Citrus Sinensis ID: 035388

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60------
Protein Sequence
MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQMKGQPIQQNSNCCG
Secondary Structure (PSIPRED)
cHHHHHHHcccEEEccccccccHHHHHHHHHHHHHHHHccccccccccccEEcccccccccccccc
Secondary Structure Prediction (SSPRO)
cHHHHHHHccEEEEcEccccEcHHHHHHHHHHHHHccHccccccccccccEEEccccccccccccc
Coil and Loop (DISEMBL)
mqafadelgipfletSAKDAINVEQAFLTMAGEIKkkmgnqptankssgtvqmkgqpiqqnsnccg
Flexible Loop (DISEMBL)
MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTAnkssgtvqmkgqpiqqnsnccg
Low Complexity Region (SEG)
MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQMKGQPIQQNSNCCG
Disordered region (IsUnstruct)
*******LGIPFLETSAKDAINVEQAFLTM************************************
Disordered Region (DISOPRED)
*QAFADELGIPFLETSAKDAINVEQAFLTMAG******************************NCC*
Disordered Region (DISEMBL)
MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK*****************************
Disordered Region (DISPRO)
MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK*****************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQMKGQPIQQNSNCCG
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	66	2.2.26 [Sep-21-2011]
Q9ZRE2	205	Ras-related protein RABD1	yes	no	0.984	0.317	0.808	8e-24
P40392	202	Ras-related protein RIC1	yes	no	0.969	0.316	0.676	6e-20
Q05737	203	GTP-binding protein YPTM2	N/A	no	0.969	0.315	0.584	4e-17
P28188	203	Ras-related protein RABD2	no	no	0.969	0.315	0.584	6e-17
Q9SEH3	202	Ras-related protein RABD2	no	no	0.969	0.316	0.593	7e-17
Q9FPJ4	202	Ras-related protein RABD2	no	no	0.969	0.316	0.593	8e-17
Q39571	203	GTP-binding protein YPTC1	N/A	no	0.969	0.315	0.597	2e-15
P16976	208	GTP-binding protein YPTM1	N/A	no	0.969	0.307	0.6	9e-14
Q52NJ2	205	Ras-related protein Rab-1	yes	no	0.939	0.302	0.562	2e-12
Q6NYB7	205	Ras-related protein Rab-1	yes	no	0.939	0.302	0.562	2e-12

>sp|Q9ZRE2|RABD1_ARATH Ras-related protein RABD1 OS=Arabidopsis thaliana GN=RABD1 PE=1 SV=1

 Score =  108 bits (271), Expect = 8e-24,   Method: Compositional matrix adjust.
 Identities = 55/68 (80%), Positives = 61/68 (89%), Gaps = 3/68 (4%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSS--GTVQMKGQPIQ 59
           +A ADELGIPFLETSAKD+INVEQAFLT+AGEIKKKMG+Q  ANK+S  GTVQMKGQPIQ
Sbjct: 137 RALADELGIPFLETSAKDSINVEQAFLTIAGEIKKKMGSQTNANKTSGPGTVQMKGQPIQ 196

Query: 60  QNS-NCCG 66
           QN+  CCG
Sbjct: 197 QNNGGCCG 204

Protein transport. Regulator of membrane traffic from the Golgi apparatus towards the endoplasmic reticulum (ER).
Arabidopsis thaliana (taxid: 3702)

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

 Score = 95.9 bits (237), Expect = 6e-20,   Method: Compositional matrix adjust.
 Identities = 44/65 (67%), Positives = 53/65 (81%), Gaps = 1/65 (1%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSS-GTVQMKGQPIQQ 60
           +A ADE+GIPFLETSAKDA NVE+AF+TMAGEIK +M +QP  N S   TVQM+GQP+ Q
Sbjct: 137 KALADEIGIPFLETSAKDATNVEKAFMTMAGEIKNRMASQPATNASKPATVQMRGQPVAQ 196

Query: 61  NSNCC 65
            S+CC
Sbjct: 197 QSSCC 201

Possesses GTPase activity.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q05737|YPTM2_MAIZE GTP-binding protein YPTM2 OS=Zea mays GN=YPTM2 PE=2 SV=1

 Score = 86.7 bits (213), Expect = 4e-17,   Method: Compositional matrix adjust.
 Identities = 38/65 (58%), Positives = 51/65 (78%), Gaps = 1/65 (1%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQP-TANKSSGTVQMKGQPIQQ 60
           +AFADE+GIPF+ETSAK+A NV+QAF+ MA  IK +M +QP  AN    TVQ++GQP+ Q
Sbjct: 137 KAFADEMGIPFMETSAKNATNVQQAFMAMAASIKDRMASQPAAANARPATVQIRGQPVNQ 196

Query: 61  NSNCC 65
            ++CC
Sbjct: 197 KTSCC 201

Protein transport. Probably involved in vesicular traffic.

Zea mays (taxid: 4577)

>sp|P28188|RAD2A_ARATH Ras-related protein RABD2a OS=Arabidopsis thaliana GN=RABD2A PE=1 SV=3

 Score = 86.3 bits (212), Expect = 6e-17,   Method: Compositional matrix adjust.
 Identities = 38/65 (58%), Positives = 51/65 (78%), Gaps = 1/65 (1%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSS-GTVQMKGQPIQQ 60
           +AFADE+GIPF+ETSAKDA NVEQAF+ M+  IK++M +QP  N +   TVQ++GQP+ Q
Sbjct: 137 KAFADEIGIPFMETSAKDATNVEQAFMAMSASIKERMASQPAGNNARPPTVQIRGQPVAQ 196

Query: 61  NSNCC 65
            + CC
Sbjct: 197 KNGCC 201

Protein transport. Regulator of membrane traffic from the Golgi apparatus towards the endoplasmic reticulum (ER).

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SEH3|RAD2C_ARATH Ras-related protein RABD2c OS=Arabidopsis thaliana GN=RABD2C PE=1 SV=1

 Score = 85.9 bits (211), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 38/64 (59%), Positives = 47/64 (73%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQMKGQPIQQN 61
           +AFADELGIPFLETSAK+A NVE+AF+ M   IK +M +QP       TVQ++GQP+ Q 
Sbjct: 137 KAFADELGIPFLETSAKNATNVEEAFMAMTAAIKTRMASQPAGGSKPPTVQIRGQPVNQQ 196

Query: 62  SNCC 65
           S CC
Sbjct: 197 SGCC 200

Protein transport. Regulator of membrane traffic from the Golgi apparatus towards the endoplasmic reticulum (ER).

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FPJ4|RAD2B_ARATH Ras-related protein RABD2b OS=Arabidopsis thaliana GN=RABD2B PE=2 SV=1

 Score = 85.5 bits (210), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 38/64 (59%), Positives = 47/64 (73%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQMKGQPIQQN 61
           +AFADELGIPFLETSAK+A NVE+AF+ M   IK +M +QP       TVQ++GQP+ Q 
Sbjct: 137 KAFADELGIPFLETSAKNATNVEEAFMAMTAAIKTRMASQPAGGAKPPTVQIRGQPVNQQ 196

Query: 62  SNCC 65
           S CC
Sbjct: 197 SGCC 200

Protein transport. Regulator of membrane traffic from the Golgi apparatus towards the endoplasmic reticulum (ER).

Arabidopsis thaliana (taxid: 3702)

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

 Score = 80.9 bits (198), Expect = 2e-15,   Method: Composition-based stats.
 Identities = 40/67 (59%), Positives = 52/67 (77%), Gaps = 3/67 (4%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTV--QMKGQPIQ 59
           +AFADE+GIPFLETSAK+A NVEQAF+TMA EIK +M +QP   K+ G V    +G+PI 
Sbjct: 137 KAFADEIGIPFLETSAKNATNVEQAFMTMAAEIKNRMASQPIPTKAGGPVVRPQEGKPIN 196

Query: 60  -QNSNCC 65
            ++S+CC
Sbjct: 197 SKSSSCC 203

Protein transport. Probably involved in vesicular traffic.

Chlamydomonas reinhardtii (taxid: 3055)

>sp|P16976|YPTM1_MAIZE GTP-binding protein YPTM1 OS=Zea mays GN=YPTM1 PE=2 SV=2

 Score = 75.5 bits (184), Expect = 9e-14,   Method: Composition-based stats.
 Identities = 42/70 (60%), Positives = 51/70 (72%), Gaps = 6/70 (8%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK-KMGNQPT-ANKSSGTVQMKGQPIQ 59
           QA+A E+GIPFLETSAK++INVE+AFL M+  IKK K G+Q     K S  VQMKG+PIQ
Sbjct: 137 QAYAQEVGIPFLETSAKESINVEEAFLAMSAAIKKSKAGSQAALERKPSNVVQMKGRPIQ 196

Query: 60  Q----NSNCC 65
           Q    +S CC
Sbjct: 197 QEQQKSSRCC 206

Protein transport. Probably involved in vesicular traffic.

Zea mays (taxid: 4577)

>sp|Q52NJ2|RAB1A_PIG Ras-related protein Rab-1A OS=Sus scrofa GN=RAB1A PE=2 SV=3

 Score = 71.2 bits (173), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 36/64 (56%), Positives = 48/64 (75%), Gaps = 2/64 (3%)

Query: 4   FADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGT-VQMKGQPIQQN- 61
           FAD LGIPFLETSAK+A NVEQ+F+TMA EIKK+MG   TA  +  + V+++  P++Q+ 
Sbjct: 142 FADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGATAGGAEKSNVKIQSTPVKQSG 201

Query: 62  SNCC 65
             CC
Sbjct: 202 GGCC 205

Probably required for transit of protein from the ER through Golgi compartment. Binds GTP and GDP and possesses intrinsic GTPase activity.

Sus scrofa (taxid: 9823)

>sp|Q6NYB7|RAB1A_RAT Ras-related protein Rab-1A OS=Rattus norvegicus GN=Rab1A PE=1 SV=3

 Score = 70.9 bits (172), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 36/64 (56%), Positives = 48/64 (75%), Gaps = 2/64 (3%)

Query: 4   FADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGT-VQMKGQPIQQN- 61
           FAD LGIPFLETSAK+A NVEQ+F+TMA EIKK+MG   TA  +  + V+++  P++Q+ 
Sbjct: 142 FADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGATAGGAEKSNVKIQSTPVKQSG 201

Query: 62  SNCC 65
             CC
Sbjct: 202 GGCC 205

Probably required for transit of protein from the ER through Golgi compartment. Binds GTP and GDP and possesses intrinsic GTPase activity.

Rattus norvegicus (taxid: 10116)

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	66
224129738	201	predicted protein [Populus trichocarpa]	0.984	0.323	0.892	1e-27
255570958	202	protein with unknown function [Ricinus c	0.984	0.321	0.893	6e-27
224119896	201	predicted protein [Populus trichocarpa]	0.984	0.323	0.876	6e-27
225465202	202	PREDICTED: ras-related protein RABD1 [Vi	0.984	0.321	0.893	1e-26
327505561	202	Rab4 [Hevea brasiliensis]	0.984	0.321	0.863	2e-25
1370162	201	RAB1A [Lotus japonicus] gi|388504068|gb|	0.984	0.323	0.846	7e-25
449431876	201	PREDICTED: ras-related protein RABD1-lik	0.969	0.318	0.843	1e-24
449431874	204	PREDICTED: ras-related protein RABD1-lik	0.969	0.313	0.843	2e-24
303748	201	GTP-binding protein [Pisum sativum] gi|7	0.984	0.323	0.815	3e-24
357445239	163	Ras-like protein [Medicago truncatula] g	0.984	0.398	0.818	6e-24

>gi|224129738|ref|XP_002328790.1| predicted protein [Populus trichocarpa] gi|222839088|gb|EEE77439.1| predicted protein [Populus trichocarpa]

 Score =  126 bits (317), Expect = 1e-27,   Method: Compositional matrix adjust.
 Identities = 58/65 (89%), Positives = 64/65 (98%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQMKGQPIQQN 61
           +AFADELGIPFLETSAKD+INVEQAFLTMAGEIKKKMGNQPTA+KS+GTVQMKGQPI+Q 
Sbjct: 137 KAFADELGIPFLETSAKDSINVEQAFLTMAGEIKKKMGNQPTASKSTGTVQMKGQPIEQK 196

Query: 62  SNCCG 66
           +NCCG
Sbjct: 197 NNCCG 201

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255570958|ref|XP_002526430.1| protein with unknown function [Ricinus communis] gi|223534210|gb|EEF35925.1| protein with unknown function [Ricinus communis]

 Score =  124 bits (312), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 59/66 (89%), Positives = 64/66 (96%), Gaps = 1/66 (1%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSS-GTVQMKGQPIQQ 60
           +AFADELGIPFLETSAKD+INVEQAFLTMAGEIK+KMGNQPTANKS+ GTVQMKGQPIQQ
Sbjct: 137 KAFADELGIPFLETSAKDSINVEQAFLTMAGEIKRKMGNQPTANKSTGGTVQMKGQPIQQ 196

Query: 61  NSNCCG 66
            +NCCG
Sbjct: 197 KNNCCG 202

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224119896|ref|XP_002331089.1| predicted protein [Populus trichocarpa] gi|118486589|gb|ABK95133.1| unknown [Populus trichocarpa] gi|222872817|gb|EEF09948.1| predicted protein [Populus trichocarpa]

 Score =  124 bits (312), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 57/65 (87%), Positives = 62/65 (95%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQMKGQPIQQN 61
           +AFADELGIPFLETSAKD+INVEQAFLTMAGEIKKKM NQPTAN S+GTVQMKGQPI+Q 
Sbjct: 137 KAFADELGIPFLETSAKDSINVEQAFLTMAGEIKKKMSNQPTANNSTGTVQMKGQPIEQK 196

Query: 62  SNCCG 66
           +NCCG
Sbjct: 197 NNCCG 201

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225465202|ref|XP_002264623.1| PREDICTED: ras-related protein RABD1 [Vitis vinifera] gi|297739505|emb|CBI29687.3| unnamed protein product [Vitis vinifera]

 Score =  123 bits (309), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 59/66 (89%), Positives = 62/66 (93%), Gaps = 1/66 (1%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTAN-KSSGTVQMKGQPIQQ 60
           +AFADELGIPFLETSAKD+INVEQAFLTMAGEIKKKMGNQP A  +SS TVQMKGQPIQQ
Sbjct: 137 KAFADELGIPFLETSAKDSINVEQAFLTMAGEIKKKMGNQPNATARSSSTVQMKGQPIQQ 196

Query: 61  NSNCCG 66
           NSNCCG
Sbjct: 197 NSNCCG 202

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|327505561|gb|AEA92308.1| Rab4 [Hevea brasiliensis]

 Score =  119 bits (299), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 57/66 (86%), Positives = 63/66 (95%), Gaps = 1/66 (1%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSG-TVQMKGQPIQQ 60
           +AFADELGIPFLETSAKD+INVEQAFLTMAGEIKKKMG+QP A+KS+G TVQMKGQPIQQ
Sbjct: 137 KAFADELGIPFLETSAKDSINVEQAFLTMAGEIKKKMGSQPAASKSTGTTVQMKGQPIQQ 196

Query: 61  NSNCCG 66
            +NCCG
Sbjct: 197 KNNCCG 202

Source: Hevea brasiliensis

Species: Hevea brasiliensis

Genus: Hevea

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|1370162|emb|CAA66447.1| RAB1A [Lotus japonicus] gi|388504068|gb|AFK40100.1| unknown [Lotus japonicus]

 Score =  117 bits (294), Expect = 7e-25,   Method: Compositional matrix adjust.
 Identities = 55/65 (84%), Positives = 60/65 (92%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQMKGQPIQQN 61
           +AFADELGIPFLETSAKD+INVEQAFLTMA EIKKKMG+QPT +KS+ TVQMKGQPI Q 
Sbjct: 137 KAFADELGIPFLETSAKDSINVEQAFLTMAAEIKKKMGSQPTGSKSAETVQMKGQPIPQK 196

Query: 62  SNCCG 66
           SNCCG
Sbjct: 197 SNCCG 201

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449431876|ref|XP_004133726.1| PREDICTED: ras-related protein RABD1-like isoform 2 [Cucumis sativus]

 Score =  117 bits (292), Expect = 1e-24,   Method: Compositional matrix adjust.
 Identities = 54/64 (84%), Positives = 60/64 (93%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQMKGQPIQQN 61
           +AFADELGIPFLETSAKD+ NVEQAFLTMA EIKKKMG+QPT++KSSG VQMKGQPIQQ 
Sbjct: 137 KAFADELGIPFLETSAKDSTNVEQAFLTMAAEIKKKMGSQPTSSKSSGNVQMKGQPIQQK 196

Query: 62  SNCC 65
           S+CC
Sbjct: 197 SSCC 200

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449431874|ref|XP_004133725.1| PREDICTED: ras-related protein RABD1-like isoform 1 [Cucumis sativus]

 Score =  116 bits (290), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 54/64 (84%), Positives = 60/64 (93%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQMKGQPIQQN 61
           +AFADELGIPFLETSAKD+ NVEQAFLTMA EIKKKMG+QPT++KSSG VQMKGQPIQQ 
Sbjct: 140 KAFADELGIPFLETSAKDSTNVEQAFLTMAAEIKKKMGSQPTSSKSSGNVQMKGQPIQQK 199

Query: 62  SNCC 65
           S+CC
Sbjct: 200 SSCC 203

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|303748|dbj|BAA02115.1| GTP-binding protein [Pisum sativum] gi|738939|prf||2001457G GTP-binding protein

 Score =  115 bits (288), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 53/65 (81%), Positives = 61/65 (93%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQMKGQPIQQN 61
           +AFADELGIPFLETSAKD+INVEQAFLTMA EIKKKMG+QP+ +KS+ +VQMKGQPI QN
Sbjct: 137 KAFADELGIPFLETSAKDSINVEQAFLTMAAEIKKKMGSQPSGSKSAESVQMKGQPIPQN 196

Query: 62  SNCCG 66
           +NCCG
Sbjct: 197 NNCCG 201

Source: Pisum sativum

Species: Pisum sativum

Genus: Pisum

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357445239|ref|XP_003592897.1| Ras-like protein [Medicago truncatula] gi|355481945|gb|AES63148.1| Ras-like protein [Medicago truncatula]

 Score =  114 bits (286), Expect = 6e-24,   Method: Compositional matrix adjust.
 Identities = 54/66 (81%), Positives = 61/66 (92%), Gaps = 1/66 (1%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSG-TVQMKGQPIQQ 60
           +AFADELGIPFLETSAKD+INVEQAFLTMA EIK KMG+QPT +KS+  +VQMKGQPIQQ
Sbjct: 98  KAFADELGIPFLETSAKDSINVEQAFLTMAAEIKNKMGSQPTGSKSAAESVQMKGQPIQQ 157

Query: 61  NSNCCG 66
           N+NCCG
Sbjct: 158 NTNCCG 163

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

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	66
TAIR|locus:2081486	205	ATFP8 [Arabidopsis thaliana (t	0.984	0.317	0.808	2.9e-23
TAIR|locus:2205603	203	RA-5 "RAS 5" [Arabidopsis thal	0.969	0.315	0.584	5.3e-17
TAIR|locus:2129161	202	RAB1C "RAB GTPase homolog 1C"	0.969	0.316	0.593	8.6e-17
TAIR|locus:2171484	202	RAB1A "RAB GTPase homolog 1A"	0.969	0.316	0.593	1.1e-16
ZFIN|ZDB-GENE-030616-564	201	rab1a "RAB1A, member RAS oncog	0.939	0.308	0.603	1.8e-14
UNIPROTKB|F1NNL7	205	RAB1A "Uncharacterized protein	0.939	0.302	0.578	7.9e-14
UNIPROTKB|Q90YX6	94	RAB1A "Uncharacterized protein	0.939	0.659	0.578	7.9e-14
UNIPROTKB|A1L528	205	RAB1A "RAB1A, member RAS oncog	0.939	0.302	0.562	2.1e-13
UNIPROTKB|Q3ZBD1	173	RAB1A "RAB1A, member RAS oncog	0.939	0.358	0.562	2.1e-13
UNIPROTKB|F1Q0H3	250	RAB1A "Ras-related protein Rab	0.939	0.248	0.562	2.1e-13

TAIR|locus:2081486 ATFP8 [Arabidopsis thaliana (taxid:3702)]

 Score = 268 (99.4 bits), Expect = 2.9e-23, P = 2.9e-23
 Identities = 55/68 (80%), Positives = 61/68 (89%)

Query:     2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSG--TVQMKGQPIQ 59
             +A ADELGIPFLETSAKD+INVEQAFLT+AGEIKKKMG+Q  ANK+SG  TVQMKGQPIQ
Sbjct:   137 RALADELGIPFLETSAKDSINVEQAFLTIAGEIKKKMGSQTNANKTSGPGTVQMKGQPIQ 196

Query:    60 QNSN-CCG 66
             QN+  CCG
Sbjct:   197 QNNGGCCG 204

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

GO:0005794 "Golgi apparatus" evidence=ISM

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

GO:0015031 "protein transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0030742 "GTP-dependent protein binding" evidence=IPI

GO:0080115 "myosin XI tail binding" evidence=IPI

GO:0000139 "Golgi membrane" evidence=IDA

GO:0006888 "ER to Golgi vesicle-mediated transport" evidence=IMP

GO:0032588 "trans-Golgi network membrane" evidence=IDA

TAIR|locus:2205603 RA-5 "RAS 5" [Arabidopsis thaliana (taxid:3702)]

 Score = 209 (78.6 bits), Expect = 5.3e-17, P = 5.3e-17
 Identities = 38/65 (58%), Positives = 51/65 (78%)

Query:     2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSG-TVQMKGQPIQQ 60
             +AFADE+GIPF+ETSAKDA NVEQAF+ M+  IK++M +QP  N +   TVQ++GQP+ Q
Sbjct:   137 KAFADEIGIPFMETSAKDATNVEQAFMAMSASIKERMASQPAGNNARPPTVQIRGQPVAQ 196

Query:    61 NSNCC 65
              + CC
Sbjct:   197 KNGCC 201

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

GO:0005794 "Golgi apparatus" evidence=ISM

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

GO:0015031 "protein transport" evidence=IEA

GO:0006888 "ER to Golgi vesicle-mediated transport" evidence=IMP;IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005773 "vacuole" evidence=IDA

GO:0046686 "response to cadmium ion" evidence=IEP

GO:0000139 "Golgi membrane" evidence=IDA

GO:0032588 "trans-Golgi network membrane" evidence=IDA

TAIR|locus:2129161 RAB1C "RAB GTPase homolog 1C" [Arabidopsis thaliana (taxid:3702)]

 Score = 207 (77.9 bits), Expect = 8.6e-17, P = 8.6e-17
 Identities = 38/64 (59%), Positives = 47/64 (73%)

Query:     2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQMKGQPIQQN 61
             +AFADELGIPFLETSAK+A NVE+AF+ M   IK +M +QP       TVQ++GQP+ Q 
Sbjct:   137 KAFADELGIPFLETSAKNATNVEEAFMAMTAAIKTRMASQPAGGSKPPTVQIRGQPVNQQ 196

Query:    62 SNCC 65
             S CC
Sbjct:   197 SGCC 200

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

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

GO:0015031 "protein transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005773 "vacuole" evidence=IDA

GO:0016020 "membrane" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0005794 "Golgi apparatus" evidence=IDA

GO:0009555 "pollen development" evidence=IMP

GO:0009860 "pollen tube growth" evidence=IGI

GO:0009506 "plasmodesma" evidence=IDA

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

TAIR|locus:2171484 RAB1A "RAB GTPase homolog 1A" [Arabidopsis thaliana (taxid:3702)]

 Score = 206 (77.6 bits), Expect = 1.1e-16, P = 1.1e-16
 Identities = 38/64 (59%), Positives = 47/64 (73%)

Query:     2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQMKGQPIQQN 61
             +AFADELGIPFLETSAK+A NVE+AF+ M   IK +M +QP       TVQ++GQP+ Q 
Sbjct:   137 KAFADELGIPFLETSAKNATNVEEAFMAMTAAIKTRMASQPAGGAKPPTVQIRGQPVNQQ 196

Query:    62 SNCC 65
             S CC
Sbjct:   197 SGCC 200

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

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

GO:0015031 "protein transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005829 "cytosol" evidence=RCA

GO:0005794 "Golgi apparatus" evidence=IDA

GO:0009860 "pollen tube growth" evidence=IGI

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

GO:0010200 "response to chitin" evidence=RCA

ZFIN|ZDB-GENE-030616-564 rab1a "RAB1A, member RAS oncogene family" [Danio rerio (taxid:7955)]

 Score = 185 (70.2 bits), Expect = 1.8e-14, P = 1.8e-14
 Identities = 38/63 (60%), Positives = 47/63 (74%)

Query:     4 FADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQMKGQPIQQNSN 63
             FAD LGIPFLETSAK+A NVEQAF+TMA EIKK+MG   TA  S  T++++  P++  S 
Sbjct:   139 FADSLGIPFLETSAKNATNVEQAFMTMAAEIKKRMGPGATAGGSEKTMKIESTPVKPASG 198

Query:    64 -CC 65
              CC
Sbjct:   199 GCC 201

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

UNIPROTKB|F1NNL7 RAB1A "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 179 (68.1 bits), Expect = 7.9e-14, P = 7.9e-14
 Identities = 37/64 (57%), Positives = 48/64 (75%)

Query:     4 FADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSS-GTVQMKGQPIQQNS 62
             FAD LGIPFLETSAK+A NVEQ+F+TMA EIKK+MG   TA  +    V+++  P++Q+S
Sbjct:   142 FADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGATAGGAEKSNVKIQSTPVKQSS 201

Query:    63 N-CC 65
               CC
Sbjct:   202 GGCC 205

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

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

UNIPROTKB|Q90YX6 RAB1A "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 179 (68.1 bits), Expect = 7.9e-14, P = 7.9e-14
 Identities = 37/64 (57%), Positives = 48/64 (75%)

Query:     4 FADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSS-GTVQMKGQPIQQNS 62
             FAD LGIPFLETSAK+A NVEQ+F+TMA EIKK+MG   TA  +    V+++  P++Q+S
Sbjct:    31 FADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGATAGGAEKSNVKIQSTPVKQSS 90

Query:    63 N-CC 65
               CC
Sbjct:    91 GGCC 94

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

GO:0005525 "GTP binding" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

UNIPROTKB|A1L528 RAB1A "RAB1A, member RAS oncogene family" [Bos taurus (taxid:9913)]

 Score = 175 (66.7 bits), Expect = 2.1e-13, P = 2.1e-13
 Identities = 36/64 (56%), Positives = 47/64 (73%)

Query:     4 FADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSS-GTVQMKGQPIQQNS 62
             FAD LGIPFLETSAK+A NVEQ+F+TMA EIKK+MG   TA  +    V+++  P++Q+ 
Sbjct:   142 FADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGATAGGAEKSNVKIQSTPVKQSG 201

Query:    63 N-CC 65
               CC
Sbjct:   202 GGCC 205

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

UNIPROTKB|Q3ZBD1 RAB1A "RAB1A, member RAS oncogene family" [Bos taurus (taxid:9913)]

 Score = 175 (66.7 bits), Expect = 2.1e-13, P = 2.1e-13
 Identities = 36/64 (56%), Positives = 47/64 (73%)

Query:     4 FADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSS-GTVQMKGQPIQQNS 62
             FAD LGIPFLETSAK+A NVEQ+F+TMA EIKK+MG   TA  +    V+++  P++Q+ 
Sbjct:   110 FADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGATAGGAEKSNVKIQSTPVKQSG 169

Query:    63 N-CC 65
               CC
Sbjct:   170 GGCC 173

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

UNIPROTKB|F1Q0H3 RAB1A "Ras-related protein Rab-1A" [Canis lupus familiaris (taxid:9615)]

 Score = 175 (66.7 bits), Expect = 2.1e-13, P = 2.1e-13
 Identities = 36/64 (56%), Positives = 47/64 (73%)

Query:     4 FADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSS-GTVQMKGQPIQQNS 62
             FAD LGIPFLETSAK+A NVEQ+F+TMA EIKK+MG   TA  +    V+++  P++Q+ 
Sbjct:   187 FADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGATAGGAEKSNVKIQSTPVKQSG 246

Query:    63 N-CC 65
               CC
Sbjct:   247 GGCC 250

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9ZRE2	RABD1_ARATH	No assigned EC number	0.8088	0.9848	0.3170	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: estExt_Genewise1_v1.C_860099 hypothetical protein (202 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	66
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	2e-18
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	2e-14
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	5e-14
pfam00071	162	pfam00071, Ras, Ras family	2e-13
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	3e-10
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	5e-10
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	2e-09
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	4e-09
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	8e-09
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	1e-08
cd04138	162	cd04138, H_N_K_Ras_like, Ras GTPase family contain	1e-08
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	6e-08
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	6e-08
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	1e-07
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	2e-07
PTZ00369	189	PTZ00369, PTZ00369, Ras-like protein; Provisional	3e-07
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	5e-07
cd04139	163	cd04139, RalA_RalB, Ral (Ras-like) family containi	1e-06
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	3e-06
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	3e-06
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	7e-06
cd04145	164	cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3	9e-06
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	1e-05
cd04144	190	cd04144, Ras2, Rat sarcoma (Ras) family 2 of small	4e-05
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	5e-05
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	6e-05
cd04176	163	cd04176, Rap2, Rap2 family GTPase consists of Rap2	1e-04
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	1e-04
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	1e-04
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	1e-04
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	1e-04
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	2e-04
cd04175	164	cd04175, Rap1, Rap1 family GTPase consists of Rap1	4e-04
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	7e-04
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	8e-04
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	0.001
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	0.003
cd04132	197	cd04132, Rho4_like, Ras homology family 4 (Rho4) o	0.004

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

 Score = 73.1 bits (180), Expect = 2e-18
 Identities = 28/36 (77%), Positives = 33/36 (91%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37
           + FADELGIPFLETSAK+A NVE+AF+TMA EIKK+
Sbjct: 131 KEFADELGIPFLETSAKNATNVEEAFMTMAREIKKR 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|197555 smart00175, RAB, Rab subfamily of small GTPases

 Score = 62.9 bits (154), Expect = 2e-14
 Identities = 21/36 (58%), Positives = 27/36 (75%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37
           +AFA+E G+PF ETSAK   NVE+AF  +A EI K+
Sbjct: 129 EAFAEEHGLPFFETSAKTNTNVEEAFEELAREILKR 164

Rab GTPases are implicated in vesicle trafficking. Length = 164

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

 Score = 61.9 bits (151), Expect = 5e-14
 Identities = 24/36 (66%), Positives = 28/36 (77%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37
           +A A E GI FLETSAK  INVE+AFLT+A +I KK
Sbjct: 132 EALAREYGIKFLETSAKANINVEEAFLTLAKDILKK 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|215692 pfam00071, Ras, Ras family

 Score = 60.2 bits (147), Expect = 2e-13
 Identities = 21/35 (60%), Positives = 26/35 (74%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36
           +A A ELG+PF+ETSAK   NVE+AF  +A EI K
Sbjct: 128 EALAKELGLPFMETSAKTNENVEEAFEELAREILK 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|206658 cd01866, Rab2, Rab GTPase family 2 (Rab2)

 Score = 52.0 bits (125), Expect = 3e-10
 Identities = 21/36 (58%), Positives = 26/36 (72%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37
           +AFA E G+ F+ETSAK A NVE+AF+  A EI  K
Sbjct: 133 EAFAREHGLIFMETSAKTASNVEEAFINTAKEIYDK 168

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

 Score = 51.8 bits (124), Expect = 5e-10
 Identities = 24/64 (37%), Positives = 38/64 (59%), Gaps = 2/64 (3%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQMKGQPIQQN 61
           +  A E G+PF+ETSAK  +NVE AF  +A E+K +   QP  ++    +Q   +  +++
Sbjct: 130 ERLAKEYGVPFMETSAKTGLNVELAFTAVAKELKHRSVEQP--DEPKFKIQDYVEKQKKS 187

Query: 62  SNCC 65
           S CC
Sbjct: 188 SGCC 191

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

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

 Score = 49.4 bits (119), Expect = 2e-09
 Identities = 16/30 (53%), Positives = 21/30 (70%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMA 31
           Q FA E G+ F ETSAK   NV++AF ++A
Sbjct: 129 QQFAKENGLLFFETSAKTGENVDEAFESLA 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|214541 smart00173, RAS, Ras subfamily of RAS small GTPases

 Score = 48.7 bits (117), Expect = 4e-09
 Identities = 18/36 (50%), Positives = 26/36 (72%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37
           +  A + G PFLETSAK+ +NV++AF  +  EI+KK
Sbjct: 129 KELARQWGCPFLETSAKERVNVDEAFYDLVREIRKK 164

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

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

 Score = 48.3 bits (116), Expect = 8e-09
 Identities = 18/36 (50%), Positives = 25/36 (69%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37
           +  A + G PFLETSAK+ INV++AF  +  EI+K 
Sbjct: 131 KELARQWGCPFLETSAKERINVDEAFYDLVREIRKS 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|206660 cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-like includes Rab11a, Rab11b, and Rab25

 Score = 47.9 bits (115), Expect = 1e-08
 Identities = 17/33 (51%), Positives = 24/33 (72%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEI 34
           +AFA++ G+ F+ETSA D  NVE+AF  +  EI
Sbjct: 132 KAFAEKNGLSFIETSALDGTNVEEAFKQLLTEI 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|133338 cd04138, H_N_K_Ras_like, Ras GTPase family containing H-Ras,N-Ras and K-Ras4A/4B

 Score = 47.8 bits (114), Expect = 1e-08
 Identities = 17/34 (50%), Positives = 22/34 (64%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIK 35
           Q  A   GIP++ETSAK    VE+AF T+  EI+
Sbjct: 129 QDLAKSYGIPYIETSAKTRQGVEEAFYTLVREIR 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|206709 cd04137, RheB, Ras Homolog Enriched in Brain (RheB) is a small GTPase

 Score = 46.1 bits (110), Expect = 6e-08
 Identities = 19/47 (40%), Positives = 26/47 (55%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSS 48
           +  A+  G  FLE+SAK+  NVE+AF  +  EI+K     P   KS 
Sbjct: 130 KKLAESWGAAFLESSAKENENVEEAFELLIEEIEKVENPLPPGQKSK 176

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|178655 PLN03108, PLN03108, Rab family protein; Provisional

 Score = 46.5 bits (110), Expect = 6e-08
 Identities = 26/76 (34%), Positives = 36/76 (47%), Gaps = 12/76 (15%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM--GNQPTANKSSG---------- 49
           + FA E G+ F+E SAK A NVE+AF+  A +I KK+  G    +N+S G          
Sbjct: 135 EQFAKEHGLIFMEASAKTAQNVEEAFIKTAAKIYKKIQDGVFDVSNESYGIKVGYGAIPG 194

Query: 50  TVQMKGQPIQQNSNCC 65
               +     Q   CC
Sbjct: 195 ASGGRDGTSSQGGGCC 210

Length = 210

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

 Score = 45.2 bits (108), Expect = 1e-07
 Identities = 18/33 (54%), Positives = 24/33 (72%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEI 34
           +A A+E G PFLETSAK  IN+++ F T+  EI
Sbjct: 128 EALAEEWGCPFLETSAKTNINIDELFNTLVREI 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|178657 PLN03110, PLN03110, Rab GTPase; Provisional

 Score = 44.9 bits (106), Expect = 2e-07
 Identities = 27/74 (36%), Positives = 36/74 (48%), Gaps = 10/74 (13%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEI-----KKKMGNQPTANKSS-----GTV 51
           QA A++ G+ FLETSA +A NVE+AF T+  EI     KK +  Q  A  S       T+
Sbjct: 141 QALAEKEGLSFLETSALEATNVEKAFQTILLEIYHIISKKALAAQEAAANSGLPGQGTTI 200

Query: 52  QMKGQPIQQNSNCC 65
            +          CC
Sbjct: 201 NVADTSGNNKRGCC 214

Length = 216

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

 Score = 44.5 bits (105), Expect = 3e-07
 Identities = 20/43 (46%), Positives = 28/43 (65%), Gaps = 1/43 (2%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM-GNQPT 43
           Q  A   GIPFLETSAK  +NV++AF  +  EI+K +  + P+
Sbjct: 134 QELAKSFGIPFLETSAKQRVNVDEAFYELVREIRKYLKEDMPS 176

Length = 189

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

 Score = 43.3 bits (103), Expect = 5e-07
 Identities = 15/33 (45%), Positives = 22/33 (66%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEI 34
           Q +ADE G+ F+ETSAK   NV + F  +A ++
Sbjct: 130 QEYADENGLLFMETSAKTGENVNELFTEIARKL 162

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

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

 Score = 42.8 bits (101), Expect = 1e-06
 Identities = 12/35 (34%), Positives = 22/35 (62%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36
              A++ G+ ++ETSAK   NV++ F  +  EI++
Sbjct: 129 ANLAEQWGVNYVETSAKTRANVDKVFFDLVREIRQ 163

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

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

 Score = 41.5 bits (98), Expect = 3e-06
 Identities = 18/31 (58%), Positives = 23/31 (74%), Gaps = 1/31 (3%)

Query: 2   QAFADELG-IPFLETSAKDAINVEQAFLTMA 31
           Q +    G IP+ ETSAK+AINV+QAF T+A
Sbjct: 133 QQWCKSKGNIPYFETSAKEAINVDQAFETIA 163

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|133322 cd04122, Rab14, Rab GTPase family 14 (Rab14)

 Score = 41.4 bits (97), Expect = 3e-06
 Identities = 19/36 (52%), Positives = 23/36 (63%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37
           + FADE G+ FLE SAK   NVE AFL  A +I + 
Sbjct: 131 KQFADENGLLFLECSAKTGENVEDAFLETAKKIYQN 166

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

 Score = 40.8 bits (96), Expect = 7e-06
 Identities = 18/68 (26%), Positives = 30/68 (44%), Gaps = 3/68 (4%)

Query: 1   MQAFADELGIP-FLETSAKDAINVEQAFLTMAGEIKKKMGN--QPTANKSSGTVQMKGQP 57
           M  F  E G   + ETSAK+ IN+E+A   +   I K       P  ++ +     +   
Sbjct: 134 MDQFCKENGFIGWFETSAKENINIEEAMRFLVKNILKNDKGLQSPEPDEDNVIDLKQETT 193

Query: 58  IQQNSNCC 65
             ++ +CC
Sbjct: 194 TSKSKSCC 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|133345 cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3

 Score = 40.1 bits (94), Expect = 9e-06
 Identities = 15/26 (57%), Positives = 21/26 (80%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAF 27
           Q  A +L IP++ETSAKD +NV++AF
Sbjct: 131 QELARQLKIPYIETSAKDRVNVDKAF 156

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|206656 cd01863, Rab18, Rab GTPase family 18 (Rab18)

 Score = 39.6 bits (93), Expect = 1e-05
 Identities = 14/26 (53%), Positives = 18/26 (69%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAF 27
           Q FA +  + F+ETSAK  I V+QAF
Sbjct: 129 QKFARKHNMLFIETSAKTRIGVQQAF 154

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

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

 Score = 38.7 bits (90), Expect = 4e-05
 Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 1/49 (2%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGT 50
            A A  LG  F+E SAK  +NVE+AF T+   ++++        K   T
Sbjct: 130 AALARRLGCEFIEASAKTNVNVERAFYTLVRALRQQR-QGGQGPKGGPT 177

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

 Score = 38.0 bits (88), Expect = 5e-05
 Identities = 14/26 (53%), Positives = 18/26 (69%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAF 27
           +  AD+LG  F E SAK+ INV+Q F
Sbjct: 130 RQLADQLGFEFFEASAKENINVKQVF 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|133267 cd01864, Rab19, Rab GTPase family 19 (Rab19)

 Score = 37.8 bits (88), Expect = 6e-05
 Identities = 18/34 (52%), Positives = 23/34 (67%), Gaps = 1/34 (2%)

Query: 2   QAFADELGIPF-LETSAKDAINVEQAFLTMAGEI 34
              A+  GI   LETSAK++ NVE+AFL MA E+
Sbjct: 132 CTLAEHYGILAVLETSAKESSNVEEAFLLMATEL 165

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

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

 Score = 37.5 bits (87), Expect = 1e-04
 Identities = 13/33 (39%), Positives = 20/33 (60%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEI 34
           +A A+E G PF+ETSAK    V + F  +  ++
Sbjct: 130 RALAEEWGCPFMETSAKSKTMVNELFAEIVRQM 162

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

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

 Score = 37.2 bits (86), Expect = 1e-04
 Identities = 14/31 (45%), Positives = 22/31 (70%)

Query: 4   FADELGIPFLETSAKDAINVEQAFLTMAGEI 34
           F+D   + +LETSAK++ NVE+ FL +A  +
Sbjct: 138 FSDAQDMYYLETSAKESDNVEKLFLDLACRL 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|206654 cd01861, Rab6, Rab GTPase family 6 (Rab6)

 Score = 36.8 bits (86), Expect = 1e-04
 Identities = 13/34 (38%), Positives = 18/34 (52%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEI 34
            +  A E    F+ETSAK   NV+Q F  +A  +
Sbjct: 128 GEKKAKENNAMFIETSAKAGHNVKQLFKKIAQAL 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|133310 cd04110, Rab35, Rab GTPase family 35 (Rab35)

 Score = 37.1 bits (86), Expect = 1e-04
 Identities = 18/68 (26%), Positives = 28/68 (41%), Gaps = 7/68 (10%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEI----KKKMGNQPTANKSSGTVQMKGQP 57
             FA ++GI   ETSAK+ INVE+ F  +   +    K  +  Q    ++      K   
Sbjct: 134 YKFAGQMGISLFETSAKENINVEEMFNCITELVLRAKKDNLAKQQQQQQNDVVKLPKN-- 191

Query: 58  IQQNSNCC 65
             +    C
Sbjct: 192 -SKRKKRC 198

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

 Score = 37.1 bits (86), Expect = 1e-04
 Identities = 17/37 (45%), Positives = 23/37 (62%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38
           +  AD+ GIP+ ETSA    NVE+A  T+   I K+M
Sbjct: 144 RELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRM 180

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

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

 Score = 36.7 bits (85), Expect = 2e-04
 Identities = 14/37 (37%), Positives = 25/37 (67%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38
           +  A +LG+ ++ETSA+   NVE+AF  +  EI +++
Sbjct: 133 EKLAKDLGMKYIETSARTGDNVEEAFELLTQEIYERI 169

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

 Score = 35.6 bits (82), Expect = 4e-04
 Identities = 15/35 (42%), Positives = 20/35 (57%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36
           Q  A + G  FLETSAK  INV + F  +  +I +
Sbjct: 130 QNLARQWGCAFLETSAKAKINVNEIFYDLVRQINR 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|206699 cd04120, Rab12, Rab GTPase family 12 (Rab12)

 Score = 35.0 bits (80), Expect = 7e-04
 Identities = 19/51 (37%), Positives = 30/51 (58%), Gaps = 1/51 (1%)

Query: 2   QAFADEL-GIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTV 51
           + FA ++ G+ F E SAKD  NV++ FL +  +I KKM      N+ S ++
Sbjct: 129 EKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKKMPLDILRNELSNSI 179

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

 Score = 34.9 bits (81), Expect = 8e-04
 Identities = 11/33 (33%), Positives = 19/33 (57%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEI 34
           + +A  +G    ETSAK    +E+ FL++A  +
Sbjct: 129 EEYAKSVGAKHFETSAKTGKGIEELFLSLAKRM 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|206696 cd04113, Rab4, Rab GTPase family 4 (Rab4)

 Score = 34.7 bits (80), Expect = 0.001
 Identities = 18/32 (56%), Positives = 20/32 (62%)

Query: 3   AFADELGIPFLETSAKDAINVEQAFLTMAGEI 34
            FA E G+ FLETSA    NVE+AFL  A  I
Sbjct: 130 RFAQENGLLFLETSALTGENVEEAFLKCARSI 161

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

>gnl|CDD|215587 PLN03118, PLN03118, Rab family protein; Provisional

 Score = 33.5 bits (76), Expect = 0.003
 Identities = 24/66 (36%), Positives = 28/66 (42%), Gaps = 3/66 (4%)

Query: 3   AFADELGIPFLETSAKDAINVEQAFLTMA---GEIKKKMGNQPTANKSSGTVQMKGQPIQ 59
           A A E G  FLE SAK   NVEQ F  +A    E+   +    TA K +   Q       
Sbjct: 145 ALAKEHGCLFLECSAKTRENVEQCFEELALKIMEVPSLLEEGSTAVKRNILKQKPEHQPP 204

Query: 60  QNSNCC 65
            N  CC
Sbjct: 205 PNGGCC 210

Length = 211

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

 Score = 33.1 bits (76), Expect = 0.004
 Identities = 12/47 (25%), Positives = 20/47 (42%), Gaps = 1/47 (2%)

Query: 2   QAFADELG-IPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKS 47
           ++ A  +G + ++E SAK   NV++ F         K G      K 
Sbjct: 144 ESVAKSIGAVAYIECSAKLMENVDEVFDAAINVALSKSGRAARKKKK 190

Rho4 is a GTPase that controls septum degradation by regulating secretion of Eng1 or Agn1 during cytokinesis. Rho4 also plays a role in cell morphogenesis. Rho4 regulates septation and cell morphology by controlling the actin cytoskeleton and cytoplasmic microtubules. The localization of Rho4 is modulated by Rdi1, which may function as a GDI, and by Rga9, which is believed to function as a GAP. In S. pombe, both Rho4 deletion and Rho4 overexpression result in a defective cell wall, suggesting a role for Rho4 in maintaining cell wall integrity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Length = 197

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	66
KOG0092	200	consensus GTPase Rab5/YPT51 and related small G pr	99.62
KOG0091	213	consensus GTPase Rab39, small G protein superfamil	99.59
KOG0078	207	consensus GTP-binding protein SEC4, small G protei	99.57
KOG0084	205	consensus GTPase Rab1/YPT1, small G protein superf	99.53
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.51
KOG0098	216	consensus GTPase Rab2, small G protein superfamily	99.45
KOG0083	192	consensus GTPase Rab26/Rab37, small G protein supe	99.43
KOG0394	210	consensus Ras-related GTPase [General function pre	99.42
KOG0080	209	consensus GTPase Rab18, small G protein superfamil	99.34
KOG0097	215	consensus GTPase Rab14, small G protein superfamil	99.3
KOG0088	218	consensus GTPase Rab21, small G protein superfamil	99.28
KOG0079	198	consensus GTP-binding protein H-ray, small G prote	99.27
KOG0094	221	consensus GTPase Rab6/YPT6/Ryh1, small G protein s	99.2
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.2
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.2
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	99.19
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.17
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	99.17
PLN03110	216	Rab GTPase; Provisional	99.14
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.12
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.11
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	99.11
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	99.11
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.08
KOG0093	193	consensus GTPase Rab3, small G protein superfamily	99.05
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.05
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	99.05
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.03
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.03
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	99.02
PLN03108	210	Rab family protein; Provisional	99.0
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	98.99
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	98.98
KOG0087	222	consensus GTPase Rab11/YPT3, small G protein super	98.98
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	98.97
KOG0081	219	consensus GTPase Rab27, small G protein superfamil	98.97
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	98.92
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	98.92
PTZ00099	176	rab6; Provisional	98.92
PLN03118	211	Rab family protein; Provisional	98.91
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	98.91
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	98.89
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	98.88
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	98.86
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	98.85
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	98.84
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	98.84
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	98.83
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	98.82
PTZ00369	189	Ras-like protein; Provisional	98.81
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	98.8
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	98.78
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	98.74
KOG0395	196	consensus Ras-related GTPase [General function pre	98.74
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	98.74
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	98.73
KOG0095	213	consensus GTPase Rab30, small G protein superfamil	98.73
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	98.71
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	98.69
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	98.69
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	98.68
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	98.67
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	98.66
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	98.65
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	98.65
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	98.64
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	98.63
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	98.62
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	98.61
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	98.61
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	98.6
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	98.59
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	98.56
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	98.56
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	98.55
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	98.51
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	98.51
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	98.49
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	98.49
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	98.49
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	98.48
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	98.48
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	98.43
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	98.42
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	98.4
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	98.36
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	98.35
PRK15467	158	ethanolamine utilization protein EutP; Provisional	98.33
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	98.31
KOG4423	229	consensus GTP-binding protein-like, RAS superfamil	98.31
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	98.3
KOG0393	198	consensus Ras-related small GTPase, Rho type [Gene	98.29
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	98.26
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	98.25
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	98.25
PLN00223	181	ADP-ribosylation factor; Provisional	98.24
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	98.24
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	98.21
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	98.18
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	98.17
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	98.17
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	98.15
PTZ00133	182	ADP-ribosylation factor; Provisional	98.15
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	98.12
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	98.1
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	98.1
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	98.09
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	98.05
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	98.01
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	98.0
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	98.0
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	98.0
TIGR00101	199	ureG urease accessory protein UreG. This model rep	97.99
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	97.97
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	97.97
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	97.94
PRK04213	201	GTP-binding protein; Provisional	97.94
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	97.93
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	97.91
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	97.88
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	97.88
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	97.85
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	97.84
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	97.78
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	97.73
PRK12299	335	obgE GTPase CgtA; Reviewed	97.73
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	97.67
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	97.66
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	97.62
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	97.59
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	97.59
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	97.58
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	97.57
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	97.56
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	97.54
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	97.54
KOG4252	246	consensus GTP-binding protein [Signal transduction	97.5
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	97.47
PRK03003	472	GTP-binding protein Der; Reviewed	97.41
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	97.32
PRK12297	424	obgE GTPase CgtA; Reviewed	97.31
cd00881	189	GTP_translation_factor GTP translation factor fami	97.28
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	97.26
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	97.2
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	97.19
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	97.17
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	97.14
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	97.11
cd01881	176	Obg_like The Obg-like subfamily consists of five w	97.09
PRK15494	339	era GTPase Era; Provisional	97.07
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	97.07
cd01896	233	DRG The developmentally regulated GTP-binding prot	97.04
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	97.0
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	96.93
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	96.89
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	96.83
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	96.79
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	96.78
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	96.77
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	96.75
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	96.71
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	96.68
PRK12296	500	obgE GTPase CgtA; Reviewed	96.62
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	96.37
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	96.35
PRK00093	435	GTP-binding protein Der; Reviewed	96.3
smart00178	184	SAR Sar1p-like members of the Ras-family of small	96.28
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	96.25
PRK04000	411	translation initiation factor IF-2 subunit gamma;	96.23
PRK05306	787	infB translation initiation factor IF-2; Validated	96.21
PRK00098	298	GTPase RsgA; Reviewed	96.2
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	96.19
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	96.17
PRK03003	472	GTP-binding protein Der; Reviewed	96.14
PRK12288	347	GTPase RsgA; Reviewed	96.11
KOG1673	205	consensus Ras GTPases [General function prediction	96.11
PRK11058	426	GTPase HflX; Provisional	96.1
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	96.1
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	96.02
PRK05433	600	GTP-binding protein LepA; Provisional	96.0
CHL00189	742	infB translation initiation factor 2; Provisional	95.99
PRK12298	390	obgE GTPase CgtA; Reviewed	95.95
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	95.88
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	95.87
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	95.86
PRK00089	292	era GTPase Era; Reviewed	95.86
PRK13796	365	GTPase YqeH; Provisional	95.84
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	95.81
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	95.55
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	95.51
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	95.48
KOG3905	473	consensus Dynein light intermediate chain [Cell mo	95.45
KOG0096	216	consensus GTPase Ran/TC4/GSP1 (nuclear protein tra	95.45
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	95.37
PRK12289	352	GTPase RsgA; Reviewed	95.29
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	95.11
PRK00093	435	GTP-binding protein Der; Reviewed	95.1
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	95.09
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	94.96
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	94.94
COG1100	219	GTPase SAR1 and related small G proteins [General	94.79
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	94.77
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	94.61
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	94.58
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	94.43
PRK09435	332	membrane ATPase/protein kinase; Provisional	94.17
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	93.89
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	93.85
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	93.74
KOG0462	650	consensus Elongation factor-type GTP-binding prote	93.7
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	93.59
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	93.09
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	92.9
PRK14845	1049	translation initiation factor IF-2; Provisional	92.68
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	92.66
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	92.52
PRK13768	253	GTPase; Provisional	92.37
PF07764	71	Omega_Repress: Omega Transcriptional Repressor; In	92.05
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	91.94
PRK04004	586	translation initiation factor IF-2; Validated	91.76
KOG3883	198	consensus Ras family small GTPase [Signal transduc	91.76
KOG0705	749	consensus GTPase-activating protein Centaurin gamm	91.75
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	91.62
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	91.38
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	91.24
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	91.01
KOG4271	1100	consensus Rho-GTPase activating protein [Signal tr	90.54
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	90.5
KOG0072	182	consensus GTP-binding ADP-ribosylation factor-like	90.19
PRK12317	425	elongation factor 1-alpha; Reviewed	90.12
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	89.86
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	89.37
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	88.97
COG1160	444	Predicted GTPases [General function prediction onl	88.64
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	87.98
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	87.71
COG2262	411	HflX GTPases [General function prediction only]	87.52
COG3276	447	SelB Selenocysteine-specific translation elongatio	87.34
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	86.57
PLN00043	447	elongation factor 1-alpha; Provisional	86.34
COG1162	301	Predicted GTPases [General function prediction onl	86.14
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	85.91
PRK04004	586	translation initiation factor IF-2; Validated	85.64
COG4359	220	Uncharacterized conserved protein [Function unknow	85.63
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	85.32
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	84.9
KOG0076	197	consensus GTP-binding ADP-ribosylation factor-like	84.15
PHA02436	52	hypothetical protein	82.84
KOG1489	366	consensus Predicted GTP-binding protein (ODN super	82.54
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	82.5
PRK12740	668	elongation factor G; Reviewed	82.41
PRK09563	287	rbgA GTPase YlqF; Reviewed	82.12
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	81.45
KOG4273	418	consensus Uncharacterized conserved protein [Funct	81.17
COG0486	454	ThdF Predicted GTPase [General function prediction	80.86

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

Probab=99.62  E-value=9.2e-16  Score=82.05  Aligned_cols=66  Identities=27%  Similarity=0.428  Sum_probs=46.0

Q ss_pred             CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhcCCCCCCC-CCCcccCCCC-CCCCCCCCCC
Q 035388            1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANK-SSGTVQMKGQ-PIQQNSNCCG   66 (66)
Q Consensus         1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~~~~~~~~-~~~~~~~~~~-~~~~~~~CC~   66 (66)
                      +..||++.++.|||||||||.||+++|..|++.++........... ....+.+... +.....+||+
T Consensus       133 a~~yAe~~gll~~ETSAKTg~Nv~~if~~Ia~~lp~~~~~~~~~~~~~~~g~~l~~~~~~~~~~~~C~  200 (200)
T KOG0092|consen  133 AQAYAESQGLLFFETSAKTGENVNEIFQAIAEKLPCSDPQERQGLPNRRQGVDLNSNQEPARPSGCCA  200 (200)
T ss_pred             HHHHHHhcCCEEEEEecccccCHHHHHHHHHHhccCccccccccccccccceecccCCCCcCcCCcCC
Confidence            3679999999999999999999999999999999865433322111 1123333322 3445667885

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

Probab=99.59  E-value=7.7e-15  Score=77.41  Aligned_cols=40  Identities=40%  Similarity=0.549  Sum_probs=36.2

