccCCCHHHHHHHHHHHHhC
Confidence            3457899999999999754432222222111111 2445 5555   444   78899999888877764

>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=97.25  E-value=0.00036  Score=45.82  Aligned_cols=59  Identities=5%  Similarity=0.044  Sum_probs=38.2

Q ss_pred             CeEEEEEecCCCCCCCCCC------HHHHHHHhhhcCCcceEEEcccCCC-----CCHHHHHHHHHHHHHHh
Q psy5780          12 HDSRVWSNKCDLESEREVD------FNEAEEMGEYVPEIHYVMETSAKDS-----TNVEEAFYCLANELKNR   72 (106)
Q Consensus        12 ip~ilv~nK~Dl~~~~~~~------~~~~~~~~~~~~~~~~~~~~Sa~~~-----~~v~~lf~~l~~~i~~~   72 (106)
                      .|+++|+||+|+.+...+.      .+.+..+.+.+ +..+ +.++.+.+     .+|.++|..+.+.+.+.
T Consensus       146 ~~~iiv~nK~D~~~~~~~~~~i~~~~~~l~~l~~~~-~~~~-~~~~~~~~~~~~~~~v~~ll~~i~~~~~~~  215 (239)
T 3lxx_A          146 SFMILIFTRKDDLGDTNLHDYLREAPEDIQDLMDIF-GDRY-CALNNKATGAEQEAQRAQLLGLIQRVVREN  215 (239)
T ss_dssp             GGEEEEEECGGGC------------CHHHHHHHHHH-SSSE-EECCTTCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             ceEEEEEeCCccCCcccHHHHHHhchHHHHHHHHHc-CCEE-EEEECCCCccccHHHHHHHHHHHHHHHHHc
Confidence            5899999999986544332      13456666777 6566 66665543     68889998888777554

>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=97.22  E-value=8.1e-05  Score=49.50  Aligned_cols=60  Identities=13%  Similarity=0.163  Sum_probs=39.4

Q ss_pred             CCeEEEEEe-cCCCCCCCCCCH-------HHHHHHhhhcCC-----cceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          11 AHDSRVWSN-KCDLESEREVDF-------NEAEEMGEYVPE-----IHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        11 ~ip~ilv~n-K~Dl~~~~~~~~-------~~~~~~~~~~~~-----~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      ..|.++|+| |+|+... .+..       ..+..+.... +     ... +++||+++.|++++|..+.+.+....
T Consensus       138 ~~~~i~vv~nK~Dl~~~-~~~~~i~~~~~~~~~~~~~~~-~~~~~~~~~-~~~SA~~~~gv~~l~~~i~~~~~~~~  210 (260)
T 2xtp_A          138 MGHTIVLFTHKEDLNGG-SLMDYMHDSDNKALSKLVAAC-GGRICAFNN-RAEGSNQDDQVKELMDCIEDLLMEKN  210 (260)
T ss_dssp             GGGEEEEEECGGGGTTC-CHHHHHHHCCCHHHHHHHHHT-TTCEEECCT-TCCHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             hccEEEEEEcccccCCc-cHHHHHHhcchHHHHHHHHHh-CCeEEEecC-cccccccHHHHHHHHHHHHHHHHhCC
Confidence            356666666 9999743 2111       1123344444 2     223 57899999999999999999887654

>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=97.22  E-value=0.00018  Score=57.66  Aligned_cols=60  Identities=20%  Similarity=0.173  Sum_probs=39.5

Q ss_pred             CCCe-EEEEEecCCCCCCCCC---CHHHHHHHhhhcC----CcceEEEcccCCC--------CCHHHHHHHHHHHHH
Q psy5780          10 SAHD-SRVWSNKCDLESEREV---DFNEAEEMGEYVP----EIHYVMETSAKDS--------TNVEEAFYCLANELK   70 (106)
Q Consensus        10 ~~ip-~ilv~nK~Dl~~~~~~---~~~~~~~~~~~~~----~~~~~~~~Sa~~~--------~~v~~lf~~l~~~i~   70 (106)
                      .++| +|+|+||+|+.+....   ...+...+...++    ..++ +++||++|        .|++++|+.|.+.++
T Consensus       410 lgIP~IIVVINKiDLv~d~e~le~i~eEi~elLk~~G~~~~~vp~-IpvSAktG~ng~~~w~eGI~eLleaL~~~Ip  485 (1289)
T 3avx_A          410 VGVPYIIVFLNKCDMVDDEELLELVEMEVRELLSQYDFPGDDTPI-VRGSALKALEGDAEWEAKILELAGFLDSYIP  485 (1289)
T ss_dssp             HTCSCEEEEEECCTTCCCHHHHHHHHHHHHHHHHHTTSCTTTCCE-EECCSTTTTTCCHHHHHHHHHHHHHHHHTSC
T ss_pred             cCCCeEEEEEeecccccchhhHHHHHHHHHHHHHhccccccceeE-EEEEeccCCCCCccccccchhhHhHHhhhcC
Confidence            3688 7899999999742211   1123445555541    2589 99999999        457788877766543

>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=97.22  E-value=3.3e-05  Score=53.46  Aligned_cols=53  Identities=15%  Similarity=0.144  Sum_probs=36.4

Q ss_pred             CCCCeEEEEEecCCCCCCCCC--CHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREV--DFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFY   63 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~   63 (106)
                      ..++|.++|.||+||.++...  .......+++.. ++++ +.+||.++.|+++++.
T Consensus       115 ~~~~~~vivlnK~DL~~~~~~~~~~~~~~~~y~~~-g~~v-~~~sa~~~~g~~~L~~  169 (307)
T 1t9h_A          115 ANDIQPIICITKMDLIEDQDTEDTIQAYAEDYRNI-GYDV-YLTSSKDQDSLADIIP  169 (307)
T ss_dssp             TTTCEEEEEEECGGGCCCHHHHHHHHHHHHHHHHH-TCCE-EECCHHHHTTCTTTGG
T ss_pred             HCCCCEEEEEECCccCchhhhHHHHHHHHHHHHhC-CCeE-EEEecCCCCCHHHHHh
Confidence            367899999999999754210  012234444455 6788 9999999888776654

>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=97.22  E-value=1.4e-05  Score=55.90  Aligned_cols=61  Identities=20%  Similarity=0.048  Sum_probs=40.1

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHH--HhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEE--MGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~--~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      ...+.|+++|+||+|+.+...........  +....+...+ +.+||+++.|++++|..+.+.-
T Consensus       194 ~~~~~~~i~V~NK~Dl~~~~~~~~~~~~~~~~~l~~~~~~v-~~~SA~~~~~i~~l~~~l~~e~  256 (353)
T 2x2e_A          194 DPQGQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGV-VNRSQKDIDGKKDITAALAAER  256 (353)
T ss_dssp             CTTCTTEEEEEECGGGSCTTCCCHHHHTTCSSCCTTCEEEC-CCCCHHHHHTTCCHHHHHHHHH
T ss_pred             CcCCCceEEEeccccccCcchhHHHHHhCCcccccCCceEE-EeCCcccccccccHHHHHHHHH
Confidence            44678999999999997543322221110  0011212357 8999999999999999987643

>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=97.18  E-value=5.9e-05  Score=54.21  Aligned_cols=52  Identities=15%  Similarity=0.122  Sum_probs=34.6

Q ss_pred             CC-eEEEEEecCCCCCCC--C----CCHHHHHHHhhhcC----CcceEEEcccCCCCCHHHHHH
Q psy5780          11 AH-DSRVWSNKCDLESER--E----VDFNEAEEMGEYVP----EIHYVMETSAKDSTNVEEAFY   63 (106)
Q Consensus        11 ~i-p~ilv~nK~Dl~~~~--~----~~~~~~~~~~~~~~----~~~~~~~~Sa~~~~~v~~lf~   63 (106)
                      ++ |+++|+||+|+.+..  .    ...++...+...++    ..++ +++||++|.|+.+++.
T Consensus       143 ~~~~iivviNK~Dl~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~-i~iSA~~g~~v~e~~~  205 (435)
T 1jny_A          143 GLDQLIVAVNKMDLTEPPYDEKRYKEIVDQVSKFMRSYGFNTNKVRF-VPVVAPSGDNITHKSE  205 (435)
T ss_dssp             TCTTCEEEEECGGGSSSTTCHHHHHHHHHHHHHHHHHTTCCCTTCEE-EECBTTTTBTTTBCCS
T ss_pred             CCCeEEEEEEcccCCCccccHHHHHHHHHHHHHHHHHcCCCcCCceE-EEeecccCcccccccc
Confidence            44 588999999997521  1    11233455555551    1579 9999999999986553

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=97.13  E-value=0.00053  Score=47.97  Aligned_cols=58  Identities=12%  Similarity=-0.017  Sum_probs=37.9

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHHh---h-------hcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEMG---E-------YVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~---~-------~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      ..|.++|+||+|+.+.... ......+.   .       .+ ..++ +.+||+++.|+++++..|.+.+..
T Consensus       212 ~~~~ivVlNK~Dl~~~~~~-~~~~~~l~~~l~~~~~~a~~~-~~~v-i~iSA~~g~Gi~~L~~~I~~~~~~  279 (349)
T 2www_A          212 EMADLVAVTKSDGDLIVPA-RRIQAEYVSALKLLRKRSQVW-KPKV-IRISARSGEGISEMWDKMKDFQDL  279 (349)
T ss_dssp             CSCSEEEECCCSGGGHHHH-HHHHHHHHHHHTTCC-----C-CCEE-EECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             hcCCEEEEeeecCCCchhH-HHHHHHHHHHHHhcCccccCC-CceE-EEEecCCCCCHHHHHHHHHHHHHH
Confidence            4578999999998531110 00111121   1       12 3468 999999999999999999877643

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=97.10  E-value=0.00038  Score=46.91  Aligned_cols=52  Identities=13%  Similarity=-0.001  Sum_probs=35.4

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHH
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLAN   67 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~   67 (106)
                      +.|.++|.||+||.+...  .+....+.+.. +.++  .+||+++.|+++++..+.+
T Consensus        46 ~k~~iivlNK~DL~~~~~--~~~~~~~~~~~-g~~v--~iSa~~~~gi~~L~~~l~~   97 (262)
T 3cnl_A           46 RKETIILLNKVDIADEKT--TKKWVEFFKKQ-GKRV--ITTHKGEPRKVLLKKLSFD   97 (262)
T ss_dssp             TSEEEEEEECGGGSCHHH--HHHHHHHHHHT-TCCE--EECCTTSCHHHHHHHHCCC
T ss_pred             CCCcEEEEECccCCCHHH--HHHHHHHHHHc-CCeE--EEECCCCcCHHHHHHHHHH
Confidence            689999999999975311  12223344444 4443  6899999999998876643

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=97.06  E-value=0.00016  Score=53.95  Aligned_cols=48  Identities=29%  Similarity=0.192  Sum_probs=31.4

Q ss_pred             CCCe-EEEEEecCCCCCCCCCC----HHHHHHHh-hhcCC-----cceEEEcccCCCCCHH
Q psy5780          10 SAHD-SRVWSNKCDLESEREVD----FNEAEEMG-EYVPE-----IHYVMETSAKDSTNVE   59 (106)
Q Consensus        10 ~~ip-~ilv~nK~Dl~~~~~~~----~~~~~~~~-~~~~~-----~~~~~~~Sa~~~~~v~   59 (106)
                      .++| +|+|+||+|+.+.....    ......+. ... +     +++ +.+||++|.||.
T Consensus       313 lgip~iIvviNKiDl~~~~~~~~~~i~~el~~~l~~~~-g~~~~~~~i-i~iSA~~G~gI~  371 (592)
T 3mca_A          313 LGISEIVVSVNKLDLMSWSEDRFQEIKNIVSDFLIKMV-GFKTSNVHF-VPISAISGTNLI  371 (592)
T ss_dssp             SSCCCEEEEEECGGGGTTCHHHHHHHHHHHHHHHTTTS-CCCGGGEEE-EEECSSSCSSSC
T ss_pred             cCCCeEEEEEeccccccccHHHHHHHHHHHHHHHHHhh-CCCccceEE-EEEecccCcccc
Confidence            3566 89999999986522111    12233344 333 3     368 999999999997

>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=96.97  E-value=0.0002  Score=51.80  Aligned_cols=51  Identities=22%  Similarity=0.086  Sum_probs=33.2

Q ss_pred             CCCe-EEEEEecCCCCCCCC----CCHHHHHHHhhhcC----CcceEEEcccCCCCCHHHH
Q psy5780          10 SAHD-SRVWSNKCDLESERE----VDFNEAEEMGEYVP----EIHYVMETSAKDSTNVEEA   61 (106)
Q Consensus        10 ~~ip-~ilv~nK~Dl~~~~~----~~~~~~~~~~~~~~----~~~~~~~~Sa~~~~~v~~l   61 (106)
                      .++| +|+|+||+|+.+...    ....+...+...++    ..++ +++||++|.|+.++
T Consensus       143 ~~v~~iivviNK~Dl~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~-i~vSA~~g~nv~~~  202 (458)
T 1f60_A          143 LGVRQLIVAVNKMDSVKWDESRFQEIVKETSNFIKKVGYNPKTVPF-VPISGWNGDNMIEA  202 (458)
T ss_dssp             TTCCEEEEEEECGGGGTTCHHHHHHHHHHHHHHHHHHTCCGGGCCE-EECCTTTCBTTTBC
T ss_pred             cCCCeEEEEEEccccccCCHHHHHHHHHHHHHHHHHcCCCccCceE-EEeecccCcCcccc
Confidence            4566 899999999973211    01123344444441    1579 99999999999754

>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=96.96  E-value=0.00015  Score=52.59  Aligned_cols=52  Identities=23%  Similarity=0.163  Sum_probs=33.4

Q ss_pred             CCCe-EEEEEecCCCCCCCC------CCHHHHHHHhhhc-C-----CcceEEEcccCCCCCHHHHH
Q psy5780          10 SAHD-SRVWSNKCDLESERE------VDFNEAEEMGEYV-P-----EIHYVMETSAKDSTNVEEAF   62 (106)
Q Consensus        10 ~~ip-~ilv~nK~Dl~~~~~------~~~~~~~~~~~~~-~-----~~~~~~~~Sa~~~~~v~~lf   62 (106)
                      .++| +|+|+||+|+.....      ....+...+.... +     ..++ +++||++|.|+.++|
T Consensus       179 ~~vp~iivviNK~Dl~~~~~~~~~~~~i~~e~~~~l~~~~g~~~~~~~~~-i~vSA~~g~~i~~l~  243 (467)
T 1r5b_A          179 QGINHLVVVINKMDEPSVQWSEERYKECVDKLSMFLRRVAGYNSKTDVKY-MPVSAYTGQNVKDRV  243 (467)
T ss_dssp             TTCSSEEEEEECTTSTTCSSCHHHHHHHHHHHHHHHHHHHCCCHHHHEEE-EECBTTTTBTTSSCC
T ss_pred             cCCCEEEEEEECccCCCccccHHHHHHHHHHHHHHHHHhcCCCccCCceE-Eeccccccccccccc
Confidence            4677 899999999964211      0011233333322 1     3568 999999999998765

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=96.92  E-value=0.001  Score=50.49  Aligned_cols=63  Identities=19%  Similarity=0.161  Sum_probs=41.1

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHH----------HHH-----HHhhhc-------CCcceEEEcccC-------------
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFN----------EAE-----EMGEYV-------PEIHYVMETSAK-------------   53 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~----------~~~-----~~~~~~-------~~~~~~~~~Sa~-------------   53 (106)
                      ..+.|+++|+||+|+.....+..+          ...     .+....       ....+ +.+||+             
T Consensus       228 ~~~~~iiiVlNK~Dl~~~~~~~~ee~e~l~~~~~~i~~~~~~~l~~~~~~~g~~~~~~~v-~~vSAk~al~~~~~~~~~~  306 (695)
T 2j69_A          228 GRGLTVFFLVNAWDQVRESLIDPDDVEELQASENRLRQVFNANLAEYCTVEGQNIYDERV-FELSSIQALRRRLKNPQAD  306 (695)
T ss_dssp             TSCCCEEEEEECGGGGGGGCSSTTCHHHHHHHHHHHHHHHHHHHGGGGBSSSCBCGGGTE-EECCHHHHHHHHHHCTTCC
T ss_pred             hhCCCEEEEEECcccccccccChhhHHHHHHHHHHHHHHHHHHHHHhhcccccccCCCcE-EEEeChHHHHhhccCchhh
Confidence            347789999999998643211110          011     111111       02468 999999             


Q ss_pred             -CCCCHHHHHHHHHHHHHHh
Q psy5780          54 -DSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        54 -~~~~v~~lf~~l~~~i~~~   72 (106)
                       ++.|+++++..+.+.+...
T Consensus       307 ~~~~Gi~~L~~~L~~~l~~~  326 (695)
T 2j69_A          307 LDGTGFPKFMDSLNTFLTRE  326 (695)
T ss_dssp             CTTSSHHHHHHHHHHHHHHT
T ss_pred             hhccCHHHHHHHHHHHHHHh
Confidence             9999999999998877543

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=96.79  E-value=0.00032  Score=52.57  Aligned_cols=50  Identities=12%  Similarity=-0.032  Sum_probs=32.5

