Psyllid ID: psy2977

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90--
Protein Sequence
MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKSHTR
Secondary Structure (PSIPRED)
ccccccHHcHHHHHHHHHHHHcccccccccEEEEEccccccccccHHHHHHHccccccccccEEEEEccccccccHHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
ccccccHHHHHHHHHHHHHHHccHHHccccEEEEEccccccccccHHHHHHHccccHccccEEEEEEEEccccccHHHHHHHHHHHHHcccc
Coil and Loop (DISEMBL)
mvdaadtdKLEASRNELHALiekpqligipilvlgnkrdlpnaldeKELIDRMNLcaiqdreiccysisckerdnIDITLQWLIAHSKSHTR
Flexible Loop (DISEMBL)
mvdaadtdklEASRNELHaliekpqligiPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLiahskshtr
Low Complexity Region (SEG)
MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKSHTR
Disordered region (IsUnstruct)
****************LHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIA*******
Disordered Region (DISOPRED)
MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLI*HS*****
Disordered Region (DISEMBL)
MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKSHTR
Disordered Region (DISPRO)
****ADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSK****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKSHTR
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	92	2.2.26 [Sep-21-2011]
Q9VHV5	186	ADP-ribosylation factor-l	yes	N/A	1.0	0.494	0.826	4e-40
Q6NZW8	186	ADP-ribosylation factor-l	yes	N/A	0.978	0.483	0.833	2e-39
Q2KI07	186	ADP-ribosylation factor-l	yes	N/A	0.978	0.483	0.822	3e-39
Q66HA6	186	ADP-ribosylation factor-l	yes	N/A	0.978	0.483	0.822	4e-39
Q9CQW2	186	ADP-ribosylation factor-l	yes	N/A	0.978	0.483	0.822	4e-39
Q9NVJ2	186	ADP-ribosylation factor-l	yes	N/A	0.978	0.483	0.822	4e-39
Q96BM9	186	ADP-ribosylation factor-l	no	N/A	0.978	0.483	0.822	8e-39
Q5ZKQ8	186	ADP-ribosylation factor-l	no	N/A	0.978	0.483	0.822	8e-39
Q4R4S4	186	ADP-ribosylation factor-l	N/A	N/A	0.978	0.483	0.811	1e-38
Q6P8C8	186	ADP-ribosylation factor-l	yes	N/A	0.978	0.483	0.822	2e-38

>sp|Q9VHV5|ARL8_DROME ADP-ribosylation factor-like protein 8 OS=Drosophila melanogaster GN=Gie PE=1 SV=1

 Score =  162 bits (411), Expect = 4e-40,   Method: Compositional matrix adjust.
 Identities = 76/92 (82%), Positives = 84/92 (91%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           MVDAAD DKLEASRNELH+L++KPQL GIP+LVLGNKRDLP ALDE  LI+RMNL +IQD
Sbjct: 95  MVDAADLDKLEASRNELHSLLDKPQLAGIPVLVLGNKRDLPGALDETGLIERMNLSSIQD 154

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKSHTR 92
           REICCYSISCKE+DNIDITLQWLI HSKS +R
Sbjct: 155 REICCYSISCKEKDNIDITLQWLIQHSKSQSR 186

May play a role in lysosome motility (PubMed:16537643). Essential role in chromosome segregation (PubMed:15331635).
Drosophila melanogaster (taxid: 7227)

>sp|Q6NZW8|AR8BA_DANRE ADP-ribosylation factor-like protein 8B-A OS=Danio rerio GN=arl8ba PE=2 SV=1

 Score =  160 bits (405), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 75/90 (83%), Positives = 84/90 (93%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           MVDAAD +K+EASRNELH L++KPQL GIP+LVLGNKRDLPNALDEK+LI++MNL AIQD
Sbjct: 95  MVDAADREKVEASRNELHNLLDKPQLQGIPVLVLGNKRDLPNALDEKQLIEKMNLAAIQD 154

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKSH 90
           REICCYSISCKE+DNIDITLQWLI HSKS 
Sbjct: 155 REICCYSISCKEKDNIDITLQWLIQHSKSR 184

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

Danio rerio (taxid: 7955)

>sp|Q2KI07|ARL8B_BOVIN ADP-ribosylation factor-like protein 8B OS=Bos taurus GN=ARL8B PE=2 SV=1

 Score =  160 bits (404), Expect = 3e-39,   Method: Compositional matrix adjust.
 Identities = 74/90 (82%), Positives = 84/90 (93%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           M+DAAD +K+EASRNELH L++KPQL GIP+LVLGNKRDLPNALDEK+LI++MNL AIQD
Sbjct: 95  MIDAADREKIEASRNELHNLLDKPQLQGIPVLVLGNKRDLPNALDEKQLIEKMNLSAIQD 154

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKSH 90
           REICCYSISCKE+DNIDITLQWLI HSKS 
Sbjct: 155 REICCYSISCKEKDNIDITLQWLIQHSKSR 184

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

Bos taurus (taxid: 9913)

>sp|Q66HA6|ARL8B_RAT ADP-ribosylation factor-like protein 8B OS=Rattus norvegicus GN=Arl8b PE=2 SV=1

 Score =  159 bits (403), Expect = 4e-39,   Method: Compositional matrix adjust.
 Identities = 74/90 (82%), Positives = 84/90 (93%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           M+DAAD +K+EASRNELH L++KPQL GIP+LVLGNKRDLPNALDEK+LI++MNL AIQD
Sbjct: 95  MIDAADREKIEASRNELHNLLDKPQLQGIPVLVLGNKRDLPNALDEKQLIEKMNLSAIQD 154

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKSH 90
           REICCYSISCKE+DNIDITLQWLI HSKS 
Sbjct: 155 REICCYSISCKEKDNIDITLQWLIQHSKSR 184

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

Rattus norvegicus (taxid: 10116)

>sp|Q9CQW2|ARL8B_MOUSE ADP-ribosylation factor-like protein 8B OS=Mus musculus GN=Arl8b PE=2 SV=1

 Score =  159 bits (403), Expect = 4e-39,   Method: Compositional matrix adjust.
 Identities = 74/90 (82%), Positives = 84/90 (93%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           M+DAAD +K+EASRNELH L++KPQL GIP+LVLGNKRDLPNALDEK+LI++MNL AIQD
Sbjct: 95  MIDAADREKIEASRNELHNLLDKPQLQGIPVLVLGNKRDLPNALDEKQLIEKMNLSAIQD 154

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKSH 90
           REICCYSISCKE+DNIDITLQWLI HSKS 
Sbjct: 155 REICCYSISCKEKDNIDITLQWLIQHSKSR 184

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

Mus musculus (taxid: 10090)

>sp|Q9NVJ2|ARL8B_HUMAN ADP-ribosylation factor-like protein 8B OS=Homo sapiens GN=ARL8B PE=1 SV=1

 Score =  159 bits (403), Expect = 4e-39,   Method: Compositional matrix adjust.
 Identities = 74/90 (82%), Positives = 84/90 (93%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           M+DAAD +K+EASRNELH L++KPQL GIP+LVLGNKRDLPNALDEK+LI++MNL AIQD
Sbjct: 95  MIDAADREKIEASRNELHNLLDKPQLQGIPVLVLGNKRDLPNALDEKQLIEKMNLSAIQD 154

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKSH 90
           REICCYSISCKE+DNIDITLQWLI HSKS 
Sbjct: 155 REICCYSISCKEKDNIDITLQWLIQHSKSR 184

May play a role in lysosome motility (PubMed:16537643). May play a role in chromosome segregation (PubMed:15331635).

Homo sapiens (taxid: 9606)

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

 Score =  158 bits (400), Expect = 8e-39,   Method: Compositional matrix adjust.
 Identities = 74/90 (82%), Positives = 83/90 (92%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           MVDAAD +K+EAS+NELH L++KPQL GIP+LVLGNKRDLP ALDEKELI++MNL AIQD
Sbjct: 95  MVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALDEKELIEKMNLSAIQD 154

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKSH 90
           REICCYSISCKE+DNIDITLQWLI HSKS 
Sbjct: 155 REICCYSISCKEKDNIDITLQWLIQHSKSR 184

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

Homo sapiens (taxid: 9606)

>sp|Q5ZKQ8|ARL8A_CHICK ADP-ribosylation factor-like protein 8A OS=Gallus gallus GN=ARL8A PE=2 SV=1

 Score =  158 bits (400), Expect = 8e-39,   Method: Compositional matrix adjust.
 Identities = 74/90 (82%), Positives = 83/90 (92%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           MVDAAD +K+EAS+NELH L++KPQL GIP+LVLGNKRDLP ALDEKELI++MNL AIQD
Sbjct: 95  MVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALDEKELIEKMNLSAIQD 154

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKSH 90
           REICCYSISCKE+DNIDITLQWLI HSKS 
Sbjct: 155 REICCYSISCKEKDNIDITLQWLIQHSKSR 184

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

Gallus gallus (taxid: 9031)

>sp|Q4R4S4|ARL8B_MACFA ADP-ribosylation factor-like protein 8B OS=Macaca fascicularis GN=ARL8B PE=2 SV=1

 Score =  158 bits (399), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 73/90 (81%), Positives = 84/90 (93%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           M+DAAD +K+EASRNELH L++KPQL GIP+LVLGNKRDLPNALDEK+LI++MNL AIQD
Sbjct: 95  MIDAADREKIEASRNELHNLLDKPQLQGIPVLVLGNKRDLPNALDEKQLIEKMNLSAIQD 154

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKSH 90
           REICCYSISCKE+DNIDITLQWLI +SKS 
Sbjct: 155 REICCYSISCKEKDNIDITLQWLIQYSKSR 184

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

Macaca fascicularis (taxid: 9541)

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

 Score =  157 bits (397), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 74/90 (82%), Positives = 82/90 (91%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           MVDAAD DK+EAS+NELH L++K QL GIP+LVLGNKRD+P ALDEKELI+RMNL AIQD
Sbjct: 95  MVDAADQDKIEASKNELHNLLDKAQLQGIPVLVLGNKRDIPGALDEKELIERMNLSAIQD 154

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKSH 90
           REICCYSISCKE+DNIDITLQWLI HSKS 
Sbjct: 155 REICCYSISCKEKDNIDITLQWLIQHSKSR 184

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

Xenopus tropicalis (taxid: 8364)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	92
328712016	189	PREDICTED: ADP-ribosylation factor-like	0.978	0.476	0.888	1e-39
449474296	507	PREDICTED: class E basic helix-loop-heli	0.967	0.175	0.853	1e-38
402857619	370	PREDICTED: ADP-ribosylation factor-like	0.967	0.240	0.831	1e-38
21355085	186	GTPase indispensable for equal segregati	1.0	0.494	0.826	2e-38
125774813	186	GA20665 [Drosophila pseudoobscura pseudo	1.0	0.494	0.826	2e-38
158291622	186	AGAP004227-PA [Anopheles gambiae str. PE	1.0	0.494	0.815	2e-38
390477444	305	PREDICTED: ADP-ribosylation factor-like	0.967	0.291	0.831	3e-38
195108875	186	GI23307 [Drosophila mojavensis] gi|19391	1.0	0.494	0.826	3e-38
195390586	202	GJ24163 [Drosophila virilis] gi|19415203	1.0	0.455	0.826	3e-38
195037649	186	GH18326 [Drosophila grimshawi] gi|193894	1.0	0.494	0.826	3e-38

>gi|328712016|ref|XP_003244709.1| PREDICTED: ADP-ribosylation factor-like protein 8B-A-like [Acyrthosiphon pisum]

 Score =  166 bits (420), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 80/90 (88%), Positives = 86/90 (95%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           MVDAADTDKLEASRNELH LI+KPQL GIP+LVLGNKRDLPNALDE ELIDRMNL AIQD
Sbjct: 95  MVDAADTDKLEASRNELHNLIDKPQLAGIPVLVLGNKRDLPNALDEVELIDRMNLNAIQD 154

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKSH 90
           REICCYSISCKE++NIDITLQWLI+HSKS+
Sbjct: 155 REICCYSISCKEQENIDITLQWLISHSKSN 184

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|449474296|ref|XP_002187182.2| PREDICTED: class E basic helix-loop-helix protein 40 [Taeniopygia guttata]

 Score =  163 bits (413), Expect = 1e-38,   Method: Compositional matrix adjust.
 Identities = 76/89 (85%), Positives = 84/89 (94%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           MVDAAD DK+EASRNELH L++KPQL GIP+LVLGNKRDLPNALDEK+LI++MNL AIQD
Sbjct: 416 MVDAADRDKIEASRNELHNLLDKPQLQGIPVLVLGNKRDLPNALDEKQLIEKMNLAAIQD 475

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKS 89
           REICCYSISCKE+DNIDITLQWLI HSKS
Sbjct: 476 REICCYSISCKEKDNIDITLQWLIQHSKS 504

Source: Taeniopygia guttata

Species: Taeniopygia guttata

Genus: Taeniopygia

Family: Estrildidae

Order: Passeriformes

Class: Aves

Phylum: Chordata

Superkingdom: Eukaryota

>gi|402857619|ref|XP_003893346.1| PREDICTED: ADP-ribosylation factor-like protein 8A [Papio anubis]

 Score =  163 bits (413), Expect = 1e-38,   Method: Composition-based stats.
 Identities = 74/89 (83%), Positives = 83/89 (93%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           MVDAAD +K+EAS+NELH L++KPQL GIP+LVLGNKRDLP ALDEKELI++MNL AIQD
Sbjct: 279 MVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALDEKELIEKMNLSAIQD 338

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKS 89
           REICCYSISCKE+DNIDITLQWLI HSKS
Sbjct: 339 REICCYSISCKEKDNIDITLQWLIQHSKS 367

Source: Papio anubis

Species: Papio anubis

Genus: Papio

Family: Cercopithecidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|21355085|ref|NP_649769.1| GTPase indispensable for equal segregation of chromosomes [Drosophila melanogaster] gi|194904149|ref|XP_001981010.1| GG23372 [Drosophila erecta] gi|195498997|ref|XP_002096761.1| GE25851 [Drosophila yakuba] gi|195572647|ref|XP_002104307.1| GD18515 [Drosophila simulans] gi|75026983|sp|Q9VHV5.1|ARL8_DROME RecName: Full=ADP-ribosylation factor-like protein 8; AltName: Full=Novel small G protein indispensable for equal chromosome segregation; Short=dGie gi|7298991|gb|AAF54194.1| GTPase indispensable for equal segregation of chromosomes [Drosophila melanogaster] gi|20151605|gb|AAM11162.1| LD29185p [Drosophila melanogaster] gi|50508069|dbj|BAD30092.1| novel small G protein indispensable for equal chromosome segregation [Drosophila melanogaster] gi|190652713|gb|EDV49968.1| GG23372 [Drosophila erecta] gi|194182862|gb|EDW96473.1| GE25851 [Drosophila yakuba] gi|194200234|gb|EDX13810.1| GD18515 [Drosophila simulans] gi|220944256|gb|ACL84671.1| CG7891-PA [synthetic construct]

 Score =  162 bits (411), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 76/92 (82%), Positives = 84/92 (91%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           MVDAAD DKLEASRNELH+L++KPQL GIP+LVLGNKRDLP ALDE  LI+RMNL +IQD
Sbjct: 95  MVDAADLDKLEASRNELHSLLDKPQLAGIPVLVLGNKRDLPGALDETGLIERMNLSSIQD 154

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKSHTR 92
           REICCYSISCKE+DNIDITLQWLI HSKS +R
Sbjct: 155 REICCYSISCKEKDNIDITLQWLIQHSKSQSR 186

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|125774813|ref|XP_001358658.1| GA20665 [Drosophila pseudoobscura pseudoobscura] gi|194746245|ref|XP_001955591.1| GF18845 [Drosophila ananassae] gi|195145356|ref|XP_002013662.1| GL24258 [Drosophila persimilis] gi|54638397|gb|EAL27799.1| GA20665 [Drosophila pseudoobscura pseudoobscura] gi|190628628|gb|EDV44152.1| GF18845 [Drosophila ananassae] gi|194102605|gb|EDW24648.1| GL24258 [Drosophila persimilis]

 Score =  162 bits (411), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 76/92 (82%), Positives = 84/92 (91%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           MVDAAD DKLEASRNELH+L++KPQL GIP+LVLGNKRDLP ALDE  LI+RMNL +IQD
Sbjct: 95  MVDAADLDKLEASRNELHSLLDKPQLAGIPVLVLGNKRDLPGALDETGLIERMNLSSIQD 154

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKSHTR 92
           REICCYSISCKE+DNIDITLQWLI HSKS +R
Sbjct: 155 REICCYSISCKEKDNIDITLQWLIQHSKSQSR 186

Source: Drosophila pseudoobscura pseudoobscura

Species: Drosophila pseudoobscura

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|158291622|ref|XP_313136.3| AGAP004227-PA [Anopheles gambiae str. PEST] gi|157017635|gb|EAA08617.4| AGAP004227-PA [Anopheles gambiae str. PEST]

 Score =  162 bits (411), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 75/92 (81%), Positives = 85/92 (92%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           MVDAAD DK+EASRNELH+L++KPQL GIP+LVLGNKRD+P AL+E  LIDRMNL +IQD
Sbjct: 95  MVDAADLDKMEASRNELHSLLDKPQLAGIPVLVLGNKRDIPGALEETGLIDRMNLSSIQD 154

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKSHTR 92
           REICCYSISCKE+DNIDITLQWLIAHSKS +R
Sbjct: 155 REICCYSISCKEKDNIDITLQWLIAHSKSQSR 186

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|390477444|ref|XP_002760695.2| PREDICTED: ADP-ribosylation factor-like protein 8A isoform 2 [Callithrix jacchus]

 Score =  162 bits (410), Expect = 3e-38,   Method: Composition-based stats.
 Identities = 74/89 (83%), Positives = 83/89 (93%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           MVDAAD +K+EAS+NELH L++KPQL GIP+LVLGNKRDLP ALDEKELI++MNL AIQD
Sbjct: 214 MVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALDEKELIEKMNLSAIQD 273

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKS 89
           REICCYSISCKE+DNIDITLQWLI HSKS
Sbjct: 274 REICCYSISCKEKDNIDITLQWLIQHSKS 302

Source: Callithrix jacchus

Species: Callithrix jacchus

Genus: Callithrix

Family: Cebidae

Order: Primates

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|195108875|ref|XP_001999018.1| GI23307 [Drosophila mojavensis] gi|193915612|gb|EDW14479.1| GI23307 [Drosophila mojavensis]

 Score =  162 bits (409), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 76/92 (82%), Positives = 84/92 (91%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           MVDAAD DKLEASRNELH+L++KPQL GIP+LVLGNKRDLP ALDE  LI+RMNL +IQD
Sbjct: 95  MVDAADLDKLEASRNELHSLLDKPQLNGIPVLVLGNKRDLPGALDETGLIERMNLSSIQD 154

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKSHTR 92
           REICCYSISCKE+DNIDITLQWLI HSKS +R
Sbjct: 155 REICCYSISCKEKDNIDITLQWLIQHSKSQSR 186

Source: Drosophila mojavensis

Species: Drosophila mojavensis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195390586|ref|XP_002053949.1| GJ24163 [Drosophila virilis] gi|194152035|gb|EDW67469.1| GJ24163 [Drosophila virilis]

 Score =  162 bits (409), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 76/92 (82%), Positives = 84/92 (91%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           MVDAAD DKLEASRNELH+L++KPQL GIP+LVLGNKRDLP ALDE  LI+RMNL +IQD
Sbjct: 111 MVDAADLDKLEASRNELHSLLDKPQLNGIPVLVLGNKRDLPGALDETGLIERMNLSSIQD 170

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKSHTR 92
           REICCYSISCKE+DNIDITLQWLI HSKS +R
Sbjct: 171 REICCYSISCKEKDNIDITLQWLIQHSKSQSR 202

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195037649|ref|XP_001990273.1| GH18326 [Drosophila grimshawi] gi|193894469|gb|EDV93335.1| GH18326 [Drosophila grimshawi]

 Score =  162 bits (409), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 76/92 (82%), Positives = 84/92 (91%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           MVDAAD DKLEASRNELH+L++KPQL GIP+LVLGNKRDLP ALDE  LI+RMNL +IQD
Sbjct: 95  MVDAADLDKLEASRNELHSLLDKPQLNGIPVLVLGNKRDLPGALDETGLIERMNLSSIQD 154

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKSHTR 92
           REICCYSISCKE+DNIDITLQWLI HSKS +R
Sbjct: 155 REICCYSISCKEKDNIDITLQWLIQHSKSQSR 186

Source: Drosophila grimshawi

Species: Drosophila grimshawi

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	92
FB|FBgn0037551	186	Gie "GTPase indispensable for	1.0	0.494	0.826	1.9e-37
UNIPROTKB|F1P0Z7	186	ARL8B "Uncharacterized protein	0.967	0.478	0.842	1.9e-37
ZFIN|ZDB-GENE-030131-9370	186	arl8ba "ADP-ribosylation facto	0.967	0.478	0.842	2.4e-37
UNIPROTKB|F2Z4I5	186	ARL8B "ADP-ribosylation factor	0.967	0.478	0.831	3e-37
UNIPROTKB|Q2KI07	186	ARL8B "ADP-ribosylation factor	0.967	0.478	0.831	3e-37
UNIPROTKB|E2RE13	186	ARL8B "Uncharacterized protein	0.967	0.478	0.831	3e-37
UNIPROTKB|Q9NVJ2	186	ARL8B "ADP-ribosylation factor	0.967	0.478	0.831	3e-37
MGI|MGI:1914416	186	Arl8b "ADP-ribosylation factor	0.967	0.478	0.831	3e-37
RGD|1562830	186	Arl8b "ADP-ribosylation factor	0.967	0.478	0.831	3e-37
UNIPROTKB|F1NJ19	145	ARL8A "ADP-ribosylation factor	0.967	0.613	0.831	1e-36

FB|FBgn0037551 Gie "GTPase indispensable for equal segregation of chromosomes" [Drosophila melanogaster (taxid:7227)]

 Score = 402 (146.6 bits), Expect = 1.9e-37, P = 1.9e-37
 Identities = 76/92 (82%), Positives = 84/92 (91%)

Query:     1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
             MVDAAD DKLEASRNELH+L++KPQL GIP+LVLGNKRDLP ALDE  LI+RMNL +IQD
Sbjct:    95 MVDAADLDKLEASRNELHSLLDKPQLAGIPVLVLGNKRDLPGALDETGLIERMNLSSIQD 154

Query:    61 REICCYSISCKERDNIDITLQWLIAHSKSHTR 92
             REICCYSISCKE+DNIDITLQWLI HSKS +R
Sbjct:   155 REICCYSISCKEKDNIDITLQWLIQHSKSQSR 186

GO:0005525 "GTP binding" evidence=ISS

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

GO:0000819 "sister chromatid segregation" evidence=IMP

GO:0005764 "lysosome" evidence=IDA

UNIPROTKB|F1P0Z7 ARL8B "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 402 (146.6 bits), Expect = 1.9e-37, P = 1.9e-37
 Identities = 75/89 (84%), Positives = 84/89 (94%)

Query:     1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
             MVDAAD +K+EASRNELH L++KPQL GIP+LVLGNKRDLPNALDEK+LI++MNL AIQD
Sbjct:    95 MVDAADREKIEASRNELHNLLDKPQLQGIPVLVLGNKRDLPNALDEKQLIEKMNLAAIQD 154

Query:    61 REICCYSISCKERDNIDITLQWLIAHSKS 89
             REICCYSISCKE+DNIDITLQWLI HSKS
Sbjct:   155 REICCYSISCKEKDNIDITLQWLIQHSKS 183

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

GO:0005525 "GTP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0007059 "chromosome segregation" evidence=IEA

GO:0019003 "GDP binding" evidence=IEA

GO:0030496 "midbody" evidence=IEA

GO:0043014 "alpha-tubulin binding" evidence=IEA

GO:0048487 "beta-tubulin binding" evidence=IEA

GO:0051233 "spindle midzone" evidence=IEA

ZFIN|ZDB-GENE-030131-9370 arl8ba "ADP-ribosylation factor-like 8Ba" [Danio rerio (taxid:7955)]

 Score = 401 (146.2 bits), Expect = 2.4e-37, P = 2.4e-37
 Identities = 75/89 (84%), Positives = 84/89 (94%)

Query:     1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
             MVDAAD +K+EASRNELH L++KPQL GIP+LVLGNKRDLPNALDEK+LI++MNL AIQD
Sbjct:    95 MVDAADREKVEASRNELHNLLDKPQLQGIPVLVLGNKRDLPNALDEKQLIEKMNLAAIQD 154

Query:    61 REICCYSISCKERDNIDITLQWLIAHSKS 89
             REICCYSISCKE+DNIDITLQWLI HSKS
Sbjct:   155 REICCYSISCKEKDNIDITLQWLIQHSKS 183

GO:0005525 "GTP binding" evidence=IEA

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

GO:0005622 "intracellular" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005856 "cytoskeleton" evidence=IEA

GO:0007067 "mitosis" evidence=IEA

GO:0051301 "cell division" evidence=IEA

GO:0005764 "lysosome" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0005768 "endosome" evidence=IEA

GO:0007059 "chromosome segregation" evidence=IEA

GO:0005819 "spindle" evidence=IEA

GO:0005765 "lysosomal membrane" evidence=IEA

GO:0031902 "late endosome membrane" evidence=IEA

UNIPROTKB|F2Z4I5 ARL8B "ADP-ribosylation factor-like protein 8B" [Bos taurus (taxid:9913)]

 Score = 400 (145.9 bits), Expect = 3.0e-37, P = 3.0e-37
 Identities = 74/89 (83%), Positives = 84/89 (94%)

Query:     1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
             M+DAAD +K+EASRNELH L++KPQL GIP+LVLGNKRDLPNALDEK+LI++MNL AIQD
Sbjct:    95 MIDAADREKIEASRNELHNLLDKPQLQGIPVLVLGNKRDLPNALDEKQLIEKMNLSAIQD 154

Query:    61 REICCYSISCKERDNIDITLQWLIAHSKS 89
             REICCYSISCKE+DNIDITLQWLI HSKS
Sbjct:   155 REICCYSISCKEKDNIDITLQWLIQHSKS 183

GO:0051233 "spindle midzone" evidence=IEA

GO:0048487 "beta-tubulin binding" evidence=IEA

GO:0043014 "alpha-tubulin binding" evidence=IEA

GO:0030496 "midbody" evidence=IEA

GO:0019003 "GDP binding" evidence=IEA

GO:0007059 "chromosome segregation" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

UNIPROTKB|Q2KI07 ARL8B "ADP-ribosylation factor-like protein 8B" [Bos taurus (taxid:9913)]

 Score = 400 (145.9 bits), Expect = 3.0e-37, P = 3.0e-37
 Identities = 74/89 (83%), Positives = 84/89 (94%)

Query:     1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
             M+DAAD +K+EASRNELH L++KPQL GIP+LVLGNKRDLPNALDEK+LI++MNL AIQD
Sbjct:    95 MIDAADREKIEASRNELHNLLDKPQLQGIPVLVLGNKRDLPNALDEKQLIEKMNLSAIQD 154

Query:    61 REICCYSISCKERDNIDITLQWLIAHSKS 89
             REICCYSISCKE+DNIDITLQWLI HSKS
Sbjct:   155 REICCYSISCKEKDNIDITLQWLIQHSKS 183

GO:0031902 "late endosome membrane" evidence=IEA

GO:0005819 "spindle" evidence=IEA

GO:0005765 "lysosomal membrane" evidence=IEA

GO:0051301 "cell division" evidence=IEA

GO:0007067 "mitosis" evidence=IEA

GO:0007059 "chromosome segregation" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

UNIPROTKB|E2RE13 ARL8B "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 400 (145.9 bits), Expect = 3.0e-37, P = 3.0e-37
 Identities = 74/89 (83%), Positives = 84/89 (94%)

Query:     1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
             M+DAAD +K+EASRNELH L++KPQL GIP+LVLGNKRDLPNALDEK+LI++MNL AIQD
Sbjct:    95 MIDAADREKIEASRNELHNLLDKPQLQGIPVLVLGNKRDLPNALDEKQLIEKMNLSAIQD 154

Query:    61 REICCYSISCKERDNIDITLQWLIAHSKS 89
             REICCYSISCKE+DNIDITLQWLI HSKS
Sbjct:   155 REICCYSISCKEKDNIDITLQWLIQHSKS 183

GO:0051233 "spindle midzone" evidence=IEA

GO:0048487 "beta-tubulin binding" evidence=IEA

GO:0043014 "alpha-tubulin binding" evidence=IEA

GO:0030496 "midbody" evidence=IEA

GO:0019003 "GDP binding" evidence=IEA

GO:0007059 "chromosome segregation" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

UNIPROTKB|Q9NVJ2 ARL8B "ADP-ribosylation factor-like protein 8B" [Homo sapiens (taxid:9606)]

 Score = 400 (145.9 bits), Expect = 3.0e-37, P = 3.0e-37
 Identities = 74/89 (83%), Positives = 84/89 (94%)

Query:     1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
             M+DAAD +K+EASRNELH L++KPQL GIP+LVLGNKRDLPNALDEK+LI++MNL AIQD
Sbjct:    95 MIDAADREKIEASRNELHNLLDKPQLQGIPVLVLGNKRDLPNALDEKQLIEKMNLSAIQD 154

Query:    61 REICCYSISCKERDNIDITLQWLIAHSKS 89
             REICCYSISCKE+DNIDITLQWLI HSKS
Sbjct:   155 REICCYSISCKEKDNIDITLQWLIQHSKS 183

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

GO:0007049 "cell cycle" evidence=IEA

GO:0051301 "cell division" evidence=IEA

GO:0005765 "lysosomal membrane" evidence=IEA

GO:0031902 "late endosome membrane" evidence=IEA

GO:0003924 "GTPase activity" evidence=NAS

GO:0005525 "GTP binding" evidence=IDA

GO:0019003 "GDP binding" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0051233 "spindle midzone" evidence=IDA

GO:0030496 "midbody" evidence=IDA

GO:0043014 "alpha-tubulin binding" evidence=IDA

GO:0048487 "beta-tubulin binding" evidence=IDA

GO:0007059 "chromosome segregation" evidence=IMP

GO:0006184 "GTP catabolic process" evidence=NAS

MGI|MGI:1914416 Arl8b "ADP-ribosylation factor-like 8B" [Mus musculus (taxid:10090)]

 Score = 400 (145.9 bits), Expect = 3.0e-37, P = 3.0e-37
 Identities = 74/89 (83%), Positives = 84/89 (94%)

Query:     1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
             M+DAAD +K+EASRNELH L++KPQL GIP+LVLGNKRDLPNALDEK+LI++MNL AIQD
Sbjct:    95 MIDAADREKIEASRNELHNLLDKPQLQGIPVLVLGNKRDLPNALDEKQLIEKMNLSAIQD 154

Query:    61 REICCYSISCKERDNIDITLQWLIAHSKS 89
             REICCYSISCKE+DNIDITLQWLI HSKS
Sbjct:   155 REICCYSISCKEKDNIDITLQWLIQHSKS 183

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005525 "GTP binding" evidence=ISO