Q ss_pred             CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhcC
Q 035388            1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGN   40 (66)
Q Consensus         1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~~   40 (66)
                      |+.||..+|+.|+|||||+|.||+++|..|+++|+....+
T Consensus       139 aEklAa~hgM~FVETSak~g~NVeEAF~mlaqeIf~~i~q  178 (213)
T KOG0091|consen  139 AEKLAASHGMAFVETSAKNGCNVEEAFDMLAQEIFQAIQQ  178 (213)
T ss_pred             HHHHHHhcCceEEEecccCCCcHHHHHHHHHHHHHHHHhc
Confidence            4689999999999999999999999999999999876543

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

Probab=99.57  E-value=1.2e-14  Score=78.61  Aligned_cols=39  Identities=49%  Similarity=0.722  Sum_probs=36.0

Q ss_pred             CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388            1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG   39 (66)
Q Consensus         1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~   39 (66)
                      |+++|.++|+.|+|||||+|.||+++|..||+.|+.+..
T Consensus       140 ge~lA~e~G~~F~EtSAk~~~NI~eaF~~La~~i~~k~~  178 (207)
T KOG0078|consen  140 GEALAREYGIKFFETSAKTNFNIEEAFLSLARDILQKLE  178 (207)
T ss_pred             HHHHHHHhCCeEEEccccCCCCHHHHHHHHHHHHHhhcc
Confidence            578999999999999999999999999999999997543

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

Probab=99.53  E-value=7.3e-14  Score=75.08  Aligned_cols=66  Identities=55%  Similarity=0.808  Sum_probs=47.5

Q ss_pred             CHHHHHHhCCC-eEEcccCCCCCHHHHHHHHHHHHHHHhcCCCCCC-CCCCcccCCC-CCCCCCCCCCC
Q 035388            1 MQAFADELGIP-FLETSAKDAINVEQAFLTMAGEIKKKMGNQPTAN-KSSGTVQMKG-QPIQQNSNCCG   66 (66)
Q Consensus         1 ~~~~a~~~~~~-~~etSAkt~~~v~~~F~~l~~~i~~~~~~~~~~~-~~~~~~~~~~-~~~~~~~~CC~   66 (66)
                      ++.||..++++ |+|||||++.||+++|..|+..+..++....... .....+++.. +.....++||+
T Consensus       137 a~~fa~~~~~~~f~ETSAK~~~NVe~~F~~la~~lk~~~~~~~~~~~~~~~~~ql~~~p~~~~~~~~C~  205 (205)
T KOG0084|consen  137 AQEFADELGIPIFLETSAKDSTNVEDAFLTLAKELKQRKGLHVKWSTASLESVQLKGTPVKKSNGGCCE  205 (205)
T ss_pred             HHHHHHhcCCcceeecccCCccCHHHHHHHHHHHHHHhcccCCCCCcCCCCceeeCCCCcccccCCCCC
Confidence            35799999999 9999999999999999999999998765544333 2233344444 22334555875

>cd04126 Rab20 Rab20 subfamily

Probab=99.51  E-value=5e-14  Score=77.31  Aligned_cols=63  Identities=29%  Similarity=0.439  Sum_probs=42.7

Q ss_pred             HHHHHHhC--------------CCeEEcccCCCCCHHHHHHHHHHHHHHHhcCCCCCCCC-CCcccCCCCCCCCCCCCC
Q 035388            2 QAFADELG--------------IPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKS-SGTVQMKGQPIQQNSNCC   65 (66)
Q Consensus         2 ~~~a~~~~--------------~~~~etSAkt~~~v~~~F~~l~~~i~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~CC   65 (66)
                      ..||++++              ++||||||++|.||+++|..+++.++..........+. ..++.+.. +..++++||
T Consensus       143 ~~~a~~~~~~~~~~~~~~~~~~~~~~E~SA~tg~~V~elf~~i~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~  220 (220)
T cd04126         143 KAFYKRINKYKMLDEDLSPAAEKMCFETSAKTGYNVDELFEYLFNLVLPLILAQRAEANRTQGTVNLPN-PKRSKSKCC  220 (220)
T ss_pred             HHHHHHhCccccccccccccccceEEEeeCCCCCCHHHHHHHHHHHHHHHHHhhhhhhhhhhccccCCC-cccCCCCCC
Confidence            46788776              67999999999999999999999988654333222221 22333333 445567787

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

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

Probab=99.45  E-value=1.8e-13  Score=73.39  Aligned_cols=39  Identities=54%  Similarity=0.687  Sum_probs=36.1

Q ss_pred             CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388            1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG   39 (66)
Q Consensus         1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~   39 (66)
                      |++||+++++.|+||||||+.||+++|...+.+|++...
T Consensus       134 GeaFA~ehgLifmETSakt~~~VEEaF~nta~~Iy~~~q  172 (216)
T KOG0098|consen  134 GEAFAREHGLIFMETSAKTAENVEEAFINTAKEIYRKIQ  172 (216)
T ss_pred             HHHHHHHcCceeehhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            578999999999999999999999999999999998643

>KOG0083 consensus GTPase Rab26/Rab37, small G protein superfamily [General function prediction only]

Probab=99.43  E-value=4.9e-13  Score=68.83  Aligned_cols=38  Identities=50%  Similarity=0.737  Sum_probs=35.0

Q ss_pred             CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      |+.+|+.+++||+|||||||.||+-+|..|++++.+..
T Consensus       126 g~kla~~y~ipfmetsaktg~nvd~af~~ia~~l~k~~  163 (192)
T KOG0083|consen  126 GEKLAEAYGIPFMETSAKTGFNVDLAFLAIAEELKKLK  163 (192)
T ss_pred             HHHHHHHHCCCceeccccccccHhHHHHHHHHHHHHhc
Confidence            46799999999999999999999999999999998754

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

Probab=99.42  E-value=4.2e-13  Score=71.81  Aligned_cols=39  Identities=38%  Similarity=0.573  Sum_probs=34.5

Q ss_pred             CHHHHHHhC-CCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388            1 MQAFADELG-IPFLETSAKDAINVEQAFLTMAGEIKKKMG   39 (66)
Q Consensus         1 ~~~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i~~~~~   39 (66)
                      +++||.+.+ ++|||||||.+.||+++|..+++..+....
T Consensus       143 Aq~WC~s~gnipyfEtSAK~~~NV~~AFe~ia~~aL~~E~  182 (210)
T KOG0394|consen  143 AQTWCKSKGNIPYFETSAKEATNVDEAFEEIARRALANED  182 (210)
T ss_pred             HHHHHHhcCCceeEEecccccccHHHHHHHHHHHHHhccc
Confidence            357888875 999999999999999999999999997653

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

Probab=99.34  E-value=3.6e-12  Score=67.30  Aligned_cols=37  Identities=30%  Similarity=0.303  Sum_probs=34.8

Q ss_pred             CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      |..||+.|++.|+|+||||.+||...|++|+.+|++.
T Consensus       140 G~kfAr~h~~LFiE~SAkt~~~V~~~FeelveKIi~t  176 (209)
T KOG0080|consen  140 GLKFARKHRCLFIECSAKTRENVQCCFEELVEKIIET  176 (209)
T ss_pred             HHHHHHhhCcEEEEcchhhhccHHHHHHHHHHHHhcC
Confidence            4679999999999999999999999999999999875

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

Probab=99.30  E-value=1.4e-11  Score=64.09  Aligned_cols=39  Identities=46%  Similarity=0.639  Sum_probs=35.7

Q ss_pred             CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388            1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG   39 (66)
Q Consensus         1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~   39 (66)
                      +++||+++|+.|+|+|||||.||+++|.+.++.|+....
T Consensus       139 ak~faeengl~fle~saktg~nvedafle~akkiyqniq  177 (215)
T KOG0097|consen  139 AKEFAEENGLMFLEASAKTGQNVEDAFLETAKKIYQNIQ  177 (215)
T ss_pred             HHHHHhhcCeEEEEecccccCcHHHHHHHHHHHHHHhhh
Confidence            367999999999999999999999999999999998653

>KOG0088 consensus GTPase Rab21, small G protein superfamily [General function prediction only]

Probab=99.28  E-value=1.8e-11  Score=64.61  Aligned_cols=39  Identities=26%  Similarity=0.553  Sum_probs=35.4

Q ss_pred             CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388            1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG   39 (66)
Q Consensus         1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~   39 (66)
                      ++.||+..|+.|+|||||.+.||.++|..|...+++...
T Consensus       141 Ae~YAesvGA~y~eTSAk~N~Gi~elFe~Lt~~MiE~~s  179 (218)
T KOG0088|consen  141 AEAYAESVGALYMETSAKDNVGISELFESLTAKMIEHSS  179 (218)
T ss_pred             HHHHHHhhchhheecccccccCHHHHHHHHHHHHHHHhh
Confidence            367999999999999999999999999999999988653

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

Probab=99.27  E-value=4.8e-12  Score=66.12  Aligned_cols=64  Identities=28%  Similarity=0.513  Sum_probs=44.8

Q ss_pred             CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhcCCCCCCCCCCcccCCCCCCCCCCCCC
Q 035388            1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQMKGQPIQQNSNCC   65 (66)
Q Consensus         1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~CC   65 (66)
                      ++.||.+.++.+||||||++.||+..|..|++.++..+........+...+.+..+. ...+.||
T Consensus       135 Ar~~A~~mgie~FETSaKe~~NvE~mF~cit~qvl~~k~r~~~~~~r~~~~~l~~n~-~~~~k~c  198 (198)
T KOG0079|consen  135 ARAFALQMGIELFETSAKENENVEAMFHCITKQVLQAKLRESVEQQRADAVSLKDNS-KSTKKCC  198 (198)
T ss_pred             HHHHHHhcCchheehhhhhcccchHHHHHHHHHHHHHHHhhcHHHHhhcceEeccCC-CccccCC
Confidence            357999999999999999999999999999999987652222222224445554433 3334566

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

Probab=99.20  E-value=4e-11  Score=64.83  Aligned_cols=38  Identities=37%  Similarity=0.376  Sum_probs=33.7

Q ss_pred             CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      |+..|+++++.|+|||||+|.||.++|..|+..+....
T Consensus       151 g~~kAkel~a~f~etsak~g~NVk~lFrrIaa~l~~~~  188 (221)
T KOG0094|consen  151 GERKAKELNAEFIETSAKAGENVKQLFRRIAAALPGME  188 (221)
T ss_pred             HHHHHHHhCcEEEEecccCCCCHHHHHHHHHHhccCcc
Confidence            35678999999999999999999999999999887654

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.20  E-value=4.6e-11  Score=64.39  Aligned_cols=37  Identities=38%  Similarity=0.530  Sum_probs=32.7

Q ss_pred             HHHHHHhC-CCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELG-IPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      .++++.++ ..||||||++|.||+++|..|++.+++..
T Consensus       134 ~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~~~l~~~~  171 (201)
T cd04107         134 DQFCKENGFIGWFETSAKEGINIEEAMRFLVKNILAND  171 (201)
T ss_pred             HHHHHHcCCceEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            46788888 68999999999999999999999998754

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.

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.20  E-value=1.6e-11  Score=66.35  Aligned_cols=33  Identities=36%  Similarity=0.494  Sum_probs=30.1

Q ss_pred             CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHH
Q 035388            1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      |++||++++++|||||||+|.||+++|..+++.
T Consensus       162 ~~~~a~~~~~~~~E~SAkt~~~V~e~F~~~~~~  194 (195)
T cd01873         162 GRAVAKELGIPYYETSVVTQFGVKDVFDNAIRA  194 (195)
T ss_pred             HHHHHHHhCCEEEEcCCCCCCCHHHHHHHHHHh
Confidence            467899999999999999999999999999864

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.

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=99.19  E-value=1e-10  Score=64.81  Aligned_cols=38  Identities=26%  Similarity=0.264  Sum_probs=33.7

Q ss_pred             CHHHHHHhCC-CeEEcccCCCC-CHHHHHHHHHHHHHHHh
Q 035388            1 MQAFADELGI-PFLETSAKDAI-NVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         1 ~~~~a~~~~~-~~~etSAkt~~-~v~~~F~~l~~~i~~~~   38 (66)
                      |++||+++++ .|||||||+|. ||+++|..+++.+++..
T Consensus       152 ~~~~a~~~~~~~~~EtSAktg~~~V~e~F~~~~~~~~~~~  191 (232)
T cd04174         152 GCALAKQLGAEVYLECSAFTSEKSIHSIFRSASLLCLNKL  191 (232)
T ss_pred             HHHHHHHcCCCEEEEccCCcCCcCHHHHHHHHHHHHHHhc
Confidence            4679999998 59999999998 89999999999988753

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.

>cd04144 Ras2 Ras2 subfamily

Probab=99.17  E-value=1.4e-10  Score=62.09  Aligned_cols=37  Identities=41%  Similarity=0.660  Sum_probs=32.5

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      .++++.++++|+|+||++|.||+++|..+++.+....
T Consensus       130 ~~~~~~~~~~~~e~SAk~~~~v~~l~~~l~~~l~~~~  166 (190)
T cd04144         130 AALARRLGCEFIEASAKTNVNVERAFYTLVRALRQQR  166 (190)
T ss_pred             HHHHHHhCCEEEEecCCCCCCHHHHHHHHHHHHHHhh
Confidence            4577788899999999999999999999999887654

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.

>cd04121 Rab40 Rab40 subfamily

Probab=99.17  E-value=9.3e-11  Score=63.13  Aligned_cols=38  Identities=29%  Similarity=0.498  Sum_probs=34.1

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG   39 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~   39 (66)
                      +.||+.+++.||||||++|.||+++|..|++.++.+..
T Consensus       134 ~~~a~~~~~~~~e~SAk~g~~V~~~F~~l~~~i~~~~~  171 (189)
T cd04121         134 QAYAERNGMTFFEVSPLCNFNITESFTELARIVLMRHG  171 (189)
T ss_pred             HHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHHHHhcC
Confidence            57888899999999999999999999999998886543

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

>PLN03110 Rab GTPase; Provisional

Probab=99.14  E-value=3.2e-10  Score=61.95  Aligned_cols=37  Identities=51%  Similarity=0.636  Sum_probs=32.2

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      ..++..++++|+|+||++|.||+++|..|+..+.+..
T Consensus       141 ~~l~~~~~~~~~e~SA~~g~~v~~lf~~l~~~i~~~~  177 (216)
T PLN03110        141 QALAEKEGLSFLETSALEATNVEKAFQTILLEIYHII  177 (216)
T ss_pred             HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            3567778899999999999999999999999987643

>cd04110 Rab35 Rab35 subfamily

Probab=99.12  E-value=3.1e-10  Score=61.20  Aligned_cols=38  Identities=37%  Similarity=0.552  Sum_probs=32.8

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG   39 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~   39 (66)
                      ..+++.++..||++||++|.||+++|..|++.++....
T Consensus       134 ~~~~~~~~~~~~e~Sa~~~~gi~~lf~~l~~~~~~~~~  171 (199)
T cd04110         134 YKFAGQMGISLFETSAKENINVEEMFNCITELVLRAKK  171 (199)
T ss_pred             HHHHHHcCCEEEEEECCCCcCHHHHHHHHHHHHHHhhh
Confidence            34677778899999999999999999999999987543

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

>cd04112 Rab26 Rab26 subfamily

Probab=99.11  E-value=3.4e-10  Score=60.63  Aligned_cols=37  Identities=49%  Similarity=0.776  Sum_probs=32.5

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      +.+++.++.+|+|+||++|.||+++|..|++.+....
T Consensus       130 ~~l~~~~~~~~~e~Sa~~~~~v~~l~~~l~~~~~~~~  166 (191)
T cd04112         130 ERLAKEYGVPFMETSAKTGLNVELAFTAVAKELKHRK  166 (191)
T ss_pred             HHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            3567777889999999999999999999999998653

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.

>cd04120 Rab12 Rab12 subfamily

Probab=99.11  E-value=5.5e-10  Score=60.73  Aligned_cols=36  Identities=44%  Similarity=0.769  Sum_probs=31.7

Q ss_pred             HHHHHHh-CCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            2 QAFADEL-GIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~-~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      ++||+++ ++.|||||||+|.||+++|..|++.+...
T Consensus       129 ~~~a~~~~~~~~~etSAktg~gV~e~F~~l~~~~~~~  165 (202)
T cd04120         129 EKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKK  165 (202)
T ss_pred             HHHHHhcCCCEEEEecCCCCCCHHHHHHHHHHHHHHh
Confidence            4577775 78899999999999999999999998765

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

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=99.11  E-value=1e-10  Score=62.59  Aligned_cols=35  Identities=23%  Similarity=0.280  Sum_probs=31.0

Q ss_pred             CHHHHHHhCC-CeEEcccCCCCC-HHHHHHHHHHHHH
Q 035388            1 MQAFADELGI-PFLETSAKDAIN-VEQAFLTMAGEIK   35 (66)
Q Consensus         1 ~~~~a~~~~~-~~~etSAkt~~~-v~~~F~~l~~~i~   35 (66)
                      |++||+++++ +|+|||||+|.| |+++|..+++.++
T Consensus       144 ~~~~a~~~~~~~~~E~SAk~~~n~v~~~F~~~~~~~~  180 (182)
T cd04172         144 GANMAKQIGAATYIECSALQSENSVRDIFHVATLACV  180 (182)
T ss_pred             HHHHHHHcCCCEEEECCcCCCCCCHHHHHHHHHHHHh
Confidence            4678999995 899999999999 9999999998654

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

>cd04111 Rab39 Rab39 subfamily

Probab=99.08  E-value=8.9e-10  Score=60.06  Aligned_cols=37  Identities=38%  Similarity=0.645  Sum_probs=33.3

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      ..+++.++++|+|+||++|.||+++|..|++.+++..
T Consensus       133 ~~~~~~~~~~~~e~Sak~g~~v~e~f~~l~~~~~~~~  169 (211)
T cd04111         133 EKLAKDLGMKYIETSARTGDNVEEAFELLTQEIYERI  169 (211)
T ss_pred             HHHHHHhCCEEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            4678888899999999999999999999999988764

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.

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

Probab=99.05  E-value=1.5e-10  Score=60.49  Aligned_cols=39  Identities=46%  Similarity=0.634  Sum_probs=35.4

Q ss_pred             CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388            1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG   39 (66)
Q Consensus         1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~   39 (66)
                      |+.+++++|..|||||||.+.||+++|..|+..|.+.+.
T Consensus       149 g~~l~~~LGfefFEtSaK~NinVk~~Fe~lv~~Ic~kms  187 (193)
T KOG0093|consen  149 GRQLADQLGFEFFETSAKENINVKQVFERLVDIICDKMS  187 (193)
T ss_pred             HHHHHHHhChHHhhhcccccccHHHHHHHHHHHHHHHhh
Confidence            467999999999999999999999999999999987654

>cd04118 Rab24 Rab24 subfamily

Probab=99.05  E-value=1.3e-09  Score=58.21  Aligned_cols=36  Identities=33%  Similarity=0.505  Sum_probs=31.4

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      .|+..++++++++||++|.||+++|..+++.+.+..
T Consensus       134 ~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~~~~~  169 (193)
T cd04118         134 DFADEIKAQHFETSSKTGQNVDELFQKVAEDFVSRA  169 (193)
T ss_pred             HHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            466677888999999999999999999999998653

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

>cd04131 Rnd Rnd subfamily

Probab=99.05  E-value=2.5e-10  Score=60.81  Aligned_cols=35  Identities=29%  Similarity=0.232  Sum_probs=30.6

Q ss_pred             CHHHHHHhCC-CeEEcccCCCCC-HHHHHHHHHHHHH
Q 035388            1 MQAFADELGI-PFLETSAKDAIN-VEQAFLTMAGEIK   35 (66)
Q Consensus         1 ~~~~a~~~~~-~~~etSAkt~~~-v~~~F~~l~~~i~   35 (66)
                      |++||+++++ +|||||||+|.| |+++|..+++..+
T Consensus       140 ~~~~a~~~~~~~~~E~SA~~~~~~v~~~F~~~~~~~~  176 (178)
T cd04131         140 GCAIAKQLGAEIYLECSAFTSEKSVRDIFHVATMACL  176 (178)
T ss_pred             HHHHHHHhCCCEEEECccCcCCcCHHHHHHHHHHHHh
Confidence            3578999996 799999999995 9999999998655

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.

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.03  E-value=6.2e-10  Score=58.85  Aligned_cols=37  Identities=35%  Similarity=0.524  Sum_probs=33.1

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      +.+++.++++|+||||++|.||+++|..|++.+.+..
T Consensus       131 ~~~a~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~~  167 (172)
T cd04141         131 RNLAREFNCPFFETSAALRHYIDDAFHGLVREIRRKE  167 (172)
T ss_pred             HHHHHHhCCEEEEEecCCCCCHHHHHHHHHHHHHHhc
Confidence            4678888999999999999999999999999988643

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

>cd04125 RabA_like RabA-like subfamily

Probab=99.03  E-value=1.4e-09  Score=57.98  Aligned_cols=38  Identities=50%  Similarity=0.808  Sum_probs=33.0

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG   39 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~   39 (66)
                      ..+++..+++|+|+||++|.||+++|..|++.++....
T Consensus       129 ~~~~~~~~~~~~evSa~~~~~i~~~f~~l~~~~~~~~~  166 (188)
T cd04125         129 KSFCDSLNIPFFETSAKQSINVEEAFILLVKLIIKRLE  166 (188)
T ss_pred             HHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHhh
Confidence            35677778899999999999999999999999987543

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=99.02  E-value=3.9e-10  Score=60.11  Aligned_cols=34  Identities=21%  Similarity=0.374  Sum_probs=30.3

Q ss_pred             HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELGI-PFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ..||+.+++ .|+|||||+|.||+++|..+++.++
T Consensus       139 ~~~a~~~~~~~~~E~SAk~~~nV~~~F~~~~~~~~  173 (176)
T cd04133         139 EELRKQIGAAAYIECSSKTQQNVKAVFDAAIKVVL  173 (176)
T ss_pred             HHHHHHcCCCEEEECCCCcccCHHHHHHHHHHHHh
Confidence            568888887 5999999999999999999998764

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,

>PLN03108 Rab family protein; Provisional

Probab=99.00  E-value=2.5e-09  Score=58.18  Aligned_cols=37  Identities=51%  Similarity=0.732  Sum_probs=33.3

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      +++++.++++|+|+||+++.||+++|..+++.+++..
T Consensus       135 ~~~~~~~~~~~~e~Sa~~~~~v~e~f~~l~~~~~~~~  171 (210)
T PLN03108        135 EQFAKEHGLIFMEASAKTAQNVEEAFIKTAAKIYKKI  171 (210)
T ss_pred             HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            4678888999999999999999999999999998753

>cd01875 RhoG RhoG subfamily

Probab=98.99  E-value=7e-10  Score=59.54  Aligned_cols=35  Identities=23%  Similarity=0.359  Sum_probs=31.1

Q ss_pred             HHHHHHhC-CCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELG-IPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      ++||+.++ .+|||||||+|.||+++|..|++.++.
T Consensus       143 ~~~a~~~~~~~~~e~SAk~g~~v~e~f~~l~~~~~~  178 (191)
T cd01875         143 GALAKQIHAVKYLECSALNQDGVKEVFAEAVRAVLN  178 (191)
T ss_pred             HHHHHHcCCcEEEEeCCCCCCCHHHHHHHHHHHHhc
Confidence            46888888 589999999999999999999998864

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

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=98.98  E-value=2.5e-09  Score=58.96  Aligned_cols=38  Identities=16%  Similarity=0.239  Sum_probs=32.5

Q ss_pred             CHHHHHHhCC-CeEEcccCCCCC-HHHHHHHHHHHHHHHh
Q 035388            1 MQAFADELGI-PFLETSAKDAIN-VEQAFLTMAGEIKKKM   38 (66)
Q Consensus         1 ~~~~a~~~~~-~~~etSAkt~~~-v~~~F~~l~~~i~~~~   38 (66)
                      |..+|+.+++ .||||||+++.| |+++|..+++..+...
T Consensus       140 g~~~ak~~~~~~y~E~SAk~~~~~V~~~F~~~~~~~~~~~  179 (222)
T cd04173         140 GTVLAKQVGAVSYVECSSRSSERSVRDVFHVATVASLGRG  179 (222)
T ss_pred             HHHHHHHcCCCEEEEcCCCcCCcCHHHHHHHHHHHHHhcc
Confidence            3578999995 899999999985 9999999999887643

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

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

Probab=98.98  E-value=2.8e-09  Score=58.20  Aligned_cols=39  Identities=51%  Similarity=0.592  Sum_probs=35.2

Q ss_pred             CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388            1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG   39 (66)
Q Consensus         1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~   39 (66)
                      |..||+..++.|+||||..+.||+.+|..+..+|+....
T Consensus       142 ~k~~Ae~~~l~f~EtSAl~~tNVe~aF~~~l~~I~~~vs  180 (222)
T KOG0087|consen  142 GKAFAEKEGLFFLETSALDATNVEKAFERVLTEIYKIVS  180 (222)
T ss_pred             hHhHHHhcCceEEEecccccccHHHHHHHHHHHHHHHHH
Confidence            467899999999999999999999999999999987543

>cd04103 Centaurin_gamma Centaurin gamma

Probab=98.97  E-value=6.3e-10  Score=58.24  Aligned_cols=32  Identities=25%  Similarity=0.430  Sum_probs=28.0

Q ss_pred             HHHHHHh-CCCeEEcccCCCCCHHHHHHHHHHH
Q 035388            2 QAFADEL-GIPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         2 ~~~a~~~-~~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      ++|++++ ++.|||||||+|.||+++|..+++.
T Consensus       125 ~~~~~~~~~~~~~e~SAk~~~~i~~~f~~~~~~  157 (158)
T cd04103         125 RQLCADMKRCSYYETCATYGLNVERVFQEAAQK  157 (158)
T ss_pred             HHHHHHhCCCcEEEEecCCCCCHHHHHHHHHhh
Confidence            4678776 4899999999999999999999865

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.

>KOG0081 consensus GTPase Rab27, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.97  E-value=1.2e-09  Score=57.91  Aligned_cols=39  Identities=36%  Similarity=0.548  Sum_probs=34.9

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhcC
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGN   40 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~~   40 (66)
                      .++|.++++|||||||-||.||+++.+.|...|+++..+
T Consensus       148 ~~La~kyglPYfETSA~tg~Nv~kave~LldlvM~Rie~  186 (219)
T KOG0081|consen  148 AALADKYGLPYFETSACTGTNVEKAVELLLDLVMKRIEQ  186 (219)
T ss_pred             HHHHHHhCCCeeeeccccCcCHHHHHHHHHHHHHHHHHH
Confidence            568999999999999999999999999999999876543

>cd04132 Rho4_like Rho4-like subfamily

Probab=98.92  E-value=4.2e-09  Score=55.95  Aligned_cols=37  Identities=41%  Similarity=0.443  Sum_probs=32.6

Q ss_pred             HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGI-PFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      .+++..+++ +|||+||++|.||+++|..+++.++...
T Consensus       133 ~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~~  170 (187)
T cd04132         133 ESVAKKQGAFAYLECSAKTMENVEEVFDTAIEEALKKE  170 (187)
T ss_pred             HHHHHHcCCcEEEEccCCCCCCHHHHHHHHHHHHHhhh
Confidence            457788887 8999999999999999999999998654

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.

>cd04128 Spg1 Spg1p

Probab=98.92  E-value=2.1e-09  Score=57.43  Aligned_cols=35  Identities=20%  Similarity=0.371  Sum_probs=31.8

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      ++|++.++++|++||||+|.||+++|..+++.+++
T Consensus       133 ~~~a~~~~~~~~e~SAk~g~~v~~lf~~l~~~l~~  167 (182)
T cd04128         133 RKYAKAMKAPLIFCSTSHSINVQKIFKIVLAKAFD  167 (182)
T ss_pred             HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            45788888999999999999999999999999875

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

>PTZ00099 rab6; Provisional

Probab=98.92  E-value=4.1e-09  Score=56.22  Aligned_cols=37  Identities=30%  Similarity=0.287  Sum_probs=31.9

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      ..+++.++..|+|||||+|.||+++|..|++.+.+..
T Consensus       109 ~~~~~~~~~~~~e~SAk~g~nV~~lf~~l~~~l~~~~  145 (176)
T PTZ00099        109 MQKAQEYNTMFHETSAKAGHNIKVLFKKIAAKLPNLD  145 (176)
T ss_pred             HHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhcc
Confidence            3567777888999999999999999999999987643

>PLN03118 Rab family protein; Provisional

Probab=98.91  E-value=6.8e-09  Score=56.38  Aligned_cols=35  Identities=49%  Similarity=0.506  Sum_probs=31.4

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      .++..+++.|||+||++|.||+++|..|+..++..
T Consensus       145 ~~~~~~~~~~~e~SAk~~~~v~~l~~~l~~~~~~~  179 (211)
T PLN03118        145 ALAKEHGCLFLECSAKTRENVEQCFEELALKIMEV  179 (211)
T ss_pred             HHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence            56777888999999999999999999999999764

>cd04134 Rho3 Rho3 subfamily

Probab=98.91  E-value=2.7e-09  Score=57.12  Aligned_cols=35  Identities=31%  Similarity=0.322  Sum_probs=30.1

Q ss_pred             HHHHHHhC-CCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELG-IPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      .++++..+ +.|||||||+|.||+++|..|++.++.
T Consensus       140 ~~~~~~~~~~~~~e~SAk~~~~v~e~f~~l~~~~~~  175 (189)
T cd04134         140 LAVAKRINALRYLECSAKLNRGVNEAFTEAARVALN  175 (189)
T ss_pred             HHHHHHcCCCEEEEccCCcCCCHHHHHHHHHHHHhc
Confidence            35666766 689999999999999999999998873

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.

>cd04122 Rab14 Rab14 subfamily

Probab=98.89  E-value=3e-09  Score=55.58  Aligned_cols=35  Identities=54%  Similarity=0.696  Sum_probs=31.5

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      .++++.++++|+|+||++|.||+++|..+++.+++
T Consensus       131 ~~~~~~~~~~~~e~Sa~~~~~i~e~f~~l~~~~~~  165 (166)
T cd04122         131 KQFADENGLLFLECSAKTGENVEDAFLETAKKIYQ  165 (166)
T ss_pred             HHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            46788888999999999999999999999998864

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

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

Probab=98.88  E-value=2.4e-09  Score=56.42  Aligned_cols=38  Identities=47%  Similarity=0.540  Sum_probs=34.1

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG   39 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~   39 (66)
                      ..||.++.+.|.||||+||.||+++|...++.|+.+..
T Consensus       138 s~FaqEnel~flETSa~TGeNVEEaFl~c~~tIl~kIE  175 (214)
T KOG0086|consen  138 SRFAQENELMFLETSALTGENVEEAFLKCARTILNKIE  175 (214)
T ss_pred             HhhhcccceeeeeecccccccHHHHHHHHHHHHHHHHh
Confidence            46888888999999999999999999999999987654

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

Probab=98.86  E-value=4.7e-09  Score=54.47  Aligned_cols=34  Identities=44%  Similarity=0.732  Sum_probs=31.7

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      +.++++++.+|+|+||+++.||.++|..+++.++
T Consensus       128 ~~~~~~~~~~~~e~Sa~~~~~v~~~f~~~i~~i~  161 (162)
T PF00071_consen  128 QEFAKELGVPYFEVSAKNGENVKEIFQELIRKIL  161 (162)
T ss_dssp             HHHHHHTTSEEEEEBTTTTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            5689999999999999999999999999999885

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 ....

>cd01874 Cdc42 Cdc42 subfamily

Probab=98.85  E-value=3.5e-09  Score=56.18  Aligned_cols=33  Identities=18%  Similarity=0.245  Sum_probs=28.4

Q ss_pred             HHHHHHhC-CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            2 QAFADELG-IPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         2 ~~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ++++++.+ ..|||+||++|.||+++|..+++..
T Consensus       141 ~~~a~~~~~~~~~e~SA~tg~~v~~~f~~~~~~~  174 (175)
T cd01874         141 EKLARDLKAVKYVECSALTQKGLKNVFDEAILAA  174 (175)
T ss_pred             HHHHHHhCCcEEEEecCCCCCCHHHHHHHHHHHh
Confidence            45777777 6899999999999999999998753

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

>cd04127 Rab27A Rab27a subfamily

Probab=98.84  E-value=6.6e-09  Score=54.83  Aligned_cols=36  Identities=42%  Similarity=0.630  Sum_probs=32.3

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      .+|++.++++|+|+||++|.||+++|..|++.++++
T Consensus       144 ~~~~~~~~~~~~e~Sak~~~~v~~l~~~l~~~~~~~  179 (180)
T cd04127         144 KALADKYGIPYFETSAATGTNVEKAVERLLDLVMKR  179 (180)
T ss_pred             HHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence            467888899999999999999999999999988753

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

>cd01871 Rac1_like Rac1-like subfamily

Probab=98.84  E-value=3.4e-09  Score=56.16  Aligned_cols=32  Identities=28%  Similarity=0.388  Sum_probs=28.1

Q ss_pred             HHHHHHhC-CCeEEcccCCCCCHHHHHHHHHHH
Q 035388            2 QAFADELG-IPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         2 ~~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      .+++++++ +.|+|+||++|.||+++|..+++.
T Consensus       141 ~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  173 (174)
T cd01871         141 LAMAKEIGAVKYLECSALTQKGLKTVFDEAIRA  173 (174)
T ss_pred             HHHHHHcCCcEEEEecccccCCHHHHHHHHHHh
Confidence            45788888 589999999999999999999864

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

>cd04117 Rab15 Rab15 subfamily

Probab=98.83  E-value=4.1e-09  Score=55.03  Aligned_cols=32  Identities=31%  Similarity=0.503  Sum_probs=28.6

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      ..+++.++.+|+|||||+|.||+++|..|++.
T Consensus       129 ~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~  160 (161)
T cd04117         129 NKLAKEYGMDFFETSACTNSNIKESFTRLTEL  160 (161)
T ss_pred             HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHhh
Confidence            45778888999999999999999999999875

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

>cd04129 Rho2 Rho2 subfamily

Probab=98.82  E-value=9.9e-09  Score=54.83  Aligned_cols=35  Identities=23%  Similarity=0.316  Sum_probs=30.4

Q ss_pred             HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGI-PFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      ..+++.++. .||||||++|.||+++|..+++.++.
T Consensus       139 ~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~  174 (187)
T cd04129         139 KRVAKEIGAKKYMECSALTGEGVDDVFEAATRAALL  174 (187)
T ss_pred             HHHHHHhCCcEEEEccCCCCCCHHHHHHHHHHHHhc
Confidence            357788884 79999999999999999999988864

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).

>PTZ00369 Ras-like protein; Provisional

Probab=98.81  E-value=8.8e-09  Score=55.09  Aligned_cols=37  Identities=51%  Similarity=0.840  Sum_probs=32.1

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      ..+++.++.+|++|||++|.||+++|..|++.+.+..
T Consensus       134 ~~~~~~~~~~~~e~Sak~~~gi~~~~~~l~~~l~~~~  170 (189)
T PTZ00369        134 QELAKSFGIPFLETSAKQRVNVDEAFYELVREIRKYL  170 (189)
T ss_pred             HHHHHHhCCEEEEeeCCCCCCHHHHHHHHHHHHHHHh
Confidence            3567777889999999999999999999999987653

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

Probab=98.80  E-value=9.9e-09  Score=55.76  Aligned_cols=35  Identities=26%  Similarity=0.433  Sum_probs=31.5

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      .+++..++.||||||++|.||+++|..|++.++..
T Consensus       122 ~~~~~~~~~~~e~SAk~~~~v~~~F~~l~~~i~~~  156 (200)
T smart00176      122 TFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGD  156 (200)
T ss_pred             HHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence            46777889999999999999999999999999764

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

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

Probab=98.78  E-value=7.5e-09  Score=54.29  Aligned_cols=34  Identities=26%  Similarity=0.334  Sum_probs=30.2

Q ss_pred             HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELGI-PFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      .++++.++. .|+|+||++|.||+++|..+++.++
T Consensus       138 ~~~~~~~~~~~~~e~Sa~~~~~v~~lf~~l~~~~~  172 (174)
T smart00174      138 EALAKRIGAVKYLECSALTQEGVREVFEEAIRAAL  172 (174)
T ss_pred             HHHHHHcCCcEEEEecCCCCCCHHHHHHHHHHHhc
Confidence            358888885 8999999999999999999998875

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

>cd04135 Tc10 TC10 subfamily

Probab=98.74  E-value=1.3e-08  Score=53.41  Aligned_cols=33  Identities=27%  Similarity=0.315  Sum_probs=28.6

Q ss_pred             HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHHHH
Q 035388            2 QAFADELGI-PFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ..+++..+. .|||+||++|.||+++|..+++.+
T Consensus       140 ~~~~~~~~~~~~~e~Sa~~~~gi~~~f~~~~~~~  173 (174)
T cd04135         140 QKLAKEIGAHCYVECSALTQKGLKTVFDEAILAI  173 (174)
T ss_pred             HHHHHHcCCCEEEEecCCcCCCHHHHHHHHHHHh
Confidence            456777774 699999999999999999999876

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

>KOG0395 consensus Ras-related GTPase [General function prediction only]

Probab=98.74  E-value=1.8e-08  Score=54.77  Aligned_cols=36  Identities=39%  Similarity=0.530  Sum_probs=33.0

Q ss_pred             CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      |+.+|..++++|+|||||.+.||+++|..|.+.+-.
T Consensus       131 g~~la~~~~~~f~E~Sak~~~~v~~~F~~L~r~~~~  166 (196)
T KOG0395|consen  131 GKALARSWGCAFIETSAKLNYNVDEVFYELVREIRL  166 (196)
T ss_pred             HHHHHHhcCCcEEEeeccCCcCHHHHHHHHHHHHHh
Confidence            356889999999999999999999999999999876

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=98.74  E-value=2.1e-08  Score=55.02  Aligned_cols=35  Identities=29%  Similarity=0.473  Sum_probs=31.1

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      .+++..++.|||||||+|.||+++|..|++.+++.
T Consensus       140 ~~~~~~~~~~~e~SAk~~~~i~~~f~~l~~~~~~~  174 (219)
T PLN03071        140 TFHRKKNLQYYEISAKSNYNFEKPFLYLARKLAGD  174 (219)
T ss_pred             HHHHhcCCEEEEcCCCCCCCHHHHHHHHHHHHHcC
Confidence            46667788999999999999999999999999764

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

Probab=98.73  E-value=2.5e-08  Score=52.42  Aligned_cols=34  Identities=29%  Similarity=0.450  Sum_probs=30.0

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      ++++..+..||||||++|.||+++|..|++.+++
T Consensus       127 ~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~  160 (166)
T cd00877         127 TFHRKKNLQYYEISAKSNYNFEKPFLWLARKLLG  160 (166)
T ss_pred             HHHHHcCCEEEEEeCCCCCChHHHHHHHHHHHHh
Confidence            4566667889999999999999999999999875

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

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

Probab=98.73  E-value=1.6e-08  Score=53.18  Aligned_cols=38  Identities=39%  Similarity=0.528  Sum_probs=33.3

Q ss_pred             CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      |++|++.+.+.|+|||||+..||+.+|.++|..++...
T Consensus       135 geefs~~qdmyfletsakea~nve~lf~~~a~rli~~a  172 (213)
T KOG0095|consen  135 GEEFSEAQDMYFLETSAKEADNVEKLFLDLACRLISEA  172 (213)
T ss_pred             HHHHHHhhhhhhhhhcccchhhHHHHHHHHHHHHHHHH
Confidence            46788888889999999999999999999998877543

>cd04142 RRP22 RRP22 subfamily

Probab=98.71  E-value=2.7e-08  Score=53.89  Aligned_cols=36  Identities=17%  Similarity=0.114  Sum_probs=30.3

Q ss_pred             HHHH-HhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            3 AFAD-ELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         3 ~~a~-~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      .++. .++++|||||||+|.||+++|..+++.++...
T Consensus       141 ~~~~~~~~~~~~e~Sak~g~~v~~lf~~i~~~~~~~~  177 (198)
T cd04142         141 VLVRKSWKCGYLECSAKYNWHILLLFKELLISATTRG  177 (198)
T ss_pred             HHHHHhcCCcEEEecCCCCCCHHHHHHHHHHHhhccC
Confidence            3443 46899999999999999999999999988543

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.

>cd04109 Rab28 Rab28 subfamily

Probab=98.69  E-value=3.1e-08  Score=54.05  Aligned_cols=36  Identities=28%  Similarity=0.251  Sum_probs=32.3

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      ..+++.++++|+++||++|.||+++|..|++.+...
T Consensus       133 ~~~~~~~~~~~~~iSAktg~gv~~lf~~l~~~l~~~  168 (215)
T cd04109         133 ARFAQANGMESCLVSAKTGDRVNLLFQQLAAELLGV  168 (215)
T ss_pred             HHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            467888889999999999999999999999998764

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

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=98.69  E-value=3.3e-08  Score=51.76  Aligned_cols=35  Identities=69%  Similarity=0.939  Sum_probs=31.2

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      ..+++.++.+|+|+||++|.||+++|..+++.++.
T Consensus       132 ~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i~~~~~~  166 (167)
T cd01867         132 EALADEYGIKFLETSAKANINVEEAFFTLAKDIKK  166 (167)
T ss_pred             HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            35777888999999999999999999999998864

Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhi

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=98.68  E-value=3.9e-08  Score=51.92  Aligned_cols=34  Identities=24%  Similarity=0.276  Sum_probs=30.3

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      .++++++.+|+++||++|.||+++|..|++.+.+
T Consensus       133 ~~~~~~~~~~~e~Sa~~g~~v~~lf~~l~~~~~~  166 (170)
T cd04108         133 KLAAEMQAEYWSVSALSGENVREFFFRVAALTFE  166 (170)
T ss_pred             HHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            5677778899999999999999999999988754

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

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=98.67  E-value=3.9e-08  Score=51.28  Aligned_cols=34  Identities=85%  Similarity=1.138  Sum_probs=30.5

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ..+++.++++|+++||++|.||+++|..|++.+.
T Consensus       131 ~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i~~~~~  164 (166)
T cd01869         131 QEFADELGIPFLETSAKNATNVEQAFMTMAREIK  164 (166)
T ss_pred             HHHHHHcCCeEEEEECCCCcCHHHHHHHHHHHHH
Confidence            4577778899999999999999999999998875

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=98.66  E-value=3.7e-08  Score=51.07  Aligned_cols=34  Identities=29%  Similarity=0.432  Sum_probs=30.3

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ..+++.++++||++||++|.||+++|..|++.++
T Consensus       134 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~l~  167 (168)
T cd04119         134 RLWAESKGFKYFETSACTGEGVNEMFQTLFSSIV  167 (168)
T ss_pred             HHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3577778889999999999999999999998875

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.

>cd01865 Rab3 Rab3 subfamily

Probab=98.65  E-value=4.8e-08  Score=51.04  Aligned_cols=35  Identities=43%  Similarity=0.646  Sum_probs=30.3

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      .++++.++++||++||++|.||+++|..|+..+.+
T Consensus       130 ~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~  164 (165)
T cd01865         130 RQLADQLGFEFFEASAKENINVKQVFERLVDIICD  164 (165)
T ss_pred             HHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            35677778899999999999999999999987654

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

>cd04124 RabL2 RabL2 subfamily

Probab=98.65  E-value=5.6e-08  Score=50.72  Aligned_cols=35  Identities=26%  Similarity=0.298  Sum_probs=30.8

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      .+++.++++++++||++|.||+++|..+++.++++
T Consensus       126 ~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~  160 (161)
T cd04124         126 NFAEKHNLPLYYVSAADGTNVVKLFQDAIKLAVSY  160 (161)
T ss_pred             HHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence            46667788999999999999999999999988764

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

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

Probab=98.64  E-value=5.9e-08  Score=50.03  Aligned_cols=32  Identities=50%  Similarity=0.758  Sum_probs=28.1

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      .+++..+++|+++||++|.||+++|..+++.+
T Consensus       130 ~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  161 (162)
T cd04138         130 DLAKSYGIPYIETSAKTRQGVEEAFYTLVREI  161 (162)
T ss_pred             HHHHHhCCeEEEecCCCCCCHHHHHHHHHHHh
Confidence            46677788999999999999999999998754

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.

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=98.63  E-value=5.8e-08  Score=50.64  Aligned_cols=34  Identities=32%  Similarity=0.526  Sum_probs=29.7

Q ss_pred             HHHHHHhCCCeEEcccCCC-CCHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDA-INVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~-~~v~~~F~~l~~~i~   35 (66)
                      ..+++..+.+|+|+||++| .||+++|..|++.+.
T Consensus       130 ~~~~~~~~~~~~e~Sa~~~~~~v~~~f~~l~~~~~  164 (165)
T cd04146         130 EKLASELGCLFFEVSAAEDYDGVHSVFHELCREVR  164 (165)
T ss_pred             HHHHHHcCCEEEEeCCCCCchhHHHHHHHHHHHHh
Confidence            4577888899999999999 599999999998764

RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively. RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis. Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression. In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo. RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors. Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm. Both are believed to have tu

>cd04140 ARHI_like ARHI subfamily

Probab=98.62  E-value=5.9e-08  Score=50.70  Aligned_cols=31  Identities=39%  Similarity=0.476  Sum_probs=27.1

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      ..++..+++.|+|+||++|.||+++|..|+.
T Consensus       132 ~~~~~~~~~~~~e~SA~~g~~v~~~f~~l~~  162 (165)
T cd04140         132 AACATEWNCAFMETSAKTNHNVQELFQELLN  162 (165)
T ss_pred             HHHHHHhCCcEEEeecCCCCCHHHHHHHHHh
Confidence            3467777889999999999999999998874

ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=98.61  E-value=7.3e-08  Score=50.06  Aligned_cols=34  Identities=47%  Similarity=0.814  Sum_probs=29.7

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ..+++..+++|+++||++|.||+++|..|++.+.
T Consensus       129 ~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  162 (164)
T smart00173      129 KELARQWGCPFLETSAKERVNVDEAFYDLVREIR  162 (164)
T ss_pred             HHHHHHcCCEEEEeecCCCCCHHHHHHHHHHHHh
Confidence            3567778899999999999999999999988764

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

>cd04175 Rap1 Rap1 subgroup

Probab=98.61  E-value=7.8e-08  Score=50.05  Aligned_cols=33  Identities=45%  Similarity=0.658  Sum_probs=29.3

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ..+++.++.+|+++||++|.||+++|..+++.+
T Consensus       130 ~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~l  162 (164)
T cd04175         130 QNLARQWGCAFLETSAKAKINVNEIFYDLVRQI  162 (164)
T ss_pred             HHHHHHhCCEEEEeeCCCCCCHHHHHHHHHHHh
Confidence            357778889999999999999999999998765

The Rap1 subgroup is part of the Rap subfamily of the Ras family. It can be further divided into the Rap1a and Rap1b isoforms. In humans, Rap1a and Rap1b share 95% sequence homology, but are products of two different genes located on chromosomes 1 and 12, respectively. Rap1a is sometimes called smg p21 or Krev1 in the older literature. Rap1 proteins are believed to perform different cellular functions, depending on the isoform, its subcellular localization, and the effector proteins it binds. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and the microsomal membrane of pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. High expression of Rap1 has been observed in the n

>cd04136 Rap_like Rap-like subfamily

Probab=98.60  E-value=5.3e-08  Score=50.42  Aligned_cols=32  Identities=47%  Similarity=0.737  Sum_probs=28.3

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      .+++.++.+|+++||++|.||+++|..+++.+
T Consensus       131 ~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~  162 (163)
T cd04136         131 ALARQWGCPFYETSAKSKINVDEVFADLVRQI  162 (163)
T ss_pred             HHHHHcCCeEEEecCCCCCCHHHHHHHHHHhc
Confidence            46777788999999999999999999998765

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.

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

Probab=98.59  E-value=9.4e-08  Score=49.53  Aligned_cols=33  Identities=48%  Similarity=0.748  Sum_probs=28.5

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      .++++.++.+|+++||++|.||+++|..|++.+
T Consensus       131 ~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  163 (164)
T cd04145         131 QELARKLKIPYIETSAKDRLNVDKAFHDLVRVI  163 (164)
T ss_pred             HHHHHHcCCcEEEeeCCCCCCHHHHHHHHHHhh
Confidence            356777788999999999999999999998754

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

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=98.56  E-value=1e-07  Score=50.18  Aligned_cols=31  Identities=29%  Similarity=0.428  Sum_probs=26.9

Q ss_pred             HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHH
Q 035388            2 QAFADELGI-PFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus         2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      ..|++..+. .|+|+||++|.||+++|..++.
T Consensus       140 ~~~a~~~~~~~~~e~Sa~~~~~v~~lf~~~~~  171 (173)
T cd04130         140 KALAEKIGACEYIECSALTQKNLKEVFDTAIL  171 (173)
T ss_pred             HHHHHHhCCCeEEEEeCCCCCCHHHHHHHHHh
Confidence            457888887 8999999999999999988764

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,

>cd04148 RGK RGK subfamily

Probab=98.56  E-value=2e-07  Score=51.18  Aligned_cols=35  Identities=29%  Similarity=0.292  Sum_probs=30.9

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      .+++...+++|+|+||++|.||+++|..+++.+..
T Consensus       130 ~~~a~~~~~~~~e~SA~~~~gv~~l~~~l~~~~~~  164 (221)
T cd04148         130 RACAVVFDCKFIETSAGLQHNVDELLEGIVRQIRL  164 (221)
T ss_pred             HHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHHh
Confidence            35677778899999999999999999999998864

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

>cd04177 RSR1 RSR1 subgroup

Probab=98.55  E-value=1.5e-07  Score=49.29  Aligned_cols=34  Identities=32%  Similarity=0.660  Sum_probs=29.5

Q ss_pred             HHHHHhC-CCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            3 AFADELG-IPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         3 ~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      .+++.++ ++|+++||++|.||+++|..++..++-
T Consensus       131 ~~~~~~~~~~~~~~SA~~~~~i~~~f~~i~~~~~~  165 (168)
T cd04177         131 SLSQQWGNVPFYETSARKRTNVDEVFIDLVRQIIC  165 (168)
T ss_pred             HHHHHcCCceEEEeeCCCCCCHHHHHHHHHHHHhh
Confidence            4666777 889999999999999999999988763

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

>cd04176 Rap2 Rap2 subgroup

Probab=98.51  E-value=1.6e-07  Score=48.79  Aligned_cols=33  Identities=39%  Similarity=0.650  Sum_probs=28.2

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ..+++..+++|+++||++|.||+++|..+++.+
T Consensus       130 ~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~l  162 (163)
T cd04176         130 RALAEEWGCPFMETSAKSKTMVNELFAEIVRQM  162 (163)
T ss_pred             HHHHHHhCCEEEEecCCCCCCHHHHHHHHHHhc
Confidence            346667788999999999999999999998754

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=98.51  E-value=3.1e-07  Score=47.48  Aligned_cols=33  Identities=45%  Similarity=0.750  Sum_probs=29.2

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      .+++.++++++++||++|.||+++|..+++.+.
T Consensus       130 ~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  162 (164)
T cd04139         130 NLARQWGVPYVETSAKTRQNVEKAFYDLVREIR  162 (164)
T ss_pred             HHHHHhCCeEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            566777899999999999999999999988765

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

>cd01870 RhoA_like RhoA-like subfamily

Probab=98.49  E-value=1.7e-07  Score=49.17  Aligned_cols=33  Identities=24%  Similarity=0.413  Sum_probs=27.3

Q ss_pred             HHHHHHhC-CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            2 QAFADELG-IPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         2 ~~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      +++++..+ ..|++|||++|.||+++|..|++..
T Consensus       141 ~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~~  174 (175)
T cd01870         141 RDMANKIGAFGYMECSAKTKEGVREVFEMATRAA  174 (175)
T ss_pred             HHHHHHcCCcEEEEeccccCcCHHHHHHHHHHHh
Confidence            45666666 4799999999999999999998754

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

>cd01866 Rab2 Rab2 subfamily

Probab=98.49  E-value=2.4e-07  Score=48.57  Aligned_cols=35  Identities=57%  Similarity=0.756  Sum_probs=30.9

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +.++..+++.|+|+||+++.||+++|..+++.+++
T Consensus       133 ~~~~~~~~~~~~e~Sa~~~~~i~~~~~~~~~~~~~  167 (168)
T cd01866         133 EAFAKEHGLIFMETSAKTASNVEEAFINTAKEIYE  167 (168)
T ss_pred             HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            35677788999999999999999999999988864

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

>cd04116 Rab9 Rab9 subfamily

Probab=98.49  E-value=1.5e-07  Score=49.25  Aligned_cols=32  Identities=50%  Similarity=0.654  Sum_probs=27.8

Q ss_pred             HHHHHHhC-CCeEEcccCCCCCHHHHHHHHHHH
Q 035388            2 QAFADELG-IPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         2 ~~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      ++++++++ .+|+|+||++|.||+++|..+++.
T Consensus       137 ~~~~~~~~~~~~~e~Sa~~~~~v~~~~~~~~~~  169 (170)
T cd04116         137 QAWCRENGDYPYFETSAKDATNVAAAFEEAVRR  169 (170)
T ss_pred             HHHHHHCCCCeEEEEECCCCCCHHHHHHHHHhh
Confidence            45777777 479999999999999999999875

Rab9 is found in late endosomes, together with mannose 6-phosphate receptors (MPRs) and the tail-interacting protein of 47 kD (TIP47). Rab9 is a key mediator of vesicular transport from late endosomes to the trans-Golgi network (TGN) by redirecting the MPRs. Rab9 has been identified as a key component for the replication of several viruses, including HIV1, Ebola, Marburg, and measles, making it a potential target for inhibiting a variety of viruses. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CX

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=98.48  E-value=2.6e-07  Score=48.55  Aligned_cols=33  Identities=48%  Similarity=0.713  Sum_probs=29.2

Q ss_pred             HHHHHHhCCCeEEcccCC---CCCHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKD---AINVEQAFLTMAGEI   34 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt---~~~v~~~F~~l~~~i   34 (66)
                      ..+++.++++|+||||++   +.||+++|..|++.+
T Consensus       133 ~~~~~~~~~~~~e~Sa~~~~~~~~i~~~f~~l~~~~  168 (170)
T cd04115         133 QRFADAHSMPLFETSAKDPSENDHVEAIFMTLAHKL  168 (170)
T ss_pred             HHHHHHcCCcEEEEeccCCcCCCCHHHHHHHHHHHh
Confidence            457778889999999999   999999999998765

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

>cd01868 Rab11_like Rab11-like

Probab=98.48  E-value=1.9e-07  Score=48.61  Aligned_cols=33  Identities=52%  Similarity=0.757  Sum_probs=28.8

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ..++..++++|+|+||++|.||+++|..++..+
T Consensus       132 ~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~i  164 (165)
T cd01868         132 KAFAEKNGLSFIETSALDGTNVEEAFKQLLTEI  164 (165)
T ss_pred             HHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            356777788999999999999999999998775

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=98.43  E-value=3.8e-07  Score=47.24  Aligned_cols=32  Identities=38%  Similarity=0.585  Sum_probs=28.2

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      ..+++.++++||++||++|.||+++|..|+..
T Consensus       130 ~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~  161 (162)
T cd04106         130 EALAKRLQLPLFRTSVKDDFNVTELFEYLAEK  161 (162)
T ss_pred             HHHHHHcCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            35788888999999999999999999998754

Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with G

>smart00175 RAB Rab subfamily of small GTPases

Probab=98.42  E-value=4.9e-07  Score=46.78  Aligned_cols=35  Identities=60%  Similarity=0.845  Sum_probs=31.0

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +.+++.+++.++|+||++|.|++++|..+++.+++
T Consensus       129 ~~~~~~~~~~~~e~Sa~~~~~i~~l~~~i~~~~~~  163 (164)
T smart00175      129 EAFAEEHGLPFFETSAKTNTNVEEAFEELAREILK  163 (164)
T ss_pred             HHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHhh
Confidence            35677788999999999999999999999998864

Rab GTPases are implicated in vesicle trafficking.

