Citrus Sinensis ID: 045003

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90---
Protein Sequence
MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNFVIVLRKNNCQGTYLFPWSYSELGLSSLISFGFRN
Secondary Structure (PSIPRED)
cHHHHHHccccccccccccEEEEEcEEEEEcccEEEEEEEccEEcccccEEEEEEEEEEEEEEEEccccEEEEEEccccccccccEEEccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHccHHHHHcccccEEEEEEEEEcccccEEEEEcccEEEEHcHHHHHHHHHcEEEEEEcccccccEEccccHHHHccHHHHEccccc
Coil and Loop (DISEMBL)
MISDALRQTSVVAKEAGGITQHVGAFVIGMStggikfnfhncefyhrtsLFFFVQLRNFVIVLRknncqgtylfpwsyselglsslisfgfrn
Flexible Loop (DISEMBL)
MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNFVIVLRKNNCQGTYLFpwsyselglsslisfgfrn
Low Complexity Region (SEG)
MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNFVIVLRKNNCQGTYLFPWSYSELGLSSLISFGFRN
Disordered region (IsUnstruct)
***********VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNFVIVLRKNNCQGTYLFPWSYSELGLSSLISFG***
Disordered Region (DISOPRED)
MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNFVIVLRKNNCQGTYLFPWSYSELGLSSLISFGFR*
Disordered Region (DISEMBL)
MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNFVIVLRKNNCQGTYLFPWSYSELGLSSLISFGFRN
Disordered Region (DISPRO)
*ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNFVIVLRKNNCQGTYLFPWSYSELGLSSLISFGFRN
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiii
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNFVIVLRKNNCQGTYLFPWSYSELGLSSLISFGFRN
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	93	2.2.26 [Sep-21-2011]
Q2VZV0	872	Translation initiation fa	yes	no	0.322	0.034	0.666	3e-05
Q97I51	693	Translation initiation fa	yes	no	0.365	0.049	0.529	5e-05
A7HZ93	887	Translation initiation fa	yes	no	0.322	0.033	0.633	5e-05
A4IW10	843	Translation initiation fa	yes	no	0.365	0.040	0.588	6e-05
Q5NIL7	846	Translation initiation fa	yes	no	0.365	0.040	0.588	6e-05
Q0BK70	846	Translation initiation fa	yes	no	0.365	0.040	0.588	6e-05
A0Q8F3	846	Translation initiation fa	yes	no	0.365	0.040	0.588	6e-05
B2SEW7	846	Translation initiation fa	yes	no	0.365	0.040	0.588	6e-05
Q2A1G8	846	Translation initiation fa	yes	no	0.365	0.040	0.588	6e-05
A7NEI8	846	Translation initiation fa	yes	no	0.365	0.040	0.588	6e-05

>sp|Q2VZV0|IF2_MAGSA Translation initiation factor IF-2 OS=Magnetospirillum magneticum (strain AMB-1 / ATCC 700264) GN=infB PE=3 SV=1

 Score = 47.0 bits (110), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 20/30 (66%), Positives = 25/30 (83%)

Query: 4   DALRQTSVVAKEAGGITQHVGAFVIGMSTG 33
           DALR T VV+ EAGGITQH+GA+ + MS+G
Sbjct: 391 DALRATDVVSGEAGGITQHIGAYQVTMSSG 420

One of the essential components for the initiation of protein synthesis. Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex.
Magnetospirillum magneticum (strain AMB-1 / ATCC 700264) (taxid: 342108)

>sp|Q97I51|IF2_CLOAB Translation initiation factor IF-2 OS=Clostridium acetobutylicum (strain ATCC 824 / DSM 792 / JCM 1419 / LMG 5710 / VKM B-1787) GN=infB PE=3 SV=1

 Score = 46.6 bits (109), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 18/34 (52%), Positives = 26/34 (76%)

Query: 4   DALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKF 37
           DA+R++SV   EAGGITQH+GA+ + M+ G + F
Sbjct: 213 DAIRKSSVTETEAGGITQHIGAYTVKMNEGKVTF 246

One of the essential components for the initiation of protein synthesis. Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex.

Clostridium acetobutylicum (strain ATCC 824 / DSM 792 / JCM 1419 / LMG 5710 / VKM B-1787) (taxid: 272562)

>sp|A7HZ93|IF2_PARL1 Translation initiation factor IF-2 OS=Parvibaculum lavamentivorans (strain DS-1 / DSM 13023 / NCIMB 13966) GN=infB PE=3 SV=1

 Score = 46.6 bits (109), Expect = 5e-05,   Method: Composition-based stats.
 Identities = 19/30 (63%), Positives = 25/30 (83%)

Query: 4   DALRQTSVVAKEAGGITQHVGAFVIGMSTG 33
           DALR+T V A EAGGITQH+GA+ + +S+G
Sbjct: 405 DALRKTDVAAGEAGGITQHIGAYQVNLSSG 434

One of the essential components for the initiation of protein synthesis. Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex.

Parvibaculum lavamentivorans (strain DS-1 / DSM 13023 / NCIMB 13966) (taxid: 402881)

>sp|A4IW10|IF2_FRATW Translation initiation factor IF-2 OS=Francisella tularensis subsp. tularensis (strain WY96-3418) GN=infB PE=3 SV=1

 Score = 46.2 bits (108), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 20/34 (58%), Positives = 24/34 (70%)

Query: 4   DALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKF 37
           D +RQT VVA EAGGITQH+GA+ +    G I F
Sbjct: 365 DYIRQTRVVAGEAGGITQHIGAYSVKTDKGSITF 398

One of the essential components for the initiation of protein synthesis. Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex.

Francisella tularensis subsp. tularensis (strain WY96-3418) (taxid: 418136)

>sp|Q5NIL7|IF2_FRATT Translation initiation factor IF-2 OS=Francisella tularensis subsp. tularensis (strain SCHU S4 / Schu 4) GN=infB PE=3 SV=1

 Score = 46.2 bits (108), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 20/34 (58%), Positives = 24/34 (70%)

Query: 4   DALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKF 37
           D +RQT VVA EAGGITQH+GA+ +    G I F
Sbjct: 365 DYIRQTRVVAGEAGGITQHIGAYSVKTDKGSITF 398

One of the essential components for the initiation of protein synthesis. Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex.

Francisella tularensis subsp. tularensis (strain SCHU S4 / Schu 4) (taxid: 177416)

>sp|Q0BK70|IF2_FRATO Translation initiation factor IF-2 OS=Francisella tularensis subsp. holarctica (strain OSU18) GN=infB PE=3 SV=1

 Score = 46.2 bits (108), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 20/34 (58%), Positives = 24/34 (70%)

Query: 4   DALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKF 37
           D +RQT VVA EAGGITQH+GA+ +    G I F
Sbjct: 365 DYIRQTRVVAGEAGGITQHIGAYSVKTDKGSITF 398

One of the essential components for the initiation of protein synthesis. Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex.

Francisella tularensis subsp. holarctica (strain OSU18) (taxid: 393011)

>sp|A0Q8F3|IF2_FRATN Translation initiation factor IF-2 OS=Francisella tularensis subsp. novicida (strain U112) GN=infB PE=3 SV=1

 Score = 46.2 bits (108), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 20/34 (58%), Positives = 24/34 (70%)

Query: 4   DALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKF 37
           D +RQT VVA EAGGITQH+GA+ +    G I F
Sbjct: 365 DYIRQTRVVAGEAGGITQHIGAYSVKTDKGSITF 398

One of the essential components for the initiation of protein synthesis. Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex.

Francisella tularensis subsp. novicida (strain U112) (taxid: 401614)

>sp|B2SEW7|IF2_FRATM Translation initiation factor IF-2 OS=Francisella tularensis subsp. mediasiatica (strain FSC147) GN=infB PE=3 SV=1

 Score = 46.2 bits (108), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 20/34 (58%), Positives = 24/34 (70%)

Query: 4   DALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKF 37
           D +RQT VVA EAGGITQH+GA+ +    G I F
Sbjct: 365 DYIRQTRVVAGEAGGITQHIGAYSVKTDKGSITF 398

One of the essential components for the initiation of protein synthesis. Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex.

Francisella tularensis subsp. mediasiatica (strain FSC147) (taxid: 441952)

>sp|Q2A1G8|IF2_FRATH Translation initiation factor IF-2 OS=Francisella tularensis subsp. holarctica (strain LVS) GN=infB PE=3 SV=1

 Score = 46.2 bits (108), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 20/34 (58%), Positives = 24/34 (70%)

Query: 4   DALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKF 37
           D +RQT VVA EAGGITQH+GA+ +    G I F
Sbjct: 365 DYIRQTRVVAGEAGGITQHIGAYSVKTDKGSITF 398

One of the essential components for the initiation of protein synthesis. Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex.

Francisella tularensis subsp. holarctica (strain LVS) (taxid: 376619)

>sp|A7NEI8|IF2_FRATF Translation initiation factor IF-2 OS=Francisella tularensis subsp. holarctica (strain FTNF002-00 / FTA) GN=infB PE=3 SV=1

 Score = 46.2 bits (108), Expect = 6e-05,   Method: Composition-based stats.
 Identities = 20/34 (58%), Positives = 24/34 (70%)

Query: 4   DALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKF 37
           D +RQT VVA EAGGITQH+GA+ +    G I F
Sbjct: 365 DYIRQTRVVAGEAGGITQHIGAYSVKTDKGSITF 398

One of the essential components for the initiation of protein synthesis. Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex.

Francisella tularensis subsp. holarctica (strain FTNF002-00 / FTA) (taxid: 458234)

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	93
357485531	749	Translation initiation factor IF-2 [Medi	0.333	0.041	0.838	2e-07
414587052	712	TPA: putative translation elongation/ini	0.333	0.043	0.806	1e-06
51970998	743	putative translation initiation factor I	0.387	0.048	0.694	2e-06
42566430	743	translation initiation factor IF-2 [Arab	0.387	0.048	0.694	2e-06
297809341	746	hypothetical protein ARALYDRAFT_489954 [	0.387	0.048	0.694	2e-06
3600049	603	similar to initiation factor IF2-beta (P	0.387	0.059	0.694	2e-06
356572878	718	PREDICTED: translation initiation factor	0.333	0.043	0.774	3e-06
242073210	685	hypothetical protein SORBIDRAFT_06g01782	0.333	0.045	0.774	5e-06
357130053	711	PREDICTED: translation initiation factor	0.333	0.043	0.741	6e-06
356505721	718	PREDICTED: translation initiation factor	0.333	0.043	0.774	7e-06

>gi|357485531|ref|XP_003613053.1| Translation initiation factor IF-2 [Medicago truncatula] gi|355514388|gb|AES96011.1| Translation initiation factor IF-2 [Medicago truncatula]

 Score = 59.7 bits (143), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 26/31 (83%), Positives = 29/31 (93%)

Query: 4   DALRQTSVVAKEAGGITQHVGAFVIGMSTGG 34
           DALRQTSV AKEAGGITQH+GAFV+GMS+G 
Sbjct: 171 DALRQTSVAAKEAGGITQHLGAFVVGMSSGA 201

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|414587052|tpg|DAA37623.1| TPA: putative translation elongation/initiation factor family protein [Zea mays]

 Score = 57.0 bits (136), Expect = 1e-06,   Method: Composition-based stats.
 Identities = 25/31 (80%), Positives = 28/31 (90%)

Query: 4   DALRQTSVVAKEAGGITQHVGAFVIGMSTGG 34
           DALRQTSV AKEAGGITQH+GAFV+ MS+G 
Sbjct: 211 DALRQTSVAAKEAGGITQHIGAFVVEMSSGA 241

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|51970998|dbj|BAD44191.1| putative translation initiation factor IF-2 [Arabidopsis thaliana]

 Score = 56.6 bits (135), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 25/36 (69%), Positives = 27/36 (75%)

Query: 4   DALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNF 39
           DALR TSV A+EAGGITQHVGAFV+GM   G    F
Sbjct: 237 DALRNTSVAAREAGGITQHVGAFVVGMPDSGTSITF 272

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|42566430|ref|NP_192854.2| translation initiation factor IF-2 [Arabidopsis thaliana] gi|51536512|gb|AAU05494.1| At4g11160 [Arabidopsis thaliana] gi|51969726|dbj|BAD43555.1| putative translation initiation factor IF-2 [Arabidopsis thaliana] gi|51970152|dbj|BAD43768.1| putative translation initiation factor IF-2 [Arabidopsis thaliana] gi|51970248|dbj|BAD43816.1| putative translation initiation factor IF-2 [Arabidopsis thaliana] gi|51970442|dbj|BAD43913.1| putative translation initiation factor IF-2 [Arabidopsis thaliana] gi|53850507|gb|AAU95430.1| At4g11160 [Arabidopsis thaliana] gi|62318855|dbj|BAD93919.1| translation initiation factor IF-2 like protein [Arabidopsis thaliana] gi|62319537|dbj|BAD94965.1| translation initiation factor IF-2 like protein [Arabidopsis thaliana] gi|332657579|gb|AEE82979.1| translation initiation factor IF-2 [Arabidopsis thaliana]

 Score = 56.6 bits (135), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 25/36 (69%), Positives = 27/36 (75%)

Query: 4   DALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNF 39
           DALR TSV A+EAGGITQHVGAFV+GM   G    F
Sbjct: 237 DALRNTSVAAREAGGITQHVGAFVVGMPDSGTSITF 272

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297809341|ref|XP_002872554.1| hypothetical protein ARALYDRAFT_489954 [Arabidopsis lyrata subsp. lyrata] gi|297318391|gb|EFH48813.1| hypothetical protein ARALYDRAFT_489954 [Arabidopsis lyrata subsp. lyrata]

 Score = 56.6 bits (135), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 25/36 (69%), Positives = 27/36 (75%)

Query: 4   DALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNF 39
           DALR TSV A+EAGGITQHVGAFV+GM   G    F
Sbjct: 240 DALRNTSVAAREAGGITQHVGAFVVGMPDSGTSITF 275

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|3600049|gb|AAC35536.1| similar to initiation factor IF2-beta (Pfam: GTP_EFTU.hmm, score: 226.67) [Arabidopsis thaliana] gi|4850295|emb|CAB43051.1| putative translation initiation factor IF-2 [Arabidopsis thaliana] gi|7267815|emb|CAB81217.1| putative translation initiation factor IF-2 [Arabidopsis thaliana]

 Score = 56.6 bits (135), Expect = 2e-06,   Method: Composition-based stats.
 Identities = 25/36 (69%), Positives = 27/36 (75%)

Query: 4   DALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNF 39
           DALR TSV A+EAGGITQHVGAFV+GM   G    F
Sbjct: 84  DALRNTSVAAREAGGITQHVGAFVVGMPDSGTSITF 119

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356572878|ref|XP_003554592.1| PREDICTED: translation initiation factor IF-2-like [Glycine max]

 Score = 55.8 bits (133), Expect = 3e-06,   Method: Composition-based stats.
 Identities = 24/31 (77%), Positives = 27/31 (87%)

Query: 4   DALRQTSVVAKEAGGITQHVGAFVIGMSTGG 34
           DALRQTSV AKEAGGITQH+GAFV+ M +G 
Sbjct: 217 DALRQTSVAAKEAGGITQHIGAFVVAMPSGA 247

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242073210|ref|XP_002446541.1| hypothetical protein SORBIDRAFT_06g017820 [Sorghum bicolor] gi|241937724|gb|EES10869.1| hypothetical protein SORBIDRAFT_06g017820 [Sorghum bicolor]

 Score = 55.1 bits (131), Expect = 5e-06,   Method: Composition-based stats.
 Identities = 24/31 (77%), Positives = 27/31 (87%)

Query: 4   DALRQTSVVAKEAGGITQHVGAFVIGMSTGG 34
           DALRQTSV AKEAGGITQH+GAFV+ M +G 
Sbjct: 184 DALRQTSVAAKEAGGITQHIGAFVVEMPSGA 214

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357130053|ref|XP_003566671.1| PREDICTED: translation initiation factor IF-2-like [Brachypodium distachyon]

 Score = 54.7 bits (130), Expect = 6e-06,   Method: Composition-based stats.
 Identities = 23/31 (74%), Positives = 28/31 (90%)

Query: 4   DALRQTSVVAKEAGGITQHVGAFVIGMSTGG 34
           D+LRQTSV AKEAGGITQH+GAFV+ M++G 
Sbjct: 210 DSLRQTSVAAKEAGGITQHIGAFVVEMTSGA 240

Source: Brachypodium distachyon

Species: Brachypodium distachyon

Genus: Brachypodium

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356505721|ref|XP_003521638.1| PREDICTED: translation initiation factor IF-2-like [Glycine max]

 Score = 54.7 bits (130), Expect = 7e-06,   Method: Composition-based stats.
 Identities = 24/31 (77%), Positives = 27/31 (87%)

Query: 4   DALRQTSVVAKEAGGITQHVGAFVIGMSTGG 34
           DALRQTSV AKEAGGITQH+GAFV+ M +G 
Sbjct: 217 DALRQTSVAAKEAGGITQHIGAFVVVMPSGA 247

Source: Glycine max

Species: Glycine max

Genus: Glycine

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	93
TAIR|locus:2136098	743	AT4G11160 [Arabidopsis thalian	0.387	0.048	0.694	3.4e-07
UNIPROTKB|J9P9B1	673	MTIF2 "Uncharacterized protein	0.322	0.044	0.6	0.00024
SGD|S000005383	676	IFM1 "Mitochondrial translatio	0.408	0.056	0.578	0.00024
UNIPROTKB|P46198	727	MTIF2 "Translation initiation	0.322	0.041	0.6	0.00026
UNIPROTKB|E2R3A4	727	MTIF2 "Uncharacterized protein	0.322	0.041	0.6	0.00026
ZFIN|ZDB-GENE-030131-1092	705	mtif2 "mitochondrial translati	0.322	0.042	0.566	0.00052
UNIPROTKB|E1BZP9	726	MTIF2 "Translation initiation	0.322	0.041	0.566	0.00054
MGI|MGI:1924034	727	Mtif2 "mitochondrial translati	0.322	0.041	0.566	0.00054
RGD|1303046	727	Mtif2 "mitochondrial translati	0.322	0.041	0.566	0.00054
UNIPROTKB|F1SQK6	727	MTIF2 "Translation initiation	0.322	0.041	0.566	0.00069

TAIR|locus:2136098 AT4G11160 [Arabidopsis thaliana (taxid:3702)]

 Score = 128 (50.1 bits), Expect = 3.4e-07, P = 3.4e-07
 Identities = 25/36 (69%), Positives = 27/36 (75%)

Query:     4 DALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNF 39
             DALR TSV A+EAGGITQHVGAFV+GM   G    F
Sbjct:   237 DALRNTSVAAREAGGITQHVGAFVVGMPDSGTSITF 272

GO:0003743 "translation initiation factor activity" evidence=IEA;ISS

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0006413 "translational initiation" evidence=IEA

GO:0009165 "nucleotide biosynthetic process" evidence=RCA

GO:0009887 "organ morphogenesis" evidence=RCA

GO:0009888 "tissue development" evidence=RCA

GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=RCA

GO:0010638 "positive regulation of organelle organization" evidence=RCA

GO:0016926 "protein desumoylation" evidence=RCA

GO:0033044 "regulation of chromosome organization" evidence=RCA

GO:0050665 "hydrogen peroxide biosynthetic process" evidence=RCA

UNIPROTKB|J9P9B1 MTIF2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 101 (40.6 bits), Expect = 0.00024, P = 0.00024
 Identities = 18/30 (60%), Positives = 24/30 (80%)

Query:     4 DALRQTSVVAKEAGGITQHVGAFVIGMSTG 33
             D LR+T V A EAGGITQH+GAF++ + +G
Sbjct:   198 DKLRKTQVAAMEAGGITQHIGAFLVSLPSG 227

GO:0005525 "GTP binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

SGD|S000005383 IFM1 "Mitochondrial translation initiation factor 2" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 101 (40.6 bits), Expect = 0.00024, P = 0.00024
 Identities = 22/38 (57%), Positives = 26/38 (68%)

Query:     2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNF 39
             I D LR++SVVA+E GGITQH+GAF I     G K  F
Sbjct:   161 IIDYLRKSSVVAQEHGGITQHIGAFQITAPKSGKKITF 198

GO:0003924 "GTPase activity" evidence=IEA;IDA

GO:0003743 "translation initiation factor activity" evidence=IEA;ISA;IDA

GO:0006413 "translational initiation" evidence=IEA;ISA

GO:0005622 "intracellular" evidence=IEA

GO:0070124 "mitochondrial translational initiation" evidence=IC

GO:0000049 "tRNA binding" evidence=IDA

GO:0032543 "mitochondrial translation" evidence=IMP

GO:0005525 "GTP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA;IMP;IDA

GO:0006184 "GTP catabolic process" evidence=IEA

GO:0006412 "translation" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|P46198 MTIF2 "Translation initiation factor IF-2, mitochondrial" [Bos taurus (taxid:9913)]

 Score = 101 (40.6 bits), Expect = 0.00026, P = 0.00026
 Identities = 18/30 (60%), Positives = 24/30 (80%)

Query:     4 DALRQTSVVAKEAGGITQHVGAFVIGMSTG 33
             D LR+T V A EAGGITQH+GAF++ + +G
Sbjct:   198 DKLRKTQVAAMEAGGITQHIGAFLVSLPSG 227

GO:0005739 "mitochondrion" evidence=IDA

GO:0043024 "ribosomal small subunit binding" evidence=IDA

GO:0008135 "translation factor activity, nucleic acid binding" evidence=IDA

GO:0006446 "regulation of translational initiation" evidence=IDA

GO:0005525 "GTP binding" evidence=IEA

GO:0003743 "translation initiation factor activity" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

UNIPROTKB|E2R3A4 MTIF2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 101 (40.6 bits), Expect = 0.00026, P = 0.00026
 Identities = 18/30 (60%), Positives = 24/30 (80%)

Query:     4 DALRQTSVVAKEAGGITQHVGAFVIGMSTG 33
             D LR+T V A EAGGITQH+GAF++ + +G
Sbjct:   198 DKLRKTQVAAMEAGGITQHIGAFLVSLPSG 227

GO:0005739 "mitochondrion" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0003743 "translation initiation factor activity" evidence=IEA

ZFIN|ZDB-GENE-030131-1092 mtif2 "mitochondrial translational initiation factor 2" [Danio rerio (taxid:7955)]

 Score = 98 (39.6 bits), Expect = 0.00052, P = 0.00052
 Identities = 17/30 (56%), Positives = 26/30 (86%)

Query:     4 DALRQTSVVAKEAGGITQHVGAFVIGMSTG 33
             D+LR++ +VA+EAGGITQH+GAF + + +G
Sbjct:   176 DSLRKSQIVAQEAGGITQHIGAFRVELPSG 205

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0006413 "translational initiation" evidence=IEA

GO:0003743 "translation initiation factor activity" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|E1BZP9 MTIF2 "Translation initiation factor IF-2" [Gallus gallus (taxid:9031)]

 Score = 98 (39.6 bits), Expect = 0.00054, P = 0.00054
 Identities = 17/30 (56%), Positives = 25/30 (83%)

Query:     4 DALRQTSVVAKEAGGITQHVGAFVIGMSTG 33
             D+LR+T + A EAGGITQH+GAF++ + +G
Sbjct:   198 DSLRKTQLAAMEAGGITQHIGAFLVHLPSG 227

GO:0003743 "translation initiation factor activity" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IEA

MGI|MGI:1924034 Mtif2 "mitochondrial translational initiation factor 2" [Mus musculus (taxid:10090)]

 Score = 98 (39.6 bits), Expect = 0.00054, P = 0.00054
 Identities = 17/30 (56%), Positives = 23/30 (76%)

Query:     4 DALRQTSVVAKEAGGITQHVGAFVIGMSTG 33
             D LR+T V A E GGITQH+GAF++ + +G
Sbjct:   198 DKLRETQVAAMEVGGITQHIGAFLVSLPSG 227

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003743 "translation initiation factor activity" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0006412 "translation" evidence=IEA

GO:0006413 "translational initiation" evidence=IEA

GO:0008150 "biological_process" evidence=ND

RGD|1303046 Mtif2 "mitochondrial translational initiation factor 2" [Rattus norvegicus (taxid:10116)]

 Score = 98 (39.6 bits), Expect = 0.00054, P = 0.00054
 Identities = 17/30 (56%), Positives = 23/30 (76%)

Query:     4 DALRQTSVVAKEAGGITQHVGAFVIGMSTG 33
             D LR+T V A E GGITQH+GAF++ + +G
Sbjct:   198 DKLRETQVAAMEVGGITQHIGAFLVSLPSG 227

GO:0003743 "translation initiation factor activity" evidence=TAS

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=TAS

GO:0005739 "mitochondrion" evidence=ISO;ISS;TAS

GO:0006412 "translation" evidence=TAS

GO:0006413 "translational initiation" evidence=TAS

GO:0006446 "regulation of translational initiation" evidence=ISS

GO:0008135 "translation factor activity, nucleic acid binding" evidence=ISS

GO:0043024 "ribosomal small subunit binding" evidence=ISS

UNIPROTKB|F1SQK6 MTIF2 "Translation initiation factor IF-2" [Sus scrofa (taxid:9823)]

 Score = 97 (39.2 bits), Expect = 0.00069, P = 0.00069
 Identities = 17/30 (56%), Positives = 23/30 (76%)

Query:     4 DALRQTSVVAKEAGGITQHVGAFVIGMSTG 33
             D LR+T V A E GGITQH+GAF++ + +G
Sbjct:   198 DQLRKTQVAAMEVGGITQHIGAFLVSLPSG 227

GO:0005739 "mitochondrion" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

GO:0003743 "translation initiation factor activity" 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

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

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

No confident hit detected by STRING

---

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	93
cd01887	169	cd01887, IF2_eIF5B, Initiation Factor 2 (IF2)/ euk	1e-11
COG0532	509	COG0532, InfB, Translation initiation factor 2 (IF	3e-11
PRK05306	746	PRK05306, infB, translation initiation factor IF-2	5e-11
PRK04004	586	PRK04004, PRK04004, translation initiation factor	5e-08
TIGR00491	590	TIGR00491, aIF-2, translation initiation factor aI	4e-07
TIGR00487	587	TIGR00487, IF-2, translation initiation factor IF-	6e-07
PRK14845	1049	PRK14845, PRK14845, translation initiation factor	1e-06
CHL00189	742	CHL00189, infB, translation initiation factor 2; P	6e-04

>gnl|CDD|206674 cd01887, IF2_eIF5B, Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family

 Score = 57.1 bits (139), Expect = 1e-11
 Identities = 16/36 (44%), Positives = 23/36 (63%)

Query: 4  DALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNF 39
          D +R+T+V A EAGGITQH+GA+ + +        F
Sbjct: 18 DKIRKTNVAAGEAGGITQHIGAYQVPIDVKIPGITF 53

IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases, IF2/IF5B undergoes conformational changes between its GTP- and GDP-bound states. Eukaryotic IF2/eIF5Bs possess three characteristic segments, including a divergent N-terminal region followed by conserved central and C-terminal segments. This core region is conserved among all known eukaryotic and archaeal IF2/eIF5Bs and eubacterial IF2s. Length = 169

>gnl|CDD|223606 COG0532, InfB, Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

 Score = 57.6 bits (140), Expect = 3e-11
 Identities = 16/33 (48%), Positives = 23/33 (69%)

Query: 4  DALRQTSVVAKEAGGITQHVGAFVIGMSTGGIK 36
          D +R+T+V A EAGGITQH+GA+ + +    I 
Sbjct: 23 DKIRKTNVAAGEAGGITQHIGAYQVPLDVIKIP 55

Length = 509

>gnl|CDD|235401 PRK05306, infB, translation initiation factor IF-2; Validated

 Score = 56.8 bits (138), Expect = 5e-11
 Identities = 19/34 (55%), Positives = 26/34 (76%)

Query: 4   DALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKF 37
           DA+R+T+V A EAGGITQH+GA+ +  + G I F
Sbjct: 267 DAIRKTNVAAGEAGGITQHIGAYQVETNGGKITF 300

Length = 746

>gnl|CDD|235195 PRK04004, PRK04004, translation initiation factor IF-2; Validated

 Score = 48.3 bits (116), Expect = 5e-08
 Identities = 16/29 (55%), Positives = 21/29 (72%)

Query: 4  DALRQTSVVAKEAGGITQHVGAFVIGMST 32
          D +R T+V AKEAGGITQH+GA  + +  
Sbjct: 24 DKIRGTAVAAKEAGGITQHIGATEVPIDV 52

Length = 586

>gnl|CDD|129582 TIGR00491, aIF-2, translation initiation factor aIF-2/yIF-2

 Score = 45.6 bits (108), Expect = 4e-07
 Identities = 15/28 (53%), Positives = 20/28 (71%)

Query: 4  DALRQTSVVAKEAGGITQHVGAFVIGMS 31
          D +R ++V  +EAGGITQH+GA  I M 
Sbjct: 22 DKIRGSAVAKREAGGITQHIGATEIPMD 49

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; the alignment generated by This model does not correctly align the sequences from Methanococcus jannaschii and Pyrococcus horikoshii in this region [Protein synthesis, Translation factors]. Length = 590

>gnl|CDD|232995 TIGR00487, IF-2, translation initiation factor IF-2

 Score = 45.1 bits (107), Expect = 6e-07
 Identities = 15/30 (50%), Positives = 21/30 (70%)

Query: 4   DALRQTSVVAKEAGGITQHVGAFVIGMSTG 33
           D++R+T V   EAGGITQH+GA+ +    G
Sbjct: 105 DSIRKTKVAQGEAGGITQHIGAYHVENEDG 134

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 [Protein synthesis, Translation factors]. Length = 587

>gnl|CDD|237833 PRK14845, PRK14845, translation initiation factor IF-2; Provisional

 Score = 44.5 bits (105), Expect = 1e-06
 Identities = 15/22 (68%), Positives = 18/22 (81%)

Query: 4   DALRQTSVVAKEAGGITQHVGA 25
           D +R+T V  KEAGGITQH+GA
Sbjct: 479 DKIRKTRVAKKEAGGITQHIGA 500

Length = 1049

>gnl|CDD|177089 CHL00189, infB, translation initiation factor 2; Provisional

 Score = 36.7 bits (85), Expect = 6e-04
 Identities = 13/23 (56%), Positives = 18/23 (78%)

Query: 4   DALRQTSVVAKEAGGITQHVGAF 26
           D +R+T +  KEAGGITQ +GA+
Sbjct: 262 DKIRKTQIAQKEAGGITQKIGAY 284

Length = 742

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	93
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.94
KOG1145	683	consensus Mitochondrial translation initiation fac	99.93
PRK14845	1049	translation initiation factor IF-2; Provisional	99.76
KOG1144	1064	consensus Translation initiation factor 5B (eIF-5B	99.71
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.4
PRK05306	787	infB translation initiation factor IF-2; Validated	99.35
PRK04004	586	translation initiation factor IF-2; Validated	99.34
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.29
CHL00189	742	infB translation initiation factor 2; Provisional	99.19
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	98.56
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	97.96
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	97.86
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	97.74
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	97.69
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	97.67
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	97.58
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	97.57
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	97.54
CHL00071	409	tufA elongation factor Tu	97.53
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	97.51
PLN00043	447	elongation factor 1-alpha; Provisional	97.51
PTZ00141	446	elongation factor 1- alpha; Provisional	97.49
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	97.47
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	97.46
PRK12735	396	elongation factor Tu; Reviewed	97.46
PLN03127	447	Elongation factor Tu; Provisional	97.45
PRK12317	425	elongation factor 1-alpha; Reviewed	97.45
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	97.44
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	97.43
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	97.43
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	97.41
PRK00049	396	elongation factor Tu; Reviewed	97.38
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	97.31
PRK12736	394	elongation factor Tu; Reviewed	97.3
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	97.3
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	97.28
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	97.24
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	97.24
TIGR00485	394	EF-Tu translation elongation factor TU. This align	97.22
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	97.2
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	97.1
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	97.05
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	97.02
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	97.02
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	96.97
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	96.96
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	96.95
PLN03126	478	Elongation factor Tu; Provisional	96.91
PRK07560	731	elongation factor EF-2; Reviewed	96.9
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	96.88
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	96.87
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	96.87
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	96.87
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	96.83
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	96.81
PRK05433	600	GTP-binding protein LepA; Provisional	96.77
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	96.76
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	96.74
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	96.71
KOG0465	721	consensus Mitochondrial elongation factor [Transla	96.71
PRK12739	691	elongation factor G; Reviewed	96.7
cd00881	189	GTP_translation_factor GTP translation factor fami	96.7
PTZ00416	836	elongation factor 2; Provisional	96.65
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	96.59
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	96.57
COG1217	603	TypA Predicted membrane GTPase involved in stress	96.54
KOG0462	650	consensus Elongation factor-type GTP-binding prote	96.47
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	96.47
PRK00741	526	prfC peptide chain release factor 3; Provisional	96.46
PRK10218	607	GTP-binding protein; Provisional	96.41
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	96.37
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	96.36
TIGR00503	527	prfC peptide chain release factor 3. This translat	96.35
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	96.34
PRK00007	693	elongation factor G; Reviewed	96.33
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	96.3
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	96.3
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	96.26
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	96.26
PLN00116	843	translation elongation factor EF-2 subunit; Provis	96.26
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	96.25
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	96.22
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	96.12
PRK12740	668	elongation factor G; Reviewed	96.09
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	96.09
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	96.08
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	95.99
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	95.97
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	95.89
cd04105	203	SR_beta Signal recognition particle receptor, beta	95.88
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	95.88
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	95.88
PRK13351	687	elongation factor G; Reviewed	95.83
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	95.82
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	95.75
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	95.72
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	95.7
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	95.67
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	95.66
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	95.65
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	95.63
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	95.63
PRK04000	411	translation initiation factor IF-2 subunit gamma;	95.59
PTZ00369	189	Ras-like protein; Provisional	95.57
COG2229	187	Predicted GTPase [General function prediction only	95.57
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	95.54
cd01881	176	Obg_like The Obg-like subfamily consists of five w	95.54
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	95.51
COG3276	447	SelB Selenocysteine-specific translation elongatio	95.47
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	95.46
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	95.45
KOG0464	753	consensus Elongation factor G [Translation, riboso	95.39
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	95.37
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	95.34
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	95.3
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	95.3
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	95.26
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	95.24
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	95.11
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	95.1
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	95.07
PLN03118	211	Rab family protein; Provisional	95.04
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	95.02
PRK00093	435	GTP-binding protein Der; Reviewed	94.98
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	94.91
PRK00093	435	GTP-binding protein Der; Reviewed	94.82
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	94.77
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	94.77
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	94.75
smart00178	184	SAR Sar1p-like members of the Ras-family of small	94.74
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	94.73
KOG0458	603	consensus Elongation factor 1 alpha [Translation,	94.6
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	94.58
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	94.57
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	94.46
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	94.43
PTZ00099	176	rab6; Provisional	94.31
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	94.28
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	94.25
KOG0467	887	consensus Translation elongation factor 2/ribosome	94.23
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	94.23
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	94.16
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	94.11
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	94.1
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	94.08
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	93.99
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	93.98
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	93.93
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	93.91
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	93.89
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	93.76
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	93.64
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	93.63
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	93.54
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	93.51
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	93.47
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	93.45
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	93.39
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	93.38
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	93.37
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	93.31
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	93.27
PRK09563	287	rbgA GTPase YlqF; Reviewed	93.27
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	93.21
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	93.21
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	93.13
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	93.13
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	93.08
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	92.96
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	92.95
PRK15494	339	era GTPase Era; Provisional	92.94
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	92.91
KOG0460	449	consensus Mitochondrial translation elongation fac	92.87
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	92.76
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	92.64
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	92.56
PRK03003	472	GTP-binding protein Der; Reviewed	92.48
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	92.42
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	92.38
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	92.32
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	92.31
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	92.28
PLN03110	216	Rab GTPase; Provisional	92.21
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	92.17
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	92.03
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	92.02
PRK04213	201	GTP-binding protein; Provisional	91.99
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	91.99
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	91.97
PRK03003	472	GTP-binding protein Der; Reviewed	91.95
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	91.81
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	91.54
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	91.45
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	91.33
COG0050	394	TufB GTPases - translation elongation factors [Tra	91.33
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	91.2
PF09439	181	SRPRB: Signal recognition particle receptor beta s	91.15
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	91.11
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	90.91
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	90.78
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	90.75
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	90.62
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	90.56
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	90.5
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	90.42
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	90.14
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	89.89
PLN03108	210	Rab family protein; Provisional	89.88
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	89.67
COG1100	219	GTPase SAR1 and related small G proteins [General	89.66
PTZ00133	182	ADP-ribosylation factor; Provisional	89.49
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	89.21
KOG0468	971	consensus U5 snRNP-specific protein [Translation,	88.34
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	88.29
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	87.71
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	87.48
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	87.48
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	87.16
KOG0461	522	consensus Selenocysteine-specific elongation facto	86.86
PRK00089	292	era GTPase Era; Reviewed	86.86
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	85.89
PLN00223	181	ADP-ribosylation factor; Provisional	85.67
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	85.57
TIGR03134	238	malonate_gamma malonate decarboxylase, gamma subun	85.51
KOG0469	842	consensus Elongation factor 2 [Translation, riboso	85.34
KOG2485	335	consensus Conserved ATP/GTP binding protein [Gener	85.24
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	83.84
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	83.18
PRK12298	390	obgE GTPase CgtA; Reviewed	82.9
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	82.22
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	82.07
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	81.92
cd01896	233	DRG The developmentally regulated GTP-binding prot	81.73
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	81.36
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	81.14
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	80.45

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

Probab=99.94  E-value=1.6e-27  Score=199.90  Aligned_cols=58  Identities=29%  Similarity=0.415  Sum_probs=53.6

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcC-CCCeeEEEcCCCcccccCchhhhhcccEe
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMST-GGIKFNFHNCEFYHRTSLFFFVQLRNFVI   61 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~-~~~~itFiDTPGHeAFs~f~~mR~RGa~i   61 (93)
                      +|||+||+|+|+++||||||||||||+|+++. +.++||||||||||||++   ||+||+.+
T Consensus        20 tLLD~IR~t~Va~~EaGGITQhIGA~~v~~~~~~~~~itFiDTPGHeAFt~---mRaRGa~v   78 (509)
T COG0532          20 TLLDKIRKTNVAAGEAGGITQHIGAYQVPLDVIKIPGITFIDTPGHEAFTA---MRARGASV   78 (509)
T ss_pred             chhhhHhcCccccccCCceeeEeeeEEEEeccCCCceEEEEcCCcHHHHHH---HHhcCCcc
Confidence            69999999999999999999999999999962 468999999999999997   99999854

>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.93  E-value=4.5e-27  Score=201.57  Aligned_cols=57  Identities=39%  Similarity=0.545  Sum_probs=54.0

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhhhcccEe
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNFVI   61 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR~RGa~i   61 (93)
                      .|||++|+|+||+.|+||||||||||+|+++ ++++|||||||||+||++   ||+|||.|
T Consensus       168 TLLD~lRks~VAA~E~GGITQhIGAF~V~~p-~G~~iTFLDTPGHaAF~a---MRaRGA~v  224 (683)
T KOG1145|consen  168 TLLDALRKSSVAAGEAGGITQHIGAFTVTLP-SGKSITFLDTPGHAAFSA---MRARGANV  224 (683)
T ss_pred             hHHHHHhhCceehhhcCCccceeceEEEecC-CCCEEEEecCCcHHHHHH---HHhccCcc
Confidence            4899999999999999999999999999998 889999999999999987   99999853

>PRK14845 translation initiation factor IF-2; Provisional

Probab=99.76  E-value=2.7e-19  Score=159.27  Aligned_cols=55  Identities=33%  Similarity=0.353  Sum_probs=47.2

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCC----------------CCeeEEEcCCCcccccCchhhhhcc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTG----------------GIKFNFHNCEFYHRTSLFFFVQLRN   58 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~----------------~~~itFiDTPGHeAFs~f~~mR~RG   58 (93)
                      +|||+||+|+|+++||||||||||||+|+.+..                .++++|+|||||++|+.   ||.++
T Consensus       476 tLLD~iR~t~v~~~EaGGITQ~IGa~~v~~~~~~~~~~~~~~~~~~~~~~p~i~fiDTPGhe~F~~---lr~~g  546 (1049)
T PRK14845        476 TLLDKIRKTRVAKKEAGGITQHIGATEIPIDVIKKICGPLLKLLKAEIKIPGLLFIDTPGHEAFTS---LRKRG  546 (1049)
T ss_pred             cHHHHHhCCCcccccCCCceeccceEEEEecccccccccccccccccCCcCcEEEEECCCcHHHHH---HHHhh
Confidence            699999999999999999999999999998621                23599999999999976   55544

>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]

Probab=99.71  E-value=2.2e-18  Score=152.55  Aligned_cols=56  Identities=25%  Similarity=0.208  Sum_probs=49.3

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcC----------------CCCeeEEEcCCCcccccCchhhhhccc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMST----------------GGIKFNFHNCEFYHRTSLFFFVQLRNF   59 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~----------------~~~~itFiDTPGHeAFs~f~~mR~RGa   59 (93)
                      +|||.||+|||..+|||||||.|||+.+|...                +.+.+++|||||||-|++   +|+||.
T Consensus       490 Klld~ir~tNVqegeaggitqqIgAt~fp~~ni~e~tk~~~~~~K~~~kvPg~lvIdtpghEsFtn---lRsrgs  561 (1064)
T KOG1144|consen  490 KLLDKIRGTNVQEGEAGGITQQIGATYFPAENIREKTKELKKDAKKRLKVPGLLVIDTPGHESFTN---LRSRGS  561 (1064)
T ss_pred             HHHHHhhccccccccccceeeeccccccchHHHHHHHHHHHhhhhhhcCCCeeEEecCCCchhhhh---hhhccc
Confidence            58999999999999999999999999999761                357899999999999998   455554

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.40  E-value=1.5e-13  Score=115.73  Aligned_cols=56  Identities=30%  Similarity=0.432  Sum_probs=49.3

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhhhcccE
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNFV   60 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR~RGa~   60 (93)
                      +|||+||+++++.+|+|||||++|++.+++. +..+++|+|||||++|..   ||.||+.
T Consensus       102 SLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~-~~~~i~~iDTPGhe~F~~---~r~rga~  157 (587)
T TIGR00487       102 SLLDSIRKTKVAQGEAGGITQHIGAYHVENE-DGKMITFLDTPGHEAFTS---MRARGAK  157 (587)
T ss_pred             HHHHHHHhCCcccccCCceeecceEEEEEEC-CCcEEEEEECCCCcchhh---HHHhhhc
Confidence            5899999999999999999999999999985 344899999999999976   7777653

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.

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.35  E-value=5.7e-13  Score=116.11  Aligned_cols=54  Identities=37%  Similarity=0.523  Sum_probs=49.4

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhhhccc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNF   59 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR~RGa   59 (93)
                      +|||+||+++++.+|+|||||++|++.+.+.  +..|+|+|||||++|+.   ||.||+
T Consensus       305 SLl~~Lr~~~v~~~e~~GIT~~iga~~v~~~--~~~ItfiDTPGhe~F~~---m~~rga  358 (787)
T PRK05306        305 SLLDAIRKTNVAAGEAGGITQHIGAYQVETN--GGKITFLDTPGHEAFTA---MRARGA  358 (787)
T ss_pred             HHHHHHHhCCccccccCceeeeccEEEEEEC--CEEEEEEECCCCccchh---HHHhhh
Confidence            5899999999999999999999999999985  67899999999999976   777766

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.34  E-value=4.6e-13  Score=112.41  Aligned_cols=55  Identities=35%  Similarity=0.419  Sum_probs=46.0

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCC----C------------CeeEEEcCCCcccccCchhhhhcc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTG----G------------IKFNFHNCEFYHRTSLFFFVQLRN   58 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~----~------------~~itFiDTPGHeAFs~f~~mR~RG   58 (93)
                      ||||+||+++++++|+|||||||||+.++.+..    +            ++++|+|||||++|..   ||.||
T Consensus        21 SLl~~l~~~~v~~~~~g~itq~ig~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDTPG~e~f~~---~~~~~   91 (586)
T PRK04004         21 TLLDKIRGTAVAAKEAGGITQHIGATEVPIDVIEKIAGPLKKPLPIKLKIPGLLFIDTPGHEAFTN---LRKRG   91 (586)
T ss_pred             HHHHHHhCcccccCCCCceEEeeceeeccccccccccceeccccccccccCCEEEEECCChHHHHH---HHHHh
Confidence            599999999999999999999999999876410    0            1389999999999976   56665

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

Probab=99.29  E-value=1.7e-12  Score=109.73  Aligned_cols=55  Identities=31%  Similarity=0.342  Sum_probs=45.9

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCC----------------CCeeEEEcCCCcccccCchhhhhcc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTG----------------GIKFNFHNCEFYHRTSLFFFVQLRN   58 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~----------------~~~itFiDTPGHeAFs~f~~mR~RG   58 (93)
                      +|||+|++++++.+|+|||||+||++.++.+..                ..+++|+|||||++|..   ||.++
T Consensus        19 SLln~l~~~~v~~~e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~e~f~~---l~~~~   89 (590)
T TIGR00491        19 TLLDKIRGSAVAKREAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGHEAFTN---LRKRG   89 (590)
T ss_pred             HHHHHHhccccccccCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCcHhHHH---HHHHH
Confidence            589999999999999999999999999987411                12499999999999986   45543

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.

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.19  E-value=8.8e-12  Score=108.38  Aligned_cols=55  Identities=31%  Similarity=0.444  Sum_probs=48.0

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEc--CCCCeeEEEcCCCcccccCchhhhhcc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMS--TGGIKFNFHNCEFYHRTSLFFFVQLRN   58 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~--~~~~~itFiDTPGHeAFs~f~~mR~RG   58 (93)
                      +|+|+|++++++.+|+|||||++++|++.+.  +++.+++|+|||||++|..   ||.||
T Consensus       259 SLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe~F~~---mr~rg  315 (742)
T CHL00189        259 TLLDKIRKTQIAQKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHEAFSS---MRSRG  315 (742)
T ss_pred             HHHHHHHhccCccccCCccccccceEEEEEEecCCceEEEEEECCcHHHHHH---HHHHH
Confidence            5899999999999999999999999998875  2457999999999999976   66654

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

Probab=98.56  E-value=8.2e-08  Score=63.50  Aligned_cols=50  Identities=34%  Similarity=0.400  Sum_probs=42.1

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEc-CCCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMS-TGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~-~~~~~itFiDTPGHeAFs~   50 (93)
                      +|+.+|.+..+...+..++||+++.+.+... .++..++|+|||||+.|..
T Consensus        15 sli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~~~~~   65 (168)
T cd01887          15 TLLDKIRKTNVAAGEAGGITQHIGAFEVPAEVLKIPGITFIDTPGHEAFTN   65 (168)
T ss_pred             HHHHHHHhcccccccCCCeEEeeccEEEecccCCcceEEEEeCCCcHHHHH
Confidence            4778888888888889999999999999874 2467899999999998765

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.

>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=97.96  E-value=2.4e-06  Score=59.91  Aligned_cols=36  Identities=11%  Similarity=0.014  Sum_probs=30.2

Q ss_pred             ccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           15 EAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        15 EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      +..|||++++...+....+...++|||||||+.|..
T Consensus        50 ~~~~~ti~~~~~~~~~~~~~~~i~~iDtPG~~~f~~   85 (188)
T PF00009_consen   50 RERGITIDLSFISFEKNENNRKITLIDTPGHEDFIK   85 (188)
T ss_dssp             HHCTSSSSSEEEEEEBTESSEEEEEEEESSSHHHHH
T ss_pred             hhcccccccccccccccccccceeecccccccceee
Confidence            457999999999998222588999999999999864

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 ....

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=97.86  E-value=1.2e-05  Score=68.43  Aligned_cols=49  Identities=14%  Similarity=0.146  Sum_probs=35.7

Q ss_pred             ChhhHHhhcCC--cCcc-cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSV--VAKE-AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~V--a~~E-aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      +|+++|.+++.  ...| ..|||+++|-..+..+ ++..++|+|||||+.|..
T Consensus        15 tLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~-~g~~i~~IDtPGhe~fi~   66 (614)
T PRK10512         15 TLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQP-DGRVLGFIDVPGHEKFLS   66 (614)
T ss_pred             HHHHHHhCCCCccchhcccCCceEEeeeEEEecC-CCcEEEEEECCCHHHHHH
Confidence            47888876443  2223 4799999996666553 467899999999999943

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=97.74  E-value=2.1e-05  Score=66.26  Aligned_cols=48  Identities=13%  Similarity=0.152  Sum_probs=36.8

Q ss_pred             ChhhHHhhcCC---cCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSV---VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~V---a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      +|+.+|.+.+.   ......|||++++...++++  +..++|+|||||+.|..
T Consensus        15 TLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~--~~~v~~iDtPGhe~f~~   65 (581)
T TIGR00475        15 TLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLP--DYRLGFIDVPGHEKFIS   65 (581)
T ss_pred             HHHHHHhCccCcCChhHhcCCceEEeEEEEEEeC--CEEEEEEECCCHHHHHH
Confidence            47788876432   22336799999998888875  58899999999999864

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.

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

Probab=97.69  E-value=7.9e-05  Score=48.59  Aligned_cols=48  Identities=13%  Similarity=-0.006  Sum_probs=36.6

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      +|+.+|.+.....++..|+|.+.-...+.++  +..+.|+||||++.|..
T Consensus        11 sl~~~~~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~liDtpG~~~~~~   58 (158)
T cd01879          11 TLFNALTGARQKVGNWPGVTVEKKEGRFKLG--GKEIEIVDLPGTYSLSP   58 (158)
T ss_pred             HHHHHHhcCcccccCCCCcccccceEEEeeC--CeEEEEEECCCccccCC
Confidence            4677777766566677888888776666664  56899999999998875

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.

>cd04171 SelB SelB subfamily

Probab=97.67  E-value=5.2e-05  Score=49.57  Aligned_cols=66  Identities=15%  Similarity=0.238  Sum_probs=40.4

Q ss_pred             ChhhHHhhcC--CcCcc-cCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhh---hhcccEeEEeccc
Q 045003            1 MISDALRQTS--VVAKE-AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFV---QLRNFVIVLRKNN   67 (93)
Q Consensus         1 sLLD~IR~t~--Va~~E-aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~m---R~RGa~iv~~~~~   67 (93)
                      +|+.++.+.+  ....| ..++|..++-..+... ++..+.|+|||||+.|......   .+.++.+|++-.+
T Consensus        15 sl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~DtpG~~~~~~~~~~~~~~ad~ii~V~d~~~   86 (164)
T cd04171          15 TLIKALTGIETDRLPEEKKRGITIDLGFAYLDLP-SGKRLGFIDVPGHEKFIKNMLAGAGGIDLVLLVVAADE   86 (164)
T ss_pred             HHHHHHhCcccccchhhhccCceEEeeeEEEEec-CCcEEEEEECCChHHHHHHHHhhhhcCCEEEEEEECCC
Confidence            4677776532  22222 4578998887777663 2678999999999998531111   1334556665443

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

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=97.58  E-value=5.2e-05  Score=56.86  Aligned_cols=36  Identities=17%  Similarity=0.040  Sum_probs=28.1

Q ss_pred             ccCcceeeecceEEEEcCC--------CCeeEEEcCCCcccccC
Q 045003           15 EAGGITQHVGAFVIGMSTG--------GIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        15 EaGGITQhIGA~~V~~~~~--------~~~itFiDTPGHeAFs~   50 (93)
                      ...|||.+.....+.+..+        ...++|+|||||+.|..
T Consensus        45 ~~RgiTi~~~~~~~~~~~~~~~~~~~~~~~i~iiDTPG~~~f~~   88 (222)
T cd01885          45 QERGITMKSSAISLYFEYEEEDKADGNEYLINLIDSPGHVDFSS   88 (222)
T ss_pred             HHhccccccceEEEEEecCcccccCCCceEEEEECCCCccccHH
Confidence            3468998888877776522        66899999999999964

Translocation requires hydrolysis of a molecule of GTP and is mediated by EF-G in bacteria and by eEF2 in eukaryotes. The eukaryotic elongation factor eEF2 is a GTPase involved in the translocation of the peptidyl-tRNA from the A site to the P site on the ribosome. The 95-kDa protein is highly conserved, with 60% amino acid sequence identity between the human and yeast proteins. Two major mechanisms are known to regulate protein elongation and both involve eEF2. First, eEF2 can be modulated by reversible phosphorylation. Increased levels of phosphorylated eEF2 reduce elongation rates presumably because phosphorylated eEF2 fails to bind the ribosomes. Treatment of mammalian cells with agents that raise the cytoplasmic Ca2+ and cAMP levels reduce elongation rates by activating the kinase responsible for phosphorylating eEF2. In contrast, treatment of cells with insulin increases elongation rates by promoting eEF2 dephosphorylation. Seco

>cd01884 EF_Tu EF-Tu subfamily

Probab=97.57  E-value=3.5e-05  Score=56.21  Aligned_cols=33  Identities=15%  Similarity=0.106  Sum_probs=27.2

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      ..|||.+.....+..  ++..++|+|||||..|..
T Consensus        48 ~rg~Ti~~~~~~~~~--~~~~i~~iDtPG~~~~~~   80 (195)
T cd01884          48 ARGITINTAHVEYET--ANRHYAHVDCPGHADYIK   80 (195)
T ss_pred             hcCccEEeeeeEecC--CCeEEEEEECcCHHHHHH
Confidence            679999988777654  578999999999998843

This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors. The eukaryotic counterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this family. EF-Tu is one of the most abundant proteins in bacteria, as well as, one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=97.54  E-value=5.1e-05  Score=62.49  Aligned_cols=32  Identities=19%  Similarity=0.079  Sum_probs=27.0

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS   49 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs   49 (93)
                      ..|||.+++...++.  ++..++|+|||||+.|.
T Consensus        90 ~rgiTid~~~~~~~~--~~~~i~~iDTPGh~~f~  121 (474)
T PRK05124         90 EQGITIDVAYRYFST--EKRKFIIADTPGHEQYT  121 (474)
T ss_pred             hcCCCeEeeEEEecc--CCcEEEEEECCCcHHHH
Confidence            468999998777765  57899999999999995

>CHL00071 tufA elongation factor Tu

Probab=97.53  E-value=6.1e-05  Score=60.27  Aligned_cols=32  Identities=16%  Similarity=0.126  Sum_probs=26.3

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS   49 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs   49 (93)
                      ..|||-++....+..  ++..++|+|||||+.|.
T Consensus        58 ~rg~T~~~~~~~~~~--~~~~~~~iDtPGh~~~~   89 (409)
T CHL00071         58 ARGITINTAHVEYET--ENRHYAHVDCPGHADYV   89 (409)
T ss_pred             cCCEeEEccEEEEcc--CCeEEEEEECCChHHHH
Confidence            479999987766654  57889999999999884

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=97.51  E-value=5e-05  Score=60.86  Aligned_cols=32  Identities=19%  Similarity=0.079  Sum_probs=27.4

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS   49 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs   49 (93)
                      ..|||.+++...+..  ++.+++|+|||||+.|.
T Consensus        63 ~rgiTid~~~~~~~~--~~~~~~liDtPGh~~f~   94 (406)
T TIGR02034        63 EQGITIDVAYRYFST--DKRKFIVADTPGHEQYT   94 (406)
T ss_pred             cCCcCeEeeeEEEcc--CCeEEEEEeCCCHHHHH
Confidence            468999999877776  47799999999999995

Homologous to this E.coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulfurase and APS kinase activity, yet are involved in Nod factor sulfation, and sulfation of other macromolecules. With members of the Rhizobiaceae family, nodQ often appears as a fusion of cysN (large subunit of ATP sulfurase) and cysC (APS kinase).