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISO

GO:0005764 "lysosome" evidence=IEA

GO:0005768 "endosome" evidence=IEA

GO:0005856 "cytoskeleton" evidence=IEA

GO:0007049 "cell cycle" evidence=IEA

GO:0007059 "chromosome segregation" evidence=ISO

GO:0007067 "mitosis" evidence=IEA

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

GO:0016020 "membrane" evidence=IEA

GO:0019003 "GDP binding" evidence=ISO

GO:0030496 "midbody" evidence=ISO

GO:0043014 "alpha-tubulin binding" evidence=ISO

GO:0048487 "beta-tubulin binding" evidence=ISO

GO:0051233 "spindle midzone" evidence=ISO

GO:0051301 "cell division" evidence=IEA

RGD|1562830 Arl8b "ADP-ribosylation factor-like 8B" [Rattus norvegicus (taxid:10116)]

 Score = 400 (145.9 bits), Expect = 3.0e-37, P = 3.0e-37
 Identities = 74/89 (83%), Positives = 84/89 (94%)

Query:     1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
             M+DAAD +K+EASRNELH L++KPQL GIP+LVLGNKRDLPNALDEK+LI++MNL AIQD
Sbjct:    95 MIDAADREKIEASRNELHNLLDKPQLQGIPVLVLGNKRDLPNALDEKQLIEKMNLSAIQD 154

Query:    61 REICCYSISCKERDNIDITLQWLIAHSKS 89
             REICCYSISCKE+DNIDITLQWLI HSKS
Sbjct:   155 REICCYSISCKEKDNIDITLQWLIQHSKS 183

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

GO:0005737 "cytoplasm" evidence=ISO

GO:0005765 "lysosomal membrane" evidence=IEA

GO:0007059 "chromosome segregation" evidence=IEA;ISO

GO:0007067 "mitosis" evidence=IEA

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

GO:0019003 "GDP binding" evidence=IEA;ISO

GO:0030496 "midbody" evidence=IEA;ISO

GO:0031902 "late endosome membrane" evidence=IEA

GO:0043014 "alpha-tubulin binding" evidence=IEA;ISO

GO:0048487 "beta-tubulin binding" evidence=IEA;ISO

GO:0051233 "spindle midzone" evidence=IEA;ISO

GO:0051301 "cell division" evidence=IEA

UNIPROTKB|F1NJ19 ARL8A "ADP-ribosylation factor-like protein 8A" [Gallus gallus (taxid:9031)]

 Score = 395 (144.1 bits), Expect = 1.0e-36, P = 1.0e-36
 Identities = 74/89 (83%), Positives = 83/89 (93%)

Query:     1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
             MVDAAD +K+EAS+NELH L++KPQL GIP+LVLGNKRDLP ALDEKELI++MNL AIQD
Sbjct:    54 MVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALDEKELIEKMNLSAIQD 113

Query:    61 REICCYSISCKERDNIDITLQWLIAHSKS 89
             REICCYSISCKE+DNIDITLQWLI HSKS
Sbjct:   114 REICCYSISCKEKDNIDITLQWLIQHSKS 142

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

GO:0005525 "GTP binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0030496 "midbody" evidence=IEA

GO:0051233 "spindle midzone" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9VHV5	ARL8_DROME	No assigned EC number	0.8260	1.0	0.4946	yes	N/A
Q9NVJ2	ARL8B_HUMAN	No assigned EC number	0.8222	0.9782	0.4838	yes	N/A
Q6NZW8	AR8BA_DANRE	No assigned EC number	0.8333	0.9782	0.4838	yes	N/A
Q9CQW2	ARL8B_MOUSE	No assigned EC number	0.8222	0.9782	0.4838	yes	N/A
Q54R04	ARL8_DICDI	No assigned EC number	0.5393	0.9673	0.4810	yes	N/A
Q66HA6	ARL8B_RAT	No assigned EC number	0.8222	0.9782	0.4838	yes	N/A
Q2KI07	ARL8B_BOVIN	No assigned EC number	0.8222	0.9782	0.4838	yes	N/A
Q6P8C8	ARL8A_XENTR	No assigned EC number	0.8222	0.9782	0.4838	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	92
cd04159	159	cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl	9e-49
cd00878	158	cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf	2e-26
pfam00025	174	pfam00025, Arf, ADP-ribosylation factor family	8e-18
cd04151	158	cd04151, Arl1, ADP ribosylation factor 1 (Arf1)	7e-17
cd04149	168	cd04149, Arf6, ADP ribosylation factor 6 (Arf6)	9e-14
cd04154	173	cd04154, Arl2, Arf-like 2 (Arl2) GTPase	2e-13
cd04155	174	cd04155, Arl3, Arf-like 3 (Arl3) GTPase	2e-13
cd00879	191	cd00879, Sar1, Sar1 is an essential component of C	9e-13
cd04150	159	cd04150, Arf1_5_like, ADP-ribosylation factor-1 (A	4e-11
cd04157	162	cd04157, Arl6, Arf-like 6 (Arl6) GTPase	1e-10
smart00177	175	smart00177, ARF, ARF-like small GTPases; ARF, ADP-	1e-10
PLN00223	181	PLN00223, PLN00223, ADP-ribosylation factor; Provi	2e-10
smart00178	184	smart00178, SAR, Sar1p-like members of the Ras-fam	2e-10
cd04156	160	cd04156, ARLTS1, Arf-like tumor suppressor gene 1	3e-10
cd04152	183	cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7)	5e-10
PTZ00133	182	PTZ00133, PTZ00133, ADP-ribosylation factor; Provi	6e-10
cd04161	167	cd04161, Arl2l1_Arl13_like, Arl2-like protein 1 (A	1e-09
cd04153	174	cd04153, Arl5_Arl8, Arf-like 5 (Arl5) and 8 (Arl8)	1e-09
cd04160	168	cd04160, Arfrp1, Arf-related protein 1 (Arfrp1)	2e-09
cd04162	164	cd04162, Arl9_Arfrp2_like, Arf-like 9 (Arl9)/Arfrp	1e-08
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	1e-07
cd00880	161	cd00880, Era_like, E	1e-04
TIGR02729	329	TIGR02729, Obg_CgtA, Obg family GTPase CgtA	6e-04
cd04158	169	cd04158, ARD1, (ADP-ribosylation factor domain pro	0.002

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

 Score =  151 bits (383), Expect = 9e-49
 Identities = 57/86 (66%), Positives = 68/86 (79%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VDAAD +KLE ++NELH L+EKP L GIP+LVLGNK DLP AL   ELI++MNL +I D
Sbjct: 74  VVDAADREKLEVAKNELHDLLEKPSLEGIPLLVLGNKNDLPGALSVDELIEQMNLKSITD 133

Query: 61  REICCYSISCKERDNIDITLQWLIAH 86
           RE+ CYSIS KE+ NIDI L WLI H
Sbjct: 134 REVSCYSISAKEKTNIDIVLDWLIKH 159

Arl10-like subfamily. Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved. Length = 159

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

 Score = 94.6 bits (236), Expect = 2e-26
 Identities = 35/84 (41%), Positives = 54/84 (64%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD++D +++E ++NELH L+ + +L G P+L+L NK+DLP AL E ELI+ + L +I+ 
Sbjct: 73  VVDSSDRERIEEAKNELHKLLNEEELKGAPLLILANKQDLPGALTESELIELLGLESIKG 132

Query: 61  REICCYSISCKERDNIDITLQWLI 84
           R       S    D +D  L WLI
Sbjct: 133 RRWHIQPCSAVTGDGLDEGLDWLI 156

Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases. Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thus, despite their significant sequence homologies, Arf family proteins may regulate unrelated functions. Length = 158

>gnl|CDD|200938 pfam00025, Arf, ADP-ribosylation factor family

 Score = 73.0 bits (180), Expect = 8e-18
 Identities = 31/83 (37%), Positives = 50/83 (60%)

Query: 2   VDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDR 61
           VD+AD D++E ++ ELHAL+ + +L   P+L+L NK+DLP A+ E E+ + + L  ++DR
Sbjct: 89  VDSADRDRIEEAKEELHALLNEEELADAPLLILANKQDLPGAMSEAEIRELLGLHELKDR 148

Query: 62  EICCYSISCKERDNIDITLQWLI 84
                  S    + +D  L WL 
Sbjct: 149 PWEIQGCSAVTGEGLDEGLDWLS 171

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

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

 Score = 70.1 bits (172), Expect = 7e-17
 Identities = 29/83 (34%), Positives = 52/83 (62%)

Query: 2   VDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDR 61
           VD+ D D+L  S++ELHA++E+ +L    +LV  NK+D+P AL E E+ +++ L  ++DR
Sbjct: 74  VDSTDRDRLGISKSELHAMLEEEELKDAVLLVFANKQDMPGALSEAEVAEKLGLSELKDR 133

Query: 62  EICCYSISCKERDNIDITLQWLI 84
               +  S  + + +D  + WL+
Sbjct: 134 TWQIFKTSATKGEGLDEGMDWLV 156

Arl1 subfamily. Arl1 (Arf-like 1) localizes to the Golgi complex, where it is believed to recruit effector proteins to the trans-Golgi network. Like most members of the Arf family, Arl1 is myristoylated at its N-terminal helix and mutation of the myristoylation site disrupts Golgi targeting. In humans, the Golgi-localized proteins golgin-97 and golgin-245 have been identified as Arl1 effectors. Golgins are large coiled-coil proteins found in the Golgi, and these golgins contain a C-terminal GRIP domain, which is the site of Arl1 binding. Additional Arl1 effectors include the GARP (Golgi-associated retrograde protein)/VFT (Vps53) vesicle-tethering complex and Arfaptin 2. Arl1 is not required for exocytosis, but appears necessary for trafficking from the endosomes to the Golgi. In Drosophila zygotes, mutation of Arl1 is lethal, and in the host-bloodstream form of Trypanosoma brucei, Arl1 is essential for viability. Length = 158

>gnl|CDD|206716 cd04149, Arf6, ADP ribosylation factor 6 (Arf6)

 Score = 62.1 bits (151), Expect = 9e-14
 Identities = 27/86 (31%), Positives = 48/86 (55%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+AD D+++ +R ELH +I   ++    +LV  NK+DLP+A+   E+ +++ L  I+D
Sbjct: 83  VVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLPDAMKPHEIQEKLGLTRIRD 142

Query: 61  REICCYSISCKERDNIDITLQWLIAH 86
           R            D +   L WL ++
Sbjct: 143 RNWYVQPSCATSGDGLYEGLTWLSSN 168

Arf6 subfamily. Arf6 (ADP ribosylation factor 6) proteins localize to the plasma membrane, where they perform a wide variety of functions. In its active, GTP-bound form, Arf6 is involved in cell spreading, Rac-induced formation of plasma membrane ruffles, cell migration, wound healing, and Fc-mediated phagocytosis. Arf6 appears to change the actin structure at the plasma membrane by activating Rac, a Rho family protein involved in membrane ruffling. Arf6 is required for and enhances Rac formation of ruffles. Arf6 can regulate dendritic branching in hippocampal neurons, and in yeast it localizes to the growing bud, where it plays a role in polarized growth and bud site selection. In leukocytes, Arf6 is required for chemokine-stimulated migration across endothelial cells. Arf6 also plays a role in down-regulation of beta2-adrenergic receptors and luteinizing hormone receptors by facilitating the release of sequestered arrestin to allow endocytosis. Arf6 is believed to function at multiple sites on the plasma membrane through interaction with a specific set of GEFs, GAPs, and effectors. Arf6 has been implicated in breast cancer and melanoma cell invasion, and in actin remodelling at the invasion site of Chlamydia infection. Length = 168

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

 Score = 61.6 bits (150), Expect = 2e-13
 Identities = 25/83 (30%), Positives = 46/83 (55%)

Query: 2   VDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDR 61
           VD++D  +LE  + EL  L+ + +L G  +L+  NK+DLP AL  +E+ + + L +I+  
Sbjct: 89  VDSSDRARLEDCKRELQKLLVEERLAGATLLIFANKQDLPGALSPEEIREVLELDSIKSH 148

Query: 62  EICCYSISCKERDNIDITLQWLI 84
               +  S    +N+   + WL+
Sbjct: 149 HWRIFGCSAVTGENLLDGIDWLV 171

Arl2 (Arf-like 2) GTPases are members of the Arf family that bind GDP and GTP with very low affinity. Unlike most Arf family proteins, Arl2 is not myristoylated at its N-terminal helix. The protein PDE-delta, first identified in photoreceptor rod cells, binds specifically to Arl2 and is structurally very similar to RhoGDI. Despite the high structural similarity between Arl2 and Rho proteins and between PDE-delta and RhoGDI, the interactions between the GTPases and their effectors are very different. In its GTP bound form, Arl2 interacts with the protein Binder of Arl2 (BART), and the complex is believed to play a role in mitochondrial adenine nucleotide transport. In its GDP bound form, Arl2 interacts with tubulin- folding Cofactor D; this interaction is believed to play a role in regulation of microtubule dynamics that impact the cytoskeleton, cell division, and cytokinesis. Length = 173

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

 Score = 61.6 bits (150), Expect = 2e-13
 Identities = 27/83 (32%), Positives = 47/83 (56%)

Query: 2   VDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDR 61
           +D+AD  + E +  EL  L+E+ +L G+P+LV  NK+DL  A   +E+ + +NL  I+DR
Sbjct: 90  IDSADRKRFEEAGQELVELLEEEKLAGVPVLVFANKQDLLTAAPAEEVAEALNLHDIRDR 149

Query: 62  EICCYSISCKERDNIDITLQWLI 84
                + S K  + +   + W+ 
Sbjct: 150 SWHIQACSAKTGEGLQEGMNWVC 172

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation. Length = 174

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

 Score = 60.0 bits (146), Expect = 9e-13
 Identities = 24/55 (43%), Positives = 38/55 (69%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNL 55
           +VDAAD ++ + S+ EL +L+   +L  +PIL+LGNK D P A+ E+EL + + L
Sbjct: 93  LVDAADPERFQESKEELDSLLNDEELANVPILILGNKIDKPGAVSEEELREALGL 147

Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation. Length = 191

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

 Score = 55.1 bits (133), Expect = 4e-11
 Identities = 24/82 (29%), Positives = 45/82 (54%)

Query: 2   VDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDR 61
           VD+ D +++  +R EL  ++ + +L    +LV  NK+DLPNA+   E+ D++ L ++++R
Sbjct: 75  VDSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLPNAMSAAEVTDKLGLHSLRNR 134

Query: 62  EICCYSISCKERDNIDITLQWL 83
                +      D +   L WL
Sbjct: 135 NWYIQATCATSGDGLYEGLDWL 156

The Arf1-Arf5-like subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and related proteins. Arfs1-5 are soluble proteins that are crucial for assembling coat proteins during vesicle formation. Each contains an N-terminal myristoylated amphipathic helix that is folded into the protein in the GDP-bound state. GDP/GTP exchange exposes the helix, which anchors to the membrane. Following GTP hydrolysis, the helix dissociates from the membrane and folds back into the protein. A general feature of Arf1-5 signaling may be the cooperation of two Arfs at the same site. Arfs1-5 are generally considered to be interchangeable in function and location, but some specific functions have been assigned. Arf1 localizes to the early/cis-Golgi, where it is activated by GBF1 and recruits the coat protein COPI. It also localizes to the trans-Golgi network (TGN), where it is activated by BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA proteins. Humans, but not rodents and other lower eukaryotes, lack Arf2. Human Arf3 shares 96% sequence identity with Arf1 and is believed to generally function interchangeably with Arf1. Human Arf4 in the activated (GTP-bound) state has been shown to interact with the cytoplasmic domain of epidermal growth factor receptor (EGFR) and mediate the EGF-dependent activation of phospholipase D2 (PLD2), leading to activation of the activator protein 1 (AP-1) transcription factor. Arf4 has also been shown to recognize the C-terminal sorting signal of rhodopsin and regulate its incorporation into specialized post-Golgi rhodopsin transport carriers (RTCs). There is some evidence that Arf5 functions at the early-Golgi and the trans-Golgi to affect Golgi-associated alpha-adaptin homology Arf-binding proteins (GGAs). Length = 159

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

 Score = 54.0 bits (130), Expect = 1e-10
 Identities = 25/86 (29%), Positives = 46/86 (53%), Gaps = 2/86 (2%)

Query: 2   VDAADTDKLEASRNELHALIEKPQLI--GIPILVLGNKRDLPNALDEKELIDRMNLCAIQ 59
           +D++D  ++  +++EL  L+  P +    IPIL   NK DLP+AL   ++   + L  I+
Sbjct: 76  IDSSDRLRMVVAKDELELLLNHPDIKHRRIPILFYANKMDLPDALTAVKITQLLCLENIK 135

Query: 60  DREICCYSISCKERDNIDITLQWLIA 85
           D+    ++ S    + +D  + WL A
Sbjct: 136 DKPWHIFASSALTGEGLDEGVDWLQA 161

Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases. Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development. Arl6 is also believed to have a role in cilia or flagella function. Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p. Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation. At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily. Length = 162

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

 Score = 54.2 bits (130), Expect = 1e-10
 Identities = 28/89 (31%), Positives = 50/89 (56%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+ D D+++ +R ELH ++ + +L    ILV  NK+DLP+A+   E+ +++ L +I+D
Sbjct: 87  VVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPDAMKAAEITEKLGLHSIRD 146

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKS 89
           R            D +   L WL  + K+
Sbjct: 147 RNWYIQPTCATSGDGLYEGLTWLSNNLKN 175

Ras homologues involved in vesicular transport. Activator of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. ARFs are N-terminally myristoylated. Contains ATP/GTP-binding motif (P-loop). Length = 175

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

 Score = 54.2 bits (130), Expect = 2e-10
 Identities = 26/83 (31%), Positives = 48/83 (57%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+ D D++  +R+ELH ++ + +L    +LV  NK+DLPNA++  E+ D++ L +++ 
Sbjct: 91  VVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQ 150

Query: 61  REICCYSISCKERDNIDITLQWL 83
           R     S      + +   L WL
Sbjct: 151 RHWYIQSTCATSGEGLYEGLDWL 173

Length = 181

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

 Score = 53.8 bits (129), Expect = 2e-10
 Identities = 22/49 (44%), Positives = 30/49 (61%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKEL 49
           +VDA D ++   S+ EL AL+   +L  +P L+LGNK D P A  E EL
Sbjct: 91  LVDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAPYAASEDEL 139

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

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

 Score = 52.8 bits (127), Expect = 3e-10
 Identities = 23/69 (33%), Positives = 42/69 (60%), Gaps = 5/69 (7%)

Query: 2   VDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNL---CAI 58
           VD++D  +L+ S+ EL  +++   + G+P+++L NK+DLP AL  +E+  R  L   C+ 
Sbjct: 75  VDSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPGALTAEEITRRFKLKKYCSD 134

Query: 59  QDREI--CC 65
           +D  +  C 
Sbjct: 135 RDWYVQPCS 143

ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in high-risk familial breast cancer. Length = 160

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

 Score = 52.9 bits (127), Expect = 5e-10
 Identities = 21/49 (42%), Positives = 35/49 (71%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKEL 49
           +VD+ D +++E ++ ELH + +  +  G+P+LVL NK+DLPNAL   E+
Sbjct: 82  VVDSVDVERMEEAKTELHKITKFSENQGVPVLVLANKQDLPNALPVSEV 130

Arl4 (Arf-like 4) is highly expressed in testicular germ cells, and is found in the nucleus and nucleolus. In mice, Arl4 is developmentally expressed during embryogenesis, and a role in somite formation and central nervous system differentiation has been proposed. Arl7 has been identified as the only Arf/Arl protein to be induced by agonists of liver X-receptor and retinoid X-receptor and by cholesterol loading in human macrophages. Arl7 is proposed to play a role in transport between a perinuclear compartment and the plasma membrane, apparently linked to the ABCA1-mediated cholesterol secretion pathway. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily. Length = 183

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

 Score = 52.5 bits (126), Expect = 6e-10
 Identities = 24/89 (26%), Positives = 46/89 (51%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+ D +++  +R EL  ++ + +L    +LV  NK+DLPNA+   E+ +++ L +++ 
Sbjct: 91  VVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLPNAMSTTEVTEKLGLHSVRQ 150

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKS 89
           R              +   L WL A+ K 
Sbjct: 151 RNWYIQGCCATTAQGLYEGLDWLSANIKK 179

Length = 182

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

 Score = 51.6 bits (124), Expect = 1e-09
 Identities = 27/93 (29%), Positives = 48/93 (51%), Gaps = 9/93 (9%)

Query: 2   VDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDR 61
           VD++D D+++  +  L  L++ P++ G PILVL NK+D  NAL   ++I+ ++L  + + 
Sbjct: 74  VDSSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKNALLGADVIEYLSLEKLVNE 133

Query: 62  EICCYSI--SCKERD-------NIDITLQWLIA 85
                 I               +I   L+WL+A
Sbjct: 134 NKSLCHIEPCSAIEGLGKKIDPSIVEGLRWLLA 166

Arl2l1 (Arl2-like protein 1) and Arl13 form a subfamily of the Arf family of small GTPases. Arl2l1 was identified in human cells during a search for the gene(s) responsible for Bardet-Biedl syndrome (BBS). Like Arl6, the identified BBS gene, Arl2l1 is proposed to have cilia-specific functions. Arl13 is found on the X chromosome, but its expression has not been confirmed; it may be a pseudogene. Length = 167

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

 Score = 51.2 bits (123), Expect = 1e-09
 Identities = 20/68 (29%), Positives = 37/68 (54%), Gaps = 4/68 (5%)

Query: 2   VDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDR 61
           +D+ D ++L  ++ EL+ ++    L    +LVL NK+DL  A+   E+ + + L +I+D 
Sbjct: 90  IDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKGAMTPAEISESLGLTSIRDH 149

Query: 62  EI----CC 65
                 CC
Sbjct: 150 TWHIQGCC 157

Arl5/Arl8 subfamily. Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus. Arl5 is developmentally regulated during embryogenesis in mice. Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion. Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library. It is found in brain, heart, lung, cartilage, and kidney. No function has been assigned for Arl8 to date. Length = 174

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

 Score = 50.8 bits (122), Expect = 2e-09
 Identities = 25/85 (29%), Positives = 47/85 (55%), Gaps = 2/85 (2%)

Query: 2   VDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCA--IQ 59
           +D+ D ++   S++    +I    L G+P+LVL NK+DLP+AL   E+ +  + C   I 
Sbjct: 82  IDSTDRERFNESKSAFEKVINNEALEGVPLLVLANKQDLPDALSVAEIKEVFDDCIALIG 141

Query: 60  DREICCYSISCKERDNIDITLQWLI 84
            R+     +S  E + ++  ++WL+
Sbjct: 142 RRDCLVQPVSALEGEGVEEGIEWLV 166

Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development. Length = 168

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

 Score = 49.0 bits (117), Expect = 1e-08
 Identities = 24/72 (33%), Positives = 39/72 (54%), Gaps = 6/72 (8%)

Query: 2   VDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAI-QD 60
           VD+AD+++L  +R ELH L++ P    +P++VL NK+DLP A   +E+   + L  I + 
Sbjct: 75  VDSADSERLPLARQELHQLLQHPP--DLPLVVLANKQDLPAARSVQEIHKELELEPIARG 132

Query: 61  RE---ICCYSIS 69
           R           
Sbjct: 133 RRWILQGTSLDD 144

Arl9/Arfrp2-like subfamily. Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project. It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2). This is a novel subfamily identified in human cancers that is uncharacterized to date. Length = 164

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

 Score = 46.3 bits (110), Expect = 1e-07
 Identities = 23/84 (27%), Positives = 42/84 (50%), Gaps = 5/84 (5%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+ D +  E ++  +   + K    GIPI+++GNK DL    + +EL+    L  I  
Sbjct: 82  VVDSTDRESEEDAKLLILRRLRKE---GIPIILVGNKIDLLEEREVEELLRLEELAKILG 138

Query: 61  REICCYSISCKERDNIDITLQWLI 84
             +  + +S K  + +D   + LI
Sbjct: 139 --VPVFEVSAKTGEGVDELFEKLI 160

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

>gnl|CDD|206646 cd00880, Era_like, E

 Score = 38.0 bits (89), Expect = 1e-04
 Identities = 20/73 (27%), Positives = 33/73 (45%), Gaps = 3/73 (4%)

Query: 14  RNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKER 73
             E  A +   +  G P+L++ NK DL    +E+EL+    L  + D  +    +S    
Sbjct: 90  PVEEEAKLGLLRERGKPVLLVLNKIDLVPESEEEELLRERKLELLPDLPVIA--VSALPG 147

Query: 74  DNIDITLQWLIAH 86
           + ID  L+  IA 
Sbjct: 148 EGID-ELRKKIAE 159

coli Ras-like protein (Era)-like GTPase. The Era (E. coli Ras-like protein)-like family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngB), 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 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. Length = 161

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

 Score = 36.3 bits (85), Expect = 6e-04
 Identities = 25/91 (27%), Positives = 39/91 (42%), Gaps = 20/91 (21%)

Query: 1   MVDAADTDK------LEASRNEL----HALIEKPQLIGIPILVLGNKRDLPNALDEKELI 50
           ++D +  D        E  RNEL      L EKP+     I+VL NK DL +  + +EL+
Sbjct: 242 LIDISPEDGSDPIEDYEIIRNELKKYSPELAEKPR-----IVVL-NKIDLLDEEELEELL 295

Query: 51  DRMNLCAIQDREICCYSISCKERDNIDITLQ 81
               L     + +  + IS    + +D  L 
Sbjct: 296 KE--LKEALGKPV--FPISALTGEGLDELLY 322

This model describes a univeral, mostly one-gene-per-genome GTP-binding protein that associates with ribosomal subunits and appears to play a role in ribosomal RNA maturation. This GTPase, related to the nucleolar protein Obg, is designated CgtA in bacteria. Mutations in this gene are pleiotropic, but it appears that effects on cellular functions such as chromosome partition may be secondary to the effect on ribosome structure. Recent work done in Vibrio cholerae shows an essential role in the stringent response, in which RelA-dependent ability to synthesize the alarmone ppGpp is required for deletion of this GTPase to be lethal [Protein synthesis, Other]. Length = 329

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

 Score = 35.0 bits (80), Expect = 0.002
 Identities = 22/89 (24%), Positives = 46/89 (51%), Gaps = 11/89 (12%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           ++D++  D++  + +EL  L+ + +L    +L+  NK+D+  AL  +E+ + ++L     
Sbjct: 73  VIDSSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVAGALSVEEMTELLSL----- 127

Query: 61  REICC----YSISCKERDNIDI--TLQWL 83
            ++CC    Y   C  R  + +   L WL
Sbjct: 128 HKLCCGRSWYIQGCDARSGMGLYEGLDWL 156

ARD1 (ADP-ribosylation factor domain protein 1) is an unusual member of the Arf family. In addition to the C-terminal Arf domain, ARD1 has an additional 46-kDa N-terminal domain that contains a RING finger domain, two predicted B-Boxes, and a coiled-coil protein interaction motif. This domain belongs to the TRIM (tripartite motif) or RBCC (RING, B-Box, coiled-coil) family. Like most Arfs, the ARD1 Arf domain lacks detectable GTPase activity. However, unlike most Arfs, the full-length ARD1 protein has significant GTPase activity due to the GAP (GTPase-activating protein) activity exhibited by the 46-kDa N-terminal domain. The GAP domain of ARD1 is specific for its own Arf domain and does not bind other Arfs. The rate of GDP dissociation from the ARD1 Arf domain is slowed by the adjacent 15 amino acids, which act as a GDI (GDP-dissociation inhibitor) domain. ARD1 is ubiquitously expressed in cells and localizes to the Golgi and to the lysosomal membrane. Two Tyr-based motifs in the Arf domain are responsible for Golgi localization, while the GAP domain controls lysosomal localization. Length = 169