>cd04113 Rab4 Rab4 subfamily

Probab=98.40  E-value=3.5e-07  Score=47.40  Aligned_cols=33  Identities=55%  Similarity=0.664  Sum_probs=28.7

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ..+++..++.|+++||+++.||+++|..+++.+
T Consensus       129 ~~~~~~~~~~~~~~Sa~~~~~i~~~~~~~~~~~  161 (161)
T cd04113         129 SRFAQENGLLFLETSALTGENVEEAFLKCARSI  161 (161)
T ss_pred             HHHHHHcCCEEEEEECCCCCCHHHHHHHHHHhC
Confidence            356777888999999999999999999998753

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

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=98.36  E-value=5.7e-07  Score=46.70  Aligned_cols=32  Identities=31%  Similarity=0.472  Sum_probs=27.8

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      .++..++++|+++||++|.||+++|..|++.+
T Consensus       132 ~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  163 (164)
T cd04101         132 AFAQANQLKFFKTSALRGVGYEEPFESLARAF  163 (164)
T ss_pred             HHHHHcCCeEEEEeCCCCCChHHHHHHHHHHh
Confidence            45666678899999999999999999998865

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.

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

Probab=98.35  E-value=5.7e-07  Score=46.86  Aligned_cols=32  Identities=13%  Similarity=0.007  Sum_probs=26.7

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ++++..+.+++++||++|.||+++|..+++.+
T Consensus       136 ~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  167 (168)
T cd01897         136 EEEELEGEEVLKISTLTEEGVDEVKNKACELL  167 (168)
T ss_pred             HhhhhccCceEEEEecccCCHHHHHHHHHHHh
Confidence            34444567899999999999999999998876

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.

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=98.33  E-value=1.3e-06  Score=45.80  Aligned_cols=35  Identities=26%  Similarity=0.332  Sum_probs=29.2

Q ss_pred             HHHHHhCC--CeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            3 AFADELGI--PFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         3 ~~a~~~~~--~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      ++++..+.  ++|++||++|.||+++|..+++.+.+.
T Consensus       113 ~~~~~~~~~~p~~~~Sa~~g~gi~~l~~~l~~~~~~~  149 (158)
T PRK15467        113 KLLLETGFEEPIFELNSHDPQSVQQLVDYLASLTKQE  149 (158)
T ss_pred             HHHHHcCCCCCEEEEECCCccCHHHHHHHHHHhchhh
Confidence            45666664  899999999999999999998887654

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=98.31  E-value=9.3e-07  Score=45.07  Aligned_cols=30  Identities=20%  Similarity=0.319  Sum_probs=25.1

Q ss_pred             HHHHHHhCC-CeEEcccCCCCCHHHHHHHHH
Q 035388            2 QAFADELGI-PFLETSAKDAINVEQAFLTMA   31 (66)
Q Consensus         2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~   31 (66)
                      +++++.++. ++|++||++|.||+++|..++
T Consensus       111 ~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  141 (142)
T TIGR02528       111 KELLETAGAEPIFEISSVDEQGLEALVDYLN  141 (142)
T ss_pred             HHHHHHcCCCcEEEEecCCCCCHHHHHHHHh
Confidence            356667775 799999999999999998875

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.

>KOG4423 consensus GTP-binding protein-like, RAS superfamily [Signal transduction mechanisms]

Probab=98.31  E-value=3.3e-06  Score=45.98  Aligned_cols=37  Identities=30%  Similarity=0.308  Sum_probs=32.3

Q ss_pred             HHHHHHhC-CCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELG-IPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      ..|.++++ ..|+|||||.+.||+|+-..|++.++.+.
T Consensus       160 d~f~kengf~gwtets~Kenkni~Ea~r~lVe~~lvnd  197 (229)
T KOG4423|consen  160 DNFKKENGFEGWTETSAKENKNIPEAQRELVEKILVND  197 (229)
T ss_pred             HHHHhccCccceeeeccccccChhHHHHHHHHHHHhhc
Confidence            35777888 56999999999999999999999998764

>cd01860 Rab5_related Rab5-related subfamily

Probab=98.30  E-value=1.2e-06  Score=45.35  Aligned_cols=32  Identities=44%  Similarity=0.652  Sum_probs=28.4

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      .++..+++.++++||++|.||+++|..|++.+
T Consensus       131 ~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~l  162 (163)
T cd01860         131 EYADENGLLFFETSAKTGENVNELFTEIAKKL  162 (163)
T ss_pred             HHHHHcCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            46677788899999999999999999998875

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

>KOG0393 consensus Ras-related small GTPase, Rho type [General function prediction only]

Probab=98.29  E-value=6.4e-07  Score=48.81  Aligned_cols=37  Identities=24%  Similarity=0.309  Sum_probs=33.1

Q ss_pred             CHHHHHHhC-CCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            1 MQAFADELG-IPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         1 ~~~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      |+.+|+++| +.|+|+||++..||.++|+..++..+..
T Consensus       144 g~~lA~~iga~~y~EcSa~tq~~v~~vF~~a~~~~l~~  181 (198)
T KOG0393|consen  144 GLELAKEIGAVKYLECSALTQKGVKEVFDEAIRAALRP  181 (198)
T ss_pred             HHHHHHHhCcceeeeehhhhhCCcHHHHHHHHHHHhcc
Confidence            467899999 6799999999999999999999998864

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=98.26  E-value=2e-06  Score=46.86  Aligned_cols=35  Identities=26%  Similarity=0.465  Sum_probs=30.7

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      .+++..++.|+++||++|.||+++|..|++.++..
T Consensus       136 ~~~~~~~~~~~e~Sa~~~~~v~~~f~~ia~~l~~~  170 (215)
T PTZ00132        136 TFHRKKNLQYYDISAKSNYNFEKPFLWLARRLTND  170 (215)
T ss_pred             HHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHhhc
Confidence            45666778899999999999999999999998864

>cd01864 Rab19 Rab19 subfamily

Probab=98.25  E-value=1.3e-06  Score=45.56  Aligned_cols=32  Identities=53%  Similarity=0.694  Sum_probs=27.0

Q ss_pred             HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHHH
Q 035388            2 QAFADELGI-PFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      .++++..+. .++|+||++|.||+++|..+++.
T Consensus       132 ~~~~~~~~~~~~~e~Sa~~~~~v~~~~~~l~~~  164 (165)
T cd01864         132 CTLAEKNGMLAVLETSAKESQNVEEAFLLMATE  164 (165)
T ss_pred             HHHHHHcCCcEEEEEECCCCCCHHHHHHHHHHh
Confidence            356777775 58999999999999999999875

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.

>cd01863 Rab18 Rab18 subfamily

Probab=98.25  E-value=1.4e-06  Score=45.14  Aligned_cols=32  Identities=38%  Similarity=0.462  Sum_probs=28.1

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      ..+++..+++|+++||++|.||+++|..+.+.
T Consensus       129 ~~~~~~~~~~~~~~Sa~~~~gi~~~~~~~~~~  160 (161)
T cd01863         129 LKFARKHNMLFIETSAKTRDGVQQAFEELVEK  160 (161)
T ss_pred             HHHHHHcCCEEEEEecCCCCCHHHHHHHHHHh
Confidence            35677788999999999999999999988765

Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of mos

>PLN00223 ADP-ribosylation factor; Provisional

Probab=98.24  E-value=2.6e-06  Score=45.45  Aligned_cols=25  Identities=12%  Similarity=0.120  Sum_probs=22.4

Q ss_pred             eEEcccCCCCCHHHHHHHHHHHHHH
Q 035388           12 FLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus        12 ~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      ++++||++|+||+++|..|+..+.+
T Consensus       155 ~~~~Sa~~g~gv~e~~~~l~~~~~~  179 (181)
T PLN00223        155 IQSTCATSGEGLYEGLDWLSNNIAN  179 (181)
T ss_pred             EEeccCCCCCCHHHHHHHHHHHHhh
Confidence            5689999999999999999988764

>cd01892 Miro2 Miro2 subfamily

Probab=98.24  E-value=2e-06  Score=45.35  Aligned_cols=34  Identities=26%  Similarity=0.391  Sum_probs=29.3

Q ss_pred             HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELGI-PFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      +++++.+++ .++++||++|.||+++|..|++.++
T Consensus       132 ~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~~~  166 (169)
T cd01892         132 DEFCRKLGLPPPLHFSSKLGDSSNELFTKLATAAQ  166 (169)
T ss_pred             HHHHHHcCCCCCEEEEeccCccHHHHHHHHHHHhh
Confidence            457777776 4799999999999999999999876

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.

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

Probab=98.21  E-value=6.4e-06  Score=43.46  Aligned_cols=36  Identities=42%  Similarity=0.585  Sum_probs=31.0

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      .+++.++.+++++||++|.||+++|..+++.+....
T Consensus       131 ~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~~  166 (180)
T cd04137         131 ELAESWGAAFLESSARENENVEEAFELLIEEIEKVE  166 (180)
T ss_pred             HHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            456677788999999999999999999999887653

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

>cd04158 ARD1 ARD1 subfamily

Probab=98.18  E-value=2.1e-06  Score=45.16  Aligned_cols=27  Identities=4%  Similarity=0.067  Sum_probs=24.1

Q ss_pred             CeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388           11 PFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus        11 ~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      .+++||||+|.||+++|..|++.++..
T Consensus       137 ~~~~~Sa~~g~gv~~~f~~l~~~~~~~  163 (169)
T cd04158         137 YIQGCDARSGMGLYEGLDWLSRQLVAA  163 (169)
T ss_pred             EEEeCcCCCCCCHHHHHHHHHHHHhhc
Confidence            578999999999999999999887653

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

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=98.17  E-value=6.7e-07  Score=46.26  Aligned_cols=24  Identities=21%  Similarity=0.144  Sum_probs=21.1

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      +.++++|||++|.||+++|..|++
T Consensus       136 ~~~~~~~Sa~~~~gv~~~~~~i~~  159 (160)
T cd04156         136 DWYVQPCSAVTGEGLAEAFRKLAS  159 (160)
T ss_pred             cEEEEecccccCCChHHHHHHHhc
Confidence            346899999999999999998864

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

>cd04114 Rab30 Rab30 subfamily

Probab=98.17  E-value=2.8e-06  Score=44.26  Aligned_cols=32  Identities=44%  Similarity=0.648  Sum_probs=26.7

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      .+.+.....++++||++|.||+++|..+++.+
T Consensus       137 ~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~  168 (169)
T cd04114         137 EFSDAQDMYYLETSAKESDNVEKLFLDLACRL  168 (169)
T ss_pred             HHHHHcCCeEEEeeCCCCCCHHHHHHHHHHHh
Confidence            34455557799999999999999999999765

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.

>cd00876 Ras Ras family

Probab=98.15  E-value=3.1e-06  Score=43.47  Aligned_cols=33  Identities=52%  Similarity=0.822  Sum_probs=28.2

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ..+++.++.+|+++||+++.||+++|..|++.+
T Consensus       128 ~~~~~~~~~~~~~~S~~~~~~i~~l~~~l~~~i  160 (160)
T cd00876         128 KALAKEWGCPFIETSAKDNINIDEVFKLLVREI  160 (160)
T ss_pred             HHHHHHcCCcEEEeccCCCCCHHHHHHHHHhhC
Confidence            356677778999999999999999999998753

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

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=98.15  E-value=1.8e-06  Score=46.06  Aligned_cols=28  Identities=21%  Similarity=0.173  Sum_probs=24.2

Q ss_pred             CeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388           11 PFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus        11 ~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      .++++||++|.||+++|..|++.+.+.+
T Consensus       154 ~~~~~Sa~tg~gv~e~~~~l~~~i~~~~  181 (182)
T PTZ00133        154 YIQGCCATTAQGLYEGLDWLSANIKKSM  181 (182)
T ss_pred             EEEeeeCCCCCCHHHHHHHHHHHHHHhc
Confidence            4669999999999999999998887643

>cd00157 Rho Rho (Ras homology) family

Probab=98.12  E-value=4.2e-06  Score=43.57  Aligned_cols=30  Identities=27%  Similarity=0.380  Sum_probs=25.7

Q ss_pred             HHHHHhCC-CeEEcccCCCCCHHHHHHHHHH
Q 035388            3 AFADELGI-PFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus         3 ~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      .++..++. .|+++||++|.||+++|..|++
T Consensus       140 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~  170 (171)
T cd00157         140 KLAKEIGAIGYMECSALTQEGVKEVFEEAIR  170 (171)
T ss_pred             HHHHHhCCeEEEEeecCCCCCHHHHHHHHhh
Confidence            45667776 8999999999999999998865

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

>cd04123 Rab21 Rab21 subfamily

Probab=98.10  E-value=6e-06  Score=42.48  Aligned_cols=32  Identities=34%  Similarity=0.589  Sum_probs=28.0

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ++++..+..++++||+++.||+++|..+++.+
T Consensus       130 ~~~~~~~~~~~~~s~~~~~gi~~~~~~l~~~~  161 (162)
T cd04123         130 EYAKSVGAKHFETSAKTGKGIEELFLSLAKRM  161 (162)
T ss_pred             HHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            45666788899999999999999999998765

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

>cd01890 LepA LepA subfamily

Probab=98.10  E-value=6.1e-06  Score=43.40  Aligned_cols=32  Identities=28%  Similarity=0.399  Sum_probs=26.4

Q ss_pred             HHHHHhCCC---eEEcccCCCCCHHHHHHHHHHHH
Q 035388            3 AFADELGIP---FLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         3 ~~a~~~~~~---~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ++++.++++   +|++||++|.||+++|..|++.+
T Consensus       142 ~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~  176 (179)
T cd01890         142 QIEDVLGLDPSEAILVSAKTGLGVEDLLEAIVERI  176 (179)
T ss_pred             HHHHHhCCCcccEEEeeccCCCCHHHHHHHHHhhC
Confidence            456666654   89999999999999999998764

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.

>cd01862 Rab7 Rab7 subfamily

Probab=98.09  E-value=9.6e-06  Score=42.26  Aligned_cols=35  Identities=51%  Similarity=0.741  Sum_probs=30.2

Q ss_pred             HHHHHhC-CCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            3 AFADELG-IPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         3 ~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      .+.+..+ ..+|++||++|.||+++|..+++.+++.
T Consensus       134 ~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~~~~  169 (172)
T cd01862         134 QWCQSNGNIPYFETSAKEAINVEQAFETIARKALEQ  169 (172)
T ss_pred             HHHHHcCCceEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            4566666 7899999999999999999999988765

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-

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=98.05  E-value=1.6e-06  Score=45.47  Aligned_cols=30  Identities=17%  Similarity=0.086  Sum_probs=24.9

Q ss_pred             HHHHHHhCCCeEEcccCC------CCCHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKD------AINVEQAFLTMA   31 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt------~~~v~~~F~~l~   31 (66)
                      ..++++.++.||+|||++      ++||+++|..+.
T Consensus       127 ~~~~~~~~~~~~~~Sa~~~~s~~~~~~v~~~~~~~~  162 (164)
T cd04162         127 EPIARGRRWILQGTSLDDDGSPSRMEAVKDLLSQLI  162 (164)
T ss_pred             hhhcCCCceEEEEeeecCCCChhHHHHHHHHHHHHh
Confidence            345666678899999999      999999999875

Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project. It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2). This is a novel subfamily identified in human cancers that is uncharacterized to date.

>cd01893 Miro1 Miro1 subfamily

Probab=98.01  E-value=8.3e-06  Score=42.66  Aligned_cols=26  Identities=31%  Similarity=0.369  Sum_probs=23.7

Q ss_pred             CeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388           11 PFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus        11 ~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      .|+|+||++|.||+++|..+++.+++
T Consensus       140 ~~~e~Sa~~~~~v~~lf~~~~~~~~~  165 (166)
T cd01893         140 TCVECSAKTLINVSEVFYYAQKAVLH  165 (166)
T ss_pred             EEEEeccccccCHHHHHHHHHHHhcC
Confidence            79999999999999999999887753

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.

>cd01861 Rab6 Rab6 subfamily

Probab=98.00  E-value=1.1e-05  Score=41.71  Aligned_cols=31  Identities=42%  Similarity=0.483  Sum_probs=27.0

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      .+++..++.++++||++|.||+++|..+++.
T Consensus       130 ~~~~~~~~~~~~~Sa~~~~~v~~l~~~i~~~  160 (161)
T cd01861         130 KKAKELNAMFIETSAKAGHNVKELFRKIASA  160 (161)
T ss_pred             HHHHHhCCEEEEEeCCCCCCHHHHHHHHHHh
Confidence            4566778899999999999999999998764

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

>cd04149 Arf6 Arf6 subfamily

Probab=98.00  E-value=4.6e-06  Score=43.94  Aligned_cols=23  Identities=4%  Similarity=-0.032  Sum_probs=20.3

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      ..++++|||+|.||+++|..|++
T Consensus       145 ~~~~~~SAk~g~gv~~~~~~l~~  167 (168)
T cd04149         145 WYVQPSCATSGDGLYEGLTWLSS  167 (168)
T ss_pred             EEEEEeeCCCCCChHHHHHHHhc
Confidence            35899999999999999998864

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

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=98.00  E-value=9.5e-06  Score=43.25  Aligned_cols=29  Identities=10%  Similarity=-0.004  Sum_probs=25.4

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      .+++++||++|.||+++|..|++.+.+..
T Consensus       145 ~~~~~~SA~~~~gi~~l~~~l~~~l~~~~  173 (183)
T cd04152         145 WHVQPACAIIGEGLQEGLEKLYEMILKRR  173 (183)
T ss_pred             eEEEEeecccCCCHHHHHHHHHHHHHHHH
Confidence            35789999999999999999999997643

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.

>TIGR00101 ureG urease accessory protein UreG

Probab=97.99  E-value=1.2e-05  Score=43.83  Aligned_cols=26  Identities=15%  Similarity=0.118  Sum_probs=23.3

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ++++|+||||+|+||+++|..+.+..
T Consensus       170 ~~~i~~~Sa~~g~gi~el~~~i~~~~  195 (199)
T TIGR00101       170 EKPFIFTNLKTKEGLDTVIDWIEHYA  195 (199)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            47899999999999999999988654

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.

>cd04154 Arl2 Arl2 subfamily

Probab=97.97  E-value=4.9e-06  Score=43.78  Aligned_cols=24  Identities=13%  Similarity=-0.079  Sum_probs=21.3

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      +++||++||++|.||+++|..++.
T Consensus       149 ~~~~~~~Sa~~g~gi~~l~~~l~~  172 (173)
T cd04154         149 HWRIQPCSAVTGEGLLQGIDWLVD  172 (173)
T ss_pred             ceEEEeccCCCCcCHHHHHHHHhc
Confidence            467999999999999999998764

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.

>cd00879 Sar1 Sar1 subfamily

Probab=97.97  E-value=4.5e-06  Score=44.45  Aligned_cols=24  Identities=17%  Similarity=0.083  Sum_probs=21.7

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      +.+++|||++|.||+++|..|++.
T Consensus       166 ~~~~~~Sa~~~~gv~e~~~~l~~~  189 (190)
T cd00879         166 IEVFMCSVVKRQGYGEAFRWLSQY  189 (190)
T ss_pred             EEEEEeEecCCCChHHHHHHHHhh
Confidence            468999999999999999999865

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.

>cd04143 Rhes_like Rhes_like subfamily

Probab=97.94  E-value=1.6e-05  Score=44.53  Aligned_cols=26  Identities=23%  Similarity=0.367  Sum_probs=23.7

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ++.|+++||++|.||+++|..|++..
T Consensus       145 ~~~~~evSAktg~gI~elf~~L~~~~  170 (247)
T cd04143         145 NCAYFEVSAKKNSNLDEMFRALFSLA  170 (247)
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            46799999999999999999999865

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

>PRK04213 GTP-binding protein; Provisional

Probab=97.94  E-value=1.6e-05  Score=42.72  Aligned_cols=24  Identities=17%  Similarity=0.163  Sum_probs=21.5

Q ss_pred             CeEEcccCCCCCHHHHHHHHHHHHH
Q 035388           11 PFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus        11 ~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      +++++||++| ||+++|..|++.+.
T Consensus       169 ~~~~~SA~~g-gi~~l~~~l~~~~~  192 (201)
T PRK04213        169 IIAPISAKKG-GIEELKEAIRKRLH  192 (201)
T ss_pred             cEEEEecccC-CHHHHHHHHHHhhc
Confidence            4799999999 99999999988764

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=97.93  E-value=6.4e-06  Score=42.98  Aligned_cols=23  Identities=9%  Similarity=-0.036  Sum_probs=19.9

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      ..++++|||+|.||+++|..|+.
T Consensus       136 ~~~~~~Sak~g~gv~~~~~~l~~  158 (159)
T cd04150         136 WYIQATCATSGDGLYEGLDWLSN  158 (159)
T ss_pred             EEEEEeeCCCCCCHHHHHHHHhc
Confidence            35789999999999999998763

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

>cd04151 Arl1 Arl1 subfamily

Probab=97.91  E-value=4.7e-06  Score=43.20  Aligned_cols=23  Identities=13%  Similarity=0.156  Sum_probs=20.8

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      .+++++||++|.||+++|..|++
T Consensus       135 ~~~~~~Sa~~~~gi~~l~~~l~~  157 (158)
T cd04151         135 WSIFKTSAIKGEGLDEGMDWLVN  157 (158)
T ss_pred             EEEEEeeccCCCCHHHHHHHHhc
Confidence            45999999999999999999875

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.

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=97.88  E-value=6.9e-06  Score=43.38  Aligned_cols=24  Identities=8%  Similarity=-0.053  Sum_probs=21.2

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      +++++++||++|.||+++|..|++
T Consensus       150 ~~~~~~~SA~~g~gi~e~~~~l~~  173 (174)
T cd04153         150 TWHIQGCCALTGEGLPEGLDWIAS  173 (174)
T ss_pred             ceEEEecccCCCCCHHHHHHHHhc
Confidence            346899999999999999998875

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.

>cd04147 Ras_dva Ras-dva subfamily

Probab=97.88  E-value=3.5e-05  Score=41.54  Aligned_cols=28  Identities=36%  Similarity=0.414  Sum_probs=25.3

Q ss_pred             hCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            8 LGIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         8 ~~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ++++|+++||++|.||+++|..+++.+.
T Consensus       136 ~~~~~~~~Sa~~g~gv~~l~~~l~~~~~  163 (198)
T cd04147         136 WNCGFVETSAKDNENVLEVFKELLRQAN  163 (198)
T ss_pred             cCCcEEEecCCCCCCHHHHHHHHHHHhh
Confidence            4578999999999999999999998775

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.

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

Probab=97.85  E-value=4.4e-05  Score=40.44  Aligned_cols=24  Identities=8%  Similarity=0.072  Sum_probs=20.9

Q ss_pred             CeEEcccCCCCCHHHHHHHHHHHH
Q 035388           11 PFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus        11 ~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      .|+++||++|.||+++|..|++.+
T Consensus       150 ~~~~~Sa~~g~gv~e~~~~l~~~~  173 (175)
T smart00177      150 YIQPTCATSGDGLYEGLTWLSNNL  173 (175)
T ss_pred             EEEEeeCCCCCCHHHHHHHHHHHh
Confidence            467899999999999999887764

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).

>cd00154 Rab Rab family

Probab=97.84  E-value=2.5e-05  Score=39.74  Aligned_cols=30  Identities=53%  Similarity=0.713  Sum_probs=26.1

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMA   31 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~   31 (66)
                      ..++..++.+++++||+++.||+++|..|+
T Consensus       129 ~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  158 (159)
T cd00154         129 QQFAKENGLLFFETSAKTGENVEELFQSLA  158 (159)
T ss_pred             HHHHHHcCCeEEEEecCCCCCHHHHHHHHh
Confidence            346677789999999999999999999876

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

>cd04157 Arl6 Arl6 subfamily

Probab=97.78  E-value=1.5e-05  Score=41.14  Aligned_cols=22  Identities=5%  Similarity=0.117  Sum_probs=19.9

Q ss_pred             CeEEcccCCCCCHHHHHHHHHH
Q 035388           11 PFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus        11 ~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      .+|++||++|.||+++|..|++
T Consensus       140 ~~~~~Sa~~g~gv~~~~~~l~~  161 (162)
T cd04157         140 HIFASNALTGEGLDEGVQWLQA  161 (162)
T ss_pred             EEEEeeCCCCCchHHHHHHHhc
Confidence            4899999999999999998864

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

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

Probab=97.73  E-value=9.1e-05  Score=38.01  Aligned_cols=31  Identities=23%  Similarity=0.374  Sum_probs=26.6

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      .+++.++.+++++||++|.||+++|..|.+.
T Consensus       125 ~~~~~~~~~~~~iSa~~~~~~~~l~~~l~~~  155 (158)
T cd01879         125 KLSELLGVPVVPTSARKGEGIDELKDAIAEL  155 (158)
T ss_pred             HHHHhhCCCeEEEEccCCCCHHHHHHHHHHH
Confidence            4556678899999999999999999988765

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.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=97.73  E-value=0.00011  Score=42.93  Aligned_cols=32  Identities=16%  Similarity=0.191  Sum_probs=27.2

Q ss_pred             HHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            5 ADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         5 a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      ++..+.++|++||+++.||+++|..|++.+.+
T Consensus       298 ~~~~~~~i~~iSAktg~GI~eL~~~L~~~l~~  329 (335)
T PRK12299        298 LAALGGPVFLISAVTGEGLDELLRALWELLEE  329 (335)
T ss_pred             HHhcCCCEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            34456789999999999999999999888764

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=97.67  E-value=9.2e-05  Score=46.13  Aligned_cols=32  Identities=22%  Similarity=0.403  Sum_probs=28.2

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      +.+++..++++++|||++|.||+++|+.+++.
T Consensus       122 ~~L~~~lg~pvv~tSA~tg~Gi~eL~~~i~~~  153 (591)
T TIGR00437       122 EKLEERLGVPVVPTSATEGRGIERLKDAIRKA  153 (591)
T ss_pred             HHHHHHcCCCEEEEECCCCCCHHHHHHHHHHH
Confidence            35677788999999999999999999999875

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.

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=97.66  E-value=0.0001  Score=43.05  Aligned_cols=32  Identities=19%  Similarity=0.334  Sum_probs=26.8

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      .+++.++.+++++||+++.||+++|..|++.+
T Consensus       297 ~l~~~~~~~vi~iSAktg~GI~eL~~~I~~~l  328 (329)
T TIGR02729       297 ELKKALGKPVFPISALTGEGLDELLYALAELL  328 (329)
T ss_pred             HHHHHcCCcEEEEEccCCcCHHHHHHHHHHHh
Confidence            35556677899999999999999999998754

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.

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=97.62  E-value=5.8e-05  Score=42.32  Aligned_cols=27  Identities=19%  Similarity=0.308  Sum_probs=23.6

Q ss_pred             HhCCCeEEcccCCCCCHHHHHHHHHHH
Q 035388            7 ELGIPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         7 ~~~~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      .+++.+|++||++|.||+++|..++..
T Consensus        95 ~~g~~v~~~SAktg~gi~eLf~~l~~~  121 (245)
T TIGR00157        95 NIGYQVLMTSSKNQDGLKELIEALQNR  121 (245)
T ss_pred             HCCCeEEEEecCCchhHHHHHhhhcCC
Confidence            467889999999999999999988753

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

>cd04155 Arl3 Arl3 subfamily

Probab=97.59  E-value=0.00013  Score=38.21  Aligned_cols=21  Identities=14%  Similarity=0.109  Sum_probs=19.3

Q ss_pred             eEEcccCCCCCHHHHHHHHHH
Q 035388           12 FLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus        12 ~~etSAkt~~~v~~~F~~l~~   32 (66)
                      ++++||++|.||+++|..|++
T Consensus       152 ~~~~Sa~~~~gi~~~~~~l~~  172 (173)
T cd04155         152 IQACSAKTGEGLQEGMNWVCK  172 (173)
T ss_pred             EEEeECCCCCCHHHHHHHHhc
Confidence            679999999999999998875

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.

>cd01878 HflX HflX subfamily

Probab=97.59  E-value=8.9e-05  Score=39.99  Aligned_cols=28  Identities=11%  Similarity=-0.013  Sum_probs=23.7

Q ss_pred             HHhCCCeEEcccCCCCCHHHHHHHHHHH
Q 035388            6 DELGIPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         6 ~~~~~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      ...+.+++++||++|.||+++|..|+..
T Consensus       176 ~~~~~~~~~~Sa~~~~gi~~l~~~L~~~  203 (204)
T cd01878         176 EAGRPDAVFISAKTGEGLDELLEAIEEL  203 (204)
T ss_pred             hcCCCceEEEEcCCCCCHHHHHHHHHhh
Confidence            3345789999999999999999988764

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.

>cd04171 SelB SelB subfamily

Probab=97.58  E-value=0.00015  Score=37.31  Aligned_cols=25  Identities=16%  Similarity=0.138  Sum_probs=21.9

Q ss_pred             hCCCeEEcccCCCCCHHHHHHHHHH
Q 035388            8 LGIPFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus         8 ~~~~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      .+.+++++||++|.||+++|..+..
T Consensus       139 ~~~~~~~~Sa~~~~~v~~l~~~l~~  163 (164)
T cd04171         139 ADAPIFPVSAVTGEGIEELKEYLDE  163 (164)
T ss_pred             CCCcEEEEeCCCCcCHHHHHHHHhh
Confidence            3578999999999999999988754

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

>cd01894 EngA1 EngA1 subfamily

Probab=97.57  E-value=0.00014  Score=37.16  Aligned_cols=26  Identities=15%  Similarity=0.156  Sum_probs=22.7

Q ss_pred             hCC-CeEEcccCCCCCHHHHHHHHHHH
Q 035388            8 LGI-PFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         8 ~~~-~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      .++ .++++||++|.||+++|..+++.
T Consensus       130 ~~~~~~~~~Sa~~~~gv~~l~~~l~~~  156 (157)
T cd01894         130 LGFGEPIPISAEHGRGIGDLLDAILEL  156 (157)
T ss_pred             cCCCCeEEEecccCCCHHHHHHHHHhh
Confidence            454 68999999999999999999865

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.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=97.56  E-value=6.4e-05  Score=39.05  Aligned_cols=24  Identities=17%  Similarity=0.122  Sum_probs=21.2

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      +++++++||++|.||+++|..|++
T Consensus       143 ~~~~~~~Sa~~g~gv~e~~~~l~~  166 (167)
T cd04160         143 DCLVLPVSALEGTGVREGIEWLVE  166 (167)
T ss_pred             ceEEEEeeCCCCcCHHHHHHHHhc
Confidence            357999999999999999998875

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.

>cd01898 Obg Obg subfamily

Probab=97.54  E-value=0.00015  Score=37.72  Aligned_cols=25  Identities=20%  Similarity=0.272  Sum_probs=22.6

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      +.+++++||+++.||+++|..+++.
T Consensus       145 ~~~~~~~Sa~~~~gi~~l~~~i~~~  169 (170)
T cd01898         145 GKPVFPISALTGEGLDELLRKLAEL  169 (170)
T ss_pred             CCCEEEEecCCCCCHHHHHHHHHhh
Confidence            6789999999999999999988764

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.

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

Probab=97.54  E-value=0.00015  Score=39.38  Aligned_cols=26  Identities=19%  Similarity=0.281  Sum_probs=23.0

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      +.+++.+||++|.||+++|..|++.+
T Consensus       173 ~~~i~~vSA~~g~gi~~L~~~l~~~l  198 (203)
T cd01888         173 NAPIIPISAQLKYNIDVLLEYIVKKI  198 (203)
T ss_pred             CCcEEEEeCCCCCCHHHHHHHHHHhC
Confidence            46799999999999999999988655

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

>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=97.50  E-value=0.00012  Score=39.87  Aligned_cols=38  Identities=24%  Similarity=0.362  Sum_probs=33.7

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG   39 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~   39 (66)
                      +.+|+.++..++.||+|...||..+|..|++...++..
T Consensus       148 E~lak~l~~RlyRtSvked~NV~~vF~YLaeK~~q~~k  185 (246)
T KOG4252|consen  148 EGLAKKLHKRLYRTSVKEDFNVMHVFAYLAEKLTQQKK  185 (246)
T ss_pred             HHHHHHhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHH
Confidence            45788889999999999999999999999999877543

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

Probab=97.47  E-value=0.00011  Score=37.90  Aligned_cols=24  Identities=8%  Similarity=-0.048  Sum_probs=21.2

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      ..+++++||++|.||+++|..|+.
T Consensus       134 ~~~~~~~Sa~~~~gv~~~~~~l~~  157 (158)
T cd00878         134 RWHIQPCSAVTGDGLDEGLDWLLQ  157 (158)
T ss_pred             cEEEEEeeCCCCCCHHHHHHHHhh
Confidence            356999999999999999998864

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

>PRK03003 GTP-binding protein Der; Reviewed

Probab=97.41  E-value=0.00019  Score=43.54  Aligned_cols=26  Identities=19%  Similarity=0.281  Sum_probs=23.5

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      .+++++||++|.||+++|..+++.+.
T Consensus       357 ~~~~~~SAk~g~gv~~lf~~i~~~~~  382 (472)
T PRK03003        357 APRVNISAKTGRAVDKLVPALETALE  382 (472)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            67899999999999999999988764

>cd01889 SelB_euk SelB subfamily

Probab=97.32  E-value=0.00026  Score=37.97  Aligned_cols=27  Identities=19%  Similarity=0.085  Sum_probs=24.4

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      +++++.+||++|.||++++..|...|.
T Consensus       160 ~~~vi~iSa~~g~gi~~L~~~l~~~~~  186 (192)
T cd01889         160 NSPIIPVSAKPGGGEAELGKDLNNLIV  186 (192)
T ss_pred             CCCEEEEeccCCCCHHHHHHHHHhccc
Confidence            578999999999999999999988774

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

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=97.31  E-value=0.00075  Score=40.79  Aligned_cols=35  Identities=17%  Similarity=0.322  Sum_probs=29.0

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      .+.+..+.++|.+||+++.||+++|..|++.+...
T Consensus       295 ~l~~~l~~~i~~iSA~tgeGI~eL~~~L~~~l~~~  329 (424)
T PRK12297        295 EFKEKLGPKVFPISALTGQGLDELLYAVAELLEET  329 (424)
T ss_pred             HHHHHhCCcEEEEeCCCCCCHHHHHHHHHHHHHhC
Confidence            45556667899999999999999999998877653

>cd00881 GTP_translation_factor GTP translation factor family

Probab=97.28  E-value=0.00019  Score=37.75  Aligned_cols=27  Identities=26%  Similarity=0.386  Sum_probs=23.6

Q ss_pred             hCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            8 LGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         8 ~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ...+++++||++|.||+++|..|.+.+
T Consensus       160 ~~~~v~~~Sa~~g~gi~~l~~~l~~~l  186 (189)
T cd00881         160 LLVPIVPGSALTGIGVEELLEAIVEHL  186 (189)
T ss_pred             CcceEEEEecccCcCHHHHHHHHHhhC
Confidence            357799999999999999999888765

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.

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=97.26  E-value=0.00081  Score=36.68  Aligned_cols=24  Identities=13%  Similarity=0.171  Sum_probs=22.0

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      .+++++||++|.||+++|..+.+.
T Consensus       182 ~~i~~~Sa~~g~gv~~l~~~i~~~  205 (207)
T TIGR00073       182 AEIILMSLKTGEGLDEWLEFLEGQ  205 (207)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            789999999999999999988764

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

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=97.20  E-value=0.00077  Score=35.93  Aligned_cols=26  Identities=8%  Similarity=-0.019  Sum_probs=22.9

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ...++++||+++.|++++|..|+..+
T Consensus       168 ~~~~~~~Sa~~~~gi~~l~~~i~~~~  193 (196)
T PRK00454        168 DDEVILFSSLKKQGIDELRAAIAKWL  193 (196)
T ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHh
Confidence            57899999999999999999887654

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

Probab=97.19  E-value=0.00059  Score=35.34  Aligned_cols=25  Identities=16%  Similarity=0.166  Sum_probs=22.2

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      .+++++||++|.||+++|..|++..
T Consensus       141 ~~~~~~Sa~~~~gi~~l~~~l~~~~  165 (168)
T cd01887         141 VQIVPTSAKTGEGIDDLLEAILLLA  165 (168)
T ss_pred             CcEEEeecccCCCHHHHHHHHHHhh
Confidence            5799999999999999999887653

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.

>cd04159 Arl10_like Arl10-like subfamily

Probab=97.17  E-value=0.00039  Score=35.37  Aligned_cols=23  Identities=13%  Similarity=0.192  Sum_probs=20.8

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      .+++++||++|.||+++|..|++
T Consensus       136 ~~~~~~Sa~~~~gi~~l~~~l~~  158 (159)
T cd04159         136 VSCYSISCKEKTNIDIVLDWLIK  158 (159)
T ss_pred             eEEEEEEeccCCChHHHHHHHhh
Confidence            56899999999999999998865

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.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=97.14  E-value=0.00069  Score=40.40  Aligned_cols=27  Identities=15%  Similarity=0.081  Sum_probs=23.6

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      .++++++||++|.||+++|..+.+...
T Consensus       318 ~~~vi~~SA~~g~~v~~l~~~i~~~~~  344 (429)
T TIGR03594       318 FAPIVFISALTGQGVDKLLDAIDEVYE  344 (429)
T ss_pred             CCceEEEeCCCCCCHHHHHHHHHHHHH
Confidence            368999999999999999999887654

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.

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

Probab=97.11  E-value=0.00075  Score=34.39  Aligned_cols=27  Identities=19%  Similarity=0.209  Sum_probs=23.2

Q ss_pred             hCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            8 LGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         8 ~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      .+.+++++||+++.||++++..|...+
T Consensus       130 ~~~~~~~~Sa~~~~~v~~l~~~l~~~~  156 (157)
T cd04164         130 AGKPIIAISAKTGEGLDELKEALLELA  156 (157)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHhh
Confidence            356899999999999999999887653

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.

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

Probab=97.09  E-value=0.00041  Score=36.16  Aligned_cols=26  Identities=15%  Similarity=0.129  Sum_probs=22.6

Q ss_pred             hCCCeEEcccCCCCCHHHHHHHHHHH
Q 035388            8 LGIPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         8 ~~~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      .+..++++||+++.||+++|..+++.
T Consensus       150 ~~~~~~~~Sa~~~~gl~~l~~~l~~~  175 (176)
T cd01881         150 EGAEVVPISAKTEEGLDELIRAIYEL  175 (176)
T ss_pred             CCCCEEEEehhhhcCHHHHHHHHHhh
Confidence            45679999999999999999988754

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

>PRK15494 era GTPase Era; Provisional

Probab=97.07  E-value=0.00066  Score=39.76  Aligned_cols=27  Identities=15%  Similarity=0.124  Sum_probs=23.5

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      ..+|++||++|.||+++|..|+..+..
T Consensus       191 ~~i~~iSAktg~gv~eL~~~L~~~l~~  217 (339)
T PRK15494        191 SLLFPISALSGKNIDGLLEYITSKAKI  217 (339)
T ss_pred             cEEEEEeccCccCHHHHHHHHHHhCCC
Confidence            468999999999999999999877653

>PF02421 FeoB_N: Ferrous iron transport protein B; InterPro: IPR011619 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions

Probab=97.07  E-value=0.0015  Score=34.61  Aligned_cols=29  Identities=17%  Similarity=0.447  Sum_probs=24.7

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTM   30 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l   30 (66)
                      +.+++..+++.+.+||+++.|+++++..+
T Consensus       128 ~~Ls~~Lg~pvi~~sa~~~~g~~~L~~~I  156 (156)
T PF02421_consen  128 EKLSERLGVPVIPVSARTGEGIDELKDAI  156 (156)
T ss_dssp             HHHHHHHTS-EEEEBTTTTBTHHHHHHHH
T ss_pred             HHHHHHhCCCEEEEEeCCCcCHHHHHhhC
Confidence            46788899999999999999999998764

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 ....

>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins

Probab=97.04  E-value=0.001  Score=37.06  Aligned_cols=25  Identities=12%  Similarity=0.110  Sum_probs=22.2

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ..++++||++|.||+++|..+.+.+
T Consensus       201 ~~~~~~SA~~g~gi~~l~~~i~~~L  225 (233)
T cd01896         201 PNSVVISAEKGLNLDELKERIWDKL  225 (233)
T ss_pred             CCEEEEcCCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999998754

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.

>cd01895 EngA2 EngA2 subfamily

Probab=97.00  E-value=0.0018  Score=33.44  Aligned_cols=24  Identities=21%  Similarity=0.225  Sum_probs=21.4

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      .+++++||+++.||+++|..+.+.
T Consensus       150 ~~~~~~Sa~~~~~i~~~~~~l~~~  173 (174)
T cd01895         150 APIVFISALTGQGVDKLFDAIDEV  173 (174)
T ss_pred             CceEEEeccCCCCHHHHHHHHHHh
Confidence            679999999999999999988753

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.

>TIGR01393 lepA GTP-binding protein LepA

Probab=96.93  E-value=0.0018  Score=40.66  Aligned_cols=33  Identities=18%  Similarity=0.366  Sum_probs=26.6

Q ss_pred             HHHHHhCCC---eEEcccCCCCCHHHHHHHHHHHHH
Q 035388            3 AFADELGIP---FLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         3 ~~a~~~~~~---~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ++++.+++.   ++++||++|.||+++|..|++.+.
T Consensus       145 el~~~lg~~~~~vi~vSAktG~GI~~Lle~I~~~lp  180 (595)
T TIGR01393       145 EIEEVIGLDASEAILASAKTGIGIEEILEAIVKRVP  180 (595)
T ss_pred             HHHHHhCCCcceEEEeeccCCCCHHHHHHHHHHhCC
Confidence            455556653   799999999999999999988764

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.

>TIGR00436 era GTP-binding protein Era

Probab=96.89  E-value=0.0019  Score=36.64  Aligned_cols=25  Identities=12%  Similarity=-0.044  Sum_probs=22.2

Q ss_pred             CeEEcccCCCCCHHHHHHHHHHHHH
Q 035388           11 PFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus        11 ~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      .+|.+||++|.||++++..|.+.+.
T Consensus       140 ~v~~iSA~~g~gi~~L~~~l~~~l~  164 (270)
T TIGR00436       140 DIVPISALTGDNTSFLAAFIEVHLP  164 (270)
T ss_pred             ceEEEecCCCCCHHHHHHHHHHhCC
Confidence            6899999999999999998877653

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

>cd01855 YqeH YqeH

Probab=96.83  E-value=0.0036  Score=33.59  Aligned_cols=25  Identities=24%  Similarity=0.174  Sum_probs=22.2

Q ss_pred             CeEEcccCCCCCHHHHHHHHHHHHH
Q 035388           11 PFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus        11 ~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      .+|.+||++|.||+++|..|.+.+.
T Consensus       101 ~i~~vSA~~~~gi~eL~~~l~~~l~  125 (190)
T cd01855         101 DVILISAKKGWGVEELINAIKKLAK  125 (190)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhh
Confidence            5899999999999999999987653

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.

>cd00880 Era_like Era (E

Probab=96.79  E-value=0.0013  Score=33.08  Aligned_cols=26  Identities=19%  Similarity=0.344  Sum_probs=22.7

Q ss_pred             hCCCeEEcccCCCCCHHHHHHHHHHH
Q 035388            8 LGIPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         8 ~~~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      .+.+++++||+++.||++++..+.+.
T Consensus       137 ~~~~~~~~sa~~~~~v~~l~~~l~~~  162 (163)
T cd00880         137 LGLPVIAVSALTGEGIDELREALIEA  162 (163)
T ss_pred             cCCceEEEeeeccCCHHHHHHHHHhh
Confidence            35789999999999999999988764

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

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=96.78  E-value=0.0024  Score=31.69  Aligned_cols=27  Identities=56%  Similarity=0.829  Sum_probs=22.8

Q ss_pred             HHHhCCCeEEcccCCCCCHHHHHHHHH
Q 035388            5 ADELGIPFLETSAKDAINVEQAFLTMA   31 (66)
Q Consensus         5 a~~~~~~~~etSAkt~~~v~~~F~~l~   31 (66)
                      ......+++++||+++.|++++|..|+
T Consensus       130 ~~~~~~~~~~~s~~~~~~i~~~~~~l~  156 (157)
T cd00882         130 AKELGVPYFETSAKTGENVEELFEELA  156 (157)
T ss_pred             HhhcCCcEEEEecCCCCChHHHHHHHh
Confidence            334468899999999999999998875

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

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=96.77  E-value=0.0034  Score=37.15  Aligned_cols=30  Identities=23%  Similarity=0.321  Sum_probs=24.6

Q ss_pred             HHHHhCC---CeEEcccCCCCCHHHHHHHHHHH
Q 035388            4 FADELGI---PFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         4 ~a~~~~~---~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      +++.+++   .++++||++|.||+++|..|.+.
T Consensus       119 ~~k~~g~~~~~i~~vSAk~g~gv~eL~~~l~~~  151 (360)
T TIGR03597       119 RAKELGLKPVDIILVSAKKGNGIDELLDKIKKA  151 (360)
T ss_pred             HHHHcCCCcCcEEEecCCCCCCHHHHHHHHHHH
Confidence            4566676   48999999999999999988653

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.

>cd01859 MJ1464 MJ1464

Probab=96.75  E-value=0.0038  Score=32.41  Aligned_cols=28  Identities=29%  Similarity=0.285  Sum_probs=24.1

Q ss_pred             hCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            8 LGIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         8 ~~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      .+.+++.+||+++.|+++++..+.+.+.
T Consensus        69 ~~~~~~~iSa~~~~gi~~L~~~l~~~~~   96 (156)
T cd01859          69 EGIPVVYVSAKERLGTKILRRTIKELAK   96 (156)
T ss_pred             CCCcEEEEEccccccHHHHHHHHHHHHh
Confidence            4567899999999999999999887664

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.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=96.71  E-value=0.0027  Score=31.95  Aligned_cols=22  Identities=32%  Similarity=0.543  Sum_probs=19.6

Q ss_pred             CCCeEEcccCCCCCHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTM   30 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l   30 (66)
                      ..+++++||++|.||+++|..|
T Consensus       138 ~~~~~~~sa~~~~gv~~~~~~l  159 (161)
T TIGR00231       138 GEPIIPLSAETGKNIDSAFKIV  159 (161)
T ss_pred             CCceEEeecCCCCCHHHHHHHh
Confidence            4679999999999999999865

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.

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=96.68  E-value=0.0036  Score=38.05  Aligned_cols=35  Identities=14%  Similarity=0.109  Sum_probs=29.1

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      .+++.++.+++++|||+ .||+++|..|.+.+.+..
T Consensus       329 ~~~~~~~~~~~~vSak~-~gI~~~~~~L~~~i~~~~  363 (442)
T TIGR00450       329 FFVSSKVLNSSNLSAKQ-LKIKALVDLLTQKINAFY  363 (442)
T ss_pred             hhhhhcCCceEEEEEec-CCHHHHHHHHHHHHHHHh
Confidence            45666778899999998 699999999999887643

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.

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=96.62  E-value=0.0053  Score=37.96  Aligned_cols=30  Identities=20%  Similarity=0.300  Sum_probs=26.1

Q ss_pred             hCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            8 LGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         8 ~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      .+.++|++||+++.||++++..|++.+...
T Consensus       313 ~g~~Vf~ISA~tgeGLdEL~~~L~ell~~~  342 (500)
T PRK12296        313 RGWPVFEVSAASREGLRELSFALAELVEEA  342 (500)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHHhh
Confidence            467899999999999999999998887553

>cd04163 Era Era subfamily

Probab=96.37  E-value=0.0058  Score=31.15  Aligned_cols=24  Identities=17%  Similarity=0.137  Sum_probs=21.6

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      .+++++|++++.+++++|..|.+.
T Consensus       144 ~~~~~~s~~~~~~~~~l~~~l~~~  167 (168)
T cd04163         144 AEIFPISALKGENVDELLEEIVKY  167 (168)
T ss_pred             CceEEEEeccCCChHHHHHHHHhh
Confidence            678999999999999999988764

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.

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=96.35  E-value=0.0037  Score=36.92  Aligned_cols=24  Identities=17%  Similarity=0.065  Sum_probs=20.9

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      .+++++||++|.||+++|..|.+.
T Consensus       327 ~~~i~iSAktg~GI~eL~~~I~~~  350 (351)
T TIGR03156       327 PEAVFVSAKTGEGLDLLLEAIAER  350 (351)
T ss_pred             CCEEEEEccCCCCHHHHHHHHHhh
Confidence            458999999999999999988654

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).

>PRK00093 GTP-binding protein Der; Reviewed

Probab=96.30  E-value=0.0078  Score=36.14  Aligned_cols=27  Identities=15%  Similarity=0.134  Sum_probs=23.0

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      .++++++||++|.||+++|..+.+...
T Consensus       318 ~~~i~~~SA~~~~gv~~l~~~i~~~~~  344 (435)
T PRK00093        318 YAPIVFISALTGQGVDKLLEAIDEAYE  344 (435)
T ss_pred             CCCEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            368999999999999999998876543

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

Probab=96.28  E-value=0.0042  Score=33.14  Aligned_cols=23  Identities=9%  Similarity=0.055  Sum_probs=20.4

Q ss_pred             CeEEcccCCCCCHHHHHHHHHHH
Q 035388           11 PFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus        11 ~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      .++++||++|.|++++|.-|...
T Consensus       161 ~i~~~Sa~~~~g~~~~~~wl~~~  183 (184)
T smart00178      161 EVFMCSVVRRMGYGEGFKWLSQY  183 (184)
T ss_pred             EEEEeecccCCChHHHHHHHHhh
Confidence            48999999999999999988654

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

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=96.25  E-value=0.0086  Score=37.59  Aligned_cols=28  Identities=14%  Similarity=0.167  Sum_probs=23.8

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +.+++++||++|.||+++|..+...+-.
T Consensus       140 ~~~ii~vSA~tG~GI~eL~~~L~~l~~~  167 (581)
T TIGR00475       140 NAKIFKTSAKTGQGIGELKKELKNLLES  167 (581)
T ss_pred             CCcEEEEeCCCCCCchhHHHHHHHHHHh
Confidence            4789999999999999999988766543

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.

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

Probab=96.23  E-value=0.0052  Score=36.97  Aligned_cols=27  Identities=22%  Similarity=0.394  Sum_probs=23.4

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      +.+++.+||++|.||+++|..|...+.
T Consensus       175 ~~~ii~vSA~~g~gI~~L~~~L~~~l~  201 (411)
T PRK04000        175 NAPIIPVSALHKVNIDALIEAIEEEIP  201 (411)
T ss_pred             CCeEEEEECCCCcCHHHHHHHHHHhCC
Confidence            467999999999999999999887653

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=96.21  E-value=0.0049  Score=39.97  Aligned_cols=24  Identities=17%  Similarity=0.221  Sum_probs=21.5

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      ++|+++||++|.||+++|..|...
T Consensus       427 vp~vpvSAktG~GI~eLle~I~~~  450 (787)
T PRK05306        427 TIFVPVSAKTGEGIDELLEAILLQ  450 (787)
T ss_pred             ceEEEEeCCCCCCchHHHHhhhhh
Confidence            679999999999999999988753

>PRK00098 GTPase RsgA; Reviewed

Probab=96.20  E-value=0.0069  Score=34.99  Aligned_cols=28  Identities=29%  Similarity=0.364  Sum_probs=23.3

Q ss_pred             HHHhCCCeEEcccCCCCCHHHHHHHHHH
Q 035388            5 ADELGIPFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus         5 a~~~~~~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      .+..+++++.+||+++.||+++|..+..
T Consensus       137 ~~~~g~~v~~vSA~~g~gi~~L~~~l~g  164 (298)
T PRK00098        137 YRAIGYDVLELSAKEGEGLDELKPLLAG  164 (298)
T ss_pred             HHHCCCeEEEEeCCCCccHHHHHhhccC
Confidence            3455788999999999999999987754

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

Probab=96.19  E-value=0.0094  Score=31.25  Aligned_cols=28  Identities=18%  Similarity=0.237  Sum_probs=21.8

Q ss_pred             HHHHHhCCC-eEEcccCCCCCHHHHHHHH
Q 035388            3 AFADELGIP-FLETSAKDAINVEQAFLTM   30 (66)
Q Consensus         3 ~~a~~~~~~-~~etSAkt~~~v~~~F~~l   30 (66)
                      +|-+..|+. .|++||.+|+||+++...|
T Consensus       113 ~~L~~aG~~~if~vS~~~~eGi~eL~~~L  141 (143)
T PF10662_consen  113 KWLKNAGVKEIFEVSAVTGEGIEELKDYL  141 (143)
T ss_pred             HHHHHcCCCCeEEEECCCCcCHHHHHHHH
Confidence            344555643 6999999999999998766

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

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=96.17  E-value=0.007  Score=36.83  Aligned_cols=28  Identities=18%  Similarity=0.181  Sum_probs=24.6

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +.+++++||++|.||+++|..|.+.+..
T Consensus       344 ~~~~i~iSAktg~GI~~L~~~L~~~l~~  371 (449)
T PRK05291        344 GKPVIRISAKTGEGIDELREAIKELAFG  371 (449)
T ss_pred             CCceEEEEeeCCCCHHHHHHHHHHHHhh
Confidence            4578999999999999999999888754

>PRK03003 GTP-binding protein Der; Reviewed

Probab=96.14  E-value=0.0045  Score=37.75  Aligned_cols=25  Identities=12%  Similarity=0.008  Sum_probs=22.6

Q ss_pred             eEEcccCCCCCHHHHHHHHHHHHHH
Q 035388           12 FLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus        12 ~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      .+++||++|.||+++|..|+..+.+
T Consensus       176 ~~~iSA~~g~gi~eL~~~i~~~l~~  200 (472)
T PRK03003        176 PHPVSALHGRGVGDLLDAVLAALPE  200 (472)
T ss_pred             eEEEEcCCCCCcHHHHHHHHhhccc
Confidence            5799999999999999999988754

>PRK12288 GTPase RsgA; Reviewed

Probab=96.11  E-value=0.0079  Score=35.60  Aligned_cols=27  Identities=19%  Similarity=0.306  Sum_probs=23.5

Q ss_pred             HhCCCeEEcccCCCCCHHHHHHHHHHH
Q 035388            7 ELGIPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         7 ~~~~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      ..+.++|++||+++.||+++|..|...
T Consensus       180 ~~g~~v~~vSA~tg~GideL~~~L~~k  206 (347)
T PRK12288        180 NIGYRVLMVSSHTGEGLEELEAALTGR  206 (347)
T ss_pred             hCCCeEEEEeCCCCcCHHHHHHHHhhC
Confidence            456889999999999999999888754

>KOG1673 consensus Ras GTPases [General function prediction only]

Probab=96.11  E-value=0.015  Score=31.30  Aligned_cols=35  Identities=17%  Similarity=0.328  Sum_probs=31.6

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +.||+-.++..|.+|+--+.||..+|..+.-+++.
T Consensus       153 r~YAk~mnAsL~F~Sts~sINv~KIFK~vlAklFn  187 (205)
T KOG1673|consen  153 RKYAKVMNASLFFCSTSHSINVQKIFKIVLAKLFN  187 (205)
T ss_pred             HHHHHHhCCcEEEeeccccccHHHHHHHHHHHHhC
Confidence            56899999999999999999999999988888765

>PRK11058 GTPase HflX; Provisional

Probab=96.10  E-value=0.0092  Score=36.20  Aligned_cols=28  Identities=14%  Similarity=0.189  Sum_probs=24.0

Q ss_pred             CCC-eEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            9 GIP-FLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         9 ~~~-~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +.+ ++++||++|.||+++|..|...+..
T Consensus       335 ~~~~~v~ISAktG~GIdeL~e~I~~~l~~  363 (426)
T PRK11058        335 NKPIRVWLSAQTGAGIPLLFQALTERLSG  363 (426)
T ss_pred             CCCceEEEeCCCCCCHHHHHHHHHHHhhh
Confidence            445 4899999999999999999988754

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=96.10  E-value=0.0078  Score=30.78  Aligned_cols=25  Identities=8%  Similarity=0.033  Sum_probs=22.0

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      ..+++.+||+++.++++++..|.+.
T Consensus       145 ~~~~~~~Sa~~~~~~~~l~~~l~~~  169 (170)
T cd01876         145 DPPIILFSSLKGQGIDELRALIEKW  169 (170)
T ss_pred             CCceEEEecCCCCCHHHHHHHHHHh
Confidence            3578999999999999999988764

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.