>PLN00043 elongation factor 1-alpha; Provisional

Probab=97.51  E-value=5e-05  Score=62.25  Aligned_cols=34  Identities=9%  Similarity=-0.032  Sum_probs=28.6

Q ss_pred             ccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           15 EAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        15 EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      -..|||.+++.+.+..  ++..++|||||||+.|..
T Consensus        67 r~rGiTi~~~~~~~~~--~~~~i~liDtPGh~df~~  100 (447)
T PLN00043         67 RERGITIDIALWKFET--TKYYCTVIDAPGHRDFIK  100 (447)
T ss_pred             HhcCceEEEEEEEecC--CCEEEEEEECCCHHHHHH
Confidence            3579999998877766  578999999999999953

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=97.49  E-value=6.5e-05  Score=61.44  Aligned_cols=47  Identities=11%  Similarity=0.044  Sum_probs=34.6

Q ss_pred             ccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhh-----hcccEeEEec
Q 045003           15 EAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQ-----LRNFVIVLRK   65 (93)
Q Consensus        15 EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR-----~RGa~iv~~~   65 (93)
                      ..-|||.++..+.++.  ++..++|||||||+.|..  +|.     ..++.+|+.-
T Consensus        67 r~rGiTid~~~~~~~~--~~~~i~lIDtPGh~~f~~--~~~~g~~~aD~ailVVda  118 (446)
T PTZ00141         67 RERGITIDIALWKFET--PKYYFTIIDAPGHRDFIK--NMITGTSQADVAILVVAS  118 (446)
T ss_pred             HhcCEeEEeeeEEEcc--CCeEEEEEECCChHHHHH--HHHHhhhhcCEEEEEEEc
Confidence            3468999998888776  578999999999999953  232     2345566654

>cd01890 LepA LepA subfamily

Probab=97.47  E-value=0.00011  Score=49.43  Aligned_cols=35  Identities=14%  Similarity=0.036  Sum_probs=26.1

Q ss_pred             cCcceeeecceEEEE---cCCCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGM---STGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~---~~~~~~itFiDTPGHeAFs~   50 (93)
                      ..|+|.+.....+.+   ++....+.|+|||||+.|..
T Consensus        45 ~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~   82 (179)
T cd01890          45 ERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHVDFSY   82 (179)
T ss_pred             HCCCeEecceEEEEEecCCCCcEEEEEEECCCChhhHH
Confidence            457887777666655   33456789999999999865

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.

>cd01861 Rab6 Rab6 subfamily

Probab=97.46  E-value=0.00015  Score=47.73  Aligned_cols=50  Identities=6%  Similarity=-0.034  Sum_probs=39.7

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      +|+.++.+.+....+.-++|++.....+..++....+.++||||++.|..
T Consensus        15 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~~~~~~   64 (161)
T cd01861          15 SIITRFMYDTFDNQYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQERFRS   64 (161)
T ss_pred             HHHHHHHcCCCCccCCCceeeeEEEEEEEECCEEEEEEEEECCCcHHHHH
Confidence            47788888888878888899888888887753334689999999998865

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

>PRK12735 elongation factor Tu; Reviewed

Probab=97.46  E-value=6.6e-05  Score=59.86  Aligned_cols=34  Identities=15%  Similarity=0.122  Sum_probs=27.2

Q ss_pred             ccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           15 EAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        15 EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      ...|||.+++...++.  ++..++|+|||||+.|..
T Consensus        57 ~~rGiT~~~~~~~~~~--~~~~i~~iDtPGh~~f~~   90 (396)
T PRK12735         57 KARGITINTSHVEYET--ANRHYAHVDCPGHADYVK   90 (396)
T ss_pred             HhcCceEEEeeeEEcC--CCcEEEEEECCCHHHHHH
Confidence            3689999987666554  577899999999998843

>PLN03127 Elongation factor Tu; Provisional

Probab=97.45  E-value=7.5e-05  Score=61.31  Aligned_cols=32  Identities=16%  Similarity=0.103  Sum_probs=26.7

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS   49 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs   49 (93)
                      ..|||.+++...++.  ++..++|+|||||+.|-
T Consensus       107 ~rGiTi~~~~~~~~~--~~~~i~~iDtPGh~~f~  138 (447)
T PLN03127        107 ARGITIATAHVEYET--AKRHYAHVDCPGHADYV  138 (447)
T ss_pred             hcCceeeeeEEEEcC--CCeEEEEEECCCccchH
Confidence            389999987776655  57789999999999984

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=97.45  E-value=0.00011  Score=58.36  Aligned_cols=33  Identities=12%  Similarity=0.096  Sum_probs=28.3

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      ..|+|.+++...+..  ++..++|+|||||+.|..
T Consensus        67 ~rG~T~d~~~~~~~~--~~~~i~liDtpG~~~~~~   99 (425)
T PRK12317         67 ERGVTIDLAHKKFET--DKYYFTIVDCPGHRDFVK   99 (425)
T ss_pred             hcCccceeeeEEEec--CCeEEEEEECCCcccchh
Confidence            478999999888876  478999999999999854

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

Probab=97.44  E-value=0.00012  Score=53.23  Aligned_cols=48  Identities=15%  Similarity=0.088  Sum_probs=36.4

Q ss_pred             ccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhh-----hcccEeEEecc
Q 045003           15 EAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQ-----LRNFVIVLRKN   66 (93)
Q Consensus        15 EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR-----~RGa~iv~~~~   66 (93)
                      ...|||.++..+.+..  ++.+++|+|||||..|..  .+-     ..++++|++-.
T Consensus        59 ~~rg~T~d~~~~~~~~--~~~~i~liDtpG~~~~~~--~~~~~~~~~d~~i~VvDa~  111 (219)
T cd01883          59 RERGVTIDVGLAKFET--EKYRFTILDAPGHRDFVP--NMITGASQADVAVLVVDAR  111 (219)
T ss_pred             hhCccCeecceEEEee--CCeEEEEEECCChHHHHH--HHHHHhhhCCEEEEEEECC
Confidence            3578999999999987  488999999999998853  121     44666776654

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

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=97.43  E-value=0.00011  Score=62.47  Aligned_cols=32  Identities=22%  Similarity=0.127  Sum_probs=28.3

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS   49 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs   49 (93)
                      .-|||.......+.+  ++.+|+++|||||+.|.
T Consensus        47 erGiTI~~~~~~v~~--~~~kinlIDTPGh~DF~   78 (594)
T TIGR01394        47 ERGITILAKNTAIRY--NGTKINIVDTPGHADFG   78 (594)
T ss_pred             hCCccEEeeeEEEEE--CCEEEEEEECCCHHHHH
Confidence            358999999888888  47899999999999996

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.

>cd01889 SelB_euk SelB subfamily

Probab=97.43  E-value=0.00014  Score=50.83  Aligned_cols=34  Identities=15%  Similarity=0.191  Sum_probs=26.5

Q ss_pred             cCcceeeecceEEEEc------------CCCCeeEEEcCCCccccc
Q 045003           16 AGGITQHVGAFVIGMS------------TGGIKFNFHNCEFYHRTS   49 (93)
Q Consensus        16 aGGITQhIGA~~V~~~------------~~~~~itFiDTPGHeAFs   49 (93)
                      ..|+|.+++...+.+.            .+...++|+|||||..|.
T Consensus        37 ~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~~~   82 (192)
T cd01889          37 ERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGHASLI   82 (192)
T ss_pred             HcCCeeeecceEEEecccccccccccccccCceEEEEECCCcHHHH
Confidence            4579999998777664            125689999999998873

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

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

Probab=97.41  E-value=0.0001  Score=52.86  Aligned_cols=64  Identities=14%  Similarity=0.108  Sum_probs=39.1

Q ss_pred             hhhHHhhcC---CcCcccCcceeeecceEEEEc-------------------------CCC------CeeEEEcCCCccc
Q 045003            2 ISDALRQTS---VVAKEAGGITQHVGAFVIGMS-------------------------TGG------IKFNFHNCEFYHR   47 (93)
Q Consensus         2 LLD~IR~t~---Va~~EaGGITQhIGA~~V~~~-------------------------~~~------~~itFiDTPGHeA   47 (93)
                      |+++|..+.   -......|+|-..|...+.+.                         ..+      ..++|+|||||+.
T Consensus        16 L~~~l~~~~~~~~~~e~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDtPG~~~   95 (203)
T cd01888          16 LVKALSGVWTVRFKEELERNITIKLGYANAKIYKCPNCGCPRPYCYRSKEDSPECECPGCGGETKLVRHVSFVDCPGHEI   95 (203)
T ss_pred             HHHHHhCCCCCCCCeeEEcCCceeecccccccccccCcCCCCccccccccccccccccccCCccccccEEEEEECCChHH
Confidence            667775541   244456788888887666542                         002      6899999999998


Q ss_pred             ccCchhhhh----cccEeEEecc
Q 045003           48 TSLFFFVQL----RNFVIVLRKN   66 (93)
Q Consensus        48 Fs~f~~mR~----RGa~iv~~~~   66 (93)
                      |..- -++.    .++.+|+.-.
T Consensus        96 ~~~~-~~~~~~~~D~~llVvd~~  117 (203)
T cd01888          96 LMAT-MLSGAAVMDGALLLIAAN  117 (203)
T ss_pred             HHHH-HHHhhhcCCEEEEEEECC
Confidence            8541 1122    2556666653

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

>PRK00049 elongation factor Tu; Reviewed

Probab=97.38  E-value=9.3e-05  Score=59.12  Aligned_cols=33  Identities=15%  Similarity=0.119  Sum_probs=26.8

Q ss_pred             ccCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003           15 EAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS   49 (93)
Q Consensus        15 EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs   49 (93)
                      ...|||.++....+..  ++..++|+|||||+.|-
T Consensus        57 ~~rg~Ti~~~~~~~~~--~~~~i~~iDtPG~~~f~   89 (396)
T PRK00049         57 KARGITINTAHVEYET--EKRHYAHVDCPGHADYV   89 (396)
T ss_pred             HhcCeEEeeeEEEEcC--CCeEEEEEECCCHHHHH
Confidence            3689999988666544  57789999999999884

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=97.31  E-value=0.00013  Score=62.77  Aligned_cols=32  Identities=13%  Similarity=0.033  Sum_probs=28.1

Q ss_pred             CcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           17 GGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        17 GGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      -||.---.+.|+++.  +..|++||||||++||.
T Consensus        65 RGISVtsSVMqF~Y~--~~~iNLLDTPGHeDFSE   96 (528)
T COG4108          65 RGISVTSSVMQFDYA--DCLVNLLDTPGHEDFSE   96 (528)
T ss_pred             cCceEEeeEEEeccC--CeEEeccCCCCccccch
Confidence            477777788899984  89999999999999997

>PRK12736 elongation factor Tu; Reviewed

Probab=97.30  E-value=0.00014  Score=57.93  Aligned_cols=33  Identities=12%  Similarity=0.062  Sum_probs=26.7

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      ..|||.++....++.  ++..++|+|||||+.|..
T Consensus        58 ~rg~T~~~~~~~~~~--~~~~i~~iDtPGh~~f~~   90 (394)
T PRK12736         58 ERGITINTAHVEYET--EKRHYAHVDCPGHADYVK   90 (394)
T ss_pred             hcCccEEEEeeEecC--CCcEEEEEECCCHHHHHH
Confidence            689999997655543  578999999999999853

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

Probab=97.30  E-value=0.00025  Score=49.72  Aligned_cols=33  Identities=15%  Similarity=-0.012  Sum_probs=26.9

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      ..|+|.+.....+..  +..++.|+|||||+.|..
T Consensus        48 ~~g~t~~~~~~~~~~--~~~~~~l~DtpG~~~~~~   80 (194)
T cd01891          48 ERGITILAKNTAVTY--KDTKINIVDTPGHADFGG   80 (194)
T ss_pred             hcccccccceeEEEE--CCEEEEEEECCCcHHHHH
Confidence            368888887777776  477899999999999865

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

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=97.28  E-value=0.00017  Score=51.87  Aligned_cols=32  Identities=19%  Similarity=0.048  Sum_probs=27.3

Q ss_pred             CcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           17 GGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        17 GGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      .|+|-+.....+..  ++.+++|+|||||+.|..
T Consensus        61 rg~T~~~~~~~~~~--~~~~~~liDTpG~~~~~~   92 (208)
T cd04166          61 QGITIDVAYRYFST--PKRKFIIADTPGHEQYTR   92 (208)
T ss_pred             CCcCeecceeEEec--CCceEEEEECCcHHHHHH
Confidence            68999998888776  478999999999999853

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.

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=97.24  E-value=0.00034  Score=61.30  Aligned_cols=48  Identities=17%  Similarity=0.106  Sum_probs=38.0

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch---hhh-hcccEeEEec
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF---FVQ-LRNFVIVLRK   65 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~---~mR-~RGa~iv~~~   65 (93)
                      .-|||-+..|..+.+.+ +..|++||||||-+|+. .   .|| .-||++|+.-
T Consensus        58 eRGITI~saa~s~~~~~-~~~iNlIDTPGHVDFt~-EV~rslrvlDgavvVvda  109 (697)
T COG0480          58 ERGITITSAATTLFWKG-DYRINLIDTPGHVDFTI-EVERSLRVLDGAVVVVDA  109 (697)
T ss_pred             hcCCEEeeeeeEEEEcC-ceEEEEeCCCCccccHH-HHHHHHHhhcceEEEEEC
Confidence            35899999999999952 48999999999999985 2   344 3577777764

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=97.24  E-value=0.00016  Score=60.85  Aligned_cols=33  Identities=18%  Similarity=0.039  Sum_probs=27.8

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      ..|||.+++...+..  ++.+++|+|||||+.|..
T Consensus        87 ~rg~Tid~~~~~~~~--~~~~~~liDtPG~~~f~~  119 (632)
T PRK05506         87 EQGITIDVAYRYFAT--PKRKFIVADTPGHEQYTR  119 (632)
T ss_pred             hCCcCceeeeeEEcc--CCceEEEEECCChHHHHH
Confidence            468999999777776  578999999999999853

>TIGR00485 EF-Tu translation elongation factor TU

Probab=97.22  E-value=0.00015  Score=57.55  Aligned_cols=33  Identities=18%  Similarity=0.166  Sum_probs=25.7

Q ss_pred             ccCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003           15 EAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS   49 (93)
Q Consensus        15 EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs   49 (93)
                      ...|||.++....++  .++..++|+|||||+.|.
T Consensus        57 ~~rG~Ti~~~~~~~~--~~~~~~~liDtpGh~~f~   89 (394)
T TIGR00485        57 KARGITINTAHVEYE--TENRHYAHVDCPGHADYV   89 (394)
T ss_pred             HhcCcceeeEEEEEc--CCCEEEEEEECCchHHHH
Confidence            348999997655443  357789999999999985

This alignment models orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts, one of several GTP-binding translation factors found by the more general pfam model GTP_EFTU. The eukaryotic conterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this model. EF-Tu is one of the most abundant proteins in bacteria, as well as one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=97.20  E-value=0.00061  Score=42.58  Aligned_cols=52  Identities=15%  Similarity=0.087  Sum_probs=36.5

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      +|+.++..........-++|.++....+...+....+.++|||||+.|..+.
T Consensus        16 tl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~   67 (161)
T TIGR00231        16 TLLNRLLGNKFITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYRAIR   67 (161)
T ss_pred             HHHHHHhCCCCcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCcccchHHH
Confidence            3666776666444455688888888777774222678999999999986543

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.

>cd01894 EngA1 EngA1 subfamily

Probab=97.10  E-value=0.0011  Score=42.91  Aligned_cols=47  Identities=13%  Similarity=0.075  Sum_probs=32.9

Q ss_pred             ChhhHHhhcCCc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003            1 MISDALRQTSVV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS   49 (93)
Q Consensus         1 sLLD~IR~t~Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs   49 (93)
                      +|+.+|-+.+.. ..+.-++|+..-...+..  ++..+.++|||||..+.
T Consensus        12 sl~~~l~~~~~~~~~~~~~~t~~~~~~~~~~--~~~~~~i~DtpG~~~~~   59 (157)
T cd01894          12 TLFNRLTGRRDAIVEDTPGVTRDRIYGEAEW--GGREFILIDTGGIEPDD   59 (157)
T ss_pred             HHHHHHhCCcEEeecCCCCceeCceeEEEEE--CCeEEEEEECCCCCCch
Confidence            366677665432 234457888777667766  36789999999999864

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.

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=97.05  E-value=0.00021  Score=59.40  Aligned_cols=63  Identities=13%  Similarity=0.116  Sum_probs=38.3

Q ss_pred             hhhHHhhcCC---cCcccCcceeeecceEEE---------------EcCC----------------CCeeEEEcCCCccc
Q 045003            2 ISDALRQTSV---VAKEAGGITQHVGAFVIG---------------MSTG----------------GIKFNFHNCEFYHR   47 (93)
Q Consensus         2 LLD~IR~t~V---a~~EaGGITQhIGA~~V~---------------~~~~----------------~~~itFiDTPGHeA   47 (93)
                      |+++|.+.+.   ..+..-|||+++|--...               ++.+                ...++|+|||||+.
T Consensus        50 Lv~aLtg~~~~r~~~E~~rGiTi~lGfa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~IDtPGH~~  129 (460)
T PTZ00327         50 VVKALSGVKTVRFKREKVRNITIKLGYANAKIYKCPKCPRPTCYQSYGSSKPDNPPCPGCGHKMTLKRHVSFVDCPGHDI  129 (460)
T ss_pred             HHHHHhCCCcccchhhHHhCCchhccccccccccCcccCCcccccccCCCcccccccccccccccccceEeeeeCCCHHH
Confidence            6667765433   344567999999865331               1100                23799999999999


Q ss_pred             ccCchhhhh-----cccEeEEecc
Q 045003           48 TSLFFFVQL-----RNFVIVLRKN   66 (93)
Q Consensus        48 Fs~f~~mR~-----RGa~iv~~~~   66 (93)
                      |..  +|-.     -++.+|+.-.
T Consensus       130 fi~--~m~~g~~~~D~alLVVda~  151 (460)
T PTZ00327        130 LMA--TMLNGAAVMDAALLLIAAN  151 (460)
T ss_pred             HHH--HHHHHHhhCCEEEEEEECC
Confidence            953  3322     3455555554

>cd04113 Rab4 Rab4 subfamily

Probab=97.02  E-value=0.00092  Score=44.28  Aligned_cols=50  Identities=10%  Similarity=0.096  Sum_probs=34.9

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      +|+.++.+..........++.......+..++....+.+.|||||+.|..
T Consensus        15 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~   64 (161)
T cd04113          15 CLLHRFVENKFKEDSQHTIGVEFGSKIIRVGGKRVKLQIWDTAGQERFRS   64 (161)
T ss_pred             HHHHHHHhCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEECcchHHHHH
Confidence            46777776666555555666666666677653345789999999998865

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

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

Probab=97.02  E-value=0.00045  Score=55.11  Aligned_cols=32  Identities=13%  Similarity=0.163  Sum_probs=27.6

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS   49 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs   49 (93)
                      ..|+|.+++...+..  +...++|+|||||+.|.
T Consensus        68 ~rg~Tid~~~~~~~~--~~~~i~iiDtpGh~~f~   99 (426)
T TIGR00483        68 ERGVTIDVAHWKFET--DKYEVTIVDCPGHRDFI   99 (426)
T ss_pred             hcCceEEEEEEEEcc--CCeEEEEEECCCHHHHH
Confidence            459999999988876  47799999999999985

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.

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=96.97  E-value=0.0011  Score=43.27  Aligned_cols=51  Identities=14%  Similarity=0.060  Sum_probs=32.2

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      +|+.++.+........--++.+.+...+...+....+.++||||++.|..+
T Consensus        15 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~   65 (168)
T cd04119          15 CIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEV   65 (168)
T ss_pred             HHHHHHHhCCCCCCCCCccceeEEEEEEEECCeEEEEEEEECCccHHHHHH
Confidence            366666665544444444444455555655444568899999999988753

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.

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=96.96  E-value=0.00077  Score=51.72  Aligned_cols=34  Identities=15%  Similarity=0.011  Sum_probs=28.9

Q ss_pred             ccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           15 EAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        15 EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      ...|||-+.....+.+  ++.+++|+|||||..|..
T Consensus        46 ~~rgiti~~~~~~~~~--~~~~i~liDTPG~~df~~   79 (270)
T cd01886          46 RERGITIQSAATTCFW--KDHRINIIDTPGHVDFTI   79 (270)
T ss_pred             cCCCcCeeccEEEEEE--CCEEEEEEECCCcHHHHH
Confidence            4568999999888888  478999999999998863

Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group conta

>smart00175 RAB Rab subfamily of small GTPases

Probab=96.95  E-value=0.0011  Score=43.46  Aligned_cols=51  Identities=8%  Similarity=0.025  Sum_probs=36.3

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      +|+.++.+.+....+.-.++-......+...+....+.++||||++.|..+
T Consensus        15 tli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~   65 (164)
T smart00175       15 SLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSI   65 (164)
T ss_pred             HHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHH
Confidence            367777777776666666666666677777533357889999999988753

Rab GTPases are implicated in vesicle trafficking.

>PLN03126 Elongation factor Tu; Provisional

Probab=96.91  E-value=0.00064  Score=56.61  Aligned_cols=34  Identities=15%  Similarity=0.148  Sum_probs=28.4

Q ss_pred             cccCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003           14 KEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS   49 (93)
Q Consensus        14 ~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs   49 (93)
                      ....|||.+.+...++.  ++..++|||||||+.|-
T Consensus       125 Er~rGiTi~~~~~~~~~--~~~~i~liDtPGh~~f~  158 (478)
T PLN03126        125 ERARGITINTATVEYET--ENRHYAHVDCPGHADYV  158 (478)
T ss_pred             HHhCCeeEEEEEEEEec--CCcEEEEEECCCHHHHH
Confidence            44579999998777766  57899999999999994

>PRK07560 elongation factor EF-2; Reviewed

Probab=96.90  E-value=0.00056  Score=58.86  Aligned_cols=49  Identities=10%  Similarity=-0.024  Sum_probs=33.1

Q ss_pred             CcceeeecceEEEE--cCCCCeeEEEcCCCcccccCch--hhhh-cccEeEEec
Q 045003           17 GGITQHVGAFVIGM--STGGIKFNFHNCEFYHRTSLFF--FVQL-RNFVIVLRK   65 (93)
Q Consensus        17 GGITQhIGA~~V~~--~~~~~~itFiDTPGHeAFs~f~--~mR~-RGa~iv~~~   65 (93)
                      .|||.+..+..+.+  .+++..|+|||||||+.|..-.  .||. -++++|+.-
T Consensus        67 rgiTi~~~~~~~~~~~~~~~~~i~liDtPG~~df~~~~~~~l~~~D~avlVvda  120 (731)
T PRK07560         67 RGITIKAANVSMVHEYEGKEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVDA  120 (731)
T ss_pred             hhhhhhccceEEEEEecCCcEEEEEEcCCCccChHHHHHHHHHhcCEEEEEEEC
Confidence            57888888776655  3346789999999999995411  2332 256666653

>cd01866 Rab2 Rab2 subfamily

Probab=96.88  E-value=0.0014  Score=44.48  Aligned_cols=50  Identities=12%  Similarity=0.020  Sum_probs=33.7

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      +|+.++.+......+..-++.......+...+....+.+.||||++.|..
T Consensus        19 sLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~   68 (168)
T cd01866          19 CLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRS   68 (168)
T ss_pred             HHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHH
Confidence            47777777666555554444555555555543345799999999998876

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

>cd04124 RabL2 RabL2 subfamily

Probab=96.87  E-value=0.002  Score=43.53  Aligned_cols=51  Identities=6%  Similarity=0.002  Sum_probs=28.6

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      |+..+........+.--+...+....+..++....+.+.||||++.|..+.
T Consensus        16 li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   66 (161)
T cd04124          16 LVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERFQTMH   66 (161)
T ss_pred             HHHHHHhCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCchhhhhhh
Confidence            566555444333322222233434444554334568899999999997643

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

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

Probab=96.87  E-value=0.00077  Score=58.89  Aligned_cols=48  Identities=15%  Similarity=0.070  Sum_probs=37.4

Q ss_pred             CcceeeecceEEEEcC---CCCeeEEEcCCCcccccCchhhh----hcccEeEEec
Q 045003           17 GGITQHVGAFVIGMST---GGIKFNFHNCEFYHRTSLFFFVQ----LRNFVIVLRK   65 (93)
Q Consensus        17 GGITQhIGA~~V~~~~---~~~~itFiDTPGHeAFs~f~~mR----~RGa~iv~~~   65 (93)
                      -|||-+.-+.++.+..   +...++|||||||-+|+. .=.|    +.||..||.-
T Consensus        55 RGITIKaq~v~l~Yk~~~g~~Y~lnlIDTPGHVDFsY-EVSRSLAACEGalLvVDA  109 (603)
T COG0481          55 RGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVDFSY-EVSRSLAACEGALLVVDA  109 (603)
T ss_pred             cCceEEeeEEEEEEEeCCCCEEEEEEcCCCCccceEE-EehhhHhhCCCcEEEEEC
Confidence            5899999999999862   446799999999999984 3333    4677777765

>cd04168 TetM_like Tet(M)-like subfamily

Probab=96.87  E-value=0.00084  Score=50.29  Aligned_cols=48  Identities=15%  Similarity=0.036  Sum_probs=33.0

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch--hh-hhcccEeEEec
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF--FV-QLRNFVIVLRK   65 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~--~m-R~RGa~iv~~~   65 (93)
                      ..|||.......+..  ++.+++|+|||||..|....  .+ ...++.+|++-
T Consensus        47 ~rg~ti~~~~~~~~~--~~~~i~liDTPG~~~f~~~~~~~l~~aD~~IlVvd~   97 (237)
T cd04168          47 QRGITIFSAVASFQW--EDTKVNLIDTPGHMDFIAEVERSLSVLDGAILVISA   97 (237)
T ss_pred             hCCCceeeeeEEEEE--CCEEEEEEeCCCccchHHHHHHHHHHhCeEEEEEeC
Confidence            457787777777776  47899999999999986411  01 12366777764

Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.

>TIGR01393 lepA GTP-binding protein LepA

Probab=96.83  E-value=0.00073  Score=57.48  Aligned_cols=35  Identities=17%  Similarity=0.052  Sum_probs=27.6

Q ss_pred             cCcceeeecceEEEEc---CCCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMS---TGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~---~~~~~itFiDTPGHeAFs~   50 (93)
                      ..|||.+..+..+.+.   ++...++|+|||||+.|..
T Consensus        48 erGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~dF~~   85 (595)
T TIGR01393        48 ERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVDFSY   85 (595)
T ss_pred             hcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcHHHHH
Confidence            3589998888888763   2335799999999999964

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.

>cd04167 Snu114p Snu114p subfamily

Probab=96.81  E-value=0.00089  Score=48.08  Aligned_cols=50  Identities=12%  Similarity=0.035  Sum_probs=33.3

Q ss_pred             cCcceeeecceEEEEcC---CCCeeEEEcCCCcccccCch---hhhhcccEeEEec
Q 045003           16 AGGITQHVGAFVIGMST---GGIKFNFHNCEFYHRTSLFF---FVQLRNFVIVLRK   65 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~---~~~~itFiDTPGHeAFs~f~---~mR~RGa~iv~~~   65 (93)
                      .-|||.+.....+.+.+   ....++|+|||||+.|....   -.+..++.+|+.-
T Consensus        49 ~~giti~~~~~~~~~~~~~~~~~~i~iiDtpG~~~f~~~~~~~~~~aD~~llVvD~  104 (213)
T cd04167          49 ERGISIKSSPISLVLPDSKGKSYLFNIIDTPGHVNFMDEVAAALRLSDGVVLVVDV  104 (213)
T ss_pred             HcCccccccceeEEEEcCCCCEEEEEEEECCCCcchHHHHHHHHHhCCEEEEEEEC
Confidence            35788888888776642   34679999999999985311   1133456666654

Snu114p is one of several proteins that make up the U5 small nuclear ribonucleoprotein (snRNP) particle. U5 is a component of the spliceosome, which catalyzes the splicing of pre-mRNA to remove introns. Snu114p is homologous to EF-2, but typically contains an additional N-terminal domain not found in Ef-2. This protein is part of the GTP translation factor family and the Ras superfamily, characterized by five G-box motifs.

>PRK05433 GTP-binding protein LepA; Provisional

Probab=96.77  E-value=0.00083  Score=57.20  Aligned_cols=35  Identities=17%  Similarity=0.048  Sum_probs=27.8

Q ss_pred             cCcceeeecceEEEEc---CCCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMS---TGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~---~~~~~itFiDTPGHeAFs~   50 (93)
                      ..|||.+..+..+.+.   ++...++|+|||||+.|..
T Consensus        52 erGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh~dF~~   89 (600)
T PRK05433         52 ERGITIKAQAVRLNYKAKDGETYILNLIDTPGHVDFSY   89 (600)
T ss_pred             hcCCcccccEEEEEEEccCCCcEEEEEEECCCcHHHHH
Confidence            4689998888887763   2356799999999999964

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

Probab=96.76  E-value=0.0041  Score=40.01  Aligned_cols=66  Identities=17%  Similarity=0.144  Sum_probs=41.2

Q ss_pred             hhhHHhhcCCc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc-----------hhhhhcccEeEEeccccc
Q 045003            2 ISDALRQTSVV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF-----------FFVQLRNFVIVLRKNNCQ   69 (93)
Q Consensus         2 LLD~IR~t~Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f-----------~~mR~RGa~iv~~~~~~~   69 (93)
                      |+.+|.+...+ .++.-|+|+......+..  ++..++++||||+..+...           ...+..++.+|++-.+..
T Consensus        17 li~~l~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~d~~~~~   94 (157)
T cd04164          17 LLNALAGRDRAIVSDIAGTTRDVIEESIDI--GGIPVRLIDTAGIRETEDEIEKIGIERAREAIEEADLVLFVIDASRGL   94 (157)
T ss_pred             HHHHHHCCceEeccCCCCCccceEEEEEEe--CCEEEEEEECCCcCCCcchHHHHHHHHHHHHHhhCCEEEEEEECCCCC
Confidence            45555554432 244558888876666665  3678999999999877531           112566677777665533

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.

>cd04135 Tc10 TC10 subfamily

Probab=96.74  E-value=0.0026  Score=42.65  Aligned_cols=51  Identities=4%  Similarity=-0.089  Sum_probs=28.4

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchh
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFF   53 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~   53 (93)
                      |+..+.+.+..+....-+... ....+..++....+.++|||||+.|..+..
T Consensus        16 l~~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~   66 (174)
T cd04135          16 LLMSYANDAFPEEYVPTVFDH-YAVSVTVGGKQYLLGLYDTAGQEDYDRLRP   66 (174)
T ss_pred             HHHHHHhCCCCCCCCCceeee-eEEEEEECCEEEEEEEEeCCCccccccccc
Confidence            556665555444333333222 223454432334578999999999876443

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

>TIGR00484 EF-G translation elongation factor EF-G

Probab=96.71  E-value=0.0014  Score=55.83  Aligned_cols=33  Identities=18%  Similarity=0.102  Sum_probs=28.9

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      ..|||.+..+..+.+.  +.+++|+|||||..|..
T Consensus        58 ~rgiti~~~~~~~~~~--~~~i~liDTPG~~~~~~   90 (689)
T TIGR00484        58 ERGITITSAATTVFWK--GHRINIIDTPGHVDFTV   90 (689)
T ss_pred             hcCCCEecceEEEEEC--CeEEEEEECCCCcchhH
Confidence            3699999999999884  78999999999998854

After peptide bond formation, this elongation factor of bacteria and organelles catalyzes the translocation of the tRNA-mRNA complex, with its attached nascent polypeptide chain, from the A-site to the P-site of the ribosome. Every completed bacterial genome has at least one copy, but some species have additional EF-G-like proteins. The closest homolog to canonical (e.g. E. coli) EF-G in the spirochetes clusters as if it is derived from mitochondrial forms, while a more distant second copy is also present. Synechocystis PCC6803 has a few proteins more closely related to EF-G than to any other characterized protein. Two of these resemble E. coli EF-G more closely than does the best match from the spirochetes; it may be that both function as authentic EF-G.

>KOG0465 consensus Mitochondrial elongation factor [Translation, ribosomal structure and biogenesis]

Probab=96.71  E-value=0.0012  Score=58.70  Aligned_cols=46  Identities=20%  Similarity=0.130  Sum_probs=36.3

Q ss_pred             CcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhh----hcccEeEEec
Q 045003           17 GGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQ----LRNFVIVLRK   65 (93)
Q Consensus        17 GGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR----~RGa~iv~~~   65 (93)
                      -|||-...|..+.+.  ...|+.||||||-+|+- .=-|    .-||+.||.-
T Consensus        88 rgITiqSAAt~~~w~--~~~iNiIDTPGHvDFT~-EVeRALrVlDGaVlvl~a  137 (721)
T KOG0465|consen   88 RGITIQSAATYFTWR--DYRINIIDTPGHVDFTF-EVERALRVLDGAVLVLDA  137 (721)
T ss_pred             cCceeeeceeeeeec--cceeEEecCCCceeEEE-EehhhhhhccCeEEEEEc
Confidence            589999999999995  88999999999999983 3222    2477777643

>PRK12739 elongation factor G; Reviewed

Probab=96.70  E-value=0.00087  Score=57.25  Aligned_cols=33  Identities=18%  Similarity=0.058  Sum_probs=29.2

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      ..|||.+....++.+  ++.+++|+|||||..|..
T Consensus        56 ~rgiti~~~~~~~~~--~~~~i~liDTPG~~~f~~   88 (691)
T PRK12739         56 ERGITITSAATTCFW--KGHRINIIDTPGHVDFTI   88 (691)
T ss_pred             hcCCCccceeEEEEE--CCEEEEEEcCCCHHHHHH
Confidence            578999999999998  488999999999998854

>cd00881 GTP_translation_factor GTP translation factor family

Probab=96.70  E-value=0.0019  Score=43.10  Aligned_cols=33  Identities=21%  Similarity=0.151  Sum_probs=26.1

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      ..|+|.+.....++..  ..++.|+|||||+.|..
T Consensus        45 ~~~~~~~~~~~~~~~~--~~~~~liDtpG~~~~~~   77 (189)
T cd00881          45 ERGITIKSGVATFEWP--DRRVNFIDTPGHEDFSS   77 (189)
T ss_pred             HcCCCeecceEEEeeC--CEEEEEEeCCCcHHHHH
Confidence            4678888777777764  67899999999987754

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.

>PTZ00416 elongation factor 2; Provisional

Probab=96.65  E-value=0.0013  Score=57.74  Aligned_cols=50  Identities=12%  Similarity=-0.002  Sum_probs=33.1

Q ss_pred             cCcceeeecceEEEEcC--------CCCeeEEEcCCCcccccCch--hhh-hcccEeEEec
Q 045003           16 AGGITQHVGAFVIGMST--------GGIKFNFHNCEFYHRTSLFF--FVQ-LRNFVIVLRK   65 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~--------~~~~itFiDTPGHeAFs~f~--~mR-~RGa~iv~~~   65 (93)
                      .-|||.+.++..+.+..        .+..|+|+|||||..|..-.  .+| .-|+++|++-
T Consensus        65 ~rgiti~~~~~~~~~~~~~~~~~~~~~~~i~liDtPG~~~f~~~~~~al~~~D~ailVvda  125 (836)
T PTZ00416         65 ERGITIKSTGISLYYEHDLEDGDDKQPFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDC  125 (836)
T ss_pred             hhcceeeccceEEEeecccccccCCCceEEEEEcCCCHHhHHHHHHHHHhcCCeEEEEEEC
Confidence            36889888888777752        14579999999999985411  112 2255666653

>cd04106 Rab23_lke Rab23-like subfamily

Probab=96.59  E-value=0.0038  Score=41.09  Aligned_cols=51  Identities=4%  Similarity=-0.082  Sum_probs=29.9

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEc--CCCCeeEEEcCCCcccccCc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMS--TGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~--~~~~~itFiDTPGHeAFs~f   51 (93)
                      +|+.++.+..........++....-..+...  +...++.+.||||++.|..+
T Consensus        15 sl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~   67 (162)
T cd04106          15 SMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAI   67 (162)
T ss_pred             HHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCchHHHHHh
Confidence            3566666544444334444444433334443  33457999999999988763

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

>cd00880 Era_like Era (E

Probab=96.57  E-value=0.0065  Score=37.84  Aligned_cols=48  Identities=13%  Similarity=0.004  Sum_probs=35.3

Q ss_pred             hhhHHhhcCCc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            2 ISDALRQTSVV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         2 LLD~IR~t~Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      |+.+|-+..+. ..+..+.|+....+..... ....+.|+||||+..+..
T Consensus        12 l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~Dt~g~~~~~~   60 (163)
T cd00880          12 LLNALLGQEVAIVSPVPGTTTDPVEYVWELG-PLGPVVLIDTPGIDEAGG   60 (163)
T ss_pred             HHHHHhCccccccCCCCCcEECCeEEEEEec-CCCcEEEEECCCCCcccc
Confidence            56666665555 5667778888877777663 367899999999988754

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

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=96.54  E-value=0.0019  Score=56.49  Aligned_cols=38  Identities=18%  Similarity=0.131  Sum_probs=31.0

Q ss_pred             CCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           10 SVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        10 ~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      |=.++| -|||---..+.|.+.  +.+|+.+|||||++|.-
T Consensus        46 nDlEkE-RGITILaKnTav~~~--~~~INIvDTPGHADFGG   83 (603)
T COG1217          46 NDLEKE-RGITILAKNTAVNYN--GTRINIVDTPGHADFGG   83 (603)
T ss_pred             cchhhh-cCcEEEeccceeecC--CeEEEEecCCCcCCccc
Confidence            333445 479999899999984  89999999999999975

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

Probab=96.47  E-value=0.0024  Score=56.41  Aligned_cols=47  Identities=15%  Similarity=-0.026  Sum_probs=34.2

Q ss_pred             CcceeeecceEEEEc-CCCCeeEEEcCCCcccccCchhhhh----cccEeEEe
Q 045003           17 GGITQHVGAFVIGMS-TGGIKFNFHNCEFYHRTSLFFFVQL----RNFVIVLR   64 (93)
Q Consensus        17 GGITQhIGA~~V~~~-~~~~~itFiDTPGHeAFs~f~~mR~----RGa~iv~~   64 (93)
                      -|||-+--...+-+. +....+++||||||.+|+. +=+|+    -|+..||.
T Consensus       106 RGITIkaQtasify~~~~~ylLNLIDTPGHvDFs~-EVsRslaac~G~lLvVD  157 (650)
T KOG0462|consen  106 RGITIKAQTASIFYKDGQSYLLNLIDTPGHVDFSG-EVSRSLAACDGALLVVD  157 (650)
T ss_pred             cCcEEEeeeeEEEEEcCCceEEEeecCCCcccccc-eehehhhhcCceEEEEE
Confidence            589988887777775 2347899999999999987 44443    45555554

>cd01862 Rab7 Rab7 subfamily

Probab=96.47  E-value=0.0043  Score=41.06  Aligned_cols=42  Identities=10%  Similarity=0.034  Sum_probs=24.7

Q ss_pred             EEEcCCCCeeEEEcCCCcccccCchh--hh-hcccEeEEeccccc
Q 045003           28 IGMSTGGIKFNFHNCEFYHRTSLFFF--VQ-LRNFVIVLRKNNCQ   69 (93)
Q Consensus        28 V~~~~~~~~itFiDTPGHeAFs~f~~--mR-~RGa~iv~~~~~~~   69 (93)
                      +..++....+.|+|||||+.|..+..  +| ..++.++..-++.+
T Consensus        42 ~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~~~   86 (172)
T cd01862          42 VTVDDKLVTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDVTNPK   86 (172)
T ss_pred             EEECCEEEEEEEEeCCChHHHHhHHHHHhcCCCEEEEEEECCCHH
Confidence            44432334567999999998876322  11 34556666555544

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-

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=96.46  E-value=0.0022  Score=53.94  Aligned_cols=33  Identities=12%  Similarity=0.001  Sum_probs=26.9

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      ..|||......++.+  ++.+++++|||||+.|+.
T Consensus        62 ~rgiSi~~~~~~~~~--~~~~inliDTPG~~df~~   94 (526)
T PRK00741         62 QRGISVTSSVMQFPY--RDCLINLLDTPGHEDFSE   94 (526)
T ss_pred             hhCCceeeeeEEEEE--CCEEEEEEECCCchhhHH
Confidence            357887777777777  478999999999999874

>PRK10218 GTP-binding protein; Provisional

Probab=96.41  E-value=0.0028  Score=54.55  Aligned_cols=33  Identities=15%  Similarity=-0.001  Sum_probs=28.2

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      ..|||.......+.+  ++.+++++|||||+.|..
T Consensus        51 erGiTi~~~~~~i~~--~~~~inliDTPG~~df~~   83 (607)
T PRK10218         51 ERGITILAKNTAIKW--NDYRINIVDTPGHADFGG   83 (607)
T ss_pred             cCceEEEEEEEEEec--CCEEEEEEECCCcchhHH
Confidence            368999888888887  478999999999999964

>cd01860 Rab5_related Rab5-related subfamily

Probab=96.37  E-value=0.0051  Score=40.53  Aligned_cols=28  Identities=11%  Similarity=0.150  Sum_probs=19.4

Q ss_pred             ceEEEEcCCCCeeEEEcCCCcccccCch
Q 045003           25 AFVIGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus        25 A~~V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      ...+..+....++.++|||||+.|..+.
T Consensus        40 ~~~v~~~~~~~~~~i~D~~G~~~~~~~~   67 (163)
T cd01860          40 TQTVNLDDTTVKFEIWDTAGQERYRSLA   67 (163)
T ss_pred             EEEEEECCEEEEEEEEeCCchHHHHHHH
Confidence            3455554345578889999999887643

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

>cd04169 RF3 RF3 subfamily

Probab=96.36  E-value=0.0027  Score=48.52  Aligned_cols=32  Identities=13%  Similarity=0.015  Sum_probs=24.8

Q ss_pred             CcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           17 GGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        17 GGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      .|||.......+.+  ++.++.++|||||+.|..
T Consensus        55 rg~si~~~~~~~~~--~~~~i~liDTPG~~df~~   86 (267)
T cd04169          55 RGISVTSSVMQFEY--RDCVINLLDTPGHEDFSE   86 (267)
T ss_pred             CCCCeEEEEEEEee--CCEEEEEEECCCchHHHH
Confidence            36666666666666  588999999999998864

Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and activate the release of the nascent polypeptide. The class II release factor RF3 then initiates the release of the class I RF from the ribosome. RF3 binds to the RF/ribosome complex in the inactive (GDP-bound) state. GDP/GTP exchange occurs, followed by the release of the class I RF. Subsequent hydrolysis of GTP to GDP triggers the release of RF3 from the ribosome. RF3 also enhances the efficiency of class I RFs at less preferred stop codons and at stop codons in weak contexts.

>TIGR00503 prfC peptide chain release factor 3

Probab=96.35  E-value=0.003  Score=53.20  Aligned_cols=33  Identities=12%  Similarity=-0.002  Sum_probs=27.4

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      ..|||......++++  ++.+++|+|||||+.|..
T Consensus        63 ~rgisi~~~~~~~~~--~~~~inliDTPG~~df~~   95 (527)
T TIGR00503        63 QRGISITTSVMQFPY--RDCLVNLLDTPGHEDFSE   95 (527)
T ss_pred             hcCCcEEEEEEEEee--CCeEEEEEECCChhhHHH
Confidence            357888888888877  478999999999999864

This translation releasing factor, RF-3 (prfC) was originally described as stop codon-independent, in contrast to peptide chain release factor 1 (RF-1, prfA) and RF-2 (prfB). RF-1 and RF-2 are closely related to each other, while RF-3 is similar to elongation factors EF-Tu and EF-G; RF-1 is active at UAA and UAG and RF-2 is active at UAA and UGA. More recently, RF-3 was shown to be active primarily at UGA stop codons in E. coli. All bacteria and organelles have RF-1. The Mycoplasmas and organelles, which translate UGA as Trp rather than as a stop codon, lack RF-2. RF-3, in contrast, seems to be rare among bacteria and is found so far only in Escherichia coli and some other gamma subdivision Proteobacteria, in Synechocystis PCC6803, and in Staphylococcus aureus.

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=96.34  E-value=0.0048  Score=43.67  Aligned_cols=47  Identities=15%  Similarity=0.102  Sum_probs=34.3

Q ss_pred             ChhhHHhhcCCcCcc--cCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003            1 MISDALRQTSVVAKE--AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS   49 (93)
Q Consensus         1 sLLD~IR~t~Va~~E--aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs   49 (93)
                      +|+.+|-+..++..+  +.|.|++...+....  ++..+++|||||-..+.
T Consensus        15 sl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~~--~~~~i~viDTPG~~d~~   63 (196)
T cd01852          15 ATGNTILGREVFESKLSASSVTKTCQKESAVW--DGRRVNVIDTPGLFDTS   63 (196)
T ss_pred             HHHHHhhCCCccccccCCCCcccccceeeEEE--CCeEEEEEECcCCCCcc
Confidence            356666666665544  458899888777776  47899999999976653

This represents Arabidoposis protein AIG1 that appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2. This subfamily also includes IAN-4 protein, which has GTP-binding activity and shares sequence homology with a novel family of putative GTP-binding proteins: the immuno-associated nucleotide (IAN) family. The evolutionary conservation of the IAN family provides a unique example of a plant pathogen response gene conserved in animals. The IAN/IMAP subfamily has been proposed to regulate apoptosis in vertebrates and angiosperm plants, particularly in relation to cancer, diabetes, and infections. The human IAN genes were renamed GIMAP (GTPase of the immunity associated proteins).

>PRK00007 elongation factor G; Reviewed

Probab=96.33  E-value=0.0027  Score=54.42  Aligned_cols=33  Identities=15%  Similarity=0.005  Sum_probs=28.8

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      ..|||.+.....+.+.  +.+++|+|||||..|..
T Consensus        58 ~rg~ti~~~~~~~~~~--~~~~~liDTPG~~~f~~   90 (693)
T PRK00007         58 ERGITITSAATTCFWK--DHRINIIDTPGHVDFTI   90 (693)
T ss_pred             hCCCCEeccEEEEEEC--CeEEEEEeCCCcHHHHH
Confidence            5689999998888884  78999999999999864

>cd04165 GTPBP1_like GTPBP1-like

Probab=96.30  E-value=0.003  Score=47.11  Aligned_cols=18  Identities=11%  Similarity=-0.103  Sum_probs=15.5

Q ss_pred             CCCeeEEEcCCCcccccC
Q 045003           33 GGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~   50 (93)
                      +++.++|+|||||+.|..
T Consensus        82 ~~~~i~liDtpG~~~~~~   99 (224)
T cd04165          82 SSKLVTFIDLAGHERYLK   99 (224)
T ss_pred             CCcEEEEEECCCcHHHHH
Confidence            467899999999999953

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

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=96.30  E-value=0.009  Score=50.84  Aligned_cols=48  Identities=13%  Similarity=0.073  Sum_probs=37.7

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      +|+.++.+.+...++.-|+|++.....+..+  +.++.++||||+..|..
T Consensus         9 SL~N~Ltg~~~~v~n~pG~Tv~~~~~~i~~~--~~~i~lvDtPG~~~~~~   56 (591)
T TIGR00437         9 TLFNALTGANQTVGNWPGVTVEKKEGKLGFQ--GEDIEIVDLPGIYSLTT   56 (591)
T ss_pred             HHHHHHhCCCCeecCCCCeEEEEEEEEEEEC--CeEEEEEECCCccccCc
Confidence            4677787776656667789999877777763  67899999999998875

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.

>cd04116 Rab9 Rab9 subfamily

Probab=96.26  E-value=0.0066  Score=40.64  Aligned_cols=26  Identities=4%  Similarity=-0.077  Sum_probs=17.2

Q ss_pred             EEEEcCCCCeeEEEcCCCcccccCch
Q 045003           27 VIGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus        27 ~V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      .+..++....+.+.|||||+.|..+.
T Consensus        46 ~~~~~~~~~~l~i~D~~G~~~~~~~~   71 (170)
T cd04116          46 DLEVDGHFVTLQIWDTAGQERFRSLR   71 (170)
T ss_pred             EEEECCeEEEEEEEeCCChHHHHHhH
Confidence            34443334467788999999987643

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

>cd04123 Rab21 Rab21 subfamily

Probab=96.26  E-value=0.0066  Score=39.38  Aligned_cols=51  Identities=6%  Similarity=-0.027  Sum_probs=31.3

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      +|++++............++-.+..-.+...+....+.+.||||++.|..+
T Consensus        15 tli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~   65 (162)
T cd04123          15 SLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQERYHAL   65 (162)
T ss_pred             HHHHHHHhCCCCCCcCCccceeEEEEEEEECCEEEEEEEEECCchHHHHHh
Confidence            366777776666554444444444344444322346889999999988763

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

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=96.26  E-value=0.0032  Score=55.43  Aligned_cols=50  Identities=12%  Similarity=-0.020  Sum_probs=32.9

Q ss_pred             cCcceeeecceEEEEc--------------CCCCeeEEEcCCCcccccCc--hhhh-hcccEeEEec
Q 045003           16 AGGITQHVGAFVIGMS--------------TGGIKFNFHNCEFYHRTSLF--FFVQ-LRNFVIVLRK   65 (93)
Q Consensus        16 aGGITQhIGA~~V~~~--------------~~~~~itFiDTPGHeAFs~f--~~mR-~RGa~iv~~~   65 (93)
                      .-|||-+..+..+.+.              +++..|+|||||||..|..=  ..+| .-|+.+|++-
T Consensus        65 ~rgiti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~inliDtPGh~dF~~e~~~al~~~D~ailVvda  131 (843)
T PLN00116         65 ERGITIKSTGISLYYEMTDESLKDFKGERDGNEYLINLIDSPGHVDFSSEVTAALRITDGALVVVDC  131 (843)
T ss_pred             HhCCceecceeEEEeecccccccccccccCCCceEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEEC
Confidence            3578877777777663              12568999999999999640  0122 2366677763

>cd04157 Arl6 Arl6 subfamily

Probab=96.25  E-value=0.0043  Score=40.68  Aligned_cols=47  Identities=15%  Similarity=0.227  Sum_probs=26.3

Q ss_pred             ceeeecceEEEEcCCCCeeEEEcCCCcccccCchhh---hhcccEeEEec
Q 045003           19 ITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFV---QLRNFVIVLRK   65 (93)
Q Consensus        19 ITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~m---R~RGa~iv~~~   65 (93)
                      +++.+|........+..++.+.||||++.|..+..+   ...++.+|++-
T Consensus        29 ~~~t~g~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~   78 (162)
T cd04157          29 IVPTVGFNVESFEKGNLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVIDS   78 (162)
T ss_pred             ecCccccceEEEEECCEEEEEEECCCCHhhHHHHHHHHccCCEEEEEEeC
Confidence            444455322222224668999999999988653332   23344455443

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

>cd01864 Rab19 Rab19 subfamily

Probab=96.22  E-value=0.006  Score=40.78  Aligned_cols=33  Identities=9%  Similarity=0.051  Sum_probs=20.7

Q ss_pred             CeeEEEcCCCcccccCchh--hh-hcccEeEEeccc
Q 045003           35 IKFNFHNCEFYHRTSLFFF--VQ-LRNFVIVLRKNN   67 (93)
Q Consensus        35 ~~itFiDTPGHeAFs~f~~--mR-~RGa~iv~~~~~   67 (93)
                      ..+.+.|||||+.|..+..  +| ..++.+|+.-.+
T Consensus        52 ~~l~i~D~~G~~~~~~~~~~~~~~~d~~llv~d~~~   87 (165)
T cd01864          52 VKLQIWDTAGQERFRTITQSYYRSANGAIIAYDITR   87 (165)
T ss_pred             EEEEEEECCChHHHHHHHHHHhccCCEEEEEEECcC
Confidence            4789999999998865221  12 345555555544

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.