Q ss_pred             CC-eEEEEEecCCCCCCCCCC----HHHHHHHhhhcC----CcceEEEcccCCCCCHHHH
Q psy5780          11 AH-DSRVWSNKCDLESEREVD----FNEAEEMGEYVP----EIHYVMETSAKDSTNVEEA   61 (106)
Q Consensus        11 ~i-p~ilv~nK~Dl~~~~~~~----~~~~~~~~~~~~----~~~~~~~~Sa~~~~~v~~l   61 (106)
                      ++ |+|+|+||+|+.+.....    ......+....+    ..++ +++||++|.||+++
T Consensus       304 gi~~iIVVvNKiDl~~~~~~~~~ei~~~l~~~l~~~g~~~~~~~~-i~vSA~tG~gI~el  362 (611)
T 3izq_1          304 GIHNLIIAMNKMDNVDWSQQRFEEIKSKLLPYLVDIGFFEDNINW-VPISGFSGEGVYKI  362 (611)
T ss_dssp             TCCEEEEEEECTTTTTTCHHHHHHHHHHHHHHHHHHTCCGGGCEE-EECCTTTCTTTSSC
T ss_pred             CCCeEEEEEecccccchhHHHHHHHHHHHHHHHHhhcccccCccE-EeeecccCCCcccc
Confidence            44 489999999997532211    122233333331    2578 99999999999876

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=96.76  E-value=0.0022  Score=44.67  Aligned_cols=57  Identities=11%  Similarity=0.016  Sum_probs=36.7

Q ss_pred             CeEEEEEecCCCCCCCCCCHHHHHHHhh----------hcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          12 HDSRVWSNKCDLESEREVDFNEAEEMGE----------YVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        12 ip~ilv~nK~Dl~~~~~~~~~~~~~~~~----------~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      ++.++|.||+|+.............+..          .+ ..++ +.+||+++.|+++++..|.+...
T Consensus       194 ~~~ivvlNK~Dl~~~~~~s~~~~~~l~~a~~l~~~~~~~~-~~~v-l~~Sal~g~gi~~L~~~I~~~~~  260 (337)
T 2qm8_A          194 LADMIAVNKADDGDGERRASAAASEYRAALHILTPPSATW-TPPV-VTISGLHGKGLDSLWSRIEDHRS  260 (337)
T ss_dssp             HCSEEEEECCSTTCCHHHHHHHHHHHHHHHTTBCCSBTTB-CCCE-EEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             cccEEEEEchhccCchhHHHHHHHHHHHHHHhccccccCC-CCCE-EEEeCCCCCCHHHHHHHHHHHHH
Confidence            4668888999975322111111222211          12 3467 88999999999999999887654

>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=96.49  E-value=0.00028  Score=54.26  Aligned_cols=61  Identities=20%  Similarity=0.030  Sum_probs=40.5

Q ss_pred             cCCCCCeEEEEEecCCCCCCCCCCHHHHHH-Hh-hhcCCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780           7 WPDSAHDSRVWSNKCDLESEREVDFNEAEE-MG-EYVPEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus         7 ~~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~-~~-~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      +...+.|+|+|.||+|+.+........... .. ...+...+ +.+||++|.|+++++..+.+.
T Consensus       213 L~~~g~pvIlVlNKiDlv~~~~~~~~il~~~~~~l~lg~~~V-V~iSA~~G~GvdeL~eaI~~e  275 (772)
T 3zvr_A          213 VDPQGQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGV-VNRSQKDIDGKKDITAALAAE  275 (772)
T ss_dssp             HCTTCSSEEEEEECTTSSCTTCCSHHHHTTCSSCCSSCEEEC-CCCCCEESSSSEEHHHHHHHH
T ss_pred             HHhcCCCEEEEEeCcccCCcchhhHHHHHHHhhhhhccCCce-EEecccccccchhHHHHHHHH
Confidence            344578999999999997654433221110 00 01212467 889999999999999988764

>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=96.15  E-value=0.009  Score=45.38  Aligned_cols=28  Identities=14%  Similarity=0.061  Sum_probs=24.1

Q ss_pred             cceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          44 IHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        44 ~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .++ |..||+++.|++.+++.+++.++.-
T Consensus       256 ~Pv-~~gSA~~~~Gv~~LLd~i~~~lPsP  283 (691)
T 1dar_A          256 TPV-FLGSALKNKGVQLLLDAVVDYLPSP  283 (691)
T ss_dssp             EEE-EECBGGGTBSHHHHHHHHHHHSCCT
T ss_pred             eEE-EEeecccCcCHHHHHHHHHHhCCCh
Confidence            468 9999999999999999999887643

>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=95.70  E-value=0.024  Score=41.85  Aligned_cols=27  Identities=11%  Similarity=-0.045  Sum_probs=23.4

Q ss_pred             ceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          45 HYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        45 ~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      ++ |..||.++.||+.+++.+.+.++.-
T Consensus       253 Pv-~~gSA~~~~Gv~~LLd~i~~~~P~P  279 (529)
T 2h5e_A          253 PV-FFGTALGNFGVDHMLDGLVEWAPAP  279 (529)
T ss_dssp             EE-EECBTTTTBSHHHHHHHHHHHSCSS
T ss_pred             EE-EeeecccCCCHHHHHHHHHHhCCCC
Confidence            67 8899999999999999998887643

>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=95.28  E-value=0.036  Score=42.21  Aligned_cols=28  Identities=18%  Similarity=0.091  Sum_probs=24.1

Q ss_pred             cceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          44 IHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        44 ~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .++ |..||+++.||+.+++.+++.++.-
T Consensus       262 ~Pv-~~gSa~~~~Gv~~LLd~i~~~lPsP  289 (704)
T 2rdo_7          262 ILV-TCGSAFKNKGVQAMLDAVIDYLPSP  289 (704)
T ss_pred             eEE-EEeecccCccHHHHHHHHHHHCCCh
Confidence            467 8999999999999999999888643

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=94.92  E-value=0.042  Score=40.72  Aligned_cols=27  Identities=15%  Similarity=0.006  Sum_probs=23.3

Q ss_pred             cceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          44 IHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        44 ~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .++ |..||+++.||..|++.+++.++.
T Consensus       269 ~PV-~~gSA~~~~Gv~~LLd~iv~~~Ps  295 (548)
T 3vqt_A          269 TPV-FFGSAINNFGVREMLDMFVEFAPG  295 (548)
T ss_dssp             EEE-EECBGGGTBSHHHHHHHHHHHSCC
T ss_pred             cee-eecccccCcCHHHHHHHHHHhCCC
Confidence            357 888999999999999999888764

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=94.84  E-value=0.053  Score=41.23  Aligned_cols=28  Identities=11%  Similarity=0.044  Sum_probs=24.2

Q ss_pred             cceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          44 IHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        44 ~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .++ |..||.++.|++.+++.+.+.++.-
T Consensus       254 ~Pv-~~gSA~~~~Gv~~LLd~i~~~lPsP  281 (693)
T 2xex_A          254 YPV-LCGTAFKNKGVQLMLDAVIDYLPSP  281 (693)
T ss_dssp             EEE-EECBTTTTBSHHHHHHHHHHHSCCG
T ss_pred             eeE-EEeecccCcCHHHHHHHHHHHCCCc
Confidence            357 8999999999999999999888644

>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=94.53  E-value=0.0035  Score=44.65  Aligned_cols=48  Identities=19%  Similarity=0.102  Sum_probs=31.3

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHH
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAF   62 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf   62 (106)
                      .+|+++|+||+|+..  .............. +..+ +.+||+.+.++.+++
T Consensus       214 ~kP~i~v~NK~D~~~--~~~l~~l~~~~~~~-~~~v-v~iSA~~e~~l~~L~  261 (397)
T 1wxq_A          214 NKPMVIAANKADAAS--DEQIKRLVREEEKR-GYIV-IPTSAAAELTLRKAA  261 (397)
T ss_dssp             HSCEEEEEECGGGSC--HHHHHHHHHHHHHT-TCEE-EEECHHHHHHHHSCS
T ss_pred             CCCEEEEEeCccccc--hHHHHHHHHHHhhc-CCcE-EEEeccchhhHHHHH
Confidence            489999999999862  11111222222333 5678 999999998887653

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=94.30  E-value=0.035  Score=34.51  Aligned_cols=20  Identities=25%  Similarity=0.298  Sum_probs=16.3

Q ss_pred             CCCCeEEEEEecCCCCCCCC
Q psy5780           9 DSAHDSRVWSNKCDLESERE   28 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~   28 (106)
                      ..++|+++|+||+|+.+...
T Consensus       154 ~~~~p~ilv~nK~Dl~~~~~  173 (193)
T 2ged_A          154 ENGIDILIACNKSELFTARP  173 (193)
T ss_dssp             TTCCCEEEEEECTTSTTCCC
T ss_pred             ccCCCEEEEEEchHhcCCCC
Confidence            35899999999999976543

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=93.66  E-value=0.05  Score=40.96  Aligned_cols=27  Identities=15%  Similarity=0.261  Sum_probs=22.4

Q ss_pred             cceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          44 IHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        44 ~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .++ +..||+++.||+.+++.+.+.++.
T Consensus       213 ~Pv-~~gSa~~~~Gv~~LLd~i~~~~p~  239 (638)
T 3j25_A          213 FPL-YHGSAKSNIGIDNLIEVITNKFYS  239 (638)
T ss_dssp             CCC-CCCCSTTCCSHHHHHHHHHHSCCC
T ss_pred             ccc-cccccccCCCchhHhhhhhccccC
Confidence            467 888999999999999988876653

>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=92.93  E-value=0.025  Score=39.97  Aligned_cols=53  Identities=9%  Similarity=-0.094  Sum_probs=36.5

Q ss_pred             CCeEEEEEecCCC--CCC-CCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHH
Q psy5780          11 AHDSRVWSNKCDL--ESE-REVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCL   65 (106)
Q Consensus        11 ~ip~ilv~nK~Dl--~~~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l   65 (106)
                      ..|+++|+||.|.  .+. .....+....+++.. +..+ +.+||+...++.+++..-
T Consensus       201 ~KPvi~v~N~~e~d~~~~~~n~~~~~v~~~a~~~-g~~v-v~iSAk~E~el~eL~~~~  256 (368)
T 2dby_A          201 AKPVIYVANVAEEDLPDGRGNPQVEAVRRKALEE-GAEV-VVVSARLEAELAELSGEE  256 (368)
T ss_dssp             GSCEEEEEECCGGGTTTCTTCHHHHHHHHHHHHH-TCEE-EEECHHHHHHHHTSCHHH
T ss_pred             cCCeEEeccccHHhhcccchhhHHHHHHHHHHHc-CCeE-EEeechhHHHHHHhchHH
Confidence            4799999999984  221 122344556677777 7889 999999877776665443

>1jal_A YCHF protein; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; 2.40A {Haemophilus influenzae} SCOP: c.37.1.8 d.15.10.2

Probab=88.64  E-value=0.58  Score=32.96  Aligned_cols=43  Identities=9%  Similarity=-0.027  Sum_probs=29.2

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCC
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKD   54 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~   54 (106)
                      ...|+++|+|+.|..-...........++... +..+ +.+||+.
T Consensus       198 t~KPvi~v~N~~e~~~~~n~~~~~v~~~~~~~-~~~~-i~~sA~~  240 (363)
T 1jal_A          198 TLKPTMYIANVNEDGFENNPYLDRVREIAAKE-GAVV-VPVCAAI  240 (363)
T ss_dssp             TTSCEEEEEECCTTCSSSCHHHHHHHHHHHHT-TCEE-EEECHHH
T ss_pred             cCCcEEEEEecccccccccHHHHHHHHHHHHc-CCCE-EEechHH
Confidence            35899999999986421122234456667667 7788 9999764

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=87.66  E-value=1.1  Score=34.06  Aligned_cols=27  Identities=11%  Similarity=0.036  Sum_probs=22.5

Q ss_pred             cceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          44 IHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        44 ~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .+. +..||..+.|+..+++.+++.++.
T Consensus       265 ~pv-~~gsa~~~~gv~~lLd~i~~~lPs  291 (709)
T 4fn5_A          265 VPA-VCGSSFKNKGVPLVLDAVIDYLPA  291 (709)
T ss_dssp             EEE-EECBTTTTBTHHHHHHHHHHHSCC
T ss_pred             eee-eeeecccCCchHHHHHHHHhhCCC
Confidence            356 788999999999999988887764

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=87.19  E-value=0.45  Score=31.50  Aligned_cols=16  Identities=6%  Similarity=0.052  Sum_probs=13.5

Q ss_pred             CeEEEEEecCCCCCCC
Q psy5780          12 HDSRVWSNKCDLESER   27 (106)
Q Consensus        12 ip~ilv~nK~Dl~~~~   27 (106)
                      +|+++|+||+|+.+..
T Consensus       155 ~~iivV~nK~Dl~~~~  170 (270)
T 1h65_A          155 NKAIVALTHAQFSPPD  170 (270)
T ss_dssp             GGEEEEEECCSCCCGG
T ss_pred             cCEEEEEECcccCCcC
Confidence            6999999999997544

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=86.63  E-value=2.1  Score=30.21  Aligned_cols=51  Identities=18%  Similarity=0.081  Sum_probs=36.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      ...|.+++.||+|..     ..++...+.+.   ..+ +.+|+..+.|++.+...+.+.+
T Consensus       248 ~~~p~i~v~nKid~~-----~~eele~l~~~---~~~-~~is~~~e~gLd~Li~~~y~~L  298 (376)
T 4a9a_A          248 RYMPAIYVLNKIDSL-----SIEELELLYRI---PNA-VPISSGQDWNLDELLQVMWDRL  298 (376)
T ss_dssp             EEECEEEEEECGGGS-----CHHHHHHHTTS---TTE-EECCTTTCTTHHHHHHHHHHHH
T ss_pred             hccceEEEEeccccc-----CHHHHHHHhcc---cch-hhhhhhhcccchhHHHHHHHHc
Confidence            346899999999964     23443333332   356 8899999999999887776655

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=85.56  E-value=0.87  Score=30.00  Aligned_cols=18  Identities=6%  Similarity=0.100  Sum_probs=13.7

Q ss_pred             CeEEEEEecCCCCCCCCC
Q psy5780          12 HDSRVWSNKCDLESEREV   29 (106)
Q Consensus        12 ip~ilv~nK~Dl~~~~~~   29 (106)
                      .|+++|+||+|+.+.+..
T Consensus       152 ~~~ivv~nK~Dl~~~~~~  169 (262)
T 3def_A          152 CKTLLVLTHAQFSPPDEL  169 (262)
T ss_dssp             GGEEEEEECTTCCCSTTC
T ss_pred             cCEEEEEeCcccCCCCCc
Confidence            389999999999644333

---

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	106
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	2e-06
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	3e-06
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	3e-06
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	4e-06
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	5e-06
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	5e-06
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	6e-06
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	6e-06
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	9e-06
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	9e-06
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	1e-05
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	1e-05
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	2e-05
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	3e-05
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	4e-05
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	4e-05
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	4e-05
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	5e-05
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	8e-05
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	9e-05
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	9e-05
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	1e-04
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	1e-04
d2gjsa1	168	c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [Tax	1e-04
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	2e-04
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	2e-04
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	2e-04
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	2e-04
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	2e-04
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	3e-04
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	3e-04
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	3e-04
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	5e-04
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	5e-04
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	5e-04
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	9e-04
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	0.001
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	0.001
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	0.001
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	0.001
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	0.001
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	0.002
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	0.002
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	0.002
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	0.003

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

 Score = 41.6 bits (96), Expect = 2e-06
 Identities = 16/68 (23%), Positives = 27/68 (39%), Gaps = 1/68 (1%)

Query: 7   WPDSAHDSRVWSNKCDLESEREV-DFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCL 65
                    V++NK D+E      +   +  +         + +TSA   T ++EA   L
Sbjct: 102 EELRKAILVVFANKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWL 161

Query: 66  ANELKNRQ 73
              LK+RQ
Sbjct: 162 VETLKSRQ 169

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

 Score = 41.1 bits (95), Expect = 3e-06
 Identities = 7/53 (13%), Positives = 17/53 (32%), Gaps = 1/53 (1%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHY-VMETSAKDSTNVEEAFYCLANELK 70
           NK D++    V           + +  + +    A     + +    + + LK
Sbjct: 124 NKQDVKECMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRLK 176

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

 Score = 41.2 bits (95), Expect = 3e-06
 Identities = 11/58 (18%), Positives = 22/58 (37%), Gaps = 1/58 (1%)

Query: 16  VWSNKCDLESEREV-DFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR 72
           +++NK DL          EA E+         +   SA    ++      L +++ +R
Sbjct: 108 IFANKQDLPGALSCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISSR 165

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.0 bits (95), Expect = 4e-06
 Identities = 21/70 (30%), Positives = 32/70 (45%), Gaps = 2/70 (2%)

Query: 1   MYIFVGWPDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEE 60
           +     +        +  NK D   ER V   + E++ +    + + METSAK   NV+ 
Sbjct: 102 LTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAKEY-GLPF-METSAKTGLNVDL 159

Query: 61  AFYCLANELK 70
           AF  +A ELK
Sbjct: 160 AFTAIAKELK 169

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.8 bits (94), Expect = 5e-06
 Identities = 12/58 (20%), Positives = 23/58 (39%), Gaps = 4/58 (6%)

Query: 17  WSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS 74
             NK D++  +    +      + +       + SAK + N E+ F  LA +L    +
Sbjct: 113 CGNKVDIKDRKVKAKSIVFHRKKNLQ----YYDISAKSNYNFEKPFLWLARKLIGDPN 166

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]} Length = 182

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

 Score = 40.7 bits (94), Expect = 5e-06
 Identities = 10/58 (17%), Positives = 21/58 (36%), Gaps = 1/58 (1%)

Query: 17  WSNKCDLESEREVDFNEAEEMGEYVPEIHY-VMETSAKDSTNVEEAFYCLANELKNRQ 73
           ++NK D            E     + +  + ++ +SA     + E    L + +K  Q
Sbjct: 124 FANKQDQPGALSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIKEEQ 181

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

 Score = 40.7 bits (94), Expect = 6e-06
 Identities = 10/55 (18%), Positives = 21/55 (38%), Gaps = 1/55 (1%)