>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=96.02  E-value=0.013  Score=31.14  Aligned_cols=25  Identities=20%  Similarity=0.233  Sum_probs=21.9

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ...+.+||++|.||.+.|.-|.+.|
T Consensus       151 ~~v~~~sa~~g~Gv~e~l~WL~~~~  175 (175)
T PF00025_consen  151 WSVFSCSAKTGEGVDEGLEWLIEQI  175 (175)
T ss_dssp             EEEEEEBTTTTBTHHHHHHHHHHHH
T ss_pred             eEEEeeeccCCcCHHHHHHHHHhcC
Confidence            4578999999999999999988765

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 ....

>PRK05433 GTP-binding protein LepA; Provisional

Probab=96.00  E-value=0.015  Score=36.70  Aligned_cols=32  Identities=28%  Similarity=0.416  Sum_probs=25.7

Q ss_pred             HHHHhCCC---eEEcccCCCCCHHHHHHHHHHHHH
Q 035388            4 FADELGIP---FLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         4 ~a~~~~~~---~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      +.+..++.   ++.+||++|.||+++|..|++.+.
T Consensus       150 i~~~lg~~~~~vi~iSAktG~GI~~Ll~~I~~~lp  184 (600)
T PRK05433        150 IEDVIGIDASDAVLVSAKTGIGIEEVLEAIVERIP  184 (600)
T ss_pred             HHHHhCCCcceEEEEecCCCCCHHHHHHHHHHhCc
Confidence            34444554   899999999999999999988765

>CHL00189 infB translation initiation factor 2; Provisional

Probab=95.99  E-value=0.0091  Score=38.58  Aligned_cols=24  Identities=21%  Similarity=0.300  Sum_probs=21.8

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      ++++++||++|.||+++|..|+..
T Consensus       385 vpvv~VSAktG~GIdeLle~I~~l  408 (742)
T CHL00189        385 TPMIPISASQGTNIDKLLETILLL  408 (742)
T ss_pred             ceEEEEECCCCCCHHHHHHhhhhh
Confidence            679999999999999999988765

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=95.95  E-value=0.024  Score=34.11  Aligned_cols=27  Identities=19%  Similarity=0.191  Sum_probs=24.1

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      ..++.+||+++.||++++..|++.+.+
T Consensus       308 ~~Vi~ISA~tg~GIdeLl~~I~~~L~~  334 (390)
T PRK12298        308 GPVYLISAASGLGVKELCWDLMTFIEE  334 (390)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHhhh
Confidence            368999999999999999999988765

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=95.88  E-value=0.0078  Score=37.88  Aligned_cols=23  Identities=13%  Similarity=0.079  Sum_probs=20.6

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      .+|+++||++|.||+++|..++.
T Consensus       225 ~~~v~iSAktGeGI~eLl~~I~~  247 (587)
T TIGR00487       225 TIFVPVSALTGDGIDELLDMILL  247 (587)
T ss_pred             ceEEEEECCCCCChHHHHHhhhh
Confidence            46999999999999999998864

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.

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=95.87  E-value=0.0099  Score=35.70  Aligned_cols=27  Identities=19%  Similarity=0.263  Sum_probs=23.4

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      +++++.+||++|.||++++..|...+.
T Consensus       170 ~~~ii~vSA~~g~gi~~L~e~L~~~l~  196 (406)
T TIGR03680       170 NAPIIPVSALHNANIDALLEAIEKFIP  196 (406)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHHhCC
Confidence            467999999999999999999887653

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

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

Probab=95.86  E-value=0.0072  Score=37.54  Aligned_cols=24  Identities=25%  Similarity=0.325  Sum_probs=21.6

Q ss_pred             eEEcccCCCCCHHHHHHHHHHHHH
Q 035388           12 FLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus        12 ~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      -+.+|||||.||+++...+++.|.
T Consensus       163 av~~SAKtG~gI~~iLe~Iv~~iP  186 (603)
T COG0481         163 AVLVSAKTGIGIEDVLEAIVEKIP  186 (603)
T ss_pred             heeEecccCCCHHHHHHHHHhhCC
Confidence            688999999999999998888875

>PRK00089 era GTPase Era; Reviewed

Probab=95.86  E-value=0.019  Score=32.83  Aligned_cols=26  Identities=19%  Similarity=0.153  Sum_probs=23.2

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ..++.+||+++.|+++++..|.+.+.
T Consensus       146 ~~i~~iSA~~~~gv~~L~~~L~~~l~  171 (292)
T PRK00089        146 AEIVPISALKGDNVDELLDVIAKYLP  171 (292)
T ss_pred             CeEEEecCCCCCCHHHHHHHHHHhCC
Confidence            56899999999999999999888764

>PRK13796 GTPase YqeH; Provisional

Probab=95.84  E-value=0.021  Score=33.99  Aligned_cols=29  Identities=21%  Similarity=0.321  Sum_probs=23.8

Q ss_pred             HHHhCC---CeEEcccCCCCCHHHHHHHHHHH
Q 035388            5 ADELGI---PFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         5 a~~~~~---~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      ++.+++   .++.+||+++.||+++|..+.+.
T Consensus       126 ~k~~g~~~~~v~~vSAk~g~gI~eL~~~I~~~  157 (365)
T PRK13796        126 AKELGLRPVDVVLISAQKGHGIDELLEAIEKY  157 (365)
T ss_pred             HHhcCCCcCcEEEEECCCCCCHHHHHHHHHHh
Confidence            455565   57999999999999999998654

>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=95.81  E-value=0.0083  Score=32.13  Aligned_cols=25  Identities=12%  Similarity=0.272  Sum_probs=22.2

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      .+++.+||++|.||++++..|++.+
T Consensus       162 ~~vi~~Sa~~g~gi~~Ll~~l~~~~  186 (188)
T PF00009_consen  162 VPVIPISALTGDGIDELLEALVELL  186 (188)
T ss_dssp             EEEEEEBTTTTBTHHHHHHHHHHHS
T ss_pred             ceEEEEecCCCCCHHHHHHHHHHhC
Confidence            4699999999999999999888765

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=95.55  E-value=0.02  Score=32.91  Aligned_cols=27  Identities=30%  Similarity=0.368  Sum_probs=23.2

Q ss_pred             HHhCCCeEEcccCCCCCHHHHHHHHHH
Q 035388            6 DELGIPFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus         6 ~~~~~~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      ...+.+++.+||+++.|+++++..|..
T Consensus       135 ~~~g~~v~~vSA~~g~gi~~L~~~L~~  161 (287)
T cd01854         135 LALGYPVLAVSAKTGEGLDELREYLKG  161 (287)
T ss_pred             HhCCCeEEEEECCCCccHHHHHhhhcc
Confidence            446788999999999999999988765

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.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=95.51  E-value=0.026  Score=36.23  Aligned_cols=27  Identities=15%  Similarity=0.111  Sum_probs=23.1

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      .+.+.+||++|.||+++|..+++.+..
T Consensus       596 ~~ii~iSAktg~gv~~L~~~i~~~~~~  622 (712)
T PRK09518        596 ARRVNLSAKTGWHTNRLAPAMQEALES  622 (712)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            345899999999999999999887654

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=95.48  E-value=0.027  Score=35.73  Aligned_cols=25  Identities=8%  Similarity=0.020  Sum_probs=22.2

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      .+++.+||++|.||++++..|....
T Consensus       141 ~~ii~VSA~tG~gI~~L~~~L~~~~  165 (614)
T PRK10512        141 AKLFVTAATEGRGIDALREHLLQLP  165 (614)
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhh
Confidence            6799999999999999999887654

>KOG3905 consensus Dynein light intermediate chain [Cell motility]

Probab=95.45  E-value=0.03  Score=33.57  Aligned_cols=36  Identities=17%  Similarity=0.220  Sum_probs=32.6

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      +.||-++|...|.||+|+..||+-++..|+..++..
T Consensus       257 RkFCLr~GaaLiyTSvKE~KNidllyKYivhr~yG~  292 (473)
T KOG3905|consen  257 RKFCLRYGAALIYTSVKETKNIDLLYKYIVHRSYGF  292 (473)
T ss_pred             HHHHHHcCceeEEeecccccchHHHHHHHHHHhcCc
Confidence            568889999999999999999999999999988753

>KOG0096 consensus GTPase Ran/TC4/GSP1 (nuclear protein transport pathway), small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.45  E-value=0.0049  Score=33.95  Aligned_cols=31  Identities=29%  Similarity=0.444  Sum_probs=27.2

Q ss_pred             HHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            6 DELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         6 ~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +..++.|+|.|||++.|++.-|.-+++.+..
T Consensus       140 rkknl~y~~iSaksn~NfekPFl~LarKl~G  170 (216)
T KOG0096|consen  140 RKKNLQYYEISAKSNYNFERPFLWLARKLTG  170 (216)
T ss_pred             ecccceeEEeecccccccccchHHHhhhhcC
Confidence            3456789999999999999999999999864

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

Probab=95.37  E-value=0.04  Score=30.48  Aligned_cols=25  Identities=12%  Similarity=0.166  Sum_probs=21.0

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      +.++++||+|||.|++++...+...
T Consensus       175 ~~~ii~~n~ktg~G~~~~~~~i~~~  199 (202)
T COG0378         175 EAPIIFTNLKTGEGLDEWLRFIEPQ  199 (202)
T ss_pred             CCCEEEEeCCCCcCHHHHHHHHHhh
Confidence            3789999999999999997766543

>PRK12289 GTPase RsgA; Reviewed

Probab=95.29  E-value=0.026  Score=33.55  Aligned_cols=28  Identities=21%  Similarity=0.261  Sum_probs=23.9

Q ss_pred             HhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            7 ELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         7 ~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      .+++.++.+||+++.||++++..|...+
T Consensus       147 ~~g~~v~~iSA~tg~GI~eL~~~L~~ki  174 (352)
T PRK12289        147 QWGYQPLFISVETGIGLEALLEQLRNKI  174 (352)
T ss_pred             hcCCeEEEEEcCCCCCHHHHhhhhccce
Confidence            5678899999999999999998887543

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=95.11  E-value=0.038  Score=33.14  Aligned_cols=30  Identities=13%  Similarity=0.175  Sum_probs=25.0

Q ss_pred             HhCC-CeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            7 ELGI-PFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         7 ~~~~-~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      .+++ .+|++||++|.||+++|..+.+.+..
T Consensus       131 ~lg~~~~~~vSa~~g~gv~~ll~~i~~~l~~  161 (429)
T TIGR03594       131 SLGFGEPIPISAEHGRGIGDLLDAILELLPE  161 (429)
T ss_pred             hcCCCCeEEEeCCcCCChHHHHHHHHHhcCc
Confidence            4555 68999999999999999998877643

EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=95.10  E-value=0.031  Score=33.64  Aligned_cols=26  Identities=19%  Similarity=0.211  Sum_probs=22.1

Q ss_pred             hCCC-eEEcccCCCCCHHHHHHHHHHH
Q 035388            8 LGIP-FLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         8 ~~~~-~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      .++. ++++||++|.||+++|..++..
T Consensus       134 lg~~~~~~iSa~~g~gv~~l~~~I~~~  160 (435)
T PRK00093        134 LGLGEPYPISAEHGRGIGDLLDAILEE  160 (435)
T ss_pred             cCCCCCEEEEeeCCCCHHHHHHHHHhh
Confidence            4553 8999999999999999998873

>TIGR00750 lao LAO/AO transport system ATPase

Probab=95.09  E-value=0.043  Score=31.76  Aligned_cols=25  Identities=20%  Similarity=0.296  Sum_probs=22.1

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      .+++.+||+++.||++++..+.+..
T Consensus       213 ~~v~~iSA~~g~Gi~~L~~~i~~~~  237 (300)
T TIGR00750       213 PPVLTTSAVEGRGIDELWDAIEEHK  237 (300)
T ss_pred             CCEEEEEccCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998764

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.

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=94.96  E-value=0.031  Score=34.76  Aligned_cols=23  Identities=17%  Similarity=0.232  Sum_probs=19.9

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      ..|..+|||+|+||+++...++-
T Consensus       145 v~~VpvSA~tg~Gi~eLL~~ill  167 (509)
T COG0532         145 VIFVPVSAKTGEGIDELLELILL  167 (509)
T ss_pred             eEEEEeeccCCCCHHHHHHHHHH
Confidence            56899999999999999877653

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=94.94  E-value=0.052  Score=35.37  Aligned_cols=33  Identities=18%  Similarity=0.299  Sum_probs=27.7

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      +++++..+++++.+||++|.||+++...+.+..
T Consensus       135 ~~L~~~LG~pVvpiSA~~g~GIdeL~~~I~~~~  167 (772)
T PRK09554        135 DALSARLGCPVIPLVSTRGRGIEALKLAIDRHQ  167 (772)
T ss_pred             HHHHHHhCCCEEEEEeecCCCHHHHHHHHHHhh
Confidence            356778899999999999999999988776543

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

Probab=94.79  E-value=0.057  Score=29.25  Aligned_cols=28  Identities=32%  Similarity=0.464  Sum_probs=25.0

Q ss_pred             CeEEcccC--CCCCHHHHHHHHHHHHHHHh
Q 035388           11 PFLETSAK--DAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus        11 ~~~etSAk--t~~~v~~~F~~l~~~i~~~~   38 (66)
                      .++++||+  ++.+|+++|..+++.+....
T Consensus       159 ~~~~~s~~~~~~~~v~~~~~~~~~~~~~~~  188 (219)
T COG1100         159 ALLETSAKSLTGPNVNELFKELLRKLLEEI  188 (219)
T ss_pred             ceeEeecccCCCcCHHHHHHHHHHHHHHhh
Confidence            38999999  99999999999999997543

>cd04165 GTPBP1_like GTPBP1-like

Probab=94.77  E-value=0.047  Score=30.41  Aligned_cols=22  Identities=9%  Similarity=0.221  Sum_probs=19.3

Q ss_pred             CCeEEcccCCCCCHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMA   31 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~   31 (66)
                      +++|.+||.+|.|++++...|.
T Consensus       198 ~pi~~vSavtg~Gi~~L~~~L~  219 (224)
T cd04165         198 VPIFQVSNVTGEGLDLLHAFLN  219 (224)
T ss_pred             CcEEEeeCCCccCHHHHHHHHH
Confidence            5899999999999999987664

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

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=94.61  E-value=0.033  Score=35.79  Aligned_cols=25  Identities=16%  Similarity=0.004  Sum_probs=22.4

Q ss_pred             eEEcccCCCCCHHHHHHHHHHHHHH
Q 035388           12 FLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus        12 ~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      .|++||++|.||+++|..|+..+..
T Consensus       413 ~~~iSA~~g~GI~eLl~~i~~~l~~  437 (712)
T PRK09518        413 PYPISAMHGRGVGDLLDEALDSLKV  437 (712)
T ss_pred             eEEEECCCCCCchHHHHHHHHhccc
Confidence            5789999999999999999988754

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=94.58  E-value=0.027  Score=29.56  Aligned_cols=23  Identities=9%  Similarity=0.014  Sum_probs=19.0

Q ss_pred             CCeEEcccCCC------CCHHHHHHHHHH
Q 035388           10 IPFLETSAKDA------INVEQAFLTMAG   32 (66)
Q Consensus        10 ~~~~etSAkt~------~~v~~~F~~l~~   32 (66)
                      ..++++||++|      .||.+.|.=|+.
T Consensus       138 ~~~~~~Sa~~g~~~~~~~g~~~~~~wl~~  166 (167)
T cd04161         138 CHIEPCSAIEGLGKKIDPSIVEGLRWLLA  166 (167)
T ss_pred             EEEEEeEceeCCCCccccCHHHHHHHHhc
Confidence            45778999998      899999987753

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.

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=94.43  E-value=0.022  Score=34.38  Aligned_cols=19  Identities=32%  Similarity=0.342  Sum_probs=16.6

Q ss_pred             CCeEEcccCCCCCHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFL   28 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~   28 (66)
                      ++|+++||++|.||++++.
T Consensus       182 ~~~i~iSA~~g~ni~~~~~  200 (426)
T TIGR00483       182 VPFIPISAWNGDNVIKKSE  200 (426)
T ss_pred             ceEEEeecccccccccccc
Confidence            5699999999999998664

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.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=94.17  E-value=0.098  Score=30.99  Aligned_cols=26  Identities=15%  Similarity=0.276  Sum_probs=22.8

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      .+++.+||+++.||++++..|.+.+.
T Consensus       235 ~pVi~vSA~~g~GIdeL~~~I~~~~~  260 (332)
T PRK09435        235 PPVLTCSALEGEGIDEIWQAIEDHRA  260 (332)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            57899999999999999999887653

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

Probab=93.89  E-value=0.17  Score=26.45  Aligned_cols=30  Identities=37%  Similarity=0.440  Sum_probs=24.1

Q ss_pred             HHHHHhCC-CeEEcccCCCCCHHHHHHHHHH
Q 035388            3 AFADELGI-PFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus         3 ~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      .|-.+-|. +.|++||.++.+|++++..|+.
T Consensus       113 ~~L~eaGa~~IF~~s~~d~~gv~~l~~~L~~  143 (148)
T COG4917         113 RWLREAGAEPIFETSAVDNQGVEELVDYLAS  143 (148)
T ss_pred             HHHHHcCCcceEEEeccCcccHHHHHHHHHh
Confidence            34455564 5899999999999999998864

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=93.85  E-value=0.14  Score=32.91  Aligned_cols=33  Identities=21%  Similarity=0.285  Sum_probs=28.0

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      +++.+..|++.+.|||++|.|++++-..+.+..
T Consensus       131 ~~L~~~LGvPVv~tvA~~g~G~~~l~~~i~~~~  163 (653)
T COG0370         131 EKLSKLLGVPVVPTVAKRGEGLEELKRAIIELA  163 (653)
T ss_pred             HHHHHHhCCCEEEEEeecCCCHHHHHHHHHHhc
Confidence            457788999999999999999999988776543

>KOG0073 consensus GTP-binding ADP-ribosylation factor-like protein ARL2 [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]

Probab=93.74  E-value=0.16  Score=27.58  Aligned_cols=35  Identities=9%  Similarity=0.112  Sum_probs=30.1

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      ++++.+..+.+-+||.||.++.+.|.-|+..+.++
T Consensus       146 ~l~ks~~~~l~~cs~~tge~l~~gidWL~~~l~~r  180 (185)
T KOG0073|consen  146 ELAKSHHWRLVKCSAVTGEDLLEGIDWLCDDLMSR  180 (185)
T ss_pred             HhccccCceEEEEeccccccHHHHHHHHHHHHHHH
Confidence            45677778899999999999999999999888764

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

Probab=93.70  E-value=0.079  Score=33.63  Aligned_cols=26  Identities=23%  Similarity=0.318  Sum_probs=22.1

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ...+.+|||+|.||++++..+++.|.
T Consensus       210 ~~~i~vSAK~G~~v~~lL~AII~rVP  235 (650)
T KOG0462|consen  210 AEVIYVSAKTGLNVEELLEAIIRRVP  235 (650)
T ss_pred             cceEEEEeccCccHHHHHHHHHhhCC
Confidence            35789999999999998888887764

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

Probab=93.59  E-value=0.11  Score=32.98  Aligned_cols=23  Identities=17%  Similarity=0.317  Sum_probs=20.2

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      ++++.+||+||+|++++...|..
T Consensus       191 v~iVpVSA~tGeGideLl~~l~~  213 (590)
T TIGR00491       191 VAIIPISAITGEGIPELLTMLAG  213 (590)
T ss_pred             ceEEEeecCCCCChhHHHHHHHH
Confidence            67999999999999999877654

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.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=93.09  E-value=0.3  Score=25.36  Aligned_cols=26  Identities=12%  Similarity=0.060  Sum_probs=21.4

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ....+.+||++|.|++++...+.+..
T Consensus        59 ~~~ii~vSa~~~~gi~~L~~~i~~~~   84 (155)
T cd01849          59 PTIPFKISATNGQGIEKKESAFTKQT   84 (155)
T ss_pred             CceEEEEeccCCcChhhHHHHHHHHh
Confidence            34578899999999999998887653

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.

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

Probab=92.90  E-value=0.044  Score=29.03  Aligned_cols=15  Identities=7%  Similarity=-0.037  Sum_probs=13.2

Q ss_pred             CCeEEcccCCCCCHH
Q 035388           10 IPFLETSAKDAINVE   24 (66)
Q Consensus        10 ~~~~etSAkt~~~v~   24 (66)
                      ..+|++||++|.||+
T Consensus       165 ~~v~~~Sa~~g~gi~  179 (179)
T TIGR03598       165 PSVQLFSSLKKTGID  179 (179)
T ss_pred             CceEEEECCCCCCCC
Confidence            479999999999984

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.

>PRK14845 translation initiation factor IF-2; Provisional

Probab=92.68  E-value=0.15  Score=34.51  Aligned_cols=23  Identities=22%  Similarity=0.430  Sum_probs=19.8

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      ++++.+||+||.||+++...|..
T Consensus       648 v~iVpVSA~tGeGId~Ll~~l~~  670 (1049)
T PRK14845        648 VAIVPVSAKTGEGIPELLMMVAG  670 (1049)
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHH
Confidence            67899999999999999876643

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=92.66  E-value=0.22  Score=29.06  Aligned_cols=24  Identities=17%  Similarity=0.101  Sum_probs=20.9

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      .+..|.+||++|.|++++...|..
T Consensus       263 ~a~I~~vSA~tGeGld~L~~~L~~  286 (290)
T PRK10463        263 EIEIILISATSGEGMDQWLNWLET  286 (290)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            377999999999999999887754

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=92.52  E-value=0.16  Score=31.39  Aligned_cols=26  Identities=19%  Similarity=0.309  Sum_probs=22.1

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      +.+++.+||++|.||+.+...|...+
T Consensus       207 ~~~iipVSA~~G~nI~~Ll~~L~~~l  232 (460)
T PTZ00327        207 NAPIIPISAQLKYNIDVVLEYICTQI  232 (460)
T ss_pred             CCeEEEeeCCCCCCHHHHHHHHHhhC
Confidence            46799999999999999988887644

>PRK13768 GTPase; Provisional

Probab=92.37  E-value=0.34  Score=27.46  Aligned_cols=25  Identities=12%  Similarity=0.255  Sum_probs=22.1

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ..++.+||+++.|++++...|.+.+
T Consensus       222 ~~vi~iSa~~~~gl~~L~~~I~~~l  246 (253)
T PRK13768        222 VRVIPVSAKTGEGFDELYAAIQEVF  246 (253)
T ss_pred             CcEEEEECCCCcCHHHHHHHHHHHc
Confidence            5789999999999999998887665

>PF07764 Omega_Repress: Omega Transcriptional Repressor; InterPro: IPR011686 The omega transcriptional repressor regulates expression of genes involved in copy number control and stable maintenance of plasmids

Probab=92.05  E-value=0.19  Score=22.78  Aligned_cols=22  Identities=27%  Similarity=0.216  Sum_probs=17.9

Q ss_pred             ccCCCCCHHHHHHHHHHHHHHH
Q 035388           16 SAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus        16 SAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      |||+|-||.++.+...+.-++.
T Consensus        44 tAknGgNvKEvme~~lr~~l~~   65 (71)
T PF07764_consen   44 TAKNGGNVKEVMEQALREKLKS   65 (71)
T ss_dssp             HHHSSS-HHHHHHHHHHHHHHH
T ss_pred             ecccCCCHHHHHHHHHHHHHHH
Confidence            7999999999998888877654

The omega protein belongs to the structural superfamily of MetJ/Arc repressors featuring a ribbon-helix-helix DNA-binding motif with the beta-ribbon located in and recognising the major groove of operator DNA [].; PDB: 2BNW_D 1IRQ_A 2CAX_B 2BNZ_A.

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

Probab=91.94  E-value=0.14  Score=27.50  Aligned_cols=19  Identities=32%  Similarity=0.331  Sum_probs=15.3

Q ss_pred             hCCCeEEcccCCCCCHHHH
Q 035388            8 LGIPFLETSAKDAINVEQA   26 (66)
Q Consensus         8 ~~~~~~etSAkt~~~v~~~   26 (66)
                      .+++++++||++|.|+.+.
T Consensus       155 ~~~~iv~~Sa~~g~~~~~~  173 (194)
T cd01891         155 LDFPVLYASAKNGWASLNL  173 (194)
T ss_pred             CccCEEEeehhcccccccc
Confidence            3678999999999888433

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

>PRK04004 translation initiation factor IF-2; Validated

Probab=91.76  E-value=0.28  Score=31.21  Aligned_cols=23  Identities=22%  Similarity=0.444  Sum_probs=20.1

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      ++++.+||++|.|++++...+..
T Consensus       193 v~ivpiSA~tGeGi~dLl~~i~~  215 (586)
T PRK04004        193 VAIVPVSAKTGEGIPDLLMVLAG  215 (586)
T ss_pred             ceEeeccCCCCCChHHHHHHHHH
Confidence            67999999999999999877754

>KOG3883 consensus Ras family small GTPase [Signal transduction mechanisms]

Probab=91.76  E-value=0.22  Score=26.93  Aligned_cols=35  Identities=20%  Similarity=0.316  Sum_probs=31.2

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      ..||+.-.+..+|++|++...+-+-|..|+..+..
T Consensus       142 ~~Wa~rEkvkl~eVta~dR~sL~epf~~l~~rl~~  176 (198)
T KOG3883|consen  142 QIWAKREKVKLWEVTAMDRPSLYEPFTYLASRLHQ  176 (198)
T ss_pred             HHHHhhhheeEEEEEeccchhhhhHHHHHHHhccC
Confidence            46888888999999999999999999999888753

>KOG0705 consensus GTPase-activating protein Centaurin gamma (contains Ras-like GTPase, PH and ankyrin repeat domains) [Signal transduction mechanisms]

Probab=91.75  E-value=0.55  Score=30.22  Aligned_cols=29  Identities=31%  Similarity=0.417  Sum_probs=25.7

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      -..|||+.|-+|.||+..|.+++..++..
T Consensus       163 rcsy~et~atyGlnv~rvf~~~~~k~i~~  191 (749)
T KOG0705|consen  163 RCSYYETCATYGLNVERVFQEVAQKIVQL  191 (749)
T ss_pred             ccceeecchhhhhhHHHHHHHHHHHHHHH
Confidence            47799999999999999999999887653

>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=91.62  E-value=0.51  Score=25.29  Aligned_cols=28  Identities=29%  Similarity=0.377  Sum_probs=22.1

Q ss_pred             HHHhCCCeEEcccCCCCCHHHHHHHHHH
Q 035388            5 ADELGIPFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus         5 a~~~~~~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      -+..+.+.+.+|++++.+++++...+..
T Consensus         8 y~~~gy~v~~~S~~~~~g~~~l~~~l~~   35 (161)
T PF03193_consen    8 YEKLGYPVFFISAKTGEGIEELKELLKG   35 (161)
T ss_dssp             HHHTTSEEEE-BTTTTTTHHHHHHHHTT
T ss_pred             HHHcCCcEEEEeCCCCcCHHHHHHHhcC
Confidence            4556888999999999999998876544

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.

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

Probab=91.38  E-value=0.31  Score=28.87  Aligned_cols=27  Identities=15%  Similarity=0.225  Sum_probs=22.9

Q ss_pred             hCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            8 LGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         8 ~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      |..+.+.|||.+|+||++++..+.+..
T Consensus       227 W~ppv~~t~A~~g~Gi~~L~~ai~~h~  253 (323)
T COG1703         227 WRPPVVTTSALEGEGIDELWDAIEDHR  253 (323)
T ss_pred             CCCceeEeeeccCCCHHHHHHHHHHHH
Confidence            456789999999999999998887654

>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=91.24  E-value=0.3  Score=28.26  Aligned_cols=25  Identities=20%  Similarity=0.331  Sum_probs=20.6

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      ..+.+.|||.++.||++++..|.+.
T Consensus       204 ~ppV~~tsA~~~~Gi~eL~~~i~~~  228 (266)
T PF03308_consen  204 RPPVLKTSALEGEGIDELWEAIDEH  228 (266)
T ss_dssp             --EEEEEBTTTTBSHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHH
Confidence            3578999999999999999888664

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.

>cd01856 YlqF YlqF

Probab=91.01  E-value=0.67  Score=24.49  Aligned_cols=25  Identities=16%  Similarity=0.081  Sum_probs=21.4

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ..++.+||+++.|++++...+...+
T Consensus        76 ~~vi~iSa~~~~gi~~L~~~l~~~l  100 (171)
T cd01856          76 EKVLFVNAKSGKGVKKLLKAAKKLL  100 (171)
T ss_pred             CeEEEEECCCcccHHHHHHHHHHHH
Confidence            4578999999999999998887765

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.

>KOG4271 consensus Rho-GTPase activating protein [Signal transduction mechanisms]

Probab=90.54  E-value=0.47  Score=31.97  Aligned_cols=30  Identities=33%  Similarity=0.410  Sum_probs=27.0

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      +++.+|||+..+.||+-+|-.|+..+.+..
T Consensus         3 ~l~~vetss~~nvnve~~f~tl~~l~~ksr   32 (1100)
T KOG4271|consen    3 NLPVVETSSVKNVNVEYLFGTLVQLCDKSR   32 (1100)
T ss_pred             CCCceeecccccccHHHHHHHHHHHHHhhc
Confidence            678999999999999999999999987643

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

Probab=90.50  E-value=0.099  Score=28.80  Aligned_cols=15  Identities=27%  Similarity=0.437  Sum_probs=13.6

Q ss_pred             CCeEEcccCCCCCHH
Q 035388           10 IPFLETSAKDAINVE   24 (66)
Q Consensus        10 ~~~~etSAkt~~~v~   24 (66)
                      .+++.+||++|.||+
T Consensus       180 ~~ii~iSA~tg~gi~  194 (219)
T cd01883         180 VPFIPISGLTGDNLI  194 (219)
T ss_pred             ceEEEeecCcCCCCC
Confidence            569999999999997

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

>KOG0072 consensus GTP-binding ADP-ribosylation factor-like protein ARL1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.19  E-value=0.27  Score=26.36  Aligned_cols=26  Identities=19%  Similarity=0.182  Sum_probs=22.4

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ...|++||-+|+|++.+++=|.+-+-
T Consensus       154 ~~Iv~tSA~kg~Gld~~~DWL~~~l~  179 (182)
T KOG0072|consen  154 WQIVKTSAVKGEGLDPAMDWLQRPLK  179 (182)
T ss_pred             eEEEeeccccccCCcHHHHHHHHHHh
Confidence            45799999999999999998887664

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=90.12  E-value=0.16  Score=30.75  Aligned_cols=19  Identities=37%  Similarity=0.394  Sum_probs=16.4

Q ss_pred             CCeEEcccCCCCCHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFL   28 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~   28 (66)
                      .+++.+||++|.||++.+.
T Consensus       180 ~~ii~iSA~~g~gi~~~~~  198 (425)
T PRK12317        180 IPFIPVSAFEGDNVVKKSE  198 (425)
T ss_pred             ceEEEeecccCCCcccccc
Confidence            4689999999999998664

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=89.86  E-value=0.25  Score=26.96  Aligned_cols=16  Identities=38%  Similarity=0.368  Sum_probs=13.8

Q ss_pred             CeEEcccCCCCCHHHH
Q 035388           11 PFLETSAKDAINVEQA   26 (66)
Q Consensus        11 ~~~etSAkt~~~v~~~   26 (66)
                      +++.+||++|.||++.
T Consensus       170 ~ii~iSA~~g~ni~~~  185 (208)
T cd04166         170 TFIPISALDGDNVVSR  185 (208)
T ss_pred             eEEEEeCCCCCCCccC
Confidence            4899999999999853

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.

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=89.37  E-value=0.022  Score=27.91  Aligned_cols=20  Identities=50%  Similarity=0.511  Sum_probs=15.6

Q ss_pred             HHHhCCCeEEcccCCCCCHH
Q 035388            5 ADELGIPFLETSAKDAINVE   24 (66)
Q Consensus         5 a~~~~~~~~etSAkt~~~v~   24 (66)
                      +++.+..|+++||++|.||.
T Consensus        96 ~~~~~~~~~~~s~~~~~~~~  115 (124)
T smart00010       96 ATEEGLEFAETSAKTPEEGE  115 (124)
T ss_pred             CHHHHHHHHHHhCCCcchhh
Confidence            44445678999999999984

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.

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=88.97  E-value=0.49  Score=26.84  Aligned_cols=25  Identities=24%  Similarity=0.291  Sum_probs=21.6

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ++.|-.||+++.||+.++..+...+
T Consensus       241 ~pv~~gSa~~~~G~~~ll~~~~~~~  265 (268)
T cd04170         241 VPVLCGSALTNIGVRELLDALVHLL  265 (268)
T ss_pred             EEEEEeeCCCCcCHHHHHHHHHHhC
Confidence            5789999999999999998887654

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

>COG1160 Predicted GTPases [General function prediction only]

Probab=88.64  E-value=0.56  Score=29.06  Aligned_cols=24  Identities=17%  Similarity=0.207  Sum_probs=20.6

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      ++.+.+||++|.+|+++|..+...
T Consensus       326 a~i~~iSA~~~~~i~~l~~~i~~~  349 (444)
T COG1160         326 APIVFISALTGQGLDKLFEAIKEI  349 (444)
T ss_pred             CeEEEEEecCCCChHHHHHHHHHH
Confidence            567899999999999999877554

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=87.98  E-value=1.2  Score=27.80  Aligned_cols=36  Identities=17%  Similarity=0.251  Sum_probs=31.0

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      +.||-.+|+-+|.||+|...|++-++..|...++..
T Consensus       231 R~~cL~yGAsL~yts~~~~~n~~~L~~yi~h~l~~~  266 (472)
T PF05783_consen  231 RTFCLKYGASLIYTSVKEEKNLDLLYKYILHRLYGF  266 (472)
T ss_pred             HHHHHhcCCeEEEeeccccccHHHHHHHHHHHhccC
Confidence            467888999999999999999999998888877654

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 [].

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=87.71  E-value=0.55  Score=29.98  Aligned_cols=28  Identities=18%  Similarity=0.350  Sum_probs=23.3

Q ss_pred             hCCCeEEcccCCCC----------CHHHHHHHHHHHHH
Q 035388            8 LGIPFLETSAKDAI----------NVEQAFLTMAGEIK   35 (66)
Q Consensus         8 ~~~~~~etSAkt~~----------~v~~~F~~l~~~i~   35 (66)
                      ..++++.+||++|.          ||+.+|..++..+.
T Consensus       154 l~~pvl~~SA~~g~~~~~~~~~~~gi~~Lld~Iv~~lP  191 (594)
T TIGR01394       154 LDFPIVYASGRAGWASLDLDDPSDNMAPLFDAIVRHVP  191 (594)
T ss_pred             ccCcEEechhhcCcccccCcccccCHHHHHHHHHHhCC
Confidence            35789999999996          79999988887764

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.

>COG2262 HflX GTPases [General function prediction only]

Probab=87.52  E-value=0.92  Score=27.87  Aligned_cols=26  Identities=12%  Similarity=-0.074  Sum_probs=22.9

Q ss_pred             CeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388           11 PFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus        11 ~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      ..+.+||++|.|++.+...|...+..
T Consensus       332 ~~v~iSA~~~~gl~~L~~~i~~~l~~  357 (411)
T COG2262         332 NPVFISAKTGEGLDLLRERIIELLSG  357 (411)
T ss_pred             CeEEEEeccCcCHHHHHHHHHHHhhh
Confidence            47899999999999999999888764

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=87.34  E-value=0.69  Score=28.66  Aligned_cols=25  Identities=20%  Similarity=0.195  Sum_probs=22.6

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      +++|-+||++|+||+++-..|....
T Consensus       137 ~~i~~~s~~~g~GI~~Lk~~l~~L~  161 (447)
T COG3276         137 AKIFKTSAKTGRGIEELKNELIDLL  161 (447)
T ss_pred             ccccccccccCCCHHHHHHHHHHhh
Confidence            5679999999999999999998877

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=86.57  E-value=1.7  Score=25.86  Aligned_cols=26  Identities=8%  Similarity=0.161  Sum_probs=22.4

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ++...-+||.||.|.++.|..+-..+
T Consensus       238 ~lrtv~VSs~tG~G~ddf~~av~~~v  263 (366)
T KOG1532|consen  238 SLRTVGVSSVTGEGFDDFFTAVDESV  263 (366)
T ss_pred             hCceEEEecccCCcHHHHHHHHHHHH
Confidence            46788999999999999998886655

>PLN00043 elongation factor 1-alpha; Provisional

Probab=86.34  E-value=0.51  Score=29.05  Aligned_cols=16  Identities=31%  Similarity=0.470  Sum_probs=14.2

Q ss_pred             CCeEEcccCCCCCHHH
Q 035388           10 IPFLETSAKDAINVEQ   25 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~   25 (66)
                      ++|+.+||++|.||.+
T Consensus       188 ~~~ipiSa~~G~ni~~  203 (447)
T PLN00043        188 IPFVPISGFEGDNMIE  203 (447)
T ss_pred             ceEEEEeccccccccc
Confidence            6799999999999964

>COG1162 Predicted GTPases [General function prediction only]

Probab=86.14  E-value=1.5  Score=25.95  Aligned_cols=31  Identities=32%  Similarity=0.425  Sum_probs=25.4

Q ss_pred             HHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            4 FADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         4 ~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      +...+++..+.+||+++.+++++...+...+
T Consensus       136 ~y~~~gy~v~~~s~~~~~~~~~l~~~l~~~~  166 (301)
T COG1162         136 EYEDIGYPVLFVSAKNGDGLEELAELLAGKI  166 (301)
T ss_pred             HHHhCCeeEEEecCcCcccHHHHHHHhcCCe
Confidence            3455788899999999999999988876653

>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=85.91  E-value=0.94  Score=27.22  Aligned_cols=23  Identities=9%  Similarity=-0.018  Sum_probs=19.6

Q ss_pred             eEEcccCCCCCHHHHHHHHHHHH
Q 035388           12 FLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus        12 ~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      +|.+||++|.||+++=..|....
T Consensus       248 vF~vSaL~G~GikdlkqyLmsqa  270 (379)
T KOG1423|consen  248 VFMVSALYGEGIKDLKQYLMSQA  270 (379)
T ss_pred             EEEEecccccCHHHHHHHHHhcC
Confidence            79999999999999887776554

>PRK04004 translation initiation factor IF-2; Validated

Probab=85.64  E-value=0.42  Score=30.44  Aligned_cols=35  Identities=23%  Similarity=0.298  Sum_probs=28.8

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      .|+...+.+|+++|++++.++.+.|..+...+...
T Consensus       138 ~~~~~~~~~~~e~~~~~~~~v~~~f~~~l~ev~~~  172 (586)
T PRK04004        138 GWKSTEDAPFLESIEKQSQRVQQELEEKLYELIGQ  172 (586)
T ss_pred             hhhhhcCchHHHHHhhhhHHHHHHHHHHHHHHHHH
Confidence            35566678999999999999999998888777543

>COG4359 Uncharacterized conserved protein [Function unknown]

Probab=85.63  E-value=1.4  Score=24.56  Aligned_cols=30  Identities=23%  Similarity=0.325  Sum_probs=26.4

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      +|+++++++|+-+|+=+.-=|.-+|+.++.
T Consensus        83 e~ike~di~fiVvSsGm~~fI~~lfe~ivg  112 (220)
T COG4359          83 EWIKEHDIPFIVVSSGMDPFIYPLFEGIVG  112 (220)
T ss_pred             HHHHHcCCCEEEEeCCCchHHHHHHHhhcc
Confidence            689999999999999888889999988873

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

Probab=85.32  E-value=0.31  Score=31.06  Aligned_cols=33  Identities=24%  Similarity=0.470  Sum_probs=23.4

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHH----HHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQ----AFLTMAGEIK   35 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~----~F~~l~~~i~   35 (66)
                      .|+...+.+|+|+||+++.+|.+    .|..++..+.
T Consensus       136 ~~~~~~~~~f~e~sak~~~~v~~~~~~~~~~lv~~l~  172 (590)
T TIGR00491       136 GWRSHEGRPFMESFSKQEIQVQQNLDTKVYNLVIKLH  172 (590)
T ss_pred             hhhhccCchHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Confidence            46677788999999999987654    4555544443

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.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=84.90  E-value=3.4  Score=23.74  Aligned_cols=28  Identities=25%  Similarity=0.286  Sum_probs=22.6

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +...+.+||+++.+++++...+.+.+..
T Consensus        77 ~~~vi~iSa~~~~gi~~L~~~i~~~~~~  104 (276)
T TIGR03596        77 GIKALAINAKKGKGVKKIIKAAKKLLKE  104 (276)
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHHHH
Confidence            4567899999999999998877766543

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.

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

Probab=84.15  E-value=1.3  Score=24.47  Aligned_cols=28  Identities=21%  Similarity=0.274  Sum_probs=24.8

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      .+|.-+||.+|.||++...-+++.+.++
T Consensus       162 ~~~~pvSal~gegv~egi~w~v~~~~kn  189 (197)
T KOG0076|consen  162 NPFQPVSALTGEGVKEGIEWLVKKLEKN  189 (197)
T ss_pred             CccccchhhhcccHHHHHHHHHHHHhhc
Confidence            5688999999999999999999888765

>PHA02436 hypothetical protein

Probab=82.84  E-value=1.6  Score=18.50  Aligned_cols=18  Identities=17%  Similarity=0.137  Sum_probs=14.7

Q ss_pred             CCCHHHHHHHHHHHHHHH
Q 035388           20 AINVEQAFLTMAGEIKKK   37 (66)
Q Consensus        20 ~~~v~~~F~~l~~~i~~~   37 (66)
                      -.+|+++|.++.+.++..
T Consensus        17 eRkIEEVFeE~YE~~YG~   34 (52)
T PHA02436         17 ERNIEEVFKEAYESFYGV   34 (52)
T ss_pred             hhhHHHHHHHHHHHhcCe
Confidence            357999999999998753

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

Probab=82.54  E-value=2.7  Score=25.43  Aligned_cols=28  Identities=21%  Similarity=0.242  Sum_probs=21.6

Q ss_pred             HHHHHhC-CCeEEcccCCCCCHHHHHHHH
Q 035388            3 AFADELG-IPFLETSAKDAINVEQAFLTM   30 (66)
Q Consensus         3 ~~a~~~~-~~~~etSAkt~~~v~~~F~~l   30 (66)
                      ++++... -..+..||+++++++++...|
T Consensus       334 ~L~~~lq~~~V~pvsA~~~egl~~ll~~l  362 (366)
T KOG1489|consen  334 SLAKRLQNPHVVPVSAKSGEGLEELLNGL  362 (366)
T ss_pred             HHHHHcCCCcEEEeeeccccchHHHHHHH
Confidence            4555554 348999999999999987655

>cd01858 NGP_1 NGP-1

Probab=82.50  E-value=2.4  Score=22.00  Aligned_cols=22  Identities=5%  Similarity=-0.017  Sum_probs=17.9

Q ss_pred             eEEcccCCCCCHHHHHHHHHHH
Q 035388           12 FLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus        12 ~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      .+.+||+.+.|++++...+...
T Consensus        72 ~~~iSa~~~~~~~~L~~~l~~~   93 (157)
T cd01858          72 AFHASINNPFGKGSLIQLLRQF   93 (157)
T ss_pred             EEEeeccccccHHHHHHHHHHH
Confidence            3678999999999988877543

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.

>PRK12740 elongation factor G; Reviewed

Probab=82.41  E-value=1.3  Score=28.44  Aligned_cols=26  Identities=15%  Similarity=0.194  Sum_probs=22.8

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ++.|..||++|.||+.+++.+...+.
T Consensus       237 ~Pv~~gSA~~~~Gv~~LLd~i~~~lP  262 (668)
T PRK12740        237 VPVFCGSALKNKGVQRLLDAVVDYLP  262 (668)
T ss_pred             EEEEeccccCCccHHHHHHHHHHHCC
Confidence            56789999999999999998888764

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=82.12  E-value=5.5  Score=23.04  Aligned_cols=28  Identities=25%  Similarity=0.300  Sum_probs=22.5

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +..++.+||+++.|++++...+...+..
T Consensus        80 ~~~vi~vSa~~~~gi~~L~~~l~~~l~~  107 (287)
T PRK09563         80 GIKALAINAKKGQGVKKILKAAKKLLKE  107 (287)
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHHHH
Confidence            4567899999999999998877666543

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=81.45  E-value=2.3  Score=23.17  Aligned_cols=36  Identities=22%  Similarity=0.425  Sum_probs=28.1

Q ss_pred             CHHHHHHhCCCeEEc----ccCCCCCHHHHHHHHHHHHHH
Q 035388            1 MQAFADELGIPFLET----SAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         1 ~~~~a~~~~~~~~et----SAkt~~~v~~~F~~l~~~i~~   36 (66)
                      |+.+|+.++++|+.+    .+.+|..|.++|..--+.-++
T Consensus        19 Gr~LAk~L~~~F~D~D~~Ie~~~g~sI~eIF~~~GE~~FR   58 (172)
T COG0703          19 GRALAKALNLPFIDTDQEIEKRTGMSIAEIFEEEGEEGFR   58 (172)
T ss_pred             HHHHHHHcCCCcccchHHHHHHHCcCHHHHHHHHhHHHHH
Confidence            467899999999865    677899999998876655443

>KOG4273 consensus Uncharacterized conserved protein [Function unknown]

Probab=81.17  E-value=2  Score=25.28  Aligned_cols=32  Identities=28%  Similarity=0.444  Sum_probs=25.9

Q ss_pred             HHHHHHhCCCeEEcccC------------CCCCHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAK------------DAINVEQAFLTMAGE   33 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAk------------t~~~v~~~F~~l~~~   33 (66)
                      .+|+-++|+.|+|.+|-            ..+||+.+|-.|...
T Consensus       177 lewc~e~~~efieacasn~dfd~c~~~dgdsqgverifgal~ah  220 (418)
T KOG4273|consen  177 LEWCLEHGFEFIEACASNEDFDECDDDDGDSQGVERIFGALNAH  220 (418)
T ss_pred             HHHHHhcCceeeeecCCccccchhhccCcchhhHHHHHHHhhhc
Confidence            57999999999999993            357889999877544

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=80.86  E-value=3.2  Score=25.99  Aligned_cols=28  Identities=14%  Similarity=0.049  Sum_probs=23.5

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      .+++.+|||+|.|++.+-..|...+...
T Consensus       351 ~~~i~iSa~t~~Gl~~L~~~i~~~~~~~  378 (454)
T COG0486         351 DAIISISAKTGEGLDALREAIKQLFGKG  378 (454)
T ss_pred             CceEEEEecCccCHHHHHHHHHHHHhhc
Confidence            4689999999999999988887776644

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	66
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		3e-12
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		4e-12
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		5e-12
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		1e-11
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		1e-11
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		4e-11
4fmc_B	171	Espg-Rab1 Complex Length = 171		4e-11
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		5e-11
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		5e-11
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		4e-10
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		6e-10
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		9e-09
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		2e-08
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		6e-06
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		1e-05
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		3e-05
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		3e-05
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		4e-05
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		9e-05
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		1e-04
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		1e-04
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		1e-04
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		1e-04
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		1e-04
1yzk_A	184	Gppnhp Bound Rab11 Gtpase Length = 184		6e-04
2hv8_A	172	Crystal Structure Of Gtp-Bound Rab11 In Complex Wit		6e-04
3gft_A	187	Human K-Ras In Complex With A Gtp Analogue Length =		8e-04
4epx_A	170	Discovery Of Small Molecules That Bind To K-Ras And		8e-04
4ept_A	170	Discovery Of Small Molecules That Bind To K-Ras And		8e-04
4epr_A	170	Discovery Of Small Molecules That Bind To K-Ras And		8e-04
1vg1_A	185	Gdp-bound Rab7 Length = 185		9e-04
4dso_A	189	Small-Molecule Ligands Bind To A Distinct Pocket In		9e-04

>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 = 66.6 bits (161), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 30/36 (83%), Positives = 33/36 (91%)
Query: 4   FADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG 39
           FAD LGIPFLETSAK+A NVEQAF+TMA EIKK+MG
Sbjct: 140 FADSLGIPFLETSAKNATNVEQAFMTMAAEIKKRMG 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 = 66.6 bits (161), Expect = 4e-12,   Method: Compositional matrix adjust.
 Identities = 30/36 (83%), Positives = 33/36 (91%)
Query: 4   FADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG 39
           FAD LGIPFLETSAK+A NVEQAF+TMA EIKK+MG
Sbjct: 140 FADSLGIPFLETSAKNATNVEQAFMTMAAEIKKRMG 175

>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 = 65.9 bits (159), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 31/41 (75%), Positives = 35/41 (85%)
Query: 4   FADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTA 44
           FAD LGIPFLETSAK+A NVEQ+F+TMA EIKK+MG   TA
Sbjct: 147 FADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGATA 187

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score = 65.1 bits (157), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 29/38 (76%), Positives = 34/38 (89%)
Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG 39
           + FAD LGIPFLETSAK+A NVEQ+F+TMA EIKK+MG
Sbjct: 154 KEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMG 191

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score = 65.1 bits (157), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 29/36 (80%), Positives = 33/36 (91%)
Query: 4   FADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG 39
           FAD LGIPFLETSAK+A NVEQ+F+TMA EIKK+MG
Sbjct: 139 FADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMG 174

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score = 63.2 bits (152), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 28/35 (80%), Positives = 32/35 (91%)
Query: 4   FADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38
           FAD LGIPFLETSAK+A NVEQ+F+TMA EIKK+M
Sbjct: 130 FADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 164

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score = 62.8 bits (151), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 28/35 (80%), Positives = 32/35 (91%)
Query: 4   FADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38
           FAD LGIPFLETSAK+A NVEQ+F+TMA EIKK+M
Sbjct: 137 FADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 171

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score = 62.8 bits (151), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 28/35 (80%), Positives = 32/35 (91%)
Query: 4   FADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38
           FAD LGIPFLETSAK+A NVEQ+F+TMA EIKK+M
Sbjct: 137 FADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 171

>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 = 62.8 bits (151), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 28/37 (75%), Positives = 33/37 (89%)
Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38
           + FAD LGIPFLETSAK+A NVEQ+F+TMA EIKK+M
Sbjct: 145 KEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM 181

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score = 59.7 bits (143), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 33/69 (47%), Positives = 41/69 (59%), Gaps = 5/69 (7%)
Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG----NQPTANKS-SGTVQMKGQ 56
           + FAD   +PFLETSA D+ NVE AFLTMA +IK+ M     N+ T  K   G V +KGQ
Sbjct: 137 KEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQKKEDKGNVNLKGQ 196
Query: 57  PIQQNSNCC 65
            +     CC
Sbjct: 197 SLTNTGGCC 205

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score = 58.9 bits (141), Expect = 6e-10,   Method: Composition-based stats.
 Identities = 27/38 (71%), Positives = 31/38 (81%)
Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG 39
           + FAD LGIPFLETSAK+A NVEQ+F T A EIKK+ G
Sbjct: 162 KEFADSLGIPFLETSAKNATNVEQSFXTXAAEIKKRXG 199

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score = 55.1 bits (131), Expect = 9e-09,   Method: Composition-based stats.
 Identities = 32/69 (46%), Positives = 40/69 (57%), Gaps = 5/69 (7%)
Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG----NQPTANKS-SGTVQMKGQ 56
           + FAD   +PFLETSA D+ NVE AFLTMA +IK+ M     N+ T  K   G V +KGQ
Sbjct: 137 KEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQKKEDKGNVNLKGQ 196
Query: 57  PIQQNSNCC 65
            +      C
Sbjct: 197 SLTNTGGGC 205

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score = 53.9 bits (128), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 25/37 (67%), Positives = 30/37 (81%)
Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38
           +  AD  GI F+ETSAK+A NVEQAF TMAGEIKK++
Sbjct: 138 RELADSHGIKFIETSAKNAYNVEQAFHTMAGEIKKRV 174

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score = 45.8 bits (107), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 22/35 (62%), Positives = 27/35 (77%)
Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36
           + FAD   +PFLETSA D+ NVE AFLTMA +IK+
Sbjct: 150 KEFADANKMPFLETSALDSTNVEDAFLTMARQIKE 184

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 21/37 (56%), Positives = 28/37 (75%)
Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38
           +AFA E G+ F+ETSAK A NVE+AF+  A EI +K+
Sbjct: 150 EAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKI 186

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 22/43 (51%), Positives = 27/43 (62%)
Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTA 44
           +  A + GI F+ETSAK  INVE AF T+A +IK KM     A
Sbjct: 137 EKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKNWKA 179

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score = 43.1 bits (100), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 21/37 (56%), Positives = 26/37 (70%)
Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38
           +  A + GI F+ETSAK  INVE AF T+A +IK KM
Sbjct: 135 EKLALDYGIKFMETSAKANINVENAFFTLARDIKAKM 171

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score = 42.7 bits (99), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 21/36 (58%), Positives = 27/36 (75%)
Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37
           +AFA E G+ F+ETSAK A NVE+AF+  A EI +K
Sbjct: 139 EAFAREHGLIFMETSAKTASNVEEAFINTAKEIYEK 174

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 42.0 bits (97), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 18/41 (43%), Positives = 27/41 (65%)
Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQP 42
           +  A E G+PF+ETSAK  +NV+ AF  +A E+K++    P
Sbjct: 140 EKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELKRRSMKAP 180

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 19/37 (51%), Positives = 28/37 (75%)
Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38
           +A A ELGIPF+E+SAK+  NV + F T+A  I++K+
Sbjct: 131 EALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKI 167

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 19/37 (51%), Positives = 28/37 (75%)
Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38
           +A A ELGIPF+E+SAK+  NV + F T+A  I++K+
Sbjct: 131 EALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKI 167

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 19/37 (51%), Positives = 28/37 (75%)
Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38
           +A A ELGIPF+E+SAK+  NV + F T+A  I++K+
Sbjct: 135 EALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKI 171