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	92
PLN00223	181	ADP-ribosylation factor; Provisional	99.88
KOG0070|consensus	181		99.87
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.86
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.86
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.85
PTZ00133	182	ADP-ribosylation factor; Provisional	99.85
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.84
KOG0071|consensus	180		99.84
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.83
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.82
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.81
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.8
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.79
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.79
KOG0075|consensus	186		99.79
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	99.79
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.78
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.78
KOG0073|consensus	185		99.78
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.78
KOG0072|consensus	182		99.77
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.77
KOG0092|consensus	200		99.76
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	99.76
KOG0078|consensus	207		99.75
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.74
PTZ00099	176	rab6; Provisional	99.74
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.74
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.74
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.73
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.73
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.73
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.73
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.72
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.72
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.72
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.72
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	99.71
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.71
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	99.71
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.7
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.7
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.7
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.69
KOG0084|consensus	205		99.69
PTZ00369	189	Ras-like protein; Provisional	99.69
KOG0076|consensus	197		99.69
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.69
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.68
KOG0094|consensus	221		99.68
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.68
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.68
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.67
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.67
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.67
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.67
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.67
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.67
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.67
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.67
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.66
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.66
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	99.66
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.66
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.66
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.66
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	99.66
KOG0081|consensus	219		99.66
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.66
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.66
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.65
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	99.65
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.65
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.64
KOG0098|consensus	216		99.64
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.64
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.63
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.63
PLN03108	210	Rab family protein; Provisional	99.63
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	99.63
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.62
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.62
KOG0087|consensus	222		99.62
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.62
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.62
KOG0079|consensus	198		99.62
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.62
KOG0394|consensus	210		99.62
KOG0088|consensus	218		99.61
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.61
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.61
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.61
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.61
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.61
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.61
KOG0395|consensus	196		99.6
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.6
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.6
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.59
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.59
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.59
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.59
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.59
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.59
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.58
KOG0091|consensus	213		99.58
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.58
PLN03110	216	Rab GTPase; Provisional	99.58
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.58
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.57
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.56
PRK12299	335	obgE GTPase CgtA; Reviewed	99.56
PLN03118	211	Rab family protein; Provisional	99.54
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.54
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.53
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.53
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.53
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.53
KOG0093|consensus	193		99.53
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.53
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.53
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.51
KOG0086|consensus	214		99.51
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.51
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.5
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.5
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.5
KOG0074|consensus	185		99.48
KOG0080|consensus	209		99.47
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.46
KOG0083|consensus	192		99.45
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.45
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.41
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	99.4
PRK12297	424	obgE GTPase CgtA; Reviewed	99.39
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.38
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.35
PRK12296	500	obgE GTPase CgtA; Reviewed	99.35
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.34
KOG0077|consensus	193		99.32
PRK03003	472	GTP-binding protein Der; Reviewed	99.31
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.29
PRK04213	201	GTP-binding protein; Provisional	99.28
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.27
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.26
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.25
KOG0097|consensus	215		99.23
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.23
PRK11058	426	GTPase HflX; Provisional	99.21
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.2
PRK12298	390	obgE GTPase CgtA; Reviewed	99.2
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.19
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.19
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.19
PRK15494	339	era GTPase Era; Provisional	99.18
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.17
cd00881	189	GTP_translation_factor GTP translation factor fami	99.16
KOG1489|consensus	366		99.16
COG2262	411	HflX GTPases [General function prediction only]	99.15
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.15
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.15
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.14
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.13
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.13
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.12
KOG0095|consensus	213		99.11
KOG0393|consensus	198		99.11
PRK03003	472	GTP-binding protein Der; Reviewed	99.1
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.1
COG2229	187	Predicted GTPase [General function prediction only	99.09
PRK00093	435	GTP-binding protein Der; Reviewed	99.08
PRK12289	352	GTPase RsgA; Reviewed	99.08
KOG4252|consensus	246		99.05
PRK00089	292	era GTPase Era; Reviewed	99.05
PRK12288	347	GTPase RsgA; Reviewed	99.04
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.04
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.03
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.02
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	99.01
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	99.0
PRK00098	298	GTPase RsgA; Reviewed	98.99
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.99
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	98.98
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	98.97
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	98.97
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	98.96
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	98.95
KOG0096|consensus	216		98.95
cd04105	203	SR_beta Signal recognition particle receptor, beta	98.95
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.94
PRK05433	600	GTP-binding protein LepA; Provisional	98.93
COG0536	369	Obg Predicted GTPase [General function prediction	98.92
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.9
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	98.85
CHL00189	742	infB translation initiation factor 2; Provisional	98.85
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	98.83
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	98.83
PRK04000	411	translation initiation factor IF-2 subunit gamma;	98.83
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	98.83
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	98.83
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	98.81
PRK05306	787	infB translation initiation factor IF-2; Validated	98.81
TIGR00101	199	ureG urease accessory protein UreG. This model rep	98.81
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	98.81
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	98.81
PRK13768	253	GTPase; Provisional	98.8
KOG0090|consensus	238		98.79
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.78
KOG3883|consensus	198		98.77
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	98.76
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	98.75
KOG4423|consensus	229		98.74
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	98.74
COG1100	219	GTPase SAR1 and related small G proteins [General	98.73
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	98.73
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	98.72
cd01896	233	DRG The developmentally regulated GTP-binding prot	98.72
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	98.69
PRK00093	435	GTP-binding protein Der; Reviewed	98.67
PRK13796	365	GTPase YqeH; Provisional	98.67
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	98.66
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	98.66
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	98.66
KOG0462|consensus	650		98.66
PRK12317	425	elongation factor 1-alpha; Reviewed	98.63
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	98.62
KOG1145|consensus	683		98.6
PRK14845	1049	translation initiation factor IF-2; Provisional	98.59
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.58
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	98.57
COG1160	444	Predicted GTPases [General function prediction onl	98.57
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	98.56
PRK09866	741	hypothetical protein; Provisional	98.56
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.55
COG1159	298	Era GTPase [General function prediction only]	98.54
PRK04004	586	translation initiation factor IF-2; Validated	98.54
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.54
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	98.53
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	98.52
PRK10218	607	GTP-binding protein; Provisional	98.48
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	98.47
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.47
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	98.44
COG0218	200	Predicted GTPase [General function prediction only	98.38
PRK01889	356	GTPase RsgA; Reviewed	98.38
COG0486	454	ThdF Predicted GTPase [General function prediction	98.37
PLN00023	334	GTP-binding protein; Provisional	98.36
PRK09435	332	membrane ATPase/protein kinase; Provisional	98.34
KOG1673|consensus	205		98.31
COG1160	444	Predicted GTPases [General function prediction onl	98.29
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	98.27
PF09439	181	SRPRB: Signal recognition particle receptor beta s	98.25
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	98.25
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	98.22
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	98.19
PRK12736	394	elongation factor Tu; Reviewed	98.19
COG1162	301	Predicted GTPases [General function prediction onl	98.16
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	98.16
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	98.12
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	98.11
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	98.08
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	98.04
PLN00043	447	elongation factor 1-alpha; Provisional	98.02
COG1163	365	DRG Predicted GTPase [General function prediction	97.99
KOG1423|consensus	379		97.97
KOG1707|consensus	625		97.97
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	97.96
PRK12735	396	elongation factor Tu; Reviewed	97.93
KOG1532|consensus	366		97.92
PRK00741	526	prfC peptide chain release factor 3; Provisional	97.91
TIGR00485	394	EF-Tu translation elongation factor TU. This align	97.88
CHL00071	409	tufA elongation factor Tu	97.84
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	97.82
PRK00049	396	elongation factor Tu; Reviewed	97.8
PTZ00141	446	elongation factor 1- alpha; Provisional	97.76
PRK13351	687	elongation factor G; Reviewed	97.76
PRK12740	668	elongation factor G; Reviewed	97.72
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	97.64
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	97.63
COG1217	603	TypA Predicted membrane GTPase involved in stress	97.6
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	97.6
PRK09602	396	translation-associated GTPase; Reviewed	97.57
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	97.51
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	97.5
PLN03127	447	Elongation factor Tu; Provisional	97.49
TIGR00503	527	prfC peptide chain release factor 3. This translat	97.48
KOG1490|consensus	620		97.47
KOG1144|consensus	1064		97.44
PLN03126	478	Elongation factor Tu; Provisional	97.4
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	97.39
COG3276	447	SelB Selenocysteine-specific translation elongatio	97.39
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	97.29
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	97.24
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	97.2
PRK12739	691	elongation factor G; Reviewed	97.16
COG1084	346	Predicted GTPase [General function prediction only	97.15
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	97.13
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	97.06
PRK00007	693	elongation factor G; Reviewed	97.02
COG5258	527	GTPBP1 GTPase [General function prediction only]	96.92
KOG1707|consensus	625		96.87
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	96.86
KOG0082|consensus	354		96.78
KOG0461|consensus	522		96.71
KOG1191|consensus	531		96.69
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	96.64
KOG0410|consensus	410		96.58
KOG3905|consensus	473		96.57
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	96.49
KOG0458|consensus	603		96.21
KOG0466|consensus	466		96.11
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	96.09
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	96.08
COG1161	322	Predicted GTPases [General function prediction onl	95.89
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	95.88
KOG1424|consensus	562		95.78
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	95.68
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	95.66
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	95.66
KOG2423|consensus	572		95.42
KOG2484|consensus	435		95.1
KOG2485|consensus	335		94.82
KOG1487|consensus	358		94.66
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	94.66
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	94.56
COG0012	372	Predicted GTPase, probable translation factor [Tra	94.5
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	94.38
COG0050	394	TufB GTPases - translation elongation factors [Tra	94.26
KOG0463|consensus	641		94.02
COG0523	323	Putative GTPases (G3E family) [General function pr	93.99
PTZ00258	390	GTP-binding protein; Provisional	93.86
KOG0085|consensus	359		93.73
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	93.28
PF08438	109	MMR_HSR1_C: GTPase of unknown function C-terminal;	92.67
KOG0705|consensus	749		92.55
PRK13505	557	formate--tetrahydrofolate ligase; Provisional	92.42
PF14331	266	ImcF-related_N: ImcF-related N-terminal domain	92.19
KOG1143|consensus	591		91.38
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	91.3
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	90.58
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	90.54
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	90.18
PRK07560	731	elongation factor EF-2; Reviewed	90.17
KOG1486|consensus	364		90.16
KOG2486|consensus	320		88.96
PRK09601	364	GTP-binding protein YchF; Reviewed	87.85
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	87.6
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	86.6
KOG0459|consensus	501		85.94
KOG0460|consensus	449		84.44
PTZ00416	836	elongation factor 2; Provisional	83.68
PF09547	492	Spore_IV_A: Stage IV sporulation protein A (spore_	83.24
PLN00116	843	translation elongation factor EF-2 subunit; Provis	82.55
PF02492	178	cobW: CobW/HypB/UreG, nucleotide-binding domain; I	81.17
COG1908	132	FrhD Coenzyme F420-reducing hydrogenase, delta sub	80.82
cd03112	158	CobW_like The function of this protein family is u	80.07

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.88  E-value=8.9e-22  Score=115.51  Aligned_cols=90  Identities=29%  Similarity=0.546  Sum_probs=77.3

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|+++++++..+..++.++++.....++|++|++||+|++...+.+++.+.+++.....+.+.+++|||++|+||+++|
T Consensus        91 V~D~s~~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~l~l~~~~~~~~~~~~~Sa~~g~gv~e~~  170 (181)
T PLN00223         91 VVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGL  170 (181)
T ss_pred             EEeCCcHHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCCCCCHHHHHHHhCccccCCCceEEEeccCCCCCCHHHHH
Confidence            68999999999998899988875555679999999999998888888888888766554566778899999999999999


Q ss_pred             HHHHHhhhhc
Q psy2977          81 QWLIAHSKSH   90 (92)
Q Consensus        81 ~~l~~~i~~~   90 (92)
                      +||++.+.++
T Consensus       171 ~~l~~~~~~~  180 (181)
T PLN00223        171 DWLSNNIANK  180 (181)
T ss_pred             HHHHHHHhhc
Confidence            9999998765

>KOG0070|consensus

Probab=99.87  E-value=2.1e-21  Score=112.19  Aligned_cols=90  Identities=30%  Similarity=0.593  Sum_probs=85.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++|++++.++++++..++.++++...|+++.+||+|++++.+..++.+.+++..+..++|++..|+|.+|+|+.|.+
T Consensus        91 VvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~als~~ei~~~L~l~~l~~~~w~iq~~~a~~G~GL~egl  170 (181)
T KOG0070|consen   91 VVDSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQDLPGALSAAEITNKLGLHSLRSRNWHIQSTCAISGEGLYEGL  170 (181)
T ss_pred             EEeCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechhhccccCCHHHHHhHhhhhccCCCCcEEeeccccccccHHHHH
Confidence            68999999999999999999998888899999999999999999999999999999888899999999999999999999


Q ss_pred             HHHHHhhhhc
Q psy2977          81 QWLIAHSKSH   90 (92)
Q Consensus        81 ~~l~~~i~~~   90 (92)
                      +||.+.+.++
T Consensus       171 ~wl~~~~~~~  180 (181)
T KOG0070|consen  171 DWLSNNLKKR  180 (181)
T ss_pred             HHHHHHHhcc
Confidence            9999998765

>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=99.86  E-value=5.4e-21  Score=111.69  Aligned_cols=87  Identities=37%  Similarity=0.715  Sum_probs=79.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcC-CCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQ-DREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|++|++++.+++..+.+++++....++|++|++||+|++++.+.+++...+++..+. .+++.++.|||.+|+|+.++
T Consensus        88 VvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~~~~~~i~~~l~l~~l~~~~~~~v~~~sa~~g~Gv~e~  167 (175)
T PF00025_consen   88 VVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLPDAMSEEEIKEYLGLEKLKNKRPWSVFSCSAKTGEGVDEG  167 (175)
T ss_dssp             EEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTSSTHHHHHHHTTGGGTTSSSCEEEEEEBTTTTBTHHHH
T ss_pred             EEecccceeecccccchhhhcchhhcccceEEEEeccccccCcchhhHHHhhhhhhhcccCCceEEEeeeccCCcCHHHH
Confidence            68999999999999999999987777789999999999999988999999988877765 67899999999999999999


Q ss_pred             HHHHHHhh
Q psy2977          80 LQWLIAHS   87 (92)
Q Consensus        80 ~~~l~~~i   87 (92)
                      |+||.+++
T Consensus       168 l~WL~~~~  175 (175)
T PF00025_consen  168 LEWLIEQI  175 (175)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHhcC
Confidence            99999875

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. This entry represents a branch of the small GTPase superfamily that includes the ADP ribosylation factor Arf, Arl (Arf-like), Arp (Arf-related proteins) and the remotely related Sar (Secretion-associated and Ras-related) proteins. Arf proteins are major regulators of vesicle biogenesis in intracellular traffic []. They cycle between inactive GDP-bound and active GTP-bound forms that bind selectively to effectors. The classical structural GDP/GTP switch is characterised by conformational changes at the so-called switch 1 and switch 2 regions, which bind tightly to the gamma-phosphate of GTP but poorly or not at all to the GDP nucleotide. Structural studies of Arf1 and Arf6 have revealed that although these proteins feature the switch 1 and 2 conformational changes, they depart from other small GTP-binding proteins in that they use an additional, unique switch to propagate structural information from one side of the protein to the other. The GDP/GTP structural cycles of human Arf1 and Arf6 feature a unique conformational change that affects the beta2-beta3 strands connecting switch 1 and switch 2 (interswitch) and also the amphipathic helical N terminus. In GDP-bound Arf1 and Arf6, the interswitch is retracted and forms a pocket to which the N-terminal helix binds, the latter serving as a molecular hasp to maintain the inactive conformation. In the GTP-bound form of these proteins, the interswitch undergoes a two-residue register shift that pulls switch 1 and switch 2 up, restoring an active conformation that can bind GTP. In this conformation, the interswitch projects out of the protein and extrudes the N-terminal hasp by occluding its binding pocket.; GO: 0005525 GTP binding; PDB: 2H57_B 2W83_B 3N5C_B 2J5X_A 3LVR_E 2BAO_A 3LVQ_E 2A5F_A 3PCR_B 1E0S_A ....

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

Probab=99.86  E-value=6.1e-21  Score=111.33  Aligned_cols=88  Identities=32%  Similarity=0.584  Sum_probs=74.8

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++++++.+..|+..+++.....++|++||+||+|+++..+.+++.+.+++.....+.+.++++||++|+||+++|
T Consensus        87 v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~  166 (175)
T smart00177       87 VVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPDAMKAAEITEKLGLHSIRDRNWYIQPTCATSGDGLYEGL  166 (175)
T ss_pred             EEECCCHHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcccCCCHHHHHHHhCccccCCCcEEEEEeeCCCCCCHHHHH
Confidence            58999999999999999998865444678999999999998777777888877766555667788899999999999999


Q ss_pred             HHHHHhhh
Q psy2977          81 QWLIAHSK   88 (92)
Q Consensus        81 ~~l~~~i~   88 (92)
                      +||.+.+.
T Consensus       167 ~~l~~~~~  174 (175)
T smart00177      167 TWLSNNLK  174 (175)
T ss_pred             HHHHHHhc
Confidence            99988764

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).

>cd04149 Arf6 Arf6 subfamily

Probab=99.85  E-value=9.7e-21  Score=109.89  Aligned_cols=85  Identities=32%  Similarity=0.593  Sum_probs=71.3

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++.++.++..|+.+++......++|++||+||+|+....+.+++.+.+++.......+.+++|||++|+|++++|
T Consensus        83 v~D~t~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~SAk~g~gv~~~~  162 (168)
T cd04149          83 VVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDLPDAMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGL  162 (168)
T ss_pred             EEeCCchhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCccCCCHHHHHHHcCCCccCCCcEEEEEeeCCCCCChHHHH
Confidence            68999999999998999888875444678999999999998766777888877655544556789999999999999999


Q ss_pred             HHHHH
Q psy2977          81 QWLIA   85 (92)
Q Consensus        81 ~~l~~   85 (92)
                      +||.+
T Consensus       163 ~~l~~  167 (168)
T cd04149         163 TWLSS  167 (168)
T ss_pred             HHHhc
Confidence            99975

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

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.85  E-value=2.4e-20  Score=109.47  Aligned_cols=91  Identities=26%  Similarity=0.499  Sum_probs=75.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|+++++++..+..++.+++......++|++||+||+|+++..+.+++...++...+..+.+.++++||++|.|++++|
T Consensus        91 v~D~t~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~l~~~~~~~~~~~~~~~Sa~tg~gv~e~~  170 (182)
T PTZ00133         91 VVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDLPNAMSTTEVTEKLGLHSVRQRNWYIQGCCATTAQGLYEGL  170 (182)
T ss_pred             EEeCCCHHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCCCCCHHHHHHHhCCCcccCCcEEEEeeeCCCCCCHHHHH
Confidence            68999999999998888888765444578999999999998776777787777765555566788899999999999999


Q ss_pred             HHHHHhhhhcC
Q psy2977          81 QWLIAHSKSHT   91 (92)
Q Consensus        81 ~~l~~~i~~~~   91 (92)
                      +||.+.+.++.
T Consensus       171 ~~l~~~i~~~~  181 (182)
T PTZ00133        171 DWLSANIKKSM  181 (182)
T ss_pred             HHHHHHHHHhc
Confidence            99999887653

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.84  E-value=2.4e-20  Score=107.33  Aligned_cols=85  Identities=28%  Similarity=0.552  Sum_probs=69.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++.++..+..|+.+++........|++|++||+|+.+....+++...++...+..+.+.++++||++|+||+++|
T Consensus        74 v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~Sak~g~gv~~~~  153 (159)
T cd04150          74 VVDSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLPNAMSAAEVTDKLGLHSLRNRNWYIQATCATSGDGLYEGL  153 (159)
T ss_pred             EEeCCCHHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCCCCCCHHHHHHHhCccccCCCCEEEEEeeCCCCCCHHHHH
Confidence            68999999999999989888765444578999999999997666666776766655444566788999999999999999


Q ss_pred             HHHHH
Q psy2977          81 QWLIA   85 (92)
Q Consensus        81 ~~l~~   85 (92)
                      +||++
T Consensus       154 ~~l~~  158 (159)
T cd04150         154 DWLSN  158 (159)
T ss_pred             HHHhc
Confidence            99975

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

>KOG0071|consensus

Probab=99.84  E-value=1.1e-20  Score=105.55  Aligned_cols=89  Identities=36%  Similarity=0.604  Sum_probs=84.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|+++++++++++++++.++++++..+.|++|.+||+|++++.+.+++.+.+++..+++++|.+.++||.+|.|+.|.|
T Consensus        91 V~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~A~~pqei~d~leLe~~r~~~W~vqp~~a~~gdgL~egl  170 (180)
T KOG0071|consen   91 VVDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLPDAMKPQEIQDKLELERIRDRNWYVQPSCALSGDGLKEGL  170 (180)
T ss_pred             EEeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCcccccccCHHHHHHHhccccccCCccEeeccccccchhHHHHH
Confidence            67999999999999999999999888999999999999999999999999999999888899999999999999999999


Q ss_pred             HHHHHhhhh
Q psy2977          81 QWLIAHSKS   89 (92)
Q Consensus        81 ~~l~~~i~~   89 (92)
                      .||.+.++.
T Consensus       171 swlsnn~~~  179 (180)
T KOG0071|consen  171 SWLSNNLKE  179 (180)
T ss_pred             HHHHhhccC
Confidence            999987654

>cd04158 ARD1 ARD1 subfamily

Probab=99.83  E-value=1.4e-19  Score=104.91  Aligned_cols=90  Identities=21%  Similarity=0.369  Sum_probs=72.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCc-CCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAI-QDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|+++++++.++..|+.+++......+.|+++|+||+|+.+..+.+++.+.+..... ....+.+++|||++|.||+++
T Consensus        73 V~D~s~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~~  152 (169)
T cd04158          73 VVDSSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVAGALSVEEMTELLSLHKLCCGRSWYIQGCDARSGMGLYEG  152 (169)
T ss_pred             EEeCCcHHHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCcccCCCHHHHHHHhCCccccCCCcEEEEeCcCCCCCCHHHH
Confidence            5799999999999999999987644566899999999999876677777666543332 123467899999999999999


Q ss_pred             HHHHHHhhhhc
Q psy2977          80 LQWLIAHSKSH   90 (92)
Q Consensus        80 ~~~l~~~i~~~   90 (92)
                      |+||++.+...
T Consensus       153 f~~l~~~~~~~  163 (169)
T cd04158         153 LDWLSRQLVAA  163 (169)
T ss_pred             HHHHHHHHhhc
Confidence            99999887643

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

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.82  E-value=2.3e-19  Score=104.47  Aligned_cols=85  Identities=24%  Similarity=0.448  Sum_probs=70.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|+++++++..+..++.++++.....++|+++++||+|+++..+.+++.+.++.......++++++|||++|+||+++|
T Consensus        89 V~D~s~~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~~~~~~~i~~~l~~~~~~~~~~~~~~~SA~~g~gi~e~~  168 (174)
T cd04153          89 VIDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKGAMTPAEISESLGLTSIRDHTWHIQGCCALTGEGLPEGL  168 (174)
T ss_pred             EEECCCHHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCCCCCCHHHHHHHhCcccccCCceEEEecccCCCCCHHHHH
Confidence            68999999998888889888876555679999999999998766777777777654444456789999999999999999


Q ss_pred             HHHHH
Q psy2977          81 QWLIA   85 (92)
Q Consensus        81 ~~l~~   85 (92)
                      +||++
T Consensus       169 ~~l~~  173 (174)
T cd04153         169 DWIAS  173 (174)
T ss_pred             HHHhc
Confidence            99975

Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus. Arl5 is developmentally regulated during embryogenesis in mice. Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion. Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library. It is found in brain, heart, lung, cartilage, and kidney. No function has been assigned for Arl8 to date.

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.81  E-value=4.6e-19  Score=102.71  Aligned_cols=85  Identities=33%  Similarity=0.506  Sum_probs=71.3

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcC---CCceEEEeeccccC----
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQ---DREICCYSISCKER----   73 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~---~~~~~~~~~SA~~~----   73 (92)
                      |||++++.++..+..|+..+++.....++|+++|+||+|+++..+..++.+.+.+..+.   ..++.+++|||++|    
T Consensus        73 V~D~s~~~s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~~~~~i~~~~~l~~~~~~~~~~~~~~~~Sa~~g~~~~  152 (167)
T cd04161          73 VVDSSDDDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKNALLGADVIEYLSLEKLVNENKSLCHIEPCSAIEGLGKK  152 (167)
T ss_pred             EEECCchhHHHHHHHHHHHHHcCccccCCcEEEEEeCCCCcCCCCHHHHHHhcCcccccCCCCceEEEEEeEceeCCCCc
Confidence            68999999999999999998876555689999999999998877778888877655442   33578999999998    


Q ss_pred             --CCHHHHHHHHHH
Q psy2977          74 --DNIDITLQWLIA   85 (92)
Q Consensus        74 --~gi~~~~~~l~~   85 (92)
                        .|++++|+||..
T Consensus       153 ~~~g~~~~~~wl~~  166 (167)
T cd04161         153 IDPSIVEGLRWLLA  166 (167)
T ss_pred             cccCHHHHHHHHhc
Confidence              899999999975

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.

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

Probab=99.80  E-value=7e-19  Score=103.38  Aligned_cols=86  Identities=33%  Similarity=0.492  Sum_probs=72.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcC-------CCceEEEeeccccC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQ-------DREICCYSISCKER   73 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~SA~~~   73 (92)
                      |+|+++++++.....++.++++.....++|+++|+||+|++...+.+++.+.+++....       .+.+.+++|||++|
T Consensus        91 vvD~~~~~~~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~~~~~i~~~l~l~~~~~~~~~~~~~~~~i~~~Sa~~~  170 (184)
T smart00178       91 LVDAYDKERFAESKRELDALLSDEELATVPFLILGNKIDAPYAASEDELRYALGLTNTTGSKGKVGVRPLEVFMCSVVRR  170 (184)
T ss_pred             EEECCcHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCCCCHHHHHHHcCCCcccccccccCCceeEEEEeecccC
Confidence            57999999999988899888865445679999999999998878888999888765432       24678999999999


Q ss_pred             CCHHHHHHHHHHh
Q psy2977          74 DNIDITLQWLIAH   86 (92)
Q Consensus        74 ~gi~~~~~~l~~~   86 (92)
                      +|++++++||.+.
T Consensus       171 ~g~~~~~~wl~~~  183 (184)
T smart00178      171 MGYGEGFKWLSQY  183 (184)
T ss_pred             CChHHHHHHHHhh
Confidence            9999999999865

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

>cd04157 Arl6 Arl6 subfamily

Probab=99.79  E-value=1.5e-18  Score=99.46  Aligned_cols=86  Identities=29%  Similarity=0.550  Sum_probs=67.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCC--CCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQL--IGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~--~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.++.....|+..+++....  .++|+++|+||+|+.+.....++...+++......++.+++|||++|.|+++
T Consensus        75 v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~~~~~~~~~l~~~~~~~~~~~~~~~Sa~~g~gv~~  154 (162)
T cd04157          75 VIDSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDALTAVKITQLLGLENIKDKPWHIFASNALTGEGLDE  154 (162)
T ss_pred             EEeCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccCCCCHHHHHHHhCCccccCceEEEEEeeCCCCCchHH
Confidence            57999999998888888888764322  4699999999999976655566666655443333456799999999999999


Q ss_pred             HHHHHHHh
Q psy2977          79 TLQWLIAH   86 (92)
Q Consensus        79 ~~~~l~~~   86 (92)
                      +|+||.++
T Consensus       155 ~~~~l~~~  162 (162)
T cd04157         155 GVQWLQAQ  162 (162)
T ss_pred             HHHHHhcC
Confidence            99999763

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

>cd04154 Arl2 Arl2 subfamily

Probab=99.79  E-value=1.2e-18  Score=101.31  Aligned_cols=85  Identities=29%  Similarity=0.533  Sum_probs=68.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++.++.....|+..++......++|+++|+||+|+.+....+++.+.++........++++++||++|.|++++|
T Consensus        88 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~  167 (173)
T cd04154          88 VVDSSDRLRLDDCKRELKELLQEERLAGATLLILANKQDLPGALSEEEIREALELDKISSHHWRIQPCSAVTGEGLLQGI  167 (173)
T ss_pred             EEECCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcccccCCCHHHHHHHhCccccCCCceEEEeccCCCCcCHHHHH
Confidence            58999999999888888888765444679999999999998666666777766543333456789999999999999999


Q ss_pred             HHHHH
Q psy2977          81 QWLIA   85 (92)
Q Consensus        81 ~~l~~   85 (92)
                      +||.+
T Consensus       168 ~~l~~  172 (173)
T cd04154         168 DWLVD  172 (173)
T ss_pred             HHHhc
Confidence            99975

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.

>KOG0075|consensus

Probab=99.79  E-value=1e-18  Score=98.31  Aligned_cols=91  Identities=69%  Similarity=1.120  Sum_probs=85.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++|++.++.++.+++.++..+...++|+++++||+|++++.+..++.+.+++..+.++....|.+|++...|++...
T Consensus        95 ~VDaad~~k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~AL~~~~li~rmgL~sitdREvcC~siScke~~Nid~~~  174 (186)
T KOG0075|consen   95 VVDAADPDKLEASRSELHDLLDKPSLTGIPLLVLGNKIDLPGALSKIALIERMGLSSITDREVCCFSISCKEKVNIDITL  174 (186)
T ss_pred             EeecCCcccchhhHHHHHHHhcchhhcCCcEEEecccccCcccccHHHHHHHhCccccccceEEEEEEEEcCCccHHHHH
Confidence            58999999999999999999999888999999999999999999999999999999888889999999999999999999


Q ss_pred             HHHHHhhhhcC
Q psy2977          81 QWLIAHSKSHT   91 (92)
Q Consensus        81 ~~l~~~i~~~~   91 (92)
                      +||.++-+..+
T Consensus       175 ~Wli~hsk~~~  185 (186)
T KOG0075|consen  175 DWLIEHSKSLR  185 (186)
T ss_pred             HHHHHHhhhhc
Confidence            99999876543

>cd04121 Rab40 Rab40 subfamily

Probab=99.79  E-value=1e-18  Score=103.33  Aligned_cols=83  Identities=13%  Similarity=0.158  Sum_probs=66.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |||++++.+|+.+..|+.++....  .+.|++||+||+|+..  ..+.++.....     ...++.+++|||++|.||++
T Consensus        85 VfD~t~~~Sf~~~~~w~~~i~~~~--~~~piilVGNK~DL~~~~~v~~~~~~~~a-----~~~~~~~~e~SAk~g~~V~~  157 (189)
T cd04121          85 VYDITNRWSFDGIDRWIKEIDEHA--PGVPKILVGNRLHLAFKRQVATEQAQAYA-----ERNGMTFFEVSPLCNFNITE  157 (189)
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhC--CCCCEEEEEECccchhccCCCHHHHHHHH-----HHcCCEEEEecCCCCCCHHH
Confidence            689999999999999999986542  5799999999999964  33444444433     23457899999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|++.+..+
T Consensus       158 ~F~~l~~~i~~~  169 (189)
T cd04121         158 SFTELARIVLMR  169 (189)
T ss_pred             HHHHHHHHHHHh
Confidence            999999887643

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

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.78  E-value=2.6e-18  Score=98.42  Aligned_cols=85  Identities=28%  Similarity=0.533  Sum_probs=67.8

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCc-CCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAI-QDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|++++.++..+..|+.++++.....+.|+++|+||+|++...+.+++...++.... ...++++++|||++|+||+++
T Consensus        74 v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~  153 (160)
T cd04156          74 VVDSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPGALTAEEITRRFKLKKYCSDRDWYVQPCSAVTGEGLAEA  153 (160)
T ss_pred             EEECCcHHHHHHHHHHHHHHHhchhhcCCCEEEEEECcccccCcCHHHHHHHcCCcccCCCCcEEEEecccccCCChHHH
Confidence            5799999999998889988887644467999999999999766666777666543322 224578999999999999999


Q ss_pred             HHHHHH
Q psy2977          80 LQWLIA   85 (92)
Q Consensus        80 ~~~l~~   85 (92)
                      |++|.+
T Consensus       154 ~~~i~~  159 (160)
T cd04156         154 FRKLAS  159 (160)
T ss_pred             HHHHhc
Confidence            999975

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

>cd00879 Sar1 Sar1 subfamily

Probab=99.78  E-value=3.5e-18  Score=100.49  Aligned_cols=87  Identities=34%  Similarity=0.585  Sum_probs=70.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCc-----------CCCceEEEeec
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAI-----------QDREICCYSIS   69 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~-----------~~~~~~~~~~S   69 (92)
                      |+|+++.+++.....++.++++.....+.|+++++||+|+....+.+++...++....           ....+.+++||
T Consensus        93 V~D~~~~~s~~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~S  172 (190)
T cd00879          93 LVDAADPERFQESKEELDSLLSDEELANVPFLILGNKIDLPGAVSEEELRQALGLYGTTTGKGVSLKVSGIRPIEVFMCS  172 (190)
T ss_pred             EEECCcHHHHHHHHHHHHHHHcCccccCCCEEEEEeCCCCCCCcCHHHHHHHhCcccccccccccccccCceeEEEEEeE
Confidence            5799999899888888888887554567999999999999877777788877764322           12346799999


Q ss_pred             cccCCCHHHHHHHHHHhh
Q psy2977          70 CKERDNIDITLQWLIAHS   87 (92)
Q Consensus        70 A~~~~gi~~~~~~l~~~i   87 (92)
                      |++|+|++++|+||++.+
T Consensus       173 a~~~~gv~e~~~~l~~~~  190 (190)
T cd00879         173 VVKRQGYGEAFRWLSQYL  190 (190)
T ss_pred             ecCCCChHHHHHHHHhhC
Confidence            999999999999998764

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.

>KOG0073|consensus

Probab=99.78  E-value=1.5e-18  Score=98.95  Aligned_cols=90  Identities=28%  Similarity=0.479  Sum_probs=81.8

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCc-CCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAI-QDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|++|+.++++...++..++....+.+.|+++++||+|++++.+.+++...+++..+ +...|+++.|||.||+|+.+.
T Consensus        90 vvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~~l~~~~i~~~~~L~~l~ks~~~~l~~cs~~tge~l~~g  169 (185)
T KOG0073|consen   90 VVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLPGALSLEEISKALDLEELAKSHHWRLVKCSAVTGEDLLEG  169 (185)
T ss_pred             EEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCccccCHHHHHHhhCHHHhccccCceEEEEeccccccHHHH
Confidence            6899999999999999999998777788999999999999988999999988887766 677899999999999999999


Q ss_pred             HHHHHHhhhhc
Q psy2977          80 LQWLIAHSKSH   90 (92)
Q Consensus        80 ~~~l~~~i~~~   90 (92)
                      ++||...+.++
T Consensus       170 idWL~~~l~~r  180 (185)
T KOG0073|consen  170 IDWLCDDLMSR  180 (185)
T ss_pred             HHHHHHHHHHH
Confidence            99999988763

>cd04151 Arl1 Arl1 subfamily

Probab=99.78  E-value=3.8e-18  Score=97.78  Aligned_cols=85  Identities=34%  Similarity=0.695  Sum_probs=65.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++.++.....++..+++.....++|+++++||+|+.+.....++...++.......++++++|||++|.|++++|
T Consensus        73 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  152 (158)
T cd04151          73 VVDSTDRDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMPGALSEAEISEKLGLSELKDRTWSIFKTSAIKGEGLDEGM  152 (158)
T ss_pred             EEECCCHHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCCCCCHHHHHHHhCccccCCCcEEEEEeeccCCCCHHHHH
Confidence            57999988887777777777655444579999999999997655556666665544333445789999999999999999


Q ss_pred             HHHHH
Q psy2977          81 QWLIA   85 (92)
Q Consensus        81 ~~l~~   85 (92)
                      +||++
T Consensus       153 ~~l~~  157 (158)
T cd04151         153 DWLVN  157 (158)
T ss_pred             HHHhc
Confidence            99976

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.