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=96.12  E-value=0.0082  Score=40.04  Aligned_cols=49  Identities=10%  Similarity=0.009  Sum_probs=27.2

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      |+.++.+.+......-.++...-...+...+....+.++||||++.|..
T Consensus        18 li~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~   66 (166)
T cd01869          18 LLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRT   66 (166)
T ss_pred             HHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHhHHH
Confidence            5555654443333333333333333444432344788999999998865

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

>PRK12740 elongation factor G; Reviewed

Probab=96.09  E-value=0.0041  Score=52.37  Aligned_cols=33  Identities=18%  Similarity=0.035  Sum_probs=28.1

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      ..|||.......+.+  ++..++|+|||||..|..
T Consensus        43 ~rgiTi~~~~~~~~~--~~~~i~liDtPG~~~~~~   75 (668)
T PRK12740         43 ERGISITSAATTCEW--KGHKINLIDTPGHVDFTG   75 (668)
T ss_pred             hcCCCeeeceEEEEE--CCEEEEEEECCCcHHHHH
Confidence            468999998888888  478999999999988754

>cd00154 Rab Rab family

Probab=96.09  E-value=0.0076  Score=38.26  Aligned_cols=49  Identities=8%  Similarity=-0.023  Sum_probs=28.4

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      |+.++.+......+.=-++-+.....+..++....+.++||||++.|..
T Consensus        16 l~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~   64 (159)
T cd00154          16 LLLRFVDGKFDENYKSTIGVDFKSKTIEIDGKTVKLQIWDTAGQERFRS   64 (159)
T ss_pred             HHHHHHhCcCCCccCCceeeeeEEEEEEECCEEEEEEEEecCChHHHHH
Confidence            5555655444443222223344445555543356789999999998765

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

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

Probab=96.08  E-value=0.0092  Score=39.20  Aligned_cols=18  Identities=6%  Similarity=-0.138  Sum_probs=14.7

Q ss_pred             CCeeEEEcCCCcccccCc
Q 045003           34 GIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f   51 (93)
                      ...+.++|||||+.|..+
T Consensus        49 ~~~~~i~Dt~G~~~~~~~   66 (164)
T cd04145          49 WAILDILDTAGQEEFSAM   66 (164)
T ss_pred             EEEEEEEECCCCcchhHH
Confidence            346889999999998764

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

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=95.99  E-value=0.0041  Score=52.76  Aligned_cols=36  Identities=17%  Similarity=0.035  Sum_probs=28.8

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhh
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQ   55 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR   55 (93)
                      -.|||-++-=-++.+  +..++...||||||-|+.  +|-
T Consensus        69 EQGITIDVAYRyFsT--~KRkFIiADTPGHeQYTR--NMa  104 (431)
T COG2895          69 EQGITIDVAYRYFST--EKRKFIIADTPGHEQYTR--NMA  104 (431)
T ss_pred             hcCceEEEEeeeccc--ccceEEEecCCcHHHHhh--hhh
Confidence            468999997656665  588999999999999974  553

>cd04132 Rho4_like Rho4-like subfamily

Probab=95.97  E-value=0.011  Score=40.33  Aligned_cols=33  Identities=6%  Similarity=0.019  Sum_probs=21.1

Q ss_pred             CCeeEEEcCCCcccccCchhhhhcc---cEeEEecc
Q 045003           34 GIKFNFHNCEFYHRTSLFFFVQLRN---FVIVLRKN   66 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f~~mR~RG---a~iv~~~~   66 (93)
                      ...+.+.||||++.|..+.....++   +.+|.+-.
T Consensus        48 ~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v~d~~   83 (187)
T cd04132          48 IIELALWDTAGQEEYDRLRPLSYPDVDVLLICYAVD   83 (187)
T ss_pred             EEEEEEEECCCchhHHHHHHHhCCCCCEEEEEEECC
Confidence            3468899999999987754443343   34444443

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.

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=95.89  E-value=0.01  Score=36.15  Aligned_cols=50  Identities=12%  Similarity=0.023  Sum_probs=29.2

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      +|+.+|.+......+......+....++........++++||||+..+..
T Consensus        11 tl~~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~   60 (157)
T cd00882          11 SLLNRLLGGEFVPEEYETTIIDFYSKTIEVDGKKVKLQIWDTAGQERFRS   60 (157)
T ss_pred             HHHHHHHhCCcCCcccccchhheeeEEEEECCEEEEEEEEecCChHHHHh
Confidence            35666666555333333222344444444333466899999999998765

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

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=95.88  E-value=0.011  Score=42.78  Aligned_cols=50  Identities=16%  Similarity=0.231  Sum_probs=32.0

Q ss_pred             ceeeecceEEEEcCCCCeeEEEcCCCcccccCch--hhhh--cccEeEEecccc
Q 045003           19 ITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF--FVQL--RNFVIVLRKNNC   68 (93)
Q Consensus        19 ITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~--~mR~--RGa~iv~~~~~~   68 (93)
                      ++.+++.+.+..+..+..+.++|||||+.|....  .++.  +|+++|++-.+-
T Consensus        32 ~~~~~~~~~~~~~~~~~~~~l~D~pG~~~~~~~~~~~~~~~~~~vV~VvD~~~~   85 (203)
T cd04105          32 IEPNVATFILNSEGKGKKFRLVDVPGHPKLRDKLLETLKNSAKGIVFVVDSATF   85 (203)
T ss_pred             EeecceEEEeecCCCCceEEEEECCCCHHHHHHHHHHHhccCCEEEEEEECccc
Confidence            4555555555432346789999999999885422  1333  577888776543

SR-beta and SR-alpha form the heterodimeric signal recognition particle (SRP or SR) receptor that binds SRP to regulate protein translocation across the ER membrane. Nascent polypeptide chains are synthesized with an N-terminal hydrophobic signal sequence that binds SRP54, a component of the SRP. SRP directs targeting of the ribosome-nascent chain complex (RNC) to the ER membrane via interaction with the SR, which is localized to the ER membrane. The RNC is then transferred to the protein-conducting channel, or translocon, which facilitates polypeptide translation across the ER membrane or integration into the ER membrane. SR-beta is found only in eukaryotes; it is believed to control the release of the signal sequence from SRP54 upon binding of the ribosome to the translocon. High expression of SR-beta has been observed in human colon cancer, suggesting it may play a role in the development of this typ

>cd04175 Rap1 Rap1 subgroup

Probab=95.88  E-value=0.011  Score=39.26  Aligned_cols=37  Identities=8%  Similarity=0.107  Sum_probs=22.5

Q ss_pred             EEEcCCCCeeEEEcCCCcccccCchhhhhc---ccEeEEe
Q 045003           28 IGMSTGGIKFNFHNCEFYHRTSLFFFVQLR---NFVIVLR   64 (93)
Q Consensus        28 V~~~~~~~~itFiDTPGHeAFs~f~~mR~R---Ga~iv~~   64 (93)
                      +...+....+.+.||||++.|..+..+-.+   ++.+|..
T Consensus        42 ~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d   81 (164)
T cd04175          42 VEVDGQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLVYS   81 (164)
T ss_pred             EEECCEEEEEEEEECCCcccchhHHHHHHhhCCEEEEEEE
Confidence            444323456779999999998875444333   3444444

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

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=95.88  E-value=0.0098  Score=39.43  Aligned_cols=22  Identities=14%  Similarity=0.188  Sum_probs=17.4

Q ss_pred             EEEEcCCCCeeEEEcCCCcccccC
Q 045003           27 VIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        27 ~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      .+.+  ++..+.++|||||+.|..
T Consensus        44 ~~~~--~~~~~~l~Dt~G~~~~~~   65 (167)
T cd04160          44 TIEV--GNARLKFWDLGGQESLRS   65 (167)
T ss_pred             EEEE--CCEEEEEEECCCChhhHH
Confidence            4454  367899999999998865

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.

>PRK13351 elongation factor G; Reviewed

Probab=95.83  E-value=0.0059  Score=51.83  Aligned_cols=48  Identities=17%  Similarity=0.063  Sum_probs=33.7

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch--hhh-hcccEeEEec
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF--FVQ-LRNFVIVLRK   65 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~--~mR-~RGa~iv~~~   65 (93)
                      ..|||.......+.+  ++.+++|+|||||..|....  .+| ..++.+|++-
T Consensus        56 ~r~~ti~~~~~~~~~--~~~~i~liDtPG~~df~~~~~~~l~~aD~~ilVvd~  106 (687)
T PRK13351         56 ERGITIESAATSCDW--DNHRINLIDTPGHIDFTGEVERSLRVLDGAVVVFDA  106 (687)
T ss_pred             hcCCCcccceEEEEE--CCEEEEEEECCCcHHHHHHHHHHHHhCCEEEEEEeC
Confidence            368888888888887  47899999999999986411  112 2355566654

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

Probab=95.82  E-value=0.011  Score=39.25  Aligned_cols=45  Identities=4%  Similarity=-0.110  Sum_probs=28.9

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCccc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHR   47 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeA   47 (93)
                      +|+.++-+.+....+..+.|+.+..-.+..  ++.+++|+||||+..
T Consensus        15 sli~~l~~~~~~~~~~~~~t~~~~~~~~~~--~~~~~~i~Dt~G~~~   59 (168)
T cd01897          15 SLVNKLTRAKPEVAPYPFTTKSLFVGHFDY--KYLRWQVIDTPGLLD   59 (168)
T ss_pred             HHHHHHhcCCCccCCCCCcccceeEEEEcc--CceEEEEEECCCcCC
Confidence            366677666554444556666654444443  357899999999953

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.

>cd01863 Rab18 Rab18 subfamily

Probab=95.75  E-value=0.018  Score=37.98  Aligned_cols=49  Identities=8%  Similarity=0.001  Sum_probs=25.5

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      |+.++.+......+..-++-......+...+....+.++||||++.|..
T Consensus        16 li~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~   64 (161)
T cd01863          16 LLLRFTDDTFDPDLAATIGVDFKVKTLTVDGKKVKLAIWDTAGQERFRT   64 (161)
T ss_pred             HHHHHHcCCCCcccCCcccceEEEEEEEECCEEEEEEEEECCCchhhhh
Confidence            5666665444332222221111122233332345789999999998865

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

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=95.72  E-value=0.012  Score=38.85  Aligned_cols=63  Identities=11%  Similarity=-0.030  Sum_probs=31.9

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhh--h-hcccEeEEec
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFV--Q-LRNFVIVLRK   65 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~m--R-~RGa~iv~~~   65 (93)
                      |+.++.+..........+ .+.-...+..++....+.++||||++.|..+...  + ..++.+|..-
T Consensus        16 li~~~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~   81 (164)
T smart00173       16 LTIQFVQGHFVDDYDPTI-EDSYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVYSI   81 (164)
T ss_pred             HHHHHHhCcCCcccCCch-hhhEEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhCCEEEEEEEC
Confidence            555565544333222222 2222223333323346788999999998764322  2 3355555554

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

>cd04136 Rap_like Rap-like subfamily

Probab=95.70  E-value=0.014  Score=38.26  Aligned_cols=19  Identities=0%  Similarity=-0.146  Sum_probs=14.9

Q ss_pred             CCeeEEEcCCCcccccCch
Q 045003           34 GIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f~   52 (93)
                      ...+.+.||||++.|..+.
T Consensus        48 ~~~l~i~Dt~G~~~~~~~~   66 (163)
T cd04136          48 QCMLEILDTAGTEQFTAMR   66 (163)
T ss_pred             EEEEEEEECCCccccchHH
Confidence            3467889999999987643

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.

>cd04176 Rap2 Rap2 subgroup

Probab=95.67  E-value=0.017  Score=38.22  Aligned_cols=28  Identities=4%  Similarity=-0.102  Sum_probs=18.9

Q ss_pred             EEEEcCCCCeeEEEcCCCcccccCchhh
Q 045003           27 VIGMSTGGIKFNFHNCEFYHRTSLFFFV   54 (93)
Q Consensus        27 ~V~~~~~~~~itFiDTPGHeAFs~f~~m   54 (93)
                      .+..++....+.+.||||++.|..+..+
T Consensus        41 ~~~~~~~~~~l~i~Dt~G~~~~~~~~~~   68 (163)
T cd04176          41 EIEVDSSPSVLEILDTAGTEQFASMRDL   68 (163)
T ss_pred             EEEECCEEEEEEEEECCCcccccchHHH
Confidence            3444323346788999999999875544

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

>cd00157 Rho Rho (Ras homology) family

Probab=95.66  E-value=0.025  Score=37.38  Aligned_cols=64  Identities=3%  Similarity=0.007  Sum_probs=33.6

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhh---hhcccEeEEecc
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFV---QLRNFVIVLRKN   66 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~m---R~RGa~iv~~~~   66 (93)
                      |+.++.+.........-+..... ..+..++....+.|+|||||+.|..+..+   ++.++.+|..-.
T Consensus        16 li~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~   82 (171)
T cd00157          16 LLISYTTGKFPTEYVPTVFDNYS-ATVTVDGKQVNLGLWDTAGQEEYDRLRPLSYPNTDVFLICFSVD   82 (171)
T ss_pred             HHHHHHhCCCCCCCCCceeeeeE-EEEEECCEEEEEEEEeCCCcccccccchhhcCCCCEEEEEEECC
Confidence            55666655543222222222222 22333334557999999999987654333   244555555543

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

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=95.65  E-value=0.011  Score=44.14  Aligned_cols=30  Identities=13%  Similarity=0.100  Sum_probs=20.3

Q ss_pred             cceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003           18 GITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS   49 (93)
Q Consensus        18 GITQhIGA~~V~~~~~~~~itFiDTPGHeAFs   49 (93)
                      |+|-+.....+.+  ++.+++++|||||..|.
T Consensus        49 ~~ti~~~~~~~~~--~~~~i~liDtPG~~~f~   78 (268)
T cd04170          49 KMSISTSVAPLEW--KGHKINLIDTPGYADFV   78 (268)
T ss_pred             cccccceeEEEEE--CCEEEEEEECcCHHHHH
Confidence            4444433344444  46789999999999875

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

>cd04114 Rab30 Rab30 subfamily

Probab=95.63  E-value=0.02  Score=38.00  Aligned_cols=49  Identities=10%  Similarity=0.023  Sum_probs=26.6

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      |+.++....+...+.-.++...-..++...+....+.|.|||||+.|..
T Consensus        23 li~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~   71 (169)
T cd04114          23 LVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQERFRS   71 (169)
T ss_pred             HHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHH
Confidence            5566654444333322233333233344432334678899999998765

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.

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=95.63  E-value=0.0081  Score=51.88  Aligned_cols=49  Identities=10%  Similarity=-0.027  Sum_probs=31.3

Q ss_pred             CcceeeecceEEE--EcCCCCeeEEEcCCCcccccCch--hhhhc-ccEeEEec
Q 045003           17 GGITQHVGAFVIG--MSTGGIKFNFHNCEFYHRTSLFF--FVQLR-NFVIVLRK   65 (93)
Q Consensus        17 GGITQhIGA~~V~--~~~~~~~itFiDTPGHeAFs~f~--~mR~R-Ga~iv~~~   65 (93)
                      -|||-+.......  .+.++..++|+|||||..|....  .+|.- ++.+|++-
T Consensus        66 rg~Ti~~~~~~~~~~~~~~~~~i~liDTPG~~~f~~~~~~al~~aD~~llVvda  119 (720)
T TIGR00490        66 RGITINAANVSMVHEYEGNEYLINLIDTPGHVDFGGDVTRAMRAVDGAIVVVCA  119 (720)
T ss_pred             hcchhhcccceeEEeecCCceEEEEEeCCCccccHHHHHHHHHhcCEEEEEEec
Confidence            6888877765532  33457789999999999986311  12322 55566653

This model represents archaeal elongation factor 2, a protein more similar to eukaryotic EF-2 than to bacterial EF-G, both in sequence similarity and in sharing with eukaryotes the property of having a diphthamide (modified His) residue at a conserved position. The diphthamide can be ADP-ribosylated by diphtheria toxin in the presence of NAD.

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

Probab=95.59  E-value=0.0072  Score=48.84  Aligned_cols=16  Identities=6%  Similarity=-0.052  Sum_probs=14.1

Q ss_pred             CeeEEEcCCCcccccC
Q 045003           35 IKFNFHNCEFYHRTSL   50 (93)
Q Consensus        35 ~~itFiDTPGHeAFs~   50 (93)
                      ..++|+|||||+.|..
T Consensus        85 ~~i~liDtPG~~~f~~  100 (411)
T PRK04000         85 RRVSFVDAPGHETLMA  100 (411)
T ss_pred             cEEEEEECCCHHHHHH
Confidence            5799999999999954

>PTZ00369 Ras-like protein; Provisional

Probab=95.57  E-value=0.018  Score=40.18  Aligned_cols=19  Identities=5%  Similarity=-0.136  Sum_probs=15.2

Q ss_pred             CCeeEEEcCCCcccccCch
Q 045003           34 GIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f~   52 (93)
                      ...+.+.||||++.|..+.
T Consensus        52 ~~~l~i~Dt~G~~~~~~l~   70 (189)
T PTZ00369         52 TCLLDILDTAGQEEYSAMR   70 (189)
T ss_pred             EEEEEEEeCCCCccchhhH
Confidence            4467889999999997643

>COG2229 Predicted GTPase [General function prediction only]

Probab=95.57  E-value=0.011  Score=45.55  Aligned_cols=42  Identities=7%  Similarity=0.169  Sum_probs=30.0

Q ss_pred             eeeecceEEEEcCCCCeeEEEcCCCcccccCchhhhhccc---EeEEe
Q 045003           20 TQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNF---VIVLR   64 (93)
Q Consensus        20 TQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR~RGa---~iv~~   64 (93)
                      -|++|...+.   ++.++.+.|||||+.|.-|.+.-.||+   +|+|.
T Consensus        56 a~D~g~~~~~---~~~~v~LfgtPGq~RF~fm~~~l~~ga~gaivlVD  100 (187)
T COG2229          56 AMDFGSIELD---EDTGVHLFGTPGQERFKFMWEILSRGAVGAIVLVD  100 (187)
T ss_pred             eecccceEEc---CcceEEEecCCCcHHHHHHHHHHhCCcceEEEEEe
Confidence            3666666654   468999999999999986556666654   45554

>cd04151 Arl1 Arl1 subfamily

Probab=95.54  E-value=0.017  Score=38.51  Aligned_cols=34  Identities=9%  Similarity=0.219  Sum_probs=21.9

Q ss_pred             CCCeeEEEcCCCcccccCch---hhhhcccEeEEecc
Q 045003           33 GGIKFNFHNCEFYHRTSLFF---FVQLRNFVIVLRKN   66 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~f~---~mR~RGa~iv~~~~   66 (93)
                      .+..+.|+||||++.|..+.   -.+..++.+|++..
T Consensus        41 ~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~   77 (158)
T cd04151          41 KNLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVDST   77 (158)
T ss_pred             CCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEECC
Confidence            46789999999999875421   12344555555543

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.

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

Probab=95.54  E-value=0.021  Score=37.81  Aligned_cols=45  Identities=11%  Similarity=0.013  Sum_probs=29.3

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYH   46 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHe   46 (93)
                      +|+.+|.+.++...+.-+.|+......+... ++.++.|+||||+.
T Consensus        11 tll~~l~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~i~DtpG~~   55 (176)
T cd01881          11 TLLNALTNAKPKVANYPFTTLEPNLGVVEVP-DGARIQVADIPGLI   55 (176)
T ss_pred             HHHHHHhcCCccccCCCceeecCcceEEEcC-CCCeEEEEeccccc
Confidence            4677777666544555667766544444442 27789999999983

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

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

Probab=95.51  E-value=0.03  Score=37.49  Aligned_cols=53  Identities=0%  Similarity=-0.078  Sum_probs=28.2

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhh
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFV   54 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~m   54 (93)
                      +|+..+.+..........+.... ...+..++....+.+.||||++.|..+..+
T Consensus        13 sli~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~   65 (174)
T smart00174       13 CLLISYTTNAFPEDYVPTVFENY-SADVEVDGKPVELGLWDTAGQEDYDRLRPL   65 (174)
T ss_pred             HHHHHHHhCCCCCCCCCcEEeee-eEEEEECCEEEEEEEEECCCCcccchhchh
Confidence            35666655444332222222222 123444323346889999999998764443

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

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=95.47  E-value=0.0087  Score=51.00  Aligned_cols=38  Identities=13%  Similarity=0.016  Sum_probs=31.2

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhhhc
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLR   57 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR~R   57 (93)
                      .-|||-+||-|..+.+  +..++|||.|||+.|-  .+|=.-
T Consensus        33 KRG~TiDlg~~y~~~~--d~~~~fIDvpgh~~~i--~~miag   70 (447)
T COG3276          33 KRGITIDLGFYYRKLE--DGVMGFIDVPGHPDFI--SNLLAG   70 (447)
T ss_pred             hcCceEeeeeEeccCC--CCceEEeeCCCcHHHH--HHHHhh
Confidence            4699999999999885  6699999999999994  355443

>cd04147 Ras_dva Ras-dva subfamily

Probab=95.46  E-value=0.015  Score=41.02  Aligned_cols=17  Identities=0%  Similarity=-0.052  Sum_probs=14.4

Q ss_pred             CeeEEEcCCCcccccCc
Q 045003           35 IKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        35 ~~itFiDTPGHeAFs~f   51 (93)
                      .++.|+|||||+.|..+
T Consensus        47 ~~l~i~D~~G~~~~~~~   63 (198)
T cd04147          47 LTLDILDTSGSYSFPAM   63 (198)
T ss_pred             EEEEEEECCCchhhhHH
Confidence            47889999999998763

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.

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=95.45  E-value=0.011  Score=50.13  Aligned_cols=45  Identities=16%  Similarity=0.075  Sum_probs=34.1

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhh-----hhcccEeEEe
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFV-----QLRNFVIVLR   64 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~m-----R~RGa~iv~~   64 (93)
                      .-|+|-.++-.+++.+  ...+|.+|||||..|-.  +|     ++--|+.|+.
T Consensus        68 erGvTi~~~~~~fet~--k~~~tIiDaPGHrdFvk--nmItGasqAD~aVLVV~  117 (428)
T COG5256          68 ERGVTIDVAHSKFETD--KYNFTIIDAPGHRDFVK--NMITGASQADVAVLVVD  117 (428)
T ss_pred             hcceEEEEEEEEeecC--CceEEEeeCCchHHHHH--HhhcchhhccEEEEEEE
Confidence            4689999998888874  77899999999999953  44     3444555554

>KOG0464 consensus Elongation factor G [Translation, ribosomal structure and biogenesis]

Probab=95.39  E-value=0.011  Score=52.10  Aligned_cols=60  Identities=20%  Similarity=0.189  Sum_probs=42.9

Q ss_pred             CcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhh----hcccEeEEec-ccccceeeeecccc
Q 045003           17 GGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQ----LRNFVIVLRK-NNCQGTYLFPWSYS   79 (93)
Q Consensus        17 GGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR----~RGa~iv~~~-~~~~~~~~~~~~~~   79 (93)
                      -|||-.-.|..+.+  ++..|++||||||-+|.. .--|    .-|++.|... ..-+..-|--|.-+
T Consensus        86 rgitiqsaav~fdw--kg~rinlidtpghvdf~l-everclrvldgavav~dasagve~qtltvwrqa  150 (753)
T KOG0464|consen   86 RGITIQSAAVNFDW--KGHRINLIDTPGHVDFRL-EVERCLRVLDGAVAVFDASAGVEAQTLTVWRQA  150 (753)
T ss_pred             cCceeeeeeeeccc--ccceEeeecCCCcceEEE-EHHHHHHHhcCeEEEEeccCCcccceeeeehhc
Confidence            58998888888888  589999999999999974 2222    3588888875 23334455566543

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=95.37  E-value=0.037  Score=38.95  Aligned_cols=38  Identities=16%  Similarity=0.090  Sum_probs=22.7

Q ss_pred             EEEEc-CCCCeeEEEcCCCcccccCchhhh---hcccEeEEe
Q 045003           27 VIGMS-TGGIKFNFHNCEFYHRTSLFFFVQ---LRNFVIVLR   64 (93)
Q Consensus        27 ~V~~~-~~~~~itFiDTPGHeAFs~f~~mR---~RGa~iv~~   64 (93)
                      .+..+ +....+.+.||||++.|..+...-   ..|+++|..
T Consensus        41 ~v~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv~D   82 (201)
T cd04107          41 VIEWDPNTVVRLQLWDIAGQERFGGMTRVYYRGAVGAIIVFD   82 (201)
T ss_pred             EEEECCCCEEEEEEEECCCchhhhhhHHHHhCCCCEEEEEEE
Confidence            34443 234568899999999987643322   234444544

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.

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

Probab=95.34  E-value=0.024  Score=36.73  Aligned_cols=18  Identities=6%  Similarity=-0.084  Sum_probs=14.1

Q ss_pred             CCeeEEEcCCCcccccCc
Q 045003           34 GIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f   51 (93)
                      ...+.+.||||++.|..+
T Consensus        48 ~~~~~i~Dt~G~~~~~~l   65 (162)
T cd04138          48 TCLLDILDTAGQEEYSAM   65 (162)
T ss_pred             EEEEEEEECCCCcchHHH
Confidence            345778999999988763

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.

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=95.30  E-value=0.025  Score=38.70  Aligned_cols=33  Identities=6%  Similarity=0.063  Sum_probs=22.2

Q ss_pred             eeeecceEEEEcCCCCeeEEEcCCCcccccCch
Q 045003           20 TQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus        20 TQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      .+.+|...+..+.+..++.+.||||++.|..+.
T Consensus        29 ~pt~g~~~~~i~~~~~~l~i~Dt~G~~~~~~~~   61 (164)
T cd04162          29 VPTTGFNSVAIPTQDAIMELLEIGGSQNLRKYW   61 (164)
T ss_pred             cccCCcceEEEeeCCeEEEEEECCCCcchhHHH
Confidence            344454444444456789999999999987643

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.

>cd04177 RSR1 RSR1 subgroup

Probab=95.30  E-value=0.029  Score=37.85  Aligned_cols=22  Identities=0%  Similarity=-0.155  Sum_probs=16.5

Q ss_pred             CCeeEEEcCCCcccccCchhhh
Q 045003           34 GIKFNFHNCEFYHRTSLFFFVQ   55 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f~~mR   55 (93)
                      ...+.++|||||+.|..+....
T Consensus        48 ~~~~~i~Dt~G~~~~~~~~~~~   69 (168)
T cd04177          48 QCDLEILDTAGTEQFTAMRELY   69 (168)
T ss_pred             EEEEEEEeCCCcccchhhhHHH
Confidence            3467889999999998754443

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

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=95.26  E-value=0.024  Score=38.16  Aligned_cols=25  Identities=16%  Similarity=0.113  Sum_probs=17.3

Q ss_pred             EEEcCCCCeeEEEcCCCcccccCch
Q 045003           28 IGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus        28 V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      +...+....+.+.||||++.|..+.
T Consensus        45 ~~~~~~~~~l~l~D~~g~~~~~~~~   69 (167)
T cd01867          45 IELDGKKIKLQIWDTAGQERFRTIT   69 (167)
T ss_pred             EEECCEEEEEEEEeCCchHHHHHHH
Confidence            3343233578999999999987643

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

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=95.24  E-value=0.02  Score=44.85  Aligned_cols=44  Identities=14%  Similarity=0.095  Sum_probs=31.2

Q ss_pred             ChhhHHhhcCCc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCcc
Q 045003            1 MISDALRQTSVV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYH   46 (93)
Q Consensus         1 sLLD~IR~t~Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHe   46 (93)
                      +|+.+|-+...+ ..+..|+|++.-...+..  ++..+.++||||+.
T Consensus        14 tL~n~l~~~~~~~v~~~~g~t~d~~~~~~~~--~~~~~~liDTpG~~   58 (429)
T TIGR03594        14 TLFNRLTGKRDAIVSDTPGVTRDRKYGDAEW--GGREFILIDTGGIE   58 (429)
T ss_pred             HHHHHHhCCCcceecCCCCcccCceEEEEEE--CCeEEEEEECCCCC
Confidence            356666655432 345568898877777777  47789999999984

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.

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

Probab=95.11  E-value=0.023  Score=39.30  Aligned_cols=40  Identities=20%  Similarity=0.284  Sum_probs=27.2

Q ss_pred             ChhhHHhhcC-Cc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003            1 MISDALRQTS-VV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY   45 (93)
Q Consensus         1 sLLD~IR~t~-Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH   45 (93)
                      +|+.+|.+.+ +. ..+.-|.||++-.+.++     ..+.|+||||+
T Consensus        33 tlin~l~~~~~~~~~~~~~~~t~~~~~~~~~-----~~~~liDtpG~   74 (179)
T TIGR03598        33 SLINALTNRKKLARTSKTPGRTQLINFFEVN-----DGFRLVDLPGY   74 (179)
T ss_pred             HHHHHHhCCCCcccccCCCCcceEEEEEEeC-----CcEEEEeCCCC
Confidence            3667777664 22 24566788888765542     37999999996

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.

>cd04122 Rab14 Rab14 subfamily

Probab=95.10  E-value=0.031  Score=37.48  Aligned_cols=23  Identities=17%  Similarity=0.131  Sum_probs=16.2

Q ss_pred             EEEcCCCCeeEEEcCCCcccccC
Q 045003           28 IGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        28 V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      +...+...++.+.||||++.|..
T Consensus        44 ~~~~~~~~~l~i~Dt~G~~~~~~   66 (166)
T cd04122          44 IEVNGQKIKLQIWDTAGQERFRA   66 (166)
T ss_pred             EEECCEEEEEEEEECCCcHHHHH
Confidence            33432344788999999998865

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

>cd01868 Rab11_like Rab11-like

Probab=95.07  E-value=0.033  Score=36.97  Aligned_cols=51  Identities=10%  Similarity=0.026  Sum_probs=26.8

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      |+.++.+.+......-.++=......+..++....+.++||||++.|..+.
T Consensus        19 li~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~   69 (165)
T cd01868          19 LLSRFTRNEFNLDSKSTIGVEFATRSIQIDGKTIKAQIWDTAGQERYRAIT   69 (165)
T ss_pred             HHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHHHH
Confidence            555555444332222222212233344443233468899999999887643

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

>PLN03118 Rab family protein; Provisional

Probab=95.04  E-value=0.038  Score=39.28  Aligned_cols=18  Identities=11%  Similarity=0.111  Sum_probs=14.9

Q ss_pred             CCeeEEEcCCCcccccCc
Q 045003           34 GIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f   51 (93)
                      ...+.++||||++.|..+
T Consensus        61 ~~~l~l~Dt~G~~~~~~~   78 (211)
T PLN03118         61 RLKLTIWDTAGQERFRTL   78 (211)
T ss_pred             EEEEEEEECCCchhhHHH
Confidence            457899999999998763

>cd01865 Rab3 Rab3 subfamily

Probab=95.02  E-value=0.036  Score=37.29  Aligned_cols=27  Identities=11%  Similarity=0.053  Sum_probs=18.2

Q ss_pred             CCeeEEEcCCCcccccCchhhhhcccE
Q 045003           34 GIKFNFHNCEFYHRTSLFFFVQLRNFV   60 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f~~mR~RGa~   60 (93)
                      ...+.+.||||++.|..+...-.|++.
T Consensus        49 ~~~~~l~Dt~g~~~~~~~~~~~~~~~~   75 (165)
T cd01865          49 RVKLQIWDTAGQERYRTITTAYYRGAM   75 (165)
T ss_pred             EEEEEEEECCChHHHHHHHHHHccCCc
Confidence            357899999999988764333334443

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

>PRK00093 GTP-binding protein Der; Reviewed

Probab=94.98  E-value=0.028  Score=44.37  Aligned_cols=44  Identities=11%  Similarity=0.006  Sum_probs=32.3

Q ss_pred             hhhHHhhcCCc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCccc
Q 045003            2 ISDALRQTSVV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHR   47 (93)
Q Consensus         2 LLD~IR~t~Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeA   47 (93)
                      |+.+|.+...+ ..+.-|+|++.-...+...  +..+.++||||++.
T Consensus        17 L~n~l~~~~~~~v~~~~~~t~d~~~~~~~~~--~~~~~liDT~G~~~   61 (435)
T PRK00093         17 LFNRLTGKRDAIVADTPGVTRDRIYGEAEWL--GREFILIDTGGIEP   61 (435)
T ss_pred             HHHHHhCCCceeeCCCCCCcccceEEEEEEC--CcEEEEEECCCCCC
Confidence            56666655532 3456678988777777774  68999999999987

>cd01870 RhoA_like RhoA-like subfamily

Probab=94.91  E-value=0.039  Score=36.95  Aligned_cols=24  Identities=4%  Similarity=0.039  Sum_probs=16.6

Q ss_pred             EEEcCCCCeeEEEcCCCcccccCc
Q 045003           28 IGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        28 V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      +..++....+.+.||||++.+..+
T Consensus        42 ~~~~~~~~~l~i~Dt~G~~~~~~~   65 (175)
T cd01870          42 IEVDGKQVELALWDTAGQEDYDRL   65 (175)
T ss_pred             EEECCEEEEEEEEeCCCchhhhhc
Confidence            334323346889999999988764

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

>PRK00093 GTP-binding protein Der; Reviewed

Probab=94.82  E-value=0.046  Score=43.15  Aligned_cols=44  Identities=16%  Similarity=0.177  Sum_probs=30.0

Q ss_pred             ChhhHHhhcC-CcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcc
Q 045003            1 MISDALRQTS-VVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYH   46 (93)
Q Consensus         1 sLLD~IR~t~-Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHe   46 (93)
                      +|+.+|-+.+ +...+..|+|.+.-...+..  ++..+.++||||+.
T Consensus       188 tlin~ll~~~~~~~~~~~gtt~~~~~~~~~~--~~~~~~lvDT~G~~  232 (435)
T PRK00093        188 SLINALLGEERVIVSDIAGTTRDSIDTPFER--DGQKYTLIDTAGIR  232 (435)
T ss_pred             HHHHHHhCCCceeecCCCCceEEEEEEEEEE--CCeeEEEEECCCCC
Confidence            3667766543 44456677888765555554  47789999999974

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=94.77  E-value=0.013  Score=47.10  Aligned_cols=31  Identities=10%  Similarity=-0.021  Sum_probs=20.8

Q ss_pred             CCeeEEEcCCCcccccCchhhh-h----cccEeEEecc
Q 045003           34 GIKFNFHNCEFYHRTSLFFFVQ-L----RNFVIVLRKN   66 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f~~mR-~----RGa~iv~~~~   66 (93)
                      ...++|+|||||+.|..  .|. .    .++.+|+.-.
T Consensus        79 ~~~i~liDtPGh~~f~~--~~~~g~~~aD~aIlVVDa~  114 (406)
T TIGR03680        79 LRRVSFVDAPGHETLMA--TMLSGAALMDGALLVIAAN  114 (406)
T ss_pred             ccEEEEEECCCHHHHHH--HHHHHHHHCCEEEEEEECC
Confidence            46799999999999954  221 1    2456666653

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

>cd04110 Rab35 Rab35 subfamily

Probab=94.77  E-value=0.046  Score=38.63  Aligned_cols=34  Identities=12%  Similarity=0.104  Sum_probs=21.2

Q ss_pred             CCeeEEEcCCCcccccCchhhh---hcccEeEEeccc
Q 045003           34 GIKFNFHNCEFYHRTSLFFFVQ---LRNFVIVLRKNN   67 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f~~mR---~RGa~iv~~~~~   67 (93)
                      ...+.+.||||++.|..+...-   ..++.+|+.-.+
T Consensus        54 ~~~l~l~D~~G~~~~~~~~~~~~~~a~~iilv~D~~~   90 (199)
T cd04110          54 RVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTN   90 (199)
T ss_pred             EEEEEEEeCCCchhHHHHHHHHhCCCcEEEEEEECCC
Confidence            3467899999999987633222   334555655433

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

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

Probab=94.75  E-value=0.072  Score=36.40  Aligned_cols=32  Identities=13%  Similarity=-0.014  Sum_probs=21.2

Q ss_pred             CCeeEEEcCCCcccccCchhhh---hcccEeEEec
Q 045003           34 GIKFNFHNCEFYHRTSLFFFVQ---LRNFVIVLRK   65 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f~~mR---~RGa~iv~~~   65 (93)
                      ...+.+.||||++.|..+...-   ..++++|++-
T Consensus        48 ~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~   82 (166)
T cd00877          48 KIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIMFDV   82 (166)
T ss_pred             EEEEEEEECCCChhhccccHHHhcCCCEEEEEEEC
Confidence            4578899999999987643222   4455566554

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

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

Probab=94.74  E-value=0.04  Score=38.47  Aligned_cols=29  Identities=24%  Similarity=0.257  Sum_probs=19.9

Q ss_pred             eeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           20 TQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        20 TQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      |++.-...+..  ++.++.++||||++.|..
T Consensus        48 t~~~~~~~~~~--~~~~~~~~D~~G~~~~~~   76 (184)
T smart00178       48 TQHPTSEELAI--GNIKFTTFDLGGHQQARR   76 (184)
T ss_pred             ccccceEEEEE--CCEEEEEEECCCCHHHHH
Confidence            44444444544  367899999999988754

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

>cd01898 Obg Obg subfamily

Probab=94.73  E-value=0.044  Score=36.27  Aligned_cols=43  Identities=12%  Similarity=0.086  Sum_probs=24.4

Q ss_pred             ChhhHHhhcCCcCcccCcce--eeecceEEEEcCCCCeeEEEcCCCcc
Q 045003            1 MISDALRQTSVVAKEAGGIT--QHVGAFVIGMSTGGIKFNFHNCEFYH   46 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGIT--QhIGA~~V~~~~~~~~itFiDTPGHe   46 (93)
                      +|+.+|.+......+..+.|  +.+|.+.+  . +..++.|+||||+.
T Consensus        15 tl~~~l~~~~~~v~~~~~~t~~~~~~~~~~--~-~~~~~~l~DtpG~~   59 (170)
T cd01898          15 TLLSAISNAKPKIADYPFTTLVPNLGVVRV--D-DGRSFVVADIPGLI   59 (170)
T ss_pred             HHHHHHhcCCccccCCCccccCCcceEEEc--C-CCCeEEEEecCccc
Confidence            36677765543323333334  44555433  2 23489999999974

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.

>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]

Probab=94.60  E-value=0.038  Score=48.70  Aligned_cols=35  Identities=9%  Similarity=-0.060  Sum_probs=30.6

Q ss_pred             cccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           14 KEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        14 ~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      .-.-|+|=.++..+++.  +.+.+|+||+|||..|..
T Consensus       236 ERerGvTm~v~~~~fes--~~~~~tliDaPGhkdFi~  270 (603)
T KOG0458|consen  236 ERERGVTMDVKTTWFES--KSKIVTLIDAPGHKDFIP  270 (603)
T ss_pred             hhhcceeEEeeeEEEec--CceeEEEecCCCccccch
Confidence            34679999999999985  588999999999999975

>cd04144 Ras2 Ras2 subfamily

Probab=94.58  E-value=0.036  Score=38.67  Aligned_cols=17  Identities=0%  Similarity=-0.103  Sum_probs=13.9

Q ss_pred             CeeEEEcCCCcccccCc
Q 045003           35 IKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        35 ~~itFiDTPGHeAFs~f   51 (93)
                      ..+.|+||||++.|..+
T Consensus        47 ~~l~i~Dt~G~~~~~~~   63 (190)
T cd04144          47 CMLEVLDTAGQEEYTAL   63 (190)
T ss_pred             EEEEEEECCCchhhHHH
Confidence            45889999999988763

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.

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=94.57  E-value=0.057  Score=35.52  Aligned_cols=46  Identities=7%  Similarity=0.050  Sum_probs=26.9

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      +|+.++.+...+...   -|+.+....+... ....+.+.||||++.|..
T Consensus        14 sl~~~~~~~~~~~~~---~t~~~~~~~~~~~-~~~~l~i~D~~G~~~~~~   59 (160)
T cd04156          14 TLLYKLKHAELVTTI---PTVGFNVEMLQLE-KHLSLTVWDVGGQEKMRT   59 (160)
T ss_pred             HHHHHHhcCCccccc---CccCcceEEEEeC-CceEEEEEECCCCHhHHH
Confidence            356667665554322   1332332334432 456899999999988754

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

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=94.46  E-value=0.047  Score=35.57  Aligned_cols=18  Identities=6%  Similarity=0.067  Sum_probs=14.6

Q ss_pred             CCeeEEEcCCCcccccCc
Q 045003           34 GIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f   51 (93)
                      ...+.++|||||+.|..+
T Consensus        47 ~~~~~i~D~~g~~~~~~~   64 (164)
T cd04139          47 DVQLNILDTAGQEDYAAI   64 (164)
T ss_pred             EEEEEEEECCChhhhhHH
Confidence            457899999999988653

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

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=94.43  E-value=0.042  Score=37.60  Aligned_cols=30  Identities=7%  Similarity=-0.165  Sum_probs=19.8

Q ss_pred             eeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           21 QHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        21 QhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      ..+|........+..++.+.|||||+.|..
T Consensus        29 ~t~g~~~~~~~~~~~~~~i~D~~G~~~~~~   58 (167)
T cd04161          29 PTVGFTPTKLRLDKYEVCIFDLGGGANFRG   58 (167)
T ss_pred             CcccceEEEEEECCEEEEEEECCCcHHHHH
Confidence            344444333333467899999999998764

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.

>PTZ00099 rab6; Provisional

Probab=94.31  E-value=0.033  Score=39.61  Aligned_cols=33  Identities=9%  Similarity=0.159  Sum_probs=21.7

Q ss_pred             EEEcCCCCeeEEEcCCCcccccCchhhhhcccE
Q 045003           28 IGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNFV   60 (93)
Q Consensus        28 V~~~~~~~~itFiDTPGHeAFs~f~~mR~RGa~   60 (93)
                      +..+++..++.|.||||++.|..+...--|++.
T Consensus        22 ~~~~~~~v~l~iwDt~G~e~~~~~~~~~~~~ad   54 (176)
T PTZ00099         22 LYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSA   54 (176)
T ss_pred             EEECCEEEEEEEEECCChHHhhhccHHHhCCCc
Confidence            444444568899999999999765433334443

>cd01895 EngA2 EngA2 subfamily

Probab=94.28  E-value=0.064  Score=34.76  Aligned_cols=44  Identities=16%  Similarity=0.215  Sum_probs=27.6

Q ss_pred             hhhHHhhcCC-cCcccCcceeeecceEEEEcCCCCeeEEEcCCCccc
Q 045003            2 ISDALRQTSV-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHR   47 (93)
Q Consensus         2 LLD~IR~t~V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeA   47 (93)
                      |+++|-+... ...+..+.|+......+..  ++..++++||||+..
T Consensus        18 li~~l~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~iiDtpG~~~   62 (174)
T cd01895          18 LVNALLGEERVIVSDIAGTTRDSIDVPFEY--DGKKYTLIDTAGIRR   62 (174)
T ss_pred             HHHHHhCccceeccCCCCCccCceeeEEEE--CCeeEEEEECCCCcc
Confidence            5666655442 2344556666665555555  366799999999743

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.

>cd04127 Rab27A Rab27a subfamily

Probab=94.25  E-value=0.07  Score=35.99  Aligned_cols=18  Identities=11%  Similarity=0.071  Sum_probs=14.5

Q ss_pred             CeeEEEcCCCcccccCch
Q 045003           35 IKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus        35 ~~itFiDTPGHeAFs~f~   52 (93)
                      ..+.+.||||++.|..+.
T Consensus        63 ~~~~i~Dt~G~~~~~~~~   80 (180)
T cd04127          63 IHLQLWDTAGQERFRSLT   80 (180)
T ss_pred             EEEEEEeCCChHHHHHHH
Confidence            468899999999986643

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

>KOG0467 consensus Translation elongation factor 2/ribosome biogenesis protein RIA1 and related proteins [Translation, ribosomal structure and biogenesis]

Probab=94.23  E-value=0.03  Score=51.14  Aligned_cols=55  Identities=15%  Similarity=0.045  Sum_probs=38.2

Q ss_pred             ccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchh---hhhcccEeEEec--ccccce
Q 045003           15 EAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFF---VQLRNFVIVLRK--NNCQGT   71 (93)
Q Consensus        15 EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~---mR~RGa~iv~~~--~~~~~~   71 (93)
                      -.-|||-+-+|...-.  ++..++|||+|||-+|+.--+   .=+-||.+.+.-  .-|.-|
T Consensus        54 q~rgitmkss~is~~~--~~~~~nlidspghvdf~sevssas~l~d~alvlvdvvegv~~qt  113 (887)
T KOG0467|consen   54 QTRGITMKSSAISLLH--KDYLINLIDSPGHVDFSSEVSSASRLSDGALVLVDVVEGVCSQT  113 (887)
T ss_pred             hhhceeeecccccccc--CceEEEEecCCCccchhhhhhhhhhhcCCcEEEEeeccccchhH
Confidence            4679999999988443  588999999999999987322   223466655543  445444

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=94.23  E-value=0.08  Score=36.52  Aligned_cols=25  Identities=8%  Similarity=-0.011  Sum_probs=17.7

Q ss_pred             CCeeEEEcCCCcccccCchhhhhcc
Q 045003           34 GIKFNFHNCEFYHRTSLFFFVQLRN   58 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f~~mR~RG   58 (93)
                      ...+.+.||||.+.|..+...--|+
T Consensus        48 ~~~l~i~Dt~G~~~~~~~~~~~~~~   72 (170)
T cd04108          48 PFSLQLWDTAGQERFKCIASTYYRG   72 (170)
T ss_pred             EEEEEEEeCCChHHHHhhHHHHhcC
Confidence            4579999999999987644333334

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

>cd00876 Ras Ras family

Probab=94.16  E-value=0.046  Score=35.34  Aligned_cols=18  Identities=6%  Similarity=-0.042  Sum_probs=14.3

Q ss_pred             CCeeEEEcCCCcccccCc
Q 045003           34 GIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f   51 (93)
                      ...+.++|||||+.+..+
T Consensus        46 ~~~~~l~D~~g~~~~~~~   63 (160)
T cd00876          46 TYTLDILDTAGQEEFSAM   63 (160)
T ss_pred             EEEEEEEECCChHHHHHH
Confidence            346889999999987653

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

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=94.11  E-value=0.057  Score=34.74  Aligned_cols=42  Identities=14%  Similarity=0.044  Sum_probs=26.8

Q ss_pred             hhhHHhhcCC-cCcccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003            2 ISDALRQTSV-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY   45 (93)
Q Consensus         2 LLD~IR~t~V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH   45 (93)
                      |+-+|-+.+. ..++.-+.|++.-...+..  ++..+.|+||||=
T Consensus        15 lin~l~~~~~~~~~~~~~~T~~~~~~~~~~--~~~~~~~vDtpG~   57 (116)
T PF01926_consen   15 LINALTGKKLAKVSNIPGTTRDPVYGQFEY--NNKKFILVDTPGI   57 (116)
T ss_dssp             HHHHHHTSTSSEESSSTTSSSSEEEEEEEE--TTEEEEEEESSSC
T ss_pred             HHHHHhccccccccccccceeeeeeeeeee--ceeeEEEEeCCCC
Confidence            4555655432 2334457888884445555  4778899999994

These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....

>TIGR00436 era GTP-binding protein Era

Probab=94.10  E-value=0.066  Score=40.17  Aligned_cols=45  Identities=13%  Similarity=0.150  Sum_probs=27.5

Q ss_pred             ChhhHHhhcCCc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCccc
Q 045003            1 MISDALRQTSVV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHR   47 (93)
Q Consensus         1 sLLD~IR~t~Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeA   47 (93)
                      +|+.+|-+.+++ ....-+.|++.- ..+... ++.++.|+||||+..
T Consensus        15 TLln~L~~~~~~~vs~~~~TTr~~i-~~i~~~-~~~qii~vDTPG~~~   60 (270)
T TIGR00436        15 TLLNQLHGQKISITSPKAQTTRNRI-SGIHTT-GASQIIFIDTPGFHE   60 (270)
T ss_pred             HHHHHHhCCcEeecCCCCCcccCcE-EEEEEc-CCcEEEEEECcCCCC
Confidence            467777776654 244456787631 122222 456799999999753

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

>cd04159 Arl10_like Arl10-like subfamily

Probab=94.08  E-value=0.055  Score=34.42  Aligned_cols=46  Identities=7%  Similarity=0.005  Sum_probs=25.1

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      +|+.+|.+........-  |..+.-..+..  +...+.++||||++.|..
T Consensus        14 sl~~~l~~~~~~~~~~~--t~~~~~~~~~~--~~~~~~~~D~~g~~~~~~   59 (159)
T cd04159          14 TLVNVIAGGQFSEDTIP--TVGFNMRKVTK--GNVTLKVWDLGGQPRFRS   59 (159)
T ss_pred             HHHHHHccCCCCcCccC--CCCcceEEEEE--CCEEEEEEECCCCHhHHH
Confidence            35666665544333221  22222233333  346799999999988754

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=93.99  E-value=0.14  Score=40.11  Aligned_cols=47  Identities=17%  Similarity=0.212  Sum_probs=31.2

Q ss_pred             ChhhHHhhcC-CcCcccCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003            1 MISDALRQTS-VVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS   49 (93)
Q Consensus         1 sLLD~IR~t~-Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs   49 (93)
                      +|+.+|-+.+ ....+..|+|.+.-...+..  ++..++++||||+..+.
T Consensus       187 sLin~l~~~~~~~~~~~~gtt~~~~~~~~~~--~~~~~~liDT~G~~~~~  234 (429)
T TIGR03594       187 TLVNALLGEERVIVSDIAGTTRDSIDIPFER--NGKKYLLIDTAGIRRKG  234 (429)
T ss_pred             HHHHHHHCCCeeecCCCCCceECcEeEEEEE--CCcEEEEEECCCccccc
Confidence            3566665443 33456678888765555555  46789999999985543

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.

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=93.98  E-value=0.099  Score=34.50  Aligned_cols=26  Identities=4%  Similarity=-0.083  Sum_probs=18.2

Q ss_pred             eEEEEc-CCCCeeEEEcCCCcccccCc
Q 045003           26 FVIGMS-TGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        26 ~~V~~~-~~~~~itFiDTPGHeAFs~f   51 (93)
                      ..++.. +....+.+.||||++.|..+
T Consensus        42 ~~~~~~~~~~~~l~i~Dt~G~~~~~~~   68 (164)
T cd04101          42 KEVPVDTDNTVELFIFDSAGQELYSDM   68 (164)
T ss_pred             EEEEeCCCCEEEEEEEECCCHHHHHHH
Confidence            344443 23468999999999988653

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.

>cd04112 Rab26 Rab26 subfamily

Probab=93.93  E-value=0.08  Score=36.96  Aligned_cols=39  Identities=5%  Similarity=0.045  Sum_probs=22.8

Q ss_pred             EEEcCCCCeeEEEcCCCcccccCchhhh---hcccEeEEecc
Q 045003           28 IGMSTGGIKFNFHNCEFYHRTSLFFFVQ---LRNFVIVLRKN   66 (93)
Q Consensus        28 V~~~~~~~~itFiDTPGHeAFs~f~~mR---~RGa~iv~~~~   66 (93)
                      +...+....+.+.||||++.|..+...-   ..++++|+.-+
T Consensus        43 ~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~   84 (191)
T cd04112          43 VTVDGVKVKLQIWDTAGQERFRSVTHAYYRDAHALLLLYDIT   84 (191)
T ss_pred             EEECCEEEEEEEEeCCCcHHHHHhhHHHccCCCEEEEEEECC
Confidence            3343234578899999999886522111   33556666543

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.

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=93.91  E-value=0.094  Score=40.11  Aligned_cols=46  Identities=13%  Similarity=0.029  Sum_probs=30.6

Q ss_pred             ChhhHHhhcCCcCc-ccCcceeeecceEEEEcCCCCeeEEEcCCCcccc
Q 045003            1 MISDALRQTSVVAK-EAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRT   48 (93)
Q Consensus         1 sLLD~IR~t~Va~~-EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAF   48 (93)
                      ||+-+|.+..++.. ...+-|+.+..+....  ++.+++||||||-...
T Consensus        46 SliNaLlg~~~~~v~~~~~~T~~~~~~~~~~--~g~~i~vIDTPGl~~~   92 (249)
T cd01853          46 STINSIFGERKAATSAFQSETLRVREVSGTV--DGFKLNIIDTPGLLES   92 (249)
T ss_pred             HHHHHHhCCCCcccCCCCCceEEEEEEEEEE--CCeEEEEEECCCcCcc
Confidence            35566666655432 2335677776666654  4788999999997755

This family contains several Toc proteins, including Toc34, Toc33, Toc120, Toc159, Toc86, Toc125, and Toc90. The Toc complex at the outer envelope membrane of chloroplasts is a molecular machine of ~500 kDa that contains a single Toc159 protein, four Toc75 molecules, and four or five copies of Toc34. Toc64 and Toc12 are associated with the translocon, but do not appear to be part of the core complex. The Toc translocon initiates the import of nuclear-encoded preproteins from the cytosol into the organelle. Toc34 and Toc159 are both GTPases, while Toc75 is a beta-barrel integral membrane protein. Toc159 is equally distributed between a soluble cytoplasmic form and a membrane-inserted form, suggesting that assembly of the Toc complex is dynamic. Toc34 and Toc75 act sequentially to mediate docking and insertion of Toc159 resulting in assembly of the functional translocon.