Query: 17  WSNKCDLESEREVDFNEAEEMGEYVPEIH-YVMETSAKDSTNVEEAFYCLANELK 70
           ++NK DL    +    + +     + + + YV  + A     + E    L +  K
Sbjct: 119 FANKQDLPDAMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNYK 173

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]} Length = 176

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

 Score = 40.7 bits (94), Expect = 6e-06
 Identities = 8/55 (14%), Positives = 19/55 (34%), Gaps = 1/55 (1%)

Query: 16  VWSNKCDLESEREVD-FNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
           +++NK DL +        E   +      +  +   SA     V++    +   +
Sbjct: 122 IFANKQDLLTAAPASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNV 176

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]} Length = 185

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.0 bits (92), Expect = 9e-06
 Identities = 8/67 (11%), Positives = 24/67 (35%), Gaps = 1/67 (1%)

Query: 2   YIFVGWPDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEA 61
           ++ +G      D      + +   E+ +   + +++ + +    Y +E SA     ++  
Sbjct: 116 FLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCY-VECSALTQKGLKTV 174

Query: 62  FYCLANE 68
           F      
Sbjct: 175 FDEAIIA 181

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]} Length = 183

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.0 bits (92), Expect = 9e-06
 Identities = 11/68 (16%), Positives = 23/68 (33%), Gaps = 1/68 (1%)

Query: 2   YIFVGWPDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEA 61
            I VG      D +    K   +    + + +   M + +  + Y +E SA     ++  
Sbjct: 112 IILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKY-LECSALTQRGLKTV 170

Query: 62  FYCLANEL 69
           F      +
Sbjct: 171 FDEAIRAV 178

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.9 bits (92), Expect = 1e-05
 Identities = 20/54 (37%), Positives = 27/54 (50%), Gaps = 2/54 (3%)

Query: 16  VWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
           +  NK D+  ER+V   EA+       +  Y  ETSAKD+TNV  AF      +
Sbjct: 120 ILGNKIDIS-ERQVSTEEAQAWCRDNGDYPY-FETSAKDATNVAAAFEEAVRRV 171

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.6 bits (91), Expect = 1e-05
 Identities = 15/66 (22%), Positives = 20/66 (30%), Gaps = 1/66 (1%)

Query: 1   MYIFVGWPDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEE 60
             I VG      +      +     +  V   E  +M   +    Y ME SAK    V E
Sbjct: 108 PIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGY-MECSAKTKDGVRE 166

Query: 61  AFYCLA 66
            F    
Sbjct: 167 VFEMAT 172

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.1 bits (90), Expect = 2e-05
 Identities = 22/52 (42%), Positives = 29/52 (55%), Gaps = 2/52 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK 70
           NK DLESEREV  +E   + E      + METSAK  T V+E F  +  ++ 
Sbjct: 116 NKVDLESEREVSSSEGRALAEEW-GCPF-METSAKSKTMVDELFAEIVRQMN 165

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.7 bits (89), Expect = 3e-05
 Identities = 24/59 (40%), Positives = 29/59 (49%), Gaps = 2/59 (3%)

Query: 16  VWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS 74
           +  NK DL   R V  +EA    E        +ETSA DSTNVEEAF  +  E+    S
Sbjct: 114 LVGNKSDLRHLRAVPTDEARAFAEKNNLSF--IETSALDSTNVEEAFKNILTEIYRIVS 170

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.1 bits (87), Expect = 4e-05
 Identities = 19/58 (32%), Positives = 34/58 (58%), Gaps = 2/58 (3%)

Query: 16  VWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ 73
           +  NK DL+ +R+V   E +++   + ++ Y ME SAK   NV++AF+ L   ++  Q
Sbjct: 115 LIGNKADLDHQRQVTQEEGQQLARQL-KVTY-MEASAKIRMNVDQAFHELVRVIRKFQ 170

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 38.2 bits (88), Expect = 4e-05
 Identities = 22/57 (38%), Positives = 34/57 (59%), Gaps = 2/57 (3%)

Query: 16  VWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR 72
           +  NKCD+  +R+V     E++      I + METSAK + NVE AF+ LA ++K +
Sbjct: 116 ILGNKCDVNDKRQVSKERGEKL-ALDYGIKF-METSAKANINVENAFFTLARDIKAK 170

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

 Score = 38.0 bits (87), Expect = 4e-05
 Identities = 11/25 (44%), Positives = 17/25 (68%)

Query: 48  METSAKDSTNVEEAFYCLANELKNR 72
           +ETSAK   NV++ F+ L  E++ R
Sbjct: 144 VETSAKTRANVDKVFFDLMREIRAR 168

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 38.1 bits (87), Expect = 5e-05
 Identities = 15/73 (20%), Positives = 24/73 (32%), Gaps = 1/73 (1%)

Query: 1   MYIFVGWPDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHY-VMETSAKDSTNVE 59
           +              +  NK D+  E        EE  +   E      ETSAK   NV 
Sbjct: 98  VKELHEQASKDIIIALVGNKIDMLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVN 157

Query: 60  EAFYCLANELKNR 72
           + F  +  ++  +
Sbjct: 158 DVFLGIGEKIPLK 170

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.3 bits (85), Expect = 8e-05
 Identities = 12/56 (21%), Positives = 21/56 (37%), Gaps = 1/56 (1%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS 74
           ++    S R V    A  +   +    Y  ET A    NV+  F  +A ++   + 
Sbjct: 116 DRISASSPRVVGDARARALCADMKRCSY-YETCATYGLNVDRVFQEVAQKVVTLRK 170

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.2 bits (85), Expect = 9e-05
 Identities = 25/59 (42%), Positives = 31/59 (52%), Gaps = 2/59 (3%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATL 77
           NK DLES R+V   E E        + + METSAK + NVEEAF   A E+  +    L
Sbjct: 116 NKSDLESRRDVKREEGEAF-AREHGLIF-METSAKTACNVEEAFINTAKEIYRKIQQGL 172

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 37.3 bits (85), Expect = 9e-05
 Identities = 18/71 (25%), Positives = 34/71 (47%), Gaps = 2/71 (2%)

Query: 1   MYIFVGWPDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEE 60
           +         +    +  NKCDL   REV   +A++  + +  I   +ETSAK++ N+ E
Sbjct: 99  VRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIF--VETSAKNAININE 156

Query: 61  AFYCLANELKN 71
            F  ++  + +
Sbjct: 157 LFIEISRRIPS 167

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.2 bits (85), Expect = 1e-04
 Identities = 20/54 (37%), Positives = 33/54 (61%), Gaps = 2/54 (3%)

Query: 16  VWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
           +  NK DLE++R+V + EA++  E    + + +E SAK   NVE+AF   A ++
Sbjct: 114 LIGNKADLEAQRDVTYEEAKQFAEEN-GLLF-LEASAKTGENVEDAFLEAAKKI 165

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.0 bits (84), Expect = 1e-04
 Identities = 23/58 (39%), Positives = 31/58 (53%), Gaps = 2/58 (3%)

Query: 16  VWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ 73
           +  NK DLES+R+V  +EA   G     + Y  E SAK   NV+EAF  L   ++  Q
Sbjct: 116 LVGNKADLESQRQVPRSEASAFGASH-HVAY-FEASAKLRLNVDEAFEQLVRAVRKYQ 171

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.0 bits (84), Expect = 1e-04
 Identities = 16/73 (21%), Positives = 29/73 (39%), Gaps = 2/73 (2%)

Query: 1   MYIFVGWPDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEE 60
           + +            +  NK DL   REV  +E         +  + +ETSA    NV+ 
Sbjct: 95  VQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVV-FDCKF-IETSAALHHNVQA 152

Query: 61  AFYCLANELKNRQ 73
            F  +  +++ R+
Sbjct: 153 LFEGVVRQIRLRR 165

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]} Length = 160

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

 Score = 36.6 bits (83), Expect = 2e-04
 Identities = 8/53 (15%), Positives = 16/53 (30%), Gaps = 2/53 (3%)

Query: 17  WSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
             +  +  +  E+                Y+  T A     + E    L+N+L
Sbjct: 110 KQDLPNAMNAAEITDKLGLH--SLRHRNWYIQATCATSGDGLYEGLDWLSNQL 160

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.8 bits (84), Expect = 2e-04
 Identities = 21/58 (36%), Positives = 30/58 (51%), Gaps = 2/58 (3%)

Query: 16  VWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ 73
           +  NK DL  +REV+  +A E+ +    I Y  ETSA    NVE+A   L + +  R 
Sbjct: 126 LIGNKADLPDQREVNERQARELADKY-GIPY-FETSAATGQNVEKAVETLLDLIMKRM 181

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 36.3 bits (83), Expect = 2e-04
 Identities = 12/40 (30%), Positives = 23/40 (57%), Gaps = 2/40 (5%)

Query: 35  EEMGEYVPEIHYV--METSAKDSTNVEEAFYCLANELKNR 72
            + GE + +   +  +E+SAK+  NV E F+ LA  ++ +
Sbjct: 126 ADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEK 165

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.5 bits (83), Expect = 2e-04
 Identities = 14/26 (53%), Positives = 16/26 (61%)

Query: 48  METSAKDSTNVEEAFYCLANELKNRQ 73
           METSAK + NV+E F  L N  K R 
Sbjct: 143 METSAKLNHNVKELFQELLNLEKRRT 168

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.2 bits (82), Expect = 2e-04
 Identities = 20/58 (34%), Positives = 33/58 (56%), Gaps = 3/58 (5%)

Query: 16  VWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDST-NVEEAFYCLANELKNR 72
           + +NK DL   R+V  ++ +EM      I Y +ETSAKD   NV++ F+ L   ++ +
Sbjct: 114 LVANKVDLMHLRKVTRDQGKEMATKY-NIPY-IETSAKDPPLNVDKTFHDLVRVIRQQ 169

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]} Length = 191

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.1 bits (82), Expect = 3e-04
 Identities = 11/69 (15%), Positives = 21/69 (30%), Gaps = 1/69 (1%)

Query: 5   VGWPDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYC 64
           VG      D      K     ++ +    AE++   +  + Y +E SA     ++  F  
Sbjct: 113 VGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKY-VECSALTQKGLKNVFDE 171

Query: 65  LANELKNRQ 73
                    
Sbjct: 172 AILAALEPP 180

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

 Score = 35.8 bits (81), Expect = 3e-04
 Identities = 10/56 (17%), Positives = 17/56 (30%), Gaps = 1/56 (1%)

Query: 16  VWSNKCDLESEREVDFNEAEEMGEYVPEIHY-VMETSAKDSTNVEEAFYCLANELK 70
           V  NK DL    +      +     + +        S K+  N++     L    K
Sbjct: 109 VLGNKRDLPGALDEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQHSK 164

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.7 bits (81), Expect = 3e-04
 Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 2/54 (3%)

Query: 16  VWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL 69
           +  NK DL  +R+V   E E   + +  + + +ETSAK   NV++ F  +A  L
Sbjct: 110 LVGNKTDLADKRQVSIEEGERKAKEL-NVMF-IETSAKAGYNVKQLFRRVAAAL 161

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.0 bits (79), Expect = 5e-04
 Identities = 10/23 (43%), Positives = 14/23 (60%)

Query: 48  METSAKDSTNVEEAFYCLANELK 70
           +E+SAK   NV E FY L  ++ 
Sbjct: 144 LESSAKSKINVNEIFYDLVRQIN 166

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.3 bits (80), Expect = 5e-04
 Identities = 12/26 (46%), Positives = 16/26 (61%)

Query: 47  VMETSAKDSTNVEEAFYCLANELKNR 72
            +ETSA    NVEEAF   A ++ N+
Sbjct: 144 FLETSALTGENVEEAFVQCARKILNK 169

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]} Length = 172

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.1 bits (79), Expect = 5e-04
 Identities = 9/26 (34%), Positives = 16/26 (61%)

Query: 48  METSAKDSTNVEEAFYCLANELKNRQ 73
           +ETSA    NV+E F  +  +++ R+
Sbjct: 146 IETSAAVQHNVKELFEGIVRQVRLRR 171

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.4 bits (78), Expect = 9e-04
 Identities = 17/74 (22%), Positives = 27/74 (36%), Gaps = 3/74 (4%)

Query: 1   MYIFVGWPDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEE 60
             +      +   + +  NK D +  REVD NE  +           +E SAK    V+ 
Sbjct: 103 NELETYCTRNDIVNMLVGNKID-KENREVDRNEGLKFARK--HSMLFIEASAKTCDGVQC 159

Query: 61  AFYCLANELKNRQS 74
           AF  L  ++     
Sbjct: 160 AFEELVEKIIQTPG 173

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 34.5 bits (78), Expect = 0.001
 Identities = 9/25 (36%), Positives = 15/25 (60%)

Query: 48  METSAKDSTNVEEAFYCLANELKNR 72
            E SAKD+ NV++ F  L + +  +
Sbjct: 145 FEASAKDNINVKQTFERLVDVICEK 169

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 184

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 34.3 bits (77), Expect = 0.001
 Identities = 11/30 (36%), Positives = 18/30 (60%)

Query: 45  HYVMETSAKDSTNVEEAFYCLANELKNRQS 74
               ETSAK++ NVE+AF  +A     +++
Sbjct: 143 IPYFETSAKEAINVEQAFQTIARNALKQET 172

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.2 bits (77), Expect = 0.001
 Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 3/55 (5%)

Query: 16  VWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK 70
           +  NKCDL +         +    Y   I Y +ETSAK    VE+AFY L  E++
Sbjct: 113 LVGNKCDLAARTVESRQAQDLARSY--GIPY-IETSAKTRQGVEDAFYTLVREIR 164

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.0 bits (77), Expect = 0.001
 Identities = 14/24 (58%), Positives = 17/24 (70%)

Query: 46  YVMETSAKDSTNVEEAFYCLANEL 69
           Y +ETSAK+S NVE+ F  LA  L
Sbjct: 143 YYLETSAKESDNVEKLFLDLACRL 166

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.8 bits (76), Expect = 0.001
 Identities = 13/23 (56%), Positives = 15/23 (65%)

Query: 48  METSAKDSTNVEEAFYCLANELK 70
           METSAK S NV E F  +A +L 
Sbjct: 146 METSAKTSMNVNEIFMAIAKKLP 168

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 33.9 bits (76), Expect = 0.002
 Identities = 15/59 (25%), Positives = 28/59 (47%), Gaps = 1/59 (1%)

Query: 16  VWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANE-LKNRQ 73
           +  NK D E  +++   ++ +          +  TSAK++ NV+ AF  +A   L+  Q
Sbjct: 117 ILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQQNQ 175

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]} Length = 179

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 33.9 bits (76), Expect = 0.002
 Identities = 13/73 (17%), Positives = 25/73 (34%), Gaps = 2/73 (2%)

Query: 1   MYIFVGWPDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTN-VE 59
             + VG             +     +  V +++   M + +    Y +E SA  S N V 
Sbjct: 108 KMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATY-IECSALQSENSVR 166

Query: 60  EAFYCLANELKNR 72
           + F+       N+
Sbjct: 167 DIFHVATLACVNK 179

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 194

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 33.7 bits (76), Expect = 0.002
 Identities = 18/77 (23%), Positives = 27/77 (35%)

Query: 19  NKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQSATLC 78
                + + +                   +ETSA DSTNVE+AF  +A ++K   S    
Sbjct: 117 VGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNL 176

Query: 79  NEPINTDNTNSPITLSN 95
           NE          + L  
Sbjct: 177 NETTQKKEDKGNVNLKG 193

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.0 bits (74), Expect = 0.003
 Identities = 23/69 (33%), Positives = 29/69 (42%), Gaps = 2/69 (2%)

Query: 1   MYIFVGWPDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEE 60
           +        +     +  NK DLE ER V   EAE   E V   HY   TSAK +  +EE
Sbjct: 98  VKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHY--HTSAKQNKGIEE 155

Query: 61  AFYCLANEL 69
            F  L   +
Sbjct: 156 LFLDLCKRM 164

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	106
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.53
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	99.52
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.52
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.52
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	99.51
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	99.5
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.5
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	99.49
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.48
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	99.48
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.48
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.47
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.47
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.47
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.46
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.45
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.45
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.45
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	99.45
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.44
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.42
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.42
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.41
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.4
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.4
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.39
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.38
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.37
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.37
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.37
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.32
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.31
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.3
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.29
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.25
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.24
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.23
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.17
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.11
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.11
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.08
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.05
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.01
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	98.97
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	98.95
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	98.94
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	98.92
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	98.92
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	98.9
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	98.9
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	98.84
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	98.74
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	98.73
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	98.62
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	98.62
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	98.61
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	98.61
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	98.57
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	98.5
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	98.48
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	98.41
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	98.33
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	98.25
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	98.1
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	98.04
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	97.97
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	97.96
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	97.89
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	97.88
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	97.83
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	97.56
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	97.41
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	97.27
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	97.23
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	97.18
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	97.0
d2fh5b1	207	Signal recognition particle receptor beta-subunit	96.71
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	96.57
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	95.79
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	94.6
d1nrjb_	209	Signal recognition particle receptor beta-subunit	93.09
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	91.29
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	90.98
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	90.26

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.53  E-value=1.2e-14  Score=91.14  Aligned_cols=62  Identities=27%  Similarity=0.326  Sum_probs=57.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      +++|+++||||+||.+.+.++.+++..++..+ +++| +++||++|.||+++|..|++.+..++
T Consensus       110 ~~~piilvgnK~Dl~~~~~v~~~~~~~~a~~~-~~~~-~e~Sak~g~~i~~~f~~l~~~i~~rr  171 (172)
T d2g3ya1         110 EDIPIILVGNKSDLVRCREVSVSEGRACAVVF-DCKF-IETSAAVQHNVKELFEGIVRQVRLRR  171 (172)
T ss_dssp             TTSCEEEEEECTTCGGGCCSCHHHHHHHHHHH-TCEE-EECBTTTTBSHHHHHHHHHHHHHHHC
T ss_pred             CCceEEEEeccccccccccccHHHHHHHHHHc-CCeE-EEEeCCCCcCHHHHHHHHHHHHHHcc
Confidence            68999999999999887788888899999999 8999 99999999999999999999987654