>KOG0072|consensus

Probab=99.77  E-value=1.1e-18  Score=97.84  Aligned_cols=90  Identities=27%  Similarity=0.447  Sum_probs=83.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++|..+...+..++..+++++++....+++++||+|.+.+....|+...+++..++++-+.+|.+||.+|+|+++++
T Consensus        92 VVDssd~dris~a~~el~~mL~E~eLq~a~llv~anKqD~~~~~t~~E~~~~L~l~~Lk~r~~~Iv~tSA~kg~Gld~~~  171 (182)
T KOG0072|consen   92 VVDSSDRDRISIAGVELYSMLQEEELQHAKLLVFANKQDYSGALTRSEVLKMLGLQKLKDRIWQIVKTSAVKGEGLDPAM  171 (182)
T ss_pred             EEeccchhhhhhhHHHHHHHhccHhhcCceEEEEeccccchhhhhHHHHHHHhChHHHhhheeEEEeeccccccCCcHHH
Confidence            68999999999999999999999888889999999999999888888999999988888888999999999999999999


Q ss_pred             HHHHHhhhhc
Q psy2977          81 QWLIAHSKSH   90 (92)
Q Consensus        81 ~~l~~~i~~~   90 (92)
                      +||.+.++++
T Consensus       172 DWL~~~l~~~  181 (182)
T KOG0072|consen  172 DWLQRPLKSR  181 (182)
T ss_pred             HHHHHHHhcc
Confidence            9999998865

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.77  E-value=2.7e-18  Score=98.88  Aligned_cols=83  Identities=12%  Similarity=0.214  Sum_probs=62.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC----CCCHHHHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN----ALDEKELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~----~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      |||++|+++|+.+..|+.++.......++|+++|+||.|+..    ..+.++..+...    ..+++.+++|||++|.||
T Consensus        72 v~d~~~~~sf~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~~~v~~~~~~~~~~----~~~~~~~~e~SAk~~~~i  147 (158)
T cd04103          72 VFSLENEASFQTVYNLYHQLSSYRNISEIPLILVGTQDAISESNPRVIDDARARQLCA----DMKRCSYYETCATYGLNV  147 (158)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeeHHHhhhcCCcccCHHHHHHHHH----HhCCCcEEEEecCCCCCH
Confidence            689999999999999999887765456799999999999842    122222222111    123478999999999999


Q ss_pred             HHHHHHHHHhh
Q psy2977          77 DITLQWLIAHS   87 (92)
Q Consensus        77 ~~~~~~l~~~i   87 (92)
                      +++|+++++.+
T Consensus       148 ~~~f~~~~~~~  158 (158)
T cd04103         148 ERVFQEAAQKI  158 (158)
T ss_pred             HHHHHHHHhhC
Confidence            99999998653

The centaurins (alpha, beta, gamma, and delta) are large, multi-domain proteins that all contain an ArfGAP domain and ankyrin repeats, and in some cases, numerous additional domains. Centaurin gamma contains an additional GTPase domain near its N-terminus. The specific function of this GTPase domain has not been well characterized, but centaurin gamma 2 (CENTG2) may play a role in the development of autism. Centaurin gamma 1 is also called PIKE (phosphatidyl inositol (PI) 3-kinase enhancer) and centaurin gamma 2 is also known as AGAP (ArfGAP protein with a GTPase-like domain, ankyrin repeats and a Pleckstrin homology domain) or GGAP. Three isoforms of PIKE have been identified. PIKE-S (short) and PIKE-L (long) are brain-specific isoforms, with PIKE-S restricted to the nucleus and PIKE-L found in multiple cellular compartments. A third isoform, PIKE-A was identified in human glioblastoma brain cancers and has been found in various tissues.

>KOG0092|consensus

Probab=99.76  E-value=3.5e-18  Score=99.54  Aligned_cols=84  Identities=20%  Similarity=0.301  Sum_probs=69.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |||+++.+||..++.|+.++..... +++-+.|||||+||.+  ..+.++......     ..+..+|++||+||.||++
T Consensus        84 vYDit~~~SF~~aK~WvkeL~~~~~-~~~vialvGNK~DL~~~R~V~~~ea~~yAe-----~~gll~~ETSAKTg~Nv~~  157 (200)
T KOG0092|consen   84 VYDITDEESFEKAKNWVKELQRQAS-PNIVIALVGNKADLLERREVEFEEAQAYAE-----SQGLLFFETSAKTGENVNE  157 (200)
T ss_pred             EEecccHHHHHHHHHHHHHHHhhCC-CCeEEEEecchhhhhhcccccHHHHHHHHH-----hcCCEEEEEecccccCHHH
Confidence            6899999999999999999987654 6788889999999976  445566655543     3457799999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|..|++.+...
T Consensus       158 if~~Ia~~lp~~  169 (200)
T KOG0092|consen  158 IFQAIAEKLPCS  169 (200)
T ss_pred             HHHHHHHhccCc
Confidence            999999988653

>cd04120 Rab12 Rab12 subfamily

Probab=99.76  E-value=1.2e-17  Score=99.70  Aligned_cols=84  Identities=14%  Similarity=0.129  Sum_probs=62.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |||++++++|+.+..|+..+... ...+.|+++|+||+|+...  ...++..+...    ...++.+++|||++|.||++
T Consensus        79 VfDvtd~~Sf~~l~~w~~~i~~~-~~~~~piilVgNK~DL~~~~~v~~~~~~~~a~----~~~~~~~~etSAktg~gV~e  153 (202)
T cd04120          79 VYDITKKETFDDLPKWMKMIDKY-ASEDAELLLVGNKLDCETDREISRQQGEKFAQ----QITGMRFCEASAKDNFNVDE  153 (202)
T ss_pred             EEECcCHHHHHHHHHHHHHHHHh-CCCCCcEEEEEECcccccccccCHHHHHHHHH----hcCCCEEEEecCCCCCCHHH
Confidence            68999999999999888766443 3357999999999999642  23333222211    11246799999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|+||++.+.+
T Consensus       154 ~F~~l~~~~~~  164 (202)
T cd04120         154 IFLKLVDDILK  164 (202)
T ss_pred             HHHHHHHHHHH
Confidence            99999998754

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

>KOG0078|consensus

Probab=99.75  E-value=1e-17  Score=98.81  Aligned_cols=84  Identities=19%  Similarity=0.232  Sum_probs=67.3

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |||+++..+|+++..|+..+-++.+ .++|.+|||||+|+..  ..+.+.-. .++    ...+..++++||++|.||++
T Consensus        91 vyDitne~Sfeni~~W~~~I~e~a~-~~v~~~LvGNK~D~~~~R~V~~e~ge-~lA----~e~G~~F~EtSAk~~~NI~e  164 (207)
T KOG0078|consen   91 VYDITNEKSFENIRNWIKNIDEHAS-DDVVKILVGNKCDLEEKRQVSKERGE-ALA----REYGIKFFETSAKTNFNIEE  164 (207)
T ss_pred             EEEccchHHHHHHHHHHHHHHhhCC-CCCcEEEeeccccccccccccHHHHH-HHH----HHhCCeEEEccccCCCCHHH
Confidence            6899999999999999998877643 5899999999999975  23333222 222    24578899999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|..|++.+.++
T Consensus       165 aF~~La~~i~~k  176 (207)
T KOG0078|consen  165 AFLSLARDILQK  176 (207)
T ss_pred             HHHHHHHHHHhh
Confidence            999999999853

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.74  E-value=3.2e-17  Score=96.21  Aligned_cols=89  Identities=27%  Similarity=0.411  Sum_probs=68.8

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcC-CCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQ-DREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|++++.++..+..|+.++.......++|+++|+||+|++...+.+++...+++.... ...+++++|||++|+|++++
T Consensus        82 v~D~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~l  161 (183)
T cd04152          82 VVDSVDVERMEEAKTELHKITRFSENQGVPVLVLANKQDLPNALSVSEVEKLLALHELSASTPWHVQPACAIIGEGLQEG  161 (183)
T ss_pred             EEECCCHHHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCccccCCHHHHHHHhCccccCCCCceEEEEeecccCCCHHHH
Confidence            58999999998888888887764444579999999999997665666666555433221 22467899999999999999


Q ss_pred             HHHHHHhhhh
Q psy2977          80 LQWLIAHSKS   89 (92)
Q Consensus        80 ~~~l~~~i~~   89 (92)
                      |++|.+.+.+
T Consensus       162 ~~~l~~~l~~  171 (183)
T cd04152         162 LEKLYEMILK  171 (183)
T ss_pred             HHHHHHHHHH
Confidence            9999988854

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.

>PTZ00099 rab6; Provisional

Probab=99.74  E-value=2.4e-17  Score=96.48  Aligned_cols=83  Identities=18%  Similarity=0.270  Sum_probs=64.3

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++|+.+..|+..++... ..+.|+++|+||+|+...  .+.++.....     ...++.+++|||++|.||++
T Consensus        59 v~D~t~~~sf~~~~~w~~~i~~~~-~~~~piilVgNK~DL~~~~~v~~~e~~~~~-----~~~~~~~~e~SAk~g~nV~~  132 (176)
T PTZ00099         59 VYDITNRQSFENTTKWIQDILNER-GKDVIIALVGNKTDLGDLRKVTYEEGMQKA-----QEYNTMFHETSAKAGHNIKV  132 (176)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhc-CCCCeEEEEEECcccccccCCCHHHHHHHH-----HHcCCEEEEEECCCCCCHHH
Confidence            689999999999999999887653 257899999999999642  2333333321     12346789999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|+||++.+.+
T Consensus       133 lf~~l~~~l~~  143 (176)
T PTZ00099        133 LFKKIAAKLPN  143 (176)
T ss_pred             HHHHHHHHHHh
Confidence            99999998865

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.74  E-value=2.6e-17  Score=94.81  Aligned_cols=85  Identities=29%  Similarity=0.589  Sum_probs=67.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCC--cCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCA--IQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~--~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|+++++++.....++..+++.....++|+++++||+|++......++...+....  .....++++++||++|+|+++
T Consensus        80 vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e  159 (167)
T cd04160          80 VIDSTDRERFEESKSALEKVLRNEALEGVPLLILANKQDLPDALSVEEIKEVFQDKAEEIGRRDCLVLPVSALEGTGVRE  159 (167)
T ss_pred             EEECchHHHHHHHHHHHHHHHhChhhcCCCEEEEEEccccccCCCHHHHHHHhccccccccCCceEEEEeeCCCCcCHHH
Confidence            579999888988888888888765556799999999999987666666665544221  122457899999999999999


Q ss_pred             HHHHHHH
Q psy2977          79 TLQWLIA   85 (92)
Q Consensus        79 ~~~~l~~   85 (92)
                      +++||++
T Consensus       160 ~~~~l~~  166 (167)
T cd04160         160 GIEWLVE  166 (167)
T ss_pred             HHHHHhc
Confidence            9999975

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.

>cd04155 Arl3 Arl3 subfamily

Probab=99.74  E-value=3.8e-17  Score=94.64  Aligned_cols=85  Identities=32%  Similarity=0.588  Sum_probs=69.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++.++.....++..++......++|+++++||+|+......+++.+.+++.....+.++++++||++|+|++++|
T Consensus        88 v~D~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~i~~~l~~~~~~~~~~~~~~~Sa~~~~gi~~~~  167 (173)
T cd04155          88 VIDSADKKRLEEAGAELVELLEEEKLAGVPVLVFANKQDLATAAPAEEIAEALNLHDLRDRTWHIQACSAKTGEGLQEGM  167 (173)
T ss_pred             EEeCCCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECCCCccCCCHHHHHHHcCCcccCCCeEEEEEeECCCCCCHHHHH
Confidence            57999888888888888887765444579999999999997666667777777766555556788999999999999999


Q ss_pred             HHHHH
Q psy2977          81 QWLIA   85 (92)
Q Consensus        81 ~~l~~   85 (92)
                      +||++
T Consensus       168 ~~l~~  172 (173)
T cd04155         168 NWVCK  172 (173)
T ss_pred             HHHhc
Confidence            99976

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.

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.73  E-value=3.9e-18  Score=99.31  Aligned_cols=85  Identities=16%  Similarity=0.216  Sum_probs=63.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+|+.+..|+..+.......++|+++|+||+|+...  .+.++.....     ...++++++|||++|.||++
T Consensus        80 v~d~~~~~Sf~~~~~~~~~i~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~a-----~~~~~~~~e~Sa~~~~~v~~  154 (172)
T cd04141          80 CYSVTDRHSFQEASEFKKLITRVRLTEDIPLVLVGNKVDLESQRQVTTEEGRNLA-----REFNCPFFETSAALRHYIDD  154 (172)
T ss_pred             EEECCchhHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhhhhcCccCHHHHHHHH-----HHhCCEEEEEecCCCCCHHH
Confidence            5899999999999877655544322357999999999998643  2333332221     23457899999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|+||++.+.++
T Consensus       155 ~f~~l~~~~~~~  166 (172)
T cd04141         155 AFHGLVREIRRK  166 (172)
T ss_pred             HHHHHHHHHHHh
Confidence            999999988754

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

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

Probab=99.73  E-value=3.3e-17  Score=94.85  Aligned_cols=84  Identities=23%  Similarity=0.309  Sum_probs=64.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|+++++++..+..|+..+....  .++|+++|+||+|+.......+..+..     ......++++||++|+|++++|
T Consensus        79 v~d~~~~~s~~~~~~~~~~i~~~~--~~~piiiv~nK~Dl~~~~~~~~~~~~~-----~~~~~~~~e~Sa~~~~~v~~~f  151 (166)
T cd00877          79 MFDVTSRVTYKNVPNWHRDLVRVC--GNIPIVLCGNKVDIKDRKVKAKQITFH-----RKKNLQYYEISAKSNYNFEKPF  151 (166)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhC--CCCcEEEEEEchhcccccCCHHHHHHH-----HHcCCEEEEEeCCCCCChHHHH
Confidence            689999999999988988887653  379999999999997432222222211     2345779999999999999999


Q ss_pred             HHHHHhhhhcC
Q psy2977          81 QWLIAHSKSHT   91 (92)
Q Consensus        81 ~~l~~~i~~~~   91 (92)
                      ++|++.+.+..
T Consensus       152 ~~l~~~~~~~~  162 (166)
T cd00877         152 LWLARKLLGNP  162 (166)
T ss_pred             HHHHHHHHhcc
Confidence            99999987643

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

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

Probab=99.73  E-value=2.9e-17  Score=97.83  Aligned_cols=81  Identities=23%  Similarity=0.367  Sum_probs=63.3

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC-CHHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL-DEKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~-~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |||++++.+|..+..|+.++....  .++|+++|+||+|+.... ..+.. . +.    ...++.+++|||++|+||+++
T Consensus        74 V~D~t~~~S~~~i~~w~~~i~~~~--~~~piilvgNK~Dl~~~~v~~~~~-~-~~----~~~~~~~~e~SAk~~~~v~~~  145 (200)
T smart00176       74 MFDVTARVTYKNVPNWHRDLVRVC--ENIPIVLCGNKVDVKDRKVKAKSI-T-FH----RKKNLQYYDISAKSNYNFEKP  145 (200)
T ss_pred             EEECCChHHHHHHHHHHHHHHHhC--CCCCEEEEEECcccccccCCHHHH-H-HH----HHcCCEEEEEeCCCCCCHHHH
Confidence            689999999999999999887642  479999999999985422 22222 1 11    234578999999999999999


Q ss_pred             HHHHHHhhhh
Q psy2977          80 LQWLIAHSKS   89 (92)
Q Consensus        80 ~~~l~~~i~~   89 (92)
                      |+||++.+.+
T Consensus       146 F~~l~~~i~~  155 (200)
T smart00176      146 FLWLARKLIG  155 (200)
T ss_pred             HHHHHHHHHh
Confidence            9999998865

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

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

Probab=99.73  E-value=8.9e-17  Score=91.90  Aligned_cols=86  Identities=36%  Similarity=0.681  Sum_probs=69.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|+++++++..+..++..+.......+.|+++++||+|+......+++.+.++........++++++||++|.|++++|
T Consensus        73 v~D~~~~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~  152 (158)
T cd00878          73 VVDSSDRERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPGALSVSELIEKLGLEKILGRRWHIQPCSAVTGDGLDEGL  152 (158)
T ss_pred             EEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCccccCHHHHHHhhChhhccCCcEEEEEeeCCCCCCHHHHH
Confidence            58999999999998888888775445679999999999998665666777766544223456789999999999999999


Q ss_pred             HHHHHh
Q psy2977          81 QWLIAH   86 (92)
Q Consensus        81 ~~l~~~   86 (92)
                      ++|..+
T Consensus       153 ~~l~~~  158 (158)
T cd00878         153 DWLLQQ  158 (158)
T ss_pred             HHHhhC
Confidence            999753

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

>cd04122 Rab14 Rab14 subfamily

Probab=99.72  E-value=6.7e-17  Score=93.26  Aligned_cols=83  Identities=14%  Similarity=0.093  Sum_probs=64.3

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++|+.+..|+..+.... ..+.|+++|+||+|+....  +.++..+..     ...++++++|||++|+||++
T Consensus        81 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~iiiv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~e~Sa~~~~~i~e  154 (166)
T cd04122          81 VYDITRRSTYNHLSSWLTDARNLT-NPNTVIFLIGNKADLEAQRDVTYEEAKQFA-----DENGLLFLECSAKTGENVED  154 (166)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhC-CCCCeEEEEEECcccccccCcCHHHHHHHH-----HHcCCEEEEEECCCCCCHHH
Confidence            689999999999999988875532 2568999999999996532  334443332     12356899999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|.++++.+.+
T Consensus       155 ~f~~l~~~~~~  165 (166)
T cd04122         155 AFLETAKKIYQ  165 (166)
T ss_pred             HHHHHHHHHhh
Confidence            99999988754

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

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.72  E-value=6.9e-17  Score=95.99  Aligned_cols=85  Identities=27%  Similarity=0.309  Sum_probs=64.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcC---CCCCCCcEEEEeeCCCCC--CCCCHHHHHHhhccCCcCCCc-eEEEeeccccCC
Q psy2977           1 MVDAADTDKLEASRNELHALIEK---PQLIGIPILVLGNKRDLP--NALDEKELIDRMNLCAIQDRE-ICCYSISCKERD   74 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~---~~~~~~p~ilv~NK~Dl~--~~~~~~~~~~~~~~~~~~~~~-~~~~~~SA~~~~   74 (92)
                      |||++++++|+.+..|+..+...   ....++|+++|+||+|+.  ...+.+++.+...     ..+ ..+++|||++|.
T Consensus        80 v~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~e~Sak~~~  154 (201)
T cd04107          80 VFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKKRLAKDGEQMDQFCK-----ENGFIGWFETSAKEGI  154 (201)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcccccccCHHHHHHHHH-----HcCCceEEEEeCCCCC
Confidence            58999999999998887766432   123578999999999996  3445555554432     122 579999999999


Q ss_pred             CHHHHHHHHHHhhhhc
Q psy2977          75 NIDITLQWLIAHSKSH   90 (92)
Q Consensus        75 gi~~~~~~l~~~i~~~   90 (92)
                      ||+++|+||.+.+.+.
T Consensus       155 ~v~e~f~~l~~~l~~~  170 (201)
T cd04107         155 NIEEAMRFLVKNILAN  170 (201)
T ss_pred             CHHHHHHHHHHHHHHh
Confidence            9999999999988653

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.

>cd04175 Rap1 Rap1 subgroup

Probab=99.72  E-value=5.6e-17  Score=93.32  Aligned_cols=83  Identities=12%  Similarity=0.196  Sum_probs=63.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+|+....|+..+.......+.|+++|+||+|+....  +..+.....     ...+++++++||++|.|+++
T Consensus        79 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~~v~~  153 (164)
T cd04175          79 VYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLA-----RQWGCAFLETSAKAKINVNE  153 (164)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcchhccEEcHHHHHHHH-----HHhCCEEEEeeCCCCCCHHH
Confidence            57999999999998898888765444679999999999996432  222222211     12246799999999999999


Q ss_pred             HHHHHHHhhh
Q psy2977          79 TLQWLIAHSK   88 (92)
Q Consensus        79 ~~~~l~~~i~   88 (92)
                      +|.||.+.+.
T Consensus       154 ~~~~l~~~l~  163 (164)
T cd04175         154 IFYDLVRQIN  163 (164)
T ss_pred             HHHHHHHHhh
Confidence            9999998775

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

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.72  E-value=6.6e-17  Score=93.45  Aligned_cols=83  Identities=34%  Similarity=0.546  Sum_probs=67.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCc-CCCceEEEeecccc------C
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAI-QDREICCYSISCKE------R   73 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~~~SA~~------~   73 (92)
                      |+|++++.++..++.|+.+++...  .++|+++|+||+|++.+...+++...++...+ ...++.+++|||++      +
T Consensus        74 V~D~t~~~s~~~~~~~l~~~~~~~--~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~s~~~~  151 (164)
T cd04162          74 VVDSADSERLPLARQELHQLLQHP--PDLPLVVLANKQDLPAARSVQEIHKELELEPIARGRRWILQGTSLDDDGSPSRM  151 (164)
T ss_pred             EEECCCHHHHHHHHHHHHHHHhCC--CCCcEEEEEeCcCCcCCCCHHHHHHHhCChhhcCCCceEEEEeeecCCCChhHH
Confidence            689999999999999998887542  57999999999999877777777666655444 34578899999998      9


Q ss_pred             CCHHHHHHHHHH
Q psy2977          74 DNIDITLQWLIA   85 (92)
Q Consensus        74 ~gi~~~~~~l~~   85 (92)
                      +||+++|+.|..
T Consensus       152 ~~v~~~~~~~~~  163 (164)
T cd04162         152 EAVKDLLSQLIN  163 (164)
T ss_pred             HHHHHHHHHHhc
Confidence            999999998864

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.

>cd04133 Rop_like Rop subfamily

Probab=99.71  E-value=7.5e-17  Score=94.41  Aligned_cols=81  Identities=15%  Similarity=0.165  Sum_probs=61.1

Q ss_pred             CeeCCchhhHHHH-HHHHHHhhcCCCCCCCcEEEEeeCCCCCCC------------CCHHHHHHhhccCCcCCCce-EEE
Q psy2977           1 MVDAADTDKLEAS-RNELHALIEKPQLIGIPILVLGNKRDLPNA------------LDEKELIDRMNLCAIQDREI-CCY   66 (92)
Q Consensus         1 v~D~s~~~~~~~~-~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~------------~~~~~~~~~~~~~~~~~~~~-~~~   66 (92)
                      |||++++++|+.+ ..|+.++....  .+.|++|||||+||.+.            .+.++.....     ...+. .++
T Consensus        79 vyd~~~~~Sf~~~~~~w~~~i~~~~--~~~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a-----~~~~~~~~~  151 (176)
T cd04133          79 AFSLISRASYENVLKKWVPELRHYA--PNVPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEELR-----KQIGAAAYI  151 (176)
T ss_pred             EEEcCCHHHHHHHHHHHHHHHHHhC--CCCCEEEEEeChhhccChhhhhhccCCCCCCHHHHHHHH-----HHcCCCEEE
Confidence            6899999999998 57988876542  47999999999999542            2233322221     12234 589


Q ss_pred             eeccccCCCHHHHHHHHHHhhh
Q psy2977          67 SISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        67 ~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      +|||++|.||+++|+.+++.+.
T Consensus       152 E~SAk~~~nV~~~F~~~~~~~~  173 (176)
T cd04133         152 ECSSKTQQNVKAVFDAAIKVVL  173 (176)
T ss_pred             ECCCCcccCHHHHHHHHHHHHh
Confidence            9999999999999999998764

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,

>cd04127 Rab27A Rab27a subfamily

Probab=99.71  E-value=9.1e-17  Score=93.64  Aligned_cols=85  Identities=18%  Similarity=0.234  Sum_probs=64.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++|..+..|+..+.......+.|+++|+||+|+.+.  .+.++..+...     ..+.+++++||++|.|+++
T Consensus        93 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~e~Sak~~~~v~~  167 (180)
T cd04127          93 IFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLEDQRQVSEEQAKALAD-----KYGIPYFETSAATGTNVEK  167 (180)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchhcCccCHHHHHHHHH-----HcCCeEEEEeCCCCCCHHH
Confidence            6899999999999999988765433457899999999999643  23333333221     2245799999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|.+.+.++
T Consensus       168 l~~~l~~~~~~~  179 (180)
T cd04127         168 AVERLLDLVMKR  179 (180)
T ss_pred             HHHHHHHHHHhh
Confidence            999999887653

The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated

>cd01875 RhoG RhoG subfamily

Probab=99.71  E-value=1.1e-16  Score=94.51  Aligned_cols=86  Identities=19%  Similarity=0.231  Sum_probs=60.1

Q ss_pred             CeeCCchhhHHHHH-HHHHHhhcCCCCCCCcEEEEeeCCCCCCCCC-HHHHHHhhccCC---------cCCCc-eEEEee
Q psy2977           1 MVDAADTDKLEASR-NELHALIEKPQLIGIPILVLGNKRDLPNALD-EKELIDRMNLCA---------IQDRE-ICCYSI   68 (92)
Q Consensus         1 v~D~s~~~~~~~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~-~~~~~~~~~~~~---------~~~~~-~~~~~~   68 (92)
                      |||++++++|+.+. .|+..+...  ..++|++||+||+||.+... .+.+.+ .....         ....+ +++++|
T Consensus        81 vydit~~~Sf~~~~~~w~~~i~~~--~~~~piilvgNK~DL~~~~~~~~~~~~-~~~~~v~~~~~~~~a~~~~~~~~~e~  157 (191)
T cd01875          81 CFSIASPSSYENVRHKWHPEVCHH--CPNVPILLVGTKKDLRNDADTLKKLKE-QGQAPITPQQGGALAKQIHAVKYLEC  157 (191)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhh--CCCCCEEEEEeChhhhcChhhHHHHhh-ccCCCCCHHHHHHHHHHcCCcEEEEe
Confidence            58999999999996 477666543  25799999999999965321 111111 00000         01123 689999


Q ss_pred             ccccCCCHHHHHHHHHHhhhh
Q psy2977          69 SCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        69 SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      ||++|.||+++|++|++.+..
T Consensus       158 SAk~g~~v~e~f~~l~~~~~~  178 (191)
T cd01875         158 SALNQDGVKEVFAEAVRAVLN  178 (191)
T ss_pred             CCCCCCCHHHHHHHHHHHHhc
Confidence            999999999999999988754

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

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.70  E-value=1.2e-16  Score=94.81  Aligned_cols=79  Identities=16%  Similarity=0.133  Sum_probs=58.8

Q ss_pred             CeeCCchhhHHHHH-HHHHHhhcCCCCCCCcEEEEeeCCCCCCC---------------------CCHHHHHHhhccCCc
Q psy2977           1 MVDAADTDKLEASR-NELHALIEKPQLIGIPILVLGNKRDLPNA---------------------LDEKELIDRMNLCAI   58 (92)
Q Consensus         1 v~D~s~~~~~~~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~---------------------~~~~~~~~~~~~~~~   58 (92)
                      |+|++++.+|+.+. .|+..+...  ..+.|+++|+||+||...                     .+.++..+..     
T Consensus        94 v~d~t~~~Sf~~~~~~w~~~i~~~--~~~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~~~V~~~e~~~~a-----  166 (195)
T cd01873          94 CFSIASPNSLRNVKTMWYPEIRHF--CPRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILPPETGRAVA-----  166 (195)
T ss_pred             EEECCChhHHHHHHHHHHHHHHHh--CCCCCEEEEEEchhccccccchhhhcccccccccccCCccCHHHHHHHH-----
Confidence            58999999999986 587776543  247899999999998631                     1223332221     


Q ss_pred             CCCceEEEeeccccCCCHHHHHHHHHHh
Q psy2977          59 QDREICCYSISCKERDNIDITLQWLIAH   86 (92)
Q Consensus        59 ~~~~~~~~~~SA~~~~gi~~~~~~l~~~   86 (92)
                      ...++++++|||++|+||+++|+.+++.
T Consensus       167 ~~~~~~~~E~SAkt~~~V~e~F~~~~~~  194 (195)
T cd01873         167 KELGIPYYETSVVTQFGVKDVFDNAIRA  194 (195)
T ss_pred             HHhCCEEEEcCCCCCCCHHHHHHHHHHh
Confidence            2335689999999999999999999864

Members of the RhoBTB subfamily of Rho GTPases are present in vertebrates, Drosophila, and Dictyostelium. RhoBTB proteins are characterized by a modular organization, consisting of a GTPase domain, a proline rich region, a tandem of two BTB (Broad-Complex, Tramtrack, and Bric a brac) domains, and a C-terminal region of unknown function. RhoBTB proteins may act as docking points for multiple components participating in signal transduction cascades. RhoBTB genes appeared upregulated in some cancer cell lines, suggesting a participation of RhoBTB proteins in the pathogenesis of particular tumors. Note that the Dictyostelium RacA GTPase domain is more closely related to Rac proteins than to RhoBTB proteins, where RacA actually belongs. Thus, the Dictyostelium RacA is not included here. Most Rho proteins contain a lipid modification site at the C-terminus; however, RhoBTB is one of few Rho subfamilies that lack this feature.

>cd04142 RRP22 RRP22 subfamily

Probab=99.70  E-value=2e-16  Score=94.05  Aligned_cols=87  Identities=18%  Similarity=0.170  Sum_probs=65.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCC--CCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKP--QLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~--~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      |||++++++|+.+..|++.+....  ...++|+++|+||+|+....  +.++......    +..+.++++|||++|.||
T Consensus        87 v~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~~~~~~~~~~~~~~----~~~~~~~~e~Sak~g~~v  162 (198)
T cd04142          87 VYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQRHRFAPRHVLSVLVR----KSWKCGYLECSAKYNWHI  162 (198)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccccccccccHHHHHHHHH----HhcCCcEEEecCCCCCCH
Confidence            689999999999988888877643  23579999999999996432  2233322111    123567999999999999


Q ss_pred             HHHHHHHHHhhhhcC
Q psy2977          77 DITLQWLIAHSKSHT   91 (92)
Q Consensus        77 ~~~~~~l~~~i~~~~   91 (92)
                      +++|+.+++.+..+.
T Consensus       163 ~~lf~~i~~~~~~~~  177 (198)
T cd04142         163 LLLFKELLISATTRG  177 (198)
T ss_pred             HHHHHHHHHHhhccC
Confidence            999999998886654

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.