>cd04120 Rab12 Rab12 subfamily

Probab=93.89  E-value=0.089  Score=38.46  Aligned_cols=25  Identities=8%  Similarity=0.118  Sum_probs=18.2

Q ss_pred             EEEEcCCCCeeEEEcCCCcccccCc
Q 045003           27 VIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        27 ~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      .+..++...++.+.||||++.|..+
T Consensus        41 ~i~~~~~~v~l~iwDtaGqe~~~~l   65 (202)
T cd04120          41 TVELRGKKIRLQIWDTAGQERFNSI   65 (202)
T ss_pred             EEEECCEEEEEEEEeCCCchhhHHH
Confidence            4555433467899999999998764

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

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

Probab=93.76  E-value=0.063  Score=36.34  Aligned_cols=48  Identities=8%  Similarity=0.032  Sum_probs=25.9

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      |+..+.+.+........+.+.. ...+...+....+.++|||||+.|..
T Consensus        17 l~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~   64 (180)
T cd04137          17 LTVQFVEGHFVESYYPTIENTF-SKIIRYKGQDYHLEIVDTAGQDEYSI   64 (180)
T ss_pred             HHHHHHhCCCccccCcchhhhE-EEEEEECCEEEEEEEEECCChHhhHH
Confidence            5666665555443333332211 12233322244678999999988764

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

>cd04163 Era Era subfamily

Probab=93.64  E-value=0.14  Score=32.54  Aligned_cols=16  Identities=13%  Similarity=0.173  Sum_probs=12.8

Q ss_pred             CCCeeEEEcCCCcccc
Q 045003           33 GGIKFNFHNCEFYHRT   48 (93)
Q Consensus        33 ~~~~itFiDTPGHeAF   48 (93)
                      ++..+.++||||....
T Consensus        49 ~~~~~~liDtpG~~~~   64 (168)
T cd04163          49 DDAQIIFVDTPGIHKP   64 (168)
T ss_pred             CCeEEEEEECCCCCcc
Confidence            4568999999998654

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.

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=93.63  E-value=0.074  Score=36.50  Aligned_cols=18  Identities=11%  Similarity=0.017  Sum_probs=15.2

Q ss_pred             CCCeeEEEcCCCcccccC
Q 045003           33 GGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~   50 (93)
                      +...+.++||||++.|..
T Consensus        57 ~~~~~~l~D~~G~~~~~~   74 (174)
T cd04153          57 KNIRFLMWDIGGQESLRS   74 (174)
T ss_pred             CCeEEEEEECCCCHHHHH
Confidence            467899999999998865

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.

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=93.54  E-value=0.14  Score=34.73  Aligned_cols=40  Identities=15%  Similarity=0.145  Sum_probs=23.6

Q ss_pred             EEEcCCCCeeEEEcCCCcccccC-chhh---hhcccEeEEeccc
Q 045003           28 IGMSTGGIKFNFHNCEFYHRTSL-FFFV---QLRNFVIVLRKNN   67 (93)
Q Consensus        28 V~~~~~~~~itFiDTPGHeAFs~-f~~m---R~RGa~iv~~~~~   67 (93)
                      +..++....+.++||||++.|.. +...   ...++++|++-.+
T Consensus        44 ~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i~v~d~~~   87 (170)
T cd04115          44 VEIDGERIKVQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDVTN   87 (170)
T ss_pred             EEECCeEEEEEEEeCCChHHHHHhhHHHhhcCCCEEEEEEECCC
Confidence            44433345789999999998852 2111   2345566665543

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

>cd01871 Rac1_like Rac1-like subfamily

Probab=93.51  E-value=0.13  Score=35.75  Aligned_cols=27  Identities=0%  Similarity=-0.112  Sum_probs=19.2

Q ss_pred             CCCeeEEEcCCCcccccCchhhhhccc
Q 045003           33 GGIKFNFHNCEFYHRTSLFFFVQLRNF   59 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~f~~mR~RGa   59 (93)
                      ....+.+.||||++.|..+..+.-+++
T Consensus        47 ~~~~l~i~Dt~G~~~~~~~~~~~~~~~   73 (174)
T cd01871          47 KPVNLGLWDTAGQEDYDRLRPLSYPQT   73 (174)
T ss_pred             EEEEEEEEECCCchhhhhhhhhhcCCC
Confidence            345788999999999977544444444

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

>cd04154 Arl2 Arl2 subfamily

Probab=93.47  E-value=0.078  Score=36.00  Aligned_cols=18  Identities=17%  Similarity=0.102  Sum_probs=14.7

Q ss_pred             CCCeeEEEcCCCcccccC
Q 045003           33 GGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~   50 (93)
                      +...+.++||||++.|..
T Consensus        56 ~~~~l~l~D~~G~~~~~~   73 (173)
T cd04154          56 EGYKLNIWDVGGQKTLRP   73 (173)
T ss_pred             CCEEEEEEECCCCHHHHH
Confidence            356789999999998754

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.

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=93.45  E-value=0.16  Score=34.51  Aligned_cols=35  Identities=0%  Similarity=-0.075  Sum_probs=21.5

Q ss_pred             EEEcCCCCeeEEEcCCCcccccCchhhhhcccEeE
Q 045003           28 IGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNFVIV   62 (93)
Q Consensus        28 V~~~~~~~~itFiDTPGHeAFs~f~~mR~RGa~iv   62 (93)
                      +..++...++.+.||||++.|..+.++-.+++.++
T Consensus        41 ~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~a~~~   75 (173)
T cd04130          41 VLVDGKPVRLQLCDTAGQDEFDKLRPLCYPDTDVF   75 (173)
T ss_pred             EEECCEEEEEEEEECCCChhhccccccccCCCcEE
Confidence            33433345788999999999876443333344433

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,

>cd04118 Rab24 Rab24 subfamily

Probab=93.39  E-value=0.17  Score=34.83  Aligned_cols=24  Identities=4%  Similarity=0.016  Sum_probs=16.0

Q ss_pred             EEEcCCCCeeEEEcCCCcccccCc
Q 045003           28 IGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        28 V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      +..++....+.|.||||.+.|..+
T Consensus        43 ~~~~~~~~~l~i~D~~G~~~~~~~   66 (193)
T cd04118          43 MVVGERVVTLGIWDTAGSERYEAM   66 (193)
T ss_pred             EEECCEEEEEEEEECCCchhhhhh
Confidence            344323345679999999988653

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

>cd04143 Rhes_like Rhes_like subfamily

Probab=93.38  E-value=0.087  Score=39.73  Aligned_cols=51  Identities=6%  Similarity=-0.037  Sum_probs=27.0

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      +|+..+.+.........-| .+.-...+...+....+.+.||||++.|..+.
T Consensus        15 SLi~r~~~~~f~~~y~pTi-~d~~~k~~~i~~~~~~l~I~Dt~G~~~~~~~~   65 (247)
T cd04143          15 AIVSRFLGGRFEEQYTPTI-EDFHRKLYSIRGEVYQLDILDTSGNHPFPAMR   65 (247)
T ss_pred             HHHHHHHcCCCCCCCCCCh-hHhEEEEEEECCEEEEEEEEECCCChhhhHHH
Confidence            3566665433333222222 12222233343234578899999999987643

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

>cd04140 ARHI_like ARHI subfamily

Probab=93.37  E-value=0.13  Score=34.62  Aligned_cols=18  Identities=6%  Similarity=-0.025  Sum_probs=14.7

Q ss_pred             CCeeEEEcCCCcccccCc
Q 045003           34 GIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f   51 (93)
                      ...+.+.||||++.|..+
T Consensus        48 ~~~l~i~Dt~G~~~~~~~   65 (165)
T cd04140          48 ICTLQITDTTGSHQFPAM   65 (165)
T ss_pred             EEEEEEEECCCCCcchHH
Confidence            457889999999988753

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

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=93.31  E-value=0.18  Score=36.80  Aligned_cols=20  Identities=15%  Similarity=0.114  Sum_probs=16.0

Q ss_pred             CCCeeEEEcCCCcccccCch
Q 045003           33 GGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~f~   52 (93)
                      ...++.+.||||++.|..+.
T Consensus        60 ~~~~l~i~Dt~G~~~~~~~~   79 (219)
T PLN03071         60 GKIRFYCWDTAGQEKFGGLR   79 (219)
T ss_pred             eEEEEEEEECCCchhhhhhh
Confidence            34588999999999997643

>cd04134 Rho3 Rho3 subfamily

Probab=93.27  E-value=0.16  Score=35.47  Aligned_cols=26  Identities=4%  Similarity=-0.036  Sum_probs=18.8

Q ss_pred             CCeeEEEcCCCcccccCchhhhhccc
Q 045003           34 GIKFNFHNCEFYHRTSLFFFVQLRNF   59 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f~~mR~RGa   59 (93)
                      ...+.+.||||++.|..+..+--+++
T Consensus        47 ~~~l~i~Dt~G~~~~~~l~~~~~~~a   72 (189)
T cd04134          47 HIELSLWDTAGQEEFDRLRSLSYADT   72 (189)
T ss_pred             EEEEEEEECCCChhccccccccccCC
Confidence            35789999999999977544444443

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.

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=93.27  E-value=0.13  Score=39.49  Aligned_cols=41  Identities=12%  Similarity=0.144  Sum_probs=29.3

Q ss_pred             ChhhHHhhcCC-cCcccCcceeeecceEEEEcCCCCeeEEEcCCCcc
Q 045003            1 MISDALRQTSV-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYH   46 (93)
Q Consensus         1 sLLD~IR~t~V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHe   46 (93)
                      +|+.+|++.++ ..++.-|+|+++.  .+..   +.++.++||||=-
T Consensus       136 sliN~l~~~~~~~~~~~~g~T~~~~--~~~~---~~~~~l~DtPGi~  177 (287)
T PRK09563        136 TLINRLAGKKIAKTGNRPGVTKAQQ--WIKL---GKGLELLDTPGIL  177 (287)
T ss_pred             HHHHHHhcCCccccCCCCCeEEEEE--EEEe---CCcEEEEECCCcC
Confidence            46777877654 5566778999975  3333   3579999999974

>cd04111 Rab39 Rab39 subfamily

Probab=93.21  E-value=0.16  Score=36.65  Aligned_cols=17  Identities=18%  Similarity=0.110  Sum_probs=14.1

Q ss_pred             CCeeEEEcCCCcccccC
Q 045003           34 GIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~   50 (93)
                      ..++.+.||||++.|..
T Consensus        51 ~~~l~i~Dt~G~~~~~~   67 (211)
T cd04111          51 RIKLQLWDTAGQERFRS   67 (211)
T ss_pred             EEEEEEEeCCcchhHHH
Confidence            34788999999998865

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

>cd04109 Rab28 Rab28 subfamily

Probab=93.21  E-value=0.17  Score=36.32  Aligned_cols=18  Identities=0%  Similarity=-0.086  Sum_probs=14.2

Q ss_pred             CCeeEEEcCCCcccccCc
Q 045003           34 GIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f   51 (93)
                      ...+.+.||||++.|..+
T Consensus        49 ~~~~~i~Dt~G~~~~~~l   66 (215)
T cd04109          49 NVTLQVWDIGGQSIGGKM   66 (215)
T ss_pred             EEEEEEEECCCcHHHHHH
Confidence            347889999999987653

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

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

Probab=93.13  E-value=0.15  Score=33.54  Aligned_cols=18  Identities=6%  Similarity=0.073  Sum_probs=15.0

Q ss_pred             CCCeeEEEcCCCcccccC
Q 045003           33 GGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~   50 (93)
                      +...+.+.|||||+.|..
T Consensus        41 ~~~~~~i~D~~G~~~~~~   58 (158)
T cd00878          41 KNVSFTVWDVGGQDKIRP   58 (158)
T ss_pred             CCEEEEEEECCCChhhHH
Confidence            356899999999998765

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

>cd01858 NGP_1 NGP-1

Probab=93.13  E-value=0.14  Score=35.06  Aligned_cols=39  Identities=21%  Similarity=0.195  Sum_probs=24.7

Q ss_pred             ChhhHHhhcCC-cCcccCcceeeecceEEEEcCCCCeeEEEcCCC
Q 045003            1 MISDALRQTSV-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEF   44 (93)
Q Consensus         1 sLLD~IR~t~V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPG   44 (93)
                      +|+.+|++.+. ..++.-|.|.+..  .++.   ..++.++||||
T Consensus       117 tliN~l~~~~~~~~~~~~g~T~~~~--~~~~---~~~~~liDtPG  156 (157)
T cd01858         117 SIINTLRSKKVCKVAPIPGETKVWQ--YITL---MKRIYLIDCPG  156 (157)
T ss_pred             HHHHHHhcCCceeeCCCCCeeEeEE--EEEc---CCCEEEEECcC
Confidence            46777776433 3445556777653  3333   34699999999

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.

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

Probab=93.08  E-value=0.17  Score=36.89  Aligned_cols=19  Identities=21%  Similarity=0.273  Sum_probs=15.8

Q ss_pred             CCCeeEEEcCCCcccccCc
Q 045003           33 GGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~f   51 (93)
                      ...++.+.||||++.|..+
T Consensus        42 ~~~~l~iwDt~G~e~~~~l   60 (200)
T smart00176       42 GPIRFNVWDTAGQEKFGGL   60 (200)
T ss_pred             EEEEEEEEECCCchhhhhh
Confidence            3568999999999999764

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

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=92.96  E-value=0.15  Score=35.53  Aligned_cols=18  Identities=22%  Similarity=0.331  Sum_probs=14.6

Q ss_pred             CCCeeEEEcCCCcccccC
Q 045003           33 GGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~   50 (93)
                      ...++.+.||||++.|..
T Consensus        50 ~~~~l~l~Dt~G~~~~~~   67 (183)
T cd04152          50 KGITFHFWDVGGQEKLRP   67 (183)
T ss_pred             CceEEEEEECCCcHhHHH
Confidence            345799999999998754

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.

>cd00879 Sar1 Sar1 subfamily

Probab=92.95  E-value=0.13  Score=35.15  Aligned_cols=29  Identities=21%  Similarity=0.183  Sum_probs=19.7

Q ss_pred             eeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           20 TQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        20 TQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      |+..-...+..  ++..+.++|||||+.|..
T Consensus        50 T~~~~~~~i~~--~~~~~~l~D~~G~~~~~~   78 (190)
T cd00879          50 TLHPTSEELTI--GNIKFKTFDLGGHEQARR   78 (190)
T ss_pred             ccCcceEEEEE--CCEEEEEEECCCCHHHHH
Confidence            44443345555  356889999999998754

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.

>PRK15494 era GTPase Era; Provisional

Probab=92.94  E-value=0.16  Score=40.13  Aligned_cols=47  Identities=4%  Similarity=-0.038  Sum_probs=27.4

Q ss_pred             ChhhHHhhcCCcC-cccCcceeeecceEEEEcCCCCeeEEEcCCCc-cccc
Q 045003            1 MISDALRQTSVVA-KEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY-HRTS   49 (93)
Q Consensus         1 sLLD~IR~t~Va~-~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH-eAFs   49 (93)
                      +|+.+|.+.+++. ...-+.|++.--..+..  ++.++.|+||||. +.+.
T Consensus        67 TLin~l~~~k~~ivs~k~~tTr~~~~~~~~~--~~~qi~~~DTpG~~~~~~  115 (339)
T PRK15494         67 TLLNRIIGEKLSIVTPKVQTTRSIITGIITL--KDTQVILYDTPGIFEPKG  115 (339)
T ss_pred             HHHHHHhCCceeeccCCCCCccCcEEEEEEe--CCeEEEEEECCCcCCCcc
Confidence            4677777666542 12234565532223333  4678999999997 4443

>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria

Probab=92.91  E-value=0.1  Score=38.05  Aligned_cols=41  Identities=12%  Similarity=0.130  Sum_probs=23.0

Q ss_pred             hhHHhhcCCcCcc--cCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003            3 SDALRQTSVVAKE--AGGITQHVGAFVIGMSTGGIKFNFHNCEFY   45 (93)
Q Consensus         3 LD~IR~t~Va~~E--aGGITQhIGA~~V~~~~~~~~itFiDTPGH   45 (93)
                      ...|-+.++....  +-..||..-.+....  ++..|+++||||=
T Consensus        17 ~N~ilg~~~f~~~~~~~~~t~~~~~~~~~~--~g~~v~VIDTPGl   59 (212)
T PF04548_consen   17 GNSILGKEVFKSGSSAKSVTQECQKYSGEV--DGRQVTVIDTPGL   59 (212)
T ss_dssp             HHHHHTSS-SS--TTTSS--SS-EEEEEEE--TTEEEEEEE--SS
T ss_pred             HHHHhcccceeeccccCCcccccceeeeee--cceEEEEEeCCCC
Confidence            3455555554443  346788888877766  4899999999993

The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 (avrRpt2-induced gene) exhibits RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2 []. The domain is also apparently found in a number of mammalian proteins, for example the rat immune-associated nucleotide 4 protein. ; GO: 0005525 GTP binding; PDB: 3LXX_A 3BB4_A 3DEF_A 3BB3_A 2J3E_A 3V70_B 3BB1_A 1H65_B 2XTP_A 3P1J_C ....

>KOG0460 consensus Mitochondrial translation elongation factor Tu [Translation, ribosomal structure and biogenesis]

Probab=92.87  E-value=0.081  Score=45.23  Aligned_cols=48  Identities=19%  Similarity=0.244  Sum_probs=37.0

Q ss_pred             cccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhh-----hhcccEeEEec
Q 045003           14 KEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFV-----QLRNFVIVLRK   65 (93)
Q Consensus        14 ~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~m-----R~RGa~iv~~~   65 (93)
                      .-|-|||  |.+..|.+++...----.|+|||++|-  .+|     +--|+.+||.-
T Consensus        98 EkaRGIT--In~aHveYeTa~RhYaH~DCPGHADYI--KNMItGaaqMDGaILVVaa  150 (449)
T KOG0460|consen   98 EKARGIT--INAAHVEYETAKRHYAHTDCPGHADYI--KNMITGAAQMDGAILVVAA  150 (449)
T ss_pred             hhhccce--EeeeeeeeeccccccccCCCCchHHHH--HHhhcCccccCceEEEEEc
Confidence            3478998  667888888777777889999999984  355     45688888865

>cd01874 Cdc42 Cdc42 subfamily

Probab=92.76  E-value=0.23  Score=34.50  Aligned_cols=18  Identities=0%  Similarity=-0.083  Sum_probs=14.8

Q ss_pred             CCeeEEEcCCCcccccCc
Q 045003           34 GIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f   51 (93)
                      ...+.+.||||++.|..+
T Consensus        48 ~~~l~i~Dt~G~~~~~~~   65 (175)
T cd01874          48 PYTLGLFDTAGQEDYDRL   65 (175)
T ss_pred             EEEEEEEECCCccchhhh
Confidence            357889999999998764

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

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=92.64  E-value=0.22  Score=40.83  Aligned_cols=47  Identities=19%  Similarity=0.201  Sum_probs=33.0

Q ss_pred             ChhhHHhhcCCc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003            1 MISDALRQTSVV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS   49 (93)
Q Consensus         1 sLLD~IR~t~Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs   49 (93)
                      ||+.+|-+.+.+ ..+.-|.|+++-...+..  ++.++.++||||++.+.
T Consensus       230 SLln~L~~~~~a~v~~~~gtT~d~~~~~i~~--~g~~i~l~DT~G~~~~~  277 (449)
T PRK05291        230 SLLNALLGEERAIVTDIAGTTRDVIEEHINL--DGIPLRLIDTAGIRETD  277 (449)
T ss_pred             HHHHHHhCCCCcccCCCCCcccccEEEEEEE--CCeEEEEEeCCCCCCCc
Confidence            466777665542 345567888876666666  46789999999997654

>cd01878 HflX HflX subfamily

Probab=92.56  E-value=0.18  Score=35.18  Aligned_cols=44  Identities=14%  Similarity=0.068  Sum_probs=24.7

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY   45 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH   45 (93)
                      +|+.+|-+..+...+..+-|.......+.++ +...++|+||||+
T Consensus        56 tLl~~l~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~i~Dt~G~   99 (204)
T cd01878          56 TLFNALTGADVYAEDQLFATLDPTTRRLRLP-DGREVLLTDTVGF   99 (204)
T ss_pred             HHHHHHhcchhccCCccceeccceeEEEEec-CCceEEEeCCCcc
Confidence            3566666655433333344443333334443 3348999999998

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=92.48  E-value=0.12  Score=42.16  Aligned_cols=43  Identities=19%  Similarity=0.254  Sum_probs=28.6

Q ss_pred             ChhhHHhhcCC-cCcccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003            1 MISDALRQTSV-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY   45 (93)
Q Consensus         1 sLLD~IR~t~V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH   45 (93)
                      +|+.+|-+... ...+.-|+|.+.-...+..  ++..+.|+||||.
T Consensus       226 SLin~l~~~~~~~~s~~~gtT~d~~~~~~~~--~~~~~~l~DTaG~  269 (472)
T PRK03003        226 SLLNKLAGEERSVVDDVAGTTVDPVDSLIEL--GGKTWRFVDTAGL  269 (472)
T ss_pred             HHHHHHhCCCcccccCCCCccCCcceEEEEE--CCEEEEEEECCCc
Confidence            36666665543 3445667887665555655  4678999999993

>cd04131 Rnd Rnd subfamily

Probab=92.42  E-value=0.25  Score=34.84  Aligned_cols=33  Identities=3%  Similarity=-0.138  Sum_probs=22.0

Q ss_pred             EEEcCCCCeeEEEcCCCcccccCchhhhhcccE
Q 045003           28 IGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNFV   60 (93)
Q Consensus        28 V~~~~~~~~itFiDTPGHeAFs~f~~mR~RGa~   60 (93)
                      +..+++.-++.+.||||++.|..+..+.-|++.
T Consensus        42 ~~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~   74 (178)
T cd04131          42 FEIDEQRIELSLWDTSGSPYYDNVRPLCYPDSD   74 (178)
T ss_pred             EEECCEEEEEEEEECCCchhhhhcchhhcCCCC
Confidence            344334457889999999999876555444443

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.

>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=92.38  E-value=0.099  Score=38.05  Aligned_cols=42  Identities=10%  Similarity=0.004  Sum_probs=31.2

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY   45 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH   45 (93)
                      |+-+|-+.+..-+..-|.|....-..+.+.  +..+.|+||||-
T Consensus        16 LfN~Ltg~~~~v~n~pG~Tv~~~~g~~~~~--~~~~~lvDlPG~   57 (156)
T PF02421_consen   16 LFNALTGAKQKVGNWPGTTVEKKEGIFKLG--DQQVELVDLPGI   57 (156)
T ss_dssp             HHHHHHTTSEEEEESTTSSSEEEEEEEEET--TEEEEEEE----
T ss_pred             HHHHHHCCCceecCCCCCCeeeeeEEEEec--CceEEEEECCCc
Confidence            566777777777888999999877777774  689999999994

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 ....

>cd04155 Arl3 Arl3 subfamily

Probab=92.32  E-value=0.19  Score=33.50  Aligned_cols=18  Identities=17%  Similarity=0.119  Sum_probs=14.9

Q ss_pred             CCCeeEEEcCCCcccccC
Q 045003           33 GGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~   50 (93)
                      ++..+.++||||+..|..
T Consensus        56 ~~~~~~~~D~~G~~~~~~   73 (173)
T cd04155          56 DGFKLNVWDIGGQRAIRP   73 (173)
T ss_pred             CCEEEEEEECCCCHHHHH
Confidence            367899999999988754

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.

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=92.31  E-value=0.16  Score=36.69  Aligned_cols=39  Identities=10%  Similarity=0.191  Sum_probs=26.7

Q ss_pred             ChhhHHhhcCC-cCcccCcceeeecceEEEEcCCCCeeEEEcCCC
Q 045003            1 MISDALRQTSV-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEF   44 (93)
Q Consensus         1 sLLD~IR~t~V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPG   44 (93)
                      +|+.+|.+.++ ..+..-|.|++.-.+.+     +..+.++||||
T Consensus       132 slin~l~~~~~~~~~~~pg~T~~~~~~~~-----~~~~~l~DtPG  171 (172)
T cd04178         132 SLINSLKRSRACNVGATPGVTKSMQEVHL-----DKKVKLLDSPG  171 (172)
T ss_pred             HHHHHHhCcccceecCCCCeEcceEEEEe-----CCCEEEEECcC
Confidence            46677776544 44566789998654443     34699999999

Nucleostemin (NS) is a nucleolar protein that functions as a regulator of cell growth and proliferation in stem cells and in several types of cancer cells, but is not expressed in the differentiated cells of most mammalian adult tissues. NS shuttles between the nucleolus and nucleoplasm bidirectionally at a rate that is fast and independent of cell type. Lowering GTP levels decreases the nucleolar retention of NS, and expression of NS is abruptly down-regulated during differentiation prior to terminal cell division. Found only in eukaryotes, NS consists of an N-terminal basic domain, a coiled-coil domain, a GTP-binding domain, an intermediate domain, and a C-terminal acidic domain. Experimental evidence indicates that NS uses its GTP-binding property as a molecular switch to control the transition between the nucleolus and nucleoplasm, and this process involves interaction between the basic, GTP-binding, and intermediate domains of the

>cd04125 RabA_like RabA-like subfamily

Probab=92.28  E-value=0.26  Score=34.00  Aligned_cols=17  Identities=18%  Similarity=0.040  Sum_probs=13.8

Q ss_pred             CCeeEEEcCCCcccccC
Q 045003           34 GIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~   50 (93)
                      ...+.+.||||++.|..
T Consensus        48 ~~~~~i~Dt~g~~~~~~   64 (188)
T cd04125          48 IIKLQIWDTNGQERFRS   64 (188)
T ss_pred             EEEEEEEECCCcHHHHh
Confidence            44678999999998864

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.

>PLN03110 Rab GTPase; Provisional

Probab=92.21  E-value=0.22  Score=36.00  Aligned_cols=26  Identities=8%  Similarity=0.010  Sum_probs=17.9

Q ss_pred             EEEEcCCCCeeEEEcCCCcccccCch
Q 045003           27 VIGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus        27 ~V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      .+..++...++.+.||||++.|..+.
T Consensus        53 ~v~~~~~~~~l~l~Dt~G~~~~~~~~   78 (216)
T PLN03110         53 TLQVEGKTVKAQIWDTAGQERYRAIT   78 (216)
T ss_pred             EEEECCEEEEEEEEECCCcHHHHHHH
Confidence            44443334578899999999886643

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=92.17  E-value=0.16  Score=40.63  Aligned_cols=44  Identities=14%  Similarity=0.049  Sum_probs=31.5

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY   45 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH   45 (93)
                      ||+.+|-+.++...+.-+.|.+.-.-.+.++ ++..+.|+||||.
T Consensus       204 SLln~L~~~~~~v~~~~~tT~d~~~~~i~~~-~~~~i~l~DT~G~  247 (351)
T TIGR03156       204 TLFNALTGADVYAADQLFATLDPTTRRLDLP-DGGEVLLTDTVGF  247 (351)
T ss_pred             HHHHHHhCCceeeccCCccccCCEEEEEEeC-CCceEEEEecCcc
Confidence            4777777766555566677777655566664 4678999999997

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).

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=92.03  E-value=0.25  Score=43.82  Aligned_cols=47  Identities=6%  Similarity=-0.075  Sum_probs=31.3

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      |+.+|.+.+..-+..-|.|.+.---.+..  ++.++.++||||+..|+.
T Consensus        19 LfN~Ltg~~~~vgn~pGvTve~k~g~~~~--~~~~i~lvDtPG~ysl~~   65 (772)
T PRK09554         19 LFNQLTGARQRVGNWAGVTVERKEGQFST--TDHQVTLVDLPGTYSLTT   65 (772)
T ss_pred             HHHHHhCCCCccCCCCCceEeeEEEEEEc--CceEEEEEECCCcccccc
Confidence            56667665544455567776544333443  477899999999998853

>cd04133 Rop_like Rop subfamily

Probab=92.02  E-value=0.34  Score=34.45  Aligned_cols=29  Identities=3%  Similarity=0.021  Sum_probs=20.1

Q ss_pred             EcCCCCeeEEEcCCCcccccCchhhhhcc
Q 045003           30 MSTGGIKFNFHNCEFYHRTSLFFFVQLRN   58 (93)
Q Consensus        30 ~~~~~~~itFiDTPGHeAFs~f~~mR~RG   58 (93)
                      .++..-++.+.||||++.|..+..+--|+
T Consensus        44 ~~~~~v~l~i~Dt~G~~~~~~~~~~~~~~   72 (176)
T cd04133          44 VDGNTVNLGLWDTAGQEDYNRLRPLSYRG   72 (176)
T ss_pred             ECCEEEEEEEEECCCCccccccchhhcCC
Confidence            33334678999999999998755443343

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,

>PRK04213 GTP-binding protein; Provisional

Probab=91.99  E-value=0.19  Score=34.94  Aligned_cols=40  Identities=13%  Similarity=0.112  Sum_probs=25.9

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYH   46 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHe   46 (93)
                      +|+.+|.+.....+..-|.|++.-  .+..    ..++++||||+.
T Consensus        24 sLin~l~~~~~~~~~~~~~t~~~~--~~~~----~~~~l~Dt~G~~   63 (201)
T PRK04213         24 TLVRELTGKKVRVGKRPGVTRKPN--HYDW----GDFILTDLPGFG   63 (201)
T ss_pred             HHHHHHhCCCCccCCCCceeeCce--EEee----cceEEEeCCccc
Confidence            467778776654444447787753  2322    269999999964

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=91.99  E-value=0.18  Score=34.03  Aligned_cols=40  Identities=18%  Similarity=0.194  Sum_probs=24.4

Q ss_pred             hhhHHhhcCC-cCcccCcceeeecceEEEEcCCCCeeEEEcCCCcc
Q 045003            2 ISDALRQTSV-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYH   46 (93)
Q Consensus         2 LLD~IR~t~V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHe   46 (93)
                      |+-+|.+... ...+.-|.|+|.-  .+..   +.++.++||||-.
T Consensus        99 lin~l~~~~~~~~~~~~~~~~~~~--~~~~---~~~~~i~DtpG~~  139 (141)
T cd01857          99 LINALVGKKKVSVSATPGKTKHFQ--TIFL---TPTITLCDCPGLV  139 (141)
T ss_pred             HHHHHhCCCceeeCCCCCcccceE--EEEe---CCCEEEEECCCcC
Confidence            4455554332 4445566888864  3444   2379999999953

Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=91.97  E-value=0.17  Score=34.56  Aligned_cols=38  Identities=13%  Similarity=0.062  Sum_probs=24.7

Q ss_pred             hhhHHhhcCC-cCcccCcceeeecceEEEEcCCCCeeEEEcCCC
Q 045003            2 ISDALRQTSV-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEF   44 (93)
Q Consensus         2 LLD~IR~t~V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPG   44 (93)
                      |+.+|.+... ..++--|.|.+.-.+.  .   +..+.++||||
T Consensus       116 lin~l~~~~~~~~~~~~~~t~~~~~~~--~---~~~~~liDtPG  154 (155)
T cd01849         116 VINALLNKLKLKVGNVPGTTTSQQEVK--L---DNKIKLLDTPG  154 (155)
T ss_pred             HHHHHHccccccccCCCCcccceEEEE--e---cCCEEEEECCC
Confidence            5666666543 2333458888875443  3   35799999999

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=91.95  E-value=0.21  Score=40.77  Aligned_cols=44  Identities=9%  Similarity=0.194  Sum_probs=30.3

Q ss_pred             ChhhHHhhcCCc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCcc
Q 045003            1 MISDALRQTSVV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYH   46 (93)
Q Consensus         1 sLLD~IR~t~Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHe   46 (93)
                      +|+.+|-+...+ ....-|+|++.-...+..  ++..+.++||||++
T Consensus        53 SL~nrl~~~~~~~v~~~~gvT~d~~~~~~~~--~~~~~~l~DT~G~~   97 (472)
T PRK03003         53 TLVNRILGRREAVVEDVPGVTRDRVSYDAEW--NGRRFTVVDTGGWE   97 (472)
T ss_pred             HHHHHHhCcCcccccCCCCCCEeeEEEEEEE--CCcEEEEEeCCCcC
Confidence            356666554432 244557998877677766  46789999999986

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=91.81  E-value=0.22  Score=37.91  Aligned_cols=40  Identities=10%  Similarity=0.056  Sum_probs=27.3

Q ss_pred             ChhhHHhhcC-CcCcccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003            1 MISDALRQTS-VVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY   45 (93)
Q Consensus         1 sLLD~IR~t~-Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH   45 (93)
                      +|+.+|.+.+ ...++.-|.|++..-  +..   +.++.++||||=
T Consensus       133 slin~l~~~~~~~~~~~~g~T~~~~~--~~~---~~~~~l~DtPG~  173 (276)
T TIGR03596       133 TLINRLAGKKVAKVGNRPGVTKGQQW--IKL---SDGLELLDTPGI  173 (276)
T ss_pred             HHHHHHhCCCccccCCCCCeecceEE--EEe---CCCEEEEECCCc
Confidence            4667777654 344566788998753  333   347999999997

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.

>cd04117 Rab15 Rab15 subfamily

Probab=91.54  E-value=0.37  Score=32.53  Aligned_cols=27  Identities=7%  Similarity=-0.021  Sum_probs=18.1

Q ss_pred             cceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           24 GAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        24 GA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      ....+...+....+.+.||||.+.|..
T Consensus        38 ~~~~~~~~~~~~~l~i~D~~g~~~~~~   64 (161)
T cd04117          38 KMKTIEVDGIKVRIQIWDTAGQERYQT   64 (161)
T ss_pred             EEEEEEECCEEEEEEEEeCCCcHhHHh
Confidence            334455542345678999999998875

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

>cd04121 Rab40 Rab40 subfamily

Probab=91.45  E-value=0.31  Score=35.13  Aligned_cols=25  Identities=12%  Similarity=0.081  Sum_probs=17.7

Q ss_pred             EEEEcCCCCeeEEEcCCCcccccCc
Q 045003           27 VIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        27 ~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      .+..++..-++.+.||||++.|..+
T Consensus        47 ~i~~~~~~~~l~iwDt~G~~~~~~l   71 (189)
T cd04121          47 TILLDGRRVKLQLWDTSGQGRFCTI   71 (189)
T ss_pred             EEEECCEEEEEEEEeCCCcHHHHHH
Confidence            3444333457889999999998763

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

>cd04142 RRP22 RRP22 subfamily

Probab=91.33  E-value=0.35  Score=34.83  Aligned_cols=15  Identities=7%  Similarity=0.111  Sum_probs=12.1

Q ss_pred             CeeEEEcCCCccccc
Q 045003           35 IKFNFHNCEFYHRTS   49 (93)
Q Consensus        35 ~~itFiDTPGHeAFs   49 (93)
                      ..+.++||||++.|.
T Consensus        49 ~~l~i~Dt~G~~~~~   63 (198)
T cd04142          49 YDLHILDVPNMQRYP   63 (198)
T ss_pred             EEEEEEeCCCcccCC
Confidence            468899999987663

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.

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=91.33  E-value=0.22  Score=42.03  Aligned_cols=54  Identities=17%  Similarity=0.180  Sum_probs=38.7

Q ss_pred             cccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhh-----hhcccEeEEec--ccccce
Q 045003           14 KEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFV-----QLRNFVIVLRK--NNCQGT   71 (93)
Q Consensus        14 ~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~m-----R~RGa~iv~~~--~~~~~~   71 (93)
                      .-+-|||-+.  -.|.++.+..-.-++|+|||+++-  .+|     +.-||.+|+..  .-|-.|
T Consensus        56 Ek~rGITInt--ahveyet~~rhyahVDcPGHaDYv--KNMItgAaqmDgAILVVsA~dGpmPqT  116 (394)
T COG0050          56 EKARGITINT--AHVEYETANRHYAHVDCPGHADYV--KNMITGAAQMDGAILVVAATDGPMPQT  116 (394)
T ss_pred             HhhcCceecc--ceeEEecCCceEEeccCCChHHHH--HHHhhhHHhcCccEEEEEcCCCCCCcc
Confidence            3467898665  455565568889999999999984  355     45688888876  456555

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=91.20  E-value=0.28  Score=32.73  Aligned_cols=13  Identities=0%  Similarity=0.071  Sum_probs=10.9

Q ss_pred             CeeEEEcCCCccc
Q 045003           35 IKFNFHNCEFYHR   47 (93)
Q Consensus        35 ~~itFiDTPGHeA   47 (93)
                      -++.++||||++.
T Consensus        47 ~~~~i~D~~g~~~   59 (165)
T cd04146          47 VSLEILDTAGQQQ   59 (165)
T ss_pred             EEEEEEECCCCcc
Confidence            3578999999995

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

>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=91.15  E-value=0.11  Score=38.88  Aligned_cols=34  Identities=12%  Similarity=0.205  Sum_probs=23.2

Q ss_pred             CCCeeEEEcCCCcccccC-ch-----hhhhcccEeEEecc
Q 045003           33 GGIKFNFHNCEFYHRTSL-FF-----FVQLRNFVIVLRKN   66 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~-f~-----~mR~RGa~iv~~~~   66 (93)
                      ..+++.++|+|||+.... +.     .-..+|++.|++-.
T Consensus        47 ~~~~~~lvD~PGH~rlr~~~~~~~~~~~~~k~IIfvvDSs   86 (181)
T PF09439_consen   47 KGKKLRLVDIPGHPRLRSKLLDELKYLSNAKGIIFVVDSS   86 (181)
T ss_dssp             CGTCECEEEETT-HCCCHHHHHHHHHHGGEEEEEEEEETT
T ss_pred             CCCEEEEEECCCcHHHHHHHHHhhhchhhCCEEEEEEeCc
Confidence            577899999999997532 10     12348888888863

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=91.11  E-value=0.35  Score=33.39  Aligned_cols=24  Identities=0%  Similarity=-0.083  Sum_probs=16.7

Q ss_pred             EEEcCCCCeeEEEcCCCcccccCc
Q 045003           28 IGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        28 V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      +..++....+.++||||.+.|..+
T Consensus        43 ~~~~~~~~~l~i~Dt~G~~~~~~l   66 (172)
T cd04141          43 ARIDNEPALLDILDTAGQAEFTAM   66 (172)
T ss_pred             EEECCEEEEEEEEeCCCchhhHHH
Confidence            344333456889999999988653

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

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=90.91  E-value=0.25  Score=42.64  Aligned_cols=43  Identities=14%  Similarity=0.199  Sum_probs=29.5

Q ss_pred             ChhhHHhhcCC-cCcccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003            1 MISDALRQTSV-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY   45 (93)
Q Consensus         1 sLLD~IR~t~V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH   45 (93)
                      +|+.+|-+.+. ...+..|+|.+.-...+..  ++..+.|+||||.
T Consensus       465 SLin~l~~~~~~~v~~~~gtT~d~~~~~~~~--~~~~~~liDTaG~  508 (712)
T PRK09518        465 SLLNQLTHEERAVVNDLAGTTRDPVDEIVEI--DGEDWLFIDTAGI  508 (712)
T ss_pred             HHHHHHhCccccccCCCCCCCcCcceeEEEE--CCCEEEEEECCCc
Confidence            46677766653 2345667887765555666  4778999999995

>cd01855 YqeH YqeH

Probab=90.78  E-value=0.18  Score=35.34  Aligned_cols=39  Identities=13%  Similarity=0.060  Sum_probs=23.6

Q ss_pred             ChhhHHhhcCC---------cCcccCcceeeecceEEEEcCCCCeeEEEcCCC
Q 045003            1 MISDALRQTSV---------VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEF   44 (93)
Q Consensus         1 sLLD~IR~t~V---------a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPG   44 (93)
                      +|+.+|.+..+         .....-|.|.+.--+.+.     ..+.++||||
T Consensus       142 tliN~l~~~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~-----~~~~~~DtPG  189 (190)
T cd01855         142 TLINALLKKDNGKKKLKDLLTTSPIPGTTLDLIKIPLG-----NGKKLYDTPG  189 (190)
T ss_pred             HHHHHHHHhcccccccccccccCCCCCeeeeeEEEecC-----CCCEEEeCcC
Confidence            35667766432         233444688876433332     2689999999

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.

>cd04158 ARD1 ARD1 subfamily

Probab=90.75  E-value=0.4  Score=32.60  Aligned_cols=18  Identities=17%  Similarity=0.224  Sum_probs=15.0

Q ss_pred             CCCeeEEEcCCCcccccC
Q 045003           33 GGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~   50 (93)
                      +..++.+.||||++.|..
T Consensus        41 ~~~~i~l~Dt~G~~~~~~   58 (169)
T cd04158          41 KNLKFTIWDVGGKHKLRP   58 (169)
T ss_pred             CCEEEEEEECCCChhcch
Confidence            467899999999988764

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

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=90.62  E-value=0.34  Score=33.08  Aligned_cols=40  Identities=20%  Similarity=0.268  Sum_probs=23.6

Q ss_pred             ChhhHHhhcC-CcC-cccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003            1 MISDALRQTS-VVA-KEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY   45 (93)
Q Consensus         1 sLLD~IR~t~-Va~-~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH   45 (93)
                      +|+.+|.+.. ++. ...-|.|+.+..+.+     ..++.++||||+
T Consensus        39 sli~~l~~~~~~~~~~~~~~~t~~~~~~~~-----~~~l~l~DtpG~   80 (196)
T PRK00454         39 SLINALTNRKNLARTSKTPGRTQLINFFEV-----NDKLRLVDLPGY   80 (196)
T ss_pred             HHHHHHhCCCCcccccCCCCceeEEEEEec-----CCeEEEeCCCCC
Confidence            3566666532 221 122356776654443     367999999996

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

Probab=90.56  E-value=0.3  Score=33.71  Aligned_cols=18  Identities=11%  Similarity=0.089  Sum_probs=15.1

Q ss_pred             CCCeeEEEcCCCcccccC
Q 045003           33 GGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~   50 (93)
                      +...+.+.||||++.|..
T Consensus        55 ~~~~l~l~D~~G~~~~~~   72 (175)
T smart00177       55 KNISFTVWDVGGQDKIRP   72 (175)
T ss_pred             CCEEEEEEECCCChhhHH
Confidence            456899999999998865

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).

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=90.50  E-value=0.56  Score=38.77  Aligned_cols=47  Identities=15%  Similarity=0.169  Sum_probs=32.2

Q ss_pred             ChhhHHhhcCC-cCcccCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003            1 MISDALRQTSV-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS   49 (93)
Q Consensus         1 sLLD~IR~t~V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs   49 (93)
                      ||+.+|-+... ...+.-|.|+++--..+.+  ++..+.++||||...+.
T Consensus       218 SLiN~L~~~~~aivs~~pgtTrd~~~~~i~~--~g~~v~l~DTaG~~~~~  265 (442)
T TIGR00450       218 SLLNALLKQDRAIVSDIKGTTRDVVEGDFEL--NGILIKLLDTAGIREHA  265 (442)
T ss_pred             HHHHHHhCCCCcccCCCCCcEEEEEEEEEEE--CCEEEEEeeCCCcccch
Confidence            45666665432 2345678898876666666  46789999999986554

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.

>cd04129 Rho2 Rho2 subfamily

Probab=90.42  E-value=0.51  Score=32.80  Aligned_cols=25  Identities=0%  Similarity=-0.061  Sum_probs=16.8

Q ss_pred             CCeeEEEcCCCcccccCchhhhhcc
Q 045003           34 GIKFNFHNCEFYHRTSLFFFVQLRN   58 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f~~mR~RG   58 (93)
                      ...+.++||||++.|..+..+..+.
T Consensus        48 ~~~l~i~Dt~g~~~~~~~~~~~~~~   72 (187)
T cd04129          48 PVQLALWDTAGQEEYERLRPLSYSK   72 (187)
T ss_pred             EEEEEEEECCCChhccccchhhcCC
Confidence            3467899999999887643333333

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).

>cd01875 RhoG RhoG subfamily

Probab=90.14  E-value=0.24  Score=34.88  Aligned_cols=19  Identities=5%  Similarity=0.001  Sum_probs=15.4

Q ss_pred             CCeeEEEcCCCcccccCch
Q 045003           34 GIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f~   52 (93)
                      .-.+.+.||||++.|..+.
T Consensus        50 ~~~l~i~Dt~G~e~~~~l~   68 (191)
T cd01875          50 TVSLNLWDTAGQEEYDRLR   68 (191)
T ss_pred             EEEEEEEECCCchhhhhhh
Confidence            4568899999999997643

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

>cd01856 YlqF YlqF

Probab=89.89  E-value=0.39  Score=33.42  Aligned_cols=39  Identities=15%  Similarity=0.138  Sum_probs=24.4

Q ss_pred             hhhHHhhcCC-cCcccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003            2 ISDALRQTSV-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY   45 (93)
Q Consensus         2 LLD~IR~t~V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH   45 (93)
                      |+.+|.+.+. .....-|.|.+..-+.++     .++.++||||-
T Consensus       131 lin~l~~~~~~~~~~~~~~T~~~~~~~~~-----~~~~~iDtpG~  170 (171)
T cd01856         131 LINRLRGKKVAKVGNKPGVTKGIQWIKIS-----PGIYLLDTPGI  170 (171)
T ss_pred             HHHHHhCCCceeecCCCCEEeeeEEEEec-----CCEEEEECCCC
Confidence            5666666543 233344677776544432     56999999994

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.

>PLN03108 Rab family protein; Provisional

Probab=89.88  E-value=0.46  Score=34.12  Aligned_cols=33  Identities=12%  Similarity=0.010  Sum_probs=20.2

Q ss_pred             CCeeEEEcCCCcccccCchhhhhc---ccEeEEecc
Q 045003           34 GIKFNFHNCEFYHRTSLFFFVQLR---NFVIVLRKN   66 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f~~mR~R---Ga~iv~~~~   66 (93)
                      ...+.+.||||++.|..+...-.+   ++++|..-.
T Consensus        54 ~i~l~l~Dt~G~~~~~~~~~~~~~~ad~~vlv~D~~   89 (210)
T PLN03108         54 PIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDIT   89 (210)
T ss_pred             EEEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEECC
Confidence            346889999999988653222222   445555543

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

Probab=89.67  E-value=0.38  Score=31.65  Aligned_cols=27  Identities=4%  Similarity=-0.002  Sum_probs=18.6

Q ss_pred             eEEEEcCCCCeeEEEcCCCcccccCch
Q 045003           26 FVIGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus        26 ~~V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      .++..++..-.+.+.|||||+.|..+.
T Consensus        39 ~~~~~~~~~~~l~i~D~~g~~~~~~~~   65 (162)
T PF00071_consen   39 KEVSIDGKPVNLEIWDTSGQERFDSLR   65 (162)
T ss_dssp             EEEEETTEEEEEEEEEETTSGGGHHHH
T ss_pred             ccccccccccccccccccccccccccc
Confidence            344443334569999999999987543

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 ....

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

Probab=89.66  E-value=0.53  Score=32.79  Aligned_cols=62  Identities=13%  Similarity=-0.067  Sum_probs=36.4

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhhhcccEeEE
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNFVIVL   63 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR~RGa~iv~   63 (93)
                      |+-++.+........-.|+..+.+..+.......++..+||+|.+.|..+..+.-+|+..++
T Consensus        21 l~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~~~y~~~~~~~l   82 (219)
T COG1100          21 LLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGANGIL   82 (219)
T ss_pred             HHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHHHHHhcCCCEEE
Confidence            33444444444444445555555555554322456778899999999876666655554443

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=89.49  E-value=0.28  Score=34.37  Aligned_cols=18  Identities=11%  Similarity=0.139  Sum_probs=15.0

Q ss_pred             CCCeeEEEcCCCcccccC
Q 045003           33 GGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~   50 (93)
                      +...+.+.||||++.|..
T Consensus        59 ~~~~~~l~D~~G~~~~~~   76 (182)
T PTZ00133         59 KNLKFTMWDVGGQDKLRP   76 (182)
T ss_pred             CCEEEEEEECCCCHhHHH
Confidence            467899999999988764

>cd04126 Rab20 Rab20 subfamily

Probab=89.21  E-value=0.65  Score=34.63  Aligned_cols=26  Identities=4%  Similarity=-0.182  Sum_probs=18.5

Q ss_pred             CCeeEEEcCCCcccccCchhhhhccc
Q 045003           34 GIKFNFHNCEFYHRTSLFFFVQLRNF   59 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f~~mR~RGa   59 (93)
                      ...+.+.||||++.|..+..+--|++
T Consensus        43 ~~~l~iwDt~G~e~~~~l~~~~~~~a   68 (220)
T cd04126          43 PYNISIWDTAGREQFHGLGSMYCRGA   68 (220)
T ss_pred             EEEEEEEeCCCcccchhhHHHHhccC
Confidence            45689999999999987544333433

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

>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]

Probab=88.34  E-value=0.62  Score=42.95  Aligned_cols=49  Identities=12%  Similarity=-0.016  Sum_probs=30.5

Q ss_pred             CcceeeecceEEEEc---CCCCeeEEEcCCCcccccCc--hhhh-hcccEeEEec
Q 045003           17 GGITQHVGAFVIGMS---TGGIKFNFHNCEFYHRTSLF--FFVQ-LRNFVIVLRK   65 (93)
Q Consensus        17 GGITQhIGA~~V~~~---~~~~~itFiDTPGHeAFs~f--~~mR-~RGa~iv~~~   65 (93)
                      -|++-|.--.++-..   ++..-++++|||||-.|+.=  ..|| +-|+++|+.-
T Consensus       176 Rg~sIK~~p~Tl~l~D~~~KS~l~nilDTPGHVnF~DE~ta~l~~sDgvVlvvDv  230 (971)
T KOG0468|consen  176 RGCSIKSTPVTLVLSDSKGKSYLMNILDTPGHVNFSDETTASLRLSDGVVLVVDV  230 (971)
T ss_pred             cCceEeecceEEEEecCcCceeeeeeecCCCcccchHHHHHHhhhcceEEEEEEc
Confidence            355666555555554   23456999999999999740  1334 3466666653

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=88.29  E-value=0.49  Score=32.07  Aligned_cols=18  Identities=11%  Similarity=0.089  Sum_probs=14.8

Q ss_pred             CCCeeEEEcCCCcccccC
Q 045003           33 GGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~   50 (93)
                      +..++.+.||||++.|..
T Consensus        42 ~~~~~~l~D~~G~~~~~~   59 (159)
T cd04150          42 KNISFTVWDVGGQDKIRP   59 (159)
T ss_pred             CCEEEEEEECCCCHhHHH
Confidence            467899999999988754

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

>cd01893 Miro1 Miro1 subfamily

Probab=87.71  E-value=1.1  Score=30.25  Aligned_cols=17  Identities=0%  Similarity=-0.085  Sum_probs=13.4

Q ss_pred             CCCeeEEEcCCCccccc
Q 045003           33 GGIKFNFHNCEFYHRTS   49 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs   49 (93)
                      ....+.++||||++.+.
T Consensus        45 ~~~~~~i~Dt~G~~~~~   61 (166)
T cd01893          45 ERVPTTIVDTSSRPQDR   61 (166)
T ss_pred             CeEEEEEEeCCCchhhh
Confidence            44578899999998764

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.

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=87.48  E-value=0.87  Score=29.07  Aligned_cols=13  Identities=23%  Similarity=0.163  Sum_probs=10.8

Q ss_pred             CeeEEEcCCCccc
Q 045003           35 IKFNFHNCEFYHR   47 (93)
Q Consensus        35 ~~itFiDTPGHeA   47 (93)
                      ..++|+|||||..
T Consensus        45 ~~~~~~D~~g~~~   57 (170)
T cd01876          45 DKFRLVDLPGYGY   57 (170)
T ss_pred             CeEEEecCCCccc
Confidence            3899999999743

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.