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.52  E-value=1.4e-14  Score=90.47  Aligned_cols=64  Identities=25%  Similarity=0.320  Sum_probs=57.0

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..++|+++||||+||.+.+.++..++..+++.+ +++| +++||++|.||+++|..|++.+..++.
T Consensus       103 ~~~~piilvgnK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~e~Sak~~~~v~~~f~~l~~~i~~~~~  166 (168)
T d2gjsa1         103 TDDVPIILVGNKSDLVRSREVSVDEGRACAVVF-DCKF-IETSAALHHNVQALFEGVVRQIRLRRD  166 (168)
T ss_dssp             --CCCEEEEEECTTCGGGCCSCHHHHHHHHHHH-TSEE-EECBTTTTBSHHHHHHHHHHHHHHHHH
T ss_pred             cccceEEEeecccchhhhcchhHHHHHHHHHhc-CCEE-EEEeCCCCcCHHHHHHHHHHHHHHHhh
Confidence            467899999999999887788888999999999 8999 999999999999999999998877654

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.52  E-value=2.1e-14  Score=90.04  Aligned_cols=65  Identities=35%  Similarity=0.428  Sum_probs=58.7

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ...++|++|||||+|+.+.+.+..+++..+++.+ +++| ++|||++|.||+++|..|++.+.++++
T Consensus       108 ~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~e~Sak~g~gv~e~f~~l~~~i~k~~~  172 (173)
T d2fn4a1         108 DRDDFPVVLVGNKADLESQRQVPRSEASAFGASH-HVAY-FEASAKLRLNVDEAFEQLVRAVRKYQE  172 (173)
T ss_dssp             TSSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHT-TCEE-EECBTTTTBSHHHHHHHHHHHHHHHTT
T ss_pred             ccCCCceEEEEEeechhhccccchhhhhHHHHhc-CCEE-EEEeCCCCcCHHHHHHHHHHHHHHHhc
Confidence            3468999999999999877778888899999999 8999 999999999999999999999987754

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.52  E-value=1.9e-14  Score=89.81  Aligned_cols=63  Identities=29%  Similarity=0.426  Sum_probs=57.2

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCC-CHHHHHHHHHHHHHHhh
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDST-NVEEAFYCLANELKNRQ   73 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~-~v~~lf~~l~~~i~~~~   73 (106)
                      .+++|+++||||+||.+.+.++.+++..+++.+ +++| +++||++|. ||+++|..|++.+.+++
T Consensus       104 ~~~~piilvgnK~Dl~~~r~V~~~e~~~~a~~~-~~~~-~e~Saktg~gnV~e~F~~l~~~i~~~r  167 (168)
T d2atva1         104 PKNVTLILVGNKADLDHSRQVSTEEGEKLATEL-ACAF-YECSACTGEGNITEIFYELCREVRRRR  167 (168)
T ss_dssp             TSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHH-TSEE-EECCTTTCTTCHHHHHHHHHHHHHHHH
T ss_pred             ccCcceeeeccchhhhhhccCcHHHHHHHHHHh-CCeE-EEEccccCCcCHHHHHHHHHHHHHHhc
Confidence            468999999999999877788999999999999 8999 999999998 59999999999987763

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=99.51  E-value=1.6e-14  Score=90.20  Aligned_cols=62  Identities=34%  Similarity=0.512  Sum_probs=56.5

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      ..+++|+++||||+|+.+.+.++.+++..+++.+ ++.| +++||++|.||+++|.+|++.+..
T Consensus       106 ~~~~~piiivgnK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~e~Sak~g~gv~e~f~~l~~~i~~  167 (168)
T d1u8za_         106 EDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQW-NVNY-VETSAKTRANVDKVFFDLMREIRA  167 (168)
T ss_dssp             CCTTSCEEEEEECGGGGGGCCSCHHHHHHHHHHH-TCEE-EECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             CCCCCcEEEEeccccccccccccHHHHHHHHHHc-CCeE-EEEcCCCCcCHHHHHHHHHHHHHC
Confidence            3578999999999999887888999999999999 8999 999999999999999999988754

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.50  E-value=1.1e-14  Score=90.49  Aligned_cols=60  Identities=27%  Similarity=0.360  Sum_probs=55.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      +++|++|||||+|+.+.+.+..+++..+++.+ +++| +++||++|.||+++|..|++.+.+
T Consensus       105 ~~~~iilVgnK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~e~Sak~g~~v~e~f~~l~~~~lq  164 (164)
T d1z2aa1         105 GDIPTALVQNKIDLLDDSCIKNEEAEGLAKRL-KLRF-YRTSVKEDLNVSEVFKYLAEKHLQ  164 (164)
T ss_dssp             CSCCEEEEEECGGGGGGCSSCHHHHHHHHHHH-TCEE-EECBTTTTBSSHHHHHHHHHHHHC
T ss_pred             CCceEEEeeccCCcccceeeeehhhHHHHHHc-CCEE-EEeccCCCcCHHHHHHHHHHHHhC
Confidence            57999999999999887888888899999999 8899 999999999999999999998763

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.50  E-value=6.1e-14  Score=87.56  Aligned_cols=64  Identities=30%  Similarity=0.432  Sum_probs=57.8

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      ...++|+||||||+|+...+.+..+++..+++.+ +++| +++||++|.||+++|..|++.+.+++
T Consensus       107 ~~~~~p~ilvgnK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~e~Sak~~~~i~e~f~~l~~~i~k~~  170 (171)
T d2erya1         107 DRDEFPMILIGNKADLDHQRQVTQEEGQQLARQL-KVTY-MEASAKIRMNVDQAFHELVRVIRKFQ  170 (171)
T ss_dssp             TSSCCSEEEEEECTTCTTSCSSCHHHHHHHHHHT-TCEE-EECBTTTTBSHHHHHHHHHHHHHHHT
T ss_pred             ccCCCCEEEEEeccchhhhccchHHHHHHHHHHc-CCEE-EEEcCCCCcCHHHHHHHHHHHHHHhh
Confidence            3467899999999999888888999999999999 8999 99999999999999999999987654

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.49  E-value=7.3e-14  Score=87.25  Aligned_cols=63  Identities=32%  Similarity=0.425  Sum_probs=56.8

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCC-CHHHHHHHHHHHHHHh
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDST-NVEEAFYCLANELKNR   72 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~-~v~~lf~~l~~~i~~~   72 (106)
                      ...++|+++||||+|+...+.++.+++..+++.+ +++| +++||+++. ||+++|..|++.+.++
T Consensus       106 ~~~~~p~ilvgnK~Dl~~~~~v~~e~~~~~~~~~-~~~~-~e~Sak~~~~nV~~~F~~l~~~i~~~  169 (169)
T d1x1ra1         106 DRESFPMILVANKVDLMHLRKVTRDQGKEMATKY-NIPY-IETSAKDPPLNVDKTFHDLVRVIRQQ  169 (169)
T ss_dssp             TSSCCCEEEEEECTTCSTTCCSCHHHHHHHHHHH-TCCE-EEEBCSSSCBSHHHHHHHHHHHHHHC
T ss_pred             cccCccEEEEecccchhhhceeehhhHHHHHHHc-CCEE-EEEcCCCCCcCHHHHHHHHHHHHHhC
Confidence            3467999999999999988889999999999999 8999 999999986 9999999999988763

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.48  E-value=9.7e-15  Score=91.13  Aligned_cols=61  Identities=38%  Similarity=0.379  Sum_probs=53.9

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      ..++|++|||||+|+...+.+..+++..+++.+ +++| +++||++|.||+++|..|++.+.+
T Consensus       106 ~~~~piilVgnK~Dl~~~~~v~~~e~~~~~~~~-~~~~-~e~Sak~~~~v~e~f~~l~~~~~~  166 (171)
T d2erxa1         106 VESIPIMLVGNKCDESPSREVQSSEAEALARTW-KCAF-METSAKLNHNVKELFQELLNLEKR  166 (171)
T ss_dssp             --CCCEEEEEECGGGGGGCCSCHHHHHHHHHHH-TCEE-EECBTTTTBSHHHHHHHHHHTCCS
T ss_pred             CCCCcEEEEeecccccccccccHHHHHHHHHHc-CCeE-EEEcCCCCcCHHHHHHHHHHHHHH
Confidence            367899999999999877788888999999999 8999 999999999999999999876543

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.48  E-value=2.2e-14  Score=89.22  Aligned_cols=62  Identities=23%  Similarity=0.314  Sum_probs=56.2

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      ..+++|++|||||+|+...+.++.+++..+++.+ +..| +++||++|.||+++|..|++.+.+
T Consensus       106 ~~~~~piilvgnK~Dl~~~r~v~~~~~~~~a~~~-~~~~-~e~Sak~~~~v~~~f~~li~~~~K  167 (167)
T d1xtqa1         106 GKVQIPIMLVGNKKDLHMERVISYEEGKALAESW-NAAF-LESSAKENQTAVDVFRRIILEAEK  167 (167)
T ss_dssp             CSSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHH-TCEE-EECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             cccccceeeeccccccccccchhHHHHHHHHHHc-CCEE-EEEecCCCCCHHHHHHHHHHHhcC
Confidence            4568999999999999877788999999999999 8999 999999999999999999988753

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.48  E-value=7.9e-14  Score=87.25  Aligned_cols=65  Identities=38%  Similarity=0.434  Sum_probs=59.1

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ...++|++|||||+|+...+.+..+++..+++.+ +.+| +++||++|.||+++|.++++.+.++.+
T Consensus       105 ~~~~~piilv~nK~D~~~~~~~~~~~~~~~a~~~-~~~~-~e~Sa~tg~~V~e~f~~i~~~i~~~~~  169 (173)
T d2a5ja1         105 SSSNMVIMLIGNKSDLESRRDVKREEGEAFAREH-GLIF-METSAKTACNVEEAFINTAKEIYRKIQ  169 (173)
T ss_dssp             SCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHH-TCEE-EEECTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCeEEEEecCCchhhhhhhHHHHHHHHHHHc-CCEE-EEecCCCCCCHHHHHHHHHHHHHHHHH
Confidence            4578999999999999877778888899999999 8999 999999999999999999999988766

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.47  E-value=2.8e-14  Score=88.42  Aligned_cols=60  Identities=32%  Similarity=0.393  Sum_probs=55.0

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      .+++|++|||||+|+.+.+.+..+++..+++.+ ++.| +++||++|.||+++|.+|++.++
T Consensus       103 ~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~e~SAk~g~~v~e~f~~i~~~l~  162 (164)
T d1yzqa1         103 GSDVIIMLVGNKTDLADKRQVSIEEGERKAKEL-NVMF-IETSAKAGYNVKQLFRRVAAALP  162 (164)
T ss_dssp             TTSSEEEEEEECTTCGGGCCSCHHHHHHHHHHT-TCEE-EECCTTTCTTHHHHHHHHHHHSC
T ss_pred             CCCceEEEEecccchhhhhhhhHHHHHHHHHHc-CCEE-EEecCCCCcCHHHHHHHHHHhhC
Confidence            468999999999999877788888899999999 8999 99999999999999999998875

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.47  E-value=1e-13  Score=86.60  Aligned_cols=64  Identities=27%  Similarity=0.306  Sum_probs=54.7

Q ss_pred             CCCCeEEEEEecCCCCCCC-CCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780           9 DSAHDSRVWSNKCDLESER-EVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      ..++|+++||||+|+.+.+ .++.+++..+++.++..+| +++||++|.||+++|.+|++.+.++.
T Consensus       110 ~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~-~e~SA~~g~gv~e~f~~l~~~~l~~~  174 (175)
T d1ky3a_         110 PETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPL-FLTSAKNAINVDTAFEEIARSALQQN  174 (175)
T ss_dssp             TTTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCE-EEEBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             cccCcEEEEecccchhhhhcchhHHHHHHHHHHcCCCeE-EEEeCCCCcCHHHHHHHHHHHHHhcc
Confidence            3589999999999997543 4677788888888745789 99999999999999999999888764

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.47  E-value=3.9e-14  Score=88.16  Aligned_cols=61  Identities=28%  Similarity=0.424  Sum_probs=55.6

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      ..++.|+++||||+|+.+.+.+..+++..+++.+ ++.| +++||++|.||+++|.+|+++++
T Consensus       106 ~~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~e~SAk~~~nV~e~f~~l~~~i~  166 (167)
T d1z0ja1         106 GPPSIVVAIAGNKCDLTDVREVMERDAKDYADSI-HAIF-VETSAKNAININELFIEISRRIP  166 (167)
T ss_dssp             SCTTSEEEEEEECTTCGGGCCSCHHHHHHHHHHT-TCEE-EECBTTTTBSHHHHHHHHHHHCC
T ss_pred             cCCcceEEEecccchhccccchhHHHHHHHHHHc-CCEE-EEEecCCCCCHHHHHHHHHHhCC
Confidence            4578999999999999877788888999999999 8999 99999999999999999998863

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.46  E-value=3.1e-14  Score=88.89  Aligned_cols=61  Identities=38%  Similarity=0.502  Sum_probs=55.7

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      ..+++|++|||||+|+.+.+.++.+.+..+++.+ +++| +++||++|.||+++|..|++.+.
T Consensus       108 ~~~~~~iilvgnK~Dl~~~~~v~~e~~~~~~~~~-~~~~-~e~SAk~g~~V~e~f~~l~~~i~  168 (170)
T d1r2qa_         108 ASPNIVIALSGNKADLANKRAVDFQEAQSYADDN-SLLF-METSAKTSMNVNEIFMAIAKKLP  168 (170)
T ss_dssp             SCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHT-TCEE-EECCTTTCTTHHHHHHHHHHTSC
T ss_pred             cCCCceEEeecccccccccccccHHHHHHHHHhc-CCEE-EEeeCCCCCCHHHHHHHHHHHHh
Confidence            4578999999999999888889999999999999 8999 99999999999999999988764

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.45  E-value=3.9e-14  Score=88.10  Aligned_cols=60  Identities=37%  Similarity=0.401  Sum_probs=54.4

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      .+++|++|||||+|+.+.+.+..+++..+++.+ +++| +++||++|.||+++|..+++++.
T Consensus       106 ~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~e~Sak~g~~i~e~f~~i~~~i~  165 (167)
T d1kaoa_         106 YEKVPVILVGNKVDLESEREVSSSEGRALAEEW-GCPF-METSAKSKTMVDELFAEIVRQMN  165 (167)
T ss_dssp             TSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHH-TSCE-EEECTTCHHHHHHHHHHHHHHHH
T ss_pred             CCCCCEEEEEEccchhhcccchHHHHHHHHHHc-CCeE-EEECCCCCcCHHHHHHHHHHHHc
Confidence            468999999999999877778888889999999 8999 99999999999999999998764

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.45  E-value=1e-13  Score=86.25  Aligned_cols=61  Identities=31%  Similarity=0.465  Sum_probs=54.1

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      .+++|++|||||+|+.....+..+++..+++.+.+..| +++||++|.||+++|..|++.+.
T Consensus       106 ~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~e~Sak~g~gv~e~F~~l~~~i~  166 (167)
T d1c1ya_         106 TEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAF-LESSAKSKINVNEIFYDLVRQIN  166 (167)
T ss_dssp             CSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEE-EECBTTTTBSHHHHHHHHHHHHT
T ss_pred             CCCCeEEEEEEecCcccccccchhHHHHHHHHhCCCEE-EEEcCCCCcCHHHHHHHHHHHhc
Confidence            46899999999999988778888888888877547899 99999999999999999998774

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.45  E-value=1.4e-13  Score=86.78  Aligned_cols=65  Identities=34%  Similarity=0.384  Sum_probs=58.9

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ....+|++|||||.|+.+.+.+..+++..+++.+ ++++ +++||++|.||+++|.+|++.+.++++
T Consensus       118 ~~~~~~iilv~nK~Dl~~~~~v~~~e~~~~~~~~-~~~~-~e~Sak~~~~i~e~f~~l~~~i~~k~~  182 (186)
T d2f7sa1         118 YCENPDIVLIGNKADLPDQREVNERQARELADKY-GIPY-FETSAATGQNVEKAVETLLDLIMKRME  182 (186)
T ss_dssp             TTTCCEEEEEEECTTCGGGCCSCHHHHHHHHHHT-TCCE-EEEBTTTTBTHHHHHHHHHHHHHHHHH
T ss_pred             cCCCceEEEEeeeccchhhhcchHHHHHHHHHHc-CCEE-EEEeCCCCCCHHHHHHHHHHHHHHHHH
Confidence            3467899999999999888889999999999999 8999 999999999999999999999987765

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.45  E-value=7.1e-14  Score=86.96  Aligned_cols=60  Identities=35%  Similarity=0.388  Sum_probs=55.4

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      ...|++|||||+|+...+.++.+++..+++.+ +.+| +++||++|.||+++|.+|++.+.+
T Consensus       107 ~~~~~ilvgnK~Dl~~~~~v~~~e~~~~a~~~-~~~~-~e~Sak~~~~v~e~F~~l~~~i~~  166 (167)
T d1z08a1         107 NEICLCIVGNKIDLEKERHVSIQEAESYAESV-GAKH-YHTSAKQNKGIEELFLDLCKRMIE  166 (167)
T ss_dssp             GGSEEEEEEECGGGGGGCCSCHHHHHHHHHHT-TCEE-EEEBTTTTBSHHHHHHHHHHHHHC
T ss_pred             cccceeeeccccccccccccchHHHHHHHHHc-CCeE-EEEecCCCcCHHHHHHHHHHHHhh
Confidence            56899999999999888889999999999999 8999 999999999999999999998864