>cd04136 Rap_like Rap-like subfamily

Probab=99.70  E-value=1.8e-16  Score=90.82  Aligned_cols=82  Identities=16%  Similarity=0.244  Sum_probs=61.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+|+....|+..+.......++|+++|+||+|+.+.  ...++.....     ...+.+++++||++|.|+++
T Consensus        79 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~~v~~  153 (163)
T cd04136          79 VYSITSQSSFNDLQDLREQILRVKDTENVPMVLVGNKCDLEDERVVSREEGQALA-----RQWGCPFYETSAKSKINVDE  153 (163)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceecHHHHHHHH-----HHcCCeEEEecCCCCCCHHH
Confidence            5799999999999888888876544467999999999999642  2222222211     12236799999999999999


Q ss_pred             HHHHHHHhh
Q psy2977          79 TLQWLIAHS   87 (92)
Q Consensus        79 ~~~~l~~~i   87 (92)
                      +|++|.+.+
T Consensus       154 l~~~l~~~~  162 (163)
T cd04136         154 VFADLVRQI  162 (163)
T ss_pred             HHHHHHHhc
Confidence            999998865

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.

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.69  E-value=1.4e-16  Score=96.00  Aligned_cols=81  Identities=22%  Similarity=0.284  Sum_probs=63.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC-CHHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL-DEKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~-~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |||++++.+|..+..|+..+...  ..+.|+++|+||+|+.... ..+++ ...     ...++++++|||++|.||+++
T Consensus        92 vfD~~~~~s~~~i~~w~~~i~~~--~~~~piilvgNK~Dl~~~~v~~~~~-~~~-----~~~~~~~~e~SAk~~~~i~~~  163 (219)
T PLN03071         92 MFDVTARLTYKNVPTWHRDLCRV--CENIPIVLCGNKVDVKNRQVKAKQV-TFH-----RKKNLQYYEISAKSNYNFEKP  163 (219)
T ss_pred             EEeCCCHHHHHHHHHHHHHHHHh--CCCCcEEEEEEchhhhhccCCHHHH-HHH-----HhcCCEEEEcCCCCCCCHHHH
Confidence            58999999999999999888754  3579999999999996422 22333 211     124577999999999999999


Q ss_pred             HHHHHHhhhh
Q psy2977          80 LQWLIAHSKS   89 (92)
Q Consensus        80 ~~~l~~~i~~   89 (92)
                      |+||++.+.+
T Consensus       164 f~~l~~~~~~  173 (219)
T PLN03071        164 FLYLARKLAG  173 (219)
T ss_pred             HHHHHHHHHc
Confidence            9999998864

>KOG0084|consensus

Probab=99.69  E-value=1.5e-16  Score=93.14  Aligned_cols=85  Identities=18%  Similarity=0.237  Sum_probs=67.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceE-EEeeccccCCCHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREIC-CYSISCKERDNID   77 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~-~~~~SA~~~~gi~   77 (92)
                      |||+|+.++|+.+..|+.++-.+. ..++|.++|+||+|+.+..  +.++..+...     ..+.+ ++++||+++.||+
T Consensus        88 vyDiT~~~SF~~v~~Wi~Ei~~~~-~~~v~~lLVGNK~Dl~~~~~v~~~~a~~fa~-----~~~~~~f~ETSAK~~~NVe  161 (205)
T KOG0084|consen   88 VYDITKQESFNNVKRWIQEIDRYA-SENVPKLLVGNKCDLTEKRVVSTEEAQEFAD-----ELGIPIFLETSAKDSTNVE  161 (205)
T ss_pred             EEEcccHHHhhhHHHHHHHhhhhc-cCCCCeEEEeeccccHhheecCHHHHHHHHH-----hcCCcceeecccCCccCHH
Confidence            689999999999999999997753 3578999999999997643  3333333221     23445 9999999999999


Q ss_pred             HHHHHHHHhhhhcC
Q psy2977          78 ITLQWLIAHSKSHT   91 (92)
Q Consensus        78 ~~~~~l~~~i~~~~   91 (92)
                      ++|..|+..++.+.
T Consensus       162 ~~F~~la~~lk~~~  175 (205)
T KOG0084|consen  162 DAFLTLAKELKQRK  175 (205)
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999999998653

>PTZ00369 Ras-like protein; Provisional

Probab=99.69  E-value=2.7e-16  Score=92.66  Aligned_cols=84  Identities=18%  Similarity=0.209  Sum_probs=63.8

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++|+....|+..+.......+.|+++|+||+|+++..  ...+.....     ...+++++++||++|.||++
T Consensus        83 v~D~s~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~i~~~~~~~~~-----~~~~~~~~e~Sak~~~gi~~  157 (189)
T PTZ00369         83 VYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDSERQVSTGEGQELA-----KSFGIPFLETSAKQRVNVDE  157 (189)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHH-----HHhCCEEEEeeCCCCCCHHH
Confidence            58999999999998888887764334578999999999986432  322222221     12346799999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|+||++.+.+
T Consensus       158 ~~~~l~~~l~~  168 (189)
T PTZ00369        158 AFYELVREIRK  168 (189)
T ss_pred             HHHHHHHHHHH
Confidence            99999988764

>KOG0076|consensus

Probab=99.69  E-value=1.9e-17  Score=95.27  Aligned_cols=90  Identities=28%  Similarity=0.540  Sum_probs=78.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCc-CCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAI-QDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      +||++|+++|+.....++.++.+....++|+++.+||+|+.++....++...+++... ..+...+.++||.+|+||++.
T Consensus        99 viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~~~~~~El~~~~~~~e~~~~rd~~~~pvSal~gegv~eg  178 (197)
T KOG0076|consen   99 VIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQNAMEAAELDGVFGLAELIPRRDNPFQPVSALTGEGVKEG  178 (197)
T ss_pred             eecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhhhhhHHHHHHHhhhhhhcCCccCccccchhhhcccHHHH
Confidence            5899999999999999999998877889999999999999998888888887774322 234567999999999999999


Q ss_pred             HHHHHHhhhhc
Q psy2977          80 LQWLIAHSKSH   90 (92)
Q Consensus        80 ~~~l~~~i~~~   90 (92)
                      ..|+...+.++
T Consensus       179 i~w~v~~~~kn  189 (197)
T KOG0076|consen  179 IEWLVKKLEKN  189 (197)
T ss_pred             HHHHHHHHhhc
Confidence            99999998776

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

Probab=99.69  E-value=1.9e-16  Score=90.42  Aligned_cols=82  Identities=16%  Similarity=0.212  Sum_probs=61.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC-CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA-LDEKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|++++.+|.....|+..+.......+.|+++|+||+|+... ....+.....     ...+++++++||++|.|++++
T Consensus        79 v~~~~~~~s~~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~gi~~l  153 (162)
T cd04138          79 VFAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAARTVSSRQGQDLA-----KSYGIPYIETSAKTRQGVEEA  153 (162)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccceecHHHHHHHH-----HHhCCeEEEecCCCCCCHHHH
Confidence            5789999999988888888776544457899999999999642 2223333222     123467999999999999999


Q ss_pred             HHHHHHhh
Q psy2977          80 LQWLIAHS   87 (92)
Q Consensus        80 ~~~l~~~i   87 (92)
                      |++|++.+
T Consensus       154 ~~~l~~~~  161 (162)
T cd04138         154 FYTLVREI  161 (162)
T ss_pred             HHHHHHHh
Confidence            99998765

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.

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.68  E-value=8e-16  Score=87.27  Aligned_cols=85  Identities=67%  Similarity=1.093  Sum_probs=66.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++.++.....++..++......++|+++|+||+|+.+.....++...+.+.......++++++||++|.|+++++
T Consensus        74 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  153 (159)
T cd04159          74 VVDAADRTALEAAKNELHDLLEKPSLEGIPLLVLGNKNDLPGALSVDELIEQMNLKSITDREVSCYSISCKEKTNIDIVL  153 (159)
T ss_pred             EEECCCHHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCCcCHHHHHHHhCcccccCCceEEEEEEeccCCChHHHH
Confidence            57999888888888888888765444678999999999997655555555555444333445789999999999999999


Q ss_pred             HHHHH
Q psy2977          81 QWLIA   85 (92)
Q Consensus        81 ~~l~~   85 (92)
                      +||.+
T Consensus       154 ~~l~~  158 (159)
T cd04159         154 DWLIK  158 (159)
T ss_pred             HHHhh
Confidence            99975

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.

>KOG0094|consensus

Probab=99.68  E-value=1.2e-16  Score=93.54  Aligned_cols=86  Identities=15%  Similarity=0.180  Sum_probs=66.8

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |||++|.++|++..+|++.++...+..++-+++||||.||.+..   ++...-+....+..+..++++||++|.||.++|
T Consensus       101 VyDit~~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnKtDL~dkr---qvs~eEg~~kAkel~a~f~etsak~g~NVk~lF  177 (221)
T KOG0094|consen  101 VYDITDRNSFENTSKWIEDVRRERGSDDVIIFLVGNKTDLSDKR---QVSIEEGERKAKELNAEFIETSAKAGENVKQLF  177 (221)
T ss_pred             EEeccccchHHHHHHHHHHHHhccCCCceEEEEEcccccccchh---hhhHHHHHHHHHHhCcEEEEecccCCCCHHHHH
Confidence            68999999999999999999988766668889999999997532   221111111123456689999999999999999


Q ss_pred             HHHHHhhhh
Q psy2977          81 QWLIAHSKS   89 (92)
Q Consensus        81 ~~l~~~i~~   89 (92)
                      ..++..+..
T Consensus       178 rrIaa~l~~  186 (221)
T KOG0094|consen  178 RRIAAALPG  186 (221)
T ss_pred             HHHHHhccC
Confidence            999887754

>cd04126 Rab20 Rab20 subfamily

Probab=99.68  E-value=4.3e-16  Score=94.04  Aligned_cols=87  Identities=20%  Similarity=0.263  Sum_probs=61.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC---------------------CCCHHHHHHhhccCC--
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN---------------------ALDEKELIDRMNLCA--   57 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~---------------------~~~~~~~~~~~~~~~--   57 (92)
                      |||++++++|..+..|+..+... ...++|++||+||+|+.+                     ..+.++.........  
T Consensus        74 V~Dvt~~~Sf~~l~~~~~~l~~~-~~~~~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~~~~r~v~~~e~~~~a~~~~~~  152 (220)
T cd04126          74 TYDVSNVQSLEELEDRFLGLTDT-ANEDCLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKY  152 (220)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHh-cCCCCcEEEEEECcccccccccccccccccccccccccccCCHHHHHHHHHHhCcc
Confidence            68999999999998888887654 235689999999999964                     112233222211000  


Q ss_pred             ------c-CCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          58 ------I-QDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        58 ------~-~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                            + .....++++|||++|.||+++|.++++.+.
T Consensus       153 ~~~~~~~~~~~~~~~~E~SA~tg~~V~elf~~i~~~~~  190 (220)
T cd04126         153 KMLDEDLSPAAEKMCFETSAKTGYNVDELFEYLFNLVL  190 (220)
T ss_pred             ccccccccccccceEEEeeCCCCCCHHHHHHHHHHHHH
Confidence                  0 001257999999999999999999998775

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

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.68  E-value=4.8e-16  Score=89.28  Aligned_cols=84  Identities=20%  Similarity=0.242  Sum_probs=63.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++++....|...+.......+.|+++|+||+|+....  ..++......     ..+.+++++||++|.|+++
T Consensus        78 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~i~~  152 (164)
T smart00173       78 VYSITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLESERVVSTEEGKELAR-----QWGCPFLETSAKERVNVDE  152 (164)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceEcHHHHHHHHH-----HcCCEEEEeecCCCCCHHH
Confidence            57999999999988888777654444578999999999996532  2233322221     2246799999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|++|.+.+.+
T Consensus       153 l~~~l~~~~~~  163 (164)
T smart00173      153 AFYDLVREIRK  163 (164)
T ss_pred             HHHHHHHHHhh
Confidence            99999988764

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

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

Probab=99.67  E-value=4.8e-16  Score=89.16  Aligned_cols=82  Identities=20%  Similarity=0.251  Sum_probs=62.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.++.....|+..+.......+.|+++++||+|+....  ..++.....     ...+++++++||++|.|+++
T Consensus        80 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~~i~~  154 (164)
T cd04145          80 VFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQRKVSREEGQELA-----RKLKIPYIETSAKDRLNVDK  154 (164)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCccccccceecHHHHHHHH-----HHcCCcEEEeeCCCCCCHHH
Confidence            58999999999998888887764334578999999999996532  223332222     12245789999999999999


Q ss_pred             HHHHHHHhh
Q psy2977          79 TLQWLIAHS   87 (92)
Q Consensus        79 ~~~~l~~~i   87 (92)
                      +|++|.+.+
T Consensus       155 l~~~l~~~~  163 (164)
T cd04145         155 AFHDLVRVI  163 (164)
T ss_pred             HHHHHHHhh
Confidence            999998865

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

>cd04117 Rab15 Rab15 subfamily

Probab=99.67  E-value=6.5e-16  Score=88.96  Aligned_cols=80  Identities=14%  Similarity=0.142  Sum_probs=60.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++|+.+..|+..+.... ..+.|+++|+||.|+....  ..++.....     +..+.++++|||++|.||++
T Consensus        79 v~d~~~~~sf~~~~~~~~~~~~~~-~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~-----~~~~~~~~e~Sa~~~~~v~~  152 (161)
T cd04117          79 VYDISSERSYQHIMKWVSDVDEYA-PEGVQKILIGNKADEEQKRQVGDEQGNKLA-----KEYGMDFFETSACTNSNIKE  152 (161)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhC-CCCCeEEEEEECcccccccCCCHHHHHHHH-----HHcCCEEEEEeCCCCCCHHH
Confidence            589999999999999988876542 2468999999999996433  233322221     12235789999999999999


Q ss_pred             HHHHHHHh
Q psy2977          79 TLQWLIAH   86 (92)
Q Consensus        79 ~~~~l~~~   86 (92)
                      +|+||++.
T Consensus       153 ~f~~l~~~  160 (161)
T cd04117         153 SFTRLTEL  160 (161)
T ss_pred             HHHHHHhh
Confidence            99999875

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

>cd04134 Rho3 Rho3 subfamily

Probab=99.67  E-value=6.1e-16  Score=91.20  Aligned_cols=87  Identities=17%  Similarity=0.203  Sum_probs=61.0

Q ss_pred             CeeCCchhhHHHHH-HHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhh---------ccCCcC-CCceEEEeec
Q psy2977           1 MVDAADTDKLEASR-NELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRM---------NLCAIQ-DREICCYSIS   69 (92)
Q Consensus         1 v~D~s~~~~~~~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~---------~~~~~~-~~~~~~~~~S   69 (92)
                      |||++++++|+.+. .|+..+...  ..+.|+++|+||+|+.......+.....         +..... ...+.+++||
T Consensus        78 v~dv~~~~sf~~~~~~~~~~i~~~--~~~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~S  155 (189)
T cd04134          78 CFSVDSPDSLENVESKWLGEIREH--CPGVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAKRINALRYLECS  155 (189)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHh--CCCCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEcc
Confidence            58999999998875 588777654  2478999999999997543222111100         000001 1236799999


Q ss_pred             cccCCCHHHHHHHHHHhhhh
Q psy2977          70 CKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        70 A~~~~gi~~~~~~l~~~i~~   89 (92)
                      |++|.||+++|+||++.+..
T Consensus       156 Ak~~~~v~e~f~~l~~~~~~  175 (189)
T cd04134         156 AKLNRGVNEAFTEAARVALN  175 (189)
T ss_pred             CCcCCCHHHHHHHHHHHHhc
Confidence            99999999999999988764

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.

>cd04144 Ras2 Ras2 subfamily

Probab=99.67  E-value=6.5e-16  Score=91.13  Aligned_cols=85  Identities=14%  Similarity=0.150  Sum_probs=62.8

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCC--CCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQ--LIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~--~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      |||++++++|+.+..|+..+.....  ..+.|+++|+||+|+...  .+..+..+..     ...++.++++||++|.|+
T Consensus        77 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~~-----~~~~~~~~e~SAk~~~~v  151 (190)
T cd04144          77 VYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYEREVSTEEGAALA-----RRLGCEFIEASAKTNVNV  151 (190)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhccccCccCHHHHHHHH-----HHhCCEEEEecCCCCCCH
Confidence            5799999999998888877764321  256899999999999642  2333322211     123467999999999999


Q ss_pred             HHHHHHHHHhhhhc
Q psy2977          77 DITLQWLIAHSKSH   90 (92)
Q Consensus        77 ~~~~~~l~~~i~~~   90 (92)
                      +++|+++++.+.++
T Consensus       152 ~~l~~~l~~~l~~~  165 (190)
T cd04144         152 ERAFYTLVRALRQQ  165 (190)
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999987654

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.

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.67  E-value=9.9e-16  Score=88.51  Aligned_cols=83  Identities=20%  Similarity=0.232  Sum_probs=64.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++|+.+..|+..+.... ..+.|+++|+||+|+.+.  ...++......     ..+.+++++||++|.|+++
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~  155 (167)
T cd01867          82 VYDITDEKSFENIRNWMRNIEEHA-SEDVERMLVGNKCDMEEKRVVSKEEGEALAD-----EYGIKFLETSAKANINVEE  155 (167)
T ss_pred             EEECcCHHHHHhHHHHHHHHHHhC-CCCCcEEEEEECcccccccCCCHHHHHHHHH-----HcCCEEEEEeCCCCCCHHH
Confidence            579999999999989988876542 357899999999999743  23333333321     2346789999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|+++.+.+.+
T Consensus       156 ~~~~i~~~~~~  166 (167)
T cd01867         156 AFFTLAKDIKK  166 (167)
T ss_pred             HHHHHHHHHHh
Confidence            99999998865

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

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.67  E-value=8.5e-16  Score=88.20  Aligned_cols=83  Identities=20%  Similarity=0.230  Sum_probs=62.8

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCC----CCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQ----LIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERD   74 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~----~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~   74 (92)
                      |+|++++.+++....|+..+.....    ....|+++|+||+|+.+  ..+.++.....     ...+.+++++||++|.
T Consensus        79 v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~  153 (168)
T cd04119          79 VYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRAVSEDEGRLWA-----ESKGFKYFETSACTGE  153 (168)
T ss_pred             EEECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhcccccccCHHHHHHHH-----HHcCCeEEEEECCCCC
Confidence            5799999999998889888765422    24689999999999963  22343333322     1234679999999999


Q ss_pred             CHHHHHHHHHHhhh
Q psy2977          75 NIDITLQWLIAHSK   88 (92)
Q Consensus        75 gi~~~~~~l~~~i~   88 (92)
                      |++++|++|.+.+.
T Consensus       154 gi~~l~~~l~~~l~  167 (168)
T cd04119         154 GVNEMFQTLFSSIV  167 (168)
T ss_pred             CHHHHHHHHHHHHh
Confidence            99999999998764

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.

>cd04148 RGK RGK subfamily

Probab=99.67  E-value=1.1e-16  Score=96.55  Aligned_cols=84  Identities=20%  Similarity=0.191  Sum_probs=64.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |||++++.+|+.+..|+..+.......++|+++|+||+|+....  ..++.....     ...+++++++||++|.||++
T Consensus        79 V~d~td~~S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~a-----~~~~~~~~e~SA~~~~gv~~  153 (221)
T cd04148          79 VYSVTDRSSFERASELRIQLRRNRQLEDRPIILVGNKSDLARSREVSVQEGRACA-----VVFDCKFIETSAGLQHNVDE  153 (221)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhccccceecHHHHHHHH-----HHcCCeEEEecCCCCCCHHH
Confidence            58999999999998888887765434679999999999996432  222222211     12346789999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|+++++.+..
T Consensus       154 l~~~l~~~~~~  164 (221)
T cd04148         154 LLEGIVRQIRL  164 (221)
T ss_pred             HHHHHHHHHHh
Confidence            99999998863

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

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.67  E-value=1.1e-15  Score=93.70  Aligned_cols=83  Identities=18%  Similarity=0.319  Sum_probs=64.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcC--------CCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeecc
Q psy2977           1 MVDAADTDKLEASRNELHALIEK--------PQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISC   70 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~--------~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA   70 (92)
                      |||++++++|+.+..|++++...        ....++|+++|+||+|+..  ....+++.+.++.    ...+.++++||
T Consensus        78 Vfdv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~~~~v~~~ei~~~~~~----~~~~~~~evSA  153 (247)
T cd04143          78 VFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFPREVQRDEVEQLVGG----DENCAYFEVSA  153 (247)
T ss_pred             EEeCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchhccccCHHHHHHHHHh----cCCCEEEEEeC
Confidence            58999999999998888887643        1235799999999999963  3455566555431    12467999999


Q ss_pred             ccCCCHHHHHHHHHHhh
Q psy2977          71 KERDNIDITLQWLIAHS   87 (92)
Q Consensus        71 ~~~~gi~~~~~~l~~~i   87 (92)
                      ++|.||+++|++|++..
T Consensus       154 ktg~gI~elf~~L~~~~  170 (247)
T cd04143         154 KKNSNLDEMFRALFSLA  170 (247)
T ss_pred             CCCCCHHHHHHHHHHHh
Confidence            99999999999999865

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

>cd04111 Rab39 Rab39 subfamily

Probab=99.66  E-value=8.4e-16  Score=92.16  Aligned_cols=84  Identities=17%  Similarity=0.207  Sum_probs=64.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++|+.+..|+.++.........|++||+||+|+...  ...++.....     ...+..++++||++|.||++
T Consensus        82 v~D~~~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~~~~~v~~~~~~~~~-----~~~~~~~~e~Sak~g~~v~e  156 (211)
T cd04111          82 VFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQRQVTREEAEKLA-----KDLGMKYIETSARTGDNVEE  156 (211)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEccccccccccCHHHHHHHH-----HHhCCEEEEEeCCCCCCHHH
Confidence            5899999999999999998876543346789999999999643  2333332221     12347799999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|++|++.+.+
T Consensus       157 ~f~~l~~~~~~  167 (211)
T cd04111         157 AFELLTQEIYE  167 (211)
T ss_pred             HHHHHHHHHHH
Confidence            99999998764

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.

>cd04176 Rap2 Rap2 subgroup

Probab=99.66  E-value=8.3e-16  Score=88.29  Aligned_cols=82  Identities=12%  Similarity=0.202  Sum_probs=61.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++|.+...|+..+.......++|+++|+||+|+....  ...+. ..+.    ...+.++++|||++|.|+++
T Consensus        79 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~~~~~~~~~~~-~~~~----~~~~~~~~~~Sa~~~~~v~~  153 (163)
T cd04176          79 VYSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLESEREVSSAEG-RALA----EEWGCPFMETSAKSKTMVNE  153 (163)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcCccCHHHH-HHHH----HHhCCEEEEecCCCCCCHHH
Confidence            57999999999998888887764334679999999999985422  22222 1111    11235789999999999999


Q ss_pred             HHHHHHHhh
Q psy2977          79 TLQWLIAHS   87 (92)
Q Consensus        79 ~~~~l~~~i   87 (92)
                      +|.|+++.+
T Consensus       154 l~~~l~~~l  162 (163)
T cd04176         154 LFAEIVRQM  162 (163)
T ss_pred             HHHHHHHhc
Confidence            999999865

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

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=99.66  E-value=6.6e-16  Score=90.84  Aligned_cols=81  Identities=12%  Similarity=0.102  Sum_probs=60.5

Q ss_pred             CeeCCchhhHHHH-HHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--------------CCHHHHHHhhccCCcCCCc-eE
Q psy2977           1 MVDAADTDKLEAS-RNELHALIEKPQLIGIPILVLGNKRDLPNA--------------LDEKELIDRMNLCAIQDRE-IC   64 (92)
Q Consensus         1 v~D~s~~~~~~~~-~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--------------~~~~~~~~~~~~~~~~~~~-~~   64 (92)
                      |||++++.+|+.+ ..|+..+....  ++.|++||+||+||.+.              .+.++..+..     ...+ ..
T Consensus        83 vyDit~~~Sf~~~~~~w~~~i~~~~--~~~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a-----~~~~~~~  155 (182)
T cd04172          83 CFDISRPETLDSVLKKWKGEIQEFC--PNTKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGANMA-----KQIGAAT  155 (182)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHHC--CCCCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHHHHH-----HHcCCCE
Confidence            6899999999997 68888876542  47899999999998631              2333333221     1234 47


Q ss_pred             EEeeccccCCC-HHHHHHHHHHhhh
Q psy2977          65 CYSISCKERDN-IDITLQWLIAHSK   88 (92)
Q Consensus        65 ~~~~SA~~~~g-i~~~~~~l~~~i~   88 (92)
                      +++|||++|.| |+++|..+.+...
T Consensus       156 ~~E~SAk~~~n~v~~~F~~~~~~~~  180 (182)
T cd04172         156 YIECSALQSENSVRDIFHVATLACV  180 (182)
T ss_pred             EEECCcCCCCCCHHHHHHHHHHHHh
Confidence            99999999998 9999999887543

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

>cd04110 Rab35 Rab35 subfamily

Probab=99.66  E-value=1.1e-15  Score=90.84  Aligned_cols=82  Identities=15%  Similarity=0.213  Sum_probs=63.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++|+.+..|+..+...  ....|+++|+||+|+....  ..++......     ..++.++++||++|.||++
T Consensus        85 v~D~~~~~s~~~~~~~~~~i~~~--~~~~piivVgNK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~e~Sa~~~~gi~~  157 (199)
T cd04110          85 VYDVTNGESFVNVKRWLQEIEQN--CDDVCKVLVGNKNDDPERKVVETEDAYKFAG-----QMGISLFETSAKENINVEE  157 (199)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHh--CCCCCEEEEEECcccccccccCHHHHHHHHH-----HcCCEEEEEECCCCcCHHH
Confidence            58999999999999999887654  2468999999999997532  3333333221     2346799999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|+||.+.+..
T Consensus       158 lf~~l~~~~~~  168 (199)
T cd04110         158 MFNCITELVLR  168 (199)
T ss_pred             HHHHHHHHHHH
Confidence            99999998865

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

>cd04128 Spg1 Spg1p

Probab=99.66  E-value=2.8e-16  Score=92.31  Aligned_cols=86  Identities=16%  Similarity=0.171  Sum_probs=60.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCH---HHHHHhhccCCcCCCceEEEeeccccCCCHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDE---KELIDRMNLCAIQDREICCYSISCKERDNID   77 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~---~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~   77 (92)
                      |+|++++++|+.+..|+.++..... ...| ++|+||+|+....+.   ..+.+... ......+.++++|||++|.||+
T Consensus        79 v~D~t~~~s~~~i~~~~~~~~~~~~-~~~p-ilVgnK~Dl~~~~~~~~~~~~~~~~~-~~a~~~~~~~~e~SAk~g~~v~  155 (182)
T cd04128          79 MFDLTRKSTLNSIKEWYRQARGFNK-TAIP-ILVGTKYDLFADLPPEEQEEITKQAR-KYAKAMKAPLIFCSTSHSINVQ  155 (182)
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhCC-CCCE-EEEEEchhccccccchhhhhhHHHHH-HHHHHcCCEEEEEeCCCCCCHH
Confidence            5899999999999999998876422 3466 678999999532211   11111100 0011234679999999999999


Q ss_pred             HHHHHHHHhhhh
Q psy2977          78 ITLQWLIAHSKS   89 (92)
Q Consensus        78 ~~~~~l~~~i~~   89 (92)
                      ++|+++++.+.+
T Consensus       156 ~lf~~l~~~l~~  167 (182)
T cd04128         156 KIFKIVLAKAFD  167 (182)
T ss_pred             HHHHHHHHHHHh
Confidence            999999988765

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

>cd01865 Rab3 Rab3 subfamily

Probab=99.66  E-value=1.3e-15  Score=87.81  Aligned_cols=83  Identities=14%  Similarity=0.182  Sum_probs=62.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++++.+..|+..+.... ....|+++|+||+|+.+..  ..++..+...     ..+++++++||++|.|+++
T Consensus        80 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gv~~  153 (165)
T cd01865          80 MYDITNEESFNAVQDWSTQIKTYS-WDNAQVILVGNKCDMEDERVVSSERGRQLAD-----QLGFEFFEASAKENINVKQ  153 (165)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhC-CCCCCEEEEEECcccCcccccCHHHHHHHHH-----HcCCEEEEEECCCCCCHHH
Confidence            579999999999999988876532 2468999999999996432  2233322211     2345799999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|++|++.+..
T Consensus       154 l~~~l~~~~~~  164 (165)
T cd01865         154 VFERLVDIICD  164 (165)
T ss_pred             HHHHHHHHHHh
Confidence            99999987653

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

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=99.66  E-value=1e-15  Score=92.97  Aligned_cols=82  Identities=11%  Similarity=0.112  Sum_probs=60.8

Q ss_pred             CeeCCchhhHHHH-HHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--------------CCHHHHHHhhccCCcCCCce-E
Q psy2977           1 MVDAADTDKLEAS-RNELHALIEKPQLIGIPILVLGNKRDLPNA--------------LDEKELIDRMNLCAIQDREI-C   64 (92)
Q Consensus         1 v~D~s~~~~~~~~-~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--------------~~~~~~~~~~~~~~~~~~~~-~   64 (92)
                      |||++++++|+.+ ..|+.++....  .+.|+++|+||+||...              .+.++..+..     ...+. .
T Consensus        91 VyDit~~~Sf~~~~~~w~~~i~~~~--~~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e~~~~a-----~~~~~~~  163 (232)
T cd04174          91 CFDISRPETVDSALKKWKAEIMDYC--PSTRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCALA-----KQLGAEV  163 (232)
T ss_pred             EEECCChHHHHHHHHHHHHHHHHhC--CCCCEEEEEECcccccccchhhhhccccCCcCCHHHHHHHH-----HHcCCCE
Confidence            6899999999985 68888876542  46899999999999631              2333333222     12344 6


Q ss_pred             EEeeccccCC-CHHHHHHHHHHhhhh
Q psy2977          65 CYSISCKERD-NIDITLQWLIAHSKS   89 (92)
Q Consensus        65 ~~~~SA~~~~-gi~~~~~~l~~~i~~   89 (92)
                      +++|||++|+ ||+++|..++..+.+
T Consensus       164 ~~EtSAktg~~~V~e~F~~~~~~~~~  189 (232)
T cd04174         164 YLECSAFTSEKSIHSIFRSASLLCLN  189 (232)
T ss_pred             EEEccCCcCCcCHHHHHHHHHHHHHH
Confidence            8999999998 899999999987654

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.