>cd04128 Spg1 Spg1p

Probab=87.48  E-value=1.1  Score=31.60  Aligned_cols=33  Identities=12%  Similarity=0.054  Sum_probs=21.8

Q ss_pred             EEEcCCCCeeEEEcCCCcccccCchhhhhcccE
Q 045003           28 IGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNFV   60 (93)
Q Consensus        28 V~~~~~~~~itFiDTPGHeAFs~f~~mR~RGa~   60 (93)
                      +..++....+.+.||+|++.|..+..+-.+++.
T Consensus        42 i~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~   74 (182)
T cd04128          42 ISIRGTEITFSIWDLGGQREFINMLPLVCNDAV   74 (182)
T ss_pred             EEECCEEEEEEEEeCCCchhHHHhhHHHCcCCC
Confidence            444323356889999999999875555455443

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

>cd04149 Arf6 Arf6 subfamily

Probab=87.16  E-value=0.53  Score=32.36  Aligned_cols=33  Identities=12%  Similarity=0.321  Sum_probs=21.6

Q ss_pred             CCCeeEEEcCCCcccccCch---hhhhcccEeEEec
Q 045003           33 GGIKFNFHNCEFYHRTSLFF---FVQLRNFVIVLRK   65 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~f~---~mR~RGa~iv~~~   65 (93)
                      +..++.+.||||++.|..+.   --.++++++|++-
T Consensus        51 ~~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii~v~D~   86 (168)
T cd04149          51 KNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDS   86 (168)
T ss_pred             CCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEeC
Confidence            46789999999999876421   1234555555554

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

>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]

Probab=86.86  E-value=0.57  Score=40.59  Aligned_cols=34  Identities=21%  Similarity=0.331  Sum_probs=25.1

Q ss_pred             CcccCcceeeecceEEEEc-------CCCCeeEEEcCCCccc
Q 045003           13 AKEAGGITQHVGAFVIGMS-------TGGIKFNFHNCEFYHR   47 (93)
Q Consensus        13 ~~EaGGITQhIGA~~V~~~-------~~~~~itFiDTPGHeA   47 (93)
                      +.| -|||=+.|-.....+       ++.-.++|+|+|||+-
T Consensus        42 S~e-RgiTLDLGFS~~~v~~parLpq~e~lq~tlvDCPGHas   82 (522)
T KOG0461|consen   42 STE-RGITLDLGFSTMTVLSPARLPQGEQLQFTLVDCPGHAS   82 (522)
T ss_pred             ccc-cceeEeecceeeecccccccCccccceeEEEeCCCcHH
Confidence            344 799999997665543       2334689999999985

>PRK00089 era GTPase Era; Reviewed

Probab=86.86  E-value=0.92  Score=33.97  Aligned_cols=15  Identities=13%  Similarity=0.182  Sum_probs=12.0

Q ss_pred             CCCeeEEEcCCCccc
Q 045003           33 GGIKFNFHNCEFYHR   47 (93)
Q Consensus        33 ~~~~itFiDTPGHeA   47 (93)
                      ++..++|+||||...
T Consensus        51 ~~~qi~~iDTPG~~~   65 (292)
T PRK00089         51 DDAQIIFVDTPGIHK   65 (292)
T ss_pred             CCceEEEEECCCCCC
Confidence            357899999999643

>cd01850 CDC_Septin CDC/Septin

Probab=85.89  E-value=1.1  Score=34.53  Aligned_cols=47  Identities=11%  Similarity=0.193  Sum_probs=24.6

Q ss_pred             hhhHHhhcCCcCcccC------cceee--ecceEEEEcCCC--CeeEEEcCCCcccc
Q 045003            2 ISDALRQTSVVAKEAG------GITQH--VGAFVIGMSTGG--IKFNFHNCEFYHRT   48 (93)
Q Consensus         2 LLD~IR~t~Va~~EaG------GITQh--IGA~~V~~~~~~--~~itFiDTPGHeAF   48 (93)
                      |+..|.++.+......      -+++.  +..+......++  -+++++||||-..+
T Consensus        20 liN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpGfgd~   76 (276)
T cd01850          20 FINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPGFGDN   76 (276)
T ss_pred             HHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCCcccc
Confidence            5666766665544210      12222  233333332223  47999999996554

Septins are a conserved family of GTP-binding proteins associated with diverse processes in dividing and non-dividing cells. They were first discovered in the budding yeast S. cerevisiae as a set of genes (CDC3, CDC10, CDC11 and CDC12) required for normal bud morphology. Septins are also present in metazoan cells, where they are required for cytokinesis in some systems, and implicated in a variety of other processes involving organization of the cell cortex and exocytosis. In humans, 12 septin genes generate dozens of polypeptides, many of which comprise heterooligomeric complexes. Since septin mutants are commonly defective in cytokinesis and formation of the neck formation of the neck filaments/septin rings, septins have been considered to be the primary constituents of the neck filaments. Septins belong to the GTPase superfamily for their conserved GTPase motifs and enzymatic activities.

>PLN00223 ADP-ribosylation factor; Provisional

Probab=85.67  E-value=0.84  Score=32.01  Aligned_cols=18  Identities=11%  Similarity=0.089  Sum_probs=15.2

Q ss_pred             CCCeeEEEcCCCcccccC
Q 045003           33 GGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~   50 (93)
                      +...+.+.||||++.|..
T Consensus        59 ~~~~~~i~D~~Gq~~~~~   76 (181)
T PLN00223         59 KNISFTVWDVGGQDKIRP   76 (181)
T ss_pred             CCEEEEEEECCCCHHHHH
Confidence            467899999999998865

>cd01859 MJ1464 MJ1464

Probab=85.57  E-value=0.8  Score=30.93  Aligned_cols=38  Identities=16%  Similarity=0.131  Sum_probs=22.0

Q ss_pred             hhhHHhhcCC-cCcccCcceeeecceEEEEcCCCCeeEEEcCCC
Q 045003            2 ISDALRQTSV-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEF   44 (93)
Q Consensus         2 LLD~IR~t~V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPG   44 (93)
                      |+..+.+... ...+.-|.|.++.-  +..   +.++.++||||
T Consensus       117 l~~~l~~~~~~~~~~~~~~t~~~~~--~~~---~~~~~~~DtpG  155 (156)
T cd01859         117 IINALKGRHSASTSPSPGYTKGEQL--VKI---TSKIYLLDTPG  155 (156)
T ss_pred             HHHHHhCCCccccCCCCCeeeeeEE--EEc---CCCEEEEECcC
Confidence            5566664332 23445566766431  222   34799999999

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.

>TIGR03134 malonate_gamma malonate decarboxylase, gamma subunit

Probab=85.51  E-value=0.71  Score=35.87  Aligned_cols=52  Identities=6%  Similarity=0.007  Sum_probs=35.8

Q ss_pred             CCeeEEEcCCCcc------------ccc----Cchhhhhcc---cEeEEec--------ccccceeeeeccccccchhh
Q 045003           34 GIKFNFHNCEFYH------------RTS----LFFFVQLRN---FVIVLRK--------NNCQGTYLFPWSYSELGLSS   85 (93)
Q Consensus        34 ~~~itFiDTPGHe------------AFs----~f~~mR~RG---a~iv~~~--------~~~~~~~~~~~~~~~~~~~~   85 (93)
                      .+-|+|+||||-.            +..    .+..+|.+|   +.||++|        +-++.+++|-|..++++.-+
T Consensus        67 ~PIv~lvDtpG~~~g~~aE~~G~~~a~A~l~~a~a~a~~~~vP~IsvI~g~a~ggg~lamg~~ad~v~Alp~A~i~vm~  145 (238)
T TIGR03134        67 RPIVVLVDTPSQAYGRREELLGINQALAHLAKALALARLAGHPVIGLIYGKAISGAFLAHGLQADRIIALPGAMVHVMD  145 (238)
T ss_pred             CCEEEEEeCCCCCCCHHHHHHHHHHHHHHHHHHHHHhhcCCCCEEEEEeCCccHHHHHHHccCcCeEEEcCCcEEEecC
Confidence            4669999999964            222    234566444   5677888        55677899999988876543

Members of this protein family are the gamma subunit of malonate decarboxylase. Malonate decarboxylase may be a soluble enzyme, or linked to membrane subunits and active as a sodium pump. In the malonate decarboxylase complex, the beta subunit appears to act as a malonyl-CoA decarboxylase, while the gamma subunit appears either to mediate subunit interaction or to act as a co-decarboxylase with the beta subunit. The beta and gamma subunits exhibit some local sequence similarity.

>KOG0469 consensus Elongation factor 2 [Translation, ribosomal structure and biogenesis]

Probab=85.34  E-value=0.61  Score=42.15  Aligned_cols=49  Identities=16%  Similarity=0.074  Sum_probs=33.5

Q ss_pred             CcceeeecceEEEEc--------------CCCCeeEEEcCCCcccccCch--hhh-hcccEeEEec
Q 045003           17 GGITQHVGAFVIGMS--------------TGGIKFNFHNCEFYHRTSLFF--FVQ-LRNFVIVLRK   65 (93)
Q Consensus        17 GGITQhIGA~~V~~~--------------~~~~~itFiDTPGHeAFs~f~--~mR-~RGa~iv~~~   65 (93)
                      -|||-+--|..+-++              +++--|++||.|||-+||+=-  -+| .-||-+||.-
T Consensus        66 R~iTIKStAISl~~e~~~~dl~~~k~~~d~~~FLiNLIDSPGHVDFSSEVTAALRVTDGALVVVDc  131 (842)
T KOG0469|consen   66 RGITIKSTAISLFFEMSDDDLKFIKQEGDGNGFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDC  131 (842)
T ss_pred             cceEeeeeeeeehhhhhHhHHHHhcCCCCCcceeEEeccCCCcccchhhhhheeEeccCcEEEEEc
Confidence            478988888766543              134579999999999998611  122 2477777763

>KOG2485 consensus Conserved ATP/GTP binding protein [General function prediction only]

Probab=85.24  E-value=1  Score=37.55  Aligned_cols=42  Identities=17%  Similarity=0.169  Sum_probs=28.0

Q ss_pred             ChhhHHhh-----cCCc-CcccCcceeeecc-eEEEEcCCCCeeEEEcCCCc
Q 045003            1 MISDALRQ-----TSVV-AKEAGGITQHVGA-FVIGMSTGGIKFNFHNCEFY   45 (93)
Q Consensus         1 sLLD~IR~-----t~Va-~~EaGGITQhIGA-~~V~~~~~~~~itFiDTPGH   45 (93)
                      ||++++|.     ++.| .+---|+||.|+. +.+.   +.+.+..|||||=
T Consensus       158 sLINa~r~~~Lrk~k~a~vG~~pGVT~~V~~~iri~---~rp~vy~iDTPGi  206 (335)
T KOG2485|consen  158 SLINALRNVHLRKKKAARVGAEPGVTRRVSERIRIS---HRPPVYLIDTPGI  206 (335)
T ss_pred             HHHHHHHHHHhhhccceeccCCCCceeeehhheEec---cCCceEEecCCCc
Confidence            46677663     2222 2233479999998 6665   4677999999993

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=83.84  E-value=1.7  Score=32.88  Aligned_cols=33  Identities=0%  Similarity=-0.193  Sum_probs=20.6

Q ss_pred             EEcCCCCeeEEEcCCCcccccCchhhhhcccEe
Q 045003           29 GMSTGGIKFNFHNCEFYHRTSLFFFVQLRNFVI   61 (93)
Q Consensus        29 ~~~~~~~~itFiDTPGHeAFs~f~~mR~RGa~i   61 (93)
                      ..++....+.+.||||.+.|..+..+--+++.+
T Consensus        55 ~~~~~~v~l~iwDTaG~e~~~~~~~~~~~~ad~   87 (232)
T cd04174          55 ETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDA   87 (232)
T ss_pred             EECCEEEEEEEEeCCCchhhHHHHHHHcCCCcE
Confidence            333345578899999999987644332244433

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.

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=83.18  E-value=1.9  Score=34.24  Aligned_cols=64  Identities=9%  Similarity=0.131  Sum_probs=34.2

Q ss_pred             ChhhHHhhcC--CcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC--------chhh--hhcccEeEEeccc
Q 045003            1 MISDALRQTS--VVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL--------FFFV--QLRNFVIVLRKNN   67 (93)
Q Consensus         1 sLLD~IR~t~--Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~--------f~~m--R~RGa~iv~~~~~   67 (93)
                      +||-+|.+.+  |+..+.=-+..++|..+  +. +...+++.||||......        |++-  |++.+..|+.-.+
T Consensus       172 TLl~~lt~~~~~va~y~fTT~~p~ig~v~--~~-~~~~~~i~D~PGli~~a~~~~gLg~~flrhierad~ll~VvD~s~  247 (329)
T TIGR02729       172 TLISAVSAAKPKIADYPFTTLVPNLGVVR--VD-DGRSFVIADIPGLIEGASEGAGLGHRFLKHIERTRVLLHLIDISP  247 (329)
T ss_pred             HHHHHHhcCCccccCCCCCccCCEEEEEE--eC-CceEEEEEeCCCcccCCcccccHHHHHHHHHHhhCEEEEEEcCcc
Confidence            3666776543  33333222334555543  32 347899999999742211        1111  4667777777543

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.

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=82.90  E-value=1.7  Score=35.45  Aligned_cols=44  Identities=9%  Similarity=-0.093  Sum_probs=26.7

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY   45 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH   45 (93)
                      +||-+|-+.++.-...=+.|.+.--..+... +...++|+||||.
T Consensus       174 TLln~Lt~~k~~vs~~p~TT~~p~~Giv~~~-~~~~i~~vDtPGi  217 (390)
T PRK12298        174 TFIRAVSAAKPKVADYPFTTLVPNLGVVRVD-DERSFVVADIPGL  217 (390)
T ss_pred             HHHHHHhCCcccccCCCCCccCcEEEEEEeC-CCcEEEEEeCCCc
Confidence            3666666544332333356666555555553 3467999999995

>cd01892 Miro2 Miro2 subfamily

Probab=82.22  E-value=3.1  Score=28.49  Aligned_cols=25  Identities=4%  Similarity=-0.087  Sum_probs=16.4

Q ss_pred             EEEEcCCCCeeEEEcCCCcccccCc
Q 045003           27 VIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        27 ~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      .+..++....+.+.||+|.+.|..+
T Consensus        46 ~~~~~~~~~~l~~~d~~g~~~~~~~   70 (169)
T cd01892          46 TVEVYGQEKYLILREVGEDEVAILL   70 (169)
T ss_pred             EEEECCeEEEEEEEecCCccccccc
Confidence            3444433356778899999887653

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.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=82.07  E-value=1.6  Score=37.80  Aligned_cols=43  Identities=14%  Similarity=0.256  Sum_probs=27.3

Q ss_pred             ChhhHHhhcC--CcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcc
Q 045003            1 MISDALRQTS--VVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYH   46 (93)
Q Consensus         1 sLLD~IR~t~--Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHe   46 (93)
                      +|+.+|-+..  ++.. .-|+|++.-...+..  ++..+.++||||.+
T Consensus       290 SL~n~l~~~~~~iv~~-~pGvT~d~~~~~~~~--~~~~~~liDT~G~~  334 (712)
T PRK09518        290 TLVNRILGRREAVVED-TPGVTRDRVSYDAEW--AGTDFKLVDTGGWE  334 (712)
T ss_pred             HHHHHHhCCCceeecC-CCCeeEEEEEEEEEE--CCEEEEEEeCCCcC
Confidence            3566665543  2333 457888764444444  36789999999976

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=81.92  E-value=2  Score=32.16  Aligned_cols=24  Identities=8%  Similarity=-0.033  Sum_probs=17.1

Q ss_pred             EEcCCCCeeEEEcCCCcccccCch
Q 045003           29 GMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus        29 ~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      ..++....+.+.||||.+.|..+.
T Consensus        43 ~~~~~~v~L~iwDt~G~e~~~~l~   66 (222)
T cd04173          43 EIDKRRIELNMWDTSGSSYYDNVR   66 (222)
T ss_pred             EECCEEEEEEEEeCCCcHHHHHHh
Confidence            333344578889999999987643

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

>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=81.73  E-value=2.2  Score=31.78  Aligned_cols=45  Identities=13%  Similarity=-0.034  Sum_probs=25.8

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCccc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHR   47 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeA   47 (93)
                      +|+.+|.+........-+-|...-.-.+.+  ++..+.++||||+..
T Consensus        15 tLl~~Ltg~~~~v~~~~~tT~~~~~g~~~~--~~~~i~l~DtpG~~~   59 (233)
T cd01896          15 TLLSKLTNTKSEVAAYEFTTLTCVPGVLEY--KGAKIQLLDLPGIIE   59 (233)
T ss_pred             HHHHHHHCCCccccCCCCccccceEEEEEE--CCeEEEEEECCCccc
Confidence            366777665433333334443332233344  367899999999853

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.

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=81.36  E-value=3.2  Score=29.44  Aligned_cols=18  Identities=22%  Similarity=0.150  Sum_probs=14.7

Q ss_pred             CCCeeEEEcCCCcccccC
Q 045003           33 GGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~   50 (93)
                      +...+.+.||||++.|..
T Consensus        56 ~~i~i~~~Dt~g~~~~~~   73 (215)
T PTZ00132         56 GPICFNVWDTAGQEKFGG   73 (215)
T ss_pred             eEEEEEEEECCCchhhhh
Confidence            345788999999998865

>cd04148 RGK RGK subfamily

Probab=81.14  E-value=2.7  Score=30.64  Aligned_cols=21  Identities=0%  Similarity=-0.178  Sum_probs=14.9

Q ss_pred             EEEEcCCCCeeEEEcCCCccc
Q 045003           27 VIGMSTGGIKFNFHNCEFYHR   47 (93)
Q Consensus        27 ~V~~~~~~~~itFiDTPGHeA   47 (93)
                      ++..++....+.|+||||++.
T Consensus        42 ~i~~~~~~~~l~i~Dt~G~~~   62 (221)
T cd04148          42 TVSVDGEESTLVVIDHWEQEM   62 (221)
T ss_pred             EEEECCEEEEEEEEeCCCcch
Confidence            344433456799999999983

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

>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another

Probab=80.45  E-value=1.2  Score=29.78  Aligned_cols=15  Identities=0%  Similarity=-0.239  Sum_probs=12.3

Q ss_pred             CCCeeEEEcCCCccc
Q 045003           33 GGIKFNFHNCEFYHR   47 (93)
Q Consensus        33 ~~~~itFiDTPGHeA   47 (93)
                      ....++|+||||=..
T Consensus        99 ~~~~~~lvDtPG~~~  113 (168)
T PF00350_consen   99 LLRNLTLVDTPGLNS  113 (168)
T ss_dssp             TSCSEEEEEEEEBHS
T ss_pred             cccceEEEeCCcccc
Confidence            467899999999854

Dynamins are large GTPases that belong to a protein superfamily [] that, in eukaryotic cells, includes classical dynamins, dynamin-like proteins, OPA1, Mx proteins, mitofusins and guanylate-binding proteins/atlastins [, , , ], and are involved in the scission of a wide range of vesicles and organelles. They play a role in many processes including budding of transport vesicles, division of organelles, cytokinesis and pathogen resistance. The minimal distinguishing architectural features that are common to all dynamins and are distinct from other GTPases are the structure of the large GTPase domain (300 amino acids) and the presence of two additional domains; the middle domain and the GTPase effector domain (GED), which are involved in oligomerization and regulation of the GTPase activity. This entry represents the GTPase domain, containing the GTP-binding motifs that are needed for guanine-nucleotide binding and hydrolysis. The conservation of these motifs is absolute except for the the final motif in guanylate-binding proteins. The GTPase catalytic activity can be stimulated by oligomerisation of the protein, which is mediated by interactions between the GTPase domain, the middle domain and the GED.; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 1JWY_B 1JX2_B 3ZVR_A 2AKA_B 3L43_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D ....

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	93
3izy_P	537	Mammalian Mitochondrial Translation Initiation Fact		9e-06
2lkc_A	178	Free B.St If2-G2 Length = 178		5e-04

>pdb|3IZY|P Chain P, Mammalian Mitochondrial Translation Initiation Factor 2 Length = 537

Iteration: 1
 Score = 45.4 bits (106), Expect = 9e-06,   Method: Composition-based stats.
 Identities = 18/30 (60%), Positives = 24/30 (80%)
Query: 4  DALRQTSVVAKEAGGITQHVGAFVIGMSTG 33
          D LR+T V A EAGGITQH+GAF++ + +G
Sbjct: 22 DKLRKTQVAAMEAGGITQHIGAFLVSLPSG 51

>pdb|2LKC|A Chain A, Free B.St If2-G2 Length = 178

Iteration: 1
 Score = 39.3 bits (90), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 16/34 (47%), Positives = 24/34 (70%)
Query: 4  DALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKF 37
          DA+R + V  +EAGGITQH+GA+ + ++   I F
Sbjct: 26 DAIRHSKVTEQEAGGITQHIGAYQVTVNDKKITF 59

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	93
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	4e-13
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	3e-11
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	4e-11
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	4e-10

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus} Length = 537

 Score = 62.2 bits (152), Expect = 4e-13
 Identities = 18/30 (60%), Positives = 24/30 (80%)

Query: 4  DALRQTSVVAKEAGGITQHVGAFVIGMSTG 33
          D LR+T V A EAGGITQH+GAF++ + +G
Sbjct: 22 DKLRKTQVAAMEAGGITQHIGAFLVSLPSG 51

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A* Length = 178

 Score = 55.4 bits (134), Expect = 3e-11
 Identities = 16/34 (47%), Positives = 24/34 (70%)

Query: 4  DALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKF 37
          DA+R + V  +EAGGITQH+GA+ + ++   I F
Sbjct: 26 DAIRHSKVTEQEAGGITQHIGAYQVTVNDKKITF 59

>1zo1_I IF2, translation initiation factor 2; E. coli, ribosome, initiation of protein synthesis, cryo-eletron microscopy, translation/RNA complex; 13.80A {Escherichia coli} Length = 501

 Score = 56.4 bits (137), Expect = 4e-11
 Identities = 16/34 (47%), Positives = 22/34 (64%)

Query: 4  DALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKF 37
          + +R T V + EAGGITQH+GA+ +    G I F
Sbjct: 22 EYIRSTKVASGEAGGITQHIGAYHVETENGMITF 55

>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* Length = 594

 Score = 53.8 bits (130), Expect = 4e-10
 Identities = 13/22 (59%), Positives = 19/22 (86%)

Query: 4  DALRQTSVVAKEAGGITQHVGA 25
          D +R ++V ++EAGGITQH+GA
Sbjct: 23 DHIRGSAVASREAGGITQHIGA 44

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	93
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.15
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.09
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	98.98
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	98.14
1wb1_A	482	Translation elongation factor SELB; selenocysteine	98.03
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	97.93
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	97.89
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	97.8
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	97.79
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	97.78
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	97.7
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	97.7
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	97.67
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	97.63
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	97.56
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	97.51
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	97.5
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	97.47
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	97.46
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	97.45
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	97.43
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	97.41
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	97.41
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	97.37
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	97.36
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	97.36
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	97.35
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	97.34
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	97.33
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	97.31
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	97.31
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	97.29
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	97.29
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	97.28
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	97.28
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	97.25
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	97.25
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	97.24
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	97.2
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	97.19
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	97.19
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	97.11
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	97.11
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	97.09
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	97.08
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	97.05
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	97.05
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	97.04
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	97.03
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	97.03
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	96.99
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	96.97
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	96.95
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	96.95
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	96.92
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	96.92
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	96.91
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	96.88
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	96.86
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	96.84
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	96.84
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	96.82
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	96.81
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	96.81
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	96.8
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	96.75
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	96.75
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	96.74
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	96.74
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	96.72
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	96.71
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	96.69
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	96.68
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	96.67
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	96.66
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	96.66
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	96.65
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	96.64
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	96.64
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	96.63
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	96.63
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	96.61
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	96.61
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	96.6
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	96.59
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	96.58
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	96.52
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	96.48
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	96.48
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	96.45
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	96.42
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	96.39
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	96.37
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	96.36
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	96.24
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	96.23
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	96.21
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	96.2
2fh5_B	214	SR-beta, signal recognition particle receptor beta	96.2
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	96.19
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	96.14
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	96.12
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	96.12
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	96.08
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	96.07
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	96.05
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	96.02
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	96.02
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	96.01
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	95.95
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	95.94
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	95.93
3llu_A	196	RAS-related GTP-binding protein C; structural geno	95.9
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	95.88
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	95.88
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	95.86
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	95.85
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	95.83
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	95.76
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	95.73
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	95.65
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	95.63
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	95.62
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	95.56
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	95.53
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	95.52
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	95.5
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	95.46
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	95.45
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	95.44
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	95.44
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	95.34
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	94.26
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	95.19
2wji_A	165	Ferrous iron transport protein B homolog; membrane	95.16
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	95.14
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	95.07
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	94.99
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	94.97
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	94.81
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	94.68
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	94.58
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	94.44
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	94.32
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	94.29
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	94.27
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	94.2
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	94.03
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	93.97
2ged_A	193	SR-beta, signal recognition particle receptor beta	93.62
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	93.56
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	93.37
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	93.04
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	93.0
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	92.86
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	92.67
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	92.55
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	92.24
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	92.15
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	92.1
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	91.58
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	91.17
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	90.79
1nrj_B	218	SR-beta, signal recognition particle receptor beta	90.77
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	89.68
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	89.49
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	89.31
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	89.3
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	88.31
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	86.83
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	86.42
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	86.12
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	85.89
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	85.84
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	82.3
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	81.5
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	81.25
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	80.37

>1zo1_I IF2, translation initiation factor 2; E. coli, ribosome, initiation of protein synthesis, cryo-eletron microscopy, translation/RNA complex; 13.80A {Escherichia coli}

Probab=99.15  E-value=2.6e-12  Score=104.73  Aligned_cols=54  Identities=28%  Similarity=0.375  Sum_probs=47.6

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhhhccc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNF   59 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR~RGa   59 (93)
                      +|+|+|+++++..+|++||||+++++.++++  +..++|+|||||++|..   ||.||+
T Consensus        19 TLl~~L~~~~v~~~e~~GIT~~i~~~~v~~~--~~~i~~iDTPGhe~f~~---~~~~~~   72 (501)
T 1zo1_I           19 SLLEYIRSTKVASGEAGGITQHIGAYHVETE--NGMITFLDTPGHAAFTS---MRARGA   72 (501)
T ss_dssp             HHHHHHHHHHHSBTTBCCCCCCSSCCCCCTT--SSCCCEECCCTTTCCTT---SBCSSS
T ss_pred             HHHHHHHcCCCccccCCCeeEeEEEEEEEEC--CEEEEEEECCCcHHHHH---HHHHHH
Confidence            5899999999999999999999999998874  67899999999999987   566653

>1g7s_A Translation initiation factor IF2/EIF5B; translational GTPase; HET: GDP; 2.00A {Methanothermobacterthermautotrophicus} SCOP: b.43.3.1 b.43.3.1 c.20.1.1 c.37.1.8 PDB: 1g7r_A* 1g7t_A*

Probab=99.09  E-value=2.7e-11  Score=99.92  Aligned_cols=55  Identities=31%  Similarity=0.379  Sum_probs=42.0

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcC----------------CCCeeEEEcCCCcccccCchhhhhcc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMST----------------GGIKFNFHNCEFYHRTSLFFFVQLRN   58 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~----------------~~~~itFiDTPGHeAFs~f~~mR~RG   58 (93)
                      +|+++|+++.++..|+|||||++|++.++...                +...++|+|||||++|+.   |+.|+
T Consensus        20 TLl~~L~~~~v~~~e~ggiT~~ig~~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTPGhe~F~~---~~~r~   90 (594)
T 1g7s_A           20 TLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAFTT---LRKRG   90 (594)
T ss_dssp             HHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCCTT---SBCSS
T ss_pred             HHHHHHhcccCccccCCceecccCeEEEeechhhhhccccccccccccccCCEEEEECCCcHHHHH---HHHHH
Confidence            58999999999999999999999999997530                122699999999999987   56554

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=98.98  E-value=2.6e-11  Score=99.61  Aligned_cols=54  Identities=41%  Similarity=0.594  Sum_probs=47.4

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhhhcc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLRN   58 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR~RG   58 (93)
                      +||++|++++++..|.+||||+++++.+..+ ++.+++|+|||||++|..   |+.|+
T Consensus        19 SLl~~L~~~~~~~~~~~giT~~i~~~~v~~~-~g~~i~~iDTPGhe~f~~---~~~~~   72 (537)
T 3izy_P           19 TLLDKLRKTQVAAMEAGGITQHIGAFLVSLP-SGEKITFLDTPGHAAFSA---MRARG   72 (537)
T ss_dssp             HHHHHHHHHHHHHSSSCCBCCCTTSCCBCSS-CSSCCBCEECSSSCCTTT---SBBSS
T ss_pred             HHHHHHhCCCcccccCCceeEEEeEEEEEeC-CCCEEEEEECCChHHHHH---HHHHH
Confidence            5899999999999999999999999999874 467899999999999987   45544

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=98.14  E-value=1.4e-06  Score=56.10  Aligned_cols=49  Identities=33%  Similarity=0.531  Sum_probs=41.8

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      +|+.++.+......+..++|++++...+..+  +..+.++|||||+.|..+
T Consensus        23 sl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~l~Dt~G~~~~~~~   71 (178)
T 2lkc_A           23 TLLDAIRHSKVTEQEAGGITQHIGAYQVTVN--DKKITFLDTPGHEAFTTM   71 (178)
T ss_dssp             HHHHHHHTTCSSCSSCCSSSTTCCCCEEEET--TEEEEESCCCSSSSSSCS
T ss_pred             HHHHHHhCCccccCCCCceeEeeeEEEEEeC--CceEEEEECCCCHHHHHH
Confidence            4778888888888888899999999999884  678999999999998763

>1wb1_A Translation elongation factor SELB; selenocysteine, protein synthesis, selenium, ribosome; HET: GDP DXC; 3.0A {Methanococcus maripaludis} SCOP: b.43.3.1 b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1wb2_A* 1wb3_A*

Probab=98.03  E-value=1.3e-06  Score=69.49  Aligned_cols=48  Identities=13%  Similarity=0.161  Sum_probs=28.6

Q ss_pred             ChhhHHhhcC-------CcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTS-------VVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~-------Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      +|+++|.+..       .......|||++++...+.++  +..++|+|||||+.|..
T Consensus        34 TLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~--~~~i~iiDtPGh~~~~~   88 (482)
T 1wb1_A           34 TLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLE--NYRITLVDAPGHADLIR   88 (482)
T ss_dssp             HHHHHHHTTC--------------------CCCEEEET--TEEEEECCCSSHHHHHH
T ss_pred             HHHHHHHCCCcccccccccccccCccEEecceEEEEEC--CEEEEEEECCChHHHHH
Confidence            3677777655       334456789999999998884  67999999999999854

>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=97.93  E-value=3.2e-06  Score=64.83  Aligned_cols=50  Identities=16%  Similarity=0.100  Sum_probs=33.5

Q ss_pred             ChhhHHhhcCC--cCcc-cCcceeeecceEEEEcC-------------C--------CCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSV--VAKE-AGGITQHVGAFVIGMST-------------G--------GIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~V--a~~E-aGGITQhIGA~~V~~~~-------------~--------~~~itFiDTPGHeAFs~   50 (93)
                      +|+++|.+...  ...| ..|||++++........             +        ...++|+|||||+.|..
T Consensus        25 TLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~iiDtPGh~~f~~   98 (410)
T 1kk1_A           25 TLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFIDAPGHEALMT   98 (410)
T ss_dssp             HHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEEEEECSSHHHHHH
T ss_pred             HHHHHHhCCccccChhhhcCCcEEEEeeeeeecccccccccccccccccccCcccccccEEEEEECCChHHHHH
Confidence            47788875432  2233 48999999865554421             0        15799999999999864

>1s0u_A EIF-2-gamma, translation initiation factor 2 gamma subunit; GTPase, EF-1A, tRNA; 2.40A {Methanocaldococcus jannaschii} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=97.89  E-value=4e-06  Score=64.39  Aligned_cols=50  Identities=14%  Similarity=0.075  Sum_probs=31.2

Q ss_pred             ChhhHHhhcCC--cCcc-cCcceeeecceEEEEcC-------------C--------CCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSV--VAKE-AGGITQHVGAFVIGMST-------------G--------GIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~V--a~~E-aGGITQhIGA~~V~~~~-------------~--------~~~itFiDTPGHeAFs~   50 (93)
                      +|+++|.+...  ...| ..|||++++........             +        ...++|+|||||+.|..
T Consensus        23 TLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~iiDtPGh~~f~~   96 (408)
T 1s0u_A           23 SLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTYTTKPRCPNCLAETEFLRRVSFVDSPGHETLMA   96 (408)
T ss_dssp             HHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTTTCCEESSSBCTTSCCBCEEEEEEEEEECSSHHHHHH
T ss_pred             HHHHHHhCCccccCcccccCCcEEEecccccccccccccccccccccccccCcccccccEEEEEECCCHHHHHH
Confidence            47888875432  2223 47999999865544310             0        15799999999999864

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=97.80  E-value=4e-06  Score=64.81  Aligned_cols=45  Identities=13%  Similarity=0.158  Sum_probs=33.2

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhh-----hcccEeEEe
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQ-----LRNFVIVLR   64 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR-----~RGa~iv~~   64 (93)
                      .-|||.+++.+.+..  ++..++|+|||||+.|..  .|.     ..++.+|+.
T Consensus        43 ~~giTi~~~~~~~~~--~~~~i~iiDtPGh~~f~~--~~~~~~~~aD~ailVvd   92 (370)
T 2elf_A           43 KKGTSSDITMYNNDK--EGRNMVFVDAHSYPKTLK--SLITALNISDIAVLCIP   92 (370)
T ss_dssp             EEEEESSSEEEEECS--SSSEEEEEECTTTTTCHH--HHHHHHHTCSEEEEEEC
T ss_pred             hCCEEEEeeEEEEec--CCeEEEEEECCChHHHHH--HHHHHHHHCCEEEEEEc
Confidence            458999999887766  477899999999999953  221     335566666

>1r5b_A Eukaryotic peptide chain release factor GTP-bindi subunit; translation termination, peptide release, GTPase, translatio; 2.35A {Schizosaccharomyces pombe} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1r5n_A* 1r5o_A* 3e20_A

Probab=97.79  E-value=6.9e-06  Score=64.83  Aligned_cols=33  Identities=15%  Similarity=0.080  Sum_probs=15.7

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      ..|||++++...+..+  +.+++|+|||||+.|..
T Consensus       104 ~~giTi~~~~~~~~~~--~~~~~iiDtPGh~~f~~  136 (467)
T 1r5b_A          104 EKGKTVEVGRAYFETE--HRRFSLLDAPGHKGYVT  136 (467)
T ss_dssp             ---------CCEEECS--SEEEEECCCCC------
T ss_pred             hcCceEEeeeEEEecC--CeEEEEEECCCcHHHHH
Confidence            4699999998888774  78999999999999975

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=97.78  E-value=1.2e-05  Score=65.47  Aligned_cols=33  Identities=12%  Similarity=0.003  Sum_probs=25.8

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      .-|||-.-.+..+.+  ++.+|++||||||.+|+.
T Consensus        83 eRGITI~s~~~~~~~--~~~~iNlIDTPGHvDF~~  115 (548)
T 3vqt_A           83 ERGISVTTSVMQFPY--RDRVVNLLDTPGHQDFSE  115 (548)
T ss_dssp             -----CTTTEEEEEE--TTEEEEEECCCCGGGCSH
T ss_pred             HCCCcEeeceEEEEE--CCEEEEEEeCCCcHHHHH
Confidence            358999999999998  488999999999999986

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=97.70  E-value=1.5e-05  Score=62.47  Aligned_cols=32  Identities=16%  Similarity=0.047  Sum_probs=28.0

Q ss_pred             CcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           17 GGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        17 GGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      -|||.+++...+..+  +..++|+|||||+.|..
T Consensus        79 ~GiTid~~~~~~~~~--~~~~~iiDTPGh~~f~~  110 (439)
T 3j2k_7           79 KGKTVEVGRAYFETE--KKHFTILDAPGHKSFVP  110 (439)
T ss_pred             cCceEEEeEEEEecC--CeEEEEEECCChHHHHH
Confidence            589999999888874  77999999999999864

>3p26_A Elongation factor 1 alpha-like protein; GTP/GDP binding domain, beta-barrel, translational GTPase, D structural genomics; 2.50A {Saccharomyces cerevisiae} PDB: 3p27_A*

Probab=97.70  E-value=2.3e-05  Score=61.70  Aligned_cols=31  Identities=10%  Similarity=0.023  Sum_probs=27.6

Q ss_pred             cceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           18 GITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        18 GITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      |||.+++.+.+..  ++..++|+|||||+.|..
T Consensus        96 GiTi~~~~~~~~~--~~~~~~iiDTPG~~~f~~  126 (483)
T 3p26_A           96 GVTVSICTSHFST--HRANFTIVDAPGHRDFVP  126 (483)
T ss_dssp             CSSCCCCEEEEEC--SSCEEEEECCCCCGGGHH
T ss_pred             CcceEeeeEEEec--CCceEEEEECCCcHHHHH
Confidence            9999999988877  478999999999999864

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=97.67  E-value=4.5e-06  Score=68.71  Aligned_cols=31  Identities=19%  Similarity=0.063  Sum_probs=28.3

Q ss_pred             cceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           18 GITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        18 GITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      |||.+..+..+.+  ++.+|++||||||.+|+.
T Consensus        52 GITI~s~~~~~~~--~~~~iNlIDTPGH~DF~~   82 (638)
T 3j25_A           52 GITIQTGITSFQW--ENTKVNIIDTPGHMDFLA   82 (638)
T ss_dssp             SSCSSCCCCCCBC--SSCBCCCEECCCSSSTHH
T ss_pred             CCcEEeeeEEEEE--CCEEEEEEECCCcHHHHH
Confidence            8999999999888  488999999999999986

>1zun_B Sulfate adenylate transferase, subunit 1/adenylylsulfate kinase; beta barrel, switch domain, heterodimer, pyrophosphate, G protein; HET: GDP AGS; 2.70A {Pseudomonas syringae PV} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=97.63  E-value=2e-05  Score=61.13  Aligned_cols=32  Identities=19%  Similarity=0.070  Sum_probs=25.5

Q ss_pred             CcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           17 GGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        17 GGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      .|||++++...+..  +..+++|+|||||+.|..
T Consensus        88 rGiTi~~~~~~~~~--~~~~~~iiDtpGh~~f~~  119 (434)
T 1zun_B           88 QGITIDVAYRYFST--AKRKFIIADTPGHEQYTR  119 (434)
T ss_dssp             --CCCCCEEEEEEC--SSEEEEEEECCCSGGGHH
T ss_pred             CCcEEEeeeeEeec--CCceEEEEECCChHHHHH
Confidence            58999998777766  467899999999999964

>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=97.56  E-value=9.3e-05  Score=46.86  Aligned_cols=52  Identities=6%  Similarity=-0.040  Sum_probs=30.1

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      +|+.++.+........-.++.......+..++....+.++|||||+.|..+.
T Consensus        18 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~   69 (170)
T 1g16_A           18 CLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTIT   69 (170)
T ss_dssp             HHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCC
T ss_pred             HHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCChhhhhhH
Confidence            3667776665544444455555555556554334578999999999987643

>1d2e_A Elongation factor TU (EF-TU); G-protein, beta-barrel, RNA binding protein; HET: GDP; 1.94A {Bos taurus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1xb2_A* 2hcj_A* 2hdn_A*

Probab=97.51  E-value=3.9e-05  Score=58.85  Aligned_cols=33  Identities=15%  Similarity=0.145  Sum_probs=26.1

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      ..|||.++....+..  ++..++|+|||||+.|..
T Consensus        49 ~~giTi~~~~~~~~~--~~~~~~iiDtpG~~~f~~   81 (397)
T 1d2e_A           49 ARGITINAAHVEYST--AARHYAHTDCPGHADYVK   81 (397)
T ss_dssp             ETTEEEECEEEEEEC--SSCEEEEEECSSHHHHHH
T ss_pred             hcCcEEEeeeEEecc--CCeEEEEEECCChHHHHH
Confidence            568998886555543  578999999999999864

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=97.50  E-value=0.00013  Score=46.90  Aligned_cols=17  Identities=24%  Similarity=0.288  Sum_probs=14.9

Q ss_pred             CeeEEEcCCCcccccCc
Q 045003           35 IKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        35 ~~itFiDTPGHeAFs~f   51 (93)
                      ..+.|+|||||+.|..+
T Consensus        93 ~~~~i~Dt~G~~~~~~~  109 (208)
T 3clv_A           93 IKFDIWDTAGQERYASI  109 (208)
T ss_dssp             EEEEEEECTTGGGCTTT
T ss_pred             eEEEEEECCCcHHHHHH
Confidence            68999999999998764

>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=97.47  E-value=3.7e-05  Score=60.51  Aligned_cols=32  Identities=9%  Similarity=0.004  Sum_probs=27.5

Q ss_pred             CcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           17 GGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        17 GGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      -|||.+++...+..  ++..++|+|||||+.|..
T Consensus        69 ~GiTi~~~~~~~~~--~~~~~~iiDtPGh~~f~~  100 (458)
T 1f60_A           69 RGITIDIALWKFET--PKYQVTVIDAPGHRDFIK  100 (458)
T ss_dssp             TTCCCSCSCEEEEC--SSEEEEEEECCCCTTHHH
T ss_pred             cCcEEEEEEEEEec--CCceEEEEECCCcHHHHH
Confidence            68999999888776  467899999999999854

>2c78_A Elongation factor TU-A; hydrolase, GTPase, translation elongation factor, protein synthesis, antibiotic, GTP-binding, nucleotide-binding; HET: GNP PUL; 1.4A {Thermus thermophilus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 2y0u_Z* 2y0w_Z* 2y0y_Z* 2y10_Z* 2y12_Z* 2y14_Z* 2y16_Z* 2y18_Z* 2wrn_Z* 2wrq_Z* 2c77_A* 1aip_A 1exm_A* 1ha3_A* 2xqd_Z* 3fic_Z* 4abr_Z* 1b23_P* 1ob5_A* 1ttt_A* ...

Probab=97.46  E-value=4.9e-05  Score=58.11  Aligned_cols=33  Identities=15%  Similarity=0.103  Sum_probs=25.9

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      ..|||.++....+..  ++..++|+|||||+.|..
T Consensus        58 ~~GiTi~~~~~~~~~--~~~~~~iiDtpG~~~f~~   90 (405)
T 2c78_A           58 ARGITINTAHVEYET--AKRHYSHVDCPGHADYIK   90 (405)
T ss_dssp             HHTCCCSCEEEEEEC--SSCEEEEEECCCSGGGHH
T ss_pred             HcCCCEEeeeeEecc--CCeEEEEEECCChHHHHH
Confidence            468998886555544  578999999999999864

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=97.45  E-value=0.00012  Score=46.79  Aligned_cols=52  Identities=6%  Similarity=-0.019  Sum_probs=32.9

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      +|+.++.+........-.+|-+.....+...+....+.++|||||+.|..+.
T Consensus        24 sl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   75 (181)
T 3tw8_B           24 SLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTIT   75 (181)
T ss_dssp             HHHHHHCSCC---CCTTTBSEEEEEEEEEETTEEEEEEEEEETTGGGCSSCC
T ss_pred             HHHHHHhcCCCCCccCCCceeEEEEEEEEECCEEEEEEEEcCCCchhhhhhH
Confidence            3666676655554445556666665666664333679999999999987643

>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=97.43  E-value=0.00015  Score=47.91  Aligned_cols=51  Identities=4%  Similarity=-0.053  Sum_probs=34.2

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      +|+.++.+..........++.+.....+..++....+.++|||||+.|..+
T Consensus        23 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~   73 (207)
T 1vg8_A           23 SLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSL   73 (207)
T ss_dssp             HHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCS
T ss_pred             HHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHh
Confidence            366777666655555555555555556665433457999999999998763

>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=97.41  E-value=0.00016  Score=46.54  Aligned_cols=51  Identities=10%  Similarity=0.076  Sum_probs=32.1

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      +|+.++.+........-.++.......+...+....+.++|||||+.|..+
T Consensus        27 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~   77 (181)
T 2efe_B           27 SLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSL   77 (181)
T ss_dssp             HHHHHHHHCCCTTTSCCCSCCSEEEEEEEETTEEEEEEEEECCCSGGGGGG
T ss_pred             HHHHHHHcCCCCCcCCCCceeEEEEEEEEECCEEEEEEEEeCCCChhhhhh
Confidence            356666665555444444444444445555433558999999999988753

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=97.41  E-value=7.6e-05  Score=61.90  Aligned_cols=35  Identities=17%  Similarity=0.150  Sum_probs=21.9

Q ss_pred             cCcceeeecceEEEEcC---CCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMST---GGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~---~~~~itFiDTPGHeAFs~   50 (93)
                      .-|||.+..+..+.+..   ....++|+|||||+.|+.
T Consensus        49 erGiTi~~~~~~~~~~~~~g~~~~l~liDTPGh~dF~~   86 (599)
T 3cb4_D           49 ERGITIKAQSVTLDYKASDGETYQLNFIDTPGHVDFSY   86 (599)
T ss_dssp             --------CEEEEEEECTTSCEEEEEEEECCCCGGGHH
T ss_pred             cccceeeeeEEEEEEecCCCCeEEEEEEECCCchHHHH
Confidence            36899999999888752   235899999999999974

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=97.37  E-value=5.8e-05  Score=62.20  Aligned_cols=32  Identities=9%  Similarity=0.012  Sum_probs=28.2

Q ss_pred             CcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           17 GGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        17 GGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      .|||.++....+..  ++..++|+|||||+.|..
T Consensus       229 ~GiTid~~~~~~~~--~~~~~~iiDTPG~e~f~~  260 (611)
T 3izq_1          229 RGVTVSICTSHFST--HRANFTIVDAPGHRDFVP  260 (611)
T ss_dssp             TTTCCSCSCCEEEC--SSCEEEEEECCSSSCHHH
T ss_pred             CCeeEeeeeEEEec--CCceEEEEECCCCcccHH
Confidence            59999999999887  478999999999999864

>1jny_A EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-1; GTPase, alpha/beta structure, protein biosynthesis, translation; HET: GDP; 1.80A {Sulfolobus solfataricus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1skq_A* 3agj_A*

Probab=97.36  E-value=5.7e-05  Score=58.71  Aligned_cols=33  Identities=9%  Similarity=-0.018  Sum_probs=19.4

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      ..|||.++....+..  ++.+++|+|||||+.|..
T Consensus        67 ~~giTi~~~~~~~~~--~~~~~~iiDtpG~~~f~~   99 (435)
T 1jny_A           67 ERGVTINLTFMRFET--KKYFFTIIDAPGHRDFVK   99 (435)
T ss_dssp             ----------CEEEC--SSCEEEECCCSSSTTHHH
T ss_pred             hcCceeEeeEEEEec--CCeEEEEEECCCcHHHHH
Confidence            358999998877776  478999999999999964

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=97.36  E-value=1.3e-05  Score=65.74  Aligned_cols=33  Identities=12%  Similarity=0.047  Sum_probs=11.0

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      ..|||++++...+...  +..++|+|||||+.|..
T Consensus       238 ~~GiTid~~~~~~~~~--~~~i~iiDTPGh~~f~~  270 (592)
T 3mca_A          238 ARGVTMDVASTTFESD--KKIYEIGDAPGHRDFIS  270 (592)
T ss_dssp             -----------------------CCEEESSSEEEE
T ss_pred             cCCeeEEeeEEEEEeC--CeEEEEEECCChHHHHH
Confidence            3489999999888874  78999999999999865

>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=97.35  E-value=0.00023  Score=47.49  Aligned_cols=51  Identities=6%  Similarity=0.001  Sum_probs=32.8

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      +|+.++.+........-.++.......+..++....+.++|||||+.|..+
T Consensus        23 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~   73 (206)
T 2bcg_Y           23 CLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTI   73 (206)
T ss_dssp             HHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCC
T ss_pred             HHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEeCCChHHHHHH
Confidence            366777665555444445554554455555433458999999999988764

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=97.34  E-value=0.00016  Score=51.82  Aligned_cols=48  Identities=13%  Similarity=0.016  Sum_probs=33.6

Q ss_pred             ChhhHHhhcCC-cCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSV-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      +|+.+|.+..+ ...+.-+.|+..-...+..  ++..++++|||||+.|..
T Consensus        51 SLin~l~~~~~~~~~~~~~~t~~~~~~~~~~--~~~~l~liDTpG~~~~~~   99 (262)
T 3def_A           51 STVNSLIGEQVVRVSPFQAEGLRPVMVSRTM--GGFTINIIDTPGLVEAGY   99 (262)
T ss_dssp             HHHHHHHTSCCSCCCSSCC-CCCCEEEEEEE--TTEEEEEEECCCSEETTE
T ss_pred             HHHHHHhCCCCcccCCCCCcceeeEEEEEEE--CCeeEEEEECCCCCCccc
Confidence            36677776655 2344566777766666666  477999999999999865

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=97.33  E-value=0.00024  Score=47.10  Aligned_cols=51  Identities=6%  Similarity=-0.020  Sum_probs=32.3

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      +|+.++.+........-.++.......+..++....+.|+|||||+.|..+
T Consensus        35 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~   85 (213)
T 3cph_A           35 CLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTI   85 (213)
T ss_dssp             HHHHHHHHCCCCCSSSCCCSCCEEEEEEEETTEEEEEEEECCTTGGGGTCC
T ss_pred             HHHHHHHhCCCCcccCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHH
Confidence            366677665554444444554454555555422357999999999998763

>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=97.31  E-value=0.00021  Score=45.56  Aligned_cols=51  Identities=6%  Similarity=-0.032  Sum_probs=32.9

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      +|+.++.+..........++.+.....+..++....+.++||||++.|..+
T Consensus        29 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~   79 (179)
T 2y8e_A           29 SLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSL   79 (179)
T ss_dssp             HHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGG
T ss_pred             HHHHHHHcCCCCCCCCCceeeEEEEEEEEECCeEEEEEEEECCCcHHHHHH
Confidence            366666655555444455555555555655433458999999999988763

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=97.31  E-value=0.00029  Score=44.47  Aligned_cols=51  Identities=4%  Similarity=-0.069  Sum_probs=29.3

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      +|+.++.+........-.++.+.....+..++....+.++||||++.|..+
T Consensus        20 sl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~   70 (168)
T 1z2a_A           20 SMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAI   70 (168)
T ss_dssp             HHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCC
T ss_pred             HHHHHHHcCCCCCCCCCceEEEEEEEEEEECCEEEEEEEEcCCCcHhHHHH
Confidence            356666654443332222333333444555433458999999999988764

>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=97.29  E-value=0.00016  Score=60.31  Aligned_cols=35  Identities=17%  Similarity=-0.007  Sum_probs=28.2

Q ss_pred             cCcceeeecceEEEEcC-----CCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMST-----GGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~-----~~~~itFiDTPGHeAFs~   50 (93)
                      ..|||.+..+..+.+.+     +...++++|||||+.|+.
T Consensus        58 ~rgiTi~~~~~~~~~~~~~~~~~~~~i~liDTPG~~df~~   97 (704)
T 2rdo_7           58 ERGITITSAATTAFWSGMAKQYEPHRINIIDTPGHVDFTI   97 (704)
T ss_pred             hcCceeeeceEEEEECCccccCCceeEEEEeCCCccchHH
Confidence            46899999888888742     127899999999999965

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=97.29  E-value=0.00011  Score=60.92  Aligned_cols=35  Identities=14%  Similarity=0.022  Sum_probs=23.5

Q ss_pred             cCcceeeecceEEEEcC-----CCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMST-----GGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~-----~~~~itFiDTPGHeAFs~   50 (93)
                      .-|||-+-.+..+.+.+     ++..|++||||||.+|+.
T Consensus        61 eRGITI~s~~~s~~~~~~~~~~~~~~iNlIDTPGHvDF~~  100 (709)
T 4fn5_A           61 ERGITITSAAVTTFWKGSRGQYDNYRVNVIDTPGHVDFTI  100 (709)
T ss_dssp             -------CCEEEEEECCTTSCSCCEEEEEECCCSCTTCHH
T ss_pred             HcCCeEEeeeEEEEeccCcCCCCCEEEEEEeCCCCcccHH
Confidence            35899999999998853     245899999999999975

>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=97.28  E-value=0.00021  Score=45.34  Aligned_cols=50  Identities=4%  Similarity=-0.053  Sum_probs=26.3

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      +|+.++.+........-.++.......+..++....+.++|||||+.|..
T Consensus        21 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~   70 (170)
T 1z08_A           21 SLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHA   70 (170)
T ss_dssp             HHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-----
T ss_pred             HHHHHHHcCCCCcCCCCccceEEEEEEEEECCEEEEEEEEECCCcHhhhh
Confidence            35666666555444444444444444555543334788999999998865

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=97.28  E-value=0.00027  Score=44.52  Aligned_cols=50  Identities=10%  Similarity=0.060  Sum_probs=28.3

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      |+.++.+........-.++.......+..++....+.++|||||+.|..+
T Consensus        19 li~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~   68 (170)
T 1ek0_A           19 IVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASL   68 (170)
T ss_dssp             HHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGG
T ss_pred             HHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCChhhhhh
Confidence            56666654443332222333333334444333458999999999988763

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=97.25  E-value=0.00032  Score=45.80  Aligned_cols=52  Identities=10%  Similarity=-0.005  Sum_probs=34.2

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      +|+.++.+........-.+|-......+..++....+.|+|||||+.|..+.
T Consensus        31 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   82 (196)
T 3tkl_A           31 CLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTIT   82 (196)
T ss_dssp             HHHHHHHHSCCCSCCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGCTTH
T ss_pred             HHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEECCCcHhhhhhH
Confidence            3666776655555545556655555566664333579999999999987643

>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=97.25  E-value=0.00031  Score=44.26  Aligned_cols=49  Identities=8%  Similarity=0.013  Sum_probs=27.8

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      |+.++.+........--++.......+..+.....+.++|||||+.|..
T Consensus        22 li~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~   70 (170)
T 1r2q_A           22 LVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHS   70 (170)
T ss_dssp             HHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGG
T ss_pred             HHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHhhh
Confidence            5666665444333222222223233444443356899999999998865

>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=97.24  E-value=0.0002  Score=46.40  Aligned_cols=50  Identities=10%  Similarity=0.080  Sum_probs=33.2

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      +|+.++.+..........++.......+..++....+.++|||||+.|..
T Consensus        25 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~   74 (186)
T 2bme_A           25 CLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRS   74 (186)
T ss_dssp             HHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHH
T ss_pred             HHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHHHH
Confidence            36667766655555555566555555666643335899999999998864

>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=97.20  E-value=0.00031  Score=46.48  Aligned_cols=51  Identities=10%  Similarity=0.030  Sum_probs=28.9

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      +|+.++.+........-.++.......+..++....+.++|||||+.|..+
T Consensus        36 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~   86 (191)
T 2a5j_A           36 CLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSI   86 (191)
T ss_dssp             HHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCC
T ss_pred             HHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCchhhhhh
Confidence            356666655544433333343444444555433458999999999998764

>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=97.19  E-value=0.00026  Score=45.14  Aligned_cols=50  Identities=16%  Similarity=0.151  Sum_probs=31.0