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 19/37 (51%), Positives = 28/37 (75%)
Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38
           +A A ELGIPF+E+SAK+  NV + F T+A  I++K+
Sbjct: 131 EALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKI 167

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Composition-based stats.
 Identities = 20/48 (41%), Positives = 31/48 (64%)
Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSG 49
           +A A ELGIPF+E+SAK+  NV + F T+A  I++K+ +       +G
Sbjct: 148 EALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDSNKLVGVGNG 195

>pdb|1YZK|A Chain A, Gppnhp Bound Rab11 Gtpase Length = 184

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 18/35 (51%), Positives = 26/35 (74%)
Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36
           +AFA++ G+ F+ETSA D+ NVE AF T+  EI +
Sbjct: 149 RAFAEKNGLSFIETSALDSTNVEAAFQTILTEIYR 183

>pdb|2HV8|A Chain A, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3 Length = 172

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 18/35 (51%), Positives = 26/35 (74%)
Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36
           +AFA++ G+ F+ETSA D+ NVE AF T+  EI +
Sbjct: 137 RAFAEKNGLSFIETSALDSTNVEAAFQTILTEIYR 171

>pdb|3GFT|A Chain A, Human K-Ras In Complex With A Gtp Analogue Length = 187

Iteration: 1
 Score = 38.9 bits (89), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 18/35 (51%), Positives = 22/35 (62%)
Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36
           Q  A   GIPF+ETSAK    V+ AF T+  EI+K
Sbjct: 149 QDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRK 183

>pdb|4EPX|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 38.9 bits (89), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 18/35 (51%), Positives = 22/35 (62%)
Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36
           Q  A   GIPF+ETSAK    V+ AF T+  EI+K
Sbjct: 132 QDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRK 166

>pdb|4EPT|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 38.9 bits (89), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 18/35 (51%), Positives = 22/35 (62%)
Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36
           Q  A   GIPF+ETSAK    V+ AF T+  EI+K
Sbjct: 132 QDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRK 166

>pdb|4EPR|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 38.9 bits (89), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 18/35 (51%), Positives = 22/35 (62%)
Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36
           Q  A   GIPF+ETSAK    V+ AF T+  EI+K
Sbjct: 132 QDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRK 166

>pdb|1VG1|A Chain A, Gdp-bound Rab7 Length = 185

Iteration: 1
 Score = 38.5 bits (88), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 17/22 (77%), Positives = 20/22 (90%)
Query: 10  IPFLETSAKDAINVEQAFLTMA 31
           IP+ ETSAK+AINVEQAF T+A
Sbjct: 149 IPYFETSAKEAINVEQAFQTIA 170

>pdb|4DSO|A Chain A, Small-Molecule Ligands Bind To A Distinct Pocket In Ras And Inhibit Sos-Mediated Nucleotide Exchange Activity Length = 189

Iteration: 1
 Score = 38.5 bits (88), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 18/35 (51%), Positives = 22/35 (62%)
Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36
           Q  A   GIPF+ETSAK    V+ AF T+  EI+K
Sbjct: 132 QDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRK 166

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	66
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	9e-24
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	9e-22
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	4e-21
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	1e-20
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	2e-20
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	2e-20
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	2e-20
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	2e-20
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	4e-20
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	6e-20
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	8e-20
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	1e-19
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	2e-19
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	3e-19
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	3e-19
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	4e-19
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	1e-18
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	1e-18
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	1e-18
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	2e-18
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	2e-18
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	2e-18
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	3e-18
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	8e-18
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	9e-18
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	2e-17
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	2e-17
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	2e-17
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	2e-17
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	3e-17
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	4e-17
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	5e-17
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	6e-17
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	6e-17
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	1e-16
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	2e-16
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	2e-16
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	2e-16
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	2e-16
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	3e-16
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	3e-16
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	4e-16
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	4e-16
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	4e-16
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	4e-16
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	5e-16
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	6e-16
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	6e-16
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	6e-16
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	7e-16
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	9e-16
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	1e-15
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	1e-15
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	1e-15
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	2e-15
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	3e-15
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	3e-15
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	3e-15
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	5e-15
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	8e-15
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	1e-14
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	2e-14
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	2e-14
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	2e-13
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	3e-13
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	5e-13
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	5e-13
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	5e-11
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	6e-09
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	2e-08
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	1e-05
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	5e-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 = 87.4 bits (217), Expect = 9e-24
 Identities = 31/69 (44%), Positives = 39/69 (56%), Gaps = 5/69 (7%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQ-----PTANKSSGTVQMKGQ 56
           + FAD   +PFLETSA D+ NVE AFLTMA +IK+ M  Q         +  G V +KGQ
Sbjct: 137 KEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQKKEDKGNVNLKGQ 196

Query: 57  PIQQNSNCC 65
            +     CC
Sbjct: 197 SLTNTGGCC 205

>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 = 81.9 bits (203), Expect = 9e-22
 Identities = 20/61 (32%), Positives = 27/61 (44%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQMKGQPIQQN 61
           +  AD LG  F E SAKD INV+Q F  +   I +KM         + T   +G  +   
Sbjct: 137 RQLADHLGFEFFEASAKDNINVKQTFERLVDVICEKMSESLDTADPAVTGAKQGPQLTDQ 196

Query: 62  S 62
            
Sbjct: 197 Q 197

>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 = 80.4 bits (199), Expect = 4e-21
 Identities = 17/64 (26%), Positives = 29/64 (45%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQMKGQPIQQN 61
           +  A EL + F+ETSAK   NV+Q F  +A  +      Q  + +    ++++    Q  
Sbjct: 145 ERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRSREDMIDIKLEKPQEQPV 204

Query: 62  SNCC 65
           S   
Sbjct: 205 SEGG 208

>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 = 79.3 bits (196), Expect = 1e-20
 Identities = 21/65 (32%), Positives = 35/65 (53%), Gaps = 3/65 (4%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTA---NKSSGTVQMKGQPI 58
           +A A ELGIPF+E+SAK+  NV + F T+A  I++K+ +       N   G + +     
Sbjct: 148 EALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDSNKLVGVGNGKEGNISINSGSG 207

Query: 59  QQNSN 63
             + +
Sbjct: 208 NSSKS 212

>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 = 78.9 bits (195), Expect = 2e-20
 Identities = 21/66 (31%), Positives = 34/66 (51%), Gaps = 1/66 (1%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQM-KGQPIQQ 60
                +  IP+ ETSAK+AINVEQAF T+A    K+       N+    +++ K +  + 
Sbjct: 141 AWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEVELYNEFPEPIKLDKNERAKA 200

Query: 61  NSNCCG 66
           ++  C 
Sbjct: 201 SAESCS 206

>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 = 78.0 bits (193), Expect = 2e-20
 Identities = 18/41 (43%), Positives = 27/41 (65%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQP 42
           +  A E G+PF+ETSAK  +NV+ AF  +A E+K++    P
Sbjct: 140 EKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELKRRSMKAP 180

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score = 78.4 bits (194), Expect = 2e-20
 Identities = 31/49 (63%), Positives = 38/49 (77%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGT 50
           + FAD LGIPFLETSAK+A NVEQ+F+TMA EIKK+MG   TA  +  +
Sbjct: 145 KEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGATAGGAEKS 193

>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 = 78.0 bits (193), Expect = 2e-20
 Identities = 22/46 (47%), Positives = 28/46 (60%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKS 47
           +  A + GI F+ETSAK  INVE AF T+A +IK KM     A  +
Sbjct: 137 EKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKNWKATAA 182

>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 = 77.7 bits (192), Expect = 4e-20
 Identities = 17/62 (27%), Positives = 34/62 (54%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQMKGQPIQQN 61
           +AFA++  + F+ETSA D+ NVE+AF  +  EI + +  +  A++++         +  +
Sbjct: 134 RAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQKQIADRAAHDESPGNNVVDIS 193

Query: 62  SN 63
             
Sbjct: 194 VP 195

>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 = 77.3 bits (191), Expect = 6e-20
 Identities = 15/48 (31%), Positives = 25/48 (52%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSG 49
             FA +  + F+E SAK    V+ AF  +  +I +  G   + N++SG
Sbjct: 144 LKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQTPGLWESENQNSG 191

>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 = 76.9 bits (190), Expect = 8e-20
 Identities = 15/47 (31%), Positives = 26/47 (55%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSS 48
           + F++   + +LETSAK++ NVE+ FL +A  +  +       N  S
Sbjct: 155 EEFSEAQDMYYLETSAKESDNVEKLFLDLACRLISEARQNTLVNNVS 201

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score = 76.1 bits (188), Expect = 1e-19
 Identities = 13/45 (28%), Positives = 23/45 (51%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANK 46
             FA ++GI   ETSAK+ +NVE+ F  +   + +   +     +
Sbjct: 137 YKFAGQMGIQLFETSAKENVNVEEMFNCITELVLRAKKDNLAKQQ 181

>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 = 75.8 bits (187), Expect = 2e-19
 Identities = 29/38 (76%), Positives = 34/38 (89%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG 39
           + FAD LGIPFLETSAK+A NVEQ+F+TMA EIKK+MG
Sbjct: 162 KEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMG 199

>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 = 75.8 bits (187), Expect = 3e-19
 Identities = 19/51 (37%), Positives = 26/51 (50%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQ 52
           +  AD+ GIP+ ETSA    NVE+A  T+   I K+M       +   TV 
Sbjct: 165 RELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRMEQCVEKTQIPDTVN 215

>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 = 75.7 bits (187), Expect = 3e-19
 Identities = 15/64 (23%), Positives = 30/64 (46%), Gaps = 2/64 (3%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQMKGQPIQQN 61
           +  A++  + ++ETSAK   NV++ F  +  EI+ +        + +G  + K    +  
Sbjct: 143 KNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARKMEDS--KEKNGKKKRKSLAKRIR 200

Query: 62  SNCC 65
             CC
Sbjct: 201 ERCC 204

>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 = 75.0 bits (185), Expect = 4e-19
 Identities = 17/39 (43%), Positives = 23/39 (58%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGN 40
           Q  A++LG  F E SAK+ I+V QAF  +   I  KM +
Sbjct: 152 QLLAEQLGFDFFEASAKENISVRQAFERLVDAICDKMSD 190

>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 = 73.8 bits (182), Expect = 1e-18
 Identities = 20/40 (50%), Positives = 26/40 (65%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQ 41
           + FA+  G+ FLETSA D+ NVE AF T+  EI  K+  Q
Sbjct: 154 RMFAENNGLLFLETSALDSTNVELAFETVLKEIFAKVSKQ 193

>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 = 73.4 bits (181), Expect = 1e-18
 Identities = 18/48 (37%), Positives = 25/48 (52%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSG 49
             FA E  + FLETSA    NVE+AF+  A +I  K+ +     +  G
Sbjct: 139 SRFAQENELMFLETSALTGENVEEAFVQCARKILNKIESGELDPERMG 186

>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 = 73.3 bits (181), Expect = 1e-18
 Identities = 13/46 (28%), Positives = 19/46 (41%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKS 47
           +A A+     FLE+SAK+       F  +  E +K  G       S
Sbjct: 135 KALAESWNAAFLESSAKENQTAVDVFRRIILEAEKMDGACSQGKSS 180

>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 = 73.0 bits (180), Expect = 2e-18
 Identities = 19/39 (48%), Positives = 29/39 (74%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGN 40
           +A A ELGIPF+E+SAK+  NV + F T+A  I++K+ +
Sbjct: 131 EALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDS 169

>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 = 73.0 bits (180), Expect = 2e-18
 Identities = 13/44 (29%), Positives = 22/44 (50%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTAN 45
           +  A++ GIP+ ETSA +  N+  A   +   I K+M      +
Sbjct: 151 RELAEKYGIPYFETSAANGTNISHAIEMLLDLIMKRMERSVDKS 194

>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 = 73.0 bits (180), Expect = 2e-18
 Identities = 17/64 (26%), Positives = 27/64 (42%), Gaps = 3/64 (4%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQMKGQPIQQN 61
           QA A E    F+ETSAK   NV++ F  +     ++  +     K SG    + +  +  
Sbjct: 137 QAVAQEWKCAFMETSAKMNYNVKELFQELLTLETRRNMSLNIDGKRSGK---QKRTDRVK 193

Query: 62  SNCC 65
             C 
Sbjct: 194 GKCT 197

>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 = 72.6 bits (179), Expect = 3e-18
 Identities = 17/37 (45%), Positives = 23/37 (62%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38
           +  AD+LG  F E SAK+ INV+Q F  +   I +KM
Sbjct: 151 RRLADDLGFEFFEASAKENINVKQVFERLVDVICEKM 187

>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 = 71.5 bits (176), Expect = 8e-18
 Identities = 21/37 (56%), Positives = 28/37 (75%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38
           +AFA E G+ F+ETSAK A NVE+AF+  A EI +K+
Sbjct: 150 EAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKI 186

>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 = 71.5 bits (176), Expect = 9e-18
 Identities = 18/40 (45%), Positives = 26/40 (65%), Gaps = 1/40 (2%)

Query: 2   QAFADELGI-PFLETSAKDAINVEQAFLTMAGEIKKKMGN 40
           Q+ A+   I   +ETSAKD+ NVE+AFL +A E+  + G 
Sbjct: 158 QSLAEHYDILCAIETSAKDSSNVEEAFLRVATELIMRHGG 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 = 70.7 bits (174), Expect = 2e-17
 Identities = 18/41 (43%), Positives = 22/41 (53%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQP 42
             FA E  + FLETSA    NVE+AFL  A  I  K+ +  
Sbjct: 154 SRFAQENELMFLETSALTGENVEEAFLKCARTILNKIDSGE 194

>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 = 70.8 bits (174), Expect = 2e-17
 Identities = 16/36 (44%), Positives = 22/36 (61%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37
           +  A   G  F ETSAKD  N+ +A L +A E+KK+
Sbjct: 163 EKLAMTYGALFCETSAKDGSNIVEAVLHLAREVKKR 198

>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 = 70.2 bits (173), Expect = 2e-17
 Identities = 11/36 (30%), Positives = 19/36 (52%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37
           +  A  L + F  TS K+ +NV + F  +A +  +K
Sbjct: 133 EGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHLQK 168

>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 = 70.8 bits (174), Expect = 2e-17
 Identities = 10/64 (15%), Positives = 18/64 (28%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQMKGQPIQQN 61
                     + E SAK A N    FL +A     +      +N +    ++        
Sbjct: 141 MEVLKGKNYEYFEISAKTAHNFGLPFLHLARIFTGRPDLIFVSNVNLEPTEVNYDYHSPE 200

Query: 62  SNCC 65
            +  
Sbjct: 201 ESKY 204

>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 = 70.3 bits (173), Expect = 3e-17
 Identities = 10/41 (24%), Positives = 16/41 (39%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQP 42
           +  A  L    +ETSA    N  + F     +I+ + G   
Sbjct: 154 RHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRLRRGRNH 194

>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 = 70.0 bits (172), Expect = 4e-17
 Identities = 17/38 (44%), Positives = 25/38 (65%), Gaps = 1/38 (2%)

Query: 2   QAFADEL-GIPFLETSAKDAINVEQAFLTMAGEIKKKM 38
           + FA ++ G+ F E SAKD  NV++ FL +  +I KKM
Sbjct: 155 EKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKKM 192

>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 = 69.5 bits (171), Expect = 5e-17
 Identities = 20/64 (31%), Positives = 26/64 (40%), Gaps = 8/64 (12%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQMKGQPIQQN 61
           Q  A   GIPF+ETSAK    V+ AF T+  EI+K         K            +  
Sbjct: 132 QDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRKHKEKMSKDGKKKKK--------KSK 183

Query: 62  SNCC 65
           + C 
Sbjct: 184 TKCV 187

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score = 69.5 bits (171), Expect = 6e-17
 Identities = 9/45 (20%), Positives = 20/45 (44%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANK 46
           +  A+  G  F+E+SA++    +  F  +  EI +   +     +
Sbjct: 153 KKLAESWGATFMESSARENQLTQGIFTKVIQEIARVENSYGQERR 197

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score = 69.9 bits (171), Expect = 6e-17
 Identities = 14/39 (35%), Positives = 23/39 (58%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGN 40
           Q +A +  + F++TSAK   N++  F  +A EI K + N
Sbjct: 170 QKYAQDNNLLFIQTSAKTGTNIKNIFYMLAEEIYKNIIN 208

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score = 67.9 bits (167), Expect = 1e-16
 Identities = 9/36 (25%), Positives = 15/36 (41%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37
           +  A  L    +ETSA    N  + F     +I+ +
Sbjct: 133 RHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRLR 168

>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 = 69.0 bits (169), Expect = 2e-16
 Identities = 21/82 (25%), Positives = 34/82 (41%), Gaps = 18/82 (21%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM-------GNQPTANKSSGTVQMK 54
           + FA E  + F ETSA ++ NV++AF  +   I +K+       G+      ++G     
Sbjct: 142 KTFAQENQLLFTETSALNSENVDKAFEELINTIYQKVSKHQMDLGDSSANGNANGASAPN 201

Query: 55  GQPI-----------QQNSNCC 65
           G  I              +NCC
Sbjct: 202 GPTISLTPTPNENKKANGNNCC 223

>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 = 67.9 bits (167), Expect = 2e-16
 Identities = 12/36 (33%), Positives = 22/36 (61%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37
           +  AD+  + ++ETSAK   NV++ F  +  EI+ +
Sbjct: 133 KNRADQWNVNYVETSAKTRANVDKVFFDLMREIRAR 168

>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 = 67.5 bits (166), Expect = 2e-16
 Identities = 12/39 (30%), Positives = 20/39 (51%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGN 40
           +A A      F+ETSAK   NV++ F  +    K++  +
Sbjct: 133 EALARTWKCAFMETSAKLNHNVKELFQELLNLEKRRTVS 171

>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 = 68.5 bits (168), Expect = 2e-16
 Identities = 10/41 (24%), Positives = 21/41 (51%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQP 42
           +A A      F+ETSA    NV++ F  +  +++ +  ++ 
Sbjct: 169 RACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRLRRDSKE 209

>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 = 67.6 bits (166), Expect = 3e-16
 Identities = 18/33 (54%), Positives = 25/33 (75%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEI 34
           +AFA++ G+ F+ETSA D+ NVE AF T+  EI
Sbjct: 158 RAFAEKNGLSFIETSALDSTNVEAAFQTILTEI 190

>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 = 3e-16
 Identities = 18/35 (51%), Positives = 23/35 (65%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36
           + FA+E G+ FLE SAK   NVE AFL  A +I +
Sbjct: 144 KQFAEENGLLFLEASAKTGENVEDAFLEAAKKIYQ 178

>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 = 66.8 bits (164), Expect = 4e-16
 Identities = 10/40 (25%), Positives = 19/40 (47%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQ 41
           +A A      F+ETSA    NV + F  +  +++ +  + 
Sbjct: 135 RACAVVFDCKFIETSATLQHNVAELFEGVVRQLRLRRRDS 174

>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 = 67.2 bits (165), Expect = 4e-16
 Identities = 11/40 (27%), Positives = 20/40 (50%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQ 41
            AF     + + E SAK  +NV++AF  +   ++K    +
Sbjct: 138 SAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRKYQEQE 177

>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 = 67.2 bits (165), Expect = 4e-16
 Identities = 15/40 (37%), Positives = 24/40 (60%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQ 41
           Q +A E G+ F+ETSAK A NV++ F  +A  + +    +
Sbjct: 141 QTYAQENGLFFMETSAKTATNVKEIFYEIARRLPRVQPTE 180

>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 = 67.2 bits (165), Expect = 4e-16
 Identities = 11/40 (27%), Positives = 22/40 (55%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQ 41
           +  A++  + ++ETSAK   NV++ F  +  EI+ +    
Sbjct: 147 KNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARKMED 186

>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 = 66.9 bits (164), Expect = 5e-16
 Identities = 17/41 (41%), Positives = 22/41 (53%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQP 42
              A   GIPF+ETSAK    VE AF T+  EI++    + 
Sbjct: 149 HELAKSYGIPFIETSAKTRQGVEDAFYTLVREIRQYRMKKL 189

>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 = 66.0 bits (162), Expect = 6e-16
 Identities = 11/36 (30%), Positives = 18/36 (50%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37
           +A A      F+ETSA    NV+  F  +  +I+ +
Sbjct: 130 RACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLR 165

>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 = 66.4 bits (163), Expect = 6e-16
 Identities = 14/35 (40%), Positives = 26/35 (74%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36
           Q++AD+  + F+ETSAK ++NV + F+ +A ++ K
Sbjct: 135 QSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK 169

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score = 66.9 bits (164), Expect = 6e-16
 Identities = 9/50 (18%), Positives = 21/50 (42%), Gaps = 1/50 (2%)

Query: 2   QAFADELGIPFLETSAK-DAINVEQAFLTMAGEIKKKMGNQPTANKSSGT 50
           Q +A    + F + SA     + +  FL++A    +   ++  A + +  
Sbjct: 157 QDWATTNTLDFFDVSANPPGKDADAPFLSIATTFYRNYEDKVAAFQDACR 206

>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 = 66.5 bits (163), Expect = 7e-16
 Identities = 13/40 (32%), Positives = 26/40 (65%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQ 41
           + +A+ +G   +ETSAK+AIN+E+ F  ++ +I     ++
Sbjct: 152 KEYAESIGAIVVETSAKNAINIEELFQGISRQIPPLDPHE 191

>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 = 67.0 bits (164), Expect = 9e-16
 Identities = 13/62 (20%), Positives = 23/62 (37%), Gaps = 2/62 (3%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSG--TVQMKGQPIQ 59
             F  +  + + + SAK   N E+ FL +A ++      +  A  +     V M      
Sbjct: 141 IVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPALAPPEVVMDPALAA 200

Query: 60  QN 61
           Q 
Sbjct: 201 QY 202

>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 = 65.6 bits (161), Expect = 1e-15
 Identities = 13/35 (37%), Positives = 21/35 (60%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36
           +A A+E G PF+ETSAK    V++ F  +  ++  
Sbjct: 132 RALAEEWGCPFMETSAKSKTMVDELFAEIVRQMNY 166

>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 = 65.6 bits (161), Expect = 1e-15
 Identities = 12/40 (30%), Positives = 15/40 (37%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQ 41
             F  E G      SAK   +V   F  +A EI     N+
Sbjct: 139 LRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEILGIKLNK 178

>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 = 65.6 bits (161), Expect = 1e-15
 Identities = 9/35 (25%), Positives = 19/35 (54%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36
           +++A+ +G     TSAK    +E+ FL +   + +
Sbjct: 135 ESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE 169

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A* Length = 170

 Score = 64.8 bits (159), Expect = 2e-15
 Identities = 13/35 (37%), Positives = 23/35 (65%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36
           + +AD +   F+ETSAK+AIN+ + F+ ++  I  
Sbjct: 135 KDYADSIHAIFVETSAKNAININELFIEISRRIPS 169

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A* Length = 182

 Score = 64.9 bits (159), Expect = 3e-15
 Identities = 17/38 (44%), Positives = 22/38 (57%), Gaps = 1/38 (2%)

Query: 2   QAFADELG-IPFLETSAKDAINVEQAFLTMAGEIKKKM 38
           Q  A  LG IP   TSAK+AINV+ AF  +A    ++ 
Sbjct: 143 QELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQQN 180

>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 = 64.4 bits (158), Expect = 3e-15
 Identities = 17/35 (48%), Positives = 22/35 (62%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36
           Q  A   GIP++ETSAK    VE AF T+  EI++
Sbjct: 131 QDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>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 = 65.0 bits (159), Expect = 3e-15
 Identities = 11/53 (20%), Positives = 24/53 (45%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQMK 54
           +A A      F+ETSA    NV++ F  +  +++ +  ++    +     + K
Sbjct: 138 RAXAVVFDXKFIETSAAVQHNVKELFEGIVRQVRLRRDSKEKNERRLAYQKRK 190

>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 = 64.2 bits (157), Expect = 5e-15
 Identities = 17/38 (44%), Positives = 23/38 (60%), Gaps = 3/38 (7%)

Query: 2   QAFADELGIPFLETSAK---DAINVEQAFLTMAGEIKK 36
           Q FAD   +P  ETSAK   D  +VE  F+T+A ++K 
Sbjct: 151 QKFADTHSMPLFETSAKNPNDNDHVEAIFMTLAHKLKS 188

>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 = 63.3 bits (155), Expect = 8e-15
 Identities = 15/38 (39%), Positives = 19/38 (50%), Gaps = 1/38 (2%)

Query: 2   QAFADELG-IPFLETSAKDAINVEQAFLTMAGEIKKKM 38
           QA+  + G  P+ ETSAKDA NV  AF      +    
Sbjct: 139 QAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVLATE 176

>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 = 63.0 bits (154), Expect = 1e-14
 Identities = 14/33 (42%), Positives = 20/33 (60%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEI 34
           +  A EL + F+ETSAK   NV+Q F  +A  +
Sbjct: 143 ERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 175

>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 = 62.6 bits (153), Expect = 2e-14
 Identities = 11/41 (26%), Positives = 19/41 (46%), Gaps = 1/41 (2%)

Query: 2   QAFADELGIPFLETSAKDA-INVEQAFLTMAGEIKKKMGNQ 41
           +  A EL   F E SA     N+ + F  +  E++++   Q
Sbjct: 156 EKLATELACAFYECSACTGEGNITEIFYELCREVRRRRMVQ 196

>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 = 62.6 bits (153), Expect = 2e-14
 Identities = 13/37 (35%), Positives = 24/37 (64%), Gaps = 1/37 (2%)

Query: 2   QAFADELGIPFLETSAKDA-INVEQAFLTMAGEIKKK 37
           +  A +  IP++ETSAKD  +NV++ F  +   I+++
Sbjct: 147 KEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ 183

>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 = 59.8 bits (146), Expect = 2e-13
 Identities = 13/36 (36%), Positives = 19/36 (52%), Gaps = 1/36 (2%)

Query: 2   QAFADE-LGIPFLETSAKDAINVEQAFLTMAGEIKK 36
           Q  A +     FLE+SAK  INV + F  +  +I +
Sbjct: 132 QNLARQWCNCAFLESSAKSKINVNEIFYDLVRQINR 167

>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 = 59.5 bits (145), Expect = 3e-13
 Identities = 9/38 (23%), Positives = 18/38 (47%), Gaps = 1/38 (2%)

Query: 2   QAFADELG-IPFLETSAKDAINVEQAFLTMAGEIKKKM 38
           +  + +L    + ET A   +NVE+ F  +A ++    
Sbjct: 145 RKLSTDLKRCTYYETCATYGLNVERVFQDVAQKVVALR 182

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens} Length = 187

 Score = 59.1 bits (144), Expect = 5e-13
 Identities = 10/37 (27%), Positives = 15/37 (40%), Gaps = 1/37 (2%)

Query: 2   QAFADELGIPFLETSAKDAI-NVEQAFLTMAGEIKKK 37
            A A   G  F E SA     +V+  F     E +++
Sbjct: 151 VALAGRFGCLFFEVSACLDFEHVQHVFHEAVREARRE 187

>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 = 60.0 bits (145), Expect = 5e-13
 Identities = 11/36 (30%), Positives = 18/36 (50%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36
                 +  +  +ETSA+  +NV+ AF T+   I K
Sbjct: 220 HTFALSKKNLQVVETSARSNVNVDLAFSTLVQLIDK 255

>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 = 53.3 bits (128), Expect = 5e-11
 Identities = 15/36 (41%), Positives = 20/36 (55%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37
           +  A+E G+ F ETSAK   NV   FL +  +I  K
Sbjct: 135 EKLAEEKGLLFFETSAKTGENVNDVFLGIGEKIPLK 170

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score = 49.2 bits (117), Expect = 6e-09
 Identities = 5/37 (13%), Positives = 10/37 (27%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38
                 +   F   S K+   VE    ++   +    
Sbjct: 174 NERFPAIENRFHRISCKNGDGVESIAKSLKSAVLHPD 210

>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 = 46.9 bits (112), Expect = 2e-08
 Identities = 10/37 (27%), Positives = 17/37 (45%)

Query: 5   ADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQ 41
           AD     + ET A   +NV++ F  +A ++      Q
Sbjct: 138 ADMKRCSYYETXATYGLNVDRVFQEVAQKVVTLRKQQ 174

>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 = 39.3 bits (92), Expect = 1e-05
 Identities = 6/46 (13%), Positives = 19/46 (41%), Gaps = 6/46 (13%)

Query: 2   QAFADELGIPFL-----ETSAKDAINVEQAFLTMAGEI-KKKMGNQ 41
           +   ++ G P +       + +++  + +   T+  E    K+ +Q
Sbjct: 139 KELLNKRGFPAIRDYHFVNATEESDALAKLRKTIINESLNFKIRDQ 184

>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 = 35.0 bits (81), Expect = 5e-04
 Identities = 10/65 (15%), Positives = 22/65 (33%), Gaps = 10/65 (15%)

Query: 2   QAFADELG-IPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQMKGQPIQQ 60
           +    ++G   ++E S+K   NV+  F T    + +    +    +             +
Sbjct: 145 EELRKQIGAAAYIECSSKTQQNVKAVFDTAIKVVLQPPRRKEVPRRRKN---------HR 195

Query: 61  NSNCC 65
            S C 
Sbjct: 196 RSGCS 200

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	66
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	99.66
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.26
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.08
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.05
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	98.98
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	98.94
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	98.87
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	98.85
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	98.85
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	98.85
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	98.83
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	98.82
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	98.8
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	98.79
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	98.79
2wji_A	165	Ferrous iron transport protein B homolog; membrane	98.78
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	98.77
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	98.77
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	98.77
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	98.76
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	98.76
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	98.76
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	98.76
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	98.74
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	98.74
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	98.74
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	98.73
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	98.73
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	98.73
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	98.73
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	98.73
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	98.72
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	98.71
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	98.71
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	98.71
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	98.71
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	98.7
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	98.7
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	98.7
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	98.7
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	98.7
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	98.69
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	98.69
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	98.69
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	98.68
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	98.67
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	98.67
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	98.65
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	98.65
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	98.64
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	98.64
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	98.62
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	98.62
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	98.61
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	98.6
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	98.6
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	98.59
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	98.58
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	98.58
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	98.58
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	98.58
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	98.57
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	98.56
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	98.56
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	98.55
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	98.55
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	98.55
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	98.54
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	98.54
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	98.54
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	98.53
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	98.52
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	98.52
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	98.5
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	98.5
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	98.5
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	98.49
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	98.48
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	98.47
3llu_A	196	RAS-related GTP-binding protein C; structural geno	98.47
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	98.47
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	98.46
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	97.83
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	98.44
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	98.44
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	98.44
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	98.43
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	98.42
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	98.41
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	98.4
2fh5_B	214	SR-beta, signal recognition particle receptor beta	98.4
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	98.39
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	98.38
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	98.34
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	98.29
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	98.29
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	98.29
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	98.28
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	98.27
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	98.27
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	98.23
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	98.21
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	98.19
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	98.18
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	98.18
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	98.17
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	98.16
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	98.15
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	98.15
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	98.13
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	98.13
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	98.1
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	98.1
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	98.09
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	98.07
2hf9_A	226	Probable hydrogenase nickel incorporation protein	98.06
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	98.06
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	98.05
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	98.04
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	97.99
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	97.98
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	97.95
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	97.92
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	97.9
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	97.86
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	97.83
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	97.81
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	97.76
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	97.75
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	97.66
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	97.65
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	97.65
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	97.63
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	97.62
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	97.61
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	97.57
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	97.56
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	97.47
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	97.44
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	97.36
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	97.29
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	97.23
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	97.2
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	97.18
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	97.11
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	97.1
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	97.08
1wb1_A	482	Translation elongation factor SELB; selenocysteine	97.06
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	96.96
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	96.95
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	96.92
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	96.92
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	96.84
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	96.68
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	96.62
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	96.58
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	96.56
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	96.54
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	96.35
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	96.35
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	96.28
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	96.21
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	96.09
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	95.98
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	95.9
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	95.9
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	95.88
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	95.79
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	95.63
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	95.6
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	95.51
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	95.5
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	95.31
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	95.29
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	94.98
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	94.77
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	94.62
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	94.27
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	94.0
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	93.86
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	93.08
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	92.84
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	92.71
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	92.3
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	91.86
1nrj_B	218	SR-beta, signal recognition particle receptor beta	90.99
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	90.79
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	89.85
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	89.45
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	88.06
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	87.95
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	87.86
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	87.75
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	87.39
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	86.73
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	85.2
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	82.15
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	82.02

>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=99.66  E-value=3.3e-17  Score=88.59  Aligned_cols=38  Identities=37%  Similarity=0.403  Sum_probs=32.0

Q ss_pred             CHHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            1 MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         1 ~~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      +++||+++++.|||||||+|.||+++|..|++.|....
T Consensus       141 ~~~~a~~~~~~~~e~SAktg~nV~e~F~~i~~~i~~~~  178 (216)
T 4dkx_A          141 GERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGME  178 (216)
T ss_dssp             HHHHHHHHTCEEEEEBTTTTBSHHHHHHHHHHHC----
T ss_pred             HhhHHHHhCCeeEEEeCCCCcCHHHHHHHHHHHHHhhh
Confidence            35799999999999999999999999999999987543

>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=99.26  E-value=4e-12  Score=67.28  Aligned_cols=37  Identities=62%  Similarity=0.848  Sum_probs=32.8

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      ..|++.++++|+++||++|.||+++|..|++.+.+..
T Consensus       137 ~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~~  173 (206)
T 2bcg_Y          137 KEFADANKMPFLETSALDSTNVEDAFLTMARQIKESM  173 (206)
T ss_dssp             HHHHHHTTCCEEECCTTTCTTHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            4577888999999999999999999999999987653

>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=99.08  E-value=2.1e-11  Score=64.35  Aligned_cols=36  Identities=53%  Similarity=0.671  Sum_probs=30.8

Q ss_pred             HHHH-HhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            3 AFAD-ELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         3 ~~a~-~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      .++. ..+++|+++||++|.||+++|..|++.+++..
T Consensus       141 ~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~  177 (207)
T 1vg8_A          141 AWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQE  177 (207)
T ss_dssp             HHHHHTTSCCEEECBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCCceEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            4566 45789999999999999999999999988653

>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=99.05  E-value=1.3e-10  Score=61.14  Aligned_cols=36  Identities=31%  Similarity=0.559  Sum_probs=32.5

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      ..+++.++++||++||++|.||+++|..|++.+...
T Consensus       143 ~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~  178 (206)
T 2bov_A          143 KNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRAR  178 (206)
T ss_dssp             HHHHHHHTCEEEEECTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCeEEEEeCCCCCCHHHHHHHHHHHHHHc
Confidence            457788899999999999999999999999999764

>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=98.98  E-value=6.6e-10  Score=59.76  Aligned_cols=36  Identities=28%  Similarity=0.350  Sum_probs=32.1

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      +.++..++++|||||||+|.||+++|..|++.+...
T Consensus       169 ~~~a~~~~~~~~e~SAk~g~~v~elf~~l~~~i~~~  204 (211)
T 2g3y_A          169 RACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRLR  204 (211)
T ss_dssp             HHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHh
Confidence            457788899999999999999999999999998654

>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=98.94  E-value=1.4e-09  Score=57.27  Aligned_cols=37  Identities=27%  Similarity=0.334  Sum_probs=32.1

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      ..++..++++|+|||||+|.||+++|..|++.+....
T Consensus       138 ~~~a~~~~~~~~e~SA~~g~~v~~lf~~l~~~~~~~~  174 (192)
T 2cjw_A          138 RAXAVVFDXKFIETSAAVQHNVKELFEGIVRQVRLRR  174 (192)
T ss_dssp             HHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCceEEeccccCCCHHHHHHHHHHHHHhhc
Confidence            3567778889999999999999999999999986543

>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=98.87  E-value=6.5e-10  Score=58.20  Aligned_cols=35  Identities=37%  Similarity=0.394  Sum_probs=30.6

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      ..++..++++|+++||++|.||+++|..|++.+.+
T Consensus       137 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  171 (199)
T 2gf0_A          137 QAVAQEWKCAFMETSAKMNYNVKELFQELLTLETR  171 (199)
T ss_dssp             HHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHCSS
T ss_pred             HHHHHHhCCeEEEEecCCCCCHHHHHHHHHHHHhh
Confidence            45778889999999999999999999999887654

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=98.85  E-value=1.8e-09  Score=57.87  Aligned_cols=36  Identities=39%  Similarity=0.503  Sum_probs=31.2

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      ..|++.++++|+++||++|.||+++|..|++.+++.
T Consensus       142 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  177 (223)
T 3cpj_B          142 KTFAQENQLLFTETSALNSENVDKAFEELINTIYQK  177 (223)
T ss_dssp             HHHHHHTTCEEEECCCC-CCCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            457888889999999999999999999999998754

>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=98.85  E-value=3.7e-09  Score=55.28  Aligned_cols=36  Identities=25%  Similarity=0.409  Sum_probs=32.4

Q ss_pred             HHHHHHhC-CCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            2 QAFADELG-IPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      +++++.++ +.|+++||++|.||+++|..|++.+++.
T Consensus       145 ~~~~~~~~~~~~~e~Sa~~~~gv~~lf~~l~~~i~~~  181 (184)
T 3ihw_A          145 RKLSTDLKRCTYYETCATYGLNVERVFQDVAQKVVAL  181 (184)
T ss_dssp             HHHHHHTTTCEEEEEBTTTTBTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCeEEEecCCCCCCHHHHHHHHHHHHHHH
Confidence            46788886 8999999999999999999999998865

>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=98.85  E-value=4.6e-09  Score=53.81  Aligned_cols=37  Identities=27%  Similarity=0.298  Sum_probs=32.7

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      +.++..++++|+++||++|.||+++|..|++.+....
T Consensus       135 ~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~  171 (175)
T 2nzj_A          135 RACAVVFDCKFIETSATLQHNVAELFEGVVRQLRLRR  171 (175)
T ss_dssp             HHHHHHHTSEEEECBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHHhh
Confidence            3577888999999999999999999999999987654

>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=98.83  E-value=4.3e-09  Score=53.73  Aligned_cols=36  Identities=25%  Similarity=0.270  Sum_probs=32.2

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      +.+++.++++|+++||++|.||+++|..|++.+..+
T Consensus       133 ~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~i~~~  168 (169)
T 3q85_A          133 RHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRLR  168 (169)
T ss_dssp             HHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCcEEEecCccCCCHHHHHHHHHHHHHhc
Confidence            457888999999999999999999999999988653

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=98.82  E-value=5.8e-09  Score=54.55  Aligned_cols=37  Identities=46%  Similarity=0.672  Sum_probs=33.4

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      +.+++.++++||++||++|.||+++|..|++.+.+..
T Consensus       152 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  188 (191)
T 3dz8_A          152 QLLAEQLGFDFFEASAKENISVRQAFERLVDAICDKM  188 (191)
T ss_dssp             HHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHHhc
Confidence            4578889999999999999999999999999998754

>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=98.80  E-value=4.2e-09  Score=55.56  Aligned_cols=36  Identities=25%  Similarity=0.270  Sum_probs=32.1

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      ++|++.++++|+|+||++|.||+++|..|++.+...
T Consensus       154 ~~~a~~~~~~~~e~Sa~~~~~v~~lf~~l~~~i~~~  189 (195)
T 3cbq_A          154 RHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRLR  189 (195)
T ss_dssp             HHHHHHTTCEEEEEBTTTTBSHHHHHHHHHHHHHTT
T ss_pred             HHHHHHhCCEEEEEcCCCCCCHHHHHHHHHHHHHHh
Confidence            467888889999999999999999999999988643

>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=98.79  E-value=8.2e-09  Score=53.45  Aligned_cols=37  Identities=49%  Similarity=0.721  Sum_probs=33.1

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      ..+++.++++|+++||++|.||+++|..|++.+....
T Consensus       132 ~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~  168 (189)
T 4dsu_A          132 QDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRKHK  168 (189)
T ss_dssp             HHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHhh
Confidence            4678888999999999999999999999999987653

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=98.79  E-value=6.7e-09  Score=52.88  Aligned_cols=36  Identities=31%  Similarity=0.321  Sum_probs=32.1

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      +.++..++++|+++||++|.||+++|..|++.+.++
T Consensus       130 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  165 (166)
T 3q72_A          130 RACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLR  165 (166)
T ss_dssp             HHHHHHTTCEEEECBGGGTBSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCcEEEeccCCCCCHHHHHHHHHHHHHhc
Confidence            467888899999999999999999999999988754

>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=98.78  E-value=5.2e-09  Score=53.74  Aligned_cols=33  Identities=15%  Similarity=0.257  Sum_probs=29.7

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      +++++.++++|+++||++|.||+++|..|++.+
T Consensus       131 ~~~~~~~~~~~~~~SA~~~~~v~~l~~~l~~~~  163 (165)
T 2wji_A          131 DKLEKILGVKVVPLSAAKKMGIEELKKAISIAV  163 (165)
T ss_dssp             HHHHHHHTSCEEECBGGGTBSHHHHHHHHHHHT
T ss_pred             HHHHHHhCCCEEEEEcCCCCCHHHHHHHHHHHh
Confidence            467888899999999999999999999998764

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=98.77  E-value=9.8e-09  Score=53.12  Aligned_cols=37  Identities=57%  Similarity=0.794  Sum_probs=30.2

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      +++++.++++|+++||++|.||+++|..|++.+.+..
T Consensus       137 ~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~i~~~~  173 (183)
T 2fu5_C          137 EKLALDYGIKFMETSAKANINVENAFFTLARDIKAKM  173 (183)
T ss_dssp             HHHHHHHTCEEEECCC---CCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            4678888999999999999999999999999998654

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=98.77  E-value=1.2e-08  Score=53.32  Aligned_cols=37  Identities=57%  Similarity=0.779  Sum_probs=33.3

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      +.+++.+++.|+++||++|.||+++|..|++.++++.
T Consensus       150 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  186 (191)
T 2a5j_A          150 EAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKI  186 (191)
T ss_dssp             HHHHHHHTCEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            4678888999999999999999999999999998754

>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=98.77  E-value=7.3e-09  Score=54.24  Aligned_cols=36  Identities=19%  Similarity=0.339  Sum_probs=32.3

Q ss_pred             HHHHHHhCCC-eEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIP-FLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~~~~-~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      +++++.+++. |+++||++|.||+++|..|++.+++.
T Consensus       153 ~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  189 (194)
T 3reg_A          153 DDLCQKLGCVAYIEASSVAKIGLNEVFEKSVDCIFSN  189 (194)
T ss_dssp             HHHHHHHTCSCEEECBTTTTBSHHHHHHHHHHHHHCS
T ss_pred             HHHHHhcCCCEEEEeecCCCCCHHHHHHHHHHHHHhc
Confidence            4678889988 99999999999999999999998754

>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=98.76  E-value=1.6e-08  Score=53.71  Aligned_cols=37  Identities=35%  Similarity=0.545  Sum_probs=33.1

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      +.+++..+++|+++||++|.||+++|..|++.+++..
T Consensus       155 ~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~i~~~~  191 (201)
T 2ew1_A          155 EEFSEAQDMYYLETSAKESDNVEKLFLDLACRLISEA  191 (201)
T ss_dssp             HHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            4577888999999999999999999999999998754

>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=98.76  E-value=1.2e-08  Score=52.84  Aligned_cols=35  Identities=34%  Similarity=0.650  Sum_probs=31.9

Q ss_pred             HHHHHHhCCCeEEcccC-CCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAK-DAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAk-t~~~v~~~F~~l~~~i~~   36 (66)
                      +.+++.++++|+++||+ +|.||+++|..|++.+.+
T Consensus       147 ~~~~~~~~~~~~~~Sa~~~~~~v~~l~~~l~~~i~~  182 (183)
T 3kkq_A          147 KEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQ  182 (183)
T ss_dssp             HHHHHHHTCCEEEEBCSSSCBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCeEEEeccCCCCCCHHHHHHHHHHHHhh
Confidence            46888899999999999 999999999999998865

>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=98.76  E-value=8.8e-09  Score=53.10  Aligned_cols=37  Identities=22%  Similarity=0.382  Sum_probs=31.8

Q ss_pred             HHHHHHh-CCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADEL-GIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~-~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      +++++.+ +++|+++||++|.||+++|..|++.+++..
T Consensus       134 ~~~~~~~~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~~~  171 (178)
T 2iwr_A          134 RALXADMKRCSYYETXATYGLNVDRVFQEVAQKVVTLR  171 (178)
T ss_dssp             HHHHHHHSSEEEEEEBTTTTBTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhcCCeEEEEeccccCCHHHHHHHHHHHHHHHH
Confidence            4567776 689999999999999999999999987653

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=98.76  E-value=1.4e-08  Score=52.95  Aligned_cols=38  Identities=76%  Similarity=1.127  Sum_probs=33.6

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG   39 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~   39 (66)
                      +.+++.++++|+++||++|.||+++|..|++.+.+...
T Consensus       145 ~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~i~~~~~  182 (196)
T 3tkl_A          145 KEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMG  182 (196)
T ss_dssp             HHHHHHTTCCEEEECTTTCTTHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHcCCcEEEEeCCCCCCHHHHHHHHHHHHHHHhc
Confidence            46788889999999999999999999999999987643

>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=98.74  E-value=1.5e-08  Score=52.91  Aligned_cols=34  Identities=26%  Similarity=0.284  Sum_probs=30.4

Q ss_pred             HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELGI-PFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      .+|++.+++ +|+++||++|.||+++|..|++.++
T Consensus       158 ~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~  192 (194)
T 2atx_A          158 QKLAKEIGACCYVECSALTQKGLKTVFDEAIIAIL  192 (194)
T ss_dssp             HHHHHHHTCSCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCcEEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            457888887 8999999999999999999998876

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=98.74  E-value=1e-08  Score=53.34  Aligned_cols=37  Identities=22%  Similarity=0.311  Sum_probs=33.0

Q ss_pred             HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGI-PFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      +++++.+++ +|+++||++|.||+++|..|++.+++..
T Consensus       157 ~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~i~~~~  194 (198)
T 3t1o_A          157 RAVVDPEGKFPVLEAVATEGKGVFETLKEVSRLVLARV  194 (198)
T ss_dssp             HHHHCTTCCSCEEECBGGGTBTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCceEEEEecCCCcCHHHHHHHHHHHHHHHh
Confidence            457778888 9999999999999999999999998764

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=98.74  E-value=1.7e-08  Score=52.97  Aligned_cols=37  Identities=19%  Similarity=0.203  Sum_probs=32.3

Q ss_pred             HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGI-PFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      ..+++.++. +|+++||++|.||+++|..|++.+++..
T Consensus       160 ~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~  197 (201)
T 2q3h_A          160 KLLAEEIKAASYIECSALTQKNLKEVFDAAIVAGIQYS  197 (201)
T ss_dssp             HHHHHHHTCSEEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCcEEEEEecCCCCCHHHHHHHHHHHHhccc
Confidence            457778886 8999999999999999999999998654

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=98.73  E-value=1.8e-08  Score=51.31  Aligned_cols=36  Identities=53%  Similarity=0.808  Sum_probs=32.5

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      +.+++.++++|+++||++|.||+++|..|++.+.++
T Consensus       131 ~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~  166 (170)
T 1g16_A          131 EALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEK  166 (170)
T ss_dssp             HHHHHHHTCCEEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHHH
Confidence            467888899999999999999999999999998764

>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=98.73  E-value=1.9e-08  Score=53.18  Aligned_cols=37  Identities=46%  Similarity=0.573  Sum_probs=33.0

Q ss_pred             HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGI-PFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      +++++.+++ +|+++||++|.||+++|..|++.+++..
T Consensus       158 ~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~~~~  195 (201)
T 2hup_A          158 QSLAEHYDILCAIETSAKDSSNVEEAFLRVATELIMRH  195 (201)
T ss_dssp             HHHHHHTTCSEEEECBTTTTBSHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCCEEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            467888898 8999999999999999999999998754

>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=98.73  E-value=5e-09  Score=55.97  Aligned_cols=36  Identities=31%  Similarity=0.279  Sum_probs=32.1

Q ss_pred             HHHHHHhCC-CeEEcccCCCCC-HHHHHHHHHHHHHHH
Q 035388            2 QAFADELGI-PFLETSAKDAIN-VEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~~~-~~~etSAkt~~~-v~~~F~~l~~~i~~~   37 (66)
                      ..+++.+++ +|+||||++|.| |+++|..|++.++..
T Consensus       167 ~~~~~~~~~~~~~e~SA~~g~g~v~~lf~~l~~~~~~~  204 (214)
T 3q3j_B          167 CAIAKQLGAEIYLEGSAFTSEKSIHSIFRTASMLCLNK  204 (214)
T ss_dssp             HHHHHHHTCSEEEECCTTTCHHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHcCCCEEEEeccCCCcccHHHHHHHHHHHHhcc
Confidence            468889998 899999999998 999999999998754

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=98.73  E-value=2.1e-08  Score=52.30  Aligned_cols=37  Identities=46%  Similarity=0.697  Sum_probs=33.1

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      +++++.++++|+++||++|.||+++|..|++.+.++.
T Consensus       151 ~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~~  187 (189)
T 2gf9_A          151 RRLADDLGFEFFEASAKENINVKQVFERLVDVICEKM  187 (189)
T ss_dssp             HHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHHHh
Confidence            4678888999999999999999999999999987653

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=98.73  E-value=9.7e-09  Score=52.70  Aligned_cols=35  Identities=51%  Similarity=0.687  Sum_probs=30.7

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +++++.++++|+++||++|.||+++|..|++.+++
T Consensus       144 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  178 (179)
T 1z0f_A          144 KQFAEENGLLFLEASAKTGENVEDAFLEAAKKIYQ  178 (179)
T ss_dssp             HHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHC-
T ss_pred             HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHhh
Confidence            45778889999999999999999999999988754

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=98.72  E-value=2.2e-08  Score=51.87  Aligned_cols=38  Identities=45%  Similarity=0.531  Sum_probs=33.6

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG   39 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~   39 (66)
                      ..+++.++++|+++||++|.||+++|..|++.+++...
T Consensus       139 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~~  176 (186)
T 2bme_A          139 SRFAQENELMFLETSALTGENVEEAFVQCARKILNKIE  176 (186)
T ss_dssp             HHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHHHHHhh
Confidence            45778889999999999999999999999999987643

>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=98.71  E-value=8.8e-09  Score=54.21  Aligned_cols=34  Identities=44%  Similarity=0.549  Sum_probs=30.7

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      +.+++.++++|+++||++|.||+++|..|++.+.
T Consensus       163 ~~~~~~~~~~~~~~SA~~g~gv~el~~~l~~~i~  196 (199)
T 2p5s_A          163 EKLAMTYGALFCETSAKDGSNIVEAVLHLAREVK  196 (199)
T ss_dssp             HHHHHHHTCEEEECCTTTCTTHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCeEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            4577888999999999999999999999998875

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=98.71  E-value=2.4e-08  Score=52.66  Aligned_cols=38  Identities=47%  Similarity=0.548  Sum_probs=33.5

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG   39 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~   39 (66)
                      ..+++.++++|+++||++|.||+++|..|++.+++...
T Consensus       154 ~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~~~~~  191 (200)
T 2o52_A          154 SRFAQENELMFLETSALTGENVEEAFLKCARTILNKID  191 (200)
T ss_dssp             HHHHHHTTCEEEEECTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHHh
Confidence            45778889999999999999999999999999987543

>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=98.71  E-value=2.4e-08  Score=52.39  Aligned_cols=37  Identities=27%  Similarity=0.476  Sum_probs=33.0

Q ss_pred             HHHHHHhCCCeEEcccCCCC-CHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAI-NVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~-~v~~~F~~l~~~i~~~~   38 (66)
                      +.+++.++++|+++||++|. ||+++|..|++.+++..
T Consensus       156 ~~~~~~~~~~~~~~Sa~~g~~gi~~l~~~l~~~i~~~~  193 (196)
T 2atv_A          156 EKLATELACAFYECSACTGEGNITEIFYELCREVRRRR  193 (196)
T ss_dssp             HHHHHHHTSEEEECCTTTCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCeEEEECCCcCCcCHHHHHHHHHHHHHhhc
Confidence            46788889999999999999 99999999999998654

>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=98.71  E-value=5.8e-09  Score=53.91  Aligned_cols=37  Identities=30%  Similarity=0.354  Sum_probs=32.8

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      +.+++.++++|+++||++|.||+++|..|++.+....
T Consensus       135 ~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~~  171 (181)
T 3t5g_A          135 KALAESWNAAFLESSAKENQTAVDVFRRIILEAEKMD  171 (181)
T ss_dssp             HHHHHHTTCEEEECCTTSHHHHHHHHHHHHHHHHTC-
T ss_pred             HHHHHHhCCcEEEEecCCCCCHHHHHHHHHHHHHHhc
Confidence            4688889999999999999999999999999987643

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=98.70  E-value=2.2e-08  Score=52.25  Aligned_cols=37  Identities=51%  Similarity=0.622  Sum_probs=32.9

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      +.+++.++++|+++||++|.||+++|..|++.++++.
T Consensus       154 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  190 (193)
T 2oil_A          154 RMFAENNGLLFLETSALDSTNVELAFETVLKEIFAKV  190 (193)
T ss_dssp             HHHHHHTTCEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            4577788899999999999999999999999998754

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=98.70  E-value=2.4e-08  Score=51.99  Aligned_cols=37  Identities=35%  Similarity=0.575  Sum_probs=33.1

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      +++++.++++|+++||++|.||+++|..|++.++++.
T Consensus       170 ~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  206 (208)
T 3clv_A          170 QKYAQDNNLLFIQTSAKTGTNIKNIFYMLAEEIYKNI  206 (208)
T ss_dssp             HHHHHHTTCEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCcEEEEecCCCCCHHHHHHHHHHHHHHhc
Confidence            4678888999999999999999999999999988654

>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=98.70  E-value=2.8e-08  Score=51.06  Aligned_cols=37  Identities=30%  Similarity=0.482  Sum_probs=32.7

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      +.++..+++.|+++||++|.||+++|..|++.+.+..
T Consensus       138 ~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~~  174 (181)
T 2fn4_A          138 SAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRKYQ  174 (181)
T ss_dssp             HHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHHHhh
Confidence            4577788899999999999999999999999998654

>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=98.70  E-value=1.4e-08  Score=52.34  Aligned_cols=34  Identities=21%  Similarity=0.322  Sum_probs=30.1

Q ss_pred             HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELGI-PFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      .++++.++. +|+++||++|.||+++|..|++.++
T Consensus       146 ~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~  180 (182)
T 3bwd_D          146 EELKKLIGAPAYIECSSKSQENVKGVFDAAIRVVL  180 (182)
T ss_dssp             HHHHHHHTCSEEEECCTTTCTTHHHHHHHHHHHHS
T ss_pred             HHHHHHcCCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            457888886 8999999999999999999998774

>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=98.70  E-value=7.7e-09  Score=54.10  Aligned_cols=34  Identities=32%  Similarity=0.416  Sum_probs=31.0

Q ss_pred             HHHHHHhCCCeEEccc-CCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSA-KDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~~~~etSA-kt~~~v~~~F~~l~~~i~   35 (66)
                      +++++.++++|+++|| ++|.||+++|..|++.+.
T Consensus       151 ~~~~~~~~~~~~e~Sa~~~g~gv~~lf~~l~~~i~  185 (187)
T 3c5c_A          151 VALAGRFGCLFFEVSACLDFEHVQHVFHEAVREAR  185 (187)
T ss_dssp             HHHHHHHTCEEEECCSSSCSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCcEEEEeecCccccHHHHHHHHHHHHh
Confidence            4688889999999999 899999999999998875