>KOG0081|consensus

Probab=99.66  E-value=1.7e-16  Score=90.62  Aligned_cols=85  Identities=18%  Similarity=0.203  Sum_probs=68.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      ++|.++.++|-++++|+-++..+..+.+..+++++||.||++..  +.++..+..     ...++++|++||.||.||++
T Consensus        97 iFDlT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGNK~DL~~~R~Vs~~qa~~La-----~kyglPYfETSA~tg~Nv~k  171 (219)
T KOG0081|consen   97 IFDLTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGNKADLEDQRVVSEDQAAALA-----DKYGLPYFETSACTGTNVEK  171 (219)
T ss_pred             EEeccchHHHHHHHHHHHHHHHhhccCCCCEEEEcCccchhhhhhhhHHHHHHHH-----HHhCCCeeeeccccCcCHHH
Confidence            47999999999999999998877777778899999999997543  222222221     24568899999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +++.|.+.+.++
T Consensus       172 ave~LldlvM~R  183 (219)
T KOG0081|consen  172 AVELLLDLVMKR  183 (219)
T ss_pred             HHHHHHHHHHHH
Confidence            999999888654

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.66  E-value=1.4e-15  Score=87.56  Aligned_cols=83  Identities=19%  Similarity=0.252  Sum_probs=63.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++|..+..|+..+.... ..+.|+++|+||+|+...  ...++......     ..+++++++||++|.|+++
T Consensus        81 v~d~~~~~s~~~l~~~~~~~~~~~-~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~  154 (166)
T cd01869          81 VYDVTDQESFNNVKQWLQEIDRYA-SENVNKLLVGNKCDLTDKRVVDYSEAQEFAD-----ELGIPFLETSAKNATNVEQ  154 (166)
T ss_pred             EEECcCHHHHHhHHHHHHHHHHhC-CCCCcEEEEEEChhcccccCCCHHHHHHHHH-----HcCCeEEEEECCCCcCHHH
Confidence            589999999999999988876532 246899999999998643  23333333221     2356799999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|.+|.+.+.+
T Consensus       155 ~~~~i~~~~~~  165 (166)
T cd01869         155 AFMTMAREIKK  165 (166)
T ss_pred             HHHHHHHHHHh
Confidence            99999998864

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

>cd04109 Rab28 Rab28 subfamily

Probab=99.66  E-value=1.4e-15  Score=91.34  Aligned_cols=84  Identities=17%  Similarity=0.215  Sum_probs=62.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCC--CCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQ--LIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~--~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      |||++++++|+....|+..+.....  ..+.|+++|+||+|+...  ...++.....     ...++.+++|||++|+||
T Consensus        80 V~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~~-----~~~~~~~~~iSAktg~gv  154 (215)
T cd04109          80 VYDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHNRTVKDDKHARFA-----QANGMESCLVSAKTGDRV  154 (215)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECcccccccccCHHHHHHHH-----HHcCCEEEEEECCCCCCH
Confidence            6899999999999888887765322  235789999999999642  2323322221     123467899999999999


Q ss_pred             HHHHHHHHHhhhh
Q psy2977          77 DITLQWLIAHSKS   89 (92)
Q Consensus        77 ~~~~~~l~~~i~~   89 (92)
                      +++|++|++.+..
T Consensus       155 ~~lf~~l~~~l~~  167 (215)
T cd04109         155 NLLFQQLAAELLG  167 (215)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999998864

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

>cd04140 ARHI_like ARHI subfamily

Probab=99.65  E-value=9e-16  Score=88.52  Aligned_cols=81  Identities=20%  Similarity=0.246  Sum_probs=58.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcC--CCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAADTDKLEASRNELHALIEK--PQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~--~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      |+|++++++++....|+..+...  ....++|+++|+||+|+...  ...++.....     ...+..+++|||++|.||
T Consensus        79 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~-----~~~~~~~~e~SA~~g~~v  153 (165)
T cd04140          79 VYSVTSKQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDESHKREVSSNEGAACA-----TEWNCAFMETSAKTNHNV  153 (165)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECccccccCeecHHHHHHHH-----HHhCCcEEEeecCCCCCH
Confidence            58999999999888877655432  12357899999999999642  2222222111     123467899999999999


Q ss_pred             HHHHHHHHHh
Q psy2977          77 DITLQWLIAH   86 (92)
Q Consensus        77 ~~~~~~l~~~   86 (92)
                      +++|+||.+.
T Consensus       154 ~~~f~~l~~~  163 (165)
T cd04140         154 QELFQELLNL  163 (165)
T ss_pred             HHHHHHHHhc
Confidence            9999999864

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

>cd04131 Rnd Rnd subfamily

Probab=99.65  E-value=1.1e-15  Score=89.53  Aligned_cols=81  Identities=11%  Similarity=0.070  Sum_probs=59.6

Q ss_pred             CeeCCchhhHHHH-HHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--------------CCHHHHHHhhccCCcCCCce-E
Q psy2977           1 MVDAADTDKLEAS-RNELHALIEKPQLIGIPILVLGNKRDLPNA--------------LDEKELIDRMNLCAIQDREI-C   64 (92)
Q Consensus         1 v~D~s~~~~~~~~-~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--------------~~~~~~~~~~~~~~~~~~~~-~   64 (92)
                      |||++++++|+.+ ..|+..+....  .+.|+++|+||+||.+.              .+.++..+..     ...+. .
T Consensus        79 vfdit~~~Sf~~~~~~w~~~i~~~~--~~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~~~~a-----~~~~~~~  151 (178)
T cd04131          79 CFDISRPETLDSVLKKWRGEIQEFC--PNTKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQGCAIA-----KQLGAEI  151 (178)
T ss_pred             EEECCChhhHHHHHHHHHHHHHHHC--CCCCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHHHHHHH-----HHhCCCE
Confidence            6899999999996 68888776542  47899999999999541              2233322221     12343 6


Q ss_pred             EEeeccccCCC-HHHHHHHHHHhhh
Q psy2977          65 CYSISCKERDN-IDITLQWLIAHSK   88 (92)
Q Consensus        65 ~~~~SA~~~~g-i~~~~~~l~~~i~   88 (92)
                      +++|||++|+| |+++|..+.+...
T Consensus       152 ~~E~SA~~~~~~v~~~F~~~~~~~~  176 (178)
T cd04131         152 YLECSAFTSEKSVRDIFHVATMACL  176 (178)
T ss_pred             EEECccCcCCcCHHHHHHHHHHHHh
Confidence            89999999995 9999999988543

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.

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.65  E-value=1.5e-15  Score=88.66  Aligned_cols=84  Identities=13%  Similarity=0.173  Sum_probs=56.7

Q ss_pred             CeeCCchhhHHHHH-HHHHHhhcCCCCCCCcEEEEeeCCCCCCCC-CHHHHHHhhc--c------CCcCCCc-eEEEeec
Q psy2977           1 MVDAADTDKLEASR-NELHALIEKPQLIGIPILVLGNKRDLPNAL-DEKELIDRMN--L------CAIQDRE-ICCYSIS   69 (92)
Q Consensus         1 v~D~s~~~~~~~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~-~~~~~~~~~~--~------~~~~~~~-~~~~~~S   69 (92)
                      |||++++++|..+. .|+..+...  ..+.|+++|+||+|+.+.. ..+.+.+...  .      ......+ ..+++||
T Consensus        79 v~d~~~~~sf~~~~~~~~~~~~~~--~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~S  156 (174)
T cd01871          79 CFSLVSPASFENVRAKWYPEVRHH--CPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECS  156 (174)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHh--CCCCCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEec
Confidence            58999999999986 577666543  2479999999999996421 1111111000  0      0001122 4799999


Q ss_pred             cccCCCHHHHHHHHHHh
Q psy2977          70 CKERDNIDITLQWLIAH   86 (92)
Q Consensus        70 A~~~~gi~~~~~~l~~~   86 (92)
                      |++|+|++++|+.+++.
T Consensus       157 a~~~~~i~~~f~~l~~~  173 (174)
T cd01871         157 ALTQKGLKTVFDEAIRA  173 (174)
T ss_pred             ccccCCHHHHHHHHHHh
Confidence            99999999999999874

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

>cd04112 Rab26 Rab26 subfamily

Probab=99.64  E-value=2.3e-15  Score=88.85  Aligned_cols=84  Identities=17%  Similarity=0.237  Sum_probs=63.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++++.+..|+..+.... ..++|+++|+||+|+...  ...++.....     ...+.+++++||++|.|+++
T Consensus        80 v~D~~~~~s~~~~~~~~~~i~~~~-~~~~piiiv~NK~Dl~~~~~~~~~~~~~l~-----~~~~~~~~e~Sa~~~~~v~~  153 (191)
T cd04112          80 LYDITNKASFDNIRAWLTEIKEYA-QEDVVIMLLGNKADMSGERVVKREDGERLA-----KEYGVPFMETSAKTGLNVEL  153 (191)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhC-CCCCcEEEEEEcccchhccccCHHHHHHHH-----HHcCCeEEEEeCCCCCCHHH
Confidence            589999999999988988877542 246899999999999532  2333333221     12245799999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|++.+...
T Consensus       154 l~~~l~~~~~~~  165 (191)
T cd04112         154 AFTAVAKELKHR  165 (191)
T ss_pred             HHHHHHHHHHHh
Confidence            999999988654

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.

>KOG0098|consensus

Probab=99.64  E-value=9.8e-17  Score=93.36  Aligned_cols=83  Identities=14%  Similarity=0.171  Sum_probs=67.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |||++.+++|+....|+..+.++. ..++.+++++||+||..  +.+.+|-....     +.++..++++||+|++||+|
T Consensus        85 Vydit~r~sF~hL~~wL~D~rq~~-~~NmvImLiGNKsDL~~rR~Vs~EEGeaFA-----~ehgLifmETSakt~~~VEE  158 (216)
T KOG0098|consen   85 VYDITRRESFNHLTSWLEDARQHS-NENMVIMLIGNKSDLEARREVSKEEGEAFA-----REHGLIFMETSAKTAENVEE  158 (216)
T ss_pred             EEEccchhhHHHHHHHHHHHHHhc-CCCcEEEEEcchhhhhccccccHHHHHHHH-----HHcCceeehhhhhhhhhHHH
Confidence            689999999999999999998863 46899999999999964  34445544332     34667789999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|...+..+.+
T Consensus       159 aF~nta~~Iy~  169 (216)
T KOG0098|consen  159 AFINTAKEIYR  169 (216)
T ss_pred             HHHHHHHHHHH
Confidence            99999888754

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.64  E-value=2.3e-15  Score=86.19  Aligned_cols=84  Identities=18%  Similarity=0.290  Sum_probs=62.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.++.....|+..+.......++|+++|+||+|+...  ....+......     ..+.+++++||++|+|+++
T Consensus        78 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~  152 (164)
T cd04139          78 VFSITDMESFTATAEFREQILRVKDDDNVPLLLVGNKCDLEDKRQVSSEEAANLAR-----QWGVPYVETSAKTRQNVEK  152 (164)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEccccccccccCHHHHHHHHH-----HhCCeEEEeeCCCCCCHHH
Confidence            4788899999888888888776533457999999999999752  22333222211     1235799999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|+++.+++..
T Consensus       153 l~~~l~~~~~~  163 (164)
T cd04139         153 AFYDLVREIRQ  163 (164)
T ss_pred             HHHHHHHHHHh
Confidence            99999988754

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

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.63  E-value=3.5e-15  Score=86.75  Aligned_cols=84  Identities=19%  Similarity=0.297  Sum_probs=61.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCC----HHHHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALD----EKELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~----~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      |+|+++++++.....|+..++........|+++|+||+|+.....    .++.... .    ...+.+++++||++|.|+
T Consensus        79 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~-~----~~~~~~~~e~Sa~~g~~v  153 (170)
T cd04108          79 VFDLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPAQYALMEQDAIKL-A----AEMQAEYWSVSALSGENV  153 (170)
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEChhcCccccccccHHHHHHH-H----HHcCCeEEEEECCCCCCH
Confidence            579999999999999999887643334578999999999854322    1111111 1    122357899999999999


Q ss_pred             HHHHHHHHHhhhh
Q psy2977          77 DITLQWLIAHSKS   89 (92)
Q Consensus        77 ~~~~~~l~~~i~~   89 (92)
                      +++|++|++.+.+
T Consensus       154 ~~lf~~l~~~~~~  166 (170)
T cd04108         154 REFFFRVAALTFE  166 (170)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999988764

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

>cd01868 Rab11_like Rab11-like

Probab=99.63  E-value=4e-15  Score=85.56  Aligned_cols=81  Identities=19%  Similarity=0.258  Sum_probs=62.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.++..+..|+..+.... ..+.|+++|+||+|+...  ...++......     ..+..++++||++|.|+++
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~pi~vv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~  155 (165)
T cd01868          82 VYDITKKQTFENVERWLKELRDHA-DSNIVIMLVGNKSDLRHLRAVPTEEAKAFAE-----KNGLSFIETSALDGTNVEE  155 (165)
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhC-CCCCeEEEEEECccccccccCCHHHHHHHHH-----HcCCEEEEEECCCCCCHHH
Confidence            579999999999989988876643 235899999999999642  23334333322     2346799999999999999


Q ss_pred             HHHHHHHhh
Q psy2977          79 TLQWLIAHS   87 (92)
Q Consensus        79 ~~~~l~~~i   87 (92)
                      +|+++.+.+
T Consensus       156 l~~~l~~~i  164 (165)
T cd01868         156 AFKQLLTEI  164 (165)
T ss_pred             HHHHHHHHh
Confidence            999998765

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

>PLN03108 Rab family protein; Provisional

Probab=99.63  E-value=4e-15  Score=89.14  Aligned_cols=83  Identities=16%  Similarity=0.185  Sum_probs=64.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+|+.+..|+..+.... ....|+++++||+|+...  .+.++..+...     ..+++++++||++|.||++
T Consensus        85 v~D~~~~~s~~~l~~~~~~~~~~~-~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~e~Sa~~~~~v~e  158 (210)
T PLN03108         85 VYDITRRETFNHLASWLEDARQHA-NANMTIMLIGNKCDLAHRRAVSTEEGEQFAK-----EHGLIFMEASAKTAQNVEE  158 (210)
T ss_pred             EEECCcHHHHHHHHHHHHHHHHhc-CCCCcEEEEEECccCccccCCCHHHHHHHHH-----HcCCEEEEEeCCCCCCHHH
Confidence            579999999999888888776542 257899999999999642  34444443321     2346799999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|+|+++.+.+
T Consensus       159 ~f~~l~~~~~~  169 (210)
T PLN03108        159 AFIKTAAKIYK  169 (210)
T ss_pred             HHHHHHHHHHH
Confidence            99999988864

>cd01874 Cdc42 Cdc42 subfamily

Probab=99.63  E-value=3e-15  Score=87.39  Aligned_cols=81  Identities=12%  Similarity=0.195  Sum_probs=56.9

Q ss_pred             CeeCCchhhHHHHH-HHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccC------------CcCC-CceEEE
Q psy2977           1 MVDAADTDKLEASR-NELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLC------------AIQD-REICCY   66 (92)
Q Consensus         1 v~D~s~~~~~~~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~------------~~~~-~~~~~~   66 (92)
                      |+|++++++|+.+. .|+..+...  ..++|+++|+||+|+.+..   ++.+.+...            .... +.+.++
T Consensus        79 v~d~~~~~s~~~~~~~w~~~i~~~--~~~~piilvgnK~Dl~~~~---~~~~~l~~~~~~~v~~~~~~~~a~~~~~~~~~  153 (175)
T cd01874          79 CFSVVSPSSFENVKEKWVPEITHH--CPKTPFLLVGTQIDLRDDP---STIEKLAKNKQKPITPETGEKLARDLKAVKYV  153 (175)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHh--CCCCCEEEEEECHhhhhCh---hhHHHhhhccCCCcCHHHHHHHHHHhCCcEEE
Confidence            58999999999986 477666543  2468999999999986421   111111100            0011 236899


Q ss_pred             eeccccCCCHHHHHHHHHHh
Q psy2977          67 SISCKERDNIDITLQWLIAH   86 (92)
Q Consensus        67 ~~SA~~~~gi~~~~~~l~~~   86 (92)
                      +|||++|.||+++|+.+++.
T Consensus       154 e~SA~tg~~v~~~f~~~~~~  173 (175)
T cd01874         154 ECSALTQKGLKNVFDEAILA  173 (175)
T ss_pred             EecCCCCCCHHHHHHHHHHH
Confidence            99999999999999999874

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

>cd01864 Rab19 Rab19 subfamily

Probab=99.62  E-value=5.6e-15  Score=85.11  Aligned_cols=82  Identities=16%  Similarity=0.193  Sum_probs=60.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+++....|+..+.... ..++|+++|+||+|+....  ..++......    ......++++||++|.|+++
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~----~~~~~~~~e~Sa~~~~~v~~  156 (165)
T cd01864          82 AYDITRRSSFESVPHWIEEVEKYG-ASNVVLLLIGNKCDLEEQREVLFEEACTLAE----KNGMLAVLETSAKESQNVEE  156 (165)
T ss_pred             EEECcCHHHHHhHHHHHHHHHHhC-CCCCcEEEEEECcccccccccCHHHHHHHHH----HcCCcEEEEEECCCCCCHHH
Confidence            589999999999889998886542 3578999999999996432  2233322211    11234689999999999999


Q ss_pred             HHHHHHHhh
Q psy2977          79 TLQWLIAHS   87 (92)
Q Consensus        79 ~~~~l~~~i   87 (92)
                      +|+++++.+
T Consensus       157 ~~~~l~~~l  165 (165)
T cd01864         157 AFLLMATEL  165 (165)
T ss_pred             HHHHHHHhC
Confidence            999998753

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.

>cd04116 Rab9 Rab9 subfamily

Probab=99.62  E-value=5.7e-15  Score=85.36  Aligned_cols=83  Identities=18%  Similarity=0.280  Sum_probs=61.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCC---CCCCcEEEEeeCCCCCC-CCCHHHHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQ---LIGIPILVLGNKRDLPN-ALDEKELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~---~~~~p~ilv~NK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      |+|++++++++....|..+++....   ..++|+++|+||+|+.. ....+++.+....    .....++++||++|.|+
T Consensus        84 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~----~~~~~~~e~Sa~~~~~v  159 (170)
T cd04116          84 TFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIPERQVSTEEAQAWCRE----NGDYPYFETSAKDATNV  159 (170)
T ss_pred             EEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECccccccccCHHHHHHHHHH----CCCCeEEEEECCCCCCH
Confidence            4799999999998888887765322   24689999999999963 3344455444321    12247899999999999


Q ss_pred             HHHHHHHHHhh
Q psy2977          77 DITLQWLIAHS   87 (92)
Q Consensus        77 ~~~~~~l~~~i   87 (92)
                      .++|+++++.+
T Consensus       160 ~~~~~~~~~~~  170 (170)
T cd04116         160 AAAFEEAVRRV  170 (170)
T ss_pred             HHHHHHHHhhC
Confidence            99999998753

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

>KOG0087|consensus

Probab=99.62  E-value=2.6e-15  Score=88.77  Aligned_cols=83  Identities=17%  Similarity=0.257  Sum_probs=66.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |||+|.+.+|+.+..|+.++..+.+ .++++++|+||+||..  +.+.++.....+     ..+..++++||+.+.||++
T Consensus        93 VYDITr~~Tfenv~rWL~ELRdhad-~nivimLvGNK~DL~~lraV~te~~k~~Ae-----~~~l~f~EtSAl~~tNVe~  166 (222)
T KOG0087|consen   93 VYDITRRQTFENVERWLKELRDHAD-SNIVIMLVGNKSDLNHLRAVPTEDGKAFAE-----KEGLFFLETSALDATNVEK  166 (222)
T ss_pred             EEechhHHHHHHHHHHHHHHHhcCC-CCeEEEEeecchhhhhccccchhhhHhHHH-----hcCceEEEecccccccHHH
Confidence            6899999999999999999998754 6899999999999964  334444333322     2356799999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|..+...|.+
T Consensus       167 aF~~~l~~I~~  177 (222)
T KOG0087|consen  167 AFERVLTEIYK  177 (222)
T ss_pred             HHHHHHHHHHH
Confidence            99999888754

>cd01863 Rab18 Rab18 subfamily

Probab=99.62  E-value=6.2e-15  Score=84.44  Aligned_cols=82  Identities=20%  Similarity=0.229  Sum_probs=63.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC-CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN-ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|++++++++....|+..+.......+.|+++|+||+|+.. ....++......     ..+++++++||++|+|++++
T Consensus        79 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~~  153 (161)
T cd01863          79 VYDVTRRDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKENREVTREEGLKFAR-----KHNMLFIETSAKTRDGVQQA  153 (161)
T ss_pred             EEECCCHHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCcccccccCHHHHHHHHH-----HcCCEEEEEecCCCCCHHHH
Confidence            579999999999888888877655556799999999999973 233444333321     23567999999999999999


Q ss_pred             HHHHHHhh
Q psy2977          80 LQWLIAHS   87 (92)
Q Consensus        80 ~~~l~~~i   87 (92)
                      ++++.+.+
T Consensus       154 ~~~~~~~~  161 (161)
T cd01863         154 FEELVEKI  161 (161)
T ss_pred             HHHHHHhC
Confidence            99998753

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

>cd01866 Rab2 Rab2 subfamily

Probab=99.62  E-value=7.3e-15  Score=84.99  Aligned_cols=83  Identities=14%  Similarity=0.151  Sum_probs=64.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++++.+..|+.++.... ..+.|+++|+||+|+...  .+.++......     ..+..++++||++|+|+++
T Consensus        83 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~pvivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~e~Sa~~~~~i~~  156 (168)
T cd01866          83 VYDITRRETFNHLTSWLEDARQHS-NSNMTIMLIGNKCDLESRREVSYEEGEAFAK-----EHGLIFMETSAKTASNVEE  156 (168)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhC-CCCCcEEEEEECcccccccCCCHHHHHHHHH-----HcCCEEEEEeCCCCCCHHH
Confidence            589999999999999998886642 357999999999999632  33444433321     2346799999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|.++.+.+.+
T Consensus       157 ~~~~~~~~~~~  167 (168)
T cd01866         157 AFINTAKEIYE  167 (168)
T ss_pred             HHHHHHHHHHh
Confidence            99999988754

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

>KOG0079|consensus

Probab=99.62  E-value=1.6e-15  Score=85.74  Aligned_cols=82  Identities=17%  Similarity=0.289  Sum_probs=66.3

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |||+++.++|.+.+.|++++.++  ....|-++|+||.|.++..  ..++.....     ...++.+|++||+..+|++.
T Consensus        87 VYDVTn~ESF~Nv~rWLeei~~n--cdsv~~vLVGNK~d~~~RrvV~t~dAr~~A-----~~mgie~FETSaKe~~NvE~  159 (198)
T KOG0079|consen   87 VYDVTNGESFNNVKRWLEEIRNN--CDSVPKVLVGNKNDDPERRVVDTEDARAFA-----LQMGIELFETSAKENENVEA  159 (198)
T ss_pred             EEECcchhhhHhHHHHHHHHHhc--CccccceecccCCCCccceeeehHHHHHHH-----HhcCchheehhhhhcccchH
Confidence            68999999999999999999876  3589999999999998642  223332221     24568899999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      .|..|.+++..
T Consensus       160 mF~cit~qvl~  170 (198)
T KOG0079|consen  160 MFHCITKQVLQ  170 (198)
T ss_pred             HHHHHHHHHHH
Confidence            99999988754

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.62  E-value=5.2e-15  Score=84.75  Aligned_cols=79  Identities=16%  Similarity=0.238  Sum_probs=60.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|+++++++.....|+..+...  ..++|+++|+||+|+...  .+.++......     ..+++++++||++|.|+++
T Consensus        81 v~d~~~~~s~~~l~~~~~~~~~~--~~~~p~iiv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~  153 (162)
T cd04106          81 VFSTTDRESFEAIESWKEKVEAE--CGDIPMVLVQTKIDLLDQAVITNEEAEALAK-----RLQLPLFRTSVKDDFNVTE  153 (162)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHh--CCCCCEEEEEEChhcccccCCCHHHHHHHHH-----HcCCeEEEEECCCCCCHHH
Confidence            57999999999988888887543  357999999999998642  23333333221     2245799999999999999


Q ss_pred             HHHHHHHh
Q psy2977          79 TLQWLIAH   86 (92)
Q Consensus        79 ~~~~l~~~   86 (92)
                      +|++|+..
T Consensus       154 l~~~l~~~  161 (162)
T cd04106         154 LFEYLAEK  161 (162)
T ss_pred             HHHHHHHh
Confidence            99999865

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

>KOG0394|consensus

Probab=99.62  E-value=1.3e-15  Score=88.60  Aligned_cols=86  Identities=20%  Similarity=0.281  Sum_probs=66.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCC---CCCcEEEEeeCCCCCCCC----CHHHHHHhhccCCcCCCceEEEeeccccC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQL---IGIPILVLGNKRDLPNAL----DEKELIDRMNLCAIQDREICCYSISCKER   73 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~---~~~p~ilv~NK~Dl~~~~----~~~~~~~~~~~~~~~~~~~~~~~~SA~~~   73 (92)
                      |+|+.++++|+....|-++.+.+.+.   ..-|++|+|||+|+.+..    +.....+.+.    .++++++|++|||.+
T Consensus        88 vydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~~~Aq~WC~----s~gnipyfEtSAK~~  163 (210)
T KOG0394|consen   88 VYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSRQVSEKKAQTWCK----SKGNIPYFETSAKEA  163 (210)
T ss_pred             EeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCccceeeHHHHHHHHH----hcCCceeEEeccccc
Confidence            47999999999999999888764332   358999999999997532    2223333322    356899999999999


Q ss_pred             CCHHHHHHHHHHhhhhc
Q psy2977          74 DNIDITLQWLIAHSKSH   90 (92)
Q Consensus        74 ~gi~~~~~~l~~~i~~~   90 (92)
                      .||+++|+.+++.....
T Consensus       164 ~NV~~AFe~ia~~aL~~  180 (210)
T KOG0394|consen  164 TNVDEAFEEIARRALAN  180 (210)
T ss_pred             ccHHHHHHHHHHHHHhc
Confidence            99999999999877543

>KOG0088|consensus

Probab=99.61  E-value=1.3e-15  Score=86.97  Aligned_cols=83  Identities=22%  Similarity=0.217  Sum_probs=64.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |||++|+++|+.++.|..++....+ ..+.++||+||+||...  .+.++...+..     .-+..++++||+.+.||.+
T Consensus        92 VyDITDrdSFqKVKnWV~Elr~mlG-nei~l~IVGNKiDLEeeR~Vt~qeAe~YAe-----svGA~y~eTSAk~N~Gi~e  165 (218)
T KOG0088|consen   92 VYDITDRDSFQKVKNWVLELRTMLG-NEIELLIVGNKIDLEEERQVTRQEAEAYAE-----SVGALYMETSAKDNVGISE  165 (218)
T ss_pred             EEeccchHHHHHHHHHHHHHHHHhC-CeeEEEEecCcccHHHhhhhhHHHHHHHHH-----hhchhheecccccccCHHH
Confidence            6899999999999999999876533 56889999999999642  23334333321     2345689999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|+.|...+.+
T Consensus       166 lFe~Lt~~MiE  176 (218)
T KOG0088|consen  166 LFESLTAKMIE  176 (218)
T ss_pred             HHHHHHHHHHH
Confidence            99999877654

>cd04124 RabL2 RabL2 subfamily

Probab=99.61  E-value=4.3e-15  Score=85.46  Aligned_cols=82  Identities=20%  Similarity=0.184  Sum_probs=61.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++.++.....|+..+.+.  ..++|+++|+||+|+.... ..+.... .    ...+++++++||++|.|++++|
T Consensus        79 v~d~~~~~s~~~~~~~~~~i~~~--~~~~p~ivv~nK~Dl~~~~-~~~~~~~-~----~~~~~~~~~~Sa~~~~gv~~l~  150 (161)
T cd04124          79 VFDVTRKITYKNLSKWYEELREY--RPEIPCIVVANKIDLDPSV-TQKKFNF-A----EKHNLPLYYVSAADGTNVVKLF  150 (161)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHh--CCCCcEEEEEECccCchhH-HHHHHHH-H----HHcCCeEEEEeCCCCCCHHHHH
Confidence            58999999999888898887653  2468999999999985321 1111111 1    1234679999999999999999


Q ss_pred             HHHHHhhhhc
Q psy2977          81 QWLIAHSKSH   90 (92)
Q Consensus        81 ~~l~~~i~~~   90 (92)
                      +.+.+.+.+.
T Consensus       151 ~~l~~~~~~~  160 (161)
T cd04124         151 QDAIKLAVSY  160 (161)
T ss_pred             HHHHHHHHhc
Confidence            9999887654

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

>cd04125 RabA_like RabA-like subfamily

Probab=99.61  E-value=8.4e-15  Score=86.12  Aligned_cols=84  Identities=17%  Similarity=0.176  Sum_probs=63.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |||++++++|..+..|+.++.... ....|+++++||+|+.+..  +.++.....     ...+++++++||++|.|+++
T Consensus        79 v~d~~~~~s~~~i~~~~~~i~~~~-~~~~~~ivv~nK~Dl~~~~~v~~~~~~~~~-----~~~~~~~~evSa~~~~~i~~  152 (188)
T cd04125          79 VYDVTDQESFENLKFWINEINRYA-RENVIKVIVANKSDLVNNKVVDSNIAKSFC-----DSLNIPFFETSAKQSINVEE  152 (188)
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhC-CCCCeEEEEEECCCCcccccCCHHHHHHHH-----HHcCCeEEEEeCCCCCCHHH
Confidence            589999999999999988876532 2458999999999997432  223322221     12245799999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|.+.+.++
T Consensus       153 ~f~~l~~~~~~~  164 (188)
T cd04125         153 AFILLVKLIIKR  164 (188)
T ss_pred             HHHHHHHHHHHH
Confidence            999999988653

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.