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      +|+.++.+..........++..+....+..++....+.++||||++.|..
T Consensus        30 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~   79 (179)
T 1z0f_A           30 CLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRA   79 (179)
T ss_dssp             HHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCH
T ss_pred             HHHHHHHcCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCChHhhh
Confidence            36667766655544444444344444555543345799999999998765

>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=97.19  E-value=0.00044  Score=44.93  Aligned_cols=51  Identities=10%  Similarity=0.006  Sum_probs=29.6

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      |+.++.+........-.++.......+..++....+.++|||||+.|..+.
T Consensus        31 li~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   81 (195)
T 1x3s_A           31 LLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLT   81 (195)
T ss_dssp             HHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSH
T ss_pred             HHHHHHcCCCCccCCCccceEEEEEEEEECCeEEEEEEEeCCCchhhhhhh
Confidence            566666554443333333333333344444345679999999999987643

>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=97.11  E-value=0.00051  Score=43.40  Aligned_cols=48  Identities=13%  Similarity=-0.012  Sum_probs=27.0

Q ss_pred             hhhHHhhcCCcCc--ccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003            2 ISDALRQTSVVAK--EAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         2 LLD~IR~t~Va~~--EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      |+.++.+......  ..-|.+..  ...+...+....+.++||||++.|..+
T Consensus        22 li~~l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~Dt~G~~~~~~~   71 (170)
T 1z0j_A           22 IMWRFVEDSFDPNINPTIGASFM--TKTVQYQNELHKFLIWDTAGLERFRAL   71 (170)
T ss_dssp             HHHHHHHSCCCTTCCCCCSEEEE--EEEEEETTEEEEEEEEEECCSGGGGGG
T ss_pred             HHHHHHcCCCCCCCCCceeEEEE--EEEEEECCeEEEEEEEcCCCchhhhcc
Confidence            5556655443222  12233322  233444334568999999999988764

>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=97.11  E-value=0.00069  Score=44.55  Aligned_cols=50  Identities=8%  Similarity=-0.059  Sum_probs=28.1

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      |+.++.+........-.++.......+...+....+.++|||||+.|..+
T Consensus        38 li~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~   87 (189)
T 2gf9_A           38 FLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTI   87 (189)
T ss_dssp             HHHHHHHSCCCCSCCCCCCCEEEEEEEEETTEEEEEEEEECCSCCSSCCS
T ss_pred             HHHHHHcCCCCCCcCCceeEEEEEEEEEECCeEEEEEEEeCCCcHHHhhh
Confidence            56666655443322222222233334444333558999999999988763

>2ywe_A GTP-binding protein LEPA; G domain, beta-barrel, ferredoxin-like domain, structural GE NPPSFA; 2.05A {Aquifex aeolicus} PDB: 2ywf_A* 2ywg_A* 2ywh_A*

Probab=97.09  E-value=0.00021  Score=59.52  Aligned_cols=34  Identities=18%  Similarity=0.065  Sum_probs=24.5

Q ss_pred             CcceeeecceEEEEcC---CCCeeEEEcCCCcccccC
Q 045003           17 GGITQHVGAFVIGMST---GGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        17 GGITQhIGA~~V~~~~---~~~~itFiDTPGHeAFs~   50 (93)
                      .|||.+..+..+.+..   ....++|+|||||+.|+.
T Consensus        52 rGITI~~~~~~~~~~~~dg~~~~inliDTPGh~dF~~   88 (600)
T 2ywe_A           52 RGITVKMQAVRMFYKAKDGNTYKLHLIDTPGHVDFSY   88 (600)
T ss_dssp             ----CCCCSEEEEEECTTSCEEEEEEECCCCSGGGHH
T ss_pred             ccceeeeeEEEEEEEcCCCCeEEEEEEECCCcHhHHH
Confidence            6899999999888752   235799999999999964

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=97.08  E-value=0.0003  Score=52.79  Aligned_cols=47  Identities=13%  Similarity=0.111  Sum_probs=28.8

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      +|+.+|.+..+...++   |+.+....+..  ++.++.|+|||||+.|..+.
T Consensus       180 sLl~~l~~~~~~~~~p---T~~~~~~~~~~--~~~~l~i~Dt~G~~~~~~~~  226 (329)
T 3o47_A          180 TILYKLKLGEIVTTIP---TIGFNVETVEY--KNISFTVWDVGGQDKIRPLW  226 (329)
T ss_dssp             HHHHHTCSSCCEEEEE---ETTEEEEEEEE--TTEEEEEEECC-----CCSH
T ss_pred             HHHHHHhCCCCCCccc---ccceEEEEEec--CcEEEEEEECCCCHhHHHHH
Confidence            4677777666655443   66666666665  47789999999999998743

>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=97.05  E-value=0.00019  Score=59.71  Aligned_cols=33  Identities=12%  Similarity=-0.008  Sum_probs=22.8

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      ..|||....+..+.+.  +..++|+|||||+.|..
T Consensus        60 ~~giTi~~~~~~~~~~--~~~i~liDTPG~~df~~   92 (691)
T 1dar_A           60 ERGITITAAVTTCFWK--DHRINIIDTPGHVDFTI   92 (691)
T ss_dssp             -------CCEEEEEET--TEEEEEECCCSSTTCHH
T ss_pred             hcccccccceEEEEEC--CeEEEEEECcCccchHH
Confidence            4579999998888874  78999999999999865

>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=97.05  E-value=0.00018  Score=46.72  Aligned_cols=50  Identities=10%  Similarity=0.010  Sum_probs=17.0

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      |+.++.+........-.++.+.....+..++....+.++||||++.|..+
T Consensus        24 l~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~   73 (183)
T 2fu5_C           24 VLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTI   73 (183)
T ss_dssp             ------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------
T ss_pred             HHHHHHhCCCCCCCCCcccceeEEEEEEECCEEEEEEEEcCCCChhhhhh
Confidence            45555443333333334454555555655433468999999999988653

>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=97.04  E-value=0.00042  Score=44.25  Aligned_cols=50  Identities=4%  Similarity=-0.099  Sum_probs=23.3

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEc-CCCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMS-TGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~-~~~~~itFiDTPGHeAFs~   50 (93)
                      +|+.++.+..........++.......+..+ +....+.++||||++.|..
T Consensus        23 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~   73 (182)
T 1ky3_A           23 SLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQS   73 (182)
T ss_dssp             HHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC-------
T ss_pred             HHHHHHHhCcCCcccCCccceEEEEEEEEEcCCcEEEEEEEECCCChHhhh
Confidence            3566666655444444444444444445443 2345799999999998865

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=97.03  E-value=0.00053  Score=45.12  Aligned_cols=49  Identities=8%  Similarity=0.050  Sum_probs=30.4

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS   49 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs   49 (93)
                      +|+.++.+........-.++-......+..++...++.++||||++.|.
T Consensus        35 sli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~   83 (189)
T 1z06_A           35 CLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFR   83 (189)
T ss_dssp             HHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHH
T ss_pred             HHHHHHHcCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCchhhh
Confidence            3667776655544444444434444445554334589999999999886

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=97.03  E-value=0.00053  Score=43.92  Aligned_cols=49  Identities=4%  Similarity=-0.121  Sum_probs=26.3

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      |+.++.+........-.++.......+..++....+.++||||++.|..
T Consensus        23 li~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~   71 (177)
T 1wms_A           23 LMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRS   71 (177)
T ss_dssp             HHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHH
T ss_pred             HHHHHHcCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEeCCCchhhhh
Confidence            5666655443333222333333334444432235899999999998765

>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=96.99  E-value=0.00076  Score=44.34  Aligned_cols=51  Identities=8%  Similarity=0.060  Sum_probs=28.7

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      +|+.++.+.........-++.......+...+....+.|+||||++.|..+
T Consensus        40 sLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~   90 (193)
T 2oil_A           40 NLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAI   90 (193)
T ss_dssp             HHHHHHHHSCCCSSCCCCSSEEEEEEEEEETTEEEEEEEEEESCCCTTCTT
T ss_pred             HHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCchhhhhh
Confidence            366677665544332222222222233444334568999999999988764

>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=96.97  E-value=0.00085  Score=42.76  Aligned_cols=50  Identities=6%  Similarity=-0.019  Sum_probs=29.5

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      +|+.++.+........+-+...+. ..+..++....+.++|||||+.|..+
T Consensus        24 sli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~~~Dt~G~~~~~~~   73 (181)
T 2fn4_A           24 ALTIQFIQSYFVSDYDPTIEDSYT-KICSVDGIPARLDILDTAGQEEFGAM   73 (181)
T ss_dssp             HHHHHHHHSSCCSSCCTTCCEEEE-EEEEETTEEEEEEEEECCCTTTTSCC
T ss_pred             HHHHHHHhCcCccccCCCcCceEE-EEEEECCEEEEEEEEECCCchhhHHH
Confidence            356666665554444444333332 33444322357899999999988764

>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=96.95  E-value=0.0012  Score=42.61  Aligned_cols=50  Identities=10%  Similarity=0.064  Sum_probs=27.4

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      |+.++.+.........-+.-.. ...+..++....+.++||||++.|..+.
T Consensus        22 li~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~   71 (181)
T 3t5g_A           22 LTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFP   71 (181)
T ss_dssp             HHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCCTTCCCC
T ss_pred             HHHHHHcCCCCCCCCCCccccE-EEEEEECCEEEEEEEEeCCCchhhhHHH
Confidence            5566654443333333222222 3334443233567999999999987643

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=96.95  E-value=0.0008  Score=45.95  Aligned_cols=51  Identities=8%  Similarity=0.028  Sum_probs=27.2

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      |+.++.+........-.++.......+..++....+.++|||||+.|..+.
T Consensus        29 li~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   79 (223)
T 3cpj_B           29 LLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQERYRAIT   79 (223)
T ss_dssp             HHHHHHHCCCCC------CCSEEEEEEEETTEEEEEEEECCTTTTTTTCCC
T ss_pred             HHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCccchhhhH
Confidence            566666554433222223323333344453223589999999999987643

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=96.92  E-value=0.00045  Score=54.87  Aligned_cols=50  Identities=10%  Similarity=-0.031  Sum_probs=30.0

Q ss_pred             ChhhHHhhcCCc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003            1 MISDALRQTSVV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         1 sLLD~IR~t~Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      +|+++|-+.+++ ..+.-|+|.+.....+... +..++.++|||||+.|..+
T Consensus        49 TLin~L~~~~~~~~~~~~gtT~d~~~~~~~~~-~~~~l~liDTpG~~d~~~l   99 (423)
T 3qq5_A           49 SFMNALVGQNVSIVSDYAGTTTDPVYKSMELH-PIGPVTLVDTPGLDDVGEL   99 (423)
T ss_dssp             TTTTSSCC-------------CCCCEEEEEET-TTEEEEEEECSSTTCCCTT
T ss_pred             HHHHHHHcCCCCccCCCCCeeeeeEEEEEEEC-CCCeEEEEECcCCCcccch
Confidence            467777666553 3456789999888888875 3348999999999998764

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=96.92  E-value=0.00047  Score=55.97  Aligned_cols=32  Identities=9%  Similarity=-0.004  Sum_probs=27.3

Q ss_pred             CcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           17 GGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        17 GGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      -|||.......+.+  ++..++++|||||+.|..
T Consensus        66 ~GiTi~~~~~~~~~--~~~~i~liDTPG~~df~~   97 (528)
T 3tr5_A           66 RGISVTTSVMQFPY--KDYLINLLDTPGHADFTE   97 (528)
T ss_dssp             HCCSSSSSEEEEEE--TTEEEEEECCCCSTTCCH
T ss_pred             CCeeEEEeEEEEEe--CCEEEEEEECCCchhHHH
Confidence            57888888888887  478999999999999976

>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=96.91  E-value=0.00044  Score=46.50  Aligned_cols=50  Identities=10%  Similarity=0.106  Sum_probs=25.6

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      |+.++.+........-.++.......+..++....+.++||||++.|..+
T Consensus        41 Li~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~   90 (200)
T 2o52_A           41 LLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRSV   90 (200)
T ss_dssp             HHHHHHC------------CCEEEEEEEETTEEEEEEEECCTTHHHHSCC
T ss_pred             HHHHHHhCCCCccCCCcccceeEEEEEEECCeeeEEEEEcCCCcHhHHHH
Confidence            56666554444433344444444455555433468999999999988764

>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=96.88  E-value=0.0017  Score=41.65  Aligned_cols=50  Identities=0%  Similarity=-0.128  Sum_probs=26.5

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      |+.++.+.........-+. ..-...+...+....+.++|||||+.|..+.
T Consensus        21 l~~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   70 (186)
T 1mh1_A           21 LLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGQEDYDRLR   70 (186)
T ss_dssp             HHHHHHHSSCCSSCCCCSC-CEEEEEEEETTEEEEEEEECCCCSGGGTTTG
T ss_pred             HHHHHHcCCCCCCcCCccc-ceeEEEEEECCEEEEEEEEECCCCHhHHHHH
Confidence            5666665444333222221 1112234443334467799999999987643

>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=96.86  E-value=0.00095  Score=42.80  Aligned_cols=50  Identities=8%  Similarity=0.036  Sum_probs=26.0

Q ss_pred             ChhhHHhhcCCcC-cccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSVVA-KEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~Va~-~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      +|+.++.+..... ...-.++.......+..++....+.++|||||+.|..
T Consensus        25 sli~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~   75 (180)
T 2g6b_A           25 CLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRS   75 (180)
T ss_dssp             HHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC-----
T ss_pred             HHHHHHHhCCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCcHHHHH
Confidence            3566666655432 2233444444444445543334799999999998865

>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=96.84  E-value=0.0014  Score=43.19  Aligned_cols=51  Identities=4%  Similarity=-0.025  Sum_probs=30.1

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchh
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFF   53 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~   53 (93)
                      |+.++.+.........-+..... ..+..++....+.++||||++.|..+..
T Consensus        39 l~~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~   89 (194)
T 3reg_A           39 LLLAFSKGEIPTAYVPTVFENFS-HVMKYKNEEFILHLWDTAGQEEYDRLRP   89 (194)
T ss_dssp             HHHHHHHSCCCSSCCCCSEEEEE-EEEEETTEEEEEEEEEECCSGGGTTTGG
T ss_pred             HHHHHhcCCCCCccCCeeeeeeE-EEEEECCEEEEEEEEECCCcHHHHHHhH
Confidence            56666665554444444433333 2344432344579999999999976443

>2h5e_A Peptide chain release factor RF-3; beta barrel, translation; HET: GDP; 2.80A {Escherichia coli} PDB: 2o0f_A 3sfs_W* 3zvo_Y* 3uoq_W*

Probab=96.84  E-value=0.00059  Score=55.31  Aligned_cols=33  Identities=12%  Similarity=-0.007  Sum_probs=23.6

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      .-|||.......+.+  ++..++++|||||+.|+.
T Consensus        65 ~rGiTi~~~~~~~~~--~~~~i~liDTPG~~df~~   97 (529)
T 2h5e_A           65 QRGISITTSVMQFPY--HDCLVNLLDTPGHEDFSE   97 (529)
T ss_dssp             -----CCTTEEEEEE--TTEEEEEECCCCSTTCCH
T ss_pred             cCCcceeeeEEEEEE--CCeEEEEEECCCChhHHH
Confidence            357887777777777  478999999999999974

>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=96.82  E-value=0.0013  Score=43.67  Aligned_cols=49  Identities=12%  Similarity=-0.047  Sum_probs=27.2

Q ss_pred             ChhhHHhhcCCcCc--ccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003            1 MISDALRQTSVVAK--EAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         1 sLLD~IR~t~Va~~--EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      +|+.++.+......  ..-|.|..  ...+.......++.++||||++.|..+
T Consensus        38 sli~~l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~i~Dt~G~~~~~~~   88 (192)
T 2fg5_A           38 SIVCRFVQDHFDHNISPTIGASFM--TKTVPCGNELHKFLIWDTAGQERFHSL   88 (192)
T ss_dssp             HHHHHHHHCCCCTTCCCCSSEEEE--EEEEECSSSEEEEEEEEECCSGGGGGG
T ss_pred             HHHHHHhcCCCCCCcCCCcceeEE--EEEEEeCCEEEEEEEEcCCCchhhHhh
Confidence            35666665443221  12233322  223444334568999999999988763

>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=96.81  E-value=0.0015  Score=42.27  Aligned_cols=50  Identities=8%  Similarity=-0.101  Sum_probs=28.4

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      |+.++.+.........-++... ...+..++....+.++||||++.|..+.
T Consensus        34 l~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~   83 (183)
T 3kkq_A           34 LTIQFFQKIFVDDYDPTIEDSY-LKHTEIDNQWAILDVLDTAGQEEFSAMR   83 (183)
T ss_dssp             HHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCSCGGGCSSH
T ss_pred             HHHHHHhCCCCCCCCCCcccee-EEEEEeCCcEEEEEEEECCCchhhHHHH
Confidence            5566665544444444443333 3344443233456779999999987744

>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=96.81  E-value=0.0016  Score=45.77  Aligned_cols=47  Identities=4%  Similarity=-0.038  Sum_probs=32.8

Q ss_pred             ChhhHHhhcCCcC--cccCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003            1 MISDALRQTSVVA--KEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS   49 (93)
Q Consensus         1 sLLD~IR~t~Va~--~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs   49 (93)
                      +|+.+|-+..+..  ...+++|...-...+..  ++..+.|+|||||..|.
T Consensus        37 tl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~--~~~~i~iiDTpG~~~~~   85 (260)
T 2xtp_A           37 AAGNSILRKQAFESKLGSQTLTKTCSKSQGSW--GNREIVIIDTPDMFSWK   85 (260)
T ss_dssp             HHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEE--TTEEEEEEECCGGGGSS
T ss_pred             HHHHHHhCCCCcccCCCCCceeeeeEEEEEEe--CCCEEEEEECcCCCCCC
Confidence            3566676555333  33445888877667766  47789999999998875

>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=96.80  E-value=0.00086  Score=44.43  Aligned_cols=49  Identities=10%  Similarity=-0.042  Sum_probs=26.6

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      |+.++.+........-.++-......+...+....+.++|||||+.|..
T Consensus        24 li~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~   72 (203)
T 1zbd_A           24 FLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRT   72 (203)
T ss_dssp             HHHHHHTCCCCSCCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHH
T ss_pred             HHHHHhcCCCCCCcCCccceeEEEEEEEECCeEEEEEEEECCCchhhcc
Confidence            5666665443322222222222223344433355899999999998864

>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=96.75  E-value=0.00092  Score=41.75  Aligned_cols=48  Identities=6%  Similarity=-0.037  Sum_probs=26.1

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      |+.++.+.........-++ ..-...+..++....+.++||||++.|..
T Consensus        19 li~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~D~~G~~~~~~   66 (167)
T 1kao_A           19 LTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFAS   66 (167)
T ss_dssp             HHHHHHHSCCCSCCCTTCC-EEEEEEEEETTEEEEEEEEECCCTTCCHH
T ss_pred             HHHHHHcCCCcccCCCCcc-eeEEEEEEECCEEEEEEEEECCCchhhHH
Confidence            5566655444333222222 11133444433344699999999998765

>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=96.75  E-value=0.002  Score=43.10  Aligned_cols=52  Identities=2%  Similarity=-0.129  Sum_probs=30.1

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchh
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFF   53 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~   53 (93)
                      +|+.++.+..........++..+- ..+..++....+.++||||++.|..+..
T Consensus        40 sli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~   91 (201)
T 2gco_A           40 CLLIVFSKDQFPEVYVPTVFENYI-ADIEVDGKQVELALWDTAGQEDYDRLRP   91 (201)
T ss_dssp             HHHHHHHHSSCCSSCCCSSCCCCE-EEEEETTEEEEEEEECCCCSGGGTTTGG
T ss_pred             HHHHHHHhCcCCcccCCcccceEE-EEEEECCEEEEEEEEECCCchhHHHHHH
Confidence            356666665554443334443332 2344432334789999999999876443

>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=96.74  E-value=0.00072  Score=47.06  Aligned_cols=44  Identities=7%  Similarity=-0.013  Sum_probs=29.1

Q ss_pred             ChhhHHhhcCCcCcccC--cceeeecceEEEEcCCCCeeEEEcCCCcc
Q 045003            1 MISDALRQTSVVAKEAG--GITQHVGAFVIGMSTGGIKFNFHNCEFYH   46 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaG--GITQhIGA~~V~~~~~~~~itFiDTPGHe   46 (93)
                      +|+.+|-+..+.....-  ++|.+.....+..  ++..++++||||..
T Consensus        44 tlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~--~~~~i~liDTpG~~   89 (239)
T 3lxx_A           44 ATGNSILGRKVFHSGTAAKSITKKCEKRSSSW--KETELVVVDTPGIF   89 (239)
T ss_dssp             HHHHHHHTSCCSCC-------CCSCEEEEEEE--TTEEEEEEECCSCC
T ss_pred             HHHHHHcCCCcCccCCCCCceeeeEEEEEEEe--CCceEEEEECCCcc
Confidence            36677776665444333  7888888777877  47799999999954

>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=96.74  E-value=0.0013  Score=41.41  Aligned_cols=49  Identities=8%  Similarity=-0.013  Sum_probs=26.7

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      |+.++.+.........-+.... ...+..++....+.++||||++.|..+
T Consensus        19 li~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~G~~~~~~~   67 (167)
T 1c1y_A           19 LTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILDTAGTEQFTAM   67 (167)
T ss_dssp             HHHHHHHCCCCCSCCCCSEEEE-EEEEESSSCEEEEEEEEECSSCSSTTH
T ss_pred             HHHHHHcCCCCCCCCCCccceE-EEEEEECCEEEEEEEEECCChHHHHHH
Confidence            5666665444333222222111 123333333457999999999988763

>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=96.72  E-value=0.001  Score=45.52  Aligned_cols=50  Identities=8%  Similarity=0.016  Sum_probs=29.9

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      +|+.++.+........-.++-+.....+..++....+.+.||||++.|..
T Consensus        41 sLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~   90 (201)
T 2ew1_A           41 CLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRS   90 (201)
T ss_dssp             HHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHH
T ss_pred             HHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHH
Confidence            35666666555443333343344444555543334799999999998864

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=96.71  E-value=0.00047  Score=46.01  Aligned_cols=50  Identities=10%  Similarity=0.016  Sum_probs=28.2

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      |+.++.+........-.+|-......+..++....+.++||||++.|..+
T Consensus        49 li~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~   98 (199)
T 3l0i_B           49 LLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTI   98 (199)
T ss_dssp             TTTSSBCCCCCCHHHHHHCCSEEEEEEEETTEEEEEEEECCTTCTTCCCC
T ss_pred             HHHHHhcCCCCCCcCCcccceEEEEEEEECCEEEEEEEEECCCcHhHHHH
Confidence            44444443333332334444444445555423357999999999998763

>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=96.69  E-value=0.0012  Score=42.35  Aligned_cols=16  Identities=13%  Similarity=0.119  Sum_probs=13.9

Q ss_pred             CeeEEEcCCCcccccC
Q 045003           35 IKFNFHNCEFYHRTSL   50 (93)
Q Consensus        35 ~~itFiDTPGHeAFs~   50 (93)
                      ..+.++|||||+.|..
T Consensus        70 ~~~~l~Dt~G~~~~~~   85 (195)
T 3bc1_A           70 IHLQLWDTAGLERFRS   85 (195)
T ss_dssp             EEEEEEEECCSGGGHH
T ss_pred             EEEEEEeCCCcHHHHH
Confidence            4899999999998865

>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=96.68  E-value=0.0024  Score=41.92  Aligned_cols=50  Identities=4%  Similarity=-0.031  Sum_probs=27.2

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      +|+.++.+.........-+.... ...+...+....+.++|||||+.|..+
T Consensus        33 sli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~   82 (194)
T 2atx_A           33 CLLMSYANDAFPEEYVPTVFDHY-AVSVTVGGKQYLLGLYDTAGQEDYDRL   82 (194)
T ss_dssp             HHHHHHHHSSCCCSCCCSSCCCE-EEEEESSSCEEEEEEECCCCSSSSTTT
T ss_pred             HHHHHHhcCCCCCCCCCccccee-EEEEEECCEEEEEEEEECCCCcchhHH
Confidence            35666665544333222222221 223444323357899999999988764

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=96.67  E-value=0.00051  Score=45.76  Aligned_cols=49  Identities=4%  Similarity=0.049  Sum_probs=25.7

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      |+.++.+........-.++.......+...+....+.++||||++.|..
T Consensus        42 Li~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~   90 (192)
T 2il1_A           42 LMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNS   90 (192)
T ss_dssp             HHHHHCC--------CCTTEEEEEEEEEETTEEEEEEEEEECCSGGGHH
T ss_pred             HHHHHhcCCCCcCCCCccceeEEEEEEEECCeEEEEEEEeCCCcHHHHH
Confidence            5666655444333333344344444455542345799999999998865

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=96.66  E-value=0.00068  Score=43.42  Aligned_cols=50  Identities=6%  Similarity=-0.065  Sum_probs=27.6

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcC-CCCeeEEEcCCCcccccCc
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMST-GGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~-~~~~itFiDTPGHeAFs~f   51 (93)
                      |+.++.+..........++.+.....+..++ ....+.+.||||++.|..+
T Consensus        22 l~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~   72 (178)
T 2hxs_A           22 LTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGGKM   72 (178)
T ss_dssp             HHHHHHGGGTTHHHHHTTTSSEEEEEEEETTTEEEEEEEEECTTCCTTCTT
T ss_pred             HHHHHHhCcCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCCccccch
Confidence            5555554443322222233333334455532 1368999999999988764

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=96.66  E-value=0.0023  Score=42.67  Aligned_cols=49  Identities=2%  Similarity=0.074  Sum_probs=26.5

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      |+.++.+.........-+.-.+ ...+...+....+.++||||++.|..+
T Consensus        40 li~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~   88 (201)
T 3oes_A           40 LAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEFHLHLVDTAGQDEYSIL   88 (201)
T ss_dssp             HHHHHHHSCCCSCCCCCSEEEE-EEEEC----CEEEEEEEECCCCTTCCC
T ss_pred             HHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEECCCccchHHH
Confidence            5666666554433333222222 222333334567899999999998764

>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=96.65  E-value=0.0024  Score=40.41  Aligned_cols=46  Identities=15%  Similarity=0.091  Sum_probs=27.2

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      +|+.++.+.......+   |..+-...+..  +..++.++|||||+.|..+
T Consensus        22 sl~~~l~~~~~~~~~~---t~~~~~~~~~~--~~~~~~~~Dt~G~~~~~~~   67 (171)
T 1upt_A           22 TILYRLQVGEVVTTIP---TIGFNVETVTY--KNLKFQVWDLGGLTSIRPY   67 (171)
T ss_dssp             HHHHHHHHSSCCCCCC---CSSEEEEEEEE--TTEEEEEEEECCCGGGGGG
T ss_pred             HHHHHHhcCCCCCcCC---cCccceEEEEE--CCEEEEEEECCCChhhhHH
Confidence            3566665544433222   22222234444  3678999999999988653

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=96.64  E-value=0.00076  Score=56.12  Aligned_cols=33  Identities=18%  Similarity=0.109  Sum_probs=23.0

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      .-|||.......+.+.  +..++|+|||||..|..
T Consensus        58 ~~giTi~~~~~~~~~~--~~~i~liDTPG~~df~~   90 (693)
T 2xex_A           58 DRGITITSAATTAAWE--GHRVNIIDTPGHVDFTV   90 (693)
T ss_dssp             ------CCSEEEEEET--TEEEEEECCCCCSSCCH
T ss_pred             hcCceEeeeeEEEEEC--CeeEEEEECcCCcchHH
Confidence            3578888888778774  78999999999999865

>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=96.64  E-value=0.002  Score=41.43  Aligned_cols=51  Identities=10%  Similarity=-0.052  Sum_probs=26.3

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      +|+.+|.+........+-+ .......+..++....+.++|||||+.|..+.
T Consensus        19 sli~~l~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   69 (189)
T 4dsu_A           19 ALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGQEEYSAMR   69 (189)
T ss_dssp             HHHHHHHHSSCCCCCCTTC-CEEEEEEEEETTEEEEEEEEECCCC---CTTH
T ss_pred             HHHHHHHhCCCCCCCCCCc-hheEEEEEEECCcEEEEEEEECCCcHHHHHHH
Confidence            3666776655544433332 22222334443233457889999999987744

>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=96.63  E-value=0.0017  Score=41.03  Aligned_cols=44  Identities=14%  Similarity=0.081  Sum_probs=26.1

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      |+.++.+.......+   |.......+..  +..++.++|||||+.|..
T Consensus        16 l~~~l~~~~~~~~~~---t~~~~~~~~~~--~~~~~~i~Dt~G~~~~~~   59 (164)
T 1r8s_A           16 ILYKLKLGEIVTTIP---TIGFNVETVEY--KNISFTVWDVGGQDKIRP   59 (164)
T ss_dssp             HHHHHHHHCSSCCCC---CSSCCEEEEEC--SSCEEEEEECCCCGGGHH
T ss_pred             HHHHHHcCCcCcccC---cCceeEEEEEE--CCEEEEEEEcCCChhhHH
Confidence            566665544433222   32222233443  468999999999998865

>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=96.63  E-value=0.0015  Score=40.61  Aligned_cols=48  Identities=10%  Similarity=-0.025  Sum_probs=26.1

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      |+.++.+.........-+.... ...+...+....+.++|||||+.|..
T Consensus        19 l~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~D~~G~~~~~~   66 (166)
T 2ce2_X           19 LTIQLIQNHFVDECDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSA   66 (166)
T ss_dssp             HHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCSSCCH
T ss_pred             HHHHHHhCcCccccCCccceEE-EEEEEECCEEEEEEEEECCCchhhhH
Confidence            5566655444433333222221 23344433345689999999998765

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=96.61  E-value=0.0026  Score=42.49  Aligned_cols=25  Identities=4%  Similarity=-0.019  Sum_probs=16.9

Q ss_pred             EEEcCCCCeeEEEcCCCcccccCch
Q 045003           28 IGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus        28 V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      +..++....+.++|||||+.|..+.
T Consensus        50 ~~~~~~~~~~~i~Dt~G~~~~~~~~   74 (212)
T 2j0v_A           50 VAVDGQIVNLGLWDTAGQEDYSRLR   74 (212)
T ss_dssp             EECSSCEEEEEEECCCCCCCCCC--
T ss_pred             EEECCEEEEEEEEECCCcHHHHHHH
Confidence            3343233589999999999987643

>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=96.61  E-value=0.0011  Score=44.70  Aligned_cols=49  Identities=6%  Similarity=0.098  Sum_probs=24.8

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      |+.++.+........-.++.......+..++....+.++||||++.|..
T Consensus        45 li~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~   93 (201)
T 2hup_A           45 VVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRT   93 (201)
T ss_dssp             HHHHHHHSCC----------CEEEEEEEETTEEEEEEEECCTTCGGGHH
T ss_pred             HHHHHhhCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCcHhHHH
Confidence            5666655444332222222233334455532235899999999998865

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=96.60  E-value=0.00063  Score=44.61  Aligned_cols=29  Identities=3%  Similarity=-0.087  Sum_probs=18.5

Q ss_pred             eecceEEEEcCC--CCeeEEEcCCCcccccC
Q 045003           22 HVGAFVIGMSTG--GIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        22 hIGA~~V~~~~~--~~~itFiDTPGHeAFs~   50 (93)
                      +.....+..++.  ...+.++||||++.|..
T Consensus        58 ~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~   88 (208)
T 2yc2_C           58 EVVVAPVTIPDTTVSVELFLLDTAGSDLYKE   88 (208)
T ss_dssp             ---CEEEECTTSSEEEEEEEEETTTTHHHHH
T ss_pred             EEEEEEEEECCcccEEEEEEEECCCcHHHHH
Confidence            444455555422  45799999999998754

>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=96.59  E-value=0.0013  Score=41.06  Aligned_cols=49  Identities=2%  Similarity=-0.069  Sum_probs=24.5

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      +|+.++.+.........-+.... ...+..++....+.++|||||+.|..
T Consensus        19 sl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~G~~~~~~   67 (168)
T 1u8z_A           19 ALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAA   67 (168)
T ss_dssp             HHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CHH
T ss_pred             HHHHHHHhCccCCCCCCCcceEE-EEEEEECCEEEEEEEEECCCcchhHH
Confidence            35666666554443333222221 22344432334799999999998754

>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=96.58  E-value=0.00072  Score=61.75  Aligned_cols=33  Identities=15%  Similarity=0.086  Sum_probs=22.4

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      ..|||+++....++.  ++.+++|+|||||+.|..
T Consensus       342 erGITIdva~v~f~~--~~~kI~IIDTPGHedF~~  374 (1289)
T 3avx_A          342 ARGITINTSHVEYDT--PTRHYAHVDCPGHADYVK  374 (1289)
T ss_dssp             ------CCSCEEEEC--SSCEEEEEECCCHHHHHH
T ss_pred             cCceeEEEEEEEEcC--CCEEEEEEECCChHHHHH
Confidence            579999997766654  578999999999999964

>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=96.52  E-value=0.00072  Score=45.38  Aligned_cols=49  Identities=4%  Similarity=-0.082  Sum_probs=27.2

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCC----------CCeeEEEcCCCcccccC
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTG----------GIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~----------~~~itFiDTPGHeAFs~   50 (93)
                      |+.++.+........-.++.+.....+.+++.          ...+.|+|||||+.|..
T Consensus        41 Li~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~   99 (217)
T 2f7s_A           41 FLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRS   99 (217)
T ss_dssp             HHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHH
T ss_pred             HHHHHhcCCCCcCCCCceeEEEEEEEEEECCccccccccCceeEEEEEEECCCcHhHHh
Confidence            56666654443222222333333334444422          45799999999998865

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=96.48  E-value=0.0025  Score=45.62  Aligned_cols=48  Identities=8%  Similarity=-0.035  Sum_probs=31.6

Q ss_pred             ChhhHHhhcCCc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSVV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      +|+.+|-+..+. ....-|.|...-.+.+..  ++.+++++||||++.|..
T Consensus        54 SLin~l~~~~~~~~~~~~~~t~~~~~~~~~~--~~~~l~iiDTpG~~~~~~  102 (270)
T 1h65_A           54 STVNSIIGERVVSISPFQSEGPRPVMVSRSR--AGFTLNIIDTPGLIEGGY  102 (270)
T ss_dssp             HHHHHHHTSCCSCCCSSSCCCSSCEEEEEEE--TTEEEEEEECCCSEETTE
T ss_pred             HHHHHHhCCCcccccCCCCcceeeEEEEEee--CCeEEEEEECCCCCCCcc
Confidence            366677666543 233445666554455544  477899999999998864

>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=96.48  E-value=0.0045  Score=40.58  Aligned_cols=25  Identities=8%  Similarity=-0.032  Sum_probs=17.9

Q ss_pred             EEEcCCCCeeEEEcCCCcccccCch
Q 045003           28 IGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus        28 V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      +..++....+.+.||||++.|..+.
T Consensus        48 ~~~~~~~~~~~i~Dt~G~~~~~~~~   72 (184)
T 1m7b_A           48 FEIDTQRIELSLWDTSGSPYYDNVR   72 (184)
T ss_dssp             EECSSCEEEEEEEEECCSGGGTTTG
T ss_pred             EEECCEEEEEEEEECCCChhhhhhH
Confidence            3343344578999999999987643

>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=96.45  E-value=0.0011  Score=44.24  Aligned_cols=24  Identities=4%  Similarity=-0.074  Sum_probs=17.2

Q ss_pred             EEEEcCCCCeeEEEcCCCcccccC
Q 045003           27 VIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        27 ~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      .+..++....+.++||||++.|..
T Consensus        69 ~~~~~~~~~~l~i~Dt~G~~~~~~   92 (199)
T 2p5s_A           69 TLIVDGERTVLQLWDTAGQERFRS   92 (199)
T ss_dssp             EEEETTEEEEEEEEECTTCTTCHH
T ss_pred             EEEECCEEEEEEEEECCCCcchhh
Confidence            344443345799999999998765

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=96.42  E-value=0.0026  Score=41.50  Aligned_cols=36  Identities=8%  Similarity=0.209  Sum_probs=24.2

Q ss_pred             CCCCeeEEEcCCCcccccCchhh---hhcccEeEEeccc
Q 045003           32 TGGIKFNFHNCEFYHRTSLFFFV---QLRNFVIVLRKNN   67 (93)
Q Consensus        32 ~~~~~itFiDTPGHeAFs~f~~m---R~RGa~iv~~~~~   67 (93)
                      .....+.++||||++.|..+...   ...++.+|+.-.+
T Consensus        60 ~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~   98 (199)
T 4bas_A           60 KGRVAFTVFDMGGAKKFRGLWETYYDNIDAVIFVVDSSD   98 (199)
T ss_dssp             ETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEETTC
T ss_pred             eCCEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECCc
Confidence            35778999999999998764332   2345555555543

>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=96.39  E-value=0.0033  Score=42.27  Aligned_cols=50  Identities=2%  Similarity=-0.094  Sum_probs=25.0

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      |+.++.+..........++...- ..+..++....+.++||||++.|..+.
T Consensus        41 li~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~   90 (207)
T 2fv8_A           41 LLIVFSKDEFPEVYVPTVFENYV-ADIEVDGKQVELALWDTAGQEDYDRLR   90 (207)
T ss_dssp             HHHHHHHSSCC-------CCEEE-EEEEETTEEEEEEEEECTTCTTCTTTG
T ss_pred             HHHHHhcCCCCCcCCCcccceEE-EEEEECCEEEEEEEEECCCcHHHHHHH
Confidence            56666655444332222222211 123443223478999999999887643

>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=96.37  E-value=0.0022  Score=41.02  Aligned_cols=48  Identities=2%  Similarity=-0.065  Sum_probs=26.6

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      |+.++.+.........-+.... ...+...+....+.++|||||+.|..
T Consensus        34 li~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~   81 (187)
T 2a9k_A           34 LTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAA   81 (187)
T ss_dssp             HHHHHHHSCCCCSCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHH
T ss_pred             HHHHHhhCCCCCcCCCccceEE-EEEEEECCEEEEEEEEECCCCcccHH
Confidence            5666666554443333222111 22334432234799999999998754

>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=96.36  E-value=0.0022  Score=42.12  Aligned_cols=49  Identities=2%  Similarity=-0.069  Sum_probs=27.6

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      +|+.++.+........+-+.... ...+..++....+.|+|||||+.|..
T Consensus        29 sli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~   77 (206)
T 2bov_A           29 ALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAA   77 (206)
T ss_dssp             HHHHHHHHSCCCTTCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHH
T ss_pred             HHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEcCCChhhhHH
Confidence            36667766554443333222221 23344432234799999999998764

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=96.24  E-value=0.003  Score=39.68  Aligned_cols=17  Identities=6%  Similarity=-0.058  Sum_probs=14.0

Q ss_pred             CCeeEEEcCCCcccccC
Q 045003           34 GIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~   50 (93)
                      ...+.++|||||+.|..
T Consensus        50 ~~~~~~~Dt~G~~~~~~   66 (172)
T 2erx_A           50 ICTLQITDTTGSHQFPA   66 (172)
T ss_dssp             EEEEEEEECCSCSSCHH
T ss_pred             EEEEEEEECCCchhhHH
Confidence            45789999999998754

>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=96.23  E-value=0.0046  Score=40.32  Aligned_cols=48  Identities=10%  Similarity=-0.023  Sum_probs=22.0

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      |+.+|.+........+-++..+ ...+...+....+.++||||++.|..
T Consensus        37 li~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~   84 (190)
T 3con_A           37 LTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSA   84 (190)
T ss_dssp             HHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC------
T ss_pred             HHHHHHcCCCccccCCccceEE-EEEEEECCEEEEEEEEECCChHHHHH
Confidence            5666665544443333222222 23344432334699999999998765

>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=96.21  E-value=0.0028  Score=40.64  Aligned_cols=19  Identities=0%  Similarity=-0.052  Sum_probs=12.5

Q ss_pred             CCeeEEEcCCCcccccCch
Q 045003           34 GIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f~   52 (93)
                      ...+.++|||||+.|..+.
T Consensus        55 ~~~~~i~Dt~G~~~~~~~~   73 (182)
T 3bwd_D           55 TVNLGLWDTAGQEDYNRLR   73 (182)
T ss_dssp             ---CEEECCCC-CTTTTTG
T ss_pred             EEEEEEEECCCChhhhhhH
Confidence            4567799999999987643

>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=96.20  E-value=0.0062  Score=41.08  Aligned_cols=50  Identities=0%  Similarity=-0.119  Sum_probs=26.3

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      |+.++.+........+-+ ...-...+..++....+.++||||++.|..+.
T Consensus        46 Li~~l~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~   95 (204)
T 4gzl_A           46 LLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGLEDYDRLR   95 (204)
T ss_dssp             HHHHHHHSCCCC-CCCCS-EEEEEEEEECC-CEEEEEEEEECCSGGGTTTG
T ss_pred             HHHHHHhCCCCCCcCCee-cceeEEEEEECCEEEEEEEEECCCchhhHHHH
Confidence            555555544443333322 22222334443233356699999999997644

>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=96.20  E-value=0.0027  Score=42.45  Aligned_cols=63  Identities=11%  Similarity=0.077  Sum_probs=33.6

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCC-CCeeEEEcCCCcccccC-chhh---hhcccEeEEeccc
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTG-GIKFNFHNCEFYHRTSL-FFFV---QLRNFVIVLRKNN   67 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~-~~~itFiDTPGHeAFs~-f~~m---R~RGa~iv~~~~~   67 (93)
                      |+.++.+...... .-.++.+..  .+..++. ...+.++|||||+.|.. +...   ...++.+|++-.+
T Consensus        23 li~~l~~~~~~~~-~~~~~~~~~--~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~i~v~d~~~   90 (214)
T 2fh5_B           23 LFVRLLTGQYRDT-QTSITDSSA--IYKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDSAA   90 (214)
T ss_dssp             HHHHHHHSCCCCB-CCCCSCEEE--EEECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEETTT
T ss_pred             HHHHHhCCCcccc-cCCcceeeE--EEEecCCCccEEEEEECCCChhHHHHHHHHHHhhCCEEEEEEECCC
Confidence            5556655443322 223444433  3444322 57899999999998864 2211   2334555555433

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=96.19  E-value=0.0025  Score=39.96  Aligned_cols=46  Identities=11%  Similarity=0.099  Sum_probs=26.6

Q ss_pred             ChhhHHhhcCCc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCcccc
Q 045003            1 MISDALRQTSVV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRT   48 (93)
Q Consensus         1 sLLD~IR~t~Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAF   48 (93)
                      +|+.++.+.... ..+.-++|++.....+...  +..+.++||||++.+
T Consensus        16 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~l~Dt~G~~~~   62 (161)
T 2dyk_A           16 SLFNRLLKKRSAVVADVPGVTRDLKEGVVETD--RGRFLLVDTGGLWSG   62 (161)
T ss_dssp             HHHHHHHHCCC-----------CCEEEEEEET--TEEEEEEECGGGCSS
T ss_pred             HHHHHHhCCCeeeccCCCCceecceEEEEEeC--CceEEEEECCCCCCc
Confidence            366677665533 3455677877776777764  668999999999974

>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=96.14  E-value=0.0048  Score=40.08  Aligned_cols=23  Identities=13%  Similarity=0.189  Sum_probs=17.6

Q ss_pred             EEEEcCCCCeeEEEcCCCcccccCc
Q 045003           27 VIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        27 ~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      .+..  ++.++.++|||||+.|..+
T Consensus        56 ~~~~--~~~~~~~~Dt~G~~~~~~~   78 (186)
T 1ksh_A           56 TLEH--RGFKLNIWDVGGQKSLRSY   78 (186)
T ss_dssp             EEEE--TTEEEEEEEECCSHHHHTT
T ss_pred             EEEE--CCEEEEEEECCCCHhHHHH
Confidence            4444  4678999999999987653

>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=96.12  E-value=0.0053  Score=44.61  Aligned_cols=48  Identities=6%  Similarity=-0.071  Sum_probs=33.9

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      +|+.+|-+.+...+..-|+|.+.-...+..  ++..+.++||||+..|..
T Consensus        18 TLin~l~g~~~~v~~~~g~t~~~~~~~~~~--~~~~~~liDtpG~~~~~~   65 (274)
T 3i8s_A           18 TLFNQLTGSRQRVGNWAGVTVERKEGQFST--TDHQVTLVDLPGTYSLTT   65 (274)
T ss_dssp             HHHHHHHTTCEEEEECTTSSSEEEEEEEEC--SSCEEEEEECCCCSCSCC
T ss_pred             HHHHHHhCCCcccCCCCCeeEEEEEEEEEe--CCCceEEEECcCCCcccc
Confidence            366677665544455567777665555555  367899999999999873

>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=96.12  E-value=0.0065  Score=39.85  Aligned_cols=19  Identities=11%  Similarity=0.107  Sum_probs=15.9

Q ss_pred             CCCeeEEEcCCCcccccCc
Q 045003           33 GGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~f   51 (93)
                      ++..+.++||||++.|..+
T Consensus        65 ~~~~~~l~Dt~G~~~~~~~   83 (190)
T 2h57_A           65 SSLSFTVFDMSGQGRYRNL   83 (190)
T ss_dssp             SSCEEEEEEECCSTTTGGG
T ss_pred             CCEEEEEEECCCCHHHHHH
Confidence            4689999999999988653

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=96.08  E-value=0.0026  Score=41.59  Aligned_cols=23  Identities=9%  Similarity=0.096  Sum_probs=17.7

Q ss_pred             EEEEcCCCCeeEEEcCCCcccccCc
Q 045003           27 VIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        27 ~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      .+..  +..++.++|||||+.|..+
T Consensus        60 ~~~~--~~~~~~~~Dt~G~~~~~~~   82 (189)
T 2x77_A           60 TLQY--KNISFEVWDLGGQTGVRPY   82 (189)
T ss_dssp             EEEE--TTEEEEEEEECCSSSSCCC
T ss_pred             EEEE--CCEEEEEEECCCCHhHHHH
Confidence            3444  4678999999999988653

>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=96.07  E-value=0.0053  Score=44.49  Aligned_cols=48  Identities=17%  Similarity=0.050  Sum_probs=34.8

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      +|+.+|.+.+...+..-|+|.......+..  ++..+.++||||+..|..
T Consensus        20 sL~n~l~g~~~~~~~~pg~tv~~~~~~~~~--~~~~~~l~DtpG~~~~~~   67 (258)
T 3a1s_A           20 SLFNALTGTKQYVANWPGVTVEKKEGVFTY--KGYTINLIDLPGTYSLGY   67 (258)
T ss_dssp             HHHHHHHTTCEEEEECTTSCCEEEEEEEEE--TTEEEEEEECCCCSSCCS
T ss_pred             HHHHHHHCCCCcccCCCCceEEEEEEEEEE--CCeEEEEEECCCcCccCC
Confidence            366677665554455558888776666665  367999999999998864

>1n0u_A EF-2, elongation factor 2; G-protein, CIS-proline, translation; HET: SO1; 2.12A {Saccharomyces cerevisiae} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1n0v_C 1s1h_T 2e1r_A* 2npf_A* 2p8w_T* 3dny_T 3b82_A* 1zm2_A* 1zm3_A* 1zm4_A* 1zm9_A* 2p8x_T* 2p8y_T* 2p8z_T* 2zit_A* 1u2r_A* 3b78_A* 3b8h_A*

Probab=96.05  E-value=0.0029  Score=53.86  Aligned_cols=50  Identities=14%  Similarity=0.020  Sum_probs=31.9

Q ss_pred             CcceeeecceEEEEc--------------CCCCeeEEEcCCCcccccCch--hhh-hcccEeEEecc
Q 045003           17 GGITQHVGAFVIGMS--------------TGGIKFNFHNCEFYHRTSLFF--FVQ-LRNFVIVLRKN   66 (93)
Q Consensus        17 GGITQhIGA~~V~~~--------------~~~~~itFiDTPGHeAFs~f~--~mR-~RGa~iv~~~~   66 (93)
                      -|||....+..+.+.              +++..++++|||||+.|+...  .+| +.|+++|+.-.
T Consensus        66 rgiTI~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~  132 (842)
T 1n0u_A           66 RGITIKSTAISLYSEMSDEDVKEIKQKTDGNSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTI  132 (842)
T ss_dssp             -CCCBCCCEEEEEEECCHHHHHHCSSCCCSSEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETT
T ss_pred             cceeEeeceeEEEecccccccccccccccCCCceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCC
Confidence            467777666666553              125689999999999997521  112 34666666643

>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=96.02  E-value=0.0011  Score=43.83  Aligned_cols=24  Identities=8%  Similarity=0.012  Sum_probs=17.7

Q ss_pred             EEEEcCCCCeeEEEcCCCcccccC
Q 045003           27 VIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        27 ~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      .+...+....+.|+||||++.|..
T Consensus        64 ~~~~~~~~~~~~i~Dt~G~~~~~~   87 (191)
T 3dz8_A           64 TVYRHEKRVKLQIWDTAGQERYRT   87 (191)
T ss_dssp             EEEETTTTEEEEEECHHHHHHCHH
T ss_pred             EEEECCEEEEEEEEeCCChHHHHH
Confidence            334443466899999999998865

>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=96.02  E-value=0.0066  Score=44.91  Aligned_cols=44  Identities=11%  Similarity=0.057  Sum_probs=28.1

Q ss_pred             ChhhHHhhcCCcC-cccCcceeeecceEEEEcCCCCeeEEEcCCCcc
Q 045003            1 MISDALRQTSVVA-KEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYH   46 (93)
Q Consensus         1 sLLD~IR~t~Va~-~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHe   46 (93)
                      +|+.+|.+.+++. ...-+.|++.-...+..  ++..++|+|||||+
T Consensus        23 TLln~L~g~~~~i~s~~~~tTr~~~~gi~~~--~~~~i~~iDTpG~~   67 (301)
T 1ega_A           23 TLLNKLLGQKISITSRKAQTTRHRIVGIHTE--GAYQAIYVDTPGLH   67 (301)
T ss_dssp             HHHHHHHTCSEEECCCCSSCCSSCEEEEEEE--TTEEEEEESSSSCC
T ss_pred             HHHHHHHCCCccccCCCCCcceeeEEEEEEE--CCeeEEEEECcCCC
Confidence            4788888776642 22334565433223333  46789999999998

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=96.01  E-value=0.0094  Score=40.71  Aligned_cols=50  Identities=4%  Similarity=-0.028  Sum_probs=26.9

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      |+.++.+.........-+.... ...+..++....+.|+||||++.|..+.
T Consensus        44 Li~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~   93 (205)
T 1gwn_A           44 LLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVR   93 (205)
T ss_dssp             HHHHHHHSCCCSSCCCCSEEEE-EEEEESSSSEEEEEEEEECCSGGGTTTG
T ss_pred             HHHHHhcCCCCCCcCCccceeE-EEEEEECCEEEEEEEEeCCCcHhhhHHH
Confidence            5556655444332222222221 1233333334579999999999987643

>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=95.95  E-value=0.0041  Score=51.43  Aligned_cols=32  Identities=13%  Similarity=0.001  Sum_probs=24.9

Q ss_pred             CcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           17 GGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        17 GGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      .|||.......+..  +...++++|||||+.|..
T Consensus        58 ~giti~~~~~~~~~--~~~~~nliDTpG~~~f~~   89 (665)
T 2dy1_A           58 HRTTVRTGVAPLLF--RGHRVFLLDAPGYGDFVG   89 (665)
T ss_dssp             TTSCCSCEEEEEEE--TTEEEEEEECCCSGGGHH
T ss_pred             cCCeEEecceEEee--CCEEEEEEeCCCccchHH
Confidence            36777666666665  477899999999999865

>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=95.94  E-value=0.0045  Score=41.39  Aligned_cols=19  Identities=11%  Similarity=0.069  Sum_probs=11.5

Q ss_pred             CCCeeEEEcCCCcccccCc
Q 045003           33 GGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~f   51 (93)
                      ++..+.++||||++.|..+
T Consensus        71 ~~~~~~i~Dt~G~~~~~~~   89 (192)
T 2b6h_A           71 KNICFTVWDVGGQDKIRPL   89 (192)
T ss_dssp             TTEEEEEEECC-----CTT
T ss_pred             CCEEEEEEECCCCHhHHHH
Confidence            4678999999999998764

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=95.93  E-value=0.0086  Score=39.47  Aligned_cols=18  Identities=0%  Similarity=-0.001  Sum_probs=14.5

Q ss_pred             CeeEEEcCCCcccccCch
Q 045003           35 IKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus        35 ~~itFiDTPGHeAFs~f~   52 (93)
                      ..+.++||||++.|..+.
T Consensus        68 ~~~~i~Dt~G~~~~~~~~   85 (201)
T 2q3h_A           68 VRLQLCDTAGQDEFDKLR   85 (201)
T ss_dssp             EEEEEEECCCSTTCSSSG
T ss_pred             EEEEEEECCCCHHHHHHh
Confidence            367799999999987643

>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=95.90  E-value=0.012  Score=39.13  Aligned_cols=49  Identities=8%  Similarity=-0.052  Sum_probs=29.5

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEc-CCCCeeEEEcCCCcccccCc
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMS-TGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~-~~~~~itFiDTPGHeAFs~f   51 (93)
                      |+.++.+. ....+.=|++.......+... +....+.+.||||++.|..+
T Consensus        36 Li~~l~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~   85 (196)
T 3llu_A           36 IQKVVFHK-MSPNETLFLESTNKIYKDDISNSSFVNFQIWDFPGQMDFFDP   85 (196)
T ss_dssp             HHHHHHSC-CCGGGGGGCCCCCSCEEEEECCTTSCCEEEEECCSSCCTTCT
T ss_pred             HHHHHHhc-CCCcceeeeccccceeeeeccCCCeeEEEEEECCCCHHHHhh
Confidence            44444442 222233345555555555553 34578999999999998653