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.44  E-value=1.6e-13  Score=85.56  Aligned_cols=63  Identities=40%  Similarity=0.462  Sum_probs=56.4

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      ....+|++|||||+|+.+...+..+++..+++.+ +.++ +++||++|.||+++|.+|++.+..+
T Consensus       107 ~~~~~~~ilvgnK~D~~~~~~v~~~~~~~~~~~~-~~~~-~~~SAktg~gV~e~f~~l~~~l~~~  169 (171)
T d2ew1a1         107 ASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQ-DMYY-LETSAKESDNVEKLFLDLACRLISE  169 (171)
T ss_dssp             SCTTCEEEEEEECGGGGGGCSSCHHHHHHHHHHH-TCCE-EECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             ccccccEEEEEeecccccccchhhhHHHHHHHhC-CCEE-EEEccCCCCCHHHHHHHHHHHHHHh
Confidence            3467999999999999877788888899999998 8899 9999999999999999999888765

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.42  E-value=5e-13  Score=83.51  Aligned_cols=60  Identities=32%  Similarity=0.345  Sum_probs=52.5

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      ..++|++|||||+|+.+ +.+..+++..+++.....+| +++||++|.||+++|++|++.+.
T Consensus       113 ~~~~piilVgnK~Dl~~-~~v~~~~~~~~~~~~~~~~~-~e~Sak~~~gI~e~f~~l~~~il  172 (174)
T d1wmsa_         113 PESFPFVILGNKIDISE-RQVSTEEAQAWCRDNGDYPY-FETSAKDATNVAAAFEEAVRRVL  172 (174)
T ss_dssp             TTTSCEEEEEECTTCSS-CSSCHHHHHHHHHHTTCCCE-EECCTTTCTTHHHHHHHHHHHHH
T ss_pred             CCCceEEEeccccchhh-ccCcHHHHHHHHHHcCCCeE-EEEcCCCCcCHHHHHHHHHHHHh
Confidence            35799999999999964 56888889999887636899 99999999999999999998875

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.42  E-value=3.5e-13  Score=83.63  Aligned_cols=60  Identities=37%  Similarity=0.595  Sum_probs=53.4

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .+++|+++||||+|+.. +.+..+++..+++.+ +++| +++||++|.||+++|..|++.+.+
T Consensus       106 ~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~-~~~~-~e~Sak~g~gi~e~f~~i~~~i~~  165 (166)
T d1ctqa_         106 SDDVPMVLVGNKCDLAA-RTVESRQAQDLARSY-GIPY-IETSAKTRQGVEDAFYTLVREIRQ  165 (166)
T ss_dssp             CSSCCEEEEEECTTCSC-CCSCHHHHHHHHHHH-TCCE-EECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             CCCCeEEEEeccccccc-ccccHHHHHHHHHHh-CCeE-EEEcCCCCcCHHHHHHHHHHHHHh
Confidence            46799999999999964 456788889999999 8899 999999999999999999998865

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.41  E-value=4.2e-13  Score=83.78  Aligned_cols=65  Identities=35%  Similarity=0.428  Sum_probs=58.6

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..+++|+++|+||+|+.....+....+..++..+ +.++ +++||++|.||+++|.++++.+.++..
T Consensus       107 ~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~-~e~Sak~~~gi~e~f~~l~~~i~~~~~  171 (174)
T d2bmea1         107 ASQNIVIILCGNKKDLDADREVTFLEASRFAQEN-ELMF-LETSALTGENVEEAFVQCARKILNKIE  171 (174)
T ss_dssp             SCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHT-TCEE-EECCTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             cCCceEEEEEEecccccchhchhhhHHHHHHHhC-CCEE-EEeeCCCCcCHHHHHHHHHHHHHHHHh
Confidence            3468999999999999877778888888899888 8999 999999999999999999999988766

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.40  E-value=5.5e-13  Score=84.59  Aligned_cols=62  Identities=15%  Similarity=0.171  Sum_probs=52.0

Q ss_pred             CCCCeEEEEEecCCCCC------------CCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLES------------EREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .+++|+++||||+||.+            ...+..+++..++..+++..| +|+||++|.||+++|+.+++.+.+
T Consensus       105 ~~~~~i~lvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~-~e~SAk~~~~V~e~f~~l~~~~~~  178 (191)
T d2ngra_         105 CPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKY-VECSALTQKGLKNVFDEAILAALE  178 (191)
T ss_dssp             CTTCCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSCE-EECCTTTCTTHHHHHHHHHHHHTS
T ss_pred             CCCCceEEEeccccccccchhhhhhhhcccccccHHHHHHHHHHcCCCeE-EEEeCCCCcCHHHHHHHHHHHHhc
Confidence            36899999999999853            235788888899888646799 999999999999999999877643

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.40  E-value=3.8e-13  Score=83.79  Aligned_cols=63  Identities=27%  Similarity=0.446  Sum_probs=56.6

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      ...+.|+++|+||.|+.+.+.+..+++..+++.+ ++++ +++||++|.||+++|++|++.+.++
T Consensus       107 ~~~~~~iivv~nK~D~~~~~~v~~~~~~~~~~~~-~~~~-~e~Sak~g~gv~e~f~~l~~~i~ek  169 (169)
T d3raba_         107 SWDNAQVLLVGNKCDMEDERVVSSERGRQLADHL-GFEF-FEASAKDNINVKQTFERLVDVICEK  169 (169)
T ss_dssp             CCSCCEEEEEEECTTCGGGCCSCHHHHHHHHHHH-TCEE-EECBTTTTBSHHHHHHHHHHHHHTC
T ss_pred             cCCcceEEEEEeecccccccccchhhhHHHHHHc-CCEE-EEecCCCCcCHHHHHHHHHHHHhhC
Confidence            4468999999999999887788888889999999 8999 9999999999999999999988653

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.39  E-value=7.1e-13  Score=82.22  Aligned_cols=60  Identities=33%  Similarity=0.505  Sum_probs=54.3

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .....|+++||||.|+.....+..+++..+++.+ +.++ +++||++|.||+++|..|++.+
T Consensus       106 ~~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~e~Saktg~~v~e~f~~i~~~i  165 (166)
T d1z0fa1         106 TNPNTVIILIGNKADLEAQRDVTYEEAKQFAEEN-GLLF-LEASAKTGENVEDAFLEAAKKI  165 (166)
T ss_dssp             SCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHT-TCEE-EECCTTTCTTHHHHHHHHHHHH
T ss_pred             ccccceEEEEcccccchhhcccHHHHHHHHHHHc-CCEE-EEEeCCCCCCHHHHHHHHHHHh
Confidence            4467899999999999877778888899999999 8899 9999999999999999999876

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.38  E-value=8.6e-13  Score=82.63  Aligned_cols=61  Identities=26%  Similarity=0.298  Sum_probs=52.1

Q ss_pred             CCCeEEEEEecCCCCCC------------CCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESE------------REVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      +++|++|||||+|+.+.            +.+..+++..+++.++...| +||||++|.||+++|+.+++.+++
T Consensus       105 ~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~-~E~SAkt~~gi~e~F~~i~~~~l~  177 (177)
T d1kmqa_         105 PNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGY-MECSAKTKDGVREVFEMATRAALQ  177 (177)
T ss_dssp             TTSCEEEEEECGGGTTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEE-EECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             CCCceEEeeecccccchhhHHHHHHHhhcccccHHHHHHHHHHcCCcEE-EEecCCCCcCHHHHHHHHHHHHhC
Confidence            68999999999999642            34778888899988834689 999999999999999999988763

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.37  E-value=1.4e-12  Score=82.37  Aligned_cols=61  Identities=13%  Similarity=0.174  Sum_probs=52.4

Q ss_pred             CCCCeEEEEEecCCCCC------------CCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLES------------EREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      .+++|+++||||+||.+            .+.++.+++..+++.++...| +||||++|.||+++|+.+++.++
T Consensus       111 ~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~~~~~~~~a~~~~~~~~-~E~SAk~~~gv~e~F~~li~~il  183 (185)
T d2atxa1         111 APNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCY-VECSALTQKGLKTVFDEAIIAIL  183 (185)
T ss_dssp             STTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCE-EECCTTTCTTHHHHHHHHHHHHH
T ss_pred             CCCCCeeEeeeccccccchhhhhhhhhcccccccHHHHHHHHHHcCCCEE-EEecCCCCcCHHHHHHHHHHHHc
Confidence            36899999999999864            346788888899988844789 99999999999999999998774

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.37  E-value=4.8e-13  Score=82.72  Aligned_cols=57  Identities=32%  Similarity=0.397  Sum_probs=50.6

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCC---CCCHHHHHHHHH
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKD---STNVEEAFYCLA   66 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~---~~~v~~lf~~l~   66 (106)
                      ..+++|++|||||+||.+.+.++.+++..+++.+ +.+| +++||++   +.||+++|.+||
T Consensus       106 ~~~~~pi~lvgnK~Dl~~~~~v~~~~~~~~~~~~-~~~~-~e~SAkt~~~~~~V~e~F~~lA  165 (165)
T d1z06a1         106 LANDIPRILVGNKCDLRSAIQVPTDLAQKFADTH-SMPL-FETSAKNPNDNDHVEAIFMTLA  165 (165)
T ss_dssp             CCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHT-TCCE-EECCSSSGGGGSCHHHHHHHHC
T ss_pred             cCCCCeEEEEeccccchhccchhHHHHHHHHHHC-CCEE-EEEecccCCcCcCHHHHHHHhC
Confidence            3468999999999999887788999999999999 8999 9999997   459999999874

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.37  E-value=1.7e-12  Score=81.19  Aligned_cols=65  Identities=40%  Similarity=0.413  Sum_probs=55.9

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ..+++|++|||||+|+.+.+....+....+...+ +..+ +++||++|.||+++|..+++.+.+...
T Consensus       106 ~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~-~~~~-~e~Sa~~g~~i~e~f~~l~~~i~~~~~  170 (175)
T d2f9la1         106 ADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKN-NLSF-IETSALDSTNVEEAFKNILTEIYRIVS  170 (175)
T ss_dssp             SCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHT-TCEE-EECCTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             cCCCCcEEEEEeeecccccccchHHHHHHhhccc-CceE-EEEecCCCcCHHHHHHHHHHHHHHHhh
Confidence            4578999999999999876667777777777778 8899 999999999999999999999876654

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.32  E-value=3.2e-12  Score=81.23  Aligned_cols=65  Identities=38%  Similarity=0.578  Sum_probs=58.4

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ...++|+++|+||.|+.+...+..+....++... +..+ +++||++|.||+++|..+++.+.+...
T Consensus       108 ~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~-~e~SAk~g~gi~e~f~~l~~~i~~~~~  172 (194)
T d2bcgy1         108 ATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADAN-KMPF-LETSALDSTNVEDAFLTMARQIKESMS  172 (194)
T ss_dssp             SCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHT-TCCE-EECCTTTCTTHHHHHHHHHHHHHHHCC
T ss_pred             ccCCceEEEEEeccccccccchhHHHHhhhhhcc-Ccce-EEEecCcCccHHHHHHHHHHHHHHHhh
Confidence            4578999999999999988888888888888888 8999 999999999999999999999887654

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.31  E-value=3e-12  Score=80.54  Aligned_cols=63  Identities=33%  Similarity=0.389  Sum_probs=52.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+++||||+||.+. .+..+....++....+.++ +++||++|.||+++|.+|++.+.+++.
T Consensus       110 ~~ip~ilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~-~e~Sak~~~gI~e~f~~l~~~i~~~~~  172 (184)
T d1vg8a_         110 ENFPFVVLGNKIDLENR-QVATKRAQAWCYSKNNIPY-FETSAKEAINVEQAFQTIARNALKQET  172 (184)
T ss_dssp             GGSCEEEEEECTTSSCC-CSCHHHHHHHHHHTTSCCE-EECBTTTTBSHHHHHHHHHHHHHHHHH
T ss_pred             cCCCEEEEEEeeccccc-chhHHHHHHHHHHhcCCeE-EEEcCCCCcCHHHHHHHHHHHHHhccc
Confidence            57899999999999754 4666667666654438899 999999999999999999998887654

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.30  E-value=8.7e-13  Score=82.32  Aligned_cols=60  Identities=22%  Similarity=0.284  Sum_probs=50.3

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      +++|+++||||+||...+..  ++...++..+ +++| +++||++|.||+++|.+|++.+++..
T Consensus       106 ~~~piilvgnK~Dl~~~~~~--~~~~~~~~~~-~~~~-~e~Sak~~~~v~e~f~~l~~~l~~~~  165 (170)
T d1i2ma_         106 ENIPIVLCGNKVDIKDRKVK--AKSIVFHRKK-NLQY-YDISAKSNYNFEKPFLWLARKLIGDP  165 (170)
T ss_dssp             CSCCEEEEEECCCCSCSCCT--TTSHHHHSSC-SSEE-EEEBTTTTBTTTHHHHHHHHHHHTCT
T ss_pred             CCCceeeecchhhhhhhhhh--hHHHHHHHHc-CCEE-EEEeCCCCCCHHHHHHHHHHHHccCC
Confidence            57999999999999765433  2345677777 8899 99999999999999999999997654

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.29  E-value=6.9e-12  Score=77.92  Aligned_cols=61  Identities=34%  Similarity=0.424  Sum_probs=55.7

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      .....|+++|+||.|+.....+..+++..+++.+ +.+| +++||++|.||+++|.+|++.+.
T Consensus       109 ~~~~~~iilv~~k~d~~~~~~v~~~~~~~~~~~~-~~~~-~e~Sak~g~gi~e~f~~l~~~i~  169 (170)
T d2g6ba1         109 AQHDVALMLLGNKVDSAHERVVKREDGEKLAKEY-GLPF-METSAKTGLNVDLAFTAIAKELK  169 (170)
T ss_dssp             SCTTCEEEEEEECCSTTSCCCSCHHHHHHHHHHH-TCCE-EECCTTTCTTHHHHHHHHHHHHH
T ss_pred             cCCCceEEEEEeeechhhcccccHHHHHHHHHHc-CCEE-EEEeCCCCcCHHHHHHHHHHHcC
Confidence            3467899999999999888888888899999999 8999 99999999999999999998875

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.25  E-value=1.3e-11  Score=76.84  Aligned_cols=65  Identities=34%  Similarity=0.572  Sum_probs=52.5

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ...++|+++|+||.|+...+....+++..++... +.+| +++||++|.||+++|.+|++.+.+++.
T Consensus       108 ~~~~~~iilv~~k~D~~~~~~~~~~~~~~~~~~~-~~~~-~e~Sa~~g~gv~e~f~~l~~~i~~k~~  172 (173)
T d2fu5c1         108 ASADVEKMILGNKCDVNDKRQVSKERGEKLALDY-GIKF-METSAKANINVENAFFTLARDIKAKMD  172 (173)
T ss_dssp             SCTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHH-TCEE-EECCC---CCHHHHHHHHHHHHHHHHH
T ss_pred             ccCCceEEEEEecccchhhcccHHHHHHHHHHhc-CCEE-EEEeCCCCCCHHHHHHHHHHHHHHhcC
Confidence            4577999999999999877777777788888888 8999 999999999999999999999987753

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.24  E-value=4.9e-12  Score=79.54  Aligned_cols=62  Identities=23%  Similarity=0.299  Sum_probs=52.3

Q ss_pred             CCCCeEEEEEecCCCCC------------CCCCCHHHHHHHhhhcCCcceEEEcccCCCCC-HHHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLES------------EREVDFNEAEEMGEYVPEIHYVMETSAKDSTN-VEEAFYCLANELKN   71 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~-v~~lf~~l~~~i~~   71 (106)
                      .+++|++|||||+|+..            .+.++.+++..+++.++...| +||||++|.+ |+++|+.+++.+.+
T Consensus       104 ~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~~~~y-~E~SAk~~~n~i~~~F~~~~~~~l~  178 (179)
T d1m7ba_         104 CPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATY-IECSALQSENSVRDIFHVATLACVN  178 (179)
T ss_dssp             CTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEE-EECBTTTBHHHHHHHHHHHHHHHHT
T ss_pred             CCcceEEEEEecccccccchhhHHHhhhhcCcchHHHHHHHHHHhCCCeE-EEEeCCCCCcCHHHHHHHHHHHHhc
Confidence            36899999999999853            345788888899988735689 9999999985 99999999988875

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.23  E-value=7.9e-12  Score=78.57  Aligned_cols=60  Identities=15%  Similarity=0.237  Sum_probs=49.3

Q ss_pred             CCCeEEEEEecCCCCCC------------CCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESE------------REVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      .++|++|||||+|+.+.            ......++..+++.++...| +|+||++|.||+++|..+++.++
T Consensus       108 ~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~-~E~SAk~~~~V~e~F~~l~~~il  179 (183)
T d1mh1a_         108 PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKY-LECSALTQRGLKTVFDEAIRAVL  179 (183)
T ss_dssp             TTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEE-EECCTTTCTTHHHHHHHHHHHHS
T ss_pred             CCCcEEEEeecccchhhhhhhhhhhhccccchhhHHHHHHHHHcCCceE-EEcCCCCCcCHHHHHHHHHHHHc
Confidence            57899999999998543            23455667778877745789 99999999999999999998874

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.17  E-value=1.3e-11  Score=76.50  Aligned_cols=61  Identities=28%  Similarity=0.377  Sum_probs=52.9