>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=98.69  E-value=1.9e-08  Score=53.58  Aligned_cols=36  Identities=31%  Similarity=0.321  Sum_probs=32.0

Q ss_pred             HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            2 QAFADELGI-PFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      .++++.+++ +|+++||++|.||+++|..|++.+++.
T Consensus       174 ~~~~~~~~~~~~~~~SA~~g~gi~el~~~l~~~~~~~  210 (214)
T 2j1l_A          174 QEMARSVGAVAYLECSARLHDNVHAVFQEAAEVALSS  210 (214)
T ss_dssp             HHHHHHTTCSEEEECBTTTTBSHHHHHHHHHHHHHHC
T ss_pred             HHHHHhcCCCEEEEecCCCCCCHHHHHHHHHHHHHHh
Confidence            467788887 899999999999999999999999864

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=98.69  E-value=1.3e-08  Score=52.28  Aligned_cols=35  Identities=31%  Similarity=0.234  Sum_probs=31.5

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +.+++.++++|+++||++|.||+++|..|++.+++
T Consensus       139 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  173 (178)
T 2hxs_A          139 LRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEILG  173 (178)
T ss_dssp             HHHHHHHTCEEEEECTTTCTTHHHHHHHHHHHHTT
T ss_pred             HHHHHHcCCcEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            45788889999999999999999999999998864

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=98.69  E-value=1.5e-08  Score=51.64  Aligned_cols=34  Identities=26%  Similarity=0.500  Sum_probs=30.8

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      +++++.++++|+++||++|.||+++|..|++.++
T Consensus       135 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  168 (170)
T 1z08_A          135 ESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMI  168 (170)
T ss_dssp             HHHHHHTTCEEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHh
Confidence            4578888999999999999999999999998876

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=98.68  E-value=4e-08  Score=50.47  Aligned_cols=37  Identities=35%  Similarity=0.563  Sum_probs=32.9

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      ..++..++++|+++||++|.||+++|..|++.+.+..
T Consensus       137 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~  173 (181)
T 3tw8_B          137 YKFAGQMGIQLFETSAKENVNVEEMFNCITELVLRAK  173 (181)
T ss_dssp             HHHHHHHTCCEEECBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHHHh
Confidence            4577888999999999999999999999999988654

>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=98.67  E-value=3.4e-08  Score=50.95  Aligned_cols=37  Identities=30%  Similarity=0.531  Sum_probs=32.7

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      .++++.++++|+++||++|.||+++|..|++.+.+..
T Consensus       147 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  183 (187)
T 2a9k_A          147 KNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARK  183 (187)
T ss_dssp             HHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCeEEEeCCCCCCCHHHHHHHHHHHHHHhh
Confidence            4577888999999999999999999999999987653

>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=98.67  E-value=2.2e-08  Score=50.79  Aligned_cols=35  Identities=34%  Similarity=0.568  Sum_probs=31.0

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      ..+++.++++|+++||++|.||+++|..|++.+.+
T Consensus       133 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  167 (168)
T 1u8z_A          133 KNRADQWNVNYVETSAKTRANVDKVFFDLMREIRA  167 (168)
T ss_dssp             HHHHHHHTCEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCeEEEeCCCCCCCHHHHHHHHHHHHHh
Confidence            45777889999999999999999999999988753

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=98.65  E-value=1.2e-08  Score=53.78  Aligned_cols=36  Identities=25%  Similarity=0.436  Sum_probs=32.9

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      +.+++.++++|+++||++|.||+++|..|++.+.+.
T Consensus       153 ~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~i~~~  188 (201)
T 3oes_A          153 KKLAESWGATFMESSARENQLTQGIFTKVIQEIARV  188 (201)
T ss_dssp             HHHHHHHTCEEEECCTTCHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHhCCeEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence            467888999999999999999999999999999864

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=98.65  E-value=5.7e-08  Score=50.32  Aligned_cols=37  Identities=35%  Similarity=0.609  Sum_probs=33.0

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      +++++.++++|+++||++|.||+++|..|++.+.++.
T Consensus       151 ~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~~  187 (195)
T 3bc1_A          151 RELAEKYGIPYFETSAANGTNISHAIEMLLDLIMKRM  187 (195)
T ss_dssp             HHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCEEEEECCCCCCHHHHHHHHHHHHHHHh
Confidence            4577888999999999999999999999999988654

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=98.64  E-value=3.6e-08  Score=50.72  Aligned_cols=35  Identities=49%  Similarity=0.827  Sum_probs=31.4

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +.+++.++++|+++||++|.||+++|..|++.+.+
T Consensus       140 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  174 (180)
T 2g6b_A          140 EKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELKR  174 (180)
T ss_dssp             HHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            45778889999999999999999999999998864

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=98.64  E-value=5.3e-08  Score=51.70  Aligned_cols=37  Identities=46%  Similarity=0.651  Sum_probs=33.0

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      ++|++.++++|+++||++|.||+++|..|++.+.+..
T Consensus       165 ~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~~  201 (217)
T 2f7s_A          165 RELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRM  201 (217)
T ss_dssp             HHHHHHTTCCEEEEBTTTTBTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCcEEEEECCCCCCHHHHHHHHHHHHHHHh
Confidence            4578888999999999999999999999999988653

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=98.62  E-value=4.6e-08  Score=51.76  Aligned_cols=36  Identities=22%  Similarity=0.379  Sum_probs=31.6

Q ss_pred             HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            2 QAFADELGI-PFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      .++++.+++ +|+++||++|.||+++|..|++.+++.
T Consensus       145 ~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~  181 (212)
T 2j0v_A          145 EELRKQIGAAAYIECSSKTQQNVKAVFDTAIKVVLQP  181 (212)
T ss_dssp             HHHHHHHTCSEEEECCTTTCTTHHHHHHHHHHHHHCC
T ss_pred             HHHHHHcCCceEEEccCCCCCCHHHHHHHHHHHHhhh
Confidence            457888885 899999999999999999999998753

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=98.62  E-value=3.8e-08  Score=51.74  Aligned_cols=37  Identities=49%  Similarity=0.703  Sum_probs=33.0

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      +.+++.++++||++||++|.||+++|..|++.+.+..
T Consensus       137 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  173 (203)
T 1zbd_A          137 RQLADHLGFEFFEASAKDNINVKQTFERLVDVICEKM  173 (203)
T ss_dssp             HHHHHHHTCEEEECBTTTTBSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCeEEEEECCCCCCHHHHHHHHHHHHHHHH
Confidence            4678888999999999999999999999999987653

>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=98.61  E-value=3.7e-08  Score=50.83  Aligned_cols=35  Identities=26%  Similarity=0.298  Sum_probs=30.5

Q ss_pred             HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGI-PFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      ..+++.++. +|+++||++|.||+++|..|++.+++
T Consensus       145 ~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~  180 (186)
T 1mh1_A          145 LAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC  180 (186)
T ss_dssp             HHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHSC
T ss_pred             HHHHHhcCCcEEEEecCCCccCHHHHHHHHHHHHhc
Confidence            347778886 89999999999999999999988863

>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=98.60  E-value=2.7e-08  Score=50.56  Aligned_cols=35  Identities=29%  Similarity=0.457  Sum_probs=31.2

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +++++.++++|+++||++|.||+++|..|++.+++
T Consensus       133 ~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  167 (168)
T 1z2a_A          133 EGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHLQ  167 (168)
T ss_dssp             HHHHHHHTCEEEECBTTTTBSSHHHHHHHHHHHHC
T ss_pred             HHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHhh
Confidence            45778889999999999999999999999988763

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=98.60  E-value=8.8e-08  Score=49.80  Aligned_cols=37  Identities=46%  Similarity=0.683  Sum_probs=33.0

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      +++++.++++++++||++|.||+++|..|++.+.+..
T Consensus       149 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~  185 (190)
T 3con_A          149 HELAKSYGIPFIETSAKTRQGVEDAFYTLVREIRQYR  185 (190)
T ss_dssp             HHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            4678888999999999999999999999999987653

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=98.59  E-value=5.6e-08  Score=50.56  Aligned_cols=36  Identities=31%  Similarity=0.389  Sum_probs=32.2

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      ..+++.++++|+++||++|.||+++|..|++.+.+.
T Consensus       144 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  179 (195)
T 1x3s_A          144 LKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQT  179 (195)
T ss_dssp             HHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHTS
T ss_pred             HHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHHHhh
Confidence            457788899999999999999999999999998754

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=98.58  E-value=5.8e-08  Score=50.86  Aligned_cols=36  Identities=44%  Similarity=0.769  Sum_probs=30.6

Q ss_pred             HHHHHHh-CCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            2 QAFADEL-GIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~-~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      +++++.+ ++.|+++||++|.||+++|..|++.++++
T Consensus       155 ~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~~~  191 (192)
T 2il1_A          155 EKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKK  191 (192)
T ss_dssp             HHHHHTSTTCEEEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             HHHHHhcCCCeEEEEeCCCCCCHHHHHHHHHHHHHHh
Confidence            3566664 68899999999999999999999988753

>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=98.58  E-value=3.4e-08  Score=50.03  Aligned_cols=35  Identities=37%  Similarity=0.618  Sum_probs=30.9

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +.+++.++++|+++||++|.||+++|..|++.+.+
T Consensus       132 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  166 (167)
T 1kao_A          132 RALAEEWGCPFMETSAKSKTMVDELFAEIVRQMNY  166 (167)
T ss_dssp             HHHHHHHTSCEEEECTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCEEEecCCCCcCHHHHHHHHHHHHhh
Confidence            45778889999999999999999999999988753

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=98.58  E-value=9.6e-08  Score=49.04  Aligned_cols=37  Identities=41%  Similarity=0.457  Sum_probs=31.0

Q ss_pred             HHHHH-HhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFAD-ELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~-~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      .++++ ..+.+|+++||++|.||+++|..|++.++++.
T Consensus       143 ~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~  180 (182)
T 1ky3_A          143 QELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQQN  180 (182)
T ss_dssp             HHHHHHTTSCCEEEEBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCCeEEEEecCCCCCHHHHHHHHHHHHHHhh
Confidence            34666 35689999999999999999999999988653

>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=98.58  E-value=7.1e-08  Score=50.83  Aligned_cols=34  Identities=24%  Similarity=0.270  Sum_probs=29.8

Q ss_pred             HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELGI-PFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      .++++.++. +|+++||++|.||+++|..|++.++
T Consensus       165 ~~~~~~~~~~~~~~~SA~~g~gi~~l~~~i~~~~l  199 (201)
T 2gco_A          165 RDMANRISAFGYLECSAKTKEGVREVFEMATRAGL  199 (201)
T ss_dssp             HHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCcEEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            356777787 7999999999999999999998876

>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=98.57  E-value=1.9e-08  Score=52.30  Aligned_cols=35  Identities=20%  Similarity=0.278  Sum_probs=30.2

Q ss_pred             HHHHHHhC-CCeEEcccC-CCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELG-IPFLETSAK-DAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~-~~~~etSAk-t~~~v~~~F~~l~~~i~~   36 (66)
                      .+|++.++ .+|+|+||| +|.||+++|..+++.+++
T Consensus       147 ~~~~~~~~~~~~~e~Sa~~~~~gi~~l~~~i~~~~l~  183 (184)
T 1m7b_A          147 ANMAKQIGAATYIECSALQSENSVRDIFHVATLACVN  183 (184)
T ss_dssp             HHHHHHHTCSEEEECBTTTBHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCcEEEEeeecCCCcCHHHHHHHHHHHHhc
Confidence            45788887 789999999 689999999999998864

>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=98.56  E-value=7.5e-08  Score=48.59  Aligned_cols=34  Identities=50%  Similarity=0.751  Sum_probs=30.8

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      +++++.++++++++||++|.||+++|..|++.+.
T Consensus       131 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  164 (166)
T 2ce2_X          131 QDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR  164 (166)
T ss_dssp             HHHHHHHTCCEEEECTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHH
Confidence            4678888999999999999999999999998875

>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=98.56  E-value=9e-08  Score=50.65  Aligned_cols=35  Identities=29%  Similarity=0.314  Sum_probs=30.6

Q ss_pred             HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGI-PFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      ..++..++. .|+++||++|.||+++|..|++.++.
T Consensus       165 ~~~~~~~~~~~~~~~SA~~g~gi~el~~~l~~~i~~  200 (207)
T 2fv8_A          165 RAMAVRIQAYDYLECSAKTKEGVREVFETATRAALQ  200 (207)
T ss_dssp             HHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHHS
T ss_pred             HHHHHhcCCCEEEEeeCCCCCCHHHHHHHHHHHHHH
Confidence            356777776 79999999999999999999998874

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=98.55  E-value=4.3e-08  Score=49.83  Aligned_cols=33  Identities=39%  Similarity=0.718  Sum_probs=29.1

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      .+++..++++|+++||++|.||+++|..|++.+
T Consensus       135 ~~~~~~~~~~~~~~Sa~~g~gi~~l~~~i~~~~  167 (170)
T 1r2q_A          135 QSYADDNSLLFMETSAKTSMNVNEIFMAIAKKL  167 (170)
T ss_dssp             HHHHHHTTCEEEECCTTTCTTHHHHHHHHHHTS
T ss_pred             HHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHH
Confidence            457778889999999999999999999998765

>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=98.55  E-value=7.7e-08  Score=49.35  Aligned_cols=35  Identities=40%  Similarity=0.504  Sum_probs=29.9

Q ss_pred             HHHHH-HhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFAD-ELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~-~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      .++++ ..+++|+++||++|.||+++|..|++.+++
T Consensus       139 ~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  174 (177)
T 1wms_A          139 QAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVLA  174 (177)
T ss_dssp             HHHHHHTTCCCEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             HHHHHhcCCceEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            34666 456899999999999999999999998875

>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=98.55  E-value=1e-07  Score=50.26  Aligned_cols=37  Identities=51%  Similarity=0.809  Sum_probs=32.9

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      +.+++.++++|+++||++|.||+++|..|++.+.+..
T Consensus       148 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~  184 (213)
T 3cph_A          148 EALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKI  184 (213)
T ss_dssp             HHHHHHHTCCEEECBTTTTBSSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            4577888999999999999999999999999887654

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=98.54  E-value=3.2e-08  Score=50.94  Aligned_cols=35  Identities=43%  Similarity=0.656  Sum_probs=30.3

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +++++.++++|+++||++|.||+++|..|++.+.+
T Consensus       141 ~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~  175 (181)
T 2efe_B          141 QTYAQENGLFFMETSAKTATNVKEIFYEIARRLPR  175 (181)
T ss_dssp             HHHHHHTTCEEEECCSSSCTTHHHHHHHHHHTCC-
T ss_pred             HHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            45778889999999999999999999999887754

>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=98.54  E-value=3.5e-08  Score=52.49  Aligned_cols=35  Identities=20%  Similarity=0.278  Sum_probs=30.4

Q ss_pred             HHHHHHhC-CCeEEcccC-CCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELG-IPFLETSAK-DAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~-~~~~etSAk-t~~~v~~~F~~l~~~i~~   36 (66)
                      ++|++.++ ..|+|+||| +|.||+++|..|++.+++
T Consensus       168 ~~~~~~~~~~~~~e~SAk~~~~gv~~lf~~l~~~~l~  204 (205)
T 1gwn_A          168 ANMAKQIGAATYIECSALQSENSVRDIFHVATLACVN  204 (205)
T ss_dssp             HHHHHHHTCSEEEECCTTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCEEEEeeeccCCcCHHHHHHHHHHHHhh
Confidence            46788887 689999999 689999999999998875

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=98.54  E-value=9.7e-08  Score=48.43  Aligned_cols=34  Identities=38%  Similarity=0.584  Sum_probs=29.3

Q ss_pred             HHHHHHh-CCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADEL-GIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~-~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ..+++.+ +.+|+++||++|.||+++|..|++.+.
T Consensus       132 ~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~  166 (167)
T 1c1y_A          132 QNLARQWCNCAFLESSAKSKINVNEIFYDLVRQIN  166 (167)
T ss_dssp             HHHHHHTTSCEEEECBTTTTBSHHHHHHHHHHHHT
T ss_pred             HHHHHHccCCcEEEecCCCCCCHHHHHHHHHHHHh
Confidence            3567777 689999999999999999999988763

>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=98.53  E-value=1.1e-07  Score=49.18  Aligned_cols=36  Identities=25%  Similarity=0.369  Sum_probs=30.7

Q ss_pred             HHHHHHhCCC-------eEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIP-------FLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~~~~-------~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      +++++.++++       ++++||++|.||+++|..|++.+.+.
T Consensus       143 ~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~  185 (190)
T 2cxx_A          143 NFLAEKFEVPLSEIDKVFIPISAKFGDNIERLKNRIFEVIRER  185 (190)
T ss_dssp             HHHHHHHTCCGGGHHHHEEECCTTTCTTHHHHHHHHHHHHHHC
T ss_pred             HHHHHHhhhhhhccCCcEEEEecCCCCCHHHHHHHHHHhcchh
Confidence            4577778765       59999999999999999999988764

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=98.52  E-value=7.5e-08  Score=48.98  Aligned_cols=33  Identities=39%  Similarity=0.686  Sum_probs=29.2

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ..+++.++++|+++||++|.||+++|..|++.+
T Consensus       135 ~~~~~~~~~~~~~~Sa~~~~~i~~l~~~i~~~i  167 (170)
T 1z0j_A          135 KDYADSIHAIFVETSAKNAININELFIEISRRI  167 (170)
T ss_dssp             HHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHC
T ss_pred             HHHHHHcCCEEEEEeCCCCcCHHHHHHHHHHHH
Confidence            457778889999999999999999999998765

>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=98.52  E-value=4.6e-08  Score=49.72  Aligned_cols=33  Identities=42%  Similarity=0.648  Sum_probs=29.0

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      +++++.++++|+++||++|.||+++|..|++.+
T Consensus       135 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i  167 (170)
T 1ek0_A          135 EKLAEEKGLLFFETSAKTGENVNDVFLGIGEKI  167 (170)
T ss_dssp             HHHHHHHTCEEEECCTTTCTTHHHHHHHHHTTS
T ss_pred             HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            457778899999999999999999999987654

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=98.50  E-value=1.3e-07  Score=48.98  Aligned_cols=35  Identities=17%  Similarity=0.278  Sum_probs=31.4

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +++++.++++|+++||++|.||+++|..+++.+..
T Consensus       135 ~~~~~~~~~~~~~~Sa~~~~~v~~l~~~i~~~~~~  169 (188)
T 2wjg_A          135 DKLEKILGVKVVPLSAAKKMGIEELKKAISIAVKD  169 (188)
T ss_dssp             HHHHHHHTSCEEECBGGGTBSHHHHHHHHHHHHTT
T ss_pred             HHHHHHhCCCeEEEEecCCCCHHHHHHHHHHHHHh
Confidence            46788889999999999999999999999988754

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=98.50  E-value=1.9e-07  Score=50.16  Aligned_cols=35  Identities=29%  Similarity=0.330  Sum_probs=30.0

Q ss_pred             HHHHHhC--CCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            3 AFADELG--IPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         3 ~~a~~~~--~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      .++...+  ++|+++||++|.||+++|..|++.+.+.
T Consensus       170 ~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~~~  206 (228)
T 2qu8_A          170 QILDNVKNPIKFSSFSTLTGVGVEQAKITACELLKND  206 (228)
T ss_dssp             HHHHHCCSCEEEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCCCceEEEEecccCCCHHHHHHHHHHHHHHH
Confidence            4556666  7899999999999999999999988754

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=98.50  E-value=1.3e-07  Score=49.30  Aligned_cols=33  Identities=6%  Similarity=0.147  Sum_probs=28.8

Q ss_pred             HHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            6 DELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         6 ~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      +..++.||++||++|.||+++|..|++.+.+..
T Consensus       159 ~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~~~  191 (199)
T 4bas_A          159 GDHPFVIFASNGLKGTGVHEGFSWLQETASRQS  191 (199)
T ss_dssp             TTSCEEEEECBTTTTBTHHHHHHHHHHHHHHHC
T ss_pred             cCCeeEEEEeeCCCccCHHHHHHHHHHHHHHHh
Confidence            445678999999999999999999999998754

>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=98.49  E-value=7.3e-08  Score=50.99  Aligned_cols=33  Identities=27%  Similarity=0.365  Sum_probs=28.0

Q ss_pred             HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHHHH
Q 035388            2 QAFADELGI-PFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ..+++.++. +|+++||++|.||+++|..|++.+
T Consensus       170 ~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~~  203 (204)
T 4gzl_A          170 LAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV  203 (204)
T ss_dssp             HHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHTT
T ss_pred             HHHHHhcCCcEEEEeeCCCCCCHHHHHHHHHHHh
Confidence            357778875 499999999999999999998754

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=98.48  E-value=1e-07  Score=50.03  Aligned_cols=36  Identities=22%  Similarity=0.416  Sum_probs=26.4

Q ss_pred             HHHHHHhCCCeEEcccCC-CCCHHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKD-AINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt-~~~v~~~F~~l~~~i~~~   37 (66)
                      .++++.++++|+++||++ |.||+++|..|++.+.+.
T Consensus       157 ~~~~~~~~~~~~~~Sa~~~~~gi~~l~~~i~~~~~~~  193 (208)
T 2yc2_C          157 QDWATTNTLDFFDVSANPPGKDADAPFLSIATTFYRN  193 (208)
T ss_dssp             HHHHHHTTCEEEECCC-------CHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCEEEEeccCCCCcCHHHHHHHHHHHHHHH
Confidence            467888899999999999 999999999999988754

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=98.47  E-value=5e-08  Score=51.06  Aligned_cols=35  Identities=37%  Similarity=0.617  Sum_probs=30.2

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +++++.++++|+++||++|.||+++|..|++.+.+
T Consensus       152 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  186 (192)
T 2fg5_A          152 KEYAESIGAIVVETSAKNAINIEELFQGISRQIPP  186 (192)
T ss_dssp             HHHHHTTTCEEEECBTTTTBSHHHHHHHHHHTCC-
T ss_pred             HHHHHHcCCEEEEEeCCCCcCHHHHHHHHHHHHHh
Confidence            45778888999999999999999999999887643

>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=98.47  E-value=3.4e-08  Score=51.90  Aligned_cols=31  Identities=29%  Similarity=0.412  Sum_probs=27.0

Q ss_pred             HHHH----HhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            3 AFAD----ELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         3 ~~a~----~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      .+++    .+++.|+||||++ .||+++|..|++.+
T Consensus       161 ~~~~~~~~~~~~~~~e~Sa~~-~~v~~~f~~l~~~l  195 (196)
T 3llu_A          161 DLADAGLEKLHLSFYLTSIYD-HSIFEAFSKVVQKL  195 (196)
T ss_dssp             HHHHTTCTTSCEEEEEECTTS-THHHHHHHHHHHHT
T ss_pred             HHHHhhhhcCCcceEEEEech-hhHHHHHHHHHHHh
Confidence            4566    6678999999999 99999999999875

>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=98.47  E-value=1.9e-07  Score=52.18  Aligned_cols=35  Identities=26%  Similarity=0.298  Sum_probs=30.7

Q ss_pred             HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGI-PFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      ..|++.+++ +|+++||++|.||+++|..|++.++.
T Consensus       295 ~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  330 (332)
T 2wkq_A          295 LAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC  330 (332)
T ss_dssp             HHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCCcEEEEecCCCCcCHHHHHHHHHHHHhc
Confidence            357778886 89999999999999999999998863

>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=98.46  E-value=1.2e-07  Score=49.36  Aligned_cols=34  Identities=47%  Similarity=0.706  Sum_probs=27.6

Q ss_pred             HHHHHHhCCCeEEcccCCC---CCHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDA---INVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~---~~v~~~F~~l~~~i~   35 (66)
                      +.|++.++++|+++||++|   .||+++|..|++.+.
T Consensus       151 ~~~~~~~~~~~~~~Sa~~~~~~~~i~~l~~~l~~~i~  187 (189)
T 1z06_A          151 QKFADTHSMPLFETSAKNPNDNDHVEAIFMTLAHKLK  187 (189)
T ss_dssp             HHHHHHTTCCEEECCSSSGGGGSCHHHHHHHHC----
T ss_pred             HHHHHHcCCEEEEEeCCcCCcccCHHHHHHHHHHHHh
Confidence            4678888999999999999   999999999988775

>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=97.83  E-value=2.2e-08  Score=52.80  Aligned_cols=34  Identities=26%  Similarity=0.334  Sum_probs=28.6

Q ss_pred             HHHHHHhCC-CeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELGI-PFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      .++++.+++ +|+++||++|.||+++|..|++.++
T Consensus       170 ~~~~~~~~~~~~~~vSA~~g~gi~~l~~~l~~~il  204 (204)
T 3th5_A          170 LAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL  204 (204)
Confidence            346677776 8999999999999999999987653

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=98.44  E-value=1.1e-07  Score=48.31  Aligned_cols=33  Identities=33%  Similarity=0.339  Sum_probs=28.8

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      +.++..++++|+++||++|.||+++|..|++.+
T Consensus       133 ~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  165 (172)
T 2erx_A          133 EALARTWKCAFMETSAKLNHNVKELFQELLNLE  165 (172)
T ss_dssp             HHHHHHHTCEEEECBTTTTBSHHHHHHHHHHTC
T ss_pred             HHHHHHhCCeEEEecCCCCcCHHHHHHHHHHHH
Confidence            456778889999999999999999999988754

>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=98.44  E-value=2.3e-07  Score=50.89  Aligned_cols=34  Identities=35%  Similarity=0.477  Sum_probs=28.7

Q ss_pred             HHHHHH-hCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADE-LGIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~-~~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      +++++. .+++|+|+||++|.||+++|..|++.+.
T Consensus       220 ~~~~~~~~~~~~~e~SAk~g~gv~elf~~l~~~l~  254 (255)
T 3c5h_A          220 HTFALSKKNLQVVETSARSNVNVDLAFSTLVQLID  254 (255)
T ss_dssp             HHHHHTSSSCCEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            356665 4789999999999999999999988763

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=98.44  E-value=5e-08  Score=49.50  Aligned_cols=28  Identities=7%  Similarity=0.070  Sum_probs=23.6

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +++|+++||++|.||+++|..|++.+.+
T Consensus       135 ~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  162 (164)
T 1r8s_A          135 NWYIQATCATSGDGLYEGLDWLSNQLRN  162 (164)
T ss_dssp             CEEEEECBTTTTBTHHHHHHHHHHHC--
T ss_pred             cEEEEEcccCCCcCHHHHHHHHHHHHhh
Confidence            3469999999999999999999988754

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=98.43  E-value=1.6e-07  Score=47.44  Aligned_cols=31  Identities=19%  Similarity=0.254  Sum_probs=26.1

Q ss_pred             HHHHHhCC-CeEEcccCCCCCHHHHHHHHHHHH
Q 035388            3 AFADELGI-PFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         3 ~~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      +++ .+++ +|+++||++|.||+++|..|++.+
T Consensus       129 ~~~-~~~~~~~~~~Sa~~~~gv~~l~~~l~~~l  160 (161)
T 2dyk_A          129 PLY-GLGFGDPIPTSSEHARGLEELLEAIWERL  160 (161)
T ss_dssp             GGG-GGSSCSCEECBTTTTBSHHHHHHHHHHHC
T ss_pred             HHH-hCCCCCeEEEecccCCChHHHHHHHHHhC
Confidence            445 5676 799999999999999999998754

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=98.42  E-value=9.3e-08  Score=48.99  Aligned_cols=34  Identities=41%  Similarity=0.528  Sum_probs=29.6

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      +.+++.++++|+++||++|.||+++|..|++.+.
T Consensus       143 ~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  176 (179)
T 2y8e_A          143 ERKAKELNVMFIETSAKAGYNVKQLFRRVAAALP  176 (179)
T ss_dssp             HHHHHHHTCEEEEEBTTTTBSHHHHHHHHHHTCC
T ss_pred             HHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHh
Confidence            4567788999999999999999999999987654

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi}

Probab=98.41  E-value=8.2e-08  Score=51.00  Aligned_cols=36  Identities=25%  Similarity=0.262  Sum_probs=31.2

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      .++..++++||++||++|.||+++|..|++.+....
T Consensus       142 ~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~~~  177 (218)
T 4djt_A          142 EVLKGKNYEYFEISAKTAHNFGLPFLHLARIFTGRP  177 (218)
T ss_dssp             HHTTTCCCEEEEEBTTTTBTTTHHHHHHHHHHHCCT
T ss_pred             HHHHHcCCcEEEEecCCCCCHHHHHHHHHHHHhccc
Confidence            456667889999999999999999999999987643

>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=98.40  E-value=1.1e-07  Score=50.72  Aligned_cols=35  Identities=26%  Similarity=0.429  Sum_probs=31.9

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      .+++.+++.|+++||++|.||+++|..|++.++..
T Consensus       142 ~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~l~~~  176 (221)
T 3gj0_A          142 VFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGD  176 (221)
T ss_dssp             CHHHHHTCEEEECBGGGTBTTTHHHHHHHHHHHTC
T ss_pred             HHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhC
Confidence            47788899999999999999999999999999864

>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=98.40  E-value=3.1e-08  Score=52.51  Aligned_cols=25  Identities=28%  Similarity=0.292  Sum_probs=20.9

Q ss_pred             CCCeEEcccCCC------CCHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDA------INVEQAFLTMAGE   33 (66)
Q Consensus         9 ~~~~~etSAkt~------~~v~~~F~~l~~~   33 (66)
                      ++.|+|||||+|      .||+++|..|++.
T Consensus       183 ~~~~~e~SAk~g~~~~~~~gv~~lf~~l~~~  213 (214)
T 2fh5_B          183 KVEFLECSAKGGRGDTGSADIQDLEKWLAKI  213 (214)
T ss_dssp             CEEEEECBCC-------CCBCHHHHHHHHHH
T ss_pred             cEEEEEeeccCCCccccccChHHHHHHHHHh
Confidence            677999999999      9999999999875

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=98.39  E-value=1.2e-07  Score=48.31  Aligned_cols=29  Identities=17%  Similarity=0.219  Sum_probs=25.5

Q ss_pred             hCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            8 LGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         8 ~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      .+++|+++||++|.||+++|..|++.+.+
T Consensus       141 ~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  169 (171)
T 1upt_A          141 RKWQIFKTSATKGTGLDEAMEWLVETLKS  169 (171)
T ss_dssp             SCEEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             CceEEEECcCCCCcCHHHHHHHHHHHHhh
Confidence            35579999999999999999999988753

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=98.38  E-value=2.2e-08  Score=52.71  Aligned_cols=35  Identities=77%  Similarity=1.094  Sum_probs=27.7

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +.+++.++++|+++||++|.||+++|..|++.+.+
T Consensus       162 ~~~~~~~~~~~~~vSA~~g~gv~~l~~~l~~~l~~  196 (199)
T 3l0i_B          162 KEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKK  196 (199)
T ss_dssp             CHHHHTTTCCBCCCCC---HHHHHHHHHHTTTTTT
T ss_pred             HHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            46788889999999999999999999999877643

>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=98.34  E-value=8.4e-08  Score=49.89  Aligned_cols=28  Identities=11%  Similarity=0.021  Sum_probs=23.6

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +++|++|||++|.||+++|..|++.+.+
T Consensus       151 ~~~~~~~Sa~~g~gi~~l~~~l~~~~~~  178 (181)
T 1fzq_A          151 VWQIQSCSALTGEGVQDGMNWVCKNVNA  178 (181)
T ss_dssp             CEEEEECCTTTCTTHHHHHHHHHHTC--
T ss_pred             ceEEEEccCCCCCCHHHHHHHHHHHHHh
Confidence            4569999999999999999999887754

>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=98.29  E-value=1.5e-06  Score=47.88  Aligned_cols=34  Identities=21%  Similarity=0.229  Sum_probs=30.4

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ..+++.++++++++||++|.||+++|..+++.+.
T Consensus       133 ~~l~~~lg~~vi~~SA~~g~gi~el~~~i~~~~~  166 (258)
T 3a1s_A          133 YELQKHLGIPVVFTSSVTGEGLEELKEKIVEYAQ  166 (258)
T ss_dssp             HHHHHHHCSCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCEEEEEeeCCcCHHHHHHHHHHHhh
Confidence            4678889999999999999999999999988653

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=98.29  E-value=6.1e-07  Score=46.51  Aligned_cols=32  Identities=13%  Similarity=0.182  Sum_probs=26.6

Q ss_pred             HHHHhC-CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            4 FADELG-IPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         4 ~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ++...+ ++|+++||++|.||+++|..|++.+.
T Consensus       161 ~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~l~  193 (195)
T 3pqc_A          161 VFSKYGEYTIIPTSSVTGEGISELLDLISTLLK  193 (195)
T ss_dssp             HHHSSCCSCEEECCTTTCTTHHHHHHHHHHHHC
T ss_pred             HHhhcCCCceEEEecCCCCCHHHHHHHHHHHhh
Confidence            444433 78999999999999999999988774

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=98.29  E-value=1.2e-07  Score=49.73  Aligned_cols=27  Identities=11%  Similarity=0.037  Sum_probs=23.8

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      +++|+++||++|.||+++|..|++.+.
T Consensus       164 ~~~~~~~SA~~g~gi~~l~~~l~~~i~  190 (192)
T 2b6h_A          164 TWYVQATCATQGTGLYDGLDWLSHELS  190 (192)
T ss_dssp             CEEEEECBTTTTBTHHHHHHHHHHHTT
T ss_pred             ceEEEECcCCCcCCHHHHHHHHHHHHh
Confidence            346899999999999999999988764

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=98.28  E-value=2.1e-08  Score=57.33  Aligned_cols=34  Identities=18%  Similarity=0.266  Sum_probs=27.9

Q ss_pred             HHHHHH----hCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADE----LGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~----~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      ++||+.    +++.|||||||+ .||+++|..+++.++.
T Consensus       137 ~~la~~~~~~~~i~f~eTSAkd-~nV~eAFs~iv~~li~  174 (331)
T 3r7w_B          137 EELLELGLDGVQVSFYLTSIFD-HSIYEAFSRIVQKLIP  174 (331)
T ss_dssp             HTTSSSSCSCCCEEEECCCSSS-SHHHHHHHHHHTTSST
T ss_pred             HHHHhhcccccCceEEEeccCC-CcHHHHHHHHHHHHHh
Confidence            345664    678999999998 5999999999998754

>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=98.27  E-value=1.6e-06  Score=45.50  Aligned_cols=37  Identities=43%  Similarity=0.627  Sum_probs=32.7

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      ..++...++.|++|||+++.|++++|..|++.+.+..
T Consensus       134 ~~l~~~~~~~~~d~Sal~~~~i~~l~~~l~~~~~~~~  170 (199)
T 2f9l_A          134 RAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIV  170 (199)
T ss_dssp             HHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            4678888899999999999999999999999987654

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=98.27  E-value=4.1e-07  Score=47.27  Aligned_cols=29  Identities=7%  Similarity=0.154  Sum_probs=25.7

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      +++|+++||++|.||+++|..|++.+.+.
T Consensus       157 ~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  185 (189)
T 2x77_A          157 TWTIVKSSSKTGDGLVEGMDWLVERLREQ  185 (189)
T ss_dssp             CEEEEECCTTTCTTHHHHHHHHHHHHHHT
T ss_pred             ceEEEEccCCCccCHHHHHHHHHHHHHhc
Confidence            45799999999999999999999988754

>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=98.23  E-value=1.8e-06  Score=48.00  Aligned_cols=33  Identities=27%  Similarity=0.366  Sum_probs=29.4

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ..+++.++++++++||++|.||+++|..+++.+
T Consensus       130 ~~l~~~lg~~vi~~SA~~g~gi~el~~~i~~~~  162 (272)
T 3b1v_A          130 DKLSYHLGVPVVATSALKQTGVDQVVKKAAHTT  162 (272)
T ss_dssp             HHHHHHHTSCEEECBTTTTBSHHHHHHHHHHSC
T ss_pred             HHHHHHcCCCEEEEEccCCCCHHHHHHHHHHHH
Confidence            467888999999999999999999999987754

>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=98.21  E-value=2.9e-07  Score=51.79  Aligned_cols=35  Identities=11%  Similarity=0.154  Sum_probs=22.2

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      .++++.++++||++||++| ||+++|..+++.+...
T Consensus       181 ~~~~~~~~~~~~e~Sa~~~-~v~e~f~~l~~~i~~~  215 (301)
T 2qnr_A          181 LDEIEEHNIKIYHLPDAES-DEDEDFKEQTRLLKAS  215 (301)
T ss_dssp             HHHHHHTTCCCCCCC----------CHHHHHHHHTT
T ss_pred             HHHHHHcCCeEEecCCccc-cccHHHHHHHHHhhcC
Confidence            4577888999999999999 9999999999998754

>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=98.19  E-value=1.5e-06  Score=45.56  Aligned_cols=33  Identities=55%  Similarity=0.771  Sum_probs=29.5

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ..++.+.++.|++|||+++.|++++|..|++.+
T Consensus       158 ~~l~~~~~~~~ld~Sald~~~v~~l~~~l~~~i  190 (191)
T 1oix_A          158 RAFAEKNGLSFIETSALDSTNVEAAFQTILTEI  190 (191)
T ss_dssp             HHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            467888889999999999999999999998875

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=98.18  E-value=5.7e-07  Score=46.10  Aligned_cols=28  Identities=14%  Similarity=0.057  Sum_probs=25.1

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      ++|+++||++|.||+++|..|++.+...
T Consensus       145 ~~~~~~Sa~~~~gv~~l~~~l~~~~~~~  172 (178)
T 2lkc_A          145 TIFCKLSAKTKEGLDHLLEMILLVSEME  172 (178)
T ss_dssp             EEEEECCSSSSHHHHHHHHHHHHHHHHT
T ss_pred             ccEEEEecCCCCCHHHHHHHHHHhhhhh
Confidence            5799999999999999999999887654

>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=98.18  E-value=5.4e-07  Score=46.65  Aligned_cols=30  Identities=10%  Similarity=-0.007  Sum_probs=26.0

Q ss_pred             hCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            8 LGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         8 ~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      .+++|+++||++|.||+++|..|++.+.+.
T Consensus       152 ~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  181 (186)
T 1ksh_A          152 HHWRIQGCSAVTGEDLLPGIDWLLDDISSR  181 (186)
T ss_dssp             SCEEEEECCTTTCTTHHHHHHHHHHHHHTC
T ss_pred             CceEEEEeeCCCCCCHHHHHHHHHHHHHhc
Confidence            345799999999999999999999988643

>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=98.17  E-value=8.7e-07  Score=46.07  Aligned_cols=34  Identities=15%  Similarity=0.221  Sum_probs=27.9

Q ss_pred             HHHHHhCCC----eEEcccCCCC-CHHHHHHHHHHHHHH
Q 035388            3 AFADELGIP----FLETSAKDAI-NVEQAFLTMAGEIKK   36 (66)
Q Consensus         3 ~~a~~~~~~----~~etSAkt~~-~v~~~F~~l~~~i~~   36 (66)
                      .|++.++++    |+|+||++|. +++++|..|.+.+..
T Consensus       140 ~~~~~~~~~~~~~~~~~Sa~~~~~~~~~l~~~i~~~~~~  178 (184)
T 2zej_A          140 ELLNKRGFPAIRDYHFVNATEESDALAKLRKTIINESLN  178 (184)
T ss_dssp             HTTTCTTSCEEEEEEECCTTSCCHHHHHHHHHHHHHHHC
T ss_pred             HHHHhcCCcchhheEEEecccCchhHHHHHHHHHHHHhc
Confidence            455556776    9999999997 999999999887764

>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=98.16  E-value=1.6e-06  Score=45.14  Aligned_cols=27  Identities=11%  Similarity=0.036  Sum_probs=24.1

Q ss_pred             hCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            8 LGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         8 ~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      .+.+|+++||++|.||+++|..|++.+
T Consensus       167 ~~~~~~~~Sa~~~~gv~~l~~~l~~~l  193 (195)
T 1svi_A          167 PEDELILFSSETKKGKDEAWGAIKKMI  193 (195)
T ss_dssp             TTSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             CCCceEEEEccCCCCHHHHHHHHHHHh
Confidence            356899999999999999999998765

>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=98.15  E-value=2.8e-07  Score=48.01  Aligned_cols=28  Identities=18%  Similarity=0.138  Sum_probs=23.7

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      ++.|+++||++|.||+++|..|++.+.+
T Consensus       158 ~~~~~~~SA~~g~gv~~l~~~l~~~~~~  185 (188)
T 1zd9_A          158 EICCYSISCKEKDNIDITLQWLIQHSKS  185 (188)
T ss_dssp             CEEEEECCTTTCTTHHHHHHHHHHTCC-
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            4568999999999999999999887643

>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=98.15  E-value=1.1e-06  Score=45.35  Aligned_cols=28  Identities=14%  Similarity=0.133  Sum_probs=24.1

Q ss_pred             hCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            8 LGIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         8 ~~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      .+.+|+++||++|.||+++|..|++.+.
T Consensus       138 ~~~~~~~~SA~~g~gv~~l~~~l~~~~~  165 (172)
T 2gj8_A          138 NGHALIRLSARTGEGVDVLRNHLKQSMG  165 (172)
T ss_dssp             TTEEEEECCTTTCTTHHHHHHHHHHHC-
T ss_pred             cCCceEEEeCCCCCCHHHHHHHHHHHhh
Confidence            4567999999999999999999987753

>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=98.13  E-value=2e-06  Score=44.29  Aligned_cols=28  Identities=14%  Similarity=0.164  Sum_probs=25.1

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      .+|+++||++|.||+++|..|++.+.++
T Consensus       154 ~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  181 (183)
T 1moz_A          154 WSIVASSAIKGEGITEGLDWLIDVIKEE  181 (183)
T ss_dssp             EEEEEEBGGGTBTHHHHHHHHHHHHHHH
T ss_pred             eEEEEccCCCCcCHHHHHHHHHHHHHhc
Confidence            4689999999999999999999988754

>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=98.13  E-value=4.2e-07  Score=47.06  Aligned_cols=25  Identities=12%  Similarity=-0.054  Sum_probs=22.1

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      ++.|+++||++|.||+++|..|++.
T Consensus       156 ~~~~~~~Sa~~g~gi~~l~~~l~~~  180 (181)
T 2h17_A          156 QWHIQACCALTGEGLCQGLEWMMSR  180 (181)
T ss_dssp             CEEEEECBTTTTBTHHHHHHHHHTC
T ss_pred             ceEEEEccCCCCcCHHHHHHHHHhh
Confidence            4579999999999999999998754

>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=98.10  E-value=7.4e-07  Score=46.65  Aligned_cols=25  Identities=12%  Similarity=-0.031  Sum_probs=22.0

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      +++|+++||++|.||+++|..|++.
T Consensus       165 ~~~~~~~Sa~~g~gi~~l~~~l~~~  189 (190)
T 1m2o_B          165 PVEVFMCSVVMRNGYLEAFQWLSQY  189 (190)
T ss_dssp             CEEEEECBTTTTBSHHHHHHHHHTT
T ss_pred             eEEEEEeECCcCCCHHHHHHHHHhh
Confidence            4579999999999999999998753

>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=98.10  E-value=2.3e-06  Score=44.40  Aligned_cols=29  Identities=14%  Similarity=-0.024  Sum_probs=25.2

Q ss_pred             hCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            8 LGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         8 ~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      .++.|+++||++|.||+++|..|++.+..
T Consensus       150 ~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~  178 (187)
T 1zj6_A          150 HQWHIQACCALTGEGLCQGLEWMMSRLKI  178 (187)
T ss_dssp             SCEEEEECBTTTTBTHHHHHHHHHHHHCC
T ss_pred             CCcEEEEccCCCCcCHHHHHHHHHHHHHH
Confidence            34579999999999999999999988753

>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=98.09  E-value=8.2e-07  Score=46.78  Aligned_cols=25  Identities=16%  Similarity=0.049  Sum_probs=22.0

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      +..|++|||++|.||+++|..|++.
T Consensus       172 ~~~~~~~SA~~g~gv~~l~~~l~~~  196 (198)
T 1f6b_A          172 PLEVFMCSVLKRQGYGEGFRWMAQY  196 (198)
T ss_dssp             CEEEEECBTTTTBSHHHHHHHHHTT
T ss_pred             eEEEEEEECCCCCCHHHHHHHHHHh
Confidence            3569999999999999999998754

>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=98.07  E-value=1.3e-06  Score=50.23  Aligned_cols=30  Identities=30%  Similarity=0.164  Sum_probs=27.0

Q ss_pred             hCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            8 LGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         8 ~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      .++.|++|||++|.||+++|..+++.|++.
T Consensus       316 ~~~~~~etSA~~~~nV~~vF~~v~~~i~~~  345 (353)
T 1cip_A          316 KEIYTHFTCATDTKNVQFVFDAVTDVIIKN  345 (353)
T ss_dssp             CCEEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             CceEEEEEECcCchhHHHHHHHHHHHHHHH
Confidence            457799999999999999999999999865

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=98.06  E-value=9.1e-06  Score=43.30  Aligned_cols=33  Identities=12%  Similarity=0.102  Sum_probs=27.2

Q ss_pred             HHHHh--CCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            4 FADEL--GIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         4 ~a~~~--~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +++.+  +.+++++||++|.||+++|..|++.+..
T Consensus       190 ~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~  224 (226)
T 2hf9_A          190 DAKRINPDAEVVLLSLKTMEGFDKVLEFIEKSVKE  224 (226)
T ss_dssp             HHHHHCTTSEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHhCCCCeEEEEEecCCCCHHHHHHHHHHHHHh
Confidence            44443  4789999999999999999999887754

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=98.06  E-value=6e-07  Score=50.98  Aligned_cols=27  Identities=7%  Similarity=0.068  Sum_probs=24.1

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      ++|+++||++|.||+++|..|++.+.+
T Consensus       301 ~~~~~vSAk~g~gi~el~~~l~~~l~~  327 (329)
T 3o47_A          301 WYIQATCATSGDGLYEGLDWLSNQLRN  327 (329)
T ss_dssp             EEEEECBTTTTBTHHHHHHHHHHHHTC
T ss_pred             CEEEEEECCCCcCHHHHHHHHHHHHHh
Confidence            458999999999999999999988753

>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=98.05  E-value=4.4e-06  Score=46.95  Aligned_cols=32  Identities=22%  Similarity=0.396  Sum_probs=26.9

Q ss_pred             HHHHHHhC--CCeEEcccCCCCCHHHHHHHHHHH
Q 035388            2 QAFADELG--IPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         2 ~~~a~~~~--~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      +++++.++  +.||+|||++|.||+++|..+...
T Consensus       137 ~~~~~~~~~~~~~~~~SAktg~gv~~lf~~l~ge  170 (301)
T 1u0l_A          137 RELEEIYSGLYPIVKTSAKTGMGIEELKEYLKGK  170 (301)
T ss_dssp             HHHHHHHTTTSCEEECCTTTCTTHHHHHHHHSSS
T ss_pred             HHHHHHHhhhCcEEEEECCCCcCHHHHHHHhcCC
Confidence            35677777  899999999999999999887654

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=98.04  E-value=1.1e-05  Score=46.23  Aligned_cols=35  Identities=14%  Similarity=0.207  Sum_probs=29.7

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      +++...+++++++||++|.||+++|..|.+.+...
T Consensus       303 ~~~~~~~~~~~~iSA~~g~gi~~l~~~i~~~l~~~  337 (357)
T 2e87_A          303 KFVKEKGLNPIKISALKGTGIDLVKEEIIKTLRPL  337 (357)
T ss_dssp             HHHHHTTCCCEECBTTTTBTHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCCCeEEEeCCCCcCHHHHHHHHHHHHHHH
Confidence            35556788999999999999999999999887543

>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=97.99  E-value=3.3e-06  Score=43.91  Aligned_cols=28  Identities=7%  Similarity=0.054  Sum_probs=23.8

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      ++.|+++||++|.||+++|..|++.+.+
T Consensus       160 ~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  187 (190)
T 2h57_A          160 PWHICASDAIKGEGLQEGVDWLQDQIQT  187 (190)
T ss_dssp             CEEEEECBTTTTBTHHHHHHHHHHHC--
T ss_pred             ceEEEEccCCCCcCHHHHHHHHHHHHHH
Confidence            4679999999999999999999887643

>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=97.98  E-value=3e-06  Score=48.82  Aligned_cols=28  Identities=18%  Similarity=0.324  Sum_probs=24.9

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      +.+++|||+++.||+++|..+++.|++.
T Consensus       319 ~~~~eTSA~d~~nV~~vF~~v~~~I~~~  346 (354)
T 2xtz_A          319 FKIYRTTALDQKLVKKTFKLVDETLRRR  346 (354)
T ss_dssp             EEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             eEEEEEEeecchhHHHHHHHHHHHHHHH
Confidence            3468999999999999999999998764

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=97.95  E-value=8.8e-06  Score=44.81  Aligned_cols=32  Identities=13%  Similarity=0.171  Sum_probs=28.4

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      ..+++.++++++++||++|.||+++|..|.+.
T Consensus       133 ~~l~~~lg~~vi~~SA~~g~gi~el~~~i~~~  164 (256)
T 3iby_A          133 EKLESLLGCSVIPIQAHKNIGIPALQQSLLHC  164 (256)
T ss_dssp             HHHHHHHCSCEEECBGGGTBSHHHHHHHHHTC
T ss_pred             HHHHHHcCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            35778889999999999999999999988765

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=97.92  E-value=1.8e-05  Score=43.67  Aligned_cols=35  Identities=29%  Similarity=0.352  Sum_probs=30.8

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      ..+++.+++++++|||++|.||+++|..+++.+..
T Consensus       132 ~~l~~~lg~~~~~~Sa~~g~gi~~l~~~i~~~~~~  166 (271)
T 3k53_A          132 KKMRKELGVPVIPTNAKKGEGVEELKRMIALMAEG  166 (271)
T ss_dssp             HHHHHHHSSCEEECBGGGTBTHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCcEEEEEeCCCCCHHHHHHHHHHHHhc
Confidence            45778889999999999999999999999887653

>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=97.90  E-value=2.6e-06  Score=48.72  Aligned_cols=31  Identities=23%  Similarity=0.108  Sum_probs=27.7

Q ss_pred             HhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            7 ELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         7 ~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      ..++.+++|||+++.||+++|..+++.|++.
T Consensus       289 ~~~i~~~~TsA~d~~nV~~vF~~v~~~Il~~  319 (327)
T 3ohm_A          289 DKIIYSHFTCATDTENIRFVFAAVKDTILQL  319 (327)
T ss_dssp             TSCEEEEECCTTCHHHHHHHHHHHHHHHHHT
T ss_pred             cCCcEEEEEEeecCHHHHHHHHHHHHHHHHH
Confidence            4557789999999999999999999999875

>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO, cell inner membrane, cell ME GTP-binding, ION transport, membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A* 3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*

Probab=97.86  E-value=7.6e-06  Score=45.38  Aligned_cols=34  Identities=18%  Similarity=0.254  Sum_probs=29.2

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ..+++.++++++++||++|.||+++|..|++.+.
T Consensus       135 ~~l~~~lg~~~i~~SA~~g~gi~el~~~i~~~~~  168 (274)
T 3i8s_A          135 DALSARLGCPVIPLVSTRGRGIEALKLAIDRYKA  168 (274)
T ss_dssp             HHHHHHHTSCEEECCCGGGHHHHHHHHHHHTCCC
T ss_pred             HHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            4577888999999999999999999998876543

>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=97.83  E-value=2.3e-05  Score=46.20  Aligned_cols=29  Identities=14%  Similarity=0.085  Sum_probs=25.8

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      +++++++||++|.||+++|..+++.+...
T Consensus       342 ~~~~~~~SA~~g~gv~~l~~~i~~~~~~~  370 (456)
T 4dcu_A          342 YAPILFMSALTKKRIHTLMPAIIKASENH  370 (456)
T ss_dssp             TSCEEECCTTTCTTGGGHHHHHHHHHHHH
T ss_pred             CCCEEEEcCCCCcCHHHHHHHHHHHHHHh
Confidence            47899999999999999999999877554

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=97.81  E-value=2.5e-05  Score=41.39  Aligned_cols=29  Identities=10%  Similarity=0.023  Sum_probs=25.0

Q ss_pred             hCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            8 LGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         8 ~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      .+.+++++||++|.||+++|..|.+.+..
T Consensus       183 ~~~~~~~~SA~~g~gv~~l~~~l~~~~~~  211 (223)
T 4dhe_A          183 GKLTVQLFSALKRTGLDDAHALIESWLRP  211 (223)
T ss_dssp             SCEEEEEEBTTTTBSHHHHHHHHHHHHC-
T ss_pred             CCCeEEEeecCCCcCHHHHHHHHHHhcCc
Confidence            34679999999999999999999988754

>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=97.76  E-value=1.4e-05  Score=46.19  Aligned_cols=31  Identities=16%  Similarity=0.078  Sum_probs=26.9

Q ss_pred             hCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            8 LGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         8 ~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      .++.|++|||+++.||+++|..+++.|++..
T Consensus       325 ~~~~~~~tSA~d~~nV~~vF~~v~~~i~~~~  355 (362)
T 1zcb_A          325 RPLYHHFTTAINTENIRLVFRDVKDTILHDN  355 (362)
T ss_dssp             -CCEEEECCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             CceEEEEEecCCchhHHHHHHHHHHHHHHHH
Confidence            4577899999999999999999999998653

>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=97.75  E-value=1.8e-05  Score=46.40  Aligned_cols=29  Identities=21%  Similarity=0.045  Sum_probs=25.4

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      ++.|++|||+++.||+++|..+++.|++.
T Consensus       358 ~~~~~~TSA~d~~nV~~vF~~v~~~I~~~  386 (402)
T 1azs_C          358 YCYPHFTCAVDTENIRRVFNDCRDIIQRM  386 (402)
T ss_dssp             CEEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             ccEEEEEEeecCcCHHHHHHHHHHHHHHH
Confidence            45678999999999999999999888764

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=97.66  E-value=1.1e-05  Score=48.28  Aligned_cols=34  Identities=15%  Similarity=0.101  Sum_probs=24.0

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +++...+.+++++||++|.||+++|..|++.+..
T Consensus       175 ~~~~~~~~~~~~vSA~~g~gi~eL~~~l~~~~~~  208 (535)
T 3dpu_A          175 ERFPAIENRFHRISCKNGDGVESIAKSLKSAVLH  208 (535)
T ss_dssp             HHCGGGTTCEEECCC-----CTTHHHHHHHHHTC
T ss_pred             HHHHhcCCceEEEecCcccCHHHHHHHHHHHHhc
Confidence            3455667889999999999999999999988754

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=97.65  E-value=6.4e-05  Score=44.11  Aligned_cols=28  Identities=21%  Similarity=0.194  Sum_probs=24.7

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +++++++||++|.||+++|..+++.+..
T Consensus       328 ~~~~~~~SA~~g~gv~~l~~~i~~~~~~  355 (439)
T 1mky_A          328 YSPLIFTSADKGWNIDRMIDAMNLAYAS  355 (439)
T ss_dssp             TSCEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            4789999999999999999999876654

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=97.65  E-value=3.5e-05  Score=45.17  Aligned_cols=30  Identities=13%  Similarity=0.038  Sum_probs=26.0