>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=95.88  E-value=0.0049  Score=40.17  Aligned_cols=17  Identities=6%  Similarity=-0.035  Sum_probs=14.1

Q ss_pred             CCeeEEEcCCCcccccC
Q 045003           34 GIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~   50 (93)
                      ...+.++|||||+.|..
T Consensus        55 ~~~~~l~Dt~G~~~~~~   71 (199)
T 2gf0_A           55 VCTLQITDTTGSHQFPA   71 (199)
T ss_dssp             EEEEEEEECCGGGSCHH
T ss_pred             EEEEEEEeCCChHHhHH
Confidence            44799999999998764

>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=95.88  E-value=0.0065  Score=44.08  Aligned_cols=48  Identities=8%  Similarity=-0.078  Sum_probs=34.3

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      +|+.+|.+.+...+..-|+|.+.-...+...  +..+.++||||+..|..
T Consensus        16 TL~n~L~g~~~~v~~~pg~Tv~~~~~~~~~~--~~~~~lvDtpG~~~~~~   63 (256)
T 3iby_A           16 TLFNALTNANQRVGNWPGVTVEKKTGEFLLG--EHLIEITDLPGVYSLVA   63 (256)
T ss_dssp             HHHHHHHTTSEEEEECTTSSSEEEEEEEEET--TEEEEEEECCCCSSCC-
T ss_pred             HHHHHHHCCCCCccCCCCceEEEEEEEEEEC--CeEEEEEeCCCcccccc
Confidence            3666776665555566688876666666663  66999999999998864

>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=95.86  E-value=0.0074  Score=39.48  Aligned_cols=25  Identities=8%  Similarity=-0.098  Sum_probs=15.1

Q ss_pred             ceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003           25 AFVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        25 A~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      ...+..  ++..+.++||||++.|..+
T Consensus        52 ~~~~~~--~~~~~~i~Dt~G~~~~~~~   76 (187)
T 1zj6_A           52 VEEIVI--NNTRFLMWDIGGQESLRSS   76 (187)
T ss_dssp             CEEEEE--TTEEEEEEECCC----CGG
T ss_pred             eEEEEE--CCEEEEEEECCCCHhHHHH
Confidence            344555  3688999999999988653

>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=95.85  E-value=0.0061  Score=41.38  Aligned_cols=24  Identities=0%  Similarity=0.004  Sum_probs=9.5

Q ss_pred             EEEcCCCCeeEEEcCCCcccccCc
Q 045003           28 IGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        28 V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      +..++....+.++||||++.|..+
T Consensus        75 ~~~~~~~~~l~l~Dt~G~~~~~~~   98 (214)
T 2j1l_A           75 LQVKGKPVHLHIWDTAGQDDYDRL   98 (214)
T ss_dssp             EEETTEEEEEEEEEC---------
T ss_pred             EEECCEEEEEEEEECCCchhhhHH
Confidence            344323347999999999988653

>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=95.83  E-value=0.003  Score=48.28  Aligned_cols=16  Identities=6%  Similarity=-0.074  Sum_probs=14.3

Q ss_pred             CeeEEEcCCCcccccC
Q 045003           35 IKFNFHNCEFYHRTSL   50 (93)
Q Consensus        35 ~~itFiDTPGHeAFs~   50 (93)
                      ..++|+|||||+.|..
T Consensus        75 ~~~~iiDtPGh~~~~~   90 (403)
T 3sjy_A           75 RRISFIDAPGHEVLMA   90 (403)
T ss_dssp             EEEEEEECCCCGGGHH
T ss_pred             ceEEEEECCCcHHHHH
Confidence            5899999999999865

>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=95.76  E-value=0.014  Score=39.83  Aligned_cols=51  Identities=2%  Similarity=-0.077  Sum_probs=27.0

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchh
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFF   53 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~   53 (93)
                      |+.++.+.........-+.-.. ...+..++....+.+.||||++.|..+..
T Consensus        43 L~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~   93 (214)
T 3q3j_B           43 MLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWDTSGSPYYDNVRP   93 (214)
T ss_dssp             HHHHHHHSCCCSSCCCCSEEEE-EEEEEC--CEEEEEEEEECCSGGGTTTGG
T ss_pred             HHHHHhcCCCCCCcCCeeeeeE-EEEEEECCEEEEEEEEECCCCHhHHHHHH
Confidence            5666655444333222222221 12233333345789999999999877543

>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=95.73  E-value=0.0074  Score=39.80  Aligned_cols=47  Identities=9%  Similarity=0.006  Sum_probs=26.7

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      +|+.++.+........-  |.......+..  +...+.++||||++.|..+
T Consensus        37 sli~~l~~~~~~~~~~~--t~~~~~~~~~~--~~~~~~l~Dt~G~~~~~~~   83 (188)
T 1zd9_A           37 TFVNVIASGQFNEDMIP--TVGFNMRKITK--GNVTIKLWDIGGQPRFRSM   83 (188)
T ss_dssp             HHHHHHHHSCCCCSCCC--CCSEEEEEEEE--TTEEEEEEEECCSHHHHTT
T ss_pred             HHHHHHHcCCCCCccCC--CCceeEEEEEe--CCEEEEEEECCCCHhHHHH
Confidence            35666665544322111  22222223333  5778999999999988763

>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=95.65  E-value=0.0085  Score=44.33  Aligned_cols=48  Identities=15%  Similarity=0.039  Sum_probs=30.4

Q ss_pred             ChhhHHhhcCCcC-cccCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003            1 MISDALRQTSVVA-KEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS   49 (93)
Q Consensus         1 sLLD~IR~t~Va~-~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs   49 (93)
                      +|+.+|-+.+++. ...-+.|.+.-...+.. +.+..++|+|||||..+.
T Consensus        25 TLin~l~g~~~~i~s~~~~tT~~~~~~~~~~-~~~~~i~lvDTPG~~~~~   73 (308)
T 3iev_A           25 TLLNNLLGTKVSIISPKAGTTRMRVLGVKNI-PNEAQIIFLDTPGIYEPK   73 (308)
T ss_dssp             HHHHHHHTSCCSCCCSSSCCCCSCEEEEEEE-TTTEEEEEEECCCCCCCC
T ss_pred             HHHHHHhCCCccccCCCCCceeeEEEEEEec-CCCCeEEEEECcCCCccc
Confidence            3677777766652 34445666544334433 127789999999997654

>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=95.63  E-value=0.012  Score=38.40  Aligned_cols=24  Identities=8%  Similarity=-0.104  Sum_probs=18.3

Q ss_pred             eEEEEcCCCCeeEEEcCCCcccccCc
Q 045003           26 FVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        26 ~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      ..+..  ++.++.++||||++.|..+
T Consensus        58 ~~~~~--~~~~~~i~Dt~G~~~~~~~   81 (181)
T 2h17_A           58 EEIVI--NNTRFLMWDIGGQESLRSS   81 (181)
T ss_dssp             EEEEE--TTEEEEEEEESSSGGGTCG
T ss_pred             EEEEE--CCEEEEEEECCCCHhHHHH
Confidence            34555  3678999999999988763

>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=95.62  E-value=0.0078  Score=40.31  Aligned_cols=18  Identities=22%  Similarity=0.314  Sum_probs=14.8

Q ss_pred             CeeEEEcCCCcccccCch
Q 045003           35 IKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus        35 ~~itFiDTPGHeAFs~f~   52 (93)
                      ..+.++||||++.|..+.
T Consensus        61 ~~~~l~Dt~G~~~~~~~~   78 (218)
T 4djt_A           61 IKFNVWDTAGQEKKAVLK   78 (218)
T ss_dssp             EEEEEEEECSGGGTSCCC
T ss_pred             EEEEEEecCCchhhchHH
Confidence            469999999999987643

>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=95.56  E-value=0.0078  Score=43.03  Aligned_cols=47  Identities=13%  Similarity=-0.018  Sum_probs=35.3

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      |+.+|.+.....+..-|+|.......+...  +..+.++||||+..|..
T Consensus        19 L~n~l~g~~~~~~~~~~~t~~~~~~~~~~~--~~~~~l~DtpG~~~~~~   65 (271)
T 3k53_A           19 IFNALTGLRQHVGNWPGVTVEKKEGIMEYR--EKEFLVVDLPGIYSLTA   65 (271)
T ss_dssp             HHHHHHTTCEEEEECTTSSCEEEEEEEEET--TEEEEEEECCCCSCCCS
T ss_pred             HHHHHhCCCcccCCCCCeEEEeeEEEEEEC--CceEEEEeCCCcccccc
Confidence            566666665555566778888777777763  67899999999998865

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=95.53  E-value=0.0022  Score=49.55  Aligned_cols=43  Identities=12%  Similarity=0.084  Sum_probs=23.9

Q ss_pred             ChhhHHhhcCCc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003            1 MISDALRQTSVV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY   45 (93)
Q Consensus         1 sLLD~IR~t~Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH   45 (93)
                      ||+.+|-+...+ ..+.-|+|.+.-...+..+  +..+.++|||||
T Consensus       190 SLin~l~~~~~~~~~~~~gtT~d~~~~~~~~~--~~~~~l~DT~G~  233 (436)
T 2hjg_A          190 SLVNAMLGEERVIVSNVAGTTRDAVDTSFTYN--QQEFVIVDTAGM  233 (436)
T ss_dssp             HHHHHHHTSTTEEEC---------CCEEEEET--TEEEEETTHHHH
T ss_pred             HHHHHHhCCCceeecCCCCceeeeeEEEEEEC--CeEEEEEECCCc
Confidence            366666655432 3444568888776677764  678999999999

>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=95.52  E-value=0.0068  Score=38.37  Aligned_cols=25  Identities=4%  Similarity=-0.233  Sum_probs=13.8

Q ss_pred             eEEEEcCCCCeeEEEcCCCcccccC
Q 045003           26 FVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        26 ~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      ..+..++....+.+.||||++.|..
T Consensus        42 ~~~~~~~~~~~~~i~D~~g~~~~~~   66 (169)
T 3q85_A           42 RRIMVDKEEVTLIVYDIWEQGDAGG   66 (169)
T ss_dssp             EEEEETTEEEEEEEECCCCC-----
T ss_pred             EEEEECCeEEEEEEEECCCccccch
Confidence            3444543345788999999998864

>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=95.50  E-value=0.019  Score=40.58  Aligned_cols=62  Identities=3%  Similarity=-0.002  Sum_probs=30.9

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhhh---cccEeEEe
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQL---RNFVIVLR   64 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR~---RGa~iv~~   64 (93)
                      |+.++.+........+-+.... ...+..++....+.++||||++.|..+.....   .++.+|+.
T Consensus       171 li~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d  235 (332)
T 2wkq_A          171 LLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFS  235 (332)
T ss_dssp             HHHHHHHSCCCCSCCCCSEEEE-EEEEEETTEEEEEEEEEECCCGGGTTTGGGGCTTCSEEEEEEE
T ss_pred             HHHHHHhCCCCcccCCccccee-EEEEEECCEEEEEEEEeCCCchhhhHHHHHhccCCCEEEEEEe
Confidence            4555554444333333222222 23344432233566999999999876443322   33444444

>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=95.46  E-value=0.0086  Score=41.03  Aligned_cols=44  Identities=7%  Similarity=-0.087  Sum_probs=26.9

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYH   46 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHe   46 (93)
                      +|+.++.+......+..+.|+.+-...+..  ++..+.++||||+.
T Consensus        44 sLin~l~~~~~~~~~~~~~t~~~~~~~~~~--~~~~~~l~DtpG~~   87 (228)
T 2qu8_A           44 SFMNIVSRANVDVQSYSFTTKNLYVGHFDH--KLNKYQIIDTPGLL   87 (228)
T ss_dssp             HHHHHHTTTCEEEECC-----CEEEEEEEE--TTEEEEEEECTTTT
T ss_pred             HHHHHHhCCCCccCCCCCcceeeeeeeeec--CCCeEEEEECCCCc
Confidence            366677666655555667777766555555  36789999999993

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=95.45  E-value=0.0098  Score=38.53  Aligned_cols=46  Identities=20%  Similarity=0.088  Sum_probs=30.5

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS   49 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs   49 (93)
                      |+..|-+........-|+|.+.....+..  ++..+.++||||++.|.
T Consensus        23 L~~~l~~~~~~~~~~~~~t~~~~~~~~~~--~~~~~~l~Dt~G~~~~~   68 (188)
T 2wjg_A           23 IFNALTGENVYIGNWPGVTVEKKEGEFEY--NGEKFKVVDLPGVYSLT   68 (188)
T ss_dssp             HHHHHHTTCEEEEECTTSCCEEEEEEEEE--TTEEEEEEECCCCSCCS
T ss_pred             HHHHHhCCCccccCCCCeeccceEEEEEe--CCcEEEEEECCCcCccc
Confidence            55666554333334456676655556665  36789999999999885

>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=95.44  E-value=0.013  Score=39.50  Aligned_cols=24  Identities=8%  Similarity=0.058  Sum_probs=14.5

Q ss_pred             eEEEEcCCCCeeEEEcCCCcccccCc
Q 045003           26 FVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        26 ~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      ..+..+  +..+.++|||||+.|..+
T Consensus        62 ~~~~~~--~~~l~i~Dt~G~~~~~~~   85 (198)
T 1f6b_A           62 EELTIA--GMTFTTFDLGGHIQARRV   85 (198)
T ss_dssp             EEEEET--TEEEEEEEECC----CCG
T ss_pred             EEEEEC--CEEEEEEECCCcHhhHHH
Confidence            345553  578999999999988763

>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=95.44  E-value=0.028  Score=37.41  Aligned_cols=23  Identities=17%  Similarity=0.223  Sum_probs=17.6

Q ss_pred             EEEEcCCCCeeEEEcCCCcccccCc
Q 045003           27 VIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        27 ~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      .+..  ++.++.++|||||+.|..+
T Consensus        61 ~~~~--~~~~~~i~Dt~G~~~~~~~   83 (190)
T 1m2o_B           61 ELAI--GNIKFTTFDLGGHIQARRL   83 (190)
T ss_dssp             EEEE--TTEEEEEEECCCSGGGTTS
T ss_pred             EEEE--CCEEEEEEECCCCHHHHHH
Confidence            4444  3578999999999988753

>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=94.26  E-value=0.0031  Score=42.02  Aligned_cols=18  Identities=0%  Similarity=-0.012  Sum_probs=14.2

Q ss_pred             CCeeEEEcCCCcccccCc
Q 045003           34 GIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f   51 (93)
                      ...+.++||||++.|..+
T Consensus        77 ~~~l~i~Dt~G~~~~~~~   94 (204)
T 3th5_A           77 PVNLGLWDTAGQEDYDRL   94 (204)
Confidence            446779999999988753

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=95.19  E-value=0.0092  Score=39.95  Aligned_cols=45  Identities=20%  Similarity=0.247  Sum_probs=29.8

Q ss_pred             ChhhHHhhcC-C-cCcccCcceeeecceEEEEcCCCCeeEEEcCCCcc
Q 045003            1 MISDALRQTS-V-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYH   46 (93)
Q Consensus         1 sLLD~IR~t~-V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHe   46 (93)
                      +|+.+|.+.. + .....-|.|+++..+.+... ++..++++|||||.
T Consensus        44 slin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~l~DtpG~~   90 (223)
T 4dhe_A           44 TAINVLCNQKRLAFASKTPGRTQHINYFSVGPA-AEPVAHLVDLPGYG   90 (223)
T ss_dssp             HHHHHHTTCSSSSCTTCCCCSCCCEEEEEESCT-TSCSEEEEECCCCC
T ss_pred             HHHHHHhCCCcceeecCCCCcccceEEEEecCC-CCCcEEEEcCCCCC
Confidence            3666676654 2 23344567888776666532 56789999999973

>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=95.16  E-value=0.017  Score=37.39  Aligned_cols=46  Identities=20%  Similarity=0.091  Sum_probs=25.5

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS   49 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs   49 (93)
                      |+..+-+......+.-|+|.+.-.-.+...  +..+.++||||++.|.
T Consensus        19 L~~~l~~~~~~~~~~~~~t~~~~~~~~~~~--~~~l~i~Dt~G~~~~~   64 (165)
T 2wji_A           19 IFNALTGENVYIGNWPGVTVEKKEGEFEYN--GEKFKVVDLPGVYSLT   64 (165)
T ss_dssp             HHHHHHCCSSSCC-----CCCCCEEEEEET--TEEEEEEECCCCSCSS
T ss_pred             HHHHHhCCCeeccCCCCcceeeeEEEEEEC--CcEEEEEECCCcccCC
Confidence            555555433322333456654444445553  5789999999999885

>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=95.14  E-value=0.028  Score=37.18  Aligned_cols=48  Identities=0%  Similarity=-0.031  Sum_probs=22.8

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      |+.++.+.........-+.-.. ...+..++....+.++||||++.|..
T Consensus        37 Li~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~   84 (187)
T 3c5c_A           37 LTVKFLTKRFISEYDPNLEDTY-SSEETVDHQPVHLRVMDTADLDTPRN   84 (187)
T ss_dssp             HHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CCC
T ss_pred             HHHHHHhCCCCcccCCCcccee-eEEEEECCEEEEEEEEECCCCCcchh
Confidence            5666665443333222221111 12333433345788999999998865

>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=95.07  E-value=0.011  Score=37.97  Aligned_cols=19  Identities=11%  Similarity=0.088  Sum_probs=12.0

Q ss_pred             CCCeeEEEcCCCcccccCc
Q 045003           33 GGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~f   51 (93)
                      ++..+.++||||++.|..+
T Consensus        60 ~~~~~~i~Dt~G~~~~~~~   78 (183)
T 1moz_A           60 KNLKLNVWDLGGQTSIRPY   78 (183)
T ss_dssp             TTEEEEEEEEC----CCTT
T ss_pred             CCEEEEEEECCCCHhHHHH
Confidence            3678999999999988653

>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=94.99  E-value=0.01  Score=40.02  Aligned_cols=20  Identities=25%  Similarity=0.215  Sum_probs=16.2

Q ss_pred             CCCeeEEEcCCCcccccCch
Q 045003           33 GGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~f~   52 (93)
                      ....+.++|||||+.|..+.
T Consensus        62 ~~~~~~i~Dt~G~~~~~~~~   81 (221)
T 3gj0_A           62 GPIKFNVWDTAGQEKFGGLR   81 (221)
T ss_dssp             EEEEEEEEEECSGGGTSCCC
T ss_pred             EEEEEEEEeCCChHHHhHHH
Confidence            35679999999999987643

>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=94.97  E-value=0.015  Score=36.66  Aligned_cols=25  Identities=4%  Similarity=-0.174  Sum_probs=11.4

Q ss_pred             EEEEcCCCCeeEEEcCCCcccccCc
Q 045003           27 VIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        27 ~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      .+...+....+.+.||||++.|..+
T Consensus        41 ~~~~~~~~~~~~i~D~~g~~~~~~~   65 (166)
T 3q72_A           41 SIVVDGEEASLMVYDIWEQDGGRWL   65 (166)
T ss_dssp             EEEETTEEEEEEEEECC--------
T ss_pred             EEEECCEEEEEEEEECCCCccchhh
Confidence            3344434557899999999998653

>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=94.81  E-value=0.013  Score=37.67  Aligned_cols=19  Identities=5%  Similarity=-0.195  Sum_probs=15.1

Q ss_pred             CCeeEEEcCCCcccccCch
Q 045003           34 GIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f~   52 (93)
                      ...+.++|||||+.|..+.
T Consensus        73 ~~~~~i~Dt~G~~~~~~~~   91 (198)
T 3t1o_A           73 KTRFHLYTVPGQVFYNASR   91 (198)
T ss_dssp             EEEEEEEECCSCCSCSHHH
T ss_pred             ceEEEEEeCCChHHHHHHH
Confidence            3478999999999887643

>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=94.68  E-value=0.0074  Score=48.20  Aligned_cols=46  Identities=17%  Similarity=0.161  Sum_probs=29.5

Q ss_pred             ChhhHHhhcCCc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCcccc
Q 045003            1 MISDALRQTSVV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRT   48 (93)
Q Consensus         1 sLLD~IR~t~Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAF   48 (93)
                      +|+.+|.+...+ ..+..|+|.++-...+...  +..++++||||+..+
T Consensus       239 SLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~--g~~v~liDT~G~~~~  285 (462)
T 3geh_A          239 SLLNAWSQSDRAIVTDLPGTTRDVVESQLVVG--GIPVQVLDTAGIRET  285 (462)
T ss_dssp             HHHHHHHHHHBSCCSCCTTCCHHHHHHEEEET--TEEEEECC-------
T ss_pred             HHHHHHhCCCcccccCCCCeeEEEEEEEEEEC--CEEEEEEECCccccc
Confidence            467777665433 5566889999988888874  788999999998655

>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=94.58  E-value=0.019  Score=36.38  Aligned_cols=21  Identities=0%  Similarity=-0.116  Sum_probs=10.6

Q ss_pred             EEEcCCCCeeEEEcCCCcccc
Q 045003           28 IGMSTGGIKFNFHNCEFYHRT   48 (93)
Q Consensus        28 V~~~~~~~~itFiDTPGHeAF   48 (93)
                      +..++....+.++||||++.+
T Consensus        45 ~~~~~~~~~~~~~D~~g~~~~   65 (175)
T 2nzj_A           45 LTVDGEDTTLVVVDTWEAEKL   65 (175)
T ss_dssp             EEETTEEEEEEEECCC-----
T ss_pred             EEECCEEEEEEEEecCCCCcc
Confidence            444323347899999999984

>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=94.44  E-value=0.031  Score=41.60  Aligned_cols=45  Identities=13%  Similarity=0.083  Sum_probs=25.9

Q ss_pred             ChhhHHhhcCCcC-cccCcceeeecceEEEEcCCCCeeEEEcCCCccc
Q 045003            1 MISDALRQTSVVA-KEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHR   47 (93)
Q Consensus         1 sLLD~IR~t~Va~-~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeA   47 (93)
                      +|+.+|-+.+++. ...-+.|.+.--..+..  ++..+.|+||||++.
T Consensus        22 TLln~l~g~~~~ivs~~~~tTr~~i~~i~~~--~~~~l~l~DTpG~~~   67 (301)
T 1wf3_A           22 TLLNNLLGVKVAPISPRPQTTRKRLRGILTE--GRRQIVFVDTPGLHK   67 (301)
T ss_dssp             HHHHHHHTSCCSCCCSSSCCCCSCEEEEEEE--TTEEEEEEECCCCCC
T ss_pred             HHHHHHhCCceeeecCCCCceeEEEEEEEEe--CCcEEEEecCccccc
Confidence            3677777666542 22224454421112222  477899999999876

>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=94.32  E-value=0.019  Score=46.04  Aligned_cols=47  Identities=9%  Similarity=0.012  Sum_probs=17.1

Q ss_pred             ChhhHHhhcCCc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003            1 MISDALRQTSVV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS   49 (93)
Q Consensus         1 sLLD~IR~t~Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs   49 (93)
                      +|+.+|.+...+ ..+.-|+|.+.-...+...  +..++++||||++.|.
T Consensus       248 SLln~L~~~~~a~vs~~~gtT~d~~~~~i~~~--g~~l~liDT~G~~~~~  295 (476)
T 3gee_A          248 TLLNTLLGQERAIVSHMPGTTRDYIEECFIHD--KTMFRLTDTAGLREAG  295 (476)
T ss_dssp             HHHHHCC------------------CEEEEET--TEEEEEEC--------
T ss_pred             HHHHHHhCCCCcccCCCCCceEEEEEEEEEEC--CeEEEEEECCCCCcch
Confidence            466777665432 4456688999888888874  7789999999998765

>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=94.27  E-value=0.012  Score=45.60  Aligned_cols=48  Identities=13%  Similarity=0.135  Sum_probs=29.2

Q ss_pred             ChhhHHhhcC-CcCcccCcceeeecceEEEEcCCCCeeEEEcCCC----------cccccC
Q 045003            1 MISDALRQTS-VVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEF----------YHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~-Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPG----------HeAFs~   50 (93)
                      +|+.++.+.. ....+.-|+|.+.-...+...  +.+++++||||          +|.|+.
T Consensus       210 slin~l~~~~~~~~~~~~gtt~~~~~~~~~~~--~~~~~l~DT~G~~~~~~~~~~~e~~~~  268 (456)
T 4dcu_A          210 SLVNAMLGEERVIVSNVAGTTRDAVDTSFTYN--QQEFVIVDTAGMRKKGKVYETTEKYSV  268 (456)
T ss_dssp             HHHHHHHTSTTEEECC------CTTSEEEEET--TEEEEETTGGGTTTBTTBCCCCSHHHH
T ss_pred             HHHHHHhCCCccccCCCCCeEEEEEEEEEEEC--CceEEEEECCCCCcCcccchHHHHHHH
Confidence            3566666443 333455578888877777774  67999999999          677765

>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=94.20  E-value=0.012  Score=37.89  Aligned_cols=39  Identities=10%  Similarity=0.069  Sum_probs=25.2

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY   45 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH   45 (93)
                      +|+.++.+........-|+|.++..+.+      .++.++||||+
T Consensus        16 sli~~l~~~~~~~~~~~~~t~~~~~~~~------~~~~l~Dt~G~   54 (190)
T 2cxx_A           16 TLIYRLTGKKVRRGKRPGVTRKIIEIEW------KNHKIIDMPGF   54 (190)
T ss_dssp             HHHHHHHSCCCSSSSSTTCTTSCEEEEE------TTEEEEECCCB
T ss_pred             HHHHHHhCcCCccCCCCCccceeEEEec------CCEEEEECCCc
Confidence            3666676655555545577776544333      17999999993

>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=94.03  E-value=0.036  Score=36.47  Aligned_cols=18  Identities=17%  Similarity=0.159  Sum_probs=15.1

Q ss_pred             CCCeeEEEcCCCcccccC
Q 045003           33 GGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~   50 (93)
                      ++..+.+.||||++.|..
T Consensus        58 ~~~~l~i~Dt~G~~~~~~   75 (181)
T 1fzq_A           58 QGFKLNVWDIGGQRKIRP   75 (181)
T ss_dssp             TTEEEEEEECSSCGGGHH
T ss_pred             CCEEEEEEECCCCHHHHH
Confidence            367899999999998854

>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=93.97  E-value=0.042  Score=36.20  Aligned_cols=45  Identities=0%  Similarity=-0.078  Sum_probs=23.8

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCccc
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHR   47 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeA   47 (93)
                      |+.++.+.........-++-.. ...+..++...++.|+||||++.
T Consensus        44 li~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~   88 (196)
T 2atv_A           44 LVVRFLTKRFIWEYDPTLESTY-RHQATIDDEVVSMEILDTAGQED   88 (196)
T ss_dssp             HHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCCC
T ss_pred             HHHHHHhCCCCcccCCCCCceE-EEEEEECCEEEEEEEEECCCCCc
Confidence            5666665544333222222111 12344433345799999999986

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=93.62  E-value=0.032  Score=36.34  Aligned_cols=34  Identities=3%  Similarity=0.110  Sum_probs=23.4

Q ss_pred             CCCeeEEEcCCCcccccCchh--hh-----hcccEeEEecc
Q 045003           33 GGIKFNFHNCEFYHRTSLFFF--VQ-----LRNFVIVLRKN   66 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~f~~--mR-----~RGa~iv~~~~   66 (93)
                      ....+.|+|||||+.|.....  ++     ..++.+|++-.
T Consensus        89 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~d~~  129 (193)
T 2ged_A           89 DGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDST  129 (193)
T ss_dssp             CCTTCSEEEETTCCBSSCCHHHHHHHHGGGEEEEEEEEETT
T ss_pred             cCCeEEEEECCCCchHHHHHHHHHHhhcccCCEEEEEEECC
Confidence            356899999999999865322  22     35677777654

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=93.56  E-value=0.034  Score=39.86  Aligned_cols=48  Identities=17%  Similarity=0.194  Sum_probs=22.5

Q ss_pred             ChhhHHhhcCCcCcccCcc------eeeecceEEEEcCCC--CeeEEEcCCCcccc
Q 045003            1 MISDALRQTSVVAKEAGGI------TQHVGAFVIGMSTGG--IKFNFHNCEFYHRT   48 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGI------TQhIGA~~V~~~~~~--~~itFiDTPGHeAF   48 (93)
                      +|+.+|.++++...+..+.      |-.+-........++  .+++++||||+..+
T Consensus        23 TLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~liDTpG~~d~   78 (274)
T 3t5d_A           23 TLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDA   78 (274)
T ss_dssp             HHHHHHSSSCC---------------CCCEEEEEEECC--CCEEEEEEECCCCSCC
T ss_pred             HHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEecCCeEEEEEEEECCCcccc
Confidence            3667777777666654322      222222333333223  38999999998543

>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=93.37  E-value=0.066  Score=43.03  Aligned_cols=47  Identities=19%  Similarity=0.203  Sum_probs=35.6

Q ss_pred             ChhhHHhhcCC-cCcccCcceeeecceEEEEcCCCCeeEEEcCCCcc-ccc
Q 045003            1 MISDALRQTSV-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYH-RTS   49 (93)
Q Consensus         1 sLLD~IR~t~V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHe-AFs   49 (93)
                      |||.+|.+... ...+.-|+|.++-...+...  +..++++||||++ .+.
T Consensus       258 SLln~L~~~~~a~vs~~~gTT~d~~~~~i~~~--g~~~~l~DTaG~~~~~~  306 (482)
T 1xzp_A          258 TLLNRLLNEDRAIVTDIPGTTRDVISEEIVIR--GILFRIVDTAGVRSETN  306 (482)
T ss_dssp             HHHHHHHHHTBCCCCCSSCCSSCSCCEEEEET--TEEEEEEESSCCCSSCC
T ss_pred             HHHHHHHCCCCCccCCCCCeeeeeEEEEEecC--CeEEEEEECCCccccch
Confidence            47777776653 24556689999888888884  7789999999998 553

>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=93.04  E-value=0.13  Score=33.69  Aligned_cols=47  Identities=17%  Similarity=0.203  Sum_probs=29.5

Q ss_pred             ChhhHHhhcCCc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003            1 MISDALRQTSVV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS   49 (93)
Q Consensus         1 sLLD~IR~t~Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs   49 (93)
                      +|+.+|-+...+ ..+.-|+|.+.-.-.+...  +..+.++||||.+.+.
T Consensus        19 tLl~~l~~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~l~Dt~G~~~~~   66 (172)
T 2gj8_A           19 SLLNALAGREAAIVTDIAGTTRDVLREHIHID--GMPLHIIDTAGLREAS   66 (172)
T ss_dssp             HHHHHHHTSCCSCCCSSTTCCCSCEEEEEEET--TEEEEEEECCCCSCCS
T ss_pred             HHHHHHhCCCcceeeCCCCceeceeeEEEEEC--CeEEEEEECCCcccch
Confidence            356666654322 2344567766655556663  5679999999987653

>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=93.00  E-value=0.085  Score=37.33  Aligned_cols=28  Identities=11%  Similarity=0.113  Sum_probs=19.6

Q ss_pred             CCeeEEEcCCCcccccCchhhhhcccEe
Q 045003           34 GIKFNFHNCEFYHRTSLFFFVQLRNFVI   61 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f~~mR~RGa~i   61 (93)
                      .-++.+.||+|.+.|..+..+--|++.+
T Consensus        61 ~v~l~iwDtaGqe~~~~l~~~~~~~a~~   88 (216)
T 4dkx_A           61 TIRLQLWDTAGLERFRSLIPSYIRDSAA   88 (216)
T ss_dssp             EEEEEEECCSCTTTCGGGHHHHHTTCSE
T ss_pred             EEEEEEEECCCchhhhhHHHHHhccccE
Confidence            3467899999999998765444444433

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=92.86  E-value=0.092  Score=38.61  Aligned_cols=32  Identities=19%  Similarity=0.199  Sum_probs=23.9

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccc
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRT   48 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAF   48 (93)
                      .=|.|..+--..+... +..++.+.||||++.|
T Consensus        34 ~~~~Ti~~~~~~~~~~-~~~~l~i~Dt~G~~~~   65 (307)
T 3r7w_A           34 RLGATIDVEHSHLRFL-GNMTLNLWDCGGQDVF   65 (307)
T ss_dssp             GCCCCCSEEEEEEEET-TTEEEEEEEECCSHHH
T ss_pred             CcCCccceEEEEEEeC-CceEEEEEECCCcHHH
Confidence            4566777665566554 4678999999999998

>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=92.67  E-value=0.041  Score=36.99  Aligned_cols=32  Identities=3%  Similarity=-0.185  Sum_probs=19.9

Q ss_pred             cceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003           18 GITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS   49 (93)
Q Consensus        18 GITQhIGA~~V~~~~~~~~itFiDTPGHeAFs   49 (93)
                      ++|.....-.+..++....+.+.||||++.|.
T Consensus        55 ~~~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~   86 (195)
T 3cbq_A           55 ENPEDTYERRIMVDKEEVTLVVYDIWEQGDAG   86 (195)
T ss_dssp             TSCTTEEEEEEEETTEEEEEEEECCCCCSGGG
T ss_pred             CcccceEEEEEEECCEEEEEEEEecCCCccch
Confidence            34544444445554333467788999999874

>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=92.55  E-value=0.15  Score=33.85  Aligned_cols=25  Identities=16%  Similarity=0.045  Sum_probs=16.7

Q ss_pred             EEEEcCCCCeeEEEcCCCcccccCc
Q 045003           27 VIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        27 ~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      .+...+....+.+.||||++.|..+
T Consensus        46 ~i~~~g~~~~~~i~Dt~g~~~~~~~   70 (199)
T 2f9l_A           46 SIQVDGKTIKAQIWDTAGQERYRRI   70 (199)
T ss_dssp             EEEETTEEEEEEEEECSSGGGTTCC
T ss_pred             EEEECCEEEEEEEEECCCchhhhhh
Confidence            3444322346778999999988653

>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=92.24  E-value=0.059  Score=34.99  Aligned_cols=38  Identities=16%  Similarity=0.260  Sum_probs=17.9

Q ss_pred             hhhHHhhcC-Cc-CcccCcceeeecceEEEEcCCCCeeEEEcCCC
Q 045003            2 ISDALRQTS-VV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEF   44 (93)
Q Consensus         2 LLD~IR~t~-Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPG   44 (93)
                      |+.+|.+.. +. ....-|.|+++..+.+     +.++.++||||
T Consensus        39 li~~l~~~~~~~~~~~~~~~t~~~~~~~~-----~~~~~l~Dt~G   78 (195)
T 1svi_A           39 FINSLINRKNLARTSSKPGKTQTLNFYII-----NDELHFVDVPG   78 (195)
T ss_dssp             HHHHHHTC-------------CCEEEEEE-----TTTEEEEECCC
T ss_pred             HHHHHhCCCCccccCCCCCceeeEEEEEE-----CCcEEEEECCC
Confidence            556665543 11 1233456666554433     34799999999

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=92.15  E-value=0.051  Score=42.88  Aligned_cols=19  Identities=11%  Similarity=-0.047  Sum_probs=16.0

Q ss_pred             CCeeEEEcCCCcccccCch
Q 045003           34 GIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f~   52 (93)
                      ...+.+.||||++.|..+.
T Consensus        97 ~~~~~i~Dt~G~e~~~~~~  115 (535)
T 3dpu_A           97 ECLFHFWDFGGQEIMHASH  115 (535)
T ss_dssp             TCEEEEECCCSCCTTTTTC
T ss_pred             eEEEEEEECCcHHHHHHHH
Confidence            5789999999999987643

>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=92.10  E-value=0.14  Score=32.73  Aligned_cols=34  Identities=3%  Similarity=-0.107  Sum_probs=20.2

Q ss_pred             EEEcCCCCeeEEEcCCCcccccCchhhh-hcccEeEEe
Q 045003           28 IGMSTGGIKFNFHNCEFYHRTSLFFFVQ-LRNFVIVLR   64 (93)
Q Consensus        28 V~~~~~~~~itFiDTPGHeAFs~f~~mR-~RGa~iv~~   64 (93)
                      +..++....+.+.||||++.+..   +| ..++.+|+.
T Consensus        47 ~~~~~~~~~l~i~Dt~G~~~~~~---~~~~d~~ilv~D   81 (178)
T 2iwr_A           47 MLVDGQTHLVLIREEAGAPDAKF---SGWADAVIFVFS   81 (178)
T ss_dssp             EEETTEEEEEEEEECSSSCCHHH---HHHCSEEEEEEE
T ss_pred             EEECCEEEEEEEEECCCCchhHH---HHhCCEEEEEEE
Confidence            33432345688999999987542   33 344444444

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=91.58  E-value=0.12  Score=33.04  Aligned_cols=38  Identities=16%  Similarity=0.311  Sum_probs=21.6

Q ss_pred             hhhHHhhcCCc-CcccCcceeeecceEEEEcCCCCeeEEEcCCC
Q 045003            2 ISDALRQTSVV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEF   44 (93)
Q Consensus         2 LLD~IR~t~Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPG   44 (93)
                      |+.+|-+.... ....-|.|+.+..+..     +.++.++||||
T Consensus        39 li~~l~~~~~~~~~~~~~~t~~~~~~~~-----~~~~~i~Dt~G   77 (195)
T 3pqc_A           39 LLNALFNRKIAFVSKTPGKTRSINFYLV-----NSKYYFVDLPG   77 (195)
T ss_dssp             HHHHHHTSCCSCCCSSCCCCCCEEEEEE-----TTTEEEEECCC
T ss_pred             HHHHHHcCccccccCCCCCccCeEEEEE-----CCcEEEEECCC
Confidence            56666554422 2233455655443222     45799999999

>1jwy_B Dynamin A GTPase domain; dynamin, GTPase, GDP, myosin, fusion-protein, hydrolase; HET: BGC ADP GDP; 2.30A {Dictyostelium discoideum} SCOP: c.37.1.8 PDB: 1jx2_B*

Probab=91.17  E-value=0.11  Score=36.95  Aligned_cols=30  Identities=10%  Similarity=0.037  Sum_probs=19.2

Q ss_pred             CcceeeecceEEEEcCCCCeeEEEcCCCccc
Q 045003           17 GGITQHVGAFVIGMSTGGIKFNFHNCEFYHR   47 (93)
Q Consensus        17 GGITQhIGA~~V~~~~~~~~itFiDTPGHeA   47 (93)
                      +||+-++-..++..+ +...++|+||||+..
T Consensus       114 ~~~~~~~~~~~i~~~-~~~~~~lvDTpG~~~  143 (315)
T 1jwy_B          114 KGISAQPINLKIYSP-HVVNLTLVDLPGITK  143 (315)
T ss_dssp             --CCCCCEEEEEEET-TSCSEEEEECCCCC-
T ss_pred             CCccCccEEEEEecC-CCCCcEEEECCCCcc
Confidence            366655555555443 567899999999863

>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=90.79  E-value=0.11  Score=34.10  Aligned_cols=26  Identities=4%  Similarity=-0.165  Sum_probs=17.6

Q ss_pred             CCCeeEEEcCCCcccccCchhhhhcc
Q 045003           33 GGIKFNFHNCEFYHRTSLFFFVQLRN   58 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~f~~mR~RG   58 (93)
                      ....+.+.||||.+.|..+...-.++
T Consensus        54 ~~~~~~i~Dt~G~~~~~~~~~~~~~~   79 (184)
T 2zej_A           54 RDLVLNVWDFAGREEFYSTHPHFMTQ   79 (184)
T ss_dssp             --CEEEEEEECSHHHHHTTSHHHHHH
T ss_pred             CceEEEEEecCCCHHHHHhhHHHccC
Confidence            35689999999999887654433333

>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=90.77  E-value=0.089  Score=35.07  Aligned_cols=33  Identities=3%  Similarity=0.192  Sum_probs=22.8

Q ss_pred             CCeeEEEcCCCcccccCch--hhh-----hcccEeEEecc
Q 045003           34 GIKFNFHNCEFYHRTSLFF--FVQ-----LRNFVIVLRKN   66 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f~--~mR-----~RGa~iv~~~~   66 (93)
                      ...+.++|||||+.|....  .+|     ..++.+|++-.
T Consensus        54 ~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i~v~D~~   93 (218)
T 1nrj_B           54 GSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDST   93 (218)
T ss_dssp             GSSCEEEECCCCGGGTHHHHHHHHHHGGGEEEEEEEEETT
T ss_pred             CceEEEEECCCcHHHHHHHHHHHHhccccCCEEEEEEECC
Confidence            5689999999999985422  122     35677777655

>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=89.68  E-value=0.51  Score=31.13  Aligned_cols=23  Identities=4%  Similarity=-0.210  Sum_probs=15.6

Q ss_pred             EEEEcCCCCeeEEEcCCCccccc
Q 045003           27 VIGMSTGGIKFNFHNCEFYHRTS   49 (93)
Q Consensus        27 ~V~~~~~~~~itFiDTPGHeAFs   49 (93)
                      .+..++....+.+.||||++.|.
T Consensus        59 ~~~~~~~~~~l~i~Dt~G~~~~~   81 (184)
T 3ihw_A           59 EIVVDGQSYLLLIRDEGGPPELQ   81 (184)
T ss_dssp             EEEETTEEEEEEEEECSSSCCHH
T ss_pred             EEEECCEEEEEEEEECCCChhhh
Confidence            34443233467789999999876

>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=89.49  E-value=0.18  Score=38.87  Aligned_cols=44  Identities=11%  Similarity=0.117  Sum_probs=23.3

Q ss_pred             hhhHHhhcCCc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCccc
Q 045003            2 ISDALRQTSVV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHR   47 (93)
Q Consensus         2 LLD~IR~t~Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeA   47 (93)
                      |+.+|-+.+.+ ....=|+|.+.--..+.+.  +..+.++||||.+.
T Consensus        17 L~nrl~~~~~~~v~~~~g~T~d~~~~~~~~~--~~~~~l~DT~G~~~   61 (439)
T 1mky_A           17 LFNKLVKKKKAIVEDEEGVTRDPVQDTVEWY--GKTFKLVDTCGVFD   61 (439)
T ss_dssp             HHHHHHC--------------CCSEEEEEET--TEEEEEEECTTTTS
T ss_pred             HHHHHhCCCCceecCCCCCccceeeEEEEEC--CeEEEEEECCCccc
Confidence            56666555432 2334478887776777774  67899999999764

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=89.31  E-value=0.044  Score=42.25  Aligned_cols=43  Identities=12%  Similarity=0.077  Sum_probs=17.1

Q ss_pred             hhhHHhhcCCc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCcc
Q 045003            2 ISDALRQTSVV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYH   46 (93)
Q Consensus         2 LLD~IR~t~Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHe   46 (93)
                      |+.+|-+...+ ....=|.|.+.-...+..  ++..+.++||||++
T Consensus        19 L~n~l~~~~~~~v~~~~g~T~d~~~~~~~~--~~~~~~l~DT~G~~   62 (436)
T 2hjg_A           19 IFNRIAGERISIVEDTPGVTRDRIYSSAEW--LNYDFNLIDTGGID   62 (436)
T ss_dssp             HHHHHEEEECC-----------CEEEECTT--CSSCCEEEC-----
T ss_pred             HHHHHhCCCceeecCCCCCccceEEEEEEE--CCceEEEEECCCCC
Confidence            55666554433 123346776654444444  46789999999986

>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=89.30  E-value=0.14  Score=37.59  Aligned_cols=45  Identities=7%  Similarity=-0.059  Sum_probs=27.8

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS   49 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs   49 (93)
                      |+.++-+.+...+..-|+|...-  ...+.. +.++.++||||++.|+
T Consensus        19 L~n~L~g~~~~v~~~pg~tv~~~--~~~~~~-~~~l~l~DtpG~~~~~   63 (272)
T 3b1v_A           19 LFNLITGHNQRVGNWPGVTVERK--SGLVKK-NKDLEIQDLPGIYSMS   63 (272)
T ss_dssp             HHHHHHCCCCCCCSSSCCCCSCE--EEECTT-CTTEEEEECCCCSCSS
T ss_pred             HHHHHHCCCCcccCCCCCcEEEE--EEEEec-CCeEEEEECCCcCccC
Confidence            56666655433334446665432  222332 6689999999999886

>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=88.31  E-value=0.26  Score=36.38  Aligned_cols=41  Identities=12%  Similarity=0.179  Sum_probs=19.6

Q ss_pred             ChhhHHhhcCC-cCcccCcceeeecceEEEEcCCCCeeEEEcCCCcc
Q 045003            1 MISDALRQTSV-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYH   46 (93)
Q Consensus         1 sLLD~IR~t~V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHe   46 (93)
                      +|+.+|.+.++ ..+..-|.|.+..-  +..   +.++.++||||--
T Consensus       135 sliN~l~~~~~~~~~~~~g~T~~~~~--~~~---~~~~~l~DtpG~~  176 (282)
T 1puj_A          135 TLINRLAKKNIAKTGDRPGITTSQQW--VKV---GKELELLDTPGIL  176 (282)
T ss_dssp             HHHHHHHTSCCC------------CC--EEE---TTTEEEEECCCCC
T ss_pred             HHHHHHhcCceeecCCCCCeeeeeEE--EEe---CCCEEEEECcCcC
Confidence            46777776653 33344467877653  333   4579999999964

>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP hydrolysis, GDP, GMP, dynamin related, large GTPase family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens} SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A* 2bc9_A* 2d4h_A*

Probab=86.83  E-value=0.48  Score=39.57  Aligned_cols=46  Identities=11%  Similarity=0.049  Sum_probs=28.7

Q ss_pred             ChhhHHhhcCCcCcccC----cceeeecceEEEEc-CCCCeeEEEcCCCccc
Q 045003            1 MISDALRQTSVVAKEAG----GITQHVGAFVIGMS-TGGIKFNFHNCEFYHR   47 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaG----GITQhIGA~~V~~~-~~~~~itFiDTPGHeA   47 (93)
                      +|+.+|.+.+++- ..|    +.|..|-.+.++.+ ..+..++++||||=-.
T Consensus        53 tLiN~L~g~~~~~-~~~~tt~~~T~gi~~~~~~~~~~~~~~i~LiDTpGi~~  103 (592)
T 1f5n_A           53 YLMNKLAGKKKGF-SLGSTVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLGD  103 (592)
T ss_dssp             HHHHHHTTCSSCS-CCCCSSSCCCCSEEEEEEECSSSTTCEEEEEEECCBCC
T ss_pred             HHHHhHcCCCCcc-ccCCCCCCceeEEEEeecccccCCCceEEEecCCCcCc
Confidence            4788888776543 333    34444444444443 3467899999999653

>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=86.42  E-value=0.075  Score=41.19  Aligned_cols=25  Identities=16%  Similarity=0.017  Sum_probs=13.6

Q ss_pred             cceeeecceEEEEcCCCCeeEEEcCCC
Q 045003           18 GITQHVGAFVIGMSTGGIKFNFHNCEF   44 (93)
Q Consensus        18 GITQhIGA~~V~~~~~~~~itFiDTPG   44 (93)
                      |+|.+.-...+..  .+..+.++||||
T Consensus        56 g~t~~~~~~~~~~--~~~~~~liDT~G   80 (456)
T 4dcu_A           56 GVTRDRIYSSAEW--LNYDFNLIDTGG   80 (456)
T ss_dssp             -----CEEEECTT--CSSCCEEECCCC
T ss_pred             CcceeEEEEEEEE--CCceEEEEECCC
Confidence            4555443333332  477899999999

>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=86.12  E-value=0.94  Score=29.98  Aligned_cols=27  Identities=15%  Similarity=0.014  Sum_probs=16.7

Q ss_pred             EEEEcCCCCeeEEEcCCCcccccCchh
Q 045003           27 VIGMSTGGIKFNFHNCEFYHRTSLFFF   53 (93)
Q Consensus        27 ~V~~~~~~~~itFiDTPGHeAFs~f~~   53 (93)
                      ++..++....+.+.||||.+.|..+..
T Consensus        70 ~i~~~g~~~~~~i~Dt~g~~~~~~~~~   96 (191)
T 1oix_A           70 SIQVDGKTIKAQIWDTAGLERYRAITS   96 (191)
T ss_dssp             EEEETTEEEEEEEEEECSCCSSSCCCH
T ss_pred             EEEECCEEEEEEEEECCCCcchhhhhH
Confidence            344432223456799999998876443

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=85.89  E-value=0.45  Score=35.55  Aligned_cols=45  Identities=9%  Similarity=-0.034  Sum_probs=29.5

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccc
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRT   48 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAF   48 (93)
                      |+.+|-+.........+.|+++....+..  ++..+.++||||+..+
T Consensus       183 Lin~L~~~~~~~~~~~~~t~~~~~~~~~~--~~~~~~l~Dt~G~~~~  227 (357)
T 2e87_A          183 LLKALTTAKPEIASYPFTTRGINVGQFED--GYFRYQIIDTPGLLDR  227 (357)
T ss_dssp             HHHHHCSSCCEEECCTTCSSCEEEEEEEE--TTEEEEEEECTTTSSS
T ss_pred             HHHHHhCCCCccCCCCCeeeceeEEEEEe--cCceEEEEeCCCcccc
Confidence            55666555443344456777766555555  3678999999999654

>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=85.84  E-value=0.39  Score=36.86  Aligned_cols=42  Identities=10%  Similarity=0.014  Sum_probs=22.2

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY   45 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH   45 (93)
                      |+..|-+..+...+.-+.|.+.-.-.+.++  +..+.++||||+
T Consensus       195 Lln~L~~~~~~~~~~~~~T~d~~~~~i~~~--g~~v~l~DT~G~  236 (364)
T 2qtf_A          195 LFNSLTGLTQKVDTKLFTTMSPKRYAIPIN--NRKIMLVDTVGF  236 (364)
T ss_dssp             HHHHHHCC-----------CCSCEEEEEET--TEEEEEEECCCB
T ss_pred             HHHHHHCCCccccCCcccccCCEEEEEEEC--CEEEEEEeCCCc
Confidence            556665554433344466766655566664  578999999998

>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=82.30  E-value=0.47  Score=36.03  Aligned_cols=16  Identities=6%  Similarity=0.063  Sum_probs=7.0

Q ss_pred             eeEEEcCCCc-------ccccCc
Q 045003           36 KFNFHNCEFY-------HRTSLF   51 (93)
Q Consensus        36 ~itFiDTPGH-------eAFs~f   51 (93)
                      .++++||||+       +.|..+
T Consensus        96 ~l~i~DTpG~gd~~~~~e~~~~i  118 (361)
T 2qag_A           96 RLTVVDTPGYGDAINCRDCFKTI  118 (361)
T ss_dssp             EEEEEC--------------CCT
T ss_pred             ceEEEEeccccccCccHHHHHHH
Confidence            7999999999       666553

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=81.50  E-value=0.65  Score=37.64  Aligned_cols=13  Identities=0%  Similarity=-0.220  Sum_probs=11.2

Q ss_pred             CeeEEEcCCCccc
Q 045003           35 IKFNFHNCEFYHR   47 (93)
Q Consensus        35 ~~itFiDTPGHeA   47 (93)
                      ..++|+||||+..
T Consensus       154 ~~l~lIDTPG~~~  166 (550)
T 2qpt_A          154 ESISIIDTPGILS  166 (550)
T ss_dssp             HHCEEEECCCBCC
T ss_pred             CCEEEEECcCCCC
Confidence            3799999999975

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=81.25  E-value=1.1  Score=31.27  Aligned_cols=14  Identities=0%  Similarity=-0.095  Sum_probs=11.6

Q ss_pred             CCCeeEEEcCCCcc
Q 045003           33 GGIKFNFHNCEFYH   46 (93)
Q Consensus        33 ~~~~itFiDTPGHe   46 (93)
                      +...++|+||||+.
T Consensus       123 ~~~~l~lvDtpG~~  136 (299)
T 2aka_B          123 HVLNLTLVDLPGMT  136 (299)
T ss_dssp             TCCSEEEEECCCBC
T ss_pred             CCCCceEEeCCCCC
Confidence            35789999999964

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=80.37  E-value=0.58  Score=35.71  Aligned_cols=42  Identities=7%  Similarity=-0.029  Sum_probs=25.3

Q ss_pred             hhhHHhhc------CCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccc
Q 045003            2 ISDALRQT------SVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRT   48 (93)
Q Consensus         2 LLD~IR~t------~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAF   48 (93)
                      |+.+|.+.      .+..+..-|.|++.--  ++.   +..+.++||||-...
T Consensus       178 liN~L~~~~~~~~~~~~~~~~~gtT~~~~~--~~~---~~~~~liDtPG~~~~  225 (369)
T 3ec1_A          178 FINRIIEEATGKGNVITTSYFPGTTLDMIE--IPL---ESGATLYDTPGIINH  225 (369)
T ss_dssp             HHHHHHHHHHHTTCCCEEEECTTSSCEEEE--EEC---STTCEEEECCSCCCC
T ss_pred             HHHHHHhhccCCccceeecCCCCeEEeeEE--EEe---CCCeEEEeCCCcCcH
Confidence            55566554      3334445568877543  333   335999999996543

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	93
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	98.85
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	98.55
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	98.47
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	98.43
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	98.31
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	98.29
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	97.94
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	97.89
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	97.8
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	97.69
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	97.61
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	97.6
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	97.53
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	97.31
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	97.3
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	97.3
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	97.24
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	97.17
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	96.87
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	96.83
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	96.48
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	95.85
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	95.8
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	95.77
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	95.58
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	95.18
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	95.15
d1nrjb_	209	Signal recognition particle receptor beta-subunit	94.94
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	94.7
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	94.69
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	94.49
d2fh5b1	207	Signal recognition particle receptor beta-subunit	94.42
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	94.31
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	94.2
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	94.16
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	93.88
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	93.26
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	93.25
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	93.21
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	93.2
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	93.02
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	92.48
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	92.13
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	92.01
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	91.35
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	91.3
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	89.94
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	89.32
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	89.32
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	89.16
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	88.8
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	88.24
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	87.78
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	87.66
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	87.45
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	86.61
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	86.37
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	86.04
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	85.09
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	82.89
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	82.43
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	81.2
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	80.77
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	80.04