Q ss_pred             CCCCCeEEEEEecCCCCC---CCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780           8 PDSAHDSRVWSNKCDLES---EREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~---~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      .....|+++|+||+|+.+   .+.+..+++..+++.+ +++| +++||++|.||+++|..|+++|+
T Consensus       105 ~~~~~~~~~v~nk~d~~~~~~~~~v~~~~~~~~~~~~-~~~~-~e~Sak~g~gV~e~F~~i~~~i~  168 (170)
T d1ek0a_         105 ASKDIIIALVGNKIDMLQEGGERKVAREEGEKLAEEK-GLLF-FETSAKTGENVNDVFLGIGEKIP  168 (170)
T ss_dssp             SCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHH-TCEE-EECCTTTCTTHHHHHHHHHTTSC
T ss_pred             cccccceeeeecccccccccchhhhhHHHHHHHHHHc-CCEE-EEecCCCCcCHHHHHHHHHHHhc
Confidence            346789999999999854   3567888899999999 8899 99999999999999999987654

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.11  E-value=2.3e-10  Score=71.65  Aligned_cols=66  Identities=18%  Similarity=0.159  Sum_probs=53.1

Q ss_pred             CCCCCeEEEEEecCCCC--CCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           8 PDSAHDSRVWSNKCDLE--SEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ...++|+++||||.|+.  ..+.++..++..++....+..| +++||+++.||+++|..+++.+.....
T Consensus       103 ~~~~~pi~lV~~k~d~d~~~~~~v~~~~~~~~~~~~~~~~~-~e~SAk~~~~v~~~F~~l~~~i~~~~~  170 (175)
T d2bmja1         103 GRGGLALALVGTQDRISASSPRVVGDARARALCADMKRCSY-YETCATYGLNVDRVFQEVAQKVVTLRK  170 (175)
T ss_dssp             -CCCCEEEEEEECTTCCSSSCCCSCHHHHHHHHHTSTTEEE-EEEBTTTTBTHHHHHHHHHHHHHHHHH
T ss_pred             ccCCccEEEEeeecCcchhhhcchhHHHHHHHHHHhCCCeE-EEeCCCCCcCHHHHHHHHHHHHHHhhh
Confidence            34678999999998874  3456777788888654327899 999999999999999999998887654

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=99.11  E-value=1.2e-11  Score=77.46  Aligned_cols=61  Identities=18%  Similarity=0.140  Sum_probs=46.0

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHH-----hhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEM-----GEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~-----~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      ..+.|+++|+||+|+.+.  ...++....     +... .+.+ +++||++|+||+++|++|++.+.+++
T Consensus       116 ~~~~piliv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~-~~~~-~e~SA~~g~gv~e~~~~l~~~i~~~~  181 (182)
T d1moza_         116 LQDAALLVFANKQDQPGA--LSASEVSKELNLVELKDR-SWSI-VASSAIKGEGITEGLDWLIDVIKEEQ  181 (182)
T ss_dssp             TSSCEEEEEEECTTSTTC--CCHHHHHHHTTTTTCCSS-CEEE-EEEBGGGTBTHHHHHHHHHHHHHHHH
T ss_pred             cCCcceEEEEEeeccccc--cCHHHHHHHHHHHHHhhC-CCEE-EEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            357999999999999643  233333332     2233 5678 99999999999999999999987763

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=99.08  E-value=9.9e-11  Score=72.01  Aligned_cols=60  Identities=17%  Similarity=0.151  Sum_probs=44.2

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhh--hc--CCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGE--YV--PEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~--~~--~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      ..++|+++|+||+|+.+...  .++......  ..  ..+.+ +++||++|+||+++|++|.+.+.+
T Consensus       101 ~~~~p~iiv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~-~~~Sa~~g~gv~e~~~~l~~~i~~  164 (165)
T d1ksha_         101 LAGATLLIFANKQDLPGALS--CNAIQEALELDSIRSHHWRI-QGCSAVTGEDLLPGIDWLLDDISS  164 (165)
T ss_dssp             GTTCEEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEE-EECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             cCCCceEEEEeccccccccC--HHHHHHHHHhhhhhcCCCEE-EEEECCCCCCHHHHHHHHHHHHHc
Confidence            36799999999999975433  333333221  11  14578 999999999999999999988764

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.05  E-value=5.7e-10  Score=69.47  Aligned_cols=63  Identities=29%  Similarity=0.315  Sum_probs=55.0

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      ....|+++++||.|+.. +.+...++..+++.+ ++.+ +++||++|.||+++|+++++.+.+...
T Consensus       111 ~~~~~i~~~~nk~d~~~-~~v~~~~~~~~~~~~-~~~~-~e~Sa~tg~gv~e~f~~l~~~l~~~p~  173 (177)
T d1x3sa1         111 RNDIVNMLVGNKIDKEN-REVDRNEGLKFARKH-SMLF-IEASAKTCDGVQCAFEELVEKIIQTPG  173 (177)
T ss_dssp             CSCCEEEEEEECTTSSS-CCSCHHHHHHHHHHT-TCEE-EECCTTTCTTHHHHHHHHHHHHHTSGG
T ss_pred             ccceeeEEEeecccccc-ccccHHHHHHHHHHC-CCEE-EEEeCCCCCCHHHHHHHHHHHHccCcc
Confidence            35689999999999764 567888888999999 8999 999999999999999999999887643

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=99.01  E-value=1.3e-10  Score=72.07  Aligned_cols=55  Identities=18%  Similarity=0.112  Sum_probs=40.9

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHh-----hhcCCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMG-----EYVPEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      .++|+++|+||+|+.+..  .........     ... ...+ +++||++|+||+++|++|++.
T Consensus       116 ~~~pillv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~-~~~~-~~~SA~tg~gv~e~~~~l~~~  175 (176)
T d1fzqa_         116 SCVPVLIFANKQDLLTAA--PASEIAEGLNLHTIRDR-VWQI-QSCSALTGEGVQDGMNWVCKN  175 (176)
T ss_dssp             TTCCEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSS-CEEE-EECCTTTCTTHHHHHHHHHHT
T ss_pred             CCCeEEEEEEeccccccc--cHHHHHHHHHHHHHHhc-CCEE-EEEeCCCCCCHHHHHHHHHhc
Confidence            578999999999997543  233332222     223 5678 999999999999999999875

>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=98.97  E-value=3.1e-10  Score=69.14  Aligned_cols=61  Identities=26%  Similarity=0.221  Sum_probs=44.9

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHH----HhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEE----MGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~----~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      ....|+++|+||.|+..... ..+....    ++... ..++ +++||++|+||+++|.+|++.+.++
T Consensus       104 ~~~~~i~iv~nk~Dl~~~~~-~~~i~~~~~~~~~~~~-~~~~-~~~SA~~g~gv~e~~~~l~~~l~~k  168 (169)
T d1upta_         104 LRKAILVVFANKQDMEQAMT-SSEMANSLGLPALKDR-KWQI-FKTSATKGTGLDEAMEWLVETLKSR  168 (169)
T ss_dssp             GTTCEEEEEEECTTSTTCCC-HHHHHHHHTGGGCTTS-CEEE-EECCTTTCTTHHHHHHHHHHHHHTC
T ss_pred             cccceEEEEEeecccccccc-HHHHHHHHHHHHHhcC-CCEE-EEEeCCCCCCHHHHHHHHHHHHHhC
Confidence            36789999999999975432 1122222    23334 6789 9999999999999999999988654

>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=98.95  E-value=1.9e-10  Score=71.41  Aligned_cols=56  Identities=16%  Similarity=0.088  Sum_probs=41.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHH-----hhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEM-----GEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~-----~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .+.|+++|+||+|+.+..  ...+....     .... .+.+ +++||++|+||+++|++|.+.+
T Consensus       112 ~~~piiiv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~-~~~~-~e~SA~tg~gv~e~~~~l~~~~  172 (173)
T d1e0sa_         112 RDAIILIFANKQDLPDAM--KPHEIQEKLGLTRIRDR-NWYV-QPSCATSGDGLYEGLTWLTSNY  172 (173)
T ss_dssp             TTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSS-CEEE-EECBTTTTBTHHHHHHHHHHHC
T ss_pred             ccceeeeeeecccccccc--cHHHHHHHHHHHHHHhC-CCEE-EEeeCCCCcCHHHHHHHHHHhc
Confidence            579999999999997532  22222222     2223 4578 9999999999999999998754

>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=98.94  E-value=2.6e-09  Score=65.65  Aligned_cols=62  Identities=29%  Similarity=0.505  Sum_probs=53.8

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .....|++++++|.|+.+ +....+++..++..+ ++++ +++||++|.||+++|.+|++.+.++
T Consensus       104 ~~~~~~~i~~~~k~d~~~-~~~~~~~~~~~~~~~-~~~~-~~~Sa~~~~~v~e~f~~l~~~i~~k  165 (166)
T d1g16a_         104 ANDEAQLLLVGNKSDMET-RVVTADQGEALAKEL-GIPF-IESSAKNDDNVNEIFFTLAKLIQEK  165 (166)
T ss_dssp             SCTTCEEEEEEECTTCTT-CCSCHHHHHHHHHHH-TCCE-EECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             ccCcceeeeecchhhhhh-hhhhHHHHHHHHHhc-CCeE-EEECCCCCCCHHHHHHHHHHHHHhc
Confidence            346789999999999864 456778888999999 8999 9999999999999999999988765

>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=98.92  E-value=1.5e-09  Score=67.49  Aligned_cols=58  Identities=17%  Similarity=0.082  Sum_probs=44.9

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      +.|+|+|+||+|+.++..  .+......... +.++ |.+||++|.||+++++.|.+.+...
T Consensus       113 ~~p~iiv~NK~D~~~~~~--~~~~~~~~~~~-~~~~-~~iSA~tg~gid~L~~~i~~~l~~~  170 (180)
T d1udxa2         113 RRPSLVALNKVDLLEEEA--VKALADALARE-GLAV-LPVSALTGAGLPALKEALHALVRST  170 (180)
T ss_dssp             HSCEEEEEECCTTSCHHH--HHHHHHHHHTT-TSCE-EECCTTTCTTHHHHHHHHHHHHHTS
T ss_pred             hhhhhhhhhhhhhhhHHH--HHHHHHHHHhc-CCeE-EEEEcCCCCCHHHHHHHHHHHHhhc
Confidence            579999999999875432  22334444555 7899 9999999999999999998887544

>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=98.92  E-value=5.3e-10  Score=69.03  Aligned_cols=56  Identities=13%  Similarity=0.118  Sum_probs=42.2

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHh-----hhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMG-----EYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .+.|+++|+||.|+.....  ..+.....     ... +..+ +++||++|+||+++|++|++.+
T Consensus       115 ~~~p~iiv~nK~Dl~~~~~--~~~i~~~~~~~~~~~~-~~~~-~~~Sa~tg~Gi~e~~~~L~~~l  175 (177)
T d1zj6a1         115 RKAGLLIFANKQDVKECMT--VAEISQFLKLTSIKDH-QWHI-QACCALTGEGLCQGLEWMMSRL  175 (177)
T ss_dssp             TTCEEEEEEECTTSTTCCC--HHHHHHHHTGGGCCSS-CEEE-EECBTTTTBTHHHHHHHHHHHH
T ss_pred             cceEEEEEEEcccccccCc--HHHHHHHHHHHhhHhc-CCEE-EEEeCCCCCCHHHHHHHHHHHh
Confidence            6789999999999865432  33333322     223 5679 9999999999999999999875

>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=98.90  E-value=2.7e-10  Score=70.13  Aligned_cols=57  Identities=25%  Similarity=0.141  Sum_probs=42.0

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHH-----hhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEM-----GEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~-----~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .+++|++||+||.|+.+..  ........     +... +..+ +++||++|.||+++|++|++.+
T Consensus       102 ~~~~pi~lv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~-~~~~-~e~Sa~~g~gv~e~~~~l~~~~  163 (164)
T d1zd9a1         102 LQGIPVLVLGNKRDLPGAL--DEKELIEKMNLSAIQDR-EICC-YSISCKEKDNIDITLQWLIQHS  163 (164)
T ss_dssp             GTTCCEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSS-CEEE-EECCTTTCTTHHHHHHHHHHTC
T ss_pred             ccCCcEEEEEeccccchhh--hHHHHHHHHHHHHHHhC-CCEE-EEEeCcCCcCHHHHHHHHHHcc
Confidence            3689999999999997432  23332222     2233 5688 9999999999999999998743

>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=98.90  E-value=6.2e-10  Score=68.83  Aligned_cols=61  Identities=16%  Similarity=0.110  Sum_probs=45.3

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++|+|+|+||+|+.+..  ..+....+.+.. ...+ +++||++|.|+++++++|.+.++++..
T Consensus       108 ~~~pviiv~NK~Dl~~~~--~~~~~~~~~~~~-~~~~-i~iSAk~g~gid~L~~~i~~~l~e~~~  168 (171)
T d1mkya1         108 STVDTILVANKAENLREF--EREVKPELYSLG-FGEP-IPVSAEHNINLDTMLETIIKKLEEKGL  168 (171)
T ss_dssp             HTCCEEEEEESCCSHHHH--HHHTHHHHGGGS-SCSC-EECBTTTTBSHHHHHHHHHHHHHHTTC
T ss_pred             ccccccccchhhhhhhhh--hhHHHHHHHhcC-CCCe-EEEecCCCCCHHHHHHHHHHhCCCCCC
Confidence            478999999999986321  122223333333 5678 999999999999999999999887644

>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=98.84  E-value=8.2e-10  Score=66.80  Aligned_cols=56  Identities=21%  Similarity=0.127  Sum_probs=41.6

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHH-----HHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAE-----EMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~-----~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      ..+|+++|+||.|+.+...  ..+..     .+++.. +..+ +++||++|+||+++|++|++++
T Consensus       100 ~~~~i~~v~~k~d~~~~~~--~~~i~~~~~~~~~~~~-~~~~-~~~SAktg~gi~e~~~~l~~~l  160 (160)
T d1r8sa_         100 RDAVLLVFANKQDLPNAMN--AAEITDKLGLHSLRHR-NWYI-QATCATSGDGLYEGLDWLSNQL  160 (160)
T ss_dssp             TTCEEEEEEECTTSTTCCC--HHHHHHHTTGGGCSSC-CEEE-EECBTTTTBTHHHHHHHHHHHC
T ss_pred             cCceEEEEeeccccccccc--HHHHHHHHHHHHHhhC-CCEE-EEeECCCCCCHHHHHHHHHhcC
Confidence            5789999999999875332  22222     223334 6788 9999999999999999998763

>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=98.74  E-value=1.5e-09  Score=67.54  Aligned_cols=58  Identities=21%  Similarity=0.061  Sum_probs=44.2

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .+.|+++|+||+|+.+..   .+....+.+..+...+ +++||+++.|++++++.|++.+++
T Consensus       114 ~~~piilv~NK~Dl~~~~---~~~~~~~~~~~~~~~~-~~iSA~~~~gi~~L~~~i~~~lpe  171 (178)
T d1wf3a1         114 GKVPILLVGNKLDAAKYP---EEAMKAYHELLPEAEP-RMLSALDERQVAELKADLLALMPE  171 (178)
T ss_dssp             TTSCEEEEEECGGGCSSH---HHHHHHHHHTSTTSEE-EECCTTCHHHHHHHHHHHHTTCCB
T ss_pred             cchhhhhhhcccccccCH---HHHHHHHHhhcccCce-EEEecCCCCCHHHHHHHHHHhCCC
Confidence            578999999999986432   2334445555545678 999999999999999999876643

>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=98.73  E-value=2.2e-09  Score=65.34  Aligned_cols=51  Identities=22%  Similarity=0.162  Sum_probs=39.9

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .++|+++|+||+||.+....       +.+.. +.++ +++||+++.||++++++|++.+
T Consensus       111 ~~~~iilv~NK~Dl~~~~~~-------~~~~~-~~~~-~~iSAk~~~gi~~L~~~l~~~l  161 (161)
T d2gj8a1         111 AKLPITVVRNKADITGETLG-------MSEVN-GHAL-IRLSARTGEGVDVLRNHLKQSM  161 (161)
T ss_dssp             TTCCEEEEEECHHHHCCCCE-------EEEET-TEEE-EECCTTTCTTHHHHHHHHHHHC
T ss_pred             cccceeeccchhhhhhhHHH-------HHHhC-CCcE-EEEECCCCCCHHHHHHHHHhhC
Confidence            57899999999998654321       11223 6789 9999999999999999998753

>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=98.62  E-value=2.5e-08  Score=61.70  Aligned_cols=59  Identities=19%  Similarity=0.106  Sum_probs=41.4

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhc------CCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYV------PEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~------~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .++|+++|+||+|+.+...   .....+.+..      ....+ +.+||++|.|++++++.|.+.++++
T Consensus       120 ~~~p~iiv~NK~D~~~~~~---~~~~~~~~~~~~~~~~~~~~~-~~vSA~~g~gi~~L~~~i~~~l~e~  184 (184)
T d2cxxa1         120 LDIPTIVAVNKLDKIKNVQ---EVINFLAEKFEVPLSEIDKVF-IPISAKFGDNIERLKNRIFEVIRER  184 (184)
T ss_dssp             TTCCEEEEEECGGGCSCHH---HHHHHHHHHHTCCGGGHHHHE-EECCTTTCTTHHHHHHHHHHHHHHC
T ss_pred             cCCCEEEEEeeeehhhhHH---HHHHHHHHHhcccccccCCeE-EEEECCCCCCHHHHHHHHHHHccCC
Confidence            5789999999999764322   1111122111      01247 8999999999999999999988763

>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=98.62  E-value=1e-08  Score=63.92  Aligned_cols=62  Identities=18%  Similarity=0.057  Sum_probs=42.9