Q ss_pred             hCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            8 LGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         8 ~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      .+++++++||++|.||+++|..+++.+...
T Consensus       321 ~~~~~~~~SA~tg~~v~~l~~~i~~~~~~~  350 (436)
T 2hjg_A          321 DYAPILFMSALTKKRIHTLMPAIIKASENH  350 (436)
T ss_dssp             TTSCEEECCTTTCTTGGGHHHHHHHHHHHH
T ss_pred             CCCCEEEEecccCCCHHHHHHHHHHHHHHh
Confidence            357899999999999999999998877643

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=97.63  E-value=5.7e-06  Score=48.67  Aligned_cols=34  Identities=12%  Similarity=0.046  Sum_probs=29.1

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      ++++.++++++++||++|.||+++|..|++.+.+
T Consensus       163 ~l~~~~g~~v~~vSAktg~gI~eL~~~L~~~l~~  196 (423)
T 3qq5_A          163 LYESRYEAKVLLVSALQKKGFDDIGKTISEILPG  196 (423)
T ss_dssp             HSSCCTTCCCCCCSSCCTTSTTTHHHHHHHHSCC
T ss_pred             HHHHHcCCCEEEEECCCCCCHHHHHHHHHHhhhh
Confidence            4455678899999999999999999999988753

>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=97.61  E-value=5.6e-05  Score=42.53  Aligned_cols=30  Identities=20%  Similarity=0.307  Sum_probs=25.0

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      ++++.++++++++||++|.||+++|..+..
T Consensus       136 ~~~~~~g~~~~~~SA~~g~gi~~L~~~l~G  165 (302)
T 2yv5_A          136 SIYRDAGYDVLKVSAKTGEGIDELVDYLEG  165 (302)
T ss_dssp             HHHHHTTCEEEECCTTTCTTHHHHHHHTTT
T ss_pred             HHHHHCCCeEEEEECCCCCCHHHHHhhccC
Confidence            345567889999999999999999987654

>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=97.57  E-value=9.8e-05  Score=41.57  Aligned_cols=33  Identities=12%  Similarity=0.110  Sum_probs=27.6

Q ss_pred             HHHHHhC--CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            3 AFADELG--IPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         3 ~~a~~~~--~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      .+++.++  ..++++||++|.||+++|..|++.+.
T Consensus       147 ~l~~~~~~~~~i~~vSA~~g~gv~~L~~~l~~~l~  181 (308)
T 3iev_A          147 EIHKKHPELTEIVPISALKGANLDELVKTILKYLP  181 (308)
T ss_dssp             HHHHHCTTCCCEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             HHHHhccCCCeEEEEeCCCCCCHHHHHHHHHHhCc
Confidence            4555654  77999999999999999999988774

>1lnz_A SPO0B-associated GTP-binding protein; GTPase, OBG, stringent factor, stress response, sporulation, large G-protein, structural genomics, PSI; HET: G4P; 2.60A {Bacillus subtilis} SCOP: b.117.1.1 c.37.1.8

Probab=97.56  E-value=7.5e-05  Score=42.85  Aligned_cols=34  Identities=21%  Similarity=0.405  Sum_probs=28.5

Q ss_pred             HHHHHhC--CCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            3 AFADELG--IPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         3 ~~a~~~~--~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      ++++.+.  .+++++||+++.||+++|..|++.+.+
T Consensus       295 ~l~~~l~~~~~v~~iSA~tg~gi~eL~~~l~~~l~~  330 (342)
T 1lnz_A          295 AFKEKLTDDYPVFPISAVTREGLRELLFEVANQLEN  330 (342)
T ss_dssp             HHHHHCCSCCCBCCCSSCCSSTTHHHHHHHHHHHTS
T ss_pred             HHHHHhhcCCCEEEEECCCCcCHHHHHHHHHHHHhh
Confidence            4556665  689999999999999999999988753

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=97.47  E-value=0.00024  Score=37.65  Aligned_cols=28  Identities=14%  Similarity=0.125  Sum_probs=24.3

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +.+++++||++|.||+++|..|.+.+..
T Consensus       187 ~~~i~~~Sa~~g~gi~~l~~~l~~~~~~  214 (221)
T 2wsm_A          187 RAKIIEMDLKTGKGFEEWIDFLRGILNV  214 (221)
T ss_dssp             TSEEEECBTTTTBTHHHHHHHHHHHHC-
T ss_pred             CCeEEEeecCCCCCHHHHHHHHHHHHHH
Confidence            3679999999999999999999887754

>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=97.44  E-value=0.0002  Score=42.72  Aligned_cols=32  Identities=22%  Similarity=0.237  Sum_probs=26.5

Q ss_pred             HHHHhCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            4 FADELGIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         4 ~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      +++....+++++|||+|.||+++|..|++.+.
T Consensus       366 l~~~~~~~~i~vSAktg~GI~eL~~~i~~~~~  397 (476)
T 3gee_A          366 IADGTGTEVIGISALNGDGIDTLKQHMGDLVK  397 (476)
T ss_dssp             HHHHHTSCEEECBTTTTBSHHHHHHHHTHHHH
T ss_pred             HHhcCCCceEEEEECCCCCHHHHHHHHHHHHh
Confidence            34432468999999999999999999998875

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=97.36  E-value=8.3e-05  Score=41.82  Aligned_cols=32  Identities=19%  Similarity=0.207  Sum_probs=27.4

Q ss_pred             HHHHHHhC---CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            2 QAFADELG---IPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         2 ~~~a~~~~---~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      .++++.+|   ++|++|||++ .+|.++|..+++.+
T Consensus       145 ~~~~~~~g~~~~~~~~tSa~~-~~i~e~~~~iv~~l  179 (307)
T 3r7w_A          145 SETSSEFGFPNLIGFPTSIWD-ESLYKAWSQIVCSL  179 (307)
T ss_dssp             HHHHHTTTCCSCEEEECCTTS-SHHHHHHHHHHHTT
T ss_pred             HHHHHHcCCCCeEEEEeeecC-ChHHHHHHHHHHHH
Confidence            46778887   6899999999 89999999988764

>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=97.29  E-value=0.00049  Score=37.33  Aligned_cols=31  Identities=19%  Similarity=-0.023  Sum_probs=25.5

Q ss_pred             HHHhC--CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            5 ADELG--IPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         5 a~~~~--~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ++.++  .+++++||++|.||+++|..|.+.+.
T Consensus       224 ~~~~~~~~~~~~~SA~~~~gi~~l~~~i~~~~~  256 (262)
T 1yrb_A          224 MTEVLPPVRVLYLSAKTREGFEDLETLAYEHYC  256 (262)
T ss_dssp             HHHHSCCCCCEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHhcCcccceEEEecCcccHHHHHHHHHHHhc
Confidence            34544  47999999999999999999987764

>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=97.23  E-value=8.1e-05  Score=42.81  Aligned_cols=28  Identities=25%  Similarity=0.288  Sum_probs=26.1

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      .+.+++|||+++.||+.+|..+++.|++
T Consensus       301 ~iy~h~TsA~dt~nv~~vF~~v~~~Il~  328 (340)
T 4fid_A          301 KVYTNPTNATDGSNIKRVFMLAVDVIMK  328 (340)
T ss_dssp             EEEEEEECTTCHHHHHHHHHHHHHHHHH
T ss_pred             ceEEEEEEeeCcHHHHHHHHHHHHHHHH
Confidence            4778999999999999999999999987

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=97.20  E-value=0.00056  Score=40.17  Aligned_cols=31  Identities=26%  Similarity=0.423  Sum_probs=26.6

Q ss_pred             HhCC-CeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            7 ELGI-PFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         7 ~~~~-~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      .+++ .++++||++|.||+++|..+++.+.+.
T Consensus       136 ~lg~~~~~~iSA~~g~gv~~L~~~i~~~l~~~  167 (439)
T 1mky_A          136 SLGFGEPIPVSAEHNINLDTMLETIIKKLEEK  167 (439)
T ss_dssp             GGSSCSCEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             hcCCCCEEEEeccCCCCHHHHHHHHHHhcccc
Confidence            3465 689999999999999999999988753

>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=97.18  E-value=0.00027  Score=42.28  Aligned_cols=28  Identities=14%  Similarity=0.089  Sum_probs=25.0

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +.+++++||++|.||+++|..|.+.+..
T Consensus       378 ~~~~i~iSAktg~Gi~eL~~~l~~~~~~  405 (482)
T 1xzp_A          378 DRHMVKISALKGEGLEKLEESIYRETQE  405 (482)
T ss_dssp             STTEEEEEGGGTCCHHHHHHHHHHHTHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            3689999999999999999999987664

>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=97.11  E-value=0.00086  Score=39.50  Aligned_cols=33  Identities=12%  Similarity=0.124  Sum_probs=28.2

Q ss_pred             HHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            5 ADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         5 a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      .+..+..++.+||+++.||+++|..|++.+...
T Consensus       294 l~~~g~~vi~iSA~~g~gi~eL~~~i~~~l~~~  326 (416)
T 1udx_A          294 LAREGLAVLPVSALTGAGLPALKEALHALVRST  326 (416)
T ss_dssp             HHTTTSCEEECCTTTCTTHHHHHHHHHHHHHTS
T ss_pred             HHhcCCeEEEEECCCccCHHHHHHHHHHHHHhc
Confidence            344567899999999999999999999988754

>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=97.10  E-value=0.00061  Score=40.56  Aligned_cols=28  Identities=7%  Similarity=0.064  Sum_probs=24.8

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +.+++++||++|.||+++|..|.+.+..
T Consensus       357 ~~~~i~iSAktg~Gi~eL~~~i~~~~~~  384 (462)
T 3geh_A          357 ITQIVHTAAAQKQGIDSLETAILEIVQT  384 (462)
T ss_dssp             CCCEEEEBTTTTBSHHHHHHHHHHHHTT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhc
Confidence            4679999999999999999999988754

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=97.08  E-value=0.001  Score=38.48  Aligned_cols=29  Identities=17%  Similarity=0.156  Sum_probs=24.5

Q ss_pred             HHHhCC---CeEEcccCCCCCHHHHHHHHHHH
Q 035388            5 ADELGI---PFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         5 a~~~~~---~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      ++..++   .++++||++|.||+++|..+.+.
T Consensus       126 ~~~~g~~~~~v~~iSA~~g~gi~~L~~~l~~~  157 (368)
T 3h2y_A          126 AKQLGLKPEDVFLISAAKGQGIAELADAIEYY  157 (368)
T ss_dssp             HHHTTCCCSEEEECCTTTCTTHHHHHHHHHHH
T ss_pred             HHHcCCCcccEEEEeCCCCcCHHHHHhhhhhh
Confidence            556676   68999999999999999988654

>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=97.06  E-value=0.001  Score=39.68  Aligned_cols=27  Identities=15%  Similarity=0.181  Sum_probs=24.5

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      +.+++++||++|.||+++|..|.+.+.
T Consensus       162 ~~~ii~vSA~~g~gI~~L~~~L~~~i~  188 (482)
T 1wb1_A          162 NSSIIPISAKTGFGVDELKNLIITTLN  188 (482)
T ss_dssp             GCCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             cceEEEEECcCCCCHHHHHHHHHHhhc
Confidence            578999999999999999999988775

>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=96.96  E-value=0.0007  Score=39.37  Aligned_cols=27  Identities=26%  Similarity=0.406  Sum_probs=23.8

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      +++++++||++|.||+++|..|.+.+.
T Consensus       165 ~~~ii~vSA~~g~gi~~L~~~l~~~l~  191 (403)
T 3sjy_A          165 NVPIIPVSALHKINIDSLIEGIEEYIK  191 (403)
T ss_dssp             TCCEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             CCEEEEEECCCCcChHHHHHHHHHhCC
Confidence            568999999999999999999887653

>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=96.95  E-value=0.00067  Score=39.49  Aligned_cols=27  Identities=19%  Similarity=0.298  Sum_probs=17.8

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      +++++++||++|.||+++|..|.+.+.
T Consensus       171 ~~~~i~vSA~~g~gi~~L~~~l~~~i~  197 (408)
T 1s0u_A          171 NAPIIPISAHHEANIDVLLKAIQDFIP  197 (408)
T ss_dssp             TCCEEEC------CHHHHHHHHHHHSC
T ss_pred             CCeEEEeeCCCCCCHHHHHHHHHHhCC
Confidence            578999999999999999999887653

>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=96.92  E-value=0.001  Score=38.07  Aligned_cols=28  Identities=18%  Similarity=0.172  Sum_probs=24.7

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +.+++.+||++|.||+++|..|.+.+..
T Consensus       257 ~~~vi~iSA~~g~Gi~~L~~~i~~~~~~  284 (355)
T 3p32_A          257 RPPVLTMSAVEGRGLAELWDTVERHRQV  284 (355)
T ss_dssp             CCCEEEEBGGGTBSHHHHHHHHHHHHHH
T ss_pred             CCceEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            5789999999999999999999887654

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=96.92  E-value=0.00013  Score=41.98  Aligned_cols=35  Identities=11%  Similarity=0.162  Sum_probs=20.1

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      ++++.++++||++||++|.+ ++.|..+++.+....
T Consensus       201 ~~~~~~~i~~~~~Sa~~~~~-~e~~~~l~~~i~~~i  235 (361)
T 2qag_A          201 DEIEEHNIKIYHLPDAESDE-DEDFKEQTRLLKASI  235 (361)
T ss_dssp             HHTTCC-CCSCCCC----------CHHHHHHHHHTC
T ss_pred             HHHHHCCCCEEeCCCcCCCc-chhHHHHHHHHHhcC
Confidence            34556788999999999999 999999999987654

>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=96.84  E-value=0.0013  Score=38.34  Aligned_cols=27  Identities=19%  Similarity=0.250  Sum_probs=23.7

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      +++++++||++|.||+++|..|.+.+.
T Consensus       173 ~~~~i~vSA~~g~gi~~L~~~l~~~~~  199 (410)
T 1kk1_A          173 NAPIIPISALHGANIDVLVKAIEDFIP  199 (410)
T ss_dssp             TCCEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             CCeEEEeeCCCCCCHHHHHHHHHHhCC
Confidence            578999999999999999998887653

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=96.68  E-value=0.0022  Score=39.40  Aligned_cols=33  Identities=24%  Similarity=0.395  Sum_probs=26.9

Q ss_pred             HHHHHhCC---CeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            3 AFADELGI---PFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         3 ~~a~~~~~---~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ++.+.+++   .++++||++|.||+++|..|++.+.
T Consensus       146 ei~~~lg~~~~~vi~vSAktg~GI~~Ll~~I~~~lp  181 (599)
T 3cb4_D          146 EIEDIVGIDATDAVRCSAKTGVGVQDVLERLVRDIP  181 (599)
T ss_dssp             HHHHHTCCCCTTCEEECTTTCTTHHHHHHHHHHHSC
T ss_pred             HHHHHhCCCcceEEEeecccCCCchhHHHHHhhcCC
Confidence            45556665   3999999999999999999887764

>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=96.62  E-value=0.00032  Score=41.32  Aligned_cols=32  Identities=13%  Similarity=0.087  Sum_probs=12.4

Q ss_pred             HHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            3 AFADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      +++..+++++|++||+++.+++++|..+...+
T Consensus       194 ~~~~~~~i~~~~~sa~~~~~v~~~~~~l~~~i  225 (418)
T 2qag_C          194 KEIQEHKIKIYEFPETDDEEENKLVKKIKDRL  225 (418)
T ss_dssp             HHHHHHTCCCCCCC-----------------C
T ss_pred             HHHHHcCCeEEeCCCCCCcCHHHHHHHHHhhC
Confidence            46677899999999999999999998887765

>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=96.58  E-value=0.0024  Score=39.27  Aligned_cols=33  Identities=24%  Similarity=0.429  Sum_probs=26.4

Q ss_pred             HHHHHhCC---CeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            3 AFADELGI---PFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         3 ~~a~~~~~---~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ++++.+++   .++++||++|.||+++|..|++.+.
T Consensus       148 el~~~lg~~~~~vi~vSAktg~GI~~Lle~I~~~lp  183 (600)
T 2ywe_A          148 QIEEVLGLDPEEAILASAKEGIGIEEILEAIVNRIP  183 (600)
T ss_dssp             HHHHTSCCCGGGCEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             HHHHhhCCCcccEEEEEeecCCCchHHHHHHHHhcc
Confidence            34455565   3899999999999999999887764

>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=96.56  E-value=0.0031  Score=36.47  Aligned_cols=28  Identities=14%  Similarity=-0.016  Sum_probs=24.2

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      ..++.+||++|.|++++|..|.+.+...
T Consensus       328 ~~~~~~SA~~g~gi~~L~~~I~~~l~~~  355 (364)
T 2qtf_A          328 FDVIPISALKRTNLELLRDKIYQLATQL  355 (364)
T ss_dssp             EEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCcCHHHHHHHHHHHhccc
Confidence            3689999999999999999998877653

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=96.54  E-value=0.00092  Score=40.56  Aligned_cols=25  Identities=12%  Similarity=-0.049  Sum_probs=22.4

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ++|+++||++|.||+++|..|...+
T Consensus       142 ~~iv~vSAktG~GI~eLle~I~~l~  166 (537)
T 3izy_P          142 VQAVHVSALTGENMMALAEATIALA  166 (537)
T ss_dssp             EEECCCCSSSSCSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCchhHHHHHHHhh
Confidence            4689999999999999999988765

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=96.35  E-value=0.0028  Score=37.22  Aligned_cols=28  Identities=18%  Similarity=0.242  Sum_probs=24.4

Q ss_pred             hCC-CeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            8 LGI-PFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         8 ~~~-~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      .++ .++++||++|.||+++|..+++.+.
T Consensus       136 lg~~~~~~iSA~~g~gv~~L~~~i~~~l~  164 (436)
T 2hjg_A          136 LGFGEPYPISGTHGLGLGDLLDAVAEHFK  164 (436)
T ss_dssp             GSSCCCEECBTTTTBTHHHHHHHHHHTGG
T ss_pred             cCCCCeEEEeCcCCCChHHHHHHHHHhcC
Confidence            454 6899999999999999999988775

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=96.35  E-value=0.0063  Score=35.17  Aligned_cols=29  Identities=24%  Similarity=0.322  Sum_probs=23.8

Q ss_pred             HHHhCC---CeEEcccCCCCCHHHHHHHHHHH
Q 035388            5 ADELGI---PFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         5 a~~~~~---~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      ++..++   .++.+||++|.||++++..+.+.
T Consensus       128 ~~~~g~~~~~v~~iSA~~g~gi~~L~~~I~~~  159 (369)
T 3ec1_A          128 AEELGLCPVDVCLVSAAKGIGMAKVMEAINRY  159 (369)
T ss_dssp             HHTTTCCCSEEEECBTTTTBTHHHHHHHHHHH
T ss_pred             HHHcCCCcccEEEEECCCCCCHHHHHHHHHhh
Confidence            455666   58999999999999999888654

>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=96.28  E-value=0.0048  Score=32.22  Aligned_cols=25  Identities=8%  Similarity=-0.031  Sum_probs=21.9

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      +.++.|||+++.|++++|..|.+.+
T Consensus       173 ~~~~~~Sal~~~~~~~l~~~l~~~~  197 (210)
T 1pui_A          173 VQVETFSSLKKQGVDKLRQKLDTWF  197 (210)
T ss_dssp             EEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             CceEEEeecCCCCHHHHHHHHHHHH
Confidence            4578999999999999999887765

>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=96.21  E-value=0.0044  Score=34.79  Aligned_cols=31  Identities=16%  Similarity=0.313  Sum_probs=25.0

Q ss_pred             HHHHhCC-CeEEcccCCCCCHHHHHHHHHHHH
Q 035388            4 FADELGI-PFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         4 ~a~~~~~-~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      +++.++. .++.+||++|.||+++|..+.+.+
T Consensus       142 l~~~~~~~~~i~iSA~~g~~v~~l~~~i~~~l  173 (301)
T 1ega_A          142 LASQMNFLDIVPISAETGLNVDTIAAIVRKHL  173 (301)
T ss_dssp             HHTTSCCSEEEECCTTTTTTHHHHHHHHHTTC
T ss_pred             HHHhcCcCceEEEECCCCCCHHHHHHHHHHhC
Confidence            4445565 589999999999999999887654

>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=96.09  E-value=0.0013  Score=35.76  Aligned_cols=34  Identities=12%  Similarity=0.137  Sum_probs=26.8

Q ss_pred             HHHHhCCC---e--EEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            4 FADELGIP---F--LETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         4 ~a~~~~~~---~--~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      +++.++..   |  +++||++|.||+++|..|.+.+...
T Consensus       171 ~~~~~~~~~~~~~~~~~SA~~~~gv~~l~~~i~~~~~~~  209 (260)
T 2xtp_A          171 LVAACGGRICAFNNRAEGSNQDDQVKELMDCIEDLLMEK  209 (260)
T ss_dssp             HHHHTTTCEEECCTTCCHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHhCCeEEEecCcccccccHHHHHHHHHHHHHHHHhC
Confidence            45555533   3  7999999999999999999888653

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=95.98  E-value=0.0029  Score=38.26  Aligned_cols=26  Identities=19%  Similarity=0.198  Sum_probs=23.2

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      .++|.+||++|.||+++|..+++.+.
T Consensus       251 ~PV~~gSA~~~~GV~~Lld~i~~~~p  276 (528)
T 3tr5_A          251 TPIFFGSAINNFGVGELLDAFVKEAP  276 (528)
T ss_dssp             EEEEECBGGGTBSHHHHHHHHHHHSC
T ss_pred             eEEEeccccCCccHHHHHHHHHHhCC
Confidence            57899999999999999999988764

>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=95.90  E-value=0.0014  Score=39.52  Aligned_cols=23  Identities=17%  Similarity=0.245  Sum_probs=20.9

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      ++|+++||++|.||+++|..|+.
T Consensus       141 ~~~v~vSAktG~gI~eLle~I~~  163 (501)
T 1zo1_I          141 SQFVHVSAKAGTGIDELLDAILL  163 (501)
T ss_dssp             CEEEECCTTTCTTCTTHHHHTTT
T ss_pred             ccEEEEeeeeccCcchhhhhhhh
Confidence            67999999999999999998864

>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=95.90  E-value=0.0053  Score=38.01  Aligned_cols=26  Identities=15%  Similarity=0.148  Sum_probs=23.8

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      +++|++||++|.||+++|..|++.+.
T Consensus       248 ~pv~~~SA~~~~Gv~~Ll~~i~~~lp  273 (665)
T 2dy1_A          248 YPVALASGEREIGVLPLLELILEALP  273 (665)
T ss_dssp             EEEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             eEEEEeecccCcCHHHHHHHHHHhCC
Confidence            57999999999999999999998774

>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=95.88  E-value=0.0021  Score=36.14  Aligned_cols=26  Identities=15%  Similarity=-0.055  Sum_probs=22.5

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ..++++||++|.||+++|..|++.+.
T Consensus       147 ~~~~~iSA~~g~gv~~l~~~l~~~l~  172 (301)
T 1wf3_A          147 AEPRMLSALDERQVAELKADLLALMP  172 (301)
T ss_dssp             SEEEECCTTCHHHHHHHHHHHHTTCC
T ss_pred             CcEEEEeCCCCCCHHHHHHHHHHhcc
Confidence            45899999999999999999887653

>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=95.79  E-value=0.0096  Score=33.97  Aligned_cols=27  Identities=11%  Similarity=0.085  Sum_probs=23.3

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ..+++.+||++|.||++++..|.+.+.
T Consensus       234 ~~~vi~iSA~~g~gi~~L~~~l~~~~~  260 (341)
T 2p67_A          234 QPRVLTCSALEKRGIDEIWHAIIDFKT  260 (341)
T ss_dssp             CCEEEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             CCcEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            345889999999999999999988764

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=95.63  E-value=0.015  Score=33.73  Aligned_cols=26  Identities=8%  Similarity=0.001  Sum_probs=23.4

Q ss_pred             CCeEE--cccCC---CCCHHHHHHHHHHHHH
Q 035388           10 IPFLE--TSAKD---AINVEQAFLTMAGEIK   35 (66)
Q Consensus        10 ~~~~e--tSAkt---~~~v~~~F~~l~~~i~   35 (66)
                      +++++  +||++   |.||+++|..|.+.+.
T Consensus       149 ~~ii~~~~SA~~~~~g~gi~~L~~~l~~~~~  179 (370)
T 2elf_A          149 WECISLNTNKSAKNPFEGVDELKARINEVAE  179 (370)
T ss_dssp             CEEEECCCCTTSSSTTTTHHHHHHHHHHHHH
T ss_pred             eEEEecccccccCcCCCCHHHHHHHHHhhcc
Confidence            57999  99999   9999999999988764

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=95.60  E-value=0.0016  Score=35.89  Aligned_cols=24  Identities=21%  Similarity=0.147  Sum_probs=21.3

Q ss_pred             CeEEcccCCCCCHHHHHHHHHHHH
Q 035388           11 PFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus        11 ~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      +++++||++|.||+++|..|++..
T Consensus       228 ~v~~~SA~~~~gi~~l~~~l~~~~  251 (299)
T 2aka_B          228 GVVNRSQKDIDGKKDITAALAAER  251 (299)
T ss_dssp             ECCCCCCBCTTSCBCHHHHHHHHH
T ss_pred             EEECCChhhccccccHHHHHHHHH
Confidence            578999999999999999998754

>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=95.51  E-value=0.013  Score=35.98  Aligned_cols=27  Identities=11%  Similarity=0.226  Sum_probs=23.6

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      .+++.+||++|.||++++..|...+..
T Consensus       192 vpvv~vSA~tG~GI~eLl~~I~~~~~~  218 (594)
T 1g7s_A          192 VSIIPISAITGEGIPELLTMLMGLAQQ  218 (594)
T ss_dssp             EEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             ceEEEEeccCCCCchhHHHHHHhhccc
Confidence            379999999999999999999877653

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=95.50  E-value=0.017  Score=33.18  Aligned_cols=26  Identities=12%  Similarity=0.087  Sum_probs=22.3

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ..+++.+||++|.|+++++..|.+.+
T Consensus       252 ~~~vi~iSA~~g~Gi~~L~~~I~~~~  277 (349)
T 2www_A          252 KPKVIRISARSGEGISEMWDKMKDFQ  277 (349)
T ss_dssp             CCEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             CceEEEEecCCCCCHHHHHHHHHHHH
Confidence            34678999999999999999887765

>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=95.31  E-value=0.0073  Score=35.09  Aligned_cols=31  Identities=26%  Similarity=0.342  Sum_probs=23.6

Q ss_pred             HHHHhC-----CCeEEcccCCCCC----------HHHHHHHHHHHH
Q 035388            4 FADELG-----IPFLETSAKDAIN----------VEQAFLTMAGEI   34 (66)
Q Consensus         4 ~a~~~~-----~~~~etSAkt~~~----------v~~~F~~l~~~i   34 (66)
                      +++.++     ++|+++||++|.|          |+++|..|.+.+
T Consensus       148 ~l~~~~~~~~~~~~i~~SA~~g~n~~~~~~~~g~i~~Ll~~l~~~~  193 (397)
T 1d2e_A          148 LLTEFGYKGEETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTYI  193 (397)
T ss_dssp             HHHHTTSCTTTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHHHS
T ss_pred             HHHHcCCCcccCcEEEeehhhcccccCCCccCCcHHHHHHHHHHhC
Confidence            455555     5899999999876          888888776655

>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=95.29  E-value=0.0019  Score=37.94  Aligned_cols=27  Identities=26%  Similarity=0.300  Sum_probs=21.1

Q ss_pred             HHHHHhC-----CCeEEcccCCCCCHHHHHHH
Q 035388            3 AFADELG-----IPFLETSAKDAINVEQAFLT   29 (66)
Q Consensus         3 ~~a~~~~-----~~~~etSAkt~~~v~~~F~~   29 (66)
                      ++++.++     ++++++||++|.||+++|..
T Consensus       186 ~~~~~~g~~~~~~~~i~vSA~~g~gi~~~~~~  217 (434)
T 1zun_B          186 KFAEGIAFKPTTMAFVPMSALKGDNVVNKSER  217 (434)
T ss_dssp             HHHHTTTCCCSEEEEEECCTTTCTTTSSCCTT
T ss_pred             HHHHHhCCCccCceEEEEeccCCCCccccccc
Confidence            3455566     67999999999999987654

>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=94.98  E-value=0.03  Score=31.26  Aligned_cols=29  Identities=14%  Similarity=0.155  Sum_probs=24.4

Q ss_pred             HhCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            7 ELGIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         7 ~~~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ..+++++.+||+++.|+++++..+.+.+.
T Consensus        77 ~~g~~~i~iSA~~~~gi~~L~~~i~~~l~  105 (282)
T 1puj_A           77 NQGIRSLSINSVNGQGLNQIVPASKEILQ  105 (282)
T ss_dssp             TTTCCEEECCTTTCTTGGGHHHHHHHHHH
T ss_pred             hcCCcEEEEECCCcccHHHHHHHHHHHHH
Confidence            44678999999999999999988776654

>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=94.77  E-value=0.0042  Score=36.51  Aligned_cols=26  Identities=19%  Similarity=0.295  Sum_probs=20.1

Q ss_pred             HHHHHhC-----CCeEEcccCCCCCHHHHHH
Q 035388            3 AFADELG-----IPFLETSAKDAINVEQAFL   28 (66)
Q Consensus         3 ~~a~~~~-----~~~~etSAkt~~~v~~~F~   28 (66)
                      ++++.++     ++|+++||++|.||.++|.
T Consensus       175 ~~~~~~~~~~~~~~~i~iSA~~g~~v~e~~~  205 (435)
T 1jny_A          175 KFMRSYGFNTNKVRFVPVVAPSGDNITHKSE  205 (435)
T ss_dssp             HHHHHTTCCCTTCEEEECBTTTTBTTTBCCS
T ss_pred             HHHHHcCCCcCCceEEEeecccCcccccccc
Confidence            3445554     5799999999999987765

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=94.62  E-value=0.0073  Score=33.28  Aligned_cols=30  Identities=13%  Similarity=0.140  Sum_probs=14.2

Q ss_pred             HHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            5 ADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         5 a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ...+++.++++||+++.++++++..|.+.+
T Consensus       173 l~~~~i~v~~~sa~~~~~~~~l~~~l~~~~  202 (274)
T 3t5d_A          173 IQEHKIKIYEFPETDDEEENKLVKKIKDRL  202 (274)
T ss_dssp             HHHTTCCCCCC-----------CHHHHHTC
T ss_pred             HHHcCCeEEcCCCCCChhHHHHHHHHhcCC
Confidence            345678999999999999999998887654

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=94.27  E-value=0.027  Score=33.26  Aligned_cols=19  Identities=21%  Similarity=0.239  Sum_probs=16.8

Q ss_pred             CCeEEcccCCCCCHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFL   28 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~   28 (66)
                      ++|+++||++|.||++++.
T Consensus       199 ~~~i~iSA~~G~ni~~l~~  217 (439)
T 3j2k_7          199 IHFMPCSGLTGANLKEQSD  217 (439)
T ss_pred             eeEEEeeccCCcccccccc
Confidence            4699999999999999765

>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=94.00  E-value=0.016  Score=33.68  Aligned_cols=13  Identities=31%  Similarity=0.450  Sum_probs=12.0

Q ss_pred             CCeEEcccCCCCC
Q 035388           10 IPFLETSAKDAIN   22 (66)
Q Consensus        10 ~~~~etSAkt~~~   22 (66)
                      .+++++||++|.|
T Consensus       168 ~~~i~~SA~~g~~  180 (405)
T 2c78_A          168 VPVIRGSALLALE  180 (405)
T ss_dssp             SCEEECCHHHHHH
T ss_pred             CCEEEccHHHhhh
Confidence            6799999999988

>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=93.86  E-value=0.036  Score=32.74  Aligned_cols=25  Identities=12%  Similarity=0.117  Sum_probs=21.8

Q ss_pred             CeEEcccCCCCCHHHHHHHHHHHHH
Q 035388           11 PFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus        11 ~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ..+++||++|.||+++|..+.+.+.
T Consensus       160 ~~~~iSA~~g~gv~~L~~~i~~~l~  184 (456)
T 4dcu_A          160 EPYPISGTHGLGLGDLLDAVAEHFK  184 (456)
T ss_dssp             SEEECCTTTCTTHHHHHHHHHTTGG
T ss_pred             ceEEeecccccchHHHHHHHHhhcc
Confidence            4689999999999999999987654

>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=93.08  E-value=0.008  Score=35.72  Aligned_cols=18  Identities=22%  Similarity=0.368  Sum_probs=16.3

Q ss_pred             CCeEEcccCCCCCHHHHH
Q 035388           10 IPFLETSAKDAINVEQAF   27 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F   27 (66)
                      ++|+++||++|.||+++|
T Consensus       226 ~~~i~vSA~~g~~i~~l~  243 (467)
T 1r5b_A          226 VKYMPVSAYTGQNVKDRV  243 (467)
T ss_dssp             EEEEECBTTTTBTTSSCC
T ss_pred             ceEEeccccccccccccc
Confidence            569999999999999877

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=92.84  E-value=0.16  Score=29.04  Aligned_cols=26  Identities=8%  Similarity=0.134  Sum_probs=21.8

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ..+++.+||+++.|+++++..|.+..
T Consensus       234 ~~~vl~~Sal~g~gi~~L~~~I~~~~  259 (337)
T 2qm8_A          234 TPPVVTISGLHGKGLDSLWSRIEDHR  259 (337)
T ss_dssp             CCCEEEEBTTTTBSHHHHHHHHHHHH
T ss_pred             CCCEEEEeCCCCCCHHHHHHHHHHHH
Confidence            34678899999999999998887654

>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=92.71  E-value=0.077  Score=35.56  Aligned_cols=25  Identities=20%  Similarity=0.143  Sum_probs=20.1

Q ss_pred             CCeEEcccCCC--------CCHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDA--------INVEQAFLTMAGEI   34 (66)
Q Consensus        10 ~~~~etSAkt~--------~~v~~~F~~l~~~i   34 (66)
                      ++++++||++|        .||+++|..|.+.+
T Consensus       452 vp~IpvSAktG~ng~~~w~eGI~eLleaL~~~I  484 (1289)
T 3avx_A          452 TPIVRGSALKALEGDAEWEAKILELAGFLDSYI  484 (1289)
T ss_dssp             CCEEECCSTTTTTCCHHHHHHHHHHHHHHHHTS
T ss_pred             eeEEEEEeccCCCCCccccccchhhHhHHhhhc
Confidence            68999999999        46888888776644

>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=92.30  E-value=0.057  Score=32.06  Aligned_cols=24  Identities=29%  Similarity=0.520  Sum_probs=18.6

Q ss_pred             HHHHhC-----CCeEEcccCCCCCHHHHH
Q 035388            4 FADELG-----IPFLETSAKDAINVEQAF   27 (66)
Q Consensus         4 ~a~~~~-----~~~~etSAkt~~~v~~~F   27 (66)
                      +++.++     ++|+++||++|.||+++.
T Consensus       175 ~l~~~g~~~~~~~~i~vSA~~g~nv~~~~  203 (458)
T 1f60_A          175 FIKKVGYNPKTVPFVPISGWNGDNMIEAT  203 (458)
T ss_dssp             HHHHHTCCGGGCCEEECCTTTCBTTTBCC
T ss_pred             HHHHcCCCccCceEEEeecccCcCccccc
Confidence            445554     689999999999998653

>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=91.86  E-value=0.11  Score=31.04  Aligned_cols=18  Identities=17%  Similarity=0.137  Sum_probs=15.2

Q ss_pred             CCCeEEcccCCCCCHHHH
Q 035388            9 GIPFLETSAKDAINVEQA   26 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~   26 (66)
                      +++|+++||++|.||+++
T Consensus       211 ~~~~i~iSA~~g~gi~el  228 (483)
T 3p26_A          211 NINWVPISGFSGEGVYKI  228 (483)
T ss_dssp             GEEEEECCSSSCTTSSSS
T ss_pred             cceEEEEeeecCCCcccc
Confidence            357899999999999853

>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=90.99  E-value=0.011  Score=31.03  Aligned_cols=21  Identities=10%  Similarity=-0.099  Sum_probs=9.1

Q ss_pred             HHHHHhCCCeEEcccCCCCCH
Q 035388            3 AFADELGIPFLETSAKDAINV   23 (66)
Q Consensus         3 ~~a~~~~~~~~etSAkt~~~v   23 (66)
                      .|+...++.|+++||++|.+.
T Consensus       151 ~~~~~~~~~~~~~Sa~~~~~~  171 (218)
T 1nrj_B          151 KVIERRKKSLNEVERKINEED  171 (218)
T ss_dssp             HHHHHHHHHHHC---------
T ss_pred             HHHHHHhcccccccccccccc
Confidence            456667788999999998763

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=90.79  E-value=0.069  Score=32.81  Aligned_cols=14  Identities=29%  Similarity=0.297  Sum_probs=13.3

Q ss_pred             CeEEcccCCCCCHH
Q 035388           11 PFLETSAKDAINVE   24 (66)
Q Consensus        11 ~~~etSAkt~~~v~   24 (66)
                      +|+.+||++|.||+
T Consensus       358 ~ii~iSA~~G~gI~  371 (592)
T 3mca_A          358 HFVPISAISGTNLI  371 (592)
T ss_dssp             EEEEECSSSCSSSC
T ss_pred             EEEEEecccCcccc
Confidence            69999999999998

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=89.85  E-value=0.31  Score=30.54  Aligned_cols=27  Identities=11%  Similarity=0.101  Sum_probs=23.4

Q ss_pred             CCeEEcccC--------------CCCCHHHHHHHHHHHHHH
Q 035388           10 IPFLETSAK--------------DAINVEQAFLTMAGEIKK   36 (66)
Q Consensus        10 ~~~~etSAk--------------t~~~v~~~F~~l~~~i~~   36 (66)
                      .++|.+||+              ++.||+++|..|.+.+..
T Consensus       285 ~~v~~vSAk~al~~~~~~~~~~~~~~Gi~~L~~~L~~~l~~  325 (695)
T 2j69_A          285 ERVFELSSIQALRRRLKNPQADLDGTGFPKFMDSLNTFLTR  325 (695)
T ss_dssp             GTEEECCHHHHHHHHHHCTTCCCTTSSHHHHHHHHHHHHHH
T ss_pred             CcEEEEeChHHHHhhccCchhhhhccCHHHHHHHHHHHHHH
Confidence            468999999              999999999999887643

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=89.45  E-value=0.088  Score=32.48  Aligned_cols=18  Identities=17%  Similarity=0.058  Sum_probs=16.0

Q ss_pred             CCeEEcccCCCCCHHHHH
Q 035388           10 IPFLETSAKDAINVEQAF   27 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F   27 (66)
                      ++|+++||++|.||+++.
T Consensus       346 ~~~i~vSA~tG~gI~el~  363 (611)
T 3izq_1          346 INWVPISGFSGEGVYKIE  363 (611)
T ss_dssp             CEEEECCTTTCTTTSSCT
T ss_pred             ccEEeeecccCCCccccC
Confidence            579999999999999774

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=88.06  E-value=0.4  Score=26.46  Aligned_cols=26  Identities=12%  Similarity=-0.143  Sum_probs=20.8

Q ss_pred             HHhCCCeEEcccCCCCCHHHHHHHHHH
Q 035388            6 DELGIPFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus         6 ~~~~~~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      +..+.++ .+||+++.|+++++..+..
T Consensus        72 ~~~g~~v-~iSa~~~~gi~~L~~~l~~   97 (262)
T 3cnl_A           72 KKQGKRV-ITTHKGEPRKVLLKKLSFD   97 (262)
T ss_dssp             HHTTCCE-EECCTTSCHHHHHHHHCCC
T ss_pred             HHcCCeE-EEECCCCcCHHHHHHHHHH
Confidence            3456777 9999999999999876643

>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=87.95  E-value=0.31  Score=29.62  Aligned_cols=26  Identities=12%  Similarity=0.092  Sum_probs=22.6

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      .|+|..||++|.||+.++..++..+.
T Consensus       252 ~Pv~~gSA~~~~Gv~~LLd~i~~~~P  277 (529)
T 2h5e_A          252 TPVFFGTALGNFGVDHMLDGLVEWAP  277 (529)
T ss_dssp             EEEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             eEEEeeecccCCCHHHHHHHHHHhCC
Confidence            57899999999999999988877664

>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=87.86  E-value=0.43  Score=27.45  Aligned_cols=24  Identities=13%  Similarity=0.109  Sum_probs=20.9

Q ss_pred             eEEcccCCCCCHHHHHHHHHHHHH
Q 035388           12 FLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus        12 ~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ...|||+||+|+.+.++=|+..+.
T Consensus       284 Iq~csA~tGeGL~EGldWL~~~l~  307 (312)
T 3l2o_B          284 VQDTEAETLTGFLNGIEWILEEVE  307 (312)
T ss_dssp             EEEEETTTCTTHHHHHHHHHHHSC
T ss_pred             EEecccCCCcCHHHHHHHHHHHHH
Confidence            568999999999999998887763

>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=87.75  E-value=0.029  Score=32.03  Aligned_cols=23  Identities=22%  Similarity=0.187  Sum_probs=20.1

Q ss_pred             CeEEcccCCCCCHHHHHHHHHHH
Q 035388           11 PFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus        11 ~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      .++++||++|.||+++|..+.+.
T Consensus       233 ~v~~~SA~~~~~i~~l~~~l~~e  255 (353)
T 2x2e_A          233 GVVNRSQKDIDGKKDITAALAAE  255 (353)
T ss_dssp             ECCCCCHHHHHTTCCHHHHHHHH
T ss_pred             EEEeCCcccccccccHHHHHHHH
Confidence            46789999999999999988764

>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=87.39  E-value=0.22  Score=27.38  Aligned_cols=23  Identities=13%  Similarity=0.097  Sum_probs=19.9

Q ss_pred             eEEcccCCCCCHHHHHHHHHHHH
Q 035388           12 FLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus        12 ~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ...|||+||+|+.+.++=|+..+
T Consensus       199 Iq~csA~TGeGL~EGLdWL~~~l  221 (227)
T 3l82_B          199 VQDTEAETLTGFLNGIEWILEEV  221 (227)
T ss_dssp             EEEEETTTCTTHHHHHHHHTTTT
T ss_pred             EEEeECCCCcCHHHHHHHHHHHH
Confidence            46899999999999998887655

>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=86.73  E-value=0.1  Score=30.35  Aligned_cols=34  Identities=21%  Similarity=0.044  Sum_probs=25.4

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      +++++.++.+++.+||++..+|.+++..-....+
T Consensus       228 ~~~a~~~g~~vv~iSAk~E~el~eL~~~~~~~~l  261 (368)
T 2dby_A          228 RRKALEEGAEVVVVSARLEAELAELSGEEARELL  261 (368)
T ss_dssp             HHHHHHHTCEEEEECHHHHHHHHTSCHHHHHHHH
T ss_pred             HHHHHHcCCeEEEeechhHHHHHHhchHHHHHHH
Confidence            3577778899999999998888877655443333

>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=85.20  E-value=1.8  Score=23.00  Aligned_cols=35  Identities=14%  Similarity=0.174  Sum_probs=25.4

Q ss_pred             HHHHHHhCCCeEEcccCCC-----CCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDA-----INVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~-----~~v~~~F~~l~~~i~~   36 (66)
                      +++++..+..|+..+++++     .+|.++|..+.+.+.+
T Consensus       175 ~~l~~~~~~~~~~~~~~~~~~~~~~~v~~ll~~i~~~~~~  214 (239)
T 3lxx_A          175 QDLMDIFGDRYCALNNKATGAEQEAQRAQLLGLIQRVVRE  214 (239)
T ss_dssp             HHHHHHHSSSEEECCTTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCEEEEEECCCCccccHHHHHHHHHHHHHHHHH
Confidence            3466777877777766643     7899999988777754

>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=82.15  E-value=1.2  Score=28.09  Aligned_cols=26  Identities=15%  Similarity=-0.005  Sum_probs=23.3

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ++.|..||++|.||+.+++.++..+.
T Consensus       262 ~Pv~~gSa~~~~Gv~~LLd~i~~~lP  287 (704)
T 2rdo_7          262 ILVTCGSAFKNKGVQAMLDAVIDYLP  287 (704)
T ss_pred             eEEEEeecccCccHHHHHHHHHHHCC
Confidence            67899999999999999999988764

>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=82.02  E-value=0.9  Score=28.52  Aligned_cols=26  Identities=15%  Similarity=0.110  Sum_probs=22.9

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ++.|..||++|.||+.++..++..+.
T Consensus       256 ~Pv~~gSA~~~~Gv~~LLd~i~~~lP  281 (691)
T 1dar_A          256 TPVFLGSALKNKGVQLLLDAVVDYLP  281 (691)
T ss_dssp             EEEEECBGGGTBSHHHHHHHHHHHSC
T ss_pred             eEEEEeecccCcCHHHHHHHHHHhCC
Confidence            57899999999999999998887764

---

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	66
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	2e-10
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	3e-10
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	4e-10
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	6e-10
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	2e-09
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	2e-09
d2gjsa1	168	c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [Tax	3e-09
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	3e-09
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	3e-09
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	3e-09
d1xtqa1	167	c.37.1.8 (A:3-169) GTP-binding protein RheB {Human	4e-09
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	4e-09
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	4e-09
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	6e-09
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	7e-09
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	9e-09
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	1e-08
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	1e-08
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	2e-08
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	2e-08
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	2e-08
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	3e-08
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	4e-08
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	4e-08
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	5e-08
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	8e-08
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	1e-07
d2atva1	168	c.37.1.8 (A:5-172) Ras-like estrogen-regulated gro	1e-07
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	2e-07
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	3e-07
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	4e-07
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	7e-07
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	9e-07
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	1e-06
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	1e-06
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	2e-06
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	2e-06
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	3e-06
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	3e-06
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	5e-06
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	9e-06
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	1e-05
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	2e-05
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	2e-05
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	4e-05
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	8e-05
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	1e-04
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	7e-04
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	0.002
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	0.004

>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 = 51.0 bits (121), Expect = 2e-10
 Identities = 17/38 (44%), Positives = 23/38 (60%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38
            +  AD+ GIP+ ETSA    NVE+A  T+   I K+M
Sbjct: 144 ARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRM 181

>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 = 50.6 bits (120), Expect = 3e-10
 Identities = 17/36 (47%), Positives = 25/36 (69%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36
            +  A E G+PF+ETSAK  +NV+ AF  +A E+K+
Sbjct: 135 GEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELKR 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 = 50.3 bits (119), Expect = 4e-10
 Identities = 12/37 (32%), Positives = 22/37 (59%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37
            +  AD+  + ++ETSAK   NV++ F  +  EI+ +
Sbjct: 132 AKNRADQWNVNYVETSAKTRANVDKVFFDLMREIRAR 168

>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 = 49.8 bits (118), Expect = 6e-10
 Identities = 19/38 (50%), Positives = 28/38 (73%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38
            +A A ELGIPF+E+SAK+  NV + F T+A  I++K+
Sbjct: 129 GEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKI 166

>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 = 48.4 bits (114), Expect = 2e-09
 Identities = 12/38 (31%), Positives = 19/38 (50%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38
            +A A      F+ETSAK   NV++ F  +    K++ 
Sbjct: 131 AEALARTWKCAFMETSAKLNHNVKELFQELLNLEKRRT 168

>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 = 48.6 bits (115), Expect = 2e-09
 Identities = 21/37 (56%), Positives = 26/37 (70%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38
           +  A + GI F+ETSAK  INVE AF T+A +IK KM
Sbjct: 135 EKLALDYGIKFMETSAKANINVENAFFTLARDIKAKM 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 = 47.8 bits (112), Expect = 3e-09
 Identities = 11/41 (26%), Positives = 20/41 (48%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQ 41
            +A A      F+ETSA    NV+  F  +  +I+ +  ++
Sbjct: 128 GRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLRRDSK 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 = 47.7 bits (112), Expect = 3e-09
 Identities = 15/37 (40%), Positives = 20/37 (54%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37
            +  A+E G+ F ETSAK   NV   FL +  +I  K
Sbjct: 134 GEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKIPLK 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 = 47.6 bits (112), Expect = 3e-09
 Identities = 21/38 (55%), Positives = 28/38 (73%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38
            +AFA E G+ F+ETSAK A NVE+AF+  A EI +K+
Sbjct: 131 GEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKI 168

>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 = 47.8 bits (112), Expect = 3e-09
 Identities = 10/37 (27%), Positives = 19/37 (51%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37
            +A A      F+ETSA    NV++ F  +  +++ +
Sbjct: 134 GRACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRLR 170

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.4 bits (111), Expect = 4e-09
 Identities = 11/36 (30%), Positives = 17/36 (47%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36
            +A A+     FLE+SAK+       F  +  E +K
Sbjct: 132 GKALAESWNAAFLESSAKENQTAVDVFRRIILEAEK 167

>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 = 47.6 bits (112), Expect = 4e-09
 Identities = 17/37 (45%), Positives = 21/37 (56%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37
            +  AD LG  F E SAKD INV+Q F  +   I +K
Sbjct: 133 GRQLADHLGFEFFEASAKDNINVKQTFERLVDVICEK 169

>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 = 47.6 bits (112), Expect = 4e-09
 Identities = 17/38 (44%), Positives = 22/38 (57%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38
              FA E  + FLETSA    NVE+AF+  A +I  K+
Sbjct: 133 ASRFAQENELMFLETSALTGENVEEAFVQCARKILNKI 170

>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 = 46.9 bits (110), Expect = 6e-09
 Identities = 13/35 (37%), Positives = 23/35 (65%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIK 35
            + +AD +   F+ETSAK+AIN+ + F+ ++  I 
Sbjct: 132 AKDYADSIHAIFVETSAKNAININELFIEISRRIP 166

>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 = 47.0 bits (110), Expect = 7e-09
 Identities = 14/37 (37%), Positives = 22/37 (59%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37
            Q  A +L + ++E SAK  +NV+QAF  +   I+K 
Sbjct: 133 GQQLARQLKVTYMEASAKIRMNVDQAFHELVRVIRKF 169

>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 = 46.4 bits (109), Expect = 9e-09
 Identities = 18/34 (52%), Positives = 22/34 (64%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEI 34
            + FA+E G+ FLE SAK   NVE AFL  A +I
Sbjct: 132 AKQFAEENGLLFLEASAKTGENVEDAFLEAAKKI 165

>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 = 46.5 bits (109), Expect = 1e-08
 Identities = 17/36 (47%), Positives = 22/36 (61%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36
            Q  A   GIP++ETSAK    VE AF T+  EI++
Sbjct: 130 AQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>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 = 46.5 bits (109), Expect = 1e-08
 Identities = 9/36 (25%), Positives = 19/36 (52%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36
            +++A+ +G     TSAK    +E+ FL +   + +
Sbjct: 131 AESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE 166

>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 = 45.8 bits (107), Expect = 2e-08
 Identities = 11/38 (28%), Positives = 19/38 (50%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38
             AF     + + E SAK  +NV++AF  +   ++K  
Sbjct: 134 ASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRKYQ 171

>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 = 45.7 bits (107), Expect = 2e-08
 Identities = 14/34 (41%), Positives = 20/34 (58%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEI 34
            +  A EL + F+ETSAK   NV+Q F  +A  +
Sbjct: 128 GERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 161

>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 = 45.6 bits (107), Expect = 2e-08
 Identities = 12/39 (30%), Positives = 19/39 (48%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG 39
              FA +  + F+E SAK    V+ AF  +  +I +  G
Sbjct: 135 GLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQTPG 173

>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 = 45.3 bits (106), Expect = 3e-08
 Identities = 13/35 (37%), Positives = 21/35 (60%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIK 35
            +A A+E G PF+ETSAK    V++ F  +  ++ 
Sbjct: 131 GRALAEEWGCPFMETSAKSKTMVDELFAEIVRQMN 165

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.0 bits (105), Expect = 4e-08
 Identities = 13/37 (35%), Positives = 19/37 (51%), Gaps = 1/37 (2%)

Query: 1   MQAFADE-LGIPFLETSAKDAINVEQAFLTMAGEIKK 36
            Q  A +     FLE+SAK  INV + F  +  +I +
Sbjct: 131 GQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQINR 167

>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 = 44.6 bits (104), Expect = 4e-08
 Identities = 13/38 (34%), Positives = 24/38 (63%), Gaps = 1/38 (2%)

Query: 1   MQAFADELGIPFLETSAKDA-INVEQAFLTMAGEIKKK 37
            +  A +  IP++ETSAKD  +NV++ F  +   I+++
Sbjct: 132 GKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ 169

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 44.6 bits (104), Expect = 5e-08
 Identities = 15/34 (44%), Positives = 20/34 (58%), Gaps = 3/34 (8%)

Query: 1   MQAFADELGIPFLETSAKDA---INVEQAFLTMA 31
            Q FAD   +P  ETSAK+     +VE  F+T+A
Sbjct: 132 AQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLA 165

>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 = 44.2 bits (103), Expect = 8e-08
 Identities = 10/41 (24%), Positives = 17/41 (41%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQ 41
               AD     + ET A   +NV++ F  +A ++      Q
Sbjct: 132 RALCADMKRCSYYETCATYGLNVDRVFQEVAQKVVTLRKQQ 172

>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 = 43.9 bits (102), Expect = 1e-07
 Identities = 14/36 (38%), Positives = 26/36 (72%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK 36
            Q++AD+  + F+ETSAK ++NV + F+ +A ++ K
Sbjct: 134 AQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK 169

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.5 bits (101), Expect = 1e-07
 Identities = 10/38 (26%), Positives = 18/38 (47%), Gaps = 1/38 (2%)

Query: 1   MQAFADELGIPFLETSAKDA-INVEQAFLTMAGEIKKK 37
            +  A EL   F E SA     N+ + F  +  E++++
Sbjct: 129 GEKLATELACAFYECSACTGEGNITEIFYELCREVRRR 166

>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 = 42.9 bits (100), Expect = 2e-07
 Identities = 13/38 (34%), Positives = 24/38 (63%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM 38
            + F++   + +LETSAK++ NVE+ FL +A  +  + 
Sbjct: 133 AEEFSEAQDMYYLETSAKESDNVEKLFLDLACRLISEA 170

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 42.4 bits (98), Expect = 3e-07
 Identities = 10/34 (29%), Positives = 17/34 (50%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEI 34
            +  A  L + F  TS K+ +NV + F  +A + 
Sbjct: 129 AEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKH 162

>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 = 42.2 bits (98), Expect = 4e-07
 Identities = 29/61 (47%), Positives = 36/61 (59%), Gaps = 5/61 (8%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQ-----PTANKSSGTVQMKG 55
            + FAD   +PFLETSA D+ NVE AFLTMA +IK+ M  Q         +  G V +KG
Sbjct: 134 AKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQKKEDKGNVNLKG 193

Query: 56  Q 56
           Q
Sbjct: 194 Q 194

>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 = 41.5 bits (96), Expect = 7e-07
 Identities = 15/35 (42%), Positives = 19/35 (54%), Gaps = 1/35 (2%)

Query: 1   MQAFADELG-IPFLETSAKDAINVEQAFLTMAGEI 34
            QA+  + G  P+ ETSAKDA NV  AF      +
Sbjct: 137 AQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRV 171

>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 = 41.2 bits (95), Expect = 9e-07
 Identities = 9/37 (24%), Positives = 17/37 (45%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37
              F  +  + + + SAK   N E+ FL +A ++   
Sbjct: 128 SIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGD 164

>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 = 40.8 bits (94), Expect = 1e-06
 Identities = 21/57 (36%), Positives = 28/57 (49%), Gaps = 7/57 (12%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTANKSSGTVQMKGQPI 58
                +  IP+ ETSAK+AINVEQAF T+A    K+       N+         +PI
Sbjct: 135 AWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEVELYNE-------FPEPI 184