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=98.85  E-value=4.7e-10  Score=78.42  Aligned_cols=50  Identities=32%  Similarity=0.375  Sum_probs=39.9

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEc----------------CCCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMS----------------TGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~----------------~~~~~itFiDTPGHeAFs~   50 (93)
                      +|+++|.+++++..+.|++|+++++..++.+                .++.+++|+|||||+.|..
T Consensus        20 TL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iDtPGh~~f~~   85 (227)
T d1g7sa4          20 TLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAFTT   85 (227)
T ss_dssp             HHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCCTT
T ss_pred             HHHHHHHhhcchheecCceeeeccccccccccccccccccccceeecccccccccccccceecccc
Confidence            4889999999999999999999999998853                2467899999999999965

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=98.55  E-value=4.4e-09  Score=73.43  Aligned_cols=31  Identities=13%  Similarity=0.095  Sum_probs=28.3

Q ss_pred             cceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           18 GITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        18 GITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      |||++++...+.+  ++.+++|||||||+.|..
T Consensus        52 giTi~~~~~~~~~--~~~~i~iiDtPGh~df~~   82 (204)
T d2c78a3          52 GITINTAHVEYET--AKRHYSHVDCPGHADYIK   82 (204)
T ss_dssp             TCCCSCEEEEEEC--SSCEEEEEECCCSGGGHH
T ss_pred             CeEEEeeEEEEEe--CCeEEEEEeCCCchhhHH
Confidence            8999999888887  588999999999999975

>d1f60a3 c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.47  E-value=1.4e-08  Score=73.10  Aligned_cols=45  Identities=9%  Similarity=0.060  Sum_probs=35.0

Q ss_pred             CcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhh-----hhcccEeEEec
Q 045003           17 GGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFV-----QLRNFVIVLRK   65 (93)
Q Consensus        17 GGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~m-----R~RGa~iv~~~   65 (93)
                      -|||+.+++..+.++  +.+++|+|||||++|..  +|     ..-+|++||.-
T Consensus        68 rGiTi~~~~~~~~~~--~~~i~iiDtPGH~df~~--~~~~g~~~~D~ailvvda  117 (239)
T d1f60a3          68 RGITIDIALWKFETP--KYQVTVIDAPGHRDFIK--NMITGTSQADCAILIIAG  117 (239)
T ss_dssp             TTCCCSCSCEEEECS--SEEEEEEECCCCTTHHH--HHHHSSSCCSEEEEEEEC
T ss_pred             ceeccccceeEeccC--CEEEEEEECCCcHHHHH--HHHHHHHHhCEEEEEEEC
Confidence            589999999999985  78999999999999964  21     22345666654

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=98.43  E-value=2.3e-08  Score=69.94  Aligned_cols=37  Identities=14%  Similarity=0.128  Sum_probs=30.9

Q ss_pred             cCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           12 VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        12 a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      ......|||++.+...+..  ++..++|+|||||+.|..
T Consensus        45 ~~Er~rgiTi~~~~~~~~~--~~~~~~~iDtPGh~~f~~   81 (196)
T d1d2ea3          45 PEERARGITINAAHVEYST--AARHYAHTDCPGHADYVK   81 (196)
T ss_dssp             CEEEETTEEEECEEEEEEC--SSCEEEEEECSSHHHHHH
T ss_pred             hhhcCCCccCCcceEEEEe--ceeeEEeecCcchHHHHH
Confidence            3445568999998888877  488999999999999975

>d1kk1a3 c.37.1.8 (A:6-200) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Archaeon Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

Probab=98.31  E-value=1e-07  Score=64.14  Aligned_cols=50  Identities=14%  Similarity=0.052  Sum_probs=35.1

Q ss_pred             ChhhHHhh---cCCcCcccCcceeeecceEEEEcC---------------------CCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQ---TSVVAKEAGGITQHVGAFVIGMST---------------------GGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~---t~Va~~EaGGITQhIGA~~V~~~~---------------------~~~~itFiDTPGHeAFs~   50 (93)
                      +|+++|.+   .........||||+++........                     +..+++|+|||||++|..
T Consensus        20 TL~~~L~g~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iDtPGh~~f~~   93 (195)
T d1kk1a3          20 TLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFIDAPGHEALMT   93 (195)
T ss_dssp             HHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEEEEECSSHHHHHH
T ss_pred             HHHHHHHhhhhhhhHHHHHcCcccccchhhhhhhccchhhhccceeeeeeeeeeecCceeEeeeccchhhhhhH
Confidence            37888864   244455678999999876665431                     123599999999999975

>d1jnya3 c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N-terminal (G) domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=98.29  E-value=6.2e-08  Score=67.62  Aligned_cols=46  Identities=9%  Similarity=0.047  Sum_probs=27.2

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhhhc------ccEeEEecc
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLR------NFVIVLRKN   66 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR~R------Ga~iv~~~~   66 (93)
                      .-|||.+.....+..  ++..|+|||||||+.|+.   .+.+      ||++||.-+
T Consensus        64 ~rg~ti~~~~~~~~~--~~~~i~iiDtPGH~df~~---~~~~g~~~~D~allVVda~  115 (224)
T d1jnya3          64 ERGVTINLTFMRFET--KKYFFTIIDAPGHRDFVK---NMITGASQADAAILVVSAK  115 (224)
T ss_dssp             ----------CEEEC--SSCEEEECCCSSSTTHHH---HHHHTSSCCSEEEEEEECS
T ss_pred             cCCccccceEEEEec--CCceeEEeeCCCcHHHHH---HHHHHHHhhceEEEEEecc
Confidence            457898888888877  488999999999999975   3444      345666654

>d1zunb3 c.37.1.8 (B:16-237) Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain {Pseudomonas syringae pv. tomato [TaxId: 323]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain
species: Pseudomonas syringae pv. tomato [TaxId: 323]

Probab=97.94  E-value=1.6e-06  Score=61.53  Aligned_cols=34  Identities=18%  Similarity=0.070  Sum_probs=26.7

Q ss_pred             ccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           15 EAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        15 EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      ..-|+|+.++......  ++.+++|+|||||+.|..
T Consensus        71 ~~~g~ti~~~~~~~~~--~~~~~~iiD~PGH~dfv~  104 (222)
T d1zunb3          71 REQGITIDVAYRYFST--AKRKFIIADTPGHEQYTR  104 (222)
T ss_dssp             ----CCCCCEEEEEEC--SSEEEEEEECCCSGGGHH
T ss_pred             hccCCCceeeEEEEec--cceEEEEEeccchhhhhh
Confidence            3457999999888887  478999999999999975

>d1r5ba3 c.37.1.8 (A:215-459) Eukaryotic peptide chain release factor ERF2, G domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Eukaryotic peptide chain release factor ERF2, G domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=97.89  E-value=1e-06  Score=63.11  Aligned_cols=32  Identities=16%  Similarity=0.072  Sum_probs=15.1

Q ss_pred             CcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           17 GGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        17 GGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      -|||...+...+.+  +..+++|+|||||+.|..
T Consensus        86 rg~ti~~~~~~~~~--~~~~i~~iDtPGH~df~~  117 (245)
T d1r5ba3          86 KGKTVEVGRAYFET--EHRRFSLLDAPGHKGYVT  117 (245)
T ss_dssp             --------CCEEEC--SSEEEEECCCCC------
T ss_pred             cCcccccccccccc--ccceeeeecccccccchh
Confidence            36777777777766  478999999999999976

>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=97.80  E-value=1.9e-06  Score=63.41  Aligned_cols=33  Identities=12%  Similarity=-0.011  Sum_probs=28.4

Q ss_pred             cCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           16 AGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        16 aGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      .-|||-..+...+.+  ++.+++|||||||..|..
T Consensus        50 ~r~~ti~~~~~~~~~--~~~~~n~iDtPGh~dF~~   82 (267)
T d2dy1a2          50 LHRTTVRTGVAPLLF--RGHRVFLLDAPGYGDFVG   82 (267)
T ss_dssp             HTTSCCSCEEEEEEE--TTEEEEEEECCCSGGGHH
T ss_pred             HhCCeEEeecccccc--cccceeEEccCchhhhhh
Confidence            467888888888888  488999999999999976

>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=97.69  E-value=5.1e-06  Score=61.63  Aligned_cols=32  Identities=13%  Similarity=-0.010  Sum_probs=26.4

Q ss_pred             CcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           17 GGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        17 GGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      -|||-......+.+  ++.+|+|+|||||..|..
T Consensus        55 r~~si~~~~~~~~~--~~~~~n~iDtPG~~dF~~   86 (276)
T d2bv3a2          55 RGITITAAVTTCFW--KDHRINIIDAPGHVDFTI   86 (276)
T ss_dssp             CCCCCCCSEEEEEE--TTEEEEEECCCSSSSCST
T ss_pred             cCCccccceeeecc--CCeEEEEecCCchhhhHH
Confidence            36677777777777  588999999999999986

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.61  E-value=7.4e-06  Score=53.20  Aligned_cols=67  Identities=12%  Similarity=0.053  Sum_probs=30.1

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhhhc---ccEeEEeccc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLR---NFVIVLRKNN   67 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR~R---Ga~iv~~~~~   67 (93)
                      +||.++.+......+.-.+++++...++..++....+.+.|||||+.|..+..+-.+   ++.+|..-.+
T Consensus        21 sLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~e~~~~~~~~~~~~~~~~i~v~d~~~   90 (173)
T d2fu5c1          21 CVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITN   90 (173)
T ss_dssp             -------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEEEEEEETTC
T ss_pred             HHHHHHHhCCCCCccCccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHhccCCCEEEEEEECCC
Confidence            467777766666777778899999999988644556788999999999875443333   4444545433

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.60  E-value=1.6e-05  Score=60.26  Aligned_cols=49  Identities=14%  Similarity=0.043  Sum_probs=33.5

Q ss_pred             CcceeeecceEEEEcC--------------CCCeeEEEcCCCcccccCch--hhh-hcccEeEEec
Q 045003           17 GGITQHVGAFVIGMST--------------GGIKFNFHNCEFYHRTSLFF--FVQ-LRNFVIVLRK   65 (93)
Q Consensus        17 GGITQhIGA~~V~~~~--------------~~~~itFiDTPGHeAFs~f~--~mR-~RGa~iv~~~   65 (93)
                      -|||.+..+..+.++.              +...|+|||||||..|..-.  .|| +-||.+||+-
T Consensus        64 RgiTi~~~~~~l~~~~~~~~~~~~~~~~~~~~~~inliDtPGh~dF~~ev~~al~~~D~allVVda  129 (341)
T d1n0ua2          64 RGITIKSTAISLYSEMSDEDVKEIKQKTDGNSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDT  129 (341)
T ss_dssp             -CCCBCCCEEEEEEECCHHHHHHCSSCCCSSEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEET
T ss_pred             cCceEeCCEEEEEeccCcccccchhccccccceEEEEEcCCCcHHHHHHHHHHHhhcCceEEEEec
Confidence            5899998888886631              23469999999999997510  111 4567777765

>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=97.53  E-value=4.6e-05  Score=48.72  Aligned_cols=67  Identities=7%  Similarity=0.028  Sum_probs=41.0

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhhhc---ccEeEEeccc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLR---NFVIVLRKNN   67 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR~R---Ga~iv~~~~~   67 (93)
                      ||+.++.+........-.++.......+..++....+.+.||||++.|..+...--+   ++.+|..-++
T Consensus        17 Sli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~   86 (166)
T d1g16a_          17 CLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITD   86 (166)
T ss_dssp             HHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEEEETTC
T ss_pred             HHHHHHHhCCCCCccCCccceeEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCC
Confidence            467777776766777788999999999988644456778999999999875533333   3344444443

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.31  E-value=6.8e-05  Score=48.29  Aligned_cols=58  Identities=10%  Similarity=-0.052  Sum_probs=33.1

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhhhcc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLRN   58 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR~RG   58 (93)
                      +|+.++.+.........-++-.+....+.......++.|.||||++.|..+..+-.++
T Consensus        20 sLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~wDt~G~e~~~~~~~~~~~~   77 (169)
T d3raba_          20 SFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRTITTAYYRG   77 (169)
T ss_dssp             HHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTTTT
T ss_pred             HHHHHHHcCCCCcccccccccceeeEEEEeecceEEEEEEECCCchhhHHHHHHHHhc
Confidence            3677776554433333333333334445444345579999999999987644433333

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.30  E-value=8.8e-05  Score=47.63  Aligned_cols=69  Identities=7%  Similarity=0.057  Sum_probs=35.5

Q ss_pred             ChhhHHhhcC-CcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhhhc---ccEeEEeccccc
Q 045003            1 MISDALRQTS-VVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLR---NFVIVLRKNNCQ   69 (93)
Q Consensus         1 sLLD~IR~t~-Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR~R---Ga~iv~~~~~~~   69 (93)
                      +|+.++.+.. +.....-.+...+....+...+..-.+.|.|||||+.|..+.....+   ++.+|..-.+..
T Consensus        21 sli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~d~~i~v~d~~~~~   93 (170)
T d2g6ba1          21 CLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKA   93 (170)
T ss_dssp             HHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCSEEEEEEETTCHH
T ss_pred             HHHHHHHhCCCCcccccceeeeeeEEEEEEecCcEEEEEEEECCCchhhHHHHHHhhcCCceeEEEecCCccc
Confidence            3566655544 33444455666777777777534457899999999999775433333   334444444333

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.30  E-value=0.00013  Score=48.20  Aligned_cols=52  Identities=6%  Similarity=-0.013  Sum_probs=35.2

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      +|+..+.+..........++.......+...+....+.++||||++.|..+.
T Consensus        21 sli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~   72 (194)
T d2bcgy1          21 CLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTIT   72 (194)
T ss_dssp             HHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCC
T ss_pred             HHHHHHhhCCCCCCcCCccceeEEEEEEEEeeEEEEEEEEECCCchhhHHHH
Confidence            3667776655555555555555555666665456688899999999998743

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.24  E-value=0.00016  Score=46.81  Aligned_cols=53  Identities=9%  Similarity=-0.026  Sum_probs=41.0

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchh
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFF   53 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~   53 (93)
                      +|+.++.+..........++..+....+...+...++.+.||||++.+..+..
T Consensus        22 sli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~   74 (177)
T d1x3sa1          22 SLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTP   74 (177)
T ss_dssp             HHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHH
T ss_pred             HHHHHHHhCCCCCccccceeecceeEEEEEeccccEEEEEECCCchhhHHHHH
Confidence            46777777677777777888888888887764556799999999999877543

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.17  E-value=0.00012  Score=46.97  Aligned_cols=53  Identities=8%  Similarity=-0.009  Sum_probs=39.5

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchh
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFF   53 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~   53 (93)
                      ||+.++-+......+.-.++..+....+...+..-.+.+.||||++.|..+..
T Consensus        20 sLi~~l~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~   72 (171)
T d2ew1a1          20 CLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQ   72 (171)
T ss_dssp             HHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHG
T ss_pred             HHHHHHHhCCCCCcccccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHH
Confidence            46777777676777777888888888888754445678899999999876433

>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=96.87  E-value=9.1e-05  Score=49.93  Aligned_cols=16  Identities=6%  Similarity=-0.074  Sum_probs=13.9

Q ss_pred             CeeEEEcCCCcccccC
Q 045003           35 IKFNFHNCEFYHRTSL   50 (93)
Q Consensus        35 ~~itFiDTPGHeAFs~   50 (93)
                      +.++++|||||+.|..
T Consensus        86 r~~~iiD~PGH~df~~  101 (205)
T d2qn6a3          86 RRISFIDAPGHEVLMA  101 (205)
T ss_dssp             EEEEEEECSCHHHHHH
T ss_pred             EEEEEeccchHHHHHh
Confidence            3699999999999964

>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=96.83  E-value=0.00039  Score=44.34  Aligned_cols=68  Identities=13%  Similarity=0.073  Sum_probs=45.9

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhh--hh-cccEeEEecccc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFV--QL-RNFVIVLRKNNC   68 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~m--R~-RGa~iv~~~~~~   68 (93)
                      ||+.++.+.+........+++.+....+..++..-.+.+.||||++.|..+..+  |. .++.+|..-.+.
T Consensus        19 sli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~d~~ilv~d~~~~   89 (166)
T d1z0fa1          19 CLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRR   89 (166)
T ss_dssp             HHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEEEEEEETTCH
T ss_pred             HHHHHHHhCCCCCcccccccccceeEEEEECCEEEEEEEeccCCchhHHHHHHHHhcCCcEEEEEeccCch
Confidence            466677666666666777888888888887644458889999999999764322  22 244555554443

>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=96.48  E-value=0.00047  Score=45.11  Aligned_cols=48  Identities=13%  Similarity=0.135  Sum_probs=27.0

Q ss_pred             ChhhHHhhcCC-------cCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSV-------VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~V-------a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      +|+.+|.+...       .....-|||+.++-..+..  ++..++++|||||++|..
T Consensus        20 TL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~--~~~~~~~~d~~g~~~~~~   74 (179)
T d1wb1a4          20 TLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKL--ENYRITLVDAPGHADLIR   74 (179)
T ss_dssp             HHHHHHHTTC--------------------CCCEEEE--TTEEEEECCCSSHHHHHH
T ss_pred             HHHHHHHHhcCceecccccceeeeeeecccccccccc--CCcccccccccccccccc
Confidence            36666654322       2233458888888888877  488999999999999864

>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=95.85  E-value=0.0007  Score=43.52  Aligned_cols=44  Identities=7%  Similarity=-0.060  Sum_probs=29.3

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY   45 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH   45 (93)
                      ||+.+|.+.++.....-+.|.........+. ++..++|+||||+
T Consensus        16 SLin~L~~~~~~~~~~~~~T~~~~~~~~~~~-~~~~~~~~DtpG~   59 (185)
T d1lnza2          16 TLLSVVSSAKPKIADYHFTTLVPNLGMVETD-DGRSFVMADLPGL   59 (185)
T ss_dssp             HHHHHSEEECCEESSTTSSCCCCCEEEEECS-SSCEEEEEEHHHH
T ss_pred             HHHHHHhCCCCceecCCCceEeeeeceeEec-CCcEEEEecCCCc
Confidence            4788887777655544455655444444443 5678999999996

>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=95.80  E-value=0.0031  Score=40.06  Aligned_cols=65  Identities=9%  Similarity=0.055  Sum_probs=32.7

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhh--h-hcccEeEEecc
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFV--Q-LRNFVIVLRKN   66 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~m--R-~RGa~iv~~~~   66 (93)
                      ||.++-..........-++-......+..+.....+.+.|||||+.|..+...  + ..++.+|..-.
T Consensus        21 ll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~   88 (174)
T d2bmea1          21 LLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDIT   88 (174)
T ss_dssp             HHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEEEEEEETT
T ss_pred             HHHHHHhCCCCcccccccccceeeEEEEecCcceeEEEEECCCchhhhhhHHHHhhhCCEEEEEEecc
Confidence            45555443332222222222333344444434557889999999998653222  2 23444555443

>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=95.77  E-value=0.0016  Score=41.17  Aligned_cols=39  Identities=10%  Similarity=0.085  Sum_probs=29.7

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY   45 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH   45 (93)
                      ||+.+|.+.++.....-|.||++..+  ..    ..+.|+||||+
T Consensus        15 sLin~l~~~~~~~~~~~g~T~~~~~~--~~----~~~~ivDtpG~   53 (184)
T d2cxxa1          15 TLIYRLTGKKVRRGKRPGVTRKIIEI--EW----KNHKIIDMPGF   53 (184)
T ss_dssp             HHHHHHHSCCCSSSSSTTCTTSCEEE--EE----TTEEEEECCCB
T ss_pred             HHHHHHhCCCceeeCCCCEeeccccc--cc----ccceecccCCc
Confidence            47888988887777777899997543  32    35789999996

>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=95.58  E-value=0.0064  Score=38.55  Aligned_cols=54  Identities=7%  Similarity=-0.012  Sum_probs=36.7

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhh
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFV   54 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~m   54 (93)
                      +|+..+.+......+.--++.......+........+.+.||||++.|..+..+
T Consensus        21 sLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~   74 (170)
T d1r2qa_          21 SLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPM   74 (170)
T ss_dssp             HHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHH
T ss_pred             HHHHHHHhCCCCcccccccccccccceeeccceEEEEEeccCCCchhhhhhHHH
Confidence            466777766655565555666666566665434557889999999999875543

>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=95.18  E-value=0.0089  Score=37.29  Aligned_cols=65  Identities=12%  Similarity=0.114  Sum_probs=38.9

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchh--hhh-cccEeEEecccccc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFF--VQL-RNFVIVLRKNNCQG   70 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~--mR~-RGa~iv~~~~~~~~   70 (93)
                      +|+.+|.+..+   +.-+.|..+....+..  ++..+.+.||||++.|.....  ++. .++.+|+.-.++.+
T Consensus        17 sLi~~l~~~~~---~~~~~t~~~~~~~~~~--~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~d~~~   84 (165)
T d1ksha_          17 TILKKFNGEDV---DTISPTLGFNIKTLEH--RGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQR   84 (165)
T ss_dssp             HHHHHHTTCCC---SSCCCCSSEEEEEEEE--TTEEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTCGGG
T ss_pred             HHHHHHcCCCC---CcccceEeeeeeeccc--cccceeeeecCcchhhhhHHHhhhhhhhcceeeeecccchh
Confidence            36677765543   2345666666666655  577999999999998854322  222 23444555555443

>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=95.15  E-value=0.011  Score=37.68  Aligned_cols=51  Identities=10%  Similarity=0.018  Sum_probs=27.6

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCch
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      |+.++-+........-.++-...-..+..++..-.+.+.||||++.|..+.
T Consensus        20 Li~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~e~~~~~~   70 (175)
T d2f9la1          20 LLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRIT   70 (175)
T ss_dssp             HHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCC
T ss_pred             HHHHHHhCCCCCcccccccceeeeEEEEECCEEEEEEecccCCcHHHHHHH
Confidence            455554433333322233323333445554334578899999999998744

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.94  E-value=0.0029  Score=40.52  Aligned_cols=43  Identities=9%  Similarity=-0.055  Sum_probs=28.2

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS   49 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs   49 (93)
                      +|+.+|.+.+++     +.|+.++...... .++..+.+.|||||+.+.
T Consensus        18 SLln~l~~~~~~-----~~tt~~~~~~~~~-~~~~~~~l~D~~g~~~~~   60 (209)
T d1nrjb_          18 SLLTLLTTDSVR-----PTVVSQEPLSAAD-YDGSGVTLVDFPGHVKLR   60 (209)
T ss_dssp             HHHHHHHHSSCC-----CBCCCSSCEEETT-GGGSSCEEEECCCCGGGT
T ss_pred             HHHHHHhCCCCC-----CeEEecceEEEEE-eCCeEEEEEecccccchh
Confidence            478888775543     3455555444322 257889999999998653

>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=94.70  E-value=0.0099  Score=37.81  Aligned_cols=42  Identities=7%  Similarity=0.158  Sum_probs=26.9

Q ss_pred             ChhhHHhhcC--CcCcccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003            1 MISDALRQTS--VVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY   45 (93)
Q Consensus         1 sLLD~IR~t~--Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH   45 (93)
                      +|+.+|.+.+  ++....+.+++.++.....   .+.++.|+||||.
T Consensus        16 TLin~L~~~~~~~~~~~~~t~~~~~~~~~~~---~~~~~~~~DtpG~   59 (180)
T d1udxa2          16 SLLAAMTRAHPKIAPYPFTTLSPNLGVVEVS---EEERFTLADIPGI   59 (180)
T ss_dssp             HHHHHHCSSCCEECCCTTCSSCCEEEEEECS---SSCEEEEEECCCC
T ss_pred             HHHHHHhCCCCceeccCCCceeeeeceeeec---CCCeEEEcCCCee
Confidence            4778887654  4444445555555533332   5778999999993

>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=94.69  E-value=0.019  Score=35.76  Aligned_cols=54  Identities=7%  Similarity=-0.048  Sum_probs=31.0

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhh
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFV   54 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~m   54 (93)
                      +|+.++.+........-.++-......+..++....+.+.||||++.|..+...
T Consensus        15 sLi~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~   68 (164)
T d1yzqa1          15 SLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPS   68 (164)
T ss_dssp             HHHHHHHHSCCCSSCCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGGGGHHH
T ss_pred             HHHHHHHhCCCCCccccceeeeccceeeccCCCceeeeecccCCcchhccchHH
Confidence            356666554433333333333333344444334567899999999999875443

>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=94.49  E-value=0.019  Score=36.45  Aligned_cols=48  Identities=13%  Similarity=0.041  Sum_probs=32.9

Q ss_pred             ChhhHHhhcCCcC-cccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003            1 MISDALRQTSVVA-KEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus         1 sLLD~IR~t~Va~-~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      ||+.+|.+.+++. ...-+.|++.-......  .+..++++||||+.....
T Consensus        20 SLin~l~~~~~~~~~~~~~tt~~~~~~~~~~--~~~~~~~~DtpG~~~~~~   68 (178)
T d1wf3a1          20 TLLNNLLGVKVAPISPRPQTTRKRLRGILTE--GRRQIVFVDTPGLHKPMD   68 (178)
T ss_dssp             HHHHHHHTSCCSCCCSSSCCCCSCEEEEEEE--TTEEEEEEECCCCCCCCS
T ss_pred             HHHHHHhCCCceeecccCCcccccccceeee--eeeeeeeccccccccccc
Confidence            4777787765432 44566777776655555  477899999999866543

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.42  E-value=0.011  Score=38.36  Aligned_cols=47  Identities=9%  Similarity=0.055  Sum_probs=34.6

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCccccc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTS   49 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs   49 (93)
                      +||.+|.+......+. .++++++.+.+.. ..+..+.+.|||||+.|.
T Consensus        15 sLl~~l~~~~~~~~~~-t~~~~~~~~~~~~-~~~~~~~~~d~~g~~~~~   61 (207)
T d2fh5b1          15 LLFVRLLTGQYRDTQT-SITDSSAIYKVNN-NRGNSLTLIDLPGHESLR   61 (207)
T ss_dssp             HHHHHHHHSCCCCBCC-CCSCEEEEEECSS-TTCCEEEEEECCCCHHHH
T ss_pred             HHHHHHHcCCCCcccC-CeeEEEEEEEEee-eeeeeeeeeecccccccc
Confidence            4788888877766553 5667777666543 356789999999999874

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.31  E-value=0.0079  Score=44.95  Aligned_cols=45  Identities=11%  Similarity=-0.028  Sum_probs=27.8

Q ss_pred             ChhhHHhhcCC-----cCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccc
Q 045003            1 MISDALRQTSV-----VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRT   48 (93)
Q Consensus         1 sLLD~IR~t~V-----a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAF   48 (93)
                      ||+.+|++.+.     +.....+.||++-.|..+   +.+.++|+||||-...
T Consensus        71 SLiNaL~G~~~~~~~~~~~g~~~tT~~~~~~~~~---~~~~~~l~DtPG~~~~  120 (400)
T d1tq4a_          71 SFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHP---NIPNVVFWDLPGIGST  120 (400)
T ss_dssp             HHHHHHHTCCTTSTTSCCCCC----CCCEEEECS---SCTTEEEEECCCGGGS
T ss_pred             HHHHHHhCCCcCCCccCCCCCCCCceeeeeeecc---CCCeEEEEeCCCcccc
Confidence            57888987543     333345678887655432   5678999999997543

>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=94.20  E-value=0.0098  Score=37.79  Aligned_cols=28  Identities=4%  Similarity=-0.286  Sum_probs=13.7

Q ss_pred             EEEEcCCCCeeEEEcCCCcccccCchhh
Q 045003           27 VIGMSTGGIKFNFHNCEFYHRTSLFFFV   54 (93)
Q Consensus        27 ~V~~~~~~~~itFiDTPGHeAFs~f~~m   54 (93)
                      .+..++....+.+.||||++.|..+..+
T Consensus        40 ~i~~~~~~~~l~i~D~~g~e~~~~~~~~   67 (168)
T d2gjsa1          40 SIVVDGEEASLMVYDIWEQDGGRWLPGH   67 (168)
T ss_dssp             EEEETTEEEEEEEEECC-------CHHH
T ss_pred             eeeccccccceeeeecccccccceeccc
Confidence            3444444568899999999999875443

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=94.16  E-value=0.018  Score=40.14  Aligned_cols=43  Identities=9%  Similarity=-0.005  Sum_probs=29.0

Q ss_pred             ChhhHHhhcCCcC-cccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003            1 MISDALRQTSVVA-KEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY   45 (93)
Q Consensus         1 sLLD~IR~t~Va~-~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH   45 (93)
                      +|+.+|-+..++. ....+-|++.-.+....  ++..++|+||||=
T Consensus        47 SliN~ilg~~~~~vs~~~~~T~~~~~~~~~~--~g~~i~viDTPGl   90 (257)
T d1h65a_          47 STVNSIIGERVVSISPFQSEGPRPVMVSRSR--AGFTLNIIDTPGL   90 (257)
T ss_dssp             HHHHHHHTSCCSCCCSSSCCCSSCEEEEEEE--TTEEEEEEECCCS
T ss_pred             HHHHHHhCCCceeecCCCCcceeEEEEEEEe--ccEEEEEEeeecc
Confidence            3566776665543 23456777766666655  4789999999994

>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=93.88  E-value=0.027  Score=35.31  Aligned_cols=64  Identities=8%  Similarity=0.020  Sum_probs=36.9

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchh---hhhcccEeEEecccc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFF---VQLRNFVIVLRKNNC   68 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~---mR~RGa~iv~~~~~~   68 (93)
                      +|+..+.+..+.....  -|..+....+..  +...+.+.|||||+.|.....   -...++.+|++-.++
T Consensus        17 sLl~~l~~~~~~~~~~--~T~~~~~~~~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~~   83 (164)
T d1zd9a1          17 TFVNVIASGQFNEDMI--PTVGFNMRKITK--GNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQ   83 (164)
T ss_dssp             HHHHHHHHSCCCCSCC--CCCSEEEEEEEE--TTEEEEEEEECCSHHHHTTHHHHHTTCSEEEEEEETTCG
T ss_pred             HHHHHHHcCCCCCccc--ccceeeeeeeee--eeEEEEEeeccccccccccccccccccchhhcccccccc
Confidence            3666676655443321  244444444444  577899999999999875322   123445555554444

>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=93.26  E-value=0.044  Score=35.28  Aligned_cols=22  Identities=0%  Similarity=-0.158  Sum_probs=17.5

Q ss_pred             CCCeeEEEcCCCcccccCchhh
Q 045003           33 GGIKFNFHNCEFYHRTSLFFFV   54 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~f~~m   54 (93)
                      +...+.+.||||++.|..+...
T Consensus        49 ~~~~l~i~D~~g~~~~~~~~~~   70 (191)
T d2ngra_          49 EPYTLGLFDTAGQEDYDRLRPL   70 (191)
T ss_dssp             EEEEEEEEEECCSGGGTTTGGG
T ss_pred             ceeeeeccccccchhhhhhhhh
Confidence            4457999999999999875443

>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=93.25  E-value=0.033  Score=34.15  Aligned_cols=44  Identities=18%  Similarity=0.160  Sum_probs=30.7

Q ss_pred             ChhhHHhhcCCc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCcc
Q 045003            1 MISDALRQTSVV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYH   46 (93)
Q Consensus         1 sLLD~IR~t~Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHe   46 (93)
                      ||+.+|.+.++. .....|.|+..-...+..  ++..+.+.||||+.
T Consensus        15 SLin~l~g~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~Dt~G~~   59 (160)
T d1xzpa2          15 TLLNRLLNEDRAIVTDIPGTTRDVISEEIVI--RGILFRIVDTAGVR   59 (160)
T ss_dssp             HHHHHHHHHTBCCCCCSSCCSSCSCCEEEEE--TTEEEEEEESSCCC
T ss_pred             HHHHHHhCCCceeeeccccccccceeEEEEe--CCeeEEeccccccc
Confidence            477888766543 344456777776666666  47889999999963

>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=93.21  E-value=0.061  Score=33.95  Aligned_cols=20  Identities=0%  Similarity=-0.049  Sum_probs=16.4

Q ss_pred             CCCeeEEEcCCCcccccCch
Q 045003           33 GGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~f~   52 (93)
                      +..++.+.||||++.|..+.
T Consensus        48 ~~~~l~i~D~~g~~~~~~~~   67 (177)
T d1kmqa_          48 KQVELALWDTAGLEDYDRLR   67 (177)
T ss_dssp             EEEEEEEEEECCSGGGTTTG
T ss_pred             cceeeeccccCccchhcccc
Confidence            34579999999999998754

>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=93.20  E-value=0.024  Score=36.07  Aligned_cols=28  Identities=18%  Similarity=-0.008  Sum_probs=20.3

Q ss_pred             CCCCeeEEEcCCCcccccCchhhhhccc
Q 045003           32 TGGIKFNFHNCEFYHRTSLFFFVQLRNF   59 (93)
Q Consensus        32 ~~~~~itFiDTPGHeAFs~f~~mR~RGa   59 (93)
                      +...++.+.||||.+.|..+...-.+++
T Consensus        49 ~~~~~l~i~D~~g~~~~~~~~~~~~~~~   76 (170)
T d1i2ma_          49 RGPIKFNVWDTAGQEKFGGLRDGYYIQA   76 (170)
T ss_dssp             TCCEEEEEEECTTHHHHSSCGGGGTTTC
T ss_pred             cccccccccccccccccceecchhcccc
Confidence            3455799999999999987655444443

>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=93.02  E-value=0.018  Score=36.79  Aligned_cols=31  Identities=6%  Similarity=0.092  Sum_probs=20.1

Q ss_pred             CeeEEEcCCCcccccCchhhh---hcccEeEEec
Q 045003           35 IKFNFHNCEFYHRTSLFFFVQ---LRNFVIVLRK   65 (93)
Q Consensus        35 ~~itFiDTPGHeAFs~f~~mR---~RGa~iv~~~   65 (93)
                      .++.+.|||||+.|..+..+-   +.|+.+|..-
T Consensus        64 ~~~~i~dt~G~e~~~~~~~~~~~~~~~~i~v~d~   97 (186)
T d2f7sa1          64 VHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDL   97 (186)
T ss_dssp             EEEEEEEEESHHHHHHHHHHHHTTCCEEEEEEET
T ss_pred             EEeccccCCcchhhHHHHHHHHhcCCEEEEEEec
Confidence            368999999999997643332   2344455543

>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=92.48  E-value=0.071  Score=33.34  Aligned_cols=26  Identities=15%  Similarity=-0.037  Sum_probs=18.8

Q ss_pred             CCeeEEEcCCCcccccCchhhhhccc
Q 045003           34 GIKFNFHNCEFYHRTSLFFFVQLRNF   59 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~f~~mR~RGa   59 (93)
                      ...+.+.||||++.|..+..+..+++
T Consensus        52 ~~~~~i~d~~g~~~~~~~~~~~~~~~   77 (167)
T d1z0ja1          52 LHKFLIWDTAGLERFRALAPMYYRGS   77 (167)
T ss_dssp             EEEEEEEEECCSGGGGGGTHHHHTTC
T ss_pred             ccceeeeecCCchhhhHHHHHHHhhc
Confidence            44677899999999987655544443

>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=92.13  E-value=0.082  Score=33.01  Aligned_cols=53  Identities=9%  Similarity=0.009  Sum_probs=30.8

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchh
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFF   53 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~   53 (93)
                      ||+..+.+........-.+.-.+....+...+....+.+.||||++.+..+..
T Consensus        18 sLi~~~~~~~f~~~~~~t~~~~~~~~~i~~~~~~~~l~i~d~~g~~~~~~~~~   70 (170)
T d1ek0a_          18 SIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAP   70 (170)
T ss_dssp             HHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHH
T ss_pred             HHHHHHHhCCCCccccccccceeeccccccccccccccccccCCchhHHHHHH
Confidence            35666555444443333222233344555543455899999999999876543

>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=92.01  E-value=0.078  Score=33.42  Aligned_cols=53  Identities=9%  Similarity=-0.006  Sum_probs=29.1

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhh
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFV   54 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~m   54 (93)
                      |+.++-+........-..+................+.+.||||++.+..+...
T Consensus        19 li~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~   71 (173)
T d2a5ja1          19 LLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRS   71 (173)
T ss_dssp             HHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHH
T ss_pred             HHHHHhcCCCCCCcccceeeccceeeeeeeeeEEEEEeecccCccchhhHHHH
Confidence            55554443333333333444444444544434568899999999999875543

>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=91.35  E-value=0.13  Score=31.89  Aligned_cols=28  Identities=4%  Similarity=-0.069  Sum_probs=19.5

Q ss_pred             CCCeeEEEcCCCcccccCchhhhhcccE
Q 045003           33 GGIKFNFHNCEFYHRTSLFFFVQLRNFV   60 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~f~~mR~RGa~   60 (93)
                      ....+.+.||||++.|..+...-.|++.
T Consensus        49 ~~~~~~i~d~~g~~~~~~~~~~~~~~~~   76 (164)
T d1z2aa1          49 EDVRLMLWDTAGQEEFDAITKAYYRGAQ   76 (164)
T ss_dssp             EEEEEEEECCTTGGGTTCCCHHHHTTCC
T ss_pred             ceeeeeeeccCCccchhhhhhhhhccCc
Confidence            3457899999999999875543344433

>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=91.30  E-value=0.14  Score=32.65  Aligned_cols=22  Identities=0%  Similarity=-0.218  Sum_probs=16.8

Q ss_pred             CCCeeEEEcCCCcccccCchhh
Q 045003           33 GGIKFNFHNCEFYHRTSLFFFV   54 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~f~~m   54 (93)
                      ..-++.+.||||++.|..+...
T Consensus        55 ~~~~l~i~D~~g~e~~~~~~~~   76 (185)
T d2atxa1          55 KQYLLGLYDTAGQEDYDRLRPL   76 (185)
T ss_dssp             CEEEEEEECCCCSSSSTTTGGG
T ss_pred             ceEEeecccccccchhhhhhhh
Confidence            3456889999999999875433

>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=89.94  E-value=0.38  Score=28.05  Aligned_cols=53  Identities=9%  Similarity=0.058  Sum_probs=34.7

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhhhcc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLRN   58 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR~RG   58 (93)
                      |||.+|.+.+++..     +..++........+.....+.||+|+..+......+.+.
T Consensus        15 SLln~l~~~~~~~~-----~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   67 (166)
T d2qtvb1          15 TLLHMLKNDRLATL-----QPTWHPTSEELAIGNIKFTTFDLGGHIQARRLWKDYFPE   67 (166)
T ss_dssp             HHHHHHHHSCCCCC-----CCCCSCEEEEECCTTCCEEEEECCCSGGGGGGGGGGCTT
T ss_pred             HHHHHHhCCCCCee-----eceeeEeEEEeccCCeeEEEEeeccchhhhhhHhhhhhh
Confidence            47788887766532     334455555544457889999999999887644444433

>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=89.32  E-value=0.15  Score=31.54  Aligned_cols=36  Identities=17%  Similarity=0.185  Sum_probs=23.6

Q ss_pred             ccCcceeeecceEEEEcCCCCeeEEEcCCCcccccC
Q 045003           15 EAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        15 EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~   50 (93)
                      +....+..+|........++..+.+.||||++.|..
T Consensus        40 ~~~~~~~~~~~~~~~i~~~~~~~~i~d~~g~~~~~~   75 (176)
T d1fzqa_          40 DISHITPTQGFNIKSVQSQGFKLNVWDIGGQRKIRP   75 (176)
T ss_dssp             CCEEEEEETTEEEEEEEETTEEEEEEECSSCGGGHH
T ss_pred             CCCcceeeeeeeEEEeccCCeeEeEeeccccccchh
Confidence            333445555544433433567899999999999865

>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=89.32  E-value=0.17  Score=31.47  Aligned_cols=68  Identities=4%  Similarity=-0.036  Sum_probs=30.1

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhh--h-hcccEeEEecccc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFV--Q-LRNFVIVLRKNNC   68 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~m--R-~RGa~iv~~~~~~   68 (93)
                      +|+.++.+....+...--+.-....-.+...+....+.+.||||.+.+..+...  + ..++.+|..-.+.
T Consensus        18 sLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~~   88 (167)
T d1z08a1          18 SLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDE   88 (167)
T ss_dssp             HHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEEEEEETTCH
T ss_pred             HHHHHHHhCCCCcccccccccchheeeeccCCccceeeeeccCCcceecccchhhccCCceeEEEEeCCch
Confidence            356665554433322222222333333444334567889999999988664322  2 3345555554433

>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=89.16  E-value=0.23  Score=31.22  Aligned_cols=28  Identities=0%  Similarity=-0.160  Sum_probs=19.5

Q ss_pred             eEEEEcCCCCeeEEEcCCCcccccCchh
Q 045003           26 FVIGMSTGGIKFNFHNCEFYHRTSLFFF   53 (93)
Q Consensus        26 ~~V~~~~~~~~itFiDTPGHeAFs~f~~   53 (93)
                      ..+..++....+.+.||||++.|..+..
T Consensus        45 ~~~~~~~~~~~l~~~d~~g~~~~~~~~~   72 (173)
T d2fn4a1          45 KICSVDGIPARLDILDTAGQEEFGAMRE   72 (173)
T ss_dssp             EEEEETTEEEEEEEEECCCTTTTSCCHH
T ss_pred             eEeccCCeeeeeeccccccccccccccc
Confidence            3455543445788899999999977543

>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=88.80  E-value=0.36  Score=30.43  Aligned_cols=33  Identities=0%  Similarity=-0.114  Sum_probs=22.5

Q ss_pred             EEEcCCCCeeEEEcCCCcccccCchhhhhcccE
Q 045003           28 IGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNFV   60 (93)
Q Consensus        28 V~~~~~~~~itFiDTPGHeAFs~f~~mR~RGa~   60 (93)
                      +..+....++.+.|++|++.|..+..+-.+++.
T Consensus        46 ~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~   78 (183)
T d1mh1a_          46 VMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTD   78 (183)
T ss_dssp             EEETTEEEEEEEECCCCSGGGTTTGGGGCTTCS
T ss_pred             eeccCcceEEEeecccccccchhhhhhcccccc
Confidence            333334567889999999999986655444433

>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=88.24  E-value=0.37  Score=30.67  Aligned_cols=21  Identities=10%  Similarity=-0.089  Sum_probs=16.4

Q ss_pred             CCCCeeEEEcCCCcccccCch
Q 045003           32 TGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus        32 ~~~~~itFiDTPGHeAFs~f~   52 (93)
                      +....+.+.||||++.|..+.
T Consensus        47 ~~~~~~~i~D~~g~~~~~~~~   67 (179)
T d1m7ba_          47 TQRIELSLWDTSGSPYYDNVR   67 (179)
T ss_dssp             SCEEEEEEEEECCSGGGTTTG
T ss_pred             ceEEeeccccccccccccccc
Confidence            345578899999999997643

>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=87.78  E-value=0.22  Score=31.21  Aligned_cols=26  Identities=8%  Similarity=0.069  Sum_probs=15.2

Q ss_pred             CCCeeEEEcCCCcccccCchhhhhcc
Q 045003           33 GGIKFNFHNCEFYHRTSLFFFVQLRN   58 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~f~~mR~RG   58 (93)
                      ++..+.+.||||++.|..+...-.++
T Consensus        59 ~~~~~~i~D~~g~~~~~~~~~~~~~~   84 (182)
T d1moza_          59 KNLKLNVWDLGGQTSIRPYWRCYYAD   84 (182)
T ss_dssp             TTEEEEEEEEC----CCTTGGGTTTT
T ss_pred             CCEEEEEEecccccccchhHHhhhcc
Confidence            46789999999999987654443333

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=87.66  E-value=0.15  Score=35.47  Aligned_cols=40  Identities=13%  Similarity=0.199  Sum_probs=19.7

Q ss_pred             ChhhHHhhcCC-cCcccCcceeeecceEEEEcCCCCeeEEEcCCCc
Q 045003            1 MISDALRQTSV-VAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFY   45 (93)
Q Consensus         1 sLLD~IR~t~V-a~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGH   45 (93)
                      ||+.+|++.++ ..+..=|+|-++--  +..   ++++.++||||=
T Consensus       127 sliN~L~~~~~~~~~~~pG~Tr~~~~--i~~---~~~~~l~DTPGi  167 (273)
T d1puja_         127 TLINRLAKKNIAKTGDRPGITTSQQW--VKV---GKELELLDTPGI  167 (273)
T ss_dssp             HHHHHHHTSCCC------------CC--EEE---TTTEEEEECCCC
T ss_pred             hhhhhhhccceEEECCcccccccceE--EEC---CCCeEEecCCCc
Confidence            46778887553 33344467877643  333   578999999995

>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=87.45  E-value=0.17  Score=32.66  Aligned_cols=56  Identities=9%  Similarity=-0.132  Sum_probs=30.3

Q ss_pred             hhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCchhhhhcccEeE
Q 045003            2 ISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLFFFVQLRNFVIV   62 (93)
Q Consensus         2 LLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f~~mR~RGa~iv   62 (93)
                      |+..+.+......+........  -.+..++....+.+.||||++.+..   +|..-+.|+
T Consensus        21 Li~~~~~~~f~~~~~t~~~~~~--~~i~v~~~~~~l~i~Dt~g~~~~~~---~~~ad~~il   76 (175)
T d2bmja1          21 LIHRFLTGSYQVLEKTESEQYK--KEMLVDGQTHLVLIREEAGAPDAKF---SGWADAVIF   76 (175)
T ss_dssp             HHHHHHHSCCCCCCCSSCEEEE--EEEEETTEEEEEEEEECSSCCCHHH---HHHCSEEEE
T ss_pred             HHHHHHhCCCCCcCCccceeEE--EEeecCceEEEEEEeeccccccccc---ccccceeEE
Confidence            5666655554333333222222  2233433445688899999998753   565533333

>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=86.61  E-value=0.21  Score=31.14  Aligned_cols=45  Identities=16%  Similarity=0.129  Sum_probs=26.0

Q ss_pred             ChhhHHhhcCCc-CcccCcceeeecceEEEEcCCCCeeEEEcCCCccc
Q 045003            1 MISDALRQTSVV-AKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHR   47 (93)
Q Consensus         1 sLLD~IR~t~Va-~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeA   47 (93)
                      +|+++|.+.+++ .....+.|...-...+..  ++..+..+||||+..
T Consensus        23 TLin~l~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~~~~d~~g~~~   68 (186)
T d1mkya2          23 TLFNAILNKERALVSPIPGTTRDPVDDEVFI--DGRKYVFVDTAGLRR   68 (186)
T ss_dssp             HHHHHHHTSTTEEECCCC------CCEEEEE--TTEEEEESSCSCC--
T ss_pred             HHHHHHHCCCcceeecccccccccceeeecc--CCceeeeeccCCccc
Confidence            478888876653 244456666655555655  477899999999864

>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=86.37  E-value=0.66  Score=28.49  Aligned_cols=26  Identities=12%  Similarity=0.115  Sum_probs=18.8

Q ss_pred             EEEEcCCCCeeEEEcCCCcccccCch
Q 045003           27 VIGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus        27 ~V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      .+..++....+.+.||||.+.|..+.
T Consensus        44 ~~~~~~~~~~l~i~d~~g~~~~~~~~   69 (167)
T d1xtqa1          44 LITVNGQEYHLQLVDTAGQDEYSIFP   69 (167)
T ss_dssp             EEEETTEEEEEEEEECCCCCTTCCCC
T ss_pred             EEecCcEEEEeeeccccccccccccc
Confidence            34454445678899999999997643

>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=86.04  E-value=0.51  Score=29.59  Aligned_cols=23  Identities=4%  Similarity=-0.135  Sum_probs=16.6

Q ss_pred             CCCeeEEEcCCCcccccCchhhh
Q 045003           33 GGIKFNFHNCEFYHRTSLFFFVQ   55 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~f~~mR   55 (93)
                      ....+.+.||||++.+..+..+.
T Consensus        49 ~~~~~~~~d~~g~~~~~~~~~~~   71 (184)
T d1vg8a_          49 RLVTMQIWDTAGQERFQSLGVAF   71 (184)
T ss_dssp             CEEEEEEEEECSSGGGSCSCCGG
T ss_pred             ceEEEEeeecCCccccccccccc
Confidence            34578899999998877644333

>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=85.09  E-value=0.55  Score=29.31  Aligned_cols=39  Identities=10%  Similarity=-0.044  Sum_probs=24.3

Q ss_pred             EEEcCCCCeeEEEcCCCcccccCchhh---hhcccEeEEecc
Q 045003           28 IGMSTGGIKFNFHNCEFYHRTSLFFFV---QLRNFVIVLRKN   66 (93)
Q Consensus        28 V~~~~~~~~itFiDTPGHeAFs~f~~m---R~RGa~iv~~~~   66 (93)
                      +..++...++.+.||||++.|..+...   .+.++.+|..-.
T Consensus        45 ~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~llv~d~~   86 (169)
T d1x1ra1          45 TEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVT   86 (169)
T ss_dssp             EEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEEEEETT
T ss_pred             cccccccccccccccccccccccchhhhhhhccEEEEecccc
Confidence            334444567889999999999875432   123444554443

>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=82.89  E-value=0.49  Score=29.16  Aligned_cols=17  Identities=6%  Similarity=-0.126  Sum_probs=7.9

Q ss_pred             CCeeEEEcCCCcccccC
Q 045003           34 GIKFNFHNCEFYHRTSL   50 (93)
Q Consensus        34 ~~~itFiDTPGHeAFs~   50 (93)
                      ...+.+.||||++.+..
T Consensus        51 ~~~~~~~d~~g~~~~~~   67 (175)
T d1ky3a_          51 VATMQVWDTAGQERFQS   67 (175)
T ss_dssp             CEEEEEECCC-------
T ss_pred             cccceeeccCCchhhhh
Confidence            34678999999998765

>d1jwyb_ c.37.1.8 (B:) Dynamin G domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=82.43  E-value=0.5  Score=32.30  Aligned_cols=28  Identities=11%  Similarity=0.020  Sum_probs=18.4

Q ss_pred             cceeeecceEEEEcCCCCeeEEEcCCCcc
Q 045003           18 GITQHVGAFVIGMSTGGIKFNFHNCEFYH   46 (93)
Q Consensus        18 GITQhIGA~~V~~~~~~~~itFiDTPGHe   46 (93)
                      +....+-..+++.+ ..+.++|+||||--
T Consensus       115 ~~~~~~~~~~~~~~-~~~~l~iiDtPG~~  142 (306)
T d1jwyb_         115 GISAQPINLKIYSP-HVVNLTLVDLPGIT  142 (306)
T ss_dssp             -CCCCCEEEEEEET-TSCSEEEEECCCCC
T ss_pred             cccccceEEEecCC-CCCCceEecCCCcc
Confidence            33444445556654 56789999999964

>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=81.20  E-value=0.64  Score=28.82  Aligned_cols=19  Identities=16%  Similarity=0.216  Sum_probs=15.5

Q ss_pred             CCCeeEEEcCCCcccccCc
Q 045003           33 GGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus        33 ~~~~itFiDTPGHeAFs~f   51 (93)
                      +...+.+.||||++.+..+
T Consensus        54 ~~~~~~i~D~~g~~~~~~~   72 (173)
T d1e0sa_          54 KNVKFNVWDVGGQDKIRPL   72 (173)
T ss_dssp             TTEEEEEEEESCCGGGHHH
T ss_pred             cceeeEEecCCCcchhhhH
Confidence            5678999999999987653

>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=80.77  E-value=0.58  Score=27.57  Aligned_cols=46  Identities=15%  Similarity=0.134  Sum_probs=26.5

Q ss_pred             ChhhHHhhcCCcCcccCcceeeecceEEEEcCCCCeeEEEcCCCcccccCc
Q 045003            1 MISDALRQTSVVAKEAGGITQHVGAFVIGMSTGGIKFNFHNCEFYHRTSLF   51 (93)
Q Consensus         1 sLLD~IR~t~Va~~EaGGITQhIGA~~V~~~~~~~~itFiDTPGHeAFs~f   51 (93)
                      +|+.+|.+.....     .+.+..............+.+.||||.+.+...
T Consensus        15 sLi~~l~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~   60 (160)
T d1r8sa_          15 TILYKLKLGEIVT-----TIPTIGFNVETVEYKNISFTVWDVGGQDKIRPL   60 (160)
T ss_dssp             HHHHHHHHHCSSC-----CCCCSSCCEEEEECSSCEEEEEECCCCGGGHHH
T ss_pred             HHHHHHhcCCCCc-----cccceeeEEEEEeeeeEEEEEecCCCcccchhh
Confidence            3666665433322     222223333333345778999999999988653

>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=80.04  E-value=0.56  Score=29.06  Aligned_cols=27  Identities=0%  Similarity=-0.127  Sum_probs=15.3

Q ss_pred             eEEEEcCCCCeeEEEcCCCcccccCch
Q 045003           26 FVIGMSTGGIKFNFHNCEFYHRTSLFF   52 (93)
Q Consensus        26 ~~V~~~~~~~~itFiDTPGHeAFs~f~   52 (93)
                      ..+..++....+.+.||||++.|..+.
T Consensus        44 ~~~~~~~~~~~~~~~d~~g~~~~~~~~   70 (171)
T d2erya1          44 KQCVIDDRAARLDILDTAGQEEFGAMR   70 (171)
T ss_dssp             EEEEETTEEEEEEEEECC----CCHHH
T ss_pred             eeeeecccccccccccccccccccccc
Confidence            444444344579999999999987643