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.61  E-value=3.6e-15  Score=86.45  Aligned_cols=83  Identities=14%  Similarity=0.225  Sum_probs=63.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeecccc---CCC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKE---RDN   75 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~---~~g   75 (92)
                      |+|++++.++.....|+..+.......++|+++|+||+|+....  +.++... +.    ....+++++|||++   +.|
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~-~~----~~~~~~~~e~Sa~~~~~~~~  156 (170)
T cd04115          82 VYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQIQVPTDLAQR-FA----DAHSMPLFETSAKDPSENDH  156 (170)
T ss_pred             EEECCCHHHHHhHHHHHHHHHHhcCCCCCCEEEEEECccchhhcCCCHHHHHH-HH----HHcCCcEEEEeccCCcCCCC
Confidence            58999999999999998887765434679999999999986432  2222222 21    12346799999999   999


Q ss_pred             HHHHHHHHHHhhh
Q psy2977          76 IDITLQWLIAHSK   88 (92)
Q Consensus        76 i~~~~~~l~~~i~   88 (92)
                      |+++|.+|++.++
T Consensus       157 i~~~f~~l~~~~~  169 (170)
T cd04115         157 VEAIFMTLAHKLK  169 (170)
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999998774

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

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

Probab=99.61  E-value=8.1e-15  Score=84.94  Aligned_cols=81  Identities=11%  Similarity=0.081  Sum_probs=58.7

Q ss_pred             CeeCCchhhHHHHH-HHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--------------CHHHHHHhhccCCcCCCc-eE
Q psy2977           1 MVDAADTDKLEASR-NELHALIEKPQLIGIPILVLGNKRDLPNAL--------------DEKELIDRMNLCAIQDRE-IC   64 (92)
Q Consensus         1 v~D~s~~~~~~~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--------------~~~~~~~~~~~~~~~~~~-~~   64 (92)
                      |+|++++++|+... .|+..+...  ..++|+++|+||+|+....              +.++..+..     ...+ ..
T Consensus        76 v~d~~~~~s~~~~~~~~~~~i~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~-----~~~~~~~  148 (174)
T smart00174       76 CFSVDSPASFENVKEKWYPEVKHF--CPNTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEALA-----KRIGAVK  148 (174)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhh--CCCCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHHH-----HHcCCcE
Confidence            57999999999886 477777653  2579999999999996421              111111111     1122 37


Q ss_pred             EEeeccccCCCHHHHHHHHHHhhh
Q psy2977          65 CYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        65 ~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      +++|||++|.||+++|+.+.+.+.
T Consensus       149 ~~e~Sa~~~~~v~~lf~~l~~~~~  172 (174)
T smart00174      149 YLECSALTQEGVREVFEEAIRAAL  172 (174)
T ss_pred             EEEecCCCCCCHHHHHHHHHHHhc
Confidence            899999999999999999998764

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

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.61  E-value=1.1e-14  Score=83.40  Aligned_cols=81  Identities=17%  Similarity=0.295  Sum_probs=63.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|+++++++..+..|+..+..... .+.|+++++||+|+...  .+.++......     ..+..++++||++|.|+++
T Consensus        80 v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~iivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~  153 (163)
T cd01860          80 VYDITSEESFEKAKSWVKELQRNAS-PNIIIALVGNKADLESKRQVSTEEAQEYAD-----ENGLLFFETSAKTGENVNE  153 (163)
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhCC-CCCeEEEEEECccccccCcCCHHHHHHHHH-----HcCCEEEEEECCCCCCHHH
Confidence            5799999999999999998876543 67999999999998732  23444333322     2236799999999999999


Q ss_pred             HHHHHHHhh
Q psy2977          79 TLQWLIAHS   87 (92)
Q Consensus        79 ~~~~l~~~i   87 (92)
                      +|++|.+.+
T Consensus       154 l~~~l~~~l  162 (163)
T cd01860         154 LFTEIAKKL  162 (163)
T ss_pred             HHHHHHHHh
Confidence            999999875

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

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

Probab=99.61  E-value=9.6e-15  Score=85.15  Aligned_cols=85  Identities=16%  Similarity=0.279  Sum_probs=64.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|+++..+++.+..|+..+++.....+.|+++|+||+|+..  .....+......     ....+++++||++|.|+.+
T Consensus        79 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gv~~  153 (180)
T cd04137          79 VYSVTSRKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHTQRQVSTEEGKELAE-----SWGAAFLESSARENENVEE  153 (180)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEchhhhhcCccCHHHHHHHHH-----HcCCeEEEEeCCCCCCHHH
Confidence            579999999999988888887754446789999999999863  223333322221     2236789999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|.||.+.+.+.
T Consensus       154 l~~~l~~~~~~~  165 (180)
T cd04137         154 AFELLIEEIEKV  165 (180)
T ss_pred             HHHHHHHHHHHh
Confidence            999999988654

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

>KOG0395|consensus

Probab=99.60  E-value=9.7e-15  Score=86.79  Aligned_cols=84  Identities=19%  Similarity=0.232  Sum_probs=67.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      ||+++|+.+|+.+..+...++.......+|+++|+||+|+..  ..+.++.....     ....+.++++||+.+.+|++
T Consensus        81 Vysitd~~SF~~~~~l~~~I~r~~~~~~~PivlVGNK~Dl~~~R~V~~eeg~~la-----~~~~~~f~E~Sak~~~~v~~  155 (196)
T KOG0395|consen   81 VYSITDRSSFEEAKQLREQILRVKGRDDVPIILVGNKCDLERERQVSEEEGKALA-----RSWGCAFIETSAKLNYNVDE  155 (196)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhhCcCCCCEEEEEEcccchhccccCHHHHHHHH-----HhcCCcEEEeeccCCcCHHH
Confidence            689999999999998888886665656799999999999975  33444433321     23456799999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|..|.+.+..
T Consensus       156 ~F~~L~r~~~~  166 (196)
T KOG0395|consen  156 VFYELVREIRL  166 (196)
T ss_pred             HHHHHHHHHHh
Confidence            99999998865

>cd04113 Rab4 Rab4 subfamily

Probab=99.60  E-value=1.3e-14  Score=83.19  Aligned_cols=81  Identities=16%  Similarity=0.147  Sum_probs=61.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.++..+..|+..+.... ..++|+++++||+|+...  .+.++......     ..++.++++||++|.|+++
T Consensus        79 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~i~~  152 (161)
T cd04113          79 VYDITNRTSFEALPTWLSDARALA-SPNIVVILVGNKSDLADQREVTFLEASRFAQ-----ENGLLFLETSALTGENVEE  152 (161)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhC-CCCCeEEEEEEchhcchhccCCHHHHHHHHH-----HcCCEEEEEECCCCCCHHH
Confidence            589999999999988888765432 357899999999999642  23344433322     2347899999999999999


Q ss_pred             HHHHHHHhh
Q psy2977          79 TLQWLIAHS   87 (92)
Q Consensus        79 ~~~~l~~~i   87 (92)
                      +|+++++.+
T Consensus       153 ~~~~~~~~~  161 (161)
T cd04113         153 AFLKCARSI  161 (161)
T ss_pred             HHHHHHHhC
Confidence            999998764

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

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.60  E-value=1.1e-14  Score=83.94  Aligned_cols=83  Identities=17%  Similarity=0.233  Sum_probs=60.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCC-CCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccC-CCH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQ-LIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKER-DNI   76 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~-~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~-~gi   76 (92)
                      |+|++++++|+.+..|+..+..... ..+.|+++|+||+|+...  .+.++.....     ...+.+++++||++| .||
T Consensus        78 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~-----~~~~~~~~e~Sa~~~~~~v  152 (165)
T cd04146          78 VYSITDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLLHYRQVSTEEGEKLA-----SELGCLFFEVSAAEDYDGV  152 (165)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchHHhCccCHHHHHHHH-----HHcCCEEEEeCCCCCchhH
Confidence            5899999999988888776654321 347999999999998532  2333322221     122367999999999 599


Q ss_pred             HHHHHHHHHhhh
Q psy2977          77 DITLQWLIAHSK   88 (92)
Q Consensus        77 ~~~~~~l~~~i~   88 (92)
                      +++|++|++.+.
T Consensus       153 ~~~f~~l~~~~~  164 (165)
T cd04146         153 HSVFHELCREVR  164 (165)
T ss_pred             HHHHHHHHHHHh
Confidence            999999998764

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

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.59  E-value=8.5e-15  Score=84.08  Aligned_cols=80  Identities=14%  Similarity=0.198  Sum_probs=60.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|+++++++..+..|+..+....  .+.|+++|+||+|+.+..  ...+... +.    ...+.+++++||++|.|+++
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~--~~~p~ilv~nK~Dl~~~~~~~~~~~~~-~~----~~~~~~~~~~Sa~~~~gi~~  154 (164)
T cd04101          82 VYDVSNKASFENCSRWVNKVRTAS--KHMPGVLVGNKMDLADKAEVTDAQAQA-FA----QANQLKFFKTSALRGVGYEE  154 (164)
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhC--CCCCEEEEEECcccccccCCCHHHHHH-HH----HHcCCeEEEEeCCCCCChHH
Confidence            589999999998888988876542  468999999999996432  2222211 11    12245789999999999999


Q ss_pred             HHHHHHHhh
Q psy2977          79 TLQWLIAHS   87 (92)
Q Consensus        79 ~~~~l~~~i   87 (92)
                      +|++|++.+
T Consensus       155 l~~~l~~~~  163 (164)
T cd04101         155 PFESLARAF  163 (164)
T ss_pred             HHHHHHHHh
Confidence            999999875

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.

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.59  E-value=1.1e-14  Score=85.49  Aligned_cols=83  Identities=14%  Similarity=0.174  Sum_probs=60.5

Q ss_pred             CeeCCchhhHHHHH-HHHHHhhcCCCCCCCcEEEEeeCCCCCCCC------CHHHHHHhhccCCcCCCce-EEEeecccc
Q psy2977           1 MVDAADTDKLEASR-NELHALIEKPQLIGIPILVLGNKRDLPNAL------DEKELIDRMNLCAIQDREI-CCYSISCKE   72 (92)
Q Consensus         1 v~D~s~~~~~~~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~------~~~~~~~~~~~~~~~~~~~-~~~~~SA~~   72 (92)
                      |+|++++++|+.+. .|+..+...  ..+.|+++|+||+|+....      ..++..+...     ..+. +++++||++
T Consensus        79 v~d~~~~~s~~~~~~~~~~~~~~~--~~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~-----~~~~~~~~e~Sa~~  151 (187)
T cd04132          79 CYAVDNPTSLDNVEDKWFPEVNHF--CPGTPIMLVGLKTDLRKDKNLDRKVTPAQAESVAK-----KQGAFAYLECSAKT  151 (187)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHh--CCCCCEEEEEeChhhhhCccccCCcCHHHHHHHHH-----HcCCcEEEEccCCC
Confidence            58999999999886 477666543  2478999999999996432      2333322211     1233 789999999


Q ss_pred             CCCHHHHHHHHHHhhhhc
Q psy2977          73 RDNIDITLQWLIAHSKSH   90 (92)
Q Consensus        73 ~~gi~~~~~~l~~~i~~~   90 (92)
                      |.||+++|.++.+.+...
T Consensus       152 ~~~v~~~f~~l~~~~~~~  169 (187)
T cd04132         152 MENVEEVFDTAIEEALKK  169 (187)
T ss_pred             CCCHHHHHHHHHHHHHhh
Confidence            999999999999888653

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.

>cd04123 Rab21 Rab21 subfamily

Probab=99.59  E-value=1.8e-14  Score=82.18  Aligned_cols=81  Identities=19%  Similarity=0.235  Sum_probs=61.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++++....|+.++..... .++|+++++||+|+....  ..+++.+...     ..+..++++||++|.|+++
T Consensus        79 v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piiiv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~s~~~~~gi~~  152 (162)
T cd04123          79 VYDITDADSFQKVKKWIKELKQMRG-NNISLVIVGNKIDLERQRVVSKSEAEEYAK-----SVGAKHFETSAKTGKGIEE  152 (162)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhCC-CCCeEEEEEECcccccccCCCHHHHHHHHH-----HcCCEEEEEeCCCCCCHHH
Confidence            5799999999888888877765422 378999999999997432  3334433321     2346789999999999999


Q ss_pred             HHHHHHHhh
Q psy2977          79 TLQWLIAHS   87 (92)
Q Consensus        79 ~~~~l~~~i   87 (92)
                      +|+||.+.+
T Consensus       153 ~~~~l~~~~  161 (162)
T cd04123         153 LFLSLAKRM  161 (162)
T ss_pred             HHHHHHHHh
Confidence            999998865

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

>cd04177 RSR1 RSR1 subgroup

Probab=99.59  E-value=1.7e-14  Score=83.44  Aligned_cols=84  Identities=17%  Similarity=0.244  Sum_probs=61.3

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++++....|...+.......+.|+++++||+|+.+..  ..++......    .....+++++||++|.|+++
T Consensus        79 v~~~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~----~~~~~~~~~~SA~~~~~i~~  154 (168)
T cd04177          79 VYSVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLEDDRQVSREDGVSLSQ----QWGNVPFYETSARKRTNVDE  154 (168)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhhCCCCCCEEEEEEChhccccCccCHHHHHHHHH----HcCCceEEEeeCCCCCCHHH
Confidence            57899999999988888777654344579999999999996432  2222222111    11125799999999999999


Q ss_pred             HHHHHHHhhh
Q psy2977          79 TLQWLIAHSK   88 (92)
Q Consensus        79 ~~~~l~~~i~   88 (92)
                      +|++++.++.
T Consensus       155 ~f~~i~~~~~  164 (168)
T cd04177         155 VFIDLVRQII  164 (168)
T ss_pred             HHHHHHHHHh
Confidence            9999998753

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

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.59  E-value=1.9e-14  Score=82.45  Aligned_cols=83  Identities=20%  Similarity=0.306  Sum_probs=64.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+++.+..|+..+..... .++|+++++||+|+...  ...+.......     ..+++++++||++|.|+++
T Consensus        79 v~d~~~~~s~~~~~~~l~~~~~~~~-~~~pivvv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~e~Sa~~~~~i~~  152 (164)
T smart00175       79 VYDITNRESFENLKNWLKELREYAD-PNVVIMLVGNKSDLEDQRQVSREEAEAFAE-----EHGLPFFETSAKTNTNVEE  152 (164)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhCC-CCCeEEEEEEchhcccccCCCHHHHHHHHH-----HcCCeEEEEeCCCCCCHHH
Confidence            5899999999998889888776532 57999999999998652  23344433321     2346799999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|+++.+.+.+
T Consensus       153 l~~~i~~~~~~  163 (164)
T smart00175      153 AFEELAREILK  163 (164)
T ss_pred             HHHHHHHHHhh
Confidence            99999998754

Rab GTPases are implicated in vesicle trafficking.

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.59  E-value=1.8e-14  Score=85.47  Aligned_cols=84  Identities=19%  Similarity=0.280  Sum_probs=62.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC---CCHHHHHHhhccCCcCCCceEEEeeccccCCCHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA---LDEKELIDRMNLCAIQDREICCYSISCKERDNID   77 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~---~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~   77 (92)
                      |+|++++.+++.+..|+..+.......++|+++|+||+|+...   ....+..+...    ...+..++++||++|.|++
T Consensus        77 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~v~~~~~~~~~~----~~~~~~~~~~Sa~~g~gv~  152 (198)
T cd04147          77 VYAVDDPESFEEVERLREEILEVKEDKFVPIVVVGNKADSLEEERQVPAKDALSTVE----LDWNCGFVETSAKDNENVL  152 (198)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEccccccccccccHHHHHHHHH----hhcCCcEEEecCCCCCCHH
Confidence            5899999999999888888776544457999999999999642   12222222111    1123568999999999999


Q ss_pred             HHHHHHHHhhh
Q psy2977          78 ITLQWLIAHSK   88 (92)
Q Consensus        78 ~~~~~l~~~i~   88 (92)
                      ++|+||.+.+.
T Consensus       153 ~l~~~l~~~~~  163 (198)
T cd04147         153 EVFKELLRQAN  163 (198)
T ss_pred             HHHHHHHHHhh
Confidence            99999998765

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.

>cd01862 Rab7 Rab7 subfamily

Probab=99.58  E-value=2.7e-14  Score=82.38  Aligned_cols=86  Identities=19%  Similarity=0.282  Sum_probs=63.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCC---CCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQ---LIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDN   75 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~---~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~g   75 (92)
                      |+|++++++++....|...++....   ..++|+++|+||+|+..  ..+.+++.....    .....+++++||++|.|
T Consensus        79 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~----~~~~~~~~~~Sa~~~~g  154 (172)
T cd01862          79 VYDVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEEKRQVSTKKAQQWCQ----SNGNIPYFETSAKEAIN  154 (172)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECcccccccccCHHHHHHHHH----HcCCceEEEEECCCCCC
Confidence            5799999999888778776654322   23699999999999973  334444444332    11236799999999999


Q ss_pred             HHHHHHHHHHhhhhc
Q psy2977          76 IDITLQWLIAHSKSH   90 (92)
Q Consensus        76 i~~~~~~l~~~i~~~   90 (92)
                      ++++|+++.+.+.+.
T Consensus       155 v~~l~~~i~~~~~~~  169 (172)
T cd01862         155 VEQAFETIARKALEQ  169 (172)
T ss_pred             HHHHHHHHHHHHHhc
Confidence            999999999887654

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-

>KOG0091|consensus

Probab=99.58  E-value=2.9e-15  Score=85.88  Aligned_cols=84  Identities=17%  Similarity=0.193  Sum_probs=64.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCC-CCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLI-GIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNID   77 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~-~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~   77 (92)
                      |+|+||+++|+.+..|+.+..-+...+ .+-+++|+.|+||..  +.+.++.... +    ..++..++++||++|.||+
T Consensus        88 vyditnr~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~SqRqVt~EEaEkl-A----a~hgM~FVETSak~g~NVe  162 (213)
T KOG0091|consen   88 VYDITNRESFEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQSQRQVTAEEAEKL-A----ASHGMAFVETSAKNGCNVE  162 (213)
T ss_pred             EEeccchhhHHHHHHHHHHHHHhcCCCCeeEEEEeccccchhhhccccHHHHHHH-H----HhcCceEEEecccCCCcHH
Confidence            589999999999999998865443333 355789999999964  2344443332 2    3567889999999999999


Q ss_pred             HHHHHHHHhhhh
Q psy2977          78 ITLQWLIAHSKS   89 (92)
Q Consensus        78 ~~~~~l~~~i~~   89 (92)
                      ++|..|++.+..
T Consensus       163 EAF~mlaqeIf~  174 (213)
T KOG0091|consen  163 EAFDMLAQEIFQ  174 (213)
T ss_pred             HHHHHHHHHHHH
Confidence            999999998754

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

Probab=99.58  E-value=1.2e-14  Score=83.75  Aligned_cols=80  Identities=18%  Similarity=0.120  Sum_probs=55.4

Q ss_pred             CeeCCchhhH--HHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKL--EASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~--~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|+++..++  +....|+..+...  ..+.|+++|+||+|+.......+..+..     ....+++++|||++|.|+++
T Consensus        86 v~d~~~~~~~~~~~~~~~~~~l~~~--~~~~pvilv~NK~Dl~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~gi~~  158 (168)
T cd01897          86 LFDPSETCGYSLEEQLSLFEEIKPL--FKNKPVIVVLNKIDLLTFEDLSEIEEEE-----ELEGEEVLKISTLTEEGVDE  158 (168)
T ss_pred             EEeCCcccccchHHHHHHHHHHHhh--cCcCCeEEEEEccccCchhhHHHHHHhh-----hhccCceEEEEecccCCHHH
Confidence            4688876543  4455666666432  2478999999999997543322222211     12356799999999999999


Q ss_pred             HHHHHHHhh
Q psy2977          79 TLQWLIAHS   87 (92)
Q Consensus        79 ~~~~l~~~i   87 (92)
                      +|+||.+.+
T Consensus       159 l~~~l~~~~  167 (168)
T cd01897         159 VKNKACELL  167 (168)
T ss_pred             HHHHHHHHh
Confidence            999999876

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.

>PLN03110 Rab GTPase; Provisional

Probab=99.58  E-value=1.5e-14  Score=87.06  Aligned_cols=83  Identities=18%  Similarity=0.244  Sum_probs=63.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+|+.+..|+..+.... ..+.|+++|+||+|+....  +.++... +.    ....++++++||++|.|+++
T Consensus        91 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piiiv~nK~Dl~~~~~~~~~~~~~-l~----~~~~~~~~e~SA~~g~~v~~  164 (216)
T PLN03110         91 VYDITKRQTFDNVQRWLRELRDHA-DSNIVIMMAGNKSDLNHLRSVAEEDGQA-LA----EKEGLSFLETSALEATNVEK  164 (216)
T ss_pred             EEECCChHHHHHHHHHHHHHHHhC-CCCCeEEEEEEChhcccccCCCHHHHHH-HH----HHcCCEEEEEeCCCCCCHHH
Confidence            589999999999989988876542 2478999999999986432  2233322 21    12357899999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|++|++.+.+
T Consensus       165 lf~~l~~~i~~  175 (216)
T PLN03110        165 AFQTILLEIYH  175 (216)
T ss_pred             HHHHHHHHHHH
Confidence            99999988754

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

Probab=99.58  E-value=1.4e-14  Score=83.08  Aligned_cols=82  Identities=24%  Similarity=0.378  Sum_probs=65.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|.+++++|+.+..|+..+..... .+.|++|++||.|+.+  ..+.++..+...     ..+..++++||+++.||.+
T Consensus        78 ~fd~~~~~S~~~~~~~~~~i~~~~~-~~~~iivvg~K~D~~~~~~v~~~~~~~~~~-----~~~~~~~e~Sa~~~~~v~~  151 (162)
T PF00071_consen   78 VFDVTDEESFENLKKWLEEIQKYKP-EDIPIIVVGNKSDLSDEREVSVEEAQEFAK-----ELGVPYFEVSAKNGENVKE  151 (162)
T ss_dssp             EEETTBHHHHHTHHHHHHHHHHHST-TTSEEEEEEETTTGGGGSSSCHHHHHHHHH-----HTTSEEEEEBTTTTTTHHH
T ss_pred             ccccccccccccccccccccccccc-ccccceeeeccccccccccchhhHHHHHHH-----HhCCEEEEEECCCCCCHHH
Confidence            5799999999999999998876533 4689999999999975  445555544332     2347899999999999999


Q ss_pred             HHHHHHHhhh
Q psy2977          79 TLQWLIAHSK   88 (92)
Q Consensus        79 ~~~~l~~~i~   88 (92)
                      +|..+.+.+.
T Consensus       152 ~f~~~i~~i~  161 (162)
T PF00071_consen  152 IFQELIRKIL  161 (162)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999998774

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 ....

>cd04118 Rab24 Rab24 subfamily

Probab=99.57  E-value=4.2e-14  Score=83.34  Aligned_cols=82  Identities=21%  Similarity=0.185  Sum_probs=61.3

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC------CHHHHHHhhccCCcCCCceEEEeeccccCC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL------DEKELIDRMNLCAIQDREICCYSISCKERD   74 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~------~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~   74 (92)
                      |+|++++.+++....|+..+....  .+.|+++|+||+|+....      ...++....     ...+.+++++||++|.
T Consensus        80 v~d~~~~~s~~~~~~~~~~i~~~~--~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~-----~~~~~~~~~~Sa~~~~  152 (193)
T cd04118          80 CYDLTDSSSFERAKFWVKELQNLE--EHCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFA-----DEIKAQHFETSSKTGQ  152 (193)
T ss_pred             EEECCCHHHHHHHHHHHHHHHhcC--CCCCEEEEEEcccccccccccCccCHHHHHHHH-----HHcCCeEEEEeCCCCC
Confidence            579999999998888888876542  468999999999985321      112222211     1224678999999999


Q ss_pred             CHHHHHHHHHHhhhh
Q psy2977          75 NIDITLQWLIAHSKS   89 (92)
Q Consensus        75 gi~~~~~~l~~~i~~   89 (92)
                      |++++|+++++.+.+
T Consensus       153 gv~~l~~~i~~~~~~  167 (193)
T cd04118         153 NVDELFQKVAEDFVS  167 (193)
T ss_pred             CHHHHHHHHHHHHHH
Confidence            999999999998854

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

>cd01861 Rab6 Rab6 subfamily

Probab=99.56  E-value=2.9e-14  Score=81.59  Aligned_cols=81  Identities=14%  Similarity=0.234  Sum_probs=61.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++|+....|+..+..... .+.|+++++||+|+...  ...++.....     ...+..++++||++|.|+++
T Consensus        79 v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~iilv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~~v~~  152 (161)
T cd01861          79 VYDITNRQSFDNTDKWIDDVRDERG-NDVIIVLVGNKTDLSDKRQVSTEEGEKKA-----KELNAMFIETSAKAGHNVKE  152 (161)
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhCC-CCCEEEEEEEChhccccCccCHHHHHHHH-----HHhCCEEEEEeCCCCCCHHH
Confidence            5799999999999899888765432 36999999999999532  2333333322     12347799999999999999


Q ss_pred             HHHHHHHhh
Q psy2977          79 TLQWLIAHS   87 (92)
Q Consensus        79 ~~~~l~~~i   87 (92)
                      +|++|.+.+
T Consensus       153 l~~~i~~~l  161 (161)
T cd01861         153 LFRKIASAL  161 (161)
T ss_pred             HHHHHHHhC
Confidence            999998753

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

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.56  E-value=9.8e-15  Score=92.77  Aligned_cols=85  Identities=21%  Similarity=0.217  Sum_probs=61.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcC-CCCCCCcEEEEeeCCCCCCCCCHH--HHHHhhccCCcCCCceEEEeeccccCCCHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEK-PQLIGIPILVLGNKRDLPNALDEK--ELIDRMNLCAIQDREICCYSISCKERDNID   77 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~-~~~~~~p~ilv~NK~Dl~~~~~~~--~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~   77 (92)
                      |+|++++++++....|..++... ..+.++|+++|+||+|+.+.....  ......     ...++++++|||++++||+
T Consensus       243 ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~~~~~~~~~~~~~-----~~~~~~i~~iSAktg~GI~  317 (335)
T PRK12299        243 LVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLDEEEEREKRAALEL-----AALGGPVFLISAVTGEGLD  317 (335)
T ss_pred             EEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCchhHHHHHHHHHH-----HhcCCCEEEEEcCCCCCHH
Confidence            68999877788877777776543 224578999999999997543221  111111     1224679999999999999


Q ss_pred             HHHHHHHHhhhhc
Q psy2977          78 ITLQWLIAHSKSH   90 (92)
Q Consensus        78 ~~~~~l~~~i~~~   90 (92)
                      +++++|.+.+.+.
T Consensus       318 eL~~~L~~~l~~~  330 (335)
T PRK12299        318 ELLRALWELLEEA  330 (335)
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999988654

>PLN03118 Rab family protein; Provisional

Probab=99.54  E-value=1.5e-14  Score=86.58  Aligned_cols=84  Identities=13%  Similarity=0.125  Sum_probs=59.2

Q ss_pred             CeeCCchhhHHHHHHHH-HHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCHH
Q psy2977           1 MVDAADTDKLEASRNEL-HALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNID   77 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~-~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~   77 (92)
                      |+|++++++|..+..++ ..+.......+.|+++|+||+|+....  ..++.....     ...+..++++||++|.|++
T Consensus        92 v~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~i~~~~~~~~~-----~~~~~~~~e~SAk~~~~v~  166 (211)
T PLN03118         92 VYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERDVSREEGMALA-----KEHGCLFLECSAKTRENVE  166 (211)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHH-----HHcCCEEEEEeCCCCCCHH
Confidence            58999999999887643 333222223468999999999996432  223332221     1234679999999999999


Q ss_pred             HHHHHHHHhhhh
Q psy2977          78 ITLQWLIAHSKS   89 (92)
Q Consensus        78 ~~~~~l~~~i~~   89 (92)
                      ++|++|.+.+..
T Consensus       167 ~l~~~l~~~~~~  178 (211)
T PLN03118        167 QCFEELALKIME  178 (211)
T ss_pred             HHHHHHHHHHHh
Confidence            999999988754

>cd04135 Tc10 TC10 subfamily

Probab=99.54  E-value=7e-14  Score=81.00  Aligned_cols=80  Identities=13%  Similarity=0.166  Sum_probs=55.8

Q ss_pred             CeeCCchhhHHHHH-HHHHHhhcCCCCCCCcEEEEeeCCCCCCCCC--------------HHHHHHhhccCCcCCCc-eE
Q psy2977           1 MVDAADTDKLEASR-NELHALIEKPQLIGIPILVLGNKRDLPNALD--------------EKELIDRMNLCAIQDRE-IC   64 (92)
Q Consensus         1 v~D~s~~~~~~~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~--------------~~~~~~~~~~~~~~~~~-~~   64 (92)
                      |+|++++.+|+... .|+..+...  ..+.|+++|+||+|+.+...              .++.....     ...+ ..
T Consensus        78 v~~~~~~~s~~~~~~~~~~~l~~~--~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~-----~~~~~~~  150 (174)
T cd04135          78 CFSVVNPASFQNVKEEWVPELKEY--APNVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKLA-----KEIGAHC  150 (174)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhh--CCCCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHHH-----HHcCCCE
Confidence            57899999998876 455555433  35799999999999864321              11111111     1112 36


Q ss_pred             EEeeccccCCCHHHHHHHHHHhh
Q psy2977          65 CYSISCKERDNIDITLQWLIAHS   87 (92)
Q Consensus        65 ~~~~SA~~~~gi~~~~~~l~~~i   87 (92)
                      +++|||++|.||+++|+.+++.+
T Consensus       151 ~~e~Sa~~~~gi~~~f~~~~~~~  173 (174)
T cd04135         151 YVECSALTQKGLKTVFDEAILAI  173 (174)
T ss_pred             EEEecCCcCCCHHHHHHHHHHHh
Confidence            89999999999999999998765

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

>cd04129 Rho2 Rho2 subfamily

Probab=99.53  E-value=8.8e-14  Score=81.87  Aligned_cols=82  Identities=13%  Similarity=0.108  Sum_probs=57.9

Q ss_pred             CeeCCchhhHHHHH-HHHHHhhcCCCCCCCcEEEEeeCCCCCCCC------------CHHHHHHhhccCCcCCCc-eEEE
Q psy2977           1 MVDAADTDKLEASR-NELHALIEKPQLIGIPILVLGNKRDLPNAL------------DEKELIDRMNLCAIQDRE-ICCY   66 (92)
Q Consensus         1 v~D~s~~~~~~~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~------------~~~~~~~~~~~~~~~~~~-~~~~   66 (92)
                      ++|++++++|+... .|+..+....  .+.|+++|+||+|+....            +.++.....     ...+ ..+|
T Consensus        79 v~~i~~~~s~~~~~~~~~~~i~~~~--~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~  151 (187)
T cd04129          79 GFAVDTPDSLENVRTKWIEEVRRYC--PNVPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGKRVA-----KEIGAKKYM  151 (187)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHhC--CCCCEEEEeeChhhhhCcccccccccCCcCCHHHHHHHH-----HHhCCcEEE
Confidence            47889999999886 5777776432  469999999999985311            111111111     1122 4799


Q ss_pred             eeccccCCCHHHHHHHHHHhhhh
Q psy2977          67 SISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        67 ~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      +|||++|.||+++|+++++.+..
T Consensus       152 e~Sa~~~~~v~~~f~~l~~~~~~  174 (187)
T cd04129         152 ECSALTGEGVDDVFEAATRAALL  174 (187)
T ss_pred             EccCCCCCCHHHHHHHHHHHHhc
Confidence            99999999999999999987754

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).

>cd00876 Ras Ras family

Probab=99.53  E-value=8.9e-14  Score=79.20  Aligned_cols=82  Identities=22%  Similarity=0.283  Sum_probs=61.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|+++++++.....|+..+.........|+++++||+|+...  .+.+++.....     ..+.+++++||++|.|+++
T Consensus        77 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~S~~~~~~i~~  151 (160)
T cd00876          77 VYSITDRESFEEIKGYREQILRVKDDEDIPIVLVGNKCDLENERQVSKEEGKALAK-----EWGCPFIETSAKDNINIDE  151 (160)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCcccccceecHHHHHHHHH-----HcCCcEEEeccCCCCCHHH
Confidence            5799999999988888887776533357999999999999752  23333333321     2236799999999999999


Q ss_pred             HHHHHHHhh
Q psy2977          79 TLQWLIAHS   87 (92)
Q Consensus        79 ~~~~l~~~i   87 (92)
                      +|++|.+.+
T Consensus       152 l~~~l~~~i  160 (160)
T cd00876         152 VFKLLVREI  160 (160)
T ss_pred             HHHHHHhhC
Confidence            999998764

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

>cd01892 Miro2 Miro2 subfamily

Probab=99.53  E-value=1.1e-13  Score=80.42  Aligned_cols=78  Identities=19%  Similarity=0.217  Sum_probs=57.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC-----CHHHHHHhhccCCcCCCceEEEeeccccCCC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL-----DEKELIDRMNLCAIQDREICCYSISCKERDN   75 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~g   75 (92)
                      |+|++++++++.+..|+..+..   ..++|+++|+||+|+.+..     ..+++.+.++.       ..++++||++|.|
T Consensus        84 v~d~~~~~s~~~~~~~~~~~~~---~~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~-------~~~~~~Sa~~~~~  153 (169)
T cd01892          84 VYDSSDPKSFSYCAEVYKKYFM---LGEIPCLFVAAKADLDEQQQRYEVQPDEFCRKLGL-------PPPLHFSSKLGDS  153 (169)
T ss_pred             EEeCCCHHHHHHHHHHHHHhcc---CCCCeEEEEEEcccccccccccccCHHHHHHHcCC-------CCCEEEEeccCcc
Confidence            5899999999988787776532   2368999999999996432     11233332211       1358999999999


Q ss_pred             HHHHHHHHHHhhh
Q psy2977          76 IDITLQWLIAHSK   88 (92)
Q Consensus        76 i~~~~~~l~~~i~   88 (92)
                      ++++|+.|++.+.
T Consensus       154 v~~lf~~l~~~~~  166 (169)
T cd01892         154 SNELFTKLATAAQ  166 (169)
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999998775

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.