Q ss_pred             CCCeEEEEEecCCCCCCCCCC--HHHHHHHhhhc---CCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVD--FNEAEEMGEYV---PEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~--~~~~~~~~~~~---~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .++|+++|.||+|+.+.....  .+....+.+..   .+.++ +.+||++|+|++++++.|.+.+++.
T Consensus       110 ~~~p~iiv~NKiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~i-v~iSA~~g~gi~eL~~~I~~~l~~~  176 (179)
T d1wb1a4         110 FNIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSI-IPISAKTGFGVDELKNLIITTLNNA  176 (179)
T ss_dssp             TTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCE-EECCTTTCTTHHHHHHHHHHHHHHS
T ss_pred             cCCcceeccccccccCHHHHHHHHHHHHHHHHHhhcCCCCeE-EEEEccCCcCHHHHHHHHHhcCCcc
Confidence            579999999999986532111  11112222221   13578 9999999999999999999888753

>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=98.61  E-value=3.7e-08  Score=61.76  Aligned_cols=58  Identities=17%  Similarity=0.128  Sum_probs=41.4

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHH---hhhcCCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEM---GEYVPEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~---~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .++|+++|+||+|+.+..... +....+   ....+...+ +.+||++|.|+++++..|.+.+
T Consensus       133 ~~~piivv~NK~D~~~~~~~~-~~~~~~~~~l~~~~~~~~-~~~SA~~~~gi~el~~~i~~~l  193 (195)
T d1svia_         133 YGIPVIVIATKADKIPKGKWD-KHAKVVRQTLNIDPEDEL-ILFSSETKKGKDEAWGAIKKMI  193 (195)
T ss_dssp             TTCCEEEEEECGGGSCGGGHH-HHHHHHHHHHTCCTTSEE-EECCTTTCTTHHHHHHHHHHHH
T ss_pred             ccCcceechhhccccCHHHHH-HHHHHHHHHhcccCCCCE-EEEeCCCCCCHHHHHHHHHHHh
Confidence            568999999999986433211 112222   222225678 9999999999999999998876

>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=98.61  E-value=1e-08  Score=63.86  Aligned_cols=58  Identities=21%  Similarity=0.296  Sum_probs=43.2

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhc-CCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYV-PEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .++|+++|+||+|+.+..    +....+.+.. .+.++ +.+||++|.|+++++..+.+.+.+.
T Consensus       116 ~~kp~ivv~NK~Dl~~~~----~~~~~~~~~~~~~~~v-~~iSA~~g~Gi~~L~~~i~~~L~~~  174 (185)
T d1lnza2         116 TERPQIIVANKMDMPEAA----ENLEAFKEKLTDDYPV-FPISAVTREGLRELLFEVANQLENT  174 (185)
T ss_dssp             TTSCBCBEEECTTSTTHH----HHHHHHHHHCCSCCCB-CCCSSCCSSTTHHHHHHHHHHHTSC
T ss_pred             cCCcchhhccccchHhHH----HHHHHHHHHhccCCcE-EEEECCCCCCHHHHHHHHHHhhhhC
Confidence            468999999999986422    2233333333 25688 9999999999999999998887543

>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=98.57  E-value=5.6e-08  Score=59.56  Aligned_cols=57  Identities=16%  Similarity=0.114  Sum_probs=40.7

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhc----------------CCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYV----------------PEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~----------------~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      .++|+++++||.|++..  .............                .++.+ +++||++|+||+++|++|++.+
T Consensus       113 ~~~~~li~~~K~D~~~~--~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~SA~tg~Gi~e~~~~l~~~i  185 (186)
T d1f6ba_         113 ANVPILILGNKIDRPEA--ISEERLREMFGLYGQTTGKGSVSLKELNARPLEV-FMCSVLKRQGYGEGFRWMAQYI  185 (186)
T ss_dssp             TTSCEEEEEECTTSTTC--CCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEE-EECBTTTTBSHHHHHHHHHTTC
T ss_pred             CCCceEEEEeccCcccc--CCHHHHHHHHhhcccchhhhhhhHHHhhcCCCEE-EEEeCCCCCCHHHHHHHHHHhh
Confidence            67999999999998642  3333333332211                12468 9999999999999999998653

>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=2.8e-07  Score=56.96  Aligned_cols=61  Identities=21%  Similarity=0.212  Sum_probs=43.0

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhh----hcCCcceEEEcccCCCCCHHHHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGE----YVPEIHYVMETSAKDSTNVEEAFYCLANELKN   71 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~----~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~   71 (106)
                      .+.|+|+|+||+|+.........+......    ..+..++ +.+||++|.||++|++.|.+.+..
T Consensus       119 ~~~~~i~v~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~i-~~vSa~~g~gv~~L~~~i~~~~~~  183 (186)
T d1mkya2         119 RGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPL-IFTSADKGWNIDRMIDAMNLAYAS  183 (186)
T ss_dssp             TTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCE-EECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             cCCceeeeccchhhhcchhhhhhhHHHHHHHHhcccCCCeE-EEEeCCCCCCHHHHHHHHHHHHHh
Confidence            568999999999986544333333322222    1224578 999999999999999999665543

>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=98.48  E-value=1.8e-07  Score=55.98  Aligned_cols=57  Identities=18%  Similarity=0.016  Sum_probs=39.6

Q ss_pred             CCCCCeEEEEEecCCCCCCCCCCHHHHHHHhh-----------hcCCcceEEEcccCCCCCHHHHHHHHHH
Q psy5780           8 PDSAHDSRVWSNKCDLESEREVDFNEAEEMGE-----------YVPEIHYVMETSAKDSTNVEEAFYCLAN   67 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~-----------~~~~~~~~~~~Sa~~~~~v~~lf~~l~~   67 (106)
                      ...+.|+++++||.|+...  ....+......           ....+.+ +++||++|+||+++|++|++
T Consensus        98 ~~~~~~i~i~~~k~d~~~~--~~~~~i~~~~~~~~~~~~~~~~~~~~~~~-~~~SA~tg~Gv~e~~~~l~~  165 (166)
T d2qtvb1          98 ELKDVPFVILGNKIDAPNA--VSEAELRSALGLLNTTGSQRIEGQRPVEV-FMCSVVMRNGYLEAFQWLSQ  165 (166)
T ss_dssp             TTTTCCEEEEEECTTSSSC--CCHHHHHHHHTCSSCCC---CCSSCCEEE-EEEBTTTTBSHHHHHHHHTT
T ss_pred             ccCCceEEEEecccccccc--CCHHHHHHHhhhhhhhHHHhhcccCCCEE-EEeeCCCCCCHHHHHHHHhC
Confidence            3467899999999998643  22332222211           1113568 99999999999999999864

>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=98.41  E-value=7.7e-08  Score=59.14  Aligned_cols=61  Identities=15%  Similarity=0.085  Sum_probs=44.6

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      ....|.++|.||.|+..................+..++ +++||++|.|+++|++.|.+.++
T Consensus       111 ~~~~~~i~v~~k~d~~~~~~~~~~~~~~~~~~~~~~~~-~~vSA~~g~gi~~L~~~i~~~lp  171 (179)
T d1egaa1         111 EGKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDI-VPISAETGLNVDTIAAIVRKHLP  171 (179)
T ss_dssp             SSSSCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEE-EECCTTTTTTHHHHHHHHHTTCC
T ss_pred             hccCceeeeeeeeeccchhhhhhhHhhhhhhhcCCCCE-EEEeCcCCCCHHHHHHHHHHhCC
Confidence            35678999999999865432222333444555645689 99999999999999999877653

>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=98.33  E-value=2.8e-08  Score=61.90  Aligned_cols=62  Identities=23%  Similarity=0.204  Sum_probs=41.6

Q ss_pred             CCCeEEEEEecCCCCCCC----------------CCCHHHHHHHh-----hhc----CCcceEEEcccCCCCCHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESER----------------EVDFNEAEEMG-----EYV----PEIHYVMETSAKDSTNVEEAFYC   64 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~----------------~~~~~~~~~~~-----~~~----~~~~~~~~~Sa~~~~~v~~lf~~   64 (106)
                      .++|+++++||.|+...+                .........+.     ...    ..+.+ ++|||+++.||+++|..
T Consensus       111 ~~~~~~~v~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~f~~~~~~~~~~~~~-~~tSAk~~~ni~~vF~~  189 (200)
T d2bcjq2         111 QNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYS-HFTCATDTENIRFVFAA  189 (200)
T ss_dssp             SSSEEEEEEECHHHHHHHTTTSCHHHHSTTCCSCSSCHHHHHHHHHHHHHTTCSCTTSCEEE-EECCTTCHHHHHHHHHH
T ss_pred             cCccEEEecchhhhhhhcccchHHHHhcccccCCchhHHHHHHHHHHHHHHhcccCCCceEE-EEeEEEcCHhHHHHHHH
Confidence            679999999999984211                11122222221     110    13457 89999999999999999


Q ss_pred             HHHHHHHh
Q psy5780          65 LANELKNR   72 (106)
Q Consensus        65 l~~~i~~~   72 (106)
                      +.+.|.+.
T Consensus       190 i~~~I~~~  197 (200)
T d2bcjq2         190 VKDTILQL  197 (200)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            98888764

>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=98.25  E-value=2.1e-06  Score=51.55  Aligned_cols=54  Identities=19%  Similarity=0.097  Sum_probs=39.6

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      ...++++++||.|+.+..  ..+...... .. ..++ +++||++|.|+++|++.|.++
T Consensus       106 ~~~~~i~~~~k~d~~~~~--~~~~~~~~~-~~-~~~~-~~vSA~~g~gi~~L~~~I~ke  159 (160)
T d1xzpa2         106 KNKRYLVVINKVDVVEKI--NEEEIKNKL-GT-DRHM-VKISALKGEGLEKLEESIYRE  159 (160)
T ss_dssp             TTSSEEEEEEECSSCCCC--CHHHHHHHH-TC-STTE-EEEEGGGTCCHHHHHHHHHHH
T ss_pred             ccccceeeeeeccccchh--hhHHHHHHh-CC-CCcE-EEEECCCCCCHHHHHHHHHhc
Confidence            457899999999997643  233332222 22 5678 999999999999999998764

>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=98.10  E-value=7.2e-07  Score=55.45  Aligned_cols=62  Identities=16%  Similarity=0.124  Sum_probs=40.4

Q ss_pred             CCCeEEEEEecCCCCCCC----------------CCCHHHHHHHhhh-----c-----CCcceEEEcccCCCCCHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESER----------------EVDFNEAEEMGEY-----V-----PEIHYVMETSAKDSTNVEEAFY   63 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~----------------~~~~~~~~~~~~~-----~-----~~~~~~~~~Sa~~~~~v~~lf~   63 (106)
                      .++|++||+||.|+.+..                .-..+.+..+...     .     ..+.+ ++|||+++.||+++|.
T Consensus       110 ~~~piilv~NK~Dl~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~iy~-~~TsA~d~~ni~~vf~  188 (200)
T d1zcba2         110 SNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYH-HFTTAINTENIRLVFR  188 (200)
T ss_dssp             TTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--CCEE-EECCTTCHHHHHHHHH
T ss_pred             cCceEEEEeccchhhhhhccccHHHHhCccccCCcchHHHHHHHHHHHHHHhccCCCCCceEE-EEeeeeCcHHHHHHHH
Confidence            689999999999984210                0112222222111     0     02345 7899999999999999


Q ss_pred             HHHHHHHHh
Q psy5780          64 CLANELKNR   72 (106)
Q Consensus        64 ~l~~~i~~~   72 (106)
                      .+.+.|.++
T Consensus       189 ~v~d~i~~~  197 (200)
T d1zcba2         189 DVKDTILHD  197 (200)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            988877654

>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=98.04  E-value=3.4e-06  Score=51.85  Aligned_cols=28  Identities=25%  Similarity=0.244  Sum_probs=24.3

Q ss_pred             cceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          44 IHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        44 ~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      +.+ ++|||+++.||+++|..+.+.+.++
T Consensus       167 ~~~-~~tSA~~~~nv~~~F~~v~~~il~~  194 (195)
T d1svsa1         167 IYT-HFTCATDTKNVQFVFDAVTDVIIKN  194 (195)
T ss_dssp             EEE-EECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             cee-EEEEeECCHhHHHHHHHHHHHHHhc
Confidence            456 7999999999999999998887654

>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=97.97  E-value=4.8e-06  Score=50.70  Aligned_cols=58  Identities=16%  Similarity=-0.016  Sum_probs=38.9

Q ss_pred             CCCeEEEEEecCCCCCCCCCC--HHHHHHHhhh-cCCcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVD--FNEAEEMGEY-VPEIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~--~~~~~~~~~~-~~~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      ...++++++||.|+.+.....  .+........ .+..++ +.+||++|.||++|+..|.+.
T Consensus       126 ~~~~~~~v~~k~D~~~~~~~~~~~~~~~~~l~~~~~~~~~-i~vSA~~g~Gid~L~~~i~~~  186 (188)
T d1puia_         126 SNIAVLVLLTKADKLASGARKAQLNMVREAVLAFNGDVQV-ETFSSLKKQGVDKLRQKLDTW  186 (188)
T ss_dssp             TTCCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGCSCEEE-EECBTTTTBSHHHHHHHHHHH
T ss_pred             ccccccchhhhhhccCHHHHHHHHHHHHHHHHhhCCCCcE-EEEeCCCCCCHHHHHHHHHHH
Confidence            567899999999986532211  1111222222 224578 999999999999999988654

>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=97.96  E-value=7.2e-06  Score=52.53  Aligned_cols=30  Identities=13%  Similarity=0.105  Sum_probs=25.3

Q ss_pred             cceEEEcccCCCCCHHHHHHHHHHHHHHhhc
Q psy5780          44 IHYVMETSAKDSTNVEEAFYCLANELKNRQS   74 (106)
Q Consensus        44 ~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~~   74 (106)
                      .++ +.+||++|.|+++|++.|.....+...
T Consensus       192 ~~i-~pvSa~~G~gid~Ll~~l~~l~~~~~~  221 (227)
T d1g7sa4         192 VSI-IPISAITGEGIPELLTMLMGLAQQYLR  221 (227)
T ss_dssp             EEE-EECCTTTCTTHHHHHHHHHHHHHHHCS
T ss_pred             CeE-EEeeCCCCCCHHHHHHHHHHHHHHHHH
Confidence            367 999999999999999999887766554

>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=97.89  E-value=3.4e-06  Score=53.24  Aligned_cols=59  Identities=15%  Similarity=0.210  Sum_probs=38.7

Q ss_pred             CC-eEEEEEecCCCCCCCCCC--HHHHHHHhhhc--CCcceEEEcccCCCCCHHHHHHHHHHHHH
Q psy5780          11 AH-DSRVWSNKCDLESEREVD--FNEAEEMGEYV--PEIHYVMETSAKDSTNVEEAFYCLANELK   70 (106)
Q Consensus        11 ~i-p~ilv~nK~Dl~~~~~~~--~~~~~~~~~~~--~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~   70 (106)
                      ++ |+|++.||+|+.+.....  ......+....  ..+++ +.+||++|.||+++++.+...++
T Consensus       139 ~i~~iIV~vNK~Dl~~~~~~~~~~~~~~~~l~~~~~~~~p~-ipiSA~~g~nI~~L~e~i~~~ip  202 (205)
T d2qn6a3         139 GVKNLIIVQNKVDVVSKEEALSQYRQIKQFTKGTWAENVPI-IPVSALHKINIDSLIEGIEEYIK  202 (205)
T ss_dssp             TCCCEEEEEECGGGSCHHHHHHHHHHHHHHHTTSTTTTCCE-EECBTTTTBSHHHHHHHHHHHSC
T ss_pred             CCceeeeccccCCCccchHHHHHHHHHHHHhccccCCCCeE-EEEeCCCCCChHHHHHHHHhhCC
Confidence            44 778889999997533211  11122222222  23678 99999999999999988876543

>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=97.88  E-value=3.6e-06  Score=52.60  Aligned_cols=58  Identities=14%  Similarity=0.161  Sum_probs=38.4

Q ss_pred             CCe-EEEEEecCCCCCCCCCC--HHHHHHHhhhc--CCcceEEEcccCCCCCHHHHHHHHHHHH
Q psy5780          11 AHD-SRVWSNKCDLESEREVD--FNEAEEMGEYV--PEIHYVMETSAKDSTNVEEAFYCLANEL   69 (106)
Q Consensus        11 ~ip-~ilv~nK~Dl~~~~~~~--~~~~~~~~~~~--~~~~~~~~~Sa~~~~~v~~lf~~l~~~i   69 (106)
                      ++| +|++.||+|+.+.....  ......+....  ..+++ +.+||++|.|+++|++.+.+.+
T Consensus       131 ~~~~iiv~inK~D~~d~~~~~~~~~~~~~~~~~~~~~~~~i-IpiSA~~G~ni~~Ll~~I~~~i  193 (195)
T d1kk1a3         131 GQKNIIIAQNKIELVDKEKALENYRQIKEFIEGTVAENAPI-IPISALHGANIDVLVKAIEDFI  193 (195)
T ss_dssp             TCCCEEEEEECGGGSCHHHHHHHHHHHHHHHTTSTTTTCCE-EECBTTTTBSHHHHHHHHHHHS
T ss_pred             cCccceeeeecccchhhHHHHHHHHHHHHHhccccCCCCeE-EEEECCCCCCHHHHHHHHHHHC
Confidence            445 67789999987532211  11223333332  13578 9999999999999998887655

>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=97.83  E-value=8e-06  Score=52.72  Aligned_cols=53  Identities=26%  Similarity=0.262  Sum_probs=37.1