>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 = 40.8 bits (94), Expect = 1e-06
 Identities = 4/34 (11%), Positives = 7/34 (20%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIK 35
                +         A     + Q    M   +K
Sbjct: 143 LTSIKDHQWHIQACCALTGEGLCQGLEWMMSRLK 176

>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 = 2e-06
 Identities = 4/37 (10%), Positives = 12/37 (32%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37
                 +     + +SA     + +    +   IK++
Sbjct: 144 NLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIKEE 180

>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 = 40.6 bits (94), Expect = 2e-06
 Identities = 17/43 (39%), Positives = 28/43 (65%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMGNQPTA 44
           +AFA++  + F+ETSA D+ NVE+AF  +  EI + +  +  A
Sbjct: 133 RAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQKQIA 175

>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 = 3e-06
 Identities = 9/34 (26%), Positives = 15/34 (44%), Gaps = 1/34 (2%)

Query: 2   QAFADELG-IPFLETSAKDAINVEQAFLTMAGEI 34
            A A E+G + +LE SA     ++  F      +
Sbjct: 145 LAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV 178

>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 = 39.7 bits (91), Expect = 3e-06
 Identities = 5/34 (14%), Positives = 13/34 (38%)

Query: 4   FADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37
              +      +TSA     +++A   +   +K +
Sbjct: 135 ALKDRKWQIFKTSATKGTGLDEAMEWLVETLKSR 168

>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 = 39.2 bits (90), Expect = 5e-06
 Identities = 9/34 (26%), Positives = 14/34 (41%), Gaps = 1/34 (2%)

Query: 2   QAFADELG-IPFLETSAKDAINVEQAFLTMAGEI 34
           Q  A E+G   ++E SA     ++  F      I
Sbjct: 149 QKLAKEIGACCYVECSALTQKGLKTVFDEAIIAI 182

>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 = 38.5 bits (88), Expect = 9e-06
 Identities = 17/38 (44%), Positives = 22/38 (57%), Gaps = 1/38 (2%)

Query: 1   MQAFADELG-IPFLETSAKDAINVEQAFLTMAGEIKKK 37
            Q  A  LG IP   TSAK+AINV+ AF  +A    ++
Sbjct: 136 AQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQQ 173

>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 = 38.5 bits (88), Expect = 1e-05
 Identities = 8/31 (25%), Positives = 14/31 (45%), Gaps = 1/31 (3%)

Query: 2   QAFADELG-IPFLETSAKDAINVEQAFLTMA 31
           +  A+ +G   ++E SAK    V + F    
Sbjct: 142 RDMANRIGAFGYMECSAKTKDGVREVFEMAT 172

>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 = 37.6 bits (86), Expect = 2e-05
 Identities = 2/34 (5%), Positives = 7/34 (20%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIK 35
                +       + A     + +    +    K
Sbjct: 140 LTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNYK 173

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

 Score = 37.4 bits (85), Expect = 2e-05
 Identities = 5/34 (14%), Positives = 11/34 (32%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIK 35
            +   +  I     S K+  N++     +    K
Sbjct: 131 LSAIQDREICCYSISCKEKDNIDITLQWLIQHSK 164

>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 = 4e-05
 Identities = 2/34 (5%), Positives = 8/34 (23%)

Query: 1   MQAFADELGIPFLETSAKDAINVEQAFLTMAGEI 34
                         T A     + +    ++ ++
Sbjct: 127 GLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQL 160

>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 = 35.8 bits (81), Expect = 8e-05
 Identities = 3/36 (8%), Positives = 8/36 (22%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK 37
                         SA    ++      +  +I  +
Sbjct: 130 LDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISSR 165

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]} Length = 176

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

 Score = 35.7 bits (81), Expect = 1e-04
 Identities = 3/33 (9%), Positives = 7/33 (21%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAFLTMAGEI 34
                +        SA     V+     +   +
Sbjct: 144 LHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNV 176

>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 = 33.5 bits (75), Expect = 7e-04
 Identities = 9/38 (23%), Positives = 14/38 (36%), Gaps = 2/38 (5%)

Query: 2   QAFADELGI-PFLETSAKDAIN-VEQAFLTMAGEIKKK 37
              A ++G   ++E SA  + N V   F         K
Sbjct: 142 ANMAKQIGAATYIECSALQSENSVRDIFHVATLACVNK 179

>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 = 32.3 bits (72), Expect = 0.002
 Identities = 6/38 (15%), Positives = 14/38 (36%), Gaps = 1/38 (2%)

Query: 2   QAFADEL-GIPFLETSAKDAINVEQAFLTMAGEIKKKM 38
           +  A +L  + ++E SA     ++  F        +  
Sbjct: 143 EKLARDLKAVKYVECSALTQKGLKNVFDEAILAALEPP 180

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 31.2 bits (69), Expect = 0.004
 Identities = 4/26 (15%), Positives = 7/26 (26%)

Query: 2   QAFADELGIPFLETSAKDAINVEQAF 27
           Q    +  +     S        +AF
Sbjct: 135 QRIEGQRPVEVFMCSVVMRNGYLEAF 160

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	66
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.32
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.31
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	99.3
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.29
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.28
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.28
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.28
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	99.28
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	99.28
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.27
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	99.26
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.26
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	99.25
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.25
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.24
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.24
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	99.23
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.23
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.22
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.22
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.21
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.21
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.2
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.2
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.18
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.18
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.16
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.14
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.13
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.12
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.11
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.11
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.1
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.09
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.03
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.0
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	98.97
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	98.97
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	98.93
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	98.89
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	98.87
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	98.82
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	98.82
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	98.62
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	98.53
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	98.53
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	98.5
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	98.45
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	98.42
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	98.41
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	98.38
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	98.36
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	98.34
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	98.28
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	97.97
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	97.94
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	97.85
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	97.84
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	97.72
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	97.68
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	97.63
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	97.6
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	97.51
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	97.46
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	97.45
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	97.28
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	97.01
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	96.77
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	96.46
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	96.1
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	95.2
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	94.87
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	94.81
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	84.65
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	83.79
d1irqa_	48	Omega transcriptional repressor {Streptococcus pyo	83.66
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	80.97
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	80.77

>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=99.32  E-value=9.2e-13  Score=67.18  Aligned_cols=36  Identities=28%  Similarity=0.505  Sum_probs=33.2

Q ss_pred             HHHHHHhCCCeEEcccCCCC-CHHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAI-NVEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~-~v~~~F~~l~~~i~~~   37 (66)
                      ++||++++++|||||||+|. ||+++|..|++.|.++
T Consensus       130 ~~~a~~~~~~~~e~Saktg~gnV~e~F~~l~~~i~~~  166 (168)
T d2atva1         130 EKLATELACAFYECSACTGEGNITEIFYELCREVRRR  166 (168)
T ss_dssp             HHHHHHHTSEEEECCTTTCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCeEEEEccccCCcCHHHHHHHHHHHHHHh
Confidence            57899999999999999998 6999999999999865

>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=99.31  E-value=1.2e-12  Score=67.02  Aligned_cols=37  Identities=30%  Similarity=0.482  Sum_probs=34.0

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      +.||+.++++|||||||+|.||+++|..|++.+.+..
T Consensus       135 ~~~~~~~~~~~~e~Sak~g~gv~e~f~~l~~~i~k~~  171 (173)
T d2fn4a1         135 SAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRKYQ  171 (173)
T ss_dssp             HHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHHHHT
T ss_pred             hHHHHhcCCEEEEEeCCCCcCHHHHHHHHHHHHHHHh
Confidence            5789999999999999999999999999999997754

>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=99.30  E-value=8.2e-13  Score=67.21  Aligned_cols=35  Identities=26%  Similarity=0.497  Sum_probs=32.7

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +.||++++++|+|||||+|.||+++|..|++.|++
T Consensus       132 ~~~a~~~~~~~~e~Sak~~~~v~e~F~~l~~~i~~  166 (167)
T d1z08a1         132 ESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE  166 (167)
T ss_dssp             HHHHHHTTCEEEEEBTTTTBSHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCCeEEEEecCCCcCHHHHHHHHHHHHhh
Confidence            57899999999999999999999999999999874

>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=99.29  E-value=2.1e-12  Score=65.90  Aligned_cols=36  Identities=39%  Similarity=0.547  Sum_probs=33.2

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      ++|++.++++|+|||||+|.||+++|..|++.|.+.
T Consensus       134 ~~~~~~~~~~~~e~Sak~~~~i~e~f~~l~~~i~k~  169 (171)
T d2erya1         134 QQLARQLKVTYMEASAKIRMNVDQAFHELVRVIRKF  169 (171)
T ss_dssp             HHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCEEEEEcCCCCcCHHHHHHHHHHHHHHh
Confidence            578999999999999999999999999999998654

>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=99.28  E-value=1.9e-12  Score=66.24  Aligned_cols=38  Identities=55%  Similarity=0.750  Sum_probs=34.7

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG   39 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~   39 (66)
                      ..||+.++++|+|||||+|.||+++|..|++.|+++..
T Consensus       132 ~~~a~~~~~~~~e~Sa~tg~~V~e~f~~i~~~i~~~~~  169 (173)
T d2a5ja1         132 EAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKIQ  169 (173)
T ss_dssp             HHHHHHHTCEEEEECTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHHHHHHH
Confidence            56899999999999999999999999999999987653

>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=99.28  E-value=2.1e-12  Score=66.05  Aligned_cols=36  Identities=28%  Similarity=0.350  Sum_probs=33.2

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      +++|+.++++|||||||+|.||+++|..|+++|..+
T Consensus       135 ~~~a~~~~~~~~e~Sak~g~~i~~~f~~l~~~i~~r  170 (172)
T d2g3ya1         135 RACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRLR  170 (172)
T ss_dssp             HHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCeEEEEeCCCCcCHHHHHHHHHHHHHHc
Confidence            568999999999999999999999999999998754

>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=99.28  E-value=1.7e-12  Score=65.97  Aligned_cols=35  Identities=49%  Similarity=0.744  Sum_probs=32.4

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      ++|++.++++|||||||+|.||+++|..|++.|.+
T Consensus       131 ~~~~~~~~~~~~e~Sak~g~gi~e~f~~i~~~i~~  165 (166)
T d1ctqa_         131 QDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ  165 (166)
T ss_dssp             HHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             HHHHHHhCCeEEEEcCCCCcCHHHHHHHHHHHHHh
Confidence            57899999999999999999999999999998863

>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=99.28  E-value=2.3e-12  Score=65.80  Aligned_cols=35  Identities=37%  Similarity=0.650  Sum_probs=32.4

Q ss_pred             HHHHHHhCCCeEEcccCCCC-CHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAI-NVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~-~v~~~F~~l~~~i~~   36 (66)
                      ++||+.++++|||||||+|. ||+++|..|++.|++
T Consensus       133 ~~~~~~~~~~~~e~Sak~~~~nV~~~F~~l~~~i~~  168 (169)
T d1x1ra1         133 KEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQ  168 (169)
T ss_dssp             HHHHHHHTCCEEEEBCSSSCBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCEEEEEcCCCCCcCHHHHHHHHHHHHHh
Confidence            57999999999999999985 999999999999876

>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=99.28  E-value=1.6e-12  Score=66.27  Aligned_cols=37  Identities=30%  Similarity=0.297  Sum_probs=33.8

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      ++|++.++++|+|||||+|.||+++|..|++.|..+.
T Consensus       129 ~~~~~~~~~~~~e~Sak~~~~v~~~f~~l~~~i~~~~  165 (168)
T d2gjsa1         129 RACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLRR  165 (168)
T ss_dssp             HHHHHHHTSEEEECBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCEEEEEeCCCCcCHHHHHHHHHHHHHHHh
Confidence            5789999999999999999999999999999987653

>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=99.27  E-value=3.5e-12  Score=65.04  Aligned_cols=36  Identities=36%  Similarity=0.566  Sum_probs=33.2

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      ++|++.++++|++||||+|.||+++|..|++.++.+
T Consensus       134 ~~~~~~~~~~~~~~SAktg~gV~e~f~~l~~~l~~~  169 (171)
T d2ew1a1         134 EEFSEAQDMYYLETSAKESDNVEKLFLDLACRLISE  169 (171)
T ss_dssp             HHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCEEEEEccCCCCCHHHHHHHHHHHHHHh
Confidence            568999999999999999999999999999998865

>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=99.26  E-value=1.2e-12  Score=66.43  Aligned_cols=34  Identities=29%  Similarity=0.456  Sum_probs=32.0

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ++||++++++|+|||||+|.||+++|..|++.++
T Consensus       130 ~~~~~~~~~~~~e~Sak~g~~v~e~f~~l~~~~l  163 (164)
T d1z2aa1         130 EGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHL  163 (164)
T ss_dssp             HHHHHHHTCEEEECBTTTTBSSHHHHHHHHHHHH
T ss_pred             HHHHHHcCCEEEEeccCCCcCHHHHHHHHHHHHh
Confidence            5789999999999999999999999999999886

>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=99.26  E-value=6.2e-12  Score=65.17  Aligned_cols=34  Identities=18%  Similarity=0.217  Sum_probs=29.8

Q ss_pred             HHHHHHhC-CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELG-IPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ++||++++ ++|+|||||+|.||+++|..+++.++
T Consensus       143 ~~~~~~~~~~~~~e~SAk~~~~V~e~f~~l~~~~~  177 (191)
T d2ngra_         143 EKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL  177 (191)
T ss_dssp             HHHHHHTTCSCEEECCTTTCTTHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCCeEEEEeCCCCcCHHHHHHHHHHHHh
Confidence            46788864 89999999999999999999988775

>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=99.25  E-value=2.2e-12  Score=65.84  Aligned_cols=35  Identities=34%  Similarity=0.568  Sum_probs=32.3

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +.|++.++++|+|||||+|.||+++|..|+++|..
T Consensus       133 ~~~~~~~~~~~~e~Sak~g~gv~e~f~~l~~~i~~  167 (168)
T d1u8za_         133 KNRADQWNVNYVETSAKTRANVDKVFFDLMREIRA  167 (168)
T ss_dssp             HHHHHHHTCEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCeEEEEcCCCCcCHHHHHHHHHHHHHC
Confidence            56899999999999999999999999999999863

>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=99.25  E-value=1.7e-12  Score=66.01  Aligned_cols=33  Identities=39%  Similarity=0.686  Sum_probs=30.9

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ++||+.++++|+|||||+|.||+++|..|+++|
T Consensus       133 ~~~~~~~~~~~~e~SAk~~~nV~e~f~~l~~~i  165 (167)
T d1z0ja1         133 KDYADSIHAIFVETSAKNAININELFIEISRRI  165 (167)
T ss_dssp             HHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHC
T ss_pred             HHHHHHcCCEEEEEecCCCCCHHHHHHHHHHhC
Confidence            578999999999999999999999999999876

>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=99.24  E-value=4.5e-12  Score=65.48  Aligned_cols=34  Identities=26%  Similarity=0.281  Sum_probs=31.0

Q ss_pred             HHHHHHhC-CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELG-IPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      .+||++++ +.|+|||||+|.||+++|..+++.|+
T Consensus       149 ~~~a~~~~~~~~~E~SAk~~~gv~e~F~~li~~il  183 (185)
T d2atxa1         149 QKLAKEIGACCYVECSALTQKGLKTVFDEAIIAIL  183 (185)
T ss_dssp             HHHHHHHTCSCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCEEEEecCCCCcCHHHHHHHHHHHHc
Confidence            46888887 78999999999999999999999885

>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=99.24  E-value=2.4e-12  Score=65.17  Aligned_cols=34  Identities=41%  Similarity=0.528  Sum_probs=31.3

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ++++++++++|||||||+|.||+++|..|++.+.
T Consensus       129 ~~~~~~~~~~~~e~SAk~g~~v~e~f~~i~~~l~  162 (164)
T d1yzqa1         129 ERKAKELNVMFIETSAKAGYNVKQLFRRVAAALP  162 (164)
T ss_dssp             HHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHSC
T ss_pred             HHHHHHcCCEEEEecCCCCcCHHHHHHHHHHhhC
Confidence            5789999999999999999999999999998763

>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=99.23  E-value=2e-12  Score=65.72  Aligned_cols=34  Identities=29%  Similarity=0.397  Sum_probs=31.7

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ++||++++++|+|||||+|.||+++|..|++++.
T Consensus       133 ~~~a~~~~~~~~e~Sak~~~~v~~~f~~li~~~~  166 (167)
T d1xtqa1         133 KALAESWNAAFLESSAKENQTAVDVFRRIILEAE  166 (167)
T ss_dssp             HHHHHHHTCEEEECCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCEEEEEecCCCCCHHHHHHHHHHHhc
Confidence            5689999999999999999999999999998875

>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=99.23  E-value=3.5e-12  Score=65.36  Aligned_cols=34  Identities=24%  Similarity=0.362  Sum_probs=30.8

Q ss_pred             HHHHHHhC-CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELG-IPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ++||++++ ++|||||||+|.||+++|..+++.++
T Consensus       142 ~~~a~~~~~~~~~E~SAkt~~gi~e~F~~i~~~~l  176 (177)
T d1kmqa_         142 RDMANRIGAFGYMECSAKTKDGVREVFEMATRAAL  176 (177)
T ss_dssp             HHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCcEEEEecCCCCcCHHHHHHHHHHHHh
Confidence            46888887 67999999999999999999999886

>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=99.22  E-value=3.9e-12  Score=64.61  Aligned_cols=34  Identities=53%  Similarity=0.692  Sum_probs=31.4

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      +.+++.++++|+|||||+|.||+++|..|+++|+
T Consensus       133 ~~~~~~~~~~~~e~Saktg~~v~e~f~~i~~~i~  166 (166)
T d1z0fa1         133 KQFAEENGLLFLEASAKTGENVEDAFLEAAKKIY  166 (166)
T ss_dssp             HHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHhC
Confidence            5788999999999999999999999999999874

>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=99.22  E-value=4.3e-12  Score=64.66  Aligned_cols=35  Identities=46%  Similarity=0.672  Sum_probs=32.5

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      +.++++++++|+|||||+|.||+++|..|++.|++
T Consensus       134 ~~~~~~~~~~~~e~Sak~g~gv~e~f~~l~~~i~e  168 (169)
T d3raba_         134 RQLADHLGFEFFEASAKDNINVKQTFERLVDVICE  168 (169)
T ss_dssp             HHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCEEEEecCCCCcCHHHHHHHHHHHHhh
Confidence            46899999999999999999999999999999875

>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=99.21  E-value=1.2e-12  Score=66.68  Aligned_cols=34  Identities=35%  Similarity=0.360  Sum_probs=30.9

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ++||+.++++|||||||+|.||+++|..|++.+.
T Consensus       132 ~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~~~~~  165 (171)
T d2erxa1         132 EALARTWKCAFMETSAKLNHNVKELFQELLNLEK  165 (171)
T ss_dssp             HHHHHHHTCEEEECBTTTTBSHHHHHHHHHHTCC
T ss_pred             HHHHHHcCCeEEEEcCCCCcCHHHHHHHHHHHHH
Confidence            5789999999999999999999999999987653

>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=99.21  E-value=1.1e-11  Score=63.12  Aligned_cols=37  Identities=46%  Similarity=0.618  Sum_probs=33.2

Q ss_pred             HHHHHHhC-CCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELG-IPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      ++|++.++ ++|+||||++|.||+++|..|++.++++.
T Consensus       137 ~~~~~~~~~~~~~e~SA~~g~gv~e~f~~l~~~~l~~~  174 (175)
T d1ky3a_         137 QELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQQN  174 (175)
T ss_dssp             HHHHHHTTSCCEEEEBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCeEEEEeCCCCcCHHHHHHHHHHHHHhcc
Confidence            46888886 88999999999999999999999998764

>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=99.20  E-value=2.6e-12  Score=65.40  Aligned_cols=33  Identities=42%  Similarity=0.648  Sum_probs=30.5

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ++|++.++++|+|||||+|.||+++|..|+++|
T Consensus       135 ~~~~~~~~~~~~e~Sak~g~gV~e~F~~i~~~i  167 (170)
T d1ek0a_         135 EKLAEEKGLLFFETSAKTGENVNDVFLGIGEKI  167 (170)
T ss_dssp             HHHHHHHTCEEEECCTTTCTTHHHHHHHHHTTS
T ss_pred             HHHHHHcCCEEEEecCCCCcCHHHHHHHHHHHh
Confidence            578999999999999999999999999998765

>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=99.20  E-value=1.1e-11  Score=63.74  Aligned_cols=37  Identities=46%  Similarity=0.651  Sum_probs=34.2

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      .+|+++++++|+|||||+|.||+++|..|++.++++.
T Consensus       145 ~~~~~~~~~~~~e~Sak~~~~i~e~f~~l~~~i~~k~  181 (186)
T d2f7sa1         145 RELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRM  181 (186)
T ss_dssp             HHHHHHTTCCEEEEBTTTTBTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            5789999999999999999999999999999998754

>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=99.18  E-value=7.4e-12  Score=64.45  Aligned_cols=34  Identities=26%  Similarity=0.372  Sum_probs=30.6

Q ss_pred             HHHHHHhC-CCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELG-IPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ..+|++++ ++|||||||+|.||+++|..|++.++
T Consensus       145 ~~~a~~~~~~~~~E~SAk~~~~V~e~F~~l~~~il  179 (183)
T d1mh1a_         145 LAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL  179 (183)
T ss_dssp             HHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHS
T ss_pred             HHHHHHcCCceEEEcCCCCCcCHHHHHHHHHHHHc
Confidence            45778877 78999999999999999999999986

>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=99.18  E-value=4.8e-12  Score=64.25  Aligned_cols=34  Identities=38%  Similarity=0.656  Sum_probs=31.4

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      +.+++.++++|||||||+|.||+++|..|+++|.
T Consensus       132 ~~~~~~~~~~~~e~Sak~g~~i~e~f~~i~~~i~  165 (167)
T d1kaoa_         132 RALAEEWGCPFMETSAKSKTMVDELFAEIVRQMN  165 (167)
T ss_dssp             HHHHHHHTSCEEEECTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCeEEEECCCCCcCHHHHHHHHHHHHc
Confidence            5688999999999999999999999999999874

>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=99.16  E-value=1.7e-11  Score=62.43  Aligned_cols=34  Identities=50%  Similarity=0.825  Sum_probs=31.6

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ..+++.++++|+|+|||+|.||+++|..|+++|.
T Consensus       136 ~~~~~~~~~~~~e~Sak~g~gi~e~f~~l~~~i~  169 (170)
T d2g6ba1         136 EKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELK  169 (170)
T ss_dssp             HHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCEEEEEeCCCCcCHHHHHHHHHHHcC
Confidence            5688999999999999999999999999999875

>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=99.14  E-value=3.2e-11  Score=61.47  Aligned_cols=38  Identities=45%  Similarity=0.531  Sum_probs=34.2

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG   39 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~   39 (66)
                      ..++++++++|+|||||+|.||+++|..|++.++++..
T Consensus       134 ~~~~~~~~~~~~e~Sak~~~gi~e~f~~l~~~i~~~~~  171 (174)
T d2bmea1         134 SRFAQENELMFLETSALTGENVEEAFVQCARKILNKIE  171 (174)
T ss_dssp             HHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCEEEEeeCCCCcCHHHHHHHHHHHHHHHHh
Confidence            46888999999999999999999999999999987643

>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=99.13  E-value=3.6e-11  Score=61.32  Aligned_cols=35  Identities=43%  Similarity=0.596  Sum_probs=31.2

Q ss_pred             HHHHHHhC-CCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELG-IPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      ++|+++++ ++|+|||||+|.||+++|..|++.|+.
T Consensus       138 ~~~~~~~~~~~~~e~Sak~~~gI~e~f~~l~~~il~  173 (174)
T d1wmsa_         138 QAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVLA  173 (174)
T ss_dssp             HHHHHHTTCCCEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCCeEEEEcCCCCcCHHHHHHHHHHHHhc
Confidence            46888864 899999999999999999999999873

>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=99.12  E-value=1.4e-11  Score=62.75  Aligned_cols=34  Identities=38%  Similarity=0.691  Sum_probs=31.0

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      +++++.++++|+|||||+|.||+++|..|++.|.
T Consensus       135 ~~~~~~~~~~~~e~SAk~g~~V~e~f~~l~~~i~  168 (170)
T d1r2qa_         135 QSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLP  168 (170)
T ss_dssp             HHHHHHTTCEEEECCTTTCTTHHHHHHHHHHTSC
T ss_pred             HHHHHhcCCEEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            5788999999999999999999999999988764

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.11  E-value=4.8e-11  Score=60.40  Aligned_cols=36  Identities=53%  Similarity=0.808  Sum_probs=33.0

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      +++++.++++|+||||++|.||+++|..|++.+.++
T Consensus       130 ~~~~~~~~~~~~~~Sa~~~~~v~e~f~~l~~~i~~k  165 (166)
T d1g16a_         130 EALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEK  165 (166)
T ss_dssp             HHHHHHHTCCEEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             HHHHHhcCCeEEEECCCCCCCHHHHHHHHHHHHHhc
Confidence            568899999999999999999999999999998764

>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=99.11  E-value=1.8e-11  Score=62.12  Aligned_cols=34  Identities=38%  Similarity=0.584  Sum_probs=29.7

Q ss_pred             HHHHHHh-CCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            2 QAFADEL-GIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         2 ~~~a~~~-~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ..+++++ +++|||||||+|.||+++|..|++.|.
T Consensus       132 ~~~~~~~~~~~~~e~Sak~g~gv~e~F~~l~~~i~  166 (167)
T d1c1ya_         132 QNLARQWCNCAFLESSAKSKINVNEIFYDLVRQIN  166 (167)
T ss_dssp             HHHHHHTTSCEEEECBTTTTBSHHHHHHHHHHHHT
T ss_pred             HHHHHHhCCCEEEEEcCCCCcCHHHHHHHHHHHhc
Confidence            4577775 689999999999999999999999874

>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=99.10  E-value=1.6e-11  Score=62.58  Aligned_cols=35  Identities=26%  Similarity=0.406  Sum_probs=32.2

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      ..+++.++++|||||||+|.||+++|..|++.++.
T Consensus       129 ~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~~~l~~  163 (170)
T d1i2ma_         129 IVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIG  163 (170)
T ss_dssp             HHHHSSCSSEEEEEBTTTTBTTTHHHHHHHHHHHT
T ss_pred             HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHcc
Confidence            46788889999999999999999999999999974

>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=99.09  E-value=4.7e-11  Score=61.08  Aligned_cols=36  Identities=31%  Similarity=0.389  Sum_probs=33.1

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      ++++++++++|+|+||++|.||+++|..|++.+++.
T Consensus       136 ~~~~~~~~~~~~e~Sa~tg~gv~e~f~~l~~~l~~~  171 (177)
T d1x3sa1         136 LKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQT  171 (177)
T ss_dssp             HHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHTS
T ss_pred             HHHHHHCCCEEEEEeCCCCCCHHHHHHHHHHHHccC
Confidence            568999999999999999999999999999999853

>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=99.03  E-value=1.4e-10  Score=59.11  Aligned_cols=37  Identities=57%  Similarity=0.794  Sum_probs=30.3

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      ..+++.++++|+||||++|.||+++|..|++.|..+.
T Consensus       135 ~~~~~~~~~~~~e~Sa~~g~gv~e~f~~l~~~i~~k~  171 (173)
T d2fu5c1         135 EKLALDYGIKFMETSAKANINVENAFFTLARDIKAKM  171 (173)
T ss_dssp             HHHHHHHTCEEEECCC---CCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCEEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            4578889999999999999999999999999997654

>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=99.00  E-value=1e-10  Score=59.05  Aligned_cols=30  Identities=50%  Similarity=0.729  Sum_probs=26.8

Q ss_pred             HHHHHHhCCCeEEcccCC---CCCHHHHHHHHH
Q 035388            2 QAFADELGIPFLETSAKD---AINVEQAFLTMA   31 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt---~~~v~~~F~~l~   31 (66)
                      ++|+++++++||||||||   +.||+++|..||
T Consensus       133 ~~~~~~~~~~~~e~SAkt~~~~~~V~e~F~~lA  165 (165)
T d1z06a1         133 QKFADTHSMPLFETSAKNPNDNDHVEAIFMTLA  165 (165)
T ss_dssp             HHHHHHTTCCEEECCSSSGGGGSCHHHHHHHHC
T ss_pred             HHHHHHCCCEEEEEecccCCcCcCHHHHHHHhC
Confidence            578999999999999998   459999999885

>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=98.97  E-value=1.7e-10  Score=59.19  Aligned_cols=37  Identities=22%  Similarity=0.344  Sum_probs=31.2

Q ss_pred             HHHHHH-hCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADE-LGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~-~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      +.|+.+ ++++|+|||||+|.||+++|..+++.++...
T Consensus       132 ~~~~~~~~~~~~~e~SAk~~~~v~~~F~~l~~~i~~~~  169 (175)
T d2bmja1         132 RALCADMKRCSYYETCATYGLNVDRVFQEVAQKVVTLR  169 (175)
T ss_dssp             HHHHHTSTTEEEEEEBTTTTBTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCeEEEeCCCCCcCHHHHHHHHHHHHHHhh
Confidence            356544 5689999999999999999999999998653

>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=98.97  E-value=1.1e-10  Score=59.95  Aligned_cols=35  Identities=23%  Similarity=0.321  Sum_probs=30.5

Q ss_pred             HHHHHHhC-CCeEEcccCCCCC-HHHHHHHHHHHHHH
Q 035388            2 QAFADELG-IPFLETSAKDAIN-VEQAFLTMAGEIKK   36 (66)
Q Consensus         2 ~~~a~~~~-~~~~etSAkt~~~-v~~~F~~l~~~i~~   36 (66)
                      .++|++++ .+|+|||||+|.| |+++|..+++.++.
T Consensus       142 ~~~a~~~~~~~y~E~SAk~~~n~i~~~F~~~~~~~l~  178 (179)
T d1m7ba_         142 ANMAKQIGAATYIECSALQSENSVRDIFHVATLACVN  178 (179)
T ss_dssp             HHHHHHHTCSEEEECBTTTBHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhCCCeEEEEeCCCCCcCHHHHHHHHHHHHhc
Confidence            45888887 5799999999986 99999999999874

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=98.93  E-value=1e-09  Score=56.27  Aligned_cols=36  Identities=53%  Similarity=0.661  Sum_probs=30.6

Q ss_pred             HHHHH-hCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            3 AFADE-LGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         3 ~~a~~-~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      .++.. ++++|+|||||+|.||+++|..|++.++++.
T Consensus       135 ~~~~~~~~~~~~e~Sak~~~gI~e~f~~l~~~i~~~~  171 (184)
T d1vg8a_         135 AWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQE  171 (184)
T ss_dssp             HHHHHTTSCCEEECBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCeEEEEcCCCCcCHHHHHHHHHHHHHhcc
Confidence            35544 5799999999999999999999999998753

>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=98.89  E-value=1.7e-09  Score=55.03  Aligned_cols=38  Identities=42%  Similarity=0.614  Sum_probs=32.7

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHhc
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKMG   39 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~~   39 (66)
                      ..+++.++.+|+||||++|.||+++|..+++.+++...
T Consensus       133 ~~~~~~~~~~~~e~Sa~~g~~i~e~f~~l~~~i~~~~~  170 (175)
T d2f9la1         133 RAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVS  170 (175)
T ss_dssp             HHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             HHhhcccCceEEEEecCCCcCHHHHHHHHHHHHHHHhh
Confidence            34667788999999999999999999999999986543

>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=98.87  E-value=2.7e-09  Score=55.13  Aligned_cols=37  Identities=62%  Similarity=0.848  Sum_probs=32.8

Q ss_pred             HHHHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHHHh
Q 035388            2 QAFADELGIPFLETSAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus         2 ~~~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      ..+++.+++.|+|+||++|.||+++|..|++.+++..
T Consensus       135 ~~~~~~~~~~~~e~SAk~g~gi~e~f~~l~~~i~~~~  171 (194)
T d2bcgy1         135 KEFADANKMPFLETSALDSTNVEDAFLTMARQIKESM  171 (194)
T ss_dssp             HHHHHHTTCCEEECCTTTCTTHHHHHHHHHHHHHHHC
T ss_pred             hhhhhccCcceEEEecCcCccHHHHHHHHHHHHHHHh
Confidence            4577888999999999999999999999999998643

>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=98.82  E-value=5.9e-10  Score=55.68  Aligned_cols=33  Identities=15%  Similarity=0.190  Sum_probs=27.6

Q ss_pred             HHHHhCCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            4 FADELGIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         4 ~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      ++...+++|+++||++|.||+++|..|++.+.+
T Consensus       135 ~~~~~~~~~~~~SA~~g~gv~e~~~~l~~~l~~  167 (169)
T d1upta_         135 ALKDRKWQIFKTSATKGTGLDEAMEWLVETLKS  167 (169)
T ss_dssp             GCTTSCEEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             HHhcCCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            344456789999999999999999999998753

>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=98.82  E-value=4.2e-10  Score=55.94  Aligned_cols=31  Identities=6%  Similarity=-0.039  Sum_probs=25.7

Q ss_pred             HHHHhCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            4 FADELGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         4 ~a~~~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      +++..+++|+++|||||.||+++|+.|++++
T Consensus       130 ~~~~~~~~~~~~SAktg~gi~e~~~~l~~~l  160 (160)
T d1r8sa_         130 SLRHRNWYIQATCATSGDGLYEGLDWLSNQL  160 (160)
T ss_dssp             GCSSCCEEEEECBTTTTBTHHHHHHHHHHHC
T ss_pred             HHhhCCCEEEEeECCCCCCHHHHHHHHHhcC
Confidence            3445567899999999999999999998753

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=98.62  E-value=4.4e-09  Score=53.67  Aligned_cols=30  Identities=13%  Similarity=0.133  Sum_probs=26.2

Q ss_pred             hCCCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388            8 LGIPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus         8 ~~~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      .++.|+||||++|+||+++|..|++.+.++
T Consensus       151 ~~~~~~e~SA~~g~gv~e~~~~l~~~i~~~  180 (182)
T d1moza_         151 RSWSIVASSAIKGEGITEGLDWLIDVIKEE  180 (182)
T ss_dssp             SCEEEEEEBGGGTBTHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            345689999999999999999999988764

>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=98.53  E-value=9.3e-09  Score=52.10  Aligned_cols=27  Identities=4%  Similarity=-0.053  Sum_probs=23.0

Q ss_pred             hCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            8 LGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         8 ~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      .+..++||||++|+||+++|+.|+..+
T Consensus       146 ~~~~~~e~SA~tg~gv~e~~~~l~~~~  172 (173)
T d1e0sa_         146 RNWYVQPSCATSGDGLYEGLTWLTSNY  172 (173)
T ss_dssp             SCEEEEECBTTTTBTHHHHHHHHHHHC
T ss_pred             CCCEEEEeeCCCCcCHHHHHHHHHHhc
Confidence            345689999999999999999997653

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=98.53  E-value=7.3e-09  Score=52.43  Aligned_cols=26  Identities=12%  Similarity=-0.051  Sum_probs=22.7

Q ss_pred             hCCCeEEcccCCCCCHHHHHHHHHHH
Q 035388            8 LGIPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         8 ~~~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      ..+.||+|||++|.||+++|+.|++.
T Consensus       150 ~~~~~~~~SA~tg~gv~e~~~~l~~~  175 (176)
T d1fzqa_         150 RVWQIQSCSALTGEGVQDGMNWVCKN  175 (176)
T ss_dssp             SCEEEEECCTTTCTTHHHHHHHHHHT
T ss_pred             cCCEEEEEeCCCCCCHHHHHHHHHhc
Confidence            34569999999999999999998875

>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=98.50  E-value=2e-08  Score=50.60  Aligned_cols=27  Identities=11%  Similarity=-0.039  Sum_probs=23.9

Q ss_pred             hCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            8 LGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         8 ~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      .+++|+++||+||+||+++|+.|++.+
T Consensus       149 ~~~~~~~~Sa~tg~Gi~e~~~~L~~~l  175 (177)
T d1zj6a1         149 HQWHIQACCALTGEGLCQGLEWMMSRL  175 (177)
T ss_dssp             SCEEEEECBTTTTBTHHHHHHHHHHHH
T ss_pred             cCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            346799999999999999999998875

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=98.45  E-value=2.5e-08  Score=49.95  Aligned_cols=28  Identities=11%  Similarity=-0.017  Sum_probs=24.5

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      ++.|++|||++|.||+++|..|.+.+..
T Consensus       137 ~~~~~~~Sa~~g~gv~e~~~~l~~~i~~  164 (165)
T d1ksha_         137 HWRIQGCSAVTGEDLLPGIDWLLDDISS  164 (165)
T ss_dssp             CEEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHc
Confidence            3568999999999999999999988753

>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=98.42  E-value=3.8e-08  Score=50.24  Aligned_cols=28  Identities=25%  Similarity=0.165  Sum_probs=24.9

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      +.+++||||+|.||+++|..|.+.|++.
T Consensus       170 ~~~~~tSAk~~~ni~~vF~~i~~~I~~~  197 (200)
T d2bcjq2         170 IYSHFTCATDTENIRFVFAAVKDTILQL  197 (200)
T ss_dssp             EEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             eEEEEeEEEcCHhHHHHHHHHHHHHHHH
Confidence            4578999999999999999999888864

>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=98.41  E-value=4.2e-08  Score=49.91  Aligned_cols=28  Identities=32%  Similarity=0.210  Sum_probs=24.4

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      +.++|||||+|.||+++|..+.+.|+++
T Consensus       167 ~~~~~tSA~~~~nv~~~F~~v~~~il~~  194 (195)
T d1svsa1         167 IYTHFTCATDTKNVQFVFDAVTDVIIKN  194 (195)
T ss_dssp             EEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             ceeEEEEeECCHhHHHHHHHHHHHHHhc
Confidence            4577999999999999999998888764

>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=98.38  E-value=3e-08  Score=49.81  Aligned_cols=27  Identities=15%  Similarity=0.131  Sum_probs=23.0

Q ss_pred             HhCCCeEEcccCCCCCHHHHHHHHHHH
Q 035388            7 ELGIPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         7 ~~~~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      ..+++|+|+||++|.||+++|..|++.
T Consensus       136 ~~~~~~~e~Sa~~g~gv~e~~~~l~~~  162 (164)
T d1zd9a1         136 DREICCYSISCKEKDNIDITLQWLIQH  162 (164)
T ss_dssp             SSCEEEEECCTTTCTTHHHHHHHHHHT
T ss_pred             hCCCEEEEEeCcCCcCHHHHHHHHHHc
Confidence            345678999999999999999988764

>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=98.36  E-value=4.7e-08  Score=49.18  Aligned_cols=25  Identities=16%  Similarity=0.049  Sum_probs=21.9

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      +++++++||++|+||+++|+-|++.
T Consensus       160 ~~~~~~~SA~tg~Gi~e~~~~l~~~  184 (186)
T d1f6ba_         160 PLEVFMCSVLKRQGYGEGFRWMAQY  184 (186)
T ss_dssp             CEEEEECBTTTTBSHHHHHHHHHTT
T ss_pred             CCEEEEEeCCCCCCHHHHHHHHHHh
Confidence            3568999999999999999988764

>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=98.34  E-value=7.1e-08  Score=47.54  Aligned_cols=24  Identities=13%  Similarity=0.005  Sum_probs=20.9

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAG   32 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~   32 (66)
                      .+.|++|||++|+||+++|+-|++
T Consensus       142 ~~~~~~~SA~tg~Gv~e~~~~l~~  165 (166)
T d2qtvb1         142 PVEVFMCSVVMRNGYLEAFQWLSQ  165 (166)
T ss_dssp             CEEEEEEBTTTTBSHHHHHHHHTT
T ss_pred             CCEEEEeeCCCCCCHHHHHHHHhC
Confidence            346899999999999999998864

>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=98.28  E-value=7.1e-07  Score=45.15  Aligned_cols=31  Identities=13%  Similarity=0.130  Sum_probs=26.5

Q ss_pred             HHHhCCCeEEcccCCCCCHHHHHHHHHHHHH
Q 035388            5 ADELGIPFLETSAKDAINVEQAFLTMAGEIK   35 (66)
Q Consensus         5 a~~~~~~~~etSAkt~~~v~~~F~~l~~~i~   35 (66)
                      ....+.++|.+||++|.||+++|..|++.+.
T Consensus       138 ~~~~~~~~~~iSA~tg~gid~L~~~i~~~l~  168 (180)
T d1udxa2         138 LAREGLAVLPVSALTGAGLPALKEALHALVR  168 (180)
T ss_dssp             HHTTTSCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHhcCCeEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            3456789999999999999999998887764

>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=97.97  E-value=1.9e-06  Score=42.62  Aligned_cols=26  Identities=15%  Similarity=0.195  Sum_probs=23.0

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      +.+++++|||+|.||++++..|++.+
T Consensus       136 ~~~~~~iSAk~~~gi~~L~~~l~~~l  161 (161)
T d2gj8a1         136 GHALIRLSARTGEGVDVLRNHLKQSM  161 (161)
T ss_dssp             TEEEEECCTTTCTTHHHHHHHHHHHC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHhhC
Confidence            46799999999999999999998753

>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=97.94  E-value=6.8e-06  Score=40.49  Aligned_cols=24  Identities=17%  Similarity=0.073  Sum_probs=21.4

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      .+++++|||+|.||+++|..|.++
T Consensus       136 ~~~~~vSA~~g~gi~~L~~~I~ke  159 (160)
T d1xzpa2         136 RHMVKISALKGEGLEKLEESIYRE  159 (160)
T ss_dssp             TTEEEEEGGGTCCHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhc
Confidence            679999999999999999988663

>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=97.85  E-value=1.2e-05  Score=40.17  Aligned_cols=28  Identities=21%  Similarity=0.274  Sum_probs=24.5

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      ..++++|||+|.||++++..|.+.+.++
T Consensus       139 ~~~i~iSAk~g~gid~L~~~i~~~l~e~  166 (171)
T d1mkya1         139 GEPIPVSAEHNINLDTMLETIIKKLEEK  166 (171)
T ss_dssp             CSCEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEecCCCCCHHHHHHHHHHhCCCC
Confidence            4578999999999999999999887654

>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=97.84  E-value=4.3e-06  Score=42.52  Aligned_cols=28  Identities=18%  Similarity=0.157  Sum_probs=23.8

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      +.+++|||+++.||+++|..+.+.|++.
T Consensus       170 iy~~~TsA~d~~ni~~vf~~v~d~i~~~  197 (200)
T d1zcba2         170 LYHHFTTAINTENIRLVFRDVKDTILHD  197 (200)
T ss_dssp             CEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             eEEEEeeeeCcHHHHHHHHHHHHHHHHH
Confidence            4467899999999999999888777764

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=97.72  E-value=7.5e-06  Score=40.96  Aligned_cols=31  Identities=16%  Similarity=0.333  Sum_probs=24.6

Q ss_pred             HHHHhC-CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            4 FADELG-IPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         4 ~a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      +....+ .+++.+||++|.||++++..|++.+
T Consensus       139 ~~~~~~~~~~~~vSA~~g~gi~~L~~~i~~~l  170 (179)
T d1egaa1         139 LASQMNFLDIVPISAETGLNVDTIAAIVRKHL  170 (179)
T ss_dssp             HHTTSCCSEEEECCTTTTTTHHHHHHHHHTTC
T ss_pred             hhhhcCCCCEEEEeCcCCCCHHHHHHHHHHhC
Confidence            344454 5799999999999999999887654

>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=97.68  E-value=1.3e-05  Score=40.46  Aligned_cols=26  Identities=15%  Similarity=0.303  Sum_probs=23.5

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      +.++|.+||++|.||++++..|++.+
T Consensus       146 ~~~v~~iSA~~g~Gi~~L~~~i~~~L  171 (185)
T d1lnza2         146 DYPVFPISAVTREGLRELLFEVANQL  171 (185)
T ss_dssp             CCCBCCCSSCCSSTTHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            47789999999999999999988876

>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=97.63  E-value=2.2e-05  Score=39.94  Aligned_cols=25  Identities=12%  Similarity=0.080  Sum_probs=22.4

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      .+++.+||++|.||+++|..|.+.+
T Consensus       169 ~~~~~~SA~~~~gi~el~~~i~~~l  193 (195)
T d1svia_         169 DELILFSSETKKGKDEAWGAIKKMI  193 (195)
T ss_dssp             SEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             CCEEEEeCCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999988765

>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=97.60  E-value=4.4e-05  Score=38.50  Aligned_cols=27  Identities=15%  Similarity=0.186  Sum_probs=23.8

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      .+++.+||++|.||++++..|.+.+..
T Consensus       149 ~~iv~iSA~~g~gi~eL~~~I~~~l~~  175 (179)
T d1wb1a4         149 SSIIPISAKTGFGVDELKNLIITTLNN  175 (179)
T ss_dssp             CCEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             CeEEEEEccCCcCHHHHHHHHHhcCCc
Confidence            578999999999999999999877754

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=97.51  E-value=5.8e-05  Score=37.73  Aligned_cols=26  Identities=27%  Similarity=0.215  Sum_probs=22.8

Q ss_pred             CeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388           11 PFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus        11 ~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      .++.+||++|.||++++..|.+.+.+
T Consensus       158 ~~~~vSA~~g~gi~~L~~~i~~~l~e  183 (184)
T d2cxxa1         158 VFIPISAKFGDNIERLKNRIFEVIRE  183 (184)
T ss_dssp             HEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHccC
Confidence            37889999999999999999887764

>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=97.46  E-value=5.6e-05  Score=37.61  Aligned_cols=24  Identities=8%  Similarity=-0.046  Sum_probs=20.6

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      .+++.+||++|.||++++..|..-
T Consensus       163 ~~~i~vSA~~g~Gid~L~~~i~~~  186 (188)
T d1puia_         163 VQVETFSSLKKQGVDKLRQKLDTW  186 (188)
T ss_dssp             EEEEECBTTTTBSHHHHHHHHHHH
T ss_pred             CcEEEEeCCCCCCHHHHHHHHHHH
Confidence            468999999999999999887653

>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=97.45  E-value=7.8e-05  Score=37.39  Aligned_cols=25  Identities=24%  Similarity=0.274  Sum_probs=21.5

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      .+++.+|||+|.||+++|..|.+.+
T Consensus       157 ~~i~~vSa~~g~gv~~L~~~i~~~~  181 (186)
T d1mkya2         157 SPLIFTSADKGWNIDRMIDAMNLAY  181 (186)
T ss_dssp             SCEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHH
Confidence            5689999999999999999985543

>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=97.28  E-value=2.6e-05  Score=39.17  Aligned_cols=30  Identities=17%  Similarity=-0.024  Sum_probs=23.8

Q ss_pred             HHHhC-CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            5 ADELG-IPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         5 a~~~~-~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      .+..+ ..++++||++|.||+++|..|++.+
T Consensus       139 ~~~~~~~~~~~iSA~~~~gi~~L~~~i~~~l  169 (178)
T d1wf3a1         139 HELLPEAEPRMLSALDERQVAELKADLLALM  169 (178)
T ss_dssp             HHTSTTSEEEECCTTCHHHHHHHHHHHHTTC
T ss_pred             HhhcccCceEEEecCCCCCHHHHHHHHHHhC
Confidence            33344 4588999999999999999887655

>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=97.01  E-value=0.00031  Score=35.70  Aligned_cols=24  Identities=17%  Similarity=0.228  Sum_probs=20.5

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      ++|+.+||++|.||+++.+.+.+.
T Consensus       169 ~~iIpiSA~~G~ni~~Ll~~I~~~  192 (195)
T d1kk1a3         169 APIIPISALHGANIDVLVKAIEDF  192 (195)
T ss_dssp             CCEEECBTTTTBSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            678999999999999988777554

>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=96.77  E-value=0.00065  Score=34.81  Aligned_cols=25  Identities=24%  Similarity=0.391  Sum_probs=21.7

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ++++.+||++|.||++++..|...|
T Consensus       177 ~p~ipiSA~~g~nI~~L~e~i~~~i  201 (205)
T d2qn6a3         177 VPIIPVSALHKINIDSLIEGIEEYI  201 (205)
T ss_dssp             CCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             CeEEEEeCCCCCChHHHHHHHHhhC
Confidence            6799999999999999998876653

>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=96.46  E-value=0.0016  Score=33.45  Aligned_cols=25  Identities=20%  Similarity=-0.008  Sum_probs=21.2

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGE   33 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~   33 (66)
                      .++++.+||++|+||++++..|.+.
T Consensus       216 ~~~~v~vSa~~geGi~~L~~~l~e~  240 (244)
T d1yrba1         216 PVRVLYLSAKTREGFEDLETLAYEH  240 (244)
T ss_dssp             CCCCEECCTTTCTTHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999776553

>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=96.10  E-value=0.0033  Score=32.58  Aligned_cols=27  Identities=11%  Similarity=0.226  Sum_probs=22.4

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEIKK   36 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i~~   36 (66)
                      .+++.+||++|.||++++..|....-+
T Consensus       192 ~~i~pvSa~~G~gid~Ll~~l~~l~~~  218 (227)
T d1g7sa4         192 VSIIPISAITGEGIPELLTMLMGLAQQ  218 (227)
T ss_dssp             EEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             CeEEEeeCCCCCCHHHHHHHHHHHHHH
Confidence            457899999999999999888766544

>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=95.20  E-value=0.0077  Score=33.14  Aligned_cols=26  Identities=12%  Similarity=0.087  Sum_probs=21.9

Q ss_pred             CCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      ..+.+.|||++|.||++++..|.+..
T Consensus       232 ~p~V~~~SA~~g~Gi~eL~~~I~~~~  257 (327)
T d2p67a1         232 QPRVLTCSALEKRGIDEIWHAIIDFK  257 (327)
T ss_dssp             CCEEEECBGGGTBSHHHHHHHHHHHH
T ss_pred             cceeEEEEeeCCCCHHHHHHHHHHHH
Confidence            35689999999999999998886643

>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=94.87  E-value=0.018  Score=31.55  Aligned_cols=27  Identities=7%  Similarity=0.121  Sum_probs=22.6

Q ss_pred             hCCCeEEcccCCCCCHHHHHHHHHHHH
Q 035388            8 LGIPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus         8 ~~~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      +..+.+.|||++|.||++++..|-+..
T Consensus       229 ~~p~V~~~Sa~~g~Gi~el~~~I~~~~  255 (323)
T d2qm8a1         229 WTPPVVTISGLHGKGLDSLWSRIEDHR  255 (323)
T ss_dssp             BCCCEEEEBTTTTBSHHHHHHHHHHHH
T ss_pred             CCCceEEEEecCCCCHHHHHHHHHHHH
Confidence            345799999999999999998886543

>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=94.81  E-value=0.0049  Score=31.78  Aligned_cols=27  Identities=22%  Similarity=0.111  Sum_probs=23.3

Q ss_pred             CeEEcccCCCCCHHHHHHHHHHHHHHH
Q 035388           11 PFLETSAKDAINVEQAFLTMAGEIKKK   37 (66)
Q Consensus        11 ~~~etSAkt~~~v~~~F~~l~~~i~~~   37 (66)
                      .+++|||+++.||..+|..+...|++.
T Consensus       190 y~h~T~A~Dt~ni~~vf~~v~d~I~~~  216 (221)
T d1azta2         190 YPHFTCAVDTENIRRVFNDCRDIIQRM  216 (221)
T ss_dssp             EEEECCTTCHHHHHHHHHTTHHHHHHH
T ss_pred             eeeecceeccHHHHHHHHHHHHHHHHH
Confidence            356999999999999999988888764

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=84.65  E-value=0.39  Score=25.63  Aligned_cols=25  Identities=16%  Similarity=0.122  Sum_probs=22.0

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      +|.|-.||.++.||.++...|++.+
T Consensus       250 ~PV~~GSA~~n~GV~~LLD~i~~~~  274 (276)
T d2bv3a2         250 TPVFLGSALKNKGVQLLLDAVVDYL  274 (276)
T ss_dssp             EEEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             EEEEEeECCCCcCHHHHHHHHHHhC
Confidence            6799999999999999999887653

>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=83.79  E-value=0.071  Score=27.93  Aligned_cols=18  Identities=22%  Similarity=0.368  Sum_probs=15.3

Q ss_pred             CCeEEcccCCCCCHHHHH
Q 035388           10 IPFLETSAKDAINVEQAF   27 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F   27 (66)
                      ++|+-+||++|.||.+++
T Consensus       207 v~~VPiSA~~G~nI~~~~  224 (245)
T d1r5ba3         207 VKYMPVSAYTGQNVKDRV  224 (245)
T ss_dssp             EEEEECBTTTTBTTSSCC
T ss_pred             CEEEEeeccCCCCcccch
Confidence            468999999999997654

>d1irqa_ a.43.1.4 (A:) Omega transcriptional repressor {Streptococcus pyogenes [TaxId: 1314]}

class: All alpha proteins
fold: Ribbon-helix-helix
superfamily: Ribbon-helix-helix
family: Omega transcriptional repressor
domain: Omega transcriptional repressor
species: Streptococcus pyogenes [TaxId: 1314]

Probab=83.66  E-value=0.62  Score=17.83  Aligned_cols=23  Identities=26%  Similarity=0.247  Sum_probs=18.2

Q ss_pred             ccCCCCCHHHHHHHHHHHHHHHh
Q 035388           16 SAKDAINVEQAFLTMAGEIKKKM   38 (66)
Q Consensus        16 SAkt~~~v~~~F~~l~~~i~~~~   38 (66)
                      .||.|-||.++++...+.-++..
T Consensus        21 taknggnvkevm~~~l~~~~~~~   43 (48)
T d1irqa_          21 TAKNGGNVKEVMDQALEEYIRKY   43 (48)
T ss_dssp             HHHHTCCHHHHHHHHHHHHHHHH
T ss_pred             ecccCCCHHHHHHHHHHHHHHHh
Confidence            48899999999988877766543

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=80.97  E-value=0.51  Score=25.02  Aligned_cols=25  Identities=16%  Similarity=0.162  Sum_probs=21.6

Q ss_pred             CCeEEcccCCCCCHHHHHHHHHHHH
Q 035388           10 IPFLETSAKDAINVEQAFLTMAGEI   34 (66)
Q Consensus        10 ~~~~etSAkt~~~v~~~F~~l~~~i   34 (66)
                      +|.|-.||.++.||.++.+.+++.+
T Consensus       241 ~PV~~GSA~~n~GV~~LLd~i~~~~  265 (267)
T d2dy1a2         241 YPVALASGEREIGVLPLLELILEAL  265 (267)
T ss_dssp             EEEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             EEEEeCcCCCCcCHHHHHHHHHHhC
Confidence            5789999999999999998887653

>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=80.77  E-value=0.97  Score=23.43  Aligned_cols=22  Identities=27%  Similarity=0.338  Sum_probs=18.5

Q ss_pred             CCCeEEcccCCCCCHHHHHHHH
Q 035388            9 GIPFLETSAKDAINVEQAFLTM   30 (66)
Q Consensus         9 ~~~~~etSAkt~~~v~~~F~~l   30 (66)
                      +.+.+.+||+++.+++++-..+
T Consensus        72 ~~~v~~vSa~~~~g~~~L~~~l   93 (225)
T d1u0la2          72 LYPIVKTSAKTGMGIEELKEYL   93 (225)
T ss_dssp             TSCEEECCTTTCTTHHHHHHHH
T ss_pred             ceeEEEeccccchhHhhHHHHh
Confidence            3678999999999999987655