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=99.53  E-value=1.2e-13  Score=83.49  Aligned_cols=82  Identities=11%  Similarity=0.085  Sum_probs=56.6

Q ss_pred             CeeCCchhhHHHHH-HHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--------------CHHHHHHhhccCCcCCCc-eE
Q psy2977           1 MVDAADTDKLEASR-NELHALIEKPQLIGIPILVLGNKRDLPNAL--------------DEKELIDRMNLCAIQDRE-IC   64 (92)
Q Consensus         1 v~D~s~~~~~~~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--------------~~~~~~~~~~~~~~~~~~-~~   64 (92)
                      |||++++++|+.+. .|...+...  ..+.|++||+||+||....              +.++.....     ...+ ..
T Consensus        79 vfdis~~~Sf~~i~~~w~~~~~~~--~~~~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~g~~~a-----k~~~~~~  151 (222)
T cd04173          79 CFDISRPETLDSVLKKWQGETQEF--CPNAKVVLVGCKLDMRTDLATLRELSKQRLIPVTHEQGTVLA-----KQVGAVS  151 (222)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhh--CCCCCEEEEEECcccccchhhhhhhhhccCCccCHHHHHHHH-----HHcCCCE
Confidence            68999999999985 455544332  3579999999999996421              111111110     1223 47


Q ss_pred             EEeeccccCCC-HHHHHHHHHHhhhh
Q psy2977          65 CYSISCKERDN-IDITLQWLIAHSKS   89 (92)
Q Consensus        65 ~~~~SA~~~~g-i~~~~~~l~~~i~~   89 (92)
                      +++|||++++| |+++|.........
T Consensus       152 y~E~SAk~~~~~V~~~F~~~~~~~~~  177 (222)
T cd04173         152 YVECSSRSSERSVRDVFHVATVASLG  177 (222)
T ss_pred             EEEcCCCcCCcCHHHHHHHHHHHHHh
Confidence            99999999985 99999998886543

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

>KOG0093|consensus

Probab=99.53  E-value=4.2e-15  Score=83.94  Aligned_cols=84  Identities=13%  Similarity=0.186  Sum_probs=64.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      ++|++|.++|..+..|.-.+... .-.+.|+++|+||+|+.++.  +.+......     ...++.+|++||+.+.||++
T Consensus       100 myDitNeeSf~svqdw~tqIkty-sw~naqvilvgnKCDmd~eRvis~e~g~~l~-----~~LGfefFEtSaK~NinVk~  173 (193)
T KOG0093|consen  100 MYDITNEESFNSVQDWITQIKTY-SWDNAQVILVGNKCDMDSERVISHERGRQLA-----DQLGFEFFETSAKENINVKQ  173 (193)
T ss_pred             EEecCCHHHHHHHHHHHHHheee-eccCceEEEEecccCCccceeeeHHHHHHHH-----HHhChHHhhhcccccccHHH
Confidence            58999999999999998887654 34689999999999997542  223222211     12346799999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|+.|...|-++
T Consensus       174 ~Fe~lv~~Ic~k  185 (193)
T KOG0093|consen  174 VFERLVDIICDK  185 (193)
T ss_pred             HHHHHHHHHHHH
Confidence            999999887543

>cd01898 Obg Obg subfamily

Probab=99.53  E-value=7.4e-14  Score=80.52  Aligned_cols=83  Identities=22%  Similarity=0.201  Sum_probs=58.6

Q ss_pred             CeeCCch-hhHHHHHHHHHHhhcCC-CCCCCcEEEEeeCCCCCCCCCHHH-HHHhhccCCcCCCceEEEeeccccCCCHH
Q psy2977           1 MVDAADT-DKLEASRNELHALIEKP-QLIGIPILVLGNKRDLPNALDEKE-LIDRMNLCAIQDREICCYSISCKERDNID   77 (92)
Q Consensus         1 v~D~s~~-~~~~~~~~~~~~~~~~~-~~~~~p~ilv~NK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~~~~~SA~~~~gi~   77 (92)
                      |+|++++ ++++....|.+.+.... ....+|+++|+||+|+.+.....+ +.....    .....+++++||++|.|++
T Consensus        85 v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~----~~~~~~~~~~Sa~~~~gi~  160 (170)
T cd01898          85 VIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLDEEELFELLKELLK----ELWGKPVFPISALTGEGLD  160 (170)
T ss_pred             EEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCCchhhHHHHHHHHh----hCCCCCEEEEecCCCCCHH
Confidence            5799988 67877777777665432 234689999999999965433322 222221    1124668999999999999


Q ss_pred             HHHHHHHHhh
Q psy2977          78 ITLQWLIAHS   87 (92)
Q Consensus        78 ~~~~~l~~~i   87 (92)
                      ++|+++.+.+
T Consensus       161 ~l~~~i~~~~  170 (170)
T cd01898         161 ELLRKLAELL  170 (170)
T ss_pred             HHHHHHHhhC
Confidence            9999998753

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.

>cd01893 Miro1 Miro1 subfamily

Probab=99.53  E-value=3.7e-14  Score=81.90  Aligned_cols=84  Identities=21%  Similarity=0.299  Sum_probs=57.6

Q ss_pred             CeeCCchhhHHHHH-HHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCH----HHHHHhhccCCcCCCceEEEeeccccCCC
Q psy2977           1 MVDAADTDKLEASR-NELHALIEKPQLIGIPILVLGNKRDLPNALDE----KELIDRMNLCAIQDREICCYSISCKERDN   75 (92)
Q Consensus         1 v~D~s~~~~~~~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~----~~~~~~~~~~~~~~~~~~~~~~SA~~~~g   75 (92)
                      |+|++++.+++.+. .|+..+....  .+.|+++|+||+|+.+....    +++.....  .. .....+++|||++|.|
T Consensus        77 v~d~~~~~s~~~~~~~~~~~i~~~~--~~~pviiv~nK~Dl~~~~~~~~~~~~~~~~~~--~~-~~~~~~~e~Sa~~~~~  151 (166)
T cd01893          77 VYSVDRPSTLERIRTKWLPLIRRLG--VKVPIILVGNKSDLRDGSSQAGLEEEMLPIMN--EF-REIETCVECSAKTLIN  151 (166)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHhC--CCCCEEEEEEchhcccccchhHHHHHHHHHHH--HH-hcccEEEEeccccccC
Confidence            57999999998875 4655554332  37899999999999754332    11211110  00 1113689999999999


Q ss_pred             HHHHHHHHHHhhhh
Q psy2977          76 IDITLQWLIAHSKS   89 (92)
Q Consensus        76 i~~~~~~l~~~i~~   89 (92)
                      ++++|+.+.+.+..
T Consensus       152 v~~lf~~~~~~~~~  165 (166)
T cd01893         152 VSEVFYYAQKAVLH  165 (166)
T ss_pred             HHHHHHHHHHHhcC
Confidence            99999999887653

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.

>cd00154 Rab Rab family

Probab=99.51  E-value=1.7e-13  Score=77.62  Aligned_cols=79  Identities=24%  Similarity=0.344  Sum_probs=61.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCC--CCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLP--NALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~--~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++++.+..|+..+.... ..+.|+++++||+|+.  .....+++.+...     ..+.+++++||++|.|+++
T Consensus        79 v~d~~~~~~~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~~  152 (159)
T cd00154          79 VYDITNRESFENLDKWLKELKEYA-PENIPIILVGNKIDLEDQRQVSTEEAQQFAK-----ENGLLFFETSAKTGENVEE  152 (159)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhC-CCCCcEEEEEEcccccccccccHHHHHHHHH-----HcCCeEEEEecCCCCCHHH
Confidence            579999989999888888887653 2579999999999994  3445555555432     2457899999999999999


Q ss_pred             HHHHHHH
Q psy2977          79 TLQWLIA   85 (92)
Q Consensus        79 ~~~~l~~   85 (92)
                      +|.+|.+
T Consensus       153 ~~~~i~~  159 (159)
T cd00154         153 LFQSLAE  159 (159)
T ss_pred             HHHHHhC
Confidence            9999863

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

>KOG0086|consensus

Probab=99.51  E-value=8.1e-14  Score=79.31  Aligned_cols=84  Identities=19%  Similarity=0.160  Sum_probs=63.8

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCC--HHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALD--EKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++|+....|+.....-. .+++.+++++||.||.+...  ..+..+..     ......+.++||+||+||+|
T Consensus        88 VYD~TsrdsfnaLtnWL~DaR~lA-s~nIvviL~GnKkDL~~~R~VtflEAs~Fa-----qEnel~flETSa~TGeNVEE  161 (214)
T KOG0086|consen   88 VYDITSRDSFNALTNWLTDARTLA-SPNIVVILCGNKKDLDPEREVTFLEASRFA-----QENELMFLETSALTGENVEE  161 (214)
T ss_pred             EEeccchhhHHHHHHHHHHHHhhC-CCcEEEEEeCChhhcChhhhhhHHHHHhhh-----cccceeeeeecccccccHHH
Confidence            689999999999999998876532 36788999999999975433  22322222     23345789999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|-..++.|..+
T Consensus       162 aFl~c~~tIl~k  173 (214)
T KOG0086|consen  162 AFLKCARTILNK  173 (214)
T ss_pred             HHHHHHHHHHHH
Confidence            999988887643

>cd04114 Rab30 Rab30 subfamily

Probab=99.51  E-value=1.8e-13  Score=78.95  Aligned_cols=82  Identities=16%  Similarity=0.210  Sum_probs=58.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCH-HHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDE-KELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|+++..++.....|+..+.... ..+.|+++++||+|+.+.... .+....+.    ......++++||++|.|++++
T Consensus        86 v~d~~~~~s~~~~~~~~~~l~~~~-~~~~~~i~v~NK~D~~~~~~i~~~~~~~~~----~~~~~~~~~~Sa~~~~gv~~l  160 (169)
T cd04114          86 TYDITCEESFRCLPEWLREIEQYA-NNKVITILVGNKIDLAERREVSQQRAEEFS----DAQDMYYLETSAKESDNVEKL  160 (169)
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhC-CCCCeEEEEEECcccccccccCHHHHHHHH----HHcCCeEEEeeCCCCCCHHHH
Confidence            579999889988878877664422 246899999999999643221 12222221    112367899999999999999


Q ss_pred             HHHHHHhh
Q psy2977          80 LQWLIAHS   87 (92)
Q Consensus        80 ~~~l~~~i   87 (92)
                      |++|.+.+
T Consensus       161 ~~~i~~~~  168 (169)
T cd04114         161 FLDLACRL  168 (169)
T ss_pred             HHHHHHHh
Confidence            99999865

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.

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.50  E-value=1.8e-13  Score=79.48  Aligned_cols=78  Identities=10%  Similarity=0.129  Sum_probs=54.5

Q ss_pred             CeeCCchhhHHHHH-HHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--------------CHHHHHHhhccCCcCCCceEE
Q psy2977           1 MVDAADTDKLEASR-NELHALIEKPQLIGIPILVLGNKRDLPNAL--------------DEKELIDRMNLCAIQDREICC   65 (92)
Q Consensus         1 v~D~s~~~~~~~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--------------~~~~~~~~~~~~~~~~~~~~~   65 (92)
                      |+|++++.+|+... .|+..+...  ..+.|+++++||+|+....              ..++......    ......+
T Consensus        78 v~d~~~~~sf~~~~~~~~~~~~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~a~----~~~~~~~  151 (173)
T cd04130          78 CFSVVNPSSFQNISEKWIPEIRKH--NPKAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAE----KIGACEY  151 (173)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhh--CCCCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHHHHHH----HhCCCeE
Confidence            57999999998875 577666543  2468999999999986421              1112211110    1122479


Q ss_pred             EeeccccCCCHHHHHHHHH
Q psy2977          66 YSISCKERDNIDITLQWLI   84 (92)
Q Consensus        66 ~~~SA~~~~gi~~~~~~l~   84 (92)
                      ++|||++|.||+++|+.+.
T Consensus       152 ~e~Sa~~~~~v~~lf~~~~  170 (173)
T cd04130         152 IECSALTQKNLKEVFDTAI  170 (173)
T ss_pred             EEEeCCCCCCHHHHHHHHH
Confidence            9999999999999999875

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,

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.50  E-value=2.7e-13  Score=78.63  Aligned_cols=85  Identities=19%  Similarity=0.197  Sum_probs=55.8

Q ss_pred             CeeCCchhhHHHHH-HHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCH-HHHHHhhccC---------CcCCCceEEEeec
Q psy2977           1 MVDAADTDKLEASR-NELHALIEKPQLIGIPILVLGNKRDLPNALDE-KELIDRMNLC---------AIQDREICCYSIS   69 (92)
Q Consensus         1 v~D~s~~~~~~~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~-~~~~~~~~~~---------~~~~~~~~~~~~S   69 (92)
                      |+|++++++|+... .|+..+...  ..+.|+++|+||+|+...... .++.......         .......++++||
T Consensus        79 v~~~~~~~s~~~~~~~~~~~~~~~--~~~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~~~~~~~~~~~~~~S  156 (175)
T cd01870          79 CFSIDSPDSLENIPEKWTPEVKHF--CPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANKIGAFGYMECS  156 (175)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhh--CCCCCEEEEeeChhcccChhhhhhhhhccCCCccHHHHHHHHHHcCCcEEEEec
Confidence            47899999988875 466665543  347899999999998643211 1111000000         0001234799999


Q ss_pred             cccCCCHHHHHHHHHHhh
Q psy2977          70 CKERDNIDITLQWLIAHS   87 (92)
Q Consensus        70 A~~~~gi~~~~~~l~~~i   87 (92)
                      |++|.|++++|++|.+..
T Consensus       157 a~~~~~v~~lf~~l~~~~  174 (175)
T cd01870         157 AKTKEGVREVFEMATRAA  174 (175)
T ss_pred             cccCcCHHHHHHHHHHHh
Confidence            999999999999998764

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

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.50  E-value=8.6e-14  Score=88.33  Aligned_cols=83  Identities=23%  Similarity=0.250  Sum_probs=57.6

Q ss_pred             CeeCCch---hhHHHHHHHHHHhhcC-CCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAADT---DKLEASRNELHALIEK-PQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~---~~~~~~~~~~~~~~~~-~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      |+|+++.   ++++....|.+++... ....++|+++|+||+|+.+....+++.+.+.    ...+.+++++||++++||
T Consensus       242 VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~~~~~~~~~~l~----~~~~~~vi~iSAktg~GI  317 (329)
T TIGR02729       242 LIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDEEELAELLKELK----KALGKPVFPISALTGEGL  317 (329)
T ss_pred             EEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCChHHHHHHHHHHH----HHcCCcEEEEEccCCcCH
Confidence            5788876   5666666666655432 2245789999999999975433333333322    112357999999999999


Q ss_pred             HHHHHHHHHhh
Q psy2977          77 DITLQWLIAHS   87 (92)
Q Consensus        77 ~~~~~~l~~~i   87 (92)
                      ++++++|.+.+
T Consensus       318 ~eL~~~I~~~l  328 (329)
T TIGR02729       318 DELLYALAELL  328 (329)
T ss_pred             HHHHHHHHHHh
Confidence            99999999865

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.

>KOG0074|consensus

Probab=99.48  E-value=2.5e-14  Score=80.36  Aligned_cols=88  Identities=25%  Similarity=0.450  Sum_probs=80.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++|..+|++...++-+++....+..+|++|.+||+|+..+...+++...+.+..+..+.|++.+|||.+++|+.+..
T Consensus        92 VIDS~D~krfeE~~~el~ELleeeKl~~vpvlIfankQdlltaa~~eeia~klnl~~lrdRswhIq~csals~eg~~dg~  171 (185)
T KOG0074|consen   92 VIDSTDEKRFEEISEELVELLEEEKLAEVPVLIFANKQDLLTAAKVEEIALKLNLAGLRDRSWHIQECSALSLEGSTDGS  171 (185)
T ss_pred             EEeCCchHhHHHHHHHHHHHhhhhhhhccceeehhhhhHHHhhcchHHHHHhcchhhhhhceEEeeeCccccccCccCcc
Confidence            68999999999998899999988778889999999999998888899999988888888889999999999999999999


Q ss_pred             HHHHHhhh
Q psy2977          81 QWLIAHSK   88 (92)
Q Consensus        81 ~~l~~~i~   88 (92)
                      +|+.....
T Consensus       172 ~wv~sn~~  179 (185)
T KOG0074|consen  172 DWVQSNPE  179 (185)
T ss_pred             hhhhcCCC
Confidence            99987664

>KOG0080|consensus

Probab=99.47  E-value=2.3e-14  Score=82.05  Aligned_cols=85  Identities=19%  Similarity=0.171  Sum_probs=67.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |||+|.+++|.....|++++-......++-.++|+||+|...  ..+.++-.+.     .+.+..-|+++||+|.+||+.
T Consensus        90 VYDVT~Rdtf~kLd~W~~Eld~Ystn~diikmlVgNKiDkes~R~V~reEG~kf-----Ar~h~~LFiE~SAkt~~~V~~  164 (209)
T KOG0080|consen   90 VYDVTSRDTFVKLDIWLKELDLYSTNPDIIKMLVGNKIDKESERVVDREEGLKF-----ARKHRCLFIECSAKTRENVQC  164 (209)
T ss_pred             EEEccchhhHHhHHHHHHHHHhhcCCccHhHhhhcccccchhcccccHHHHHHH-----HHhhCcEEEEcchhhhccHHH
Confidence            689999999999989999987665556788899999999752  2334433222     245667799999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      .|+.|+..|.+.
T Consensus       165 ~FeelveKIi~t  176 (209)
T KOG0080|consen  165 CFEELVEKIIET  176 (209)
T ss_pred             HHHHHHHHHhcC
Confidence            999999988654

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.46  E-value=9.1e-13  Score=79.05  Aligned_cols=83  Identities=22%  Similarity=0.334  Sum_probs=62.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|+++..+|..+..|+..+...  ..+.|+++++||+|+.+.....+.....     ...++.++++||++|.|+++.|
T Consensus        88 v~d~~~~~s~~~~~~~~~~i~~~--~~~~~i~lv~nK~Dl~~~~~~~~~~~~~-----~~~~~~~~e~Sa~~~~~v~~~f  160 (215)
T PTZ00132         88 MFDVTSRITYKNVPNWHRDIVRV--CENIPIVLVGNKVDVKDRQVKARQITFH-----RKKNLQYYDISAKSNYNFEKPF  160 (215)
T ss_pred             EEECcCHHHHHHHHHHHHHHHHh--CCCCCEEEEEECccCccccCCHHHHHHH-----HHcCCEEEEEeCCCCCCHHHHH
Confidence            57999999999988888887654  2468999999999986432111211211     1234678999999999999999


Q ss_pred             HHHHHhhhhc
Q psy2977          81 QWLIAHSKSH   90 (92)
Q Consensus        81 ~~l~~~i~~~   90 (92)
                      .||++.+..+
T Consensus       161 ~~ia~~l~~~  170 (215)
T PTZ00132        161 LWLARRLTND  170 (215)
T ss_pred             HHHHHHHhhc
Confidence            9999988654

>KOG0083|consensus

Probab=99.45  E-value=1.2e-14  Score=81.05  Aligned_cols=84  Identities=20%  Similarity=0.243  Sum_probs=63.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      ++|+++..+|++...|+-++.... -..+.+.+++||+|+..  ....++-....     ...+++++++||+||.||+-
T Consensus        77 lydiankasfdn~~~wlsei~ey~-k~~v~l~llgnk~d~a~er~v~~ddg~kla-----~~y~ipfmetsaktg~nvd~  150 (192)
T KOG0083|consen   77 LYDIANKASFDNCQAWLSEIHEYA-KEAVALMLLGNKCDLAHERAVKRDDGEKLA-----EAYGIPFMETSAKTGFNVDL  150 (192)
T ss_pred             eeecccchhHHHHHHHHHHHHHHH-HhhHhHhhhccccccchhhccccchHHHHH-----HHHCCCceeccccccccHhH
Confidence            589999999999999998887542 23578899999999943  22222222211     23467899999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|..|++.+++.
T Consensus       151 af~~ia~~l~k~  162 (192)
T KOG0083|consen  151 AFLAIAEELKKL  162 (192)
T ss_pred             HHHHHHHHHHHh
Confidence            999999998764

>cd00157 Rho Rho (Ras homology) family

Probab=99.45  E-value=6.6e-13  Score=76.53  Aligned_cols=78  Identities=14%  Similarity=0.185  Sum_probs=55.1

Q ss_pred             CeeCCchhhHHHHHH-HHHHhhcCCCCCCCcEEEEeeCCCCCCCCCH-------------HHHHHhhccCCcCCCc-eEE
Q psy2977           1 MVDAADTDKLEASRN-ELHALIEKPQLIGIPILVLGNKRDLPNALDE-------------KELIDRMNLCAIQDRE-ICC   65 (92)
Q Consensus         1 v~D~s~~~~~~~~~~-~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~-------------~~~~~~~~~~~~~~~~-~~~   65 (92)
                      |+|++++.++..... |+..+...  ..+.|+++|+||+|+......             ++.....     ...+ ..+
T Consensus        78 v~d~~~~~s~~~~~~~~~~~~~~~--~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~-----~~~~~~~~  150 (171)
T cd00157          78 CFSVDSPSSFENVKTKWIPEIRHY--CPNVPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLA-----KEIGAIGY  150 (171)
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhh--CCCCCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHH-----HHhCCeEE
Confidence            579999888887654 55555443  247999999999999754322             1112111     1122 379


Q ss_pred             EeeccccCCCHHHHHHHHHH
Q psy2977          66 YSISCKERDNIDITLQWLIA   85 (92)
Q Consensus        66 ~~~SA~~~~gi~~~~~~l~~   85 (92)
                      +++||++|+|++++|++|.+
T Consensus       151 ~~~Sa~~~~gi~~l~~~i~~  170 (171)
T cd00157         151 MECSALTQEGVKEVFEEAIR  170 (171)
T ss_pred             EEeecCCCCCHHHHHHHHhh
Confidence            99999999999999999875

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

>cd01878 HflX HflX subfamily

Probab=99.41  E-value=1.1e-12  Score=78.04  Aligned_cols=78  Identities=24%  Similarity=0.234  Sum_probs=53.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++.++.....|...+ ......++|+++|+||+|+.+....   ....     .....+++++||++|.|+++++
T Consensus       127 v~D~~~~~~~~~~~~~~~~l-~~~~~~~~~viiV~NK~Dl~~~~~~---~~~~-----~~~~~~~~~~Sa~~~~gi~~l~  197 (204)
T cd01878         127 VVDASDPDYEEQIETVEKVL-KELGAEDIPMILVLNKIDLLDDEEL---EERL-----EAGRPDAVFISAKTGEGLDELL  197 (204)
T ss_pred             EEECCCCChhhHHHHHHHHH-HHcCcCCCCEEEEEEccccCChHHH---HHHh-----hcCCCceEEEEcCCCCCHHHHH
Confidence            57888877776654444333 2223346899999999999643221   1111     2234679999999999999999


Q ss_pred             HHHHHhh
Q psy2977          81 QWLIAHS   87 (92)
Q Consensus        81 ~~l~~~i   87 (92)
                      ++|.+.+
T Consensus       198 ~~L~~~~  204 (204)
T cd01878         198 EAIEELL  204 (204)
T ss_pred             HHHHhhC
Confidence            9998764

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.

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=99.40  E-value=1.1e-12  Score=80.47  Aligned_cols=77  Identities=19%  Similarity=0.149  Sum_probs=55.2

Q ss_pred             CeeCCchh-hHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHH-HHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTD-KLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEK-ELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~-~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++. +++....|+..+..    .++|+++|+||+||.+..... +..+.+     ...++.++++||++|+|+++
T Consensus        43 V~d~~~p~~s~~~l~r~l~~~~~----~~i~~vIV~NK~DL~~~~~~~~~~~~~~-----~~~g~~v~~~SAktg~gi~e  113 (245)
T TIGR00157        43 VSSAVLPELSLNQLDRFLVVAEA----QNIEPIIVLNKIDLLDDEDMEKEQLDIY-----RNIGYQVLMTSSKNQDGLKE  113 (245)
T ss_pred             EEECCCCCCCHHHHHHHHHHHHH----CCCCEEEEEECcccCCCHHHHHHHHHHH-----HHCCCeEEEEecCCchhHHH
Confidence            57888877 78888888765532    468999999999996422211 122222     12356799999999999999


Q ss_pred             HHHHHHHh
Q psy2977          79 TLQWLIAH   86 (92)
Q Consensus        79 ~~~~l~~~   86 (92)
                      +|+.+.+.
T Consensus       114 Lf~~l~~~  121 (245)
T TIGR00157       114 LIEALQNR  121 (245)
T ss_pred             HHhhhcCC
Confidence            99988753

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

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.39  E-value=2.9e-12  Score=83.65  Aligned_cols=83  Identities=24%  Similarity=0.296  Sum_probs=55.9

Q ss_pred             CeeCCch---hhHHHHHHHHHHhhcC-CCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAADT---DKLEASRNELHALIEK-PQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~---~~~~~~~~~~~~~~~~-~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      |+|+++.   +.++....|.+++... ..+.++|++||+||+|++..  .+.+.....     ...++++++||++++|+
T Consensus       243 VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL~~~--~e~l~~l~~-----~l~~~i~~iSA~tgeGI  315 (424)
T PRK12297        243 VIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLPEA--EENLEEFKE-----KLGPKVFPISALTGQGL  315 (424)
T ss_pred             EEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCCcCC--HHHHHHHHH-----HhCCcEEEEeCCCCCCH
Confidence            5788754   5566655555555442 23457999999999998532  222222111     11256899999999999


Q ss_pred             HHHHHHHHHhhhhc
Q psy2977          77 DITLQWLIAHSKSH   90 (92)
Q Consensus        77 ~~~~~~l~~~i~~~   90 (92)
                      ++++++|.+.+.+.
T Consensus       316 ~eL~~~L~~~l~~~  329 (424)
T PRK12297        316 DELLYAVAELLEET  329 (424)
T ss_pred             HHHHHHHHHHHHhC
Confidence            99999999888653

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

Probab=99.38  E-value=1.6e-12  Score=75.12  Aligned_cols=84  Identities=24%  Similarity=0.206  Sum_probs=55.5

Q ss_pred             CeeCCch------hhHHHHHHHHHHhhcCCC------CCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEee
Q psy2977           1 MVDAADT------DKLEASRNELHALIEKPQ------LIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSI   68 (92)
Q Consensus         1 v~D~s~~------~~~~~~~~~~~~~~~~~~------~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~   68 (92)
                      |+|++++      .++.....|...+.....      ..++|+++|+||+|+.......+.....   ........++++
T Consensus        81 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~~~~~~---~~~~~~~~~~~~  157 (176)
T cd01881          81 VVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDAEELEEELVRE---LALEEGAEVVPI  157 (176)
T ss_pred             EEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCchhHHHHHHHHH---HhcCCCCCEEEE
Confidence            5688877      466666666666554322      2468999999999997433222221001   112234669999


Q ss_pred             ccccCCCHHHHHHHHHHhh
Q psy2977          69 SCKERDNIDITLQWLIAHS   87 (92)
Q Consensus        69 SA~~~~gi~~~~~~l~~~i   87 (92)
                      ||++|.|++++++++...+
T Consensus       158 Sa~~~~gl~~l~~~l~~~~  176 (176)
T cd01881         158 SAKTEEGLDELIRAIYELL  176 (176)
T ss_pred             ehhhhcCHHHHHHHHHhhC
Confidence            9999999999999997653

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

>cd01890 LepA LepA subfamily

Probab=99.35  E-value=6.8e-12  Score=72.94  Aligned_cols=78  Identities=23%  Similarity=0.241  Sum_probs=50.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCH---HHHHHhhccCCcCCCceEEEeeccccCCCHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDE---KELIDRMNLCAIQDREICCYSISCKERDNID   77 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~---~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~   77 (92)
                      |+|+++..+......|. .+..    .++|+++|+||+|+.+....   +++.+.++.     ....++++||++|.|++
T Consensus        97 v~D~~~~~~~~~~~~~~-~~~~----~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~-----~~~~~~~~Sa~~g~gi~  166 (179)
T cd01890          97 LVDATQGVEAQTLANFY-LALE----NNLEIIPVINKIDLPSADPERVKQQIEDVLGL-----DPSEAILVSAKTGLGVE  166 (179)
T ss_pred             EEECCCCccHhhHHHHH-HHHH----cCCCEEEEEECCCCCcCCHHHHHHHHHHHhCC-----CcccEEEeeccCCCCHH
Confidence            57888765444433332 2222    35799999999999643221   223332221     12358999999999999


Q ss_pred             HHHHHHHHhhh
Q psy2977          78 ITLQWLIAHSK   88 (92)
Q Consensus        78 ~~~~~l~~~i~   88 (92)
                      ++|++|.+.+.
T Consensus       167 ~l~~~l~~~~~  177 (179)
T cd01890         167 DLLEAIVERIP  177 (179)
T ss_pred             HHHHHHHhhCC
Confidence            99999998763

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.

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.35  E-value=2.6e-12  Score=85.08  Aligned_cols=60  Identities=22%  Similarity=0.217  Sum_probs=44.1

Q ss_pred             CCCCcEEEEeeCCCCCCCCCHH-HHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhhhc
Q psy2977          26 LIGIPILVLGNKRDLPNALDEK-ELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKSH   90 (92)
Q Consensus        26 ~~~~p~ilv~NK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~~   90 (92)
                      +.++|++||+||+|+++..... .+...+     ....++++++||++++|+++++.+|.+.+...
T Consensus       282 l~~kP~IVVlNKiDL~da~el~e~l~~~l-----~~~g~~Vf~ISA~tgeGLdEL~~~L~ell~~~  342 (500)
T PRK12296        282 LAERPRLVVLNKIDVPDARELAEFVRPEL-----EARGWPVFEVSAASREGLRELSFALAELVEEA  342 (500)
T ss_pred             hcCCCEEEEEECccchhhHHHHHHHHHHH-----HHcCCeEEEEECCCCCCHHHHHHHHHHHHHhh
Confidence            3578999999999997532221 222222     12357899999999999999999999988653

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.34  E-value=2.5e-12  Score=72.42  Aligned_cols=72  Identities=17%  Similarity=0.210  Sum_probs=47.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC-CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA-LDEKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|++++.++.. ..|.. ..      ..|+++|+||+|+.+. ...++..+....    ....+++++||++|.|++++
T Consensus        69 v~d~~~~~s~~~-~~~~~-~~------~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~----~~~~~~~~~Sa~~~~gi~~l  136 (142)
T TIGR02528        69 VQSATDPESRFP-PGFAS-IF------VKPVIGLVTKIDLAEADVDIERAKELLET