Q ss_pred             CCCeEEEEEecCCCCCCCCCCHHHHHHHhhhc-CCcceEEEcccCCCCCHHHHHHHH
Q psy5780          10 SAHDSRVWSNKCDLESEREVDFNEAEEMGEYV-PEIHYVMETSAKDSTNVEEAFYCL   65 (106)
Q Consensus        10 ~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~v~~lf~~l   65 (106)
                      .+++.+||.||+||.++..  .+....+...+ .++++ +.+|++++.|++++...+
T Consensus        40 ~~i~pvIvlnK~DL~~~~~--~~~~~~~~~~~~~~~~v-~~vSa~~~~g~~~L~~~l   93 (225)
T d1u0la2          40 NELETVMVINKMDLYDEDD--LRKVRELEEIYSGLYPI-VKTSAKTGMGIEELKEYL   93 (225)
T ss_dssp             TTCEEEEEECCGGGCCHHH--HHHHHHHHHHHTTTSCE-EECCTTTCTTHHHHHHHH
T ss_pred             cCCCEEEEEeCcccCCHHH--HHHHHHhhcccccceeE-EEeccccchhHhhHHHHh
Confidence            5789999999999975321  12223333322 25688 999999999999887655

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=97.56  E-value=6.9e-05  Score=50.53  Aligned_cols=59  Identities=10%  Similarity=0.018  Sum_probs=38.2

Q ss_pred             eEEEEEecCCCCCCCCCCHHHHHHHhh----------hcCCcceEEEcccCCCCCHHHHHHHHHHHHHHhh
Q psy5780          13 DSRVWSNKCDLESEREVDFNEAEEMGE----------YVPEIHYVMETSAKDSTNVEEAFYCLANELKNRQ   73 (106)
Q Consensus        13 p~ilv~nK~Dl~~~~~~~~~~~~~~~~----------~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~~   73 (106)
                      .=++|.||+|+.+...........+..          .+ ..++ +.+||++++|++++...|.+......
T Consensus       191 aDi~vvNKaD~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~p~V-~~~Sa~~g~Gi~el~~~I~~~~~~~~  259 (323)
T d2qm8a1         191 ADMIAVNKADDGDGERRASAAASEYRAALHILTPPSATW-TPPV-VTISGLHGKGLDSLWSRIEDHRSKLT  259 (323)
T ss_dssp             CSEEEEECCSTTCCHHHHHHHHHHHHHHHTTBCCSBTTB-CCCE-EEEBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             hheeeEeccccccchHHHHHHHHHHHHHhhcccccccCC-CCce-EEEEecCCCCHHHHHHHHHHHHHHHH
Confidence            338899999986533222111111111          13 4568 99999999999999999976655443

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=97.41  E-value=8.2e-05  Score=46.97  Aligned_cols=25  Identities=16%  Similarity=0.064  Sum_probs=21.6

Q ss_pred             CcceEEEcccCCCCCHHHHHHHHHHH
Q psy5780          43 EIHYVMETSAKDSTNVEEAFYCLANE   68 (106)
Q Consensus        43 ~~~~~~~~Sa~~~~~v~~lf~~l~~~   68 (106)
                      .+++ +.+||++|+|+++++..|.+.
T Consensus       216 ~~~~-v~vSa~~geGi~~L~~~l~e~  240 (244)
T d1yrba1         216 PVRV-LYLSAKTREGFEDLETLAYEH  240 (244)
T ss_dssp             CCCC-EECCTTTCTTHHHHHHHHHHH
T ss_pred             CCcE-EEEECCCCCCHHHHHHHHHHH
Confidence            4678 999999999999999887654

>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=97.27  E-value=1e-05  Score=52.41  Aligned_cols=54  Identities=15%  Similarity=0.124  Sum_probs=37.7

Q ss_pred             CCCCeEEEEEecCCCCCCCCCCHHH---HHHHhhhcCCcceEEEcccCCCCCHHHHHHHH
Q psy5780           9 DSAHDSRVWSNKCDLESEREVDFNE---AEEMGEYVPEIHYVMETSAKDSTNVEEAFYCL   65 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~~~~~~~~---~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l   65 (106)
                      ..+++.+||.||+||.++.. ....   ....+... ++++ +.+|++++.|++++...+
T Consensus        39 ~~~i~pvIvlnK~DL~~~~~-~~~~~~~~~~~y~~~-g~~v-~~~Sa~~~~gl~~L~~~l   95 (231)
T d1t9ha2          39 ANDIQPIICITKMDLIEDQD-TEDTIQAYAEDYRNI-GYDV-YLTSSKDQDSLADIIPHF   95 (231)
T ss_dssp             TTTCEEEEEEECGGGCCCHH-HHHHHHHHHHHHHHH-TCCE-EECCHHHHTTCTTTGGGG
T ss_pred             HcCCCEEEEEecccccccHH-HHHHHHHHHHHHhhc-cccc-eeeecCChhHHHHHHHhh
Confidence            36789999999999975422 1111   22334456 7899 999999999988776544

>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=97.23  E-value=0.00022  Score=46.64  Aligned_cols=58  Identities=12%  Similarity=0.077  Sum_probs=40.1

Q ss_pred             CCeEEEEEecCCCCCCCCCCHHHHHHHhhhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          11 AHDSRVWSNKCDLESEREVDFNEAEEMGEYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        11 ~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      +.|.|+|.||+||.+...  ......+.+.. +... +.+|++.+.++.++...+.+.+.+.
T Consensus        42 ~Kp~IlVlNK~DLv~~~~--~~~w~~~f~~~-~~~~-i~isa~~~~~~~~~~~~~~~~l~~~   99 (273)
T d1puja_          42 NKPRIMLLNKADKADAAV--TQQWKEHFENQ-GIRS-LSINSVNGQGLNQIVPASKEILQEK   99 (273)
T ss_dssp             SSCEEEEEECGGGSCHHH--HHHHHHHHHTT-TCCE-EECCTTTCTTGGGHHHHHHHHHHHH
T ss_pred             CCCeEEEEECccCCchHH--HHHHHHHHHhc-CCcc-ceeecccCCCccccchhhhhhhhhh
Confidence            679999999999975321  12223333444 5678 8999999999888777666655544

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=97.18  E-value=2.3e-05  Score=49.85  Aligned_cols=27  Identities=19%  Similarity=0.118  Sum_probs=22.8

Q ss_pred             ceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          45 HYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        45 ~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      .+ ++|||.+..+|..+|..+.+.|.+.
T Consensus       190 y~-h~T~A~Dt~ni~~vf~~v~d~I~~~  216 (221)
T d1azta2         190 YP-HFTCAVDTENIRRVFNDCRDIIQRM  216 (221)
T ss_dssp             EE-EECCTTCHHHHHHHHHTTHHHHHHH
T ss_pred             ee-eecceeccHHHHHHHHHHHHHHHHH
Confidence            35 7899999999999999988777755

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=97.00  E-value=0.00036  Score=46.98  Aligned_cols=58  Identities=14%  Similarity=0.066  Sum_probs=36.1

Q ss_pred             eEEEEEecCCCCCCCCCC--HHHHHHHh-------hhcCCcceEEEcccCCCCCHHHHHHHHHHHHHHh
Q psy5780          13 DSRVWSNKCDLESEREVD--FNEAEEMG-------EYVPEIHYVMETSAKDSTNVEEAFYCLANELKNR   72 (106)
Q Consensus        13 p~ilv~nK~Dl~~~~~~~--~~~~~~~~-------~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~i~~~   72 (106)
                      +=++|.||+|+.......  ........       ..+ ..++ +.+||++|.|+++++..|.+.....
T Consensus       194 aDi~VvNKaD~~~~~~~~~~~~~~~~al~~~~~~~~~w-~p~V-~~~SA~~g~Gi~eL~~~I~~~~~~l  260 (327)
T d2p67a1         194 ADLIVINKDDGDNHTNVAIARHMYESALHILRRKYDEW-QPRV-LTCSALEKRGIDEIWHAIIDFKTAL  260 (327)
T ss_dssp             CSEEEECCCCTTCHHHHHHHHHHHHHHHHHSCCSBTTB-CCEE-EECBGGGTBSHHHHHHHHHHHHHHH
T ss_pred             ccEEEEEeecccchHHHHHHHHHHHHHhhhcccCCCCC-ccee-EEEEeeCCCCHHHHHHHHHHHHHHH
Confidence            347889999986422111  11111111       123 3468 9999999999999999887655433

>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=96.71  E-value=0.0032  Score=38.69  Aligned_cols=18  Identities=17%  Similarity=0.148  Sum_probs=14.9

Q ss_pred             CCCCeEEEEEecCCCCCC
Q psy5780           9 DSAHDSRVWSNKCDLESE   26 (106)
Q Consensus         9 ~~~ip~ilv~nK~Dl~~~   26 (106)
                      ..++|+++|+||+|++..
T Consensus       106 ~~~~pilvv~NK~Dl~~a  123 (207)
T d2fh5b1         106 KNSPSLLIACNKQDIAMA  123 (207)
T ss_dssp             TTCCEEEEEEECTTSTTC
T ss_pred             hcCCcEEEEEECcccCCC
Confidence            356899999999999753

>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=96.57  E-value=0.00021  Score=44.74  Aligned_cols=57  Identities=19%  Similarity=0.127  Sum_probs=35.0

Q ss_pred             CeEEEEEecCCCCCCCCCCH---HHHHHHhhhcC----CcceEEEcccCCC----------CCHHHHHHHHHHHH
Q psy5780          12 HDSRVWSNKCDLESEREVDF---NEAEEMGEYVP----EIHYVMETSAKDS----------TNVEEAFYCLANEL   69 (106)
Q Consensus        12 ip~ilv~nK~Dl~~~~~~~~---~~~~~~~~~~~----~~~~~~~~Sa~~~----------~~v~~lf~~l~~~i   69 (106)
                      .|+|++.||+|+..+.....   .+...+....+    ..++ +.+||++|          .++.+|++.+.+.+
T Consensus       120 ~~iIv~iNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~~~~pi-i~iSa~~g~~~~~~~~~~~~~~~Lldai~~~i  193 (196)
T d1d2ea3         120 EHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKGEETPI-IVGSALCALEQRDPELGLKSVQKLLDAVDTYI  193 (196)
T ss_dssp             CCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCTTTSCE-EECCHHHHHTTCCTTTTHHHHHHHHHHHHHHS
T ss_pred             CcEEEEEecccccccHHHHHHHHHHHHHHHHHhCCCcccCEE-EEEEccccccccCcccccCCHHHHHHHHHhhC
Confidence            36888899999864322111   12223333331    2568 99999988          47888887776543

>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=95.79  E-value=0.0049  Score=38.99  Aligned_cols=49  Identities=24%  Similarity=0.192  Sum_probs=30.3

Q ss_pred             CCCe-EEEEEecCCCCCCCCCCH----HHHHHHhhhc----CCcceEEEcccCCCCCHH
Q psy5780          10 SAHD-SRVWSNKCDLESEREVDF----NEAEEMGEYV----PEIHYVMETSAKDSTNVE   59 (106)
Q Consensus        10 ~~ip-~ilv~nK~Dl~~~~~~~~----~~~~~~~~~~----~~~~~~~~~Sa~~~~~v~   59 (106)
                      .+++ +|++.||.|+.+......    .+...+.+..    ..++| +.+||++|.||.
T Consensus       140 ~gv~~iiv~vNK~D~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i~~-IPiSA~~G~ni~  197 (222)
T d1zunb3         140 LGIKHIVVAINKMDLNGFDERVFESIKADYLKFAEGIAFKPTTMAF-VPMSALKGDNVV  197 (222)
T ss_dssp             TTCCEEEEEEECTTTTTSCHHHHHHHHHHHHHHHHTTTCCCSEEEE-EECCTTTCTTTS
T ss_pred             cCCCEEEEEEEccccccccceehhhhHHHHhhhhHhhccCCCceEE-EEEEcccCccCC
Confidence            3555 688899999975432111    1223334333    12468 899999999984

>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=94.60  E-value=0.0097  Score=38.05  Aligned_cols=50  Identities=24%  Similarity=0.170  Sum_probs=29.9

Q ss_pred             CCe-EEEEEecCCCCCCCCCCHH-------HHHHHhhhc-C-----CcceEEEcccCCCCCHHHHH
Q psy5780          11 AHD-SRVWSNKCDLESEREVDFN-------EAEEMGEYV-P-----EIHYVMETSAKDSTNVEEAF   62 (106)
Q Consensus        11 ~ip-~ilv~nK~Dl~~~~~~~~~-------~~~~~~~~~-~-----~~~~~~~~Sa~~~~~v~~lf   62 (106)
                      ++| ++++.||+|+..... ...       +...+.... +     .+++ +.+||++|.||.+++
T Consensus       161 ~i~~iiv~iNKmD~~~~~~-~e~~~~ei~~~l~~~l~~i~~~~~~~~v~~-VPiSA~~G~nI~~~~  224 (245)
T d1r5ba3         161 GINHLVVVINKMDEPSVQW-SEERYKECVDKLSMFLRRVAGYNSKTDVKY-MPVSAYTGQNVKDRV  224 (245)
T ss_dssp             TCSSEEEEEECTTSTTCSS-CHHHHHHHHHHHHHHHHHHHCCCHHHHEEE-EECBTTTTBTTSSCC
T ss_pred             CCCeEEEEEEcCCCCccch-hHHHHHHHHHHHHHHHHHHhCcCcccCCEE-EEeeccCCCCcccch
Confidence            465 678899999864221 111       112222221 0     2468 999999999997654

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.09  E-value=0.034  Score=33.57  Aligned_cols=20  Identities=25%  Similarity=0.255  Sum_probs=16.2

Q ss_pred             CCCCCeEEEEEecCCCCCCC
Q psy5780           8 PDSAHDSRVWSNKCDLESER   27 (106)
Q Consensus         8 ~~~~ip~ilv~nK~Dl~~~~   27 (106)
                      ...++|+++|+||+|+....
T Consensus       108 ~~~~~piiiv~NK~D~~~~~  127 (209)
T d1nrjb_         108 CENGIDILIACNKSELFTAR  127 (209)
T ss_dssp             STTCCCEEEEEECTTSTTCC
T ss_pred             HhccCCeEEEEEeecccccC
Confidence            44689999999999997543

>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=91.29  E-value=0.049  Score=34.52  Aligned_cols=50  Identities=22%  Similarity=0.147  Sum_probs=29.9

Q ss_pred             CCCe-EEEEEecCCCCCCCCCCH----HHHHHHhhhcC----CcceEEEcccCCCCCHHH
Q psy5780          10 SAHD-SRVWSNKCDLESEREVDF----NEAEEMGEYVP----EIHYVMETSAKDSTNVEE   60 (106)
Q Consensus        10 ~~ip-~ilv~nK~Dl~~~~~~~~----~~~~~~~~~~~----~~~~~~~~Sa~~~~~v~~   60 (106)
                      .++| +|++.||+|+.+......    .+...+....+    .+.+ +.+||..|.|+.+
T Consensus       142 ~gv~~iiv~iNKmD~~~~d~~~~~~~~~el~~~l~~~~~~~~~i~~-ipiSa~~G~ni~~  200 (239)
T d1f60a3         142 LGVRQLIVAVNKMDSVKWDESRFQEIVKETSNFIKKVGYNPKTVPF-VPISGWNGDNMIE  200 (239)
T ss_dssp             TTCCEEEEEEECGGGGTTCHHHHHHHHHHHHHHHHHHTCCGGGCCE-EECCTTTCBTTTB
T ss_pred             cCCCeEEEEEECCCCCCCCHHHHHHHHHHHHHHHHhcCCCCCcEEE-EEEEccCCCccee
Confidence            3566 677899999875332111    12233333321    2568 8999999998643

>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=90.98  E-value=0.016  Score=35.83  Aligned_cols=16  Identities=25%  Similarity=0.246  Sum_probs=12.2

Q ss_pred             CCCe-EEEEEecCCCCC
Q psy5780          10 SAHD-SRVWSNKCDLES   25 (106)
Q Consensus        10 ~~ip-~ilv~nK~Dl~~   25 (106)
                      .++| ++++.||+|+.+
T Consensus       118 ~gi~~iiv~iNK~D~~~  134 (204)
T d2c78a3         118 VGVPYIVVFMNKVDMVD  134 (204)
T ss_dssp             TTCCCEEEEEECGGGCC
T ss_pred             cCCCeEEEEEEecccCC
Confidence            5677 566799999864

>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=90.26  E-value=0.14  Score=31.78  Aligned_cols=46  Identities=15%  Similarity=0.223  Sum_probs=27.5

Q ss_pred             eEEEEEecCCCCCCCCCC--H----HHHHHHhhhc----CCcceEEEcccCCCCCHH
Q psy5780          13 DSRVWSNKCDLESEREVD--F----NEAEEMGEYV----PEIHYVMETSAKDSTNVE   59 (106)
Q Consensus        13 p~ilv~nK~Dl~~~~~~~--~----~~~~~~~~~~----~~~~~~~~~Sa~~~~~v~   59 (106)
                      ++|++.||+|+.......  .    .....+...+    ....+ +.+||..|.||.
T Consensus       143 ~iIv~iNK~D~~~~~~~~~~~~~v~~~i~~~~~~~~~~~~~i~~-IPISA~~G~NV~  198 (224)
T d1jnya3         143 QLIVAVNKMDLTEPPYDEKRYKEIVDQVSKFMRSYGFNTNKVRF-VPVVAPSGDNIT  198 (224)
T ss_dssp             TCEEEEECGGGSSSTTCHHHHHHHHHHHHHHHHHTTCCCTTCEE-EECBTTTTBTTT
T ss_pred             ceEEEEEcccCCCccccHHHHHHHHHHHHhHHHhcCCCcccCeE-EEEEccCCCCcc
Confidence            578889999986422111  1    1122222322    13568 899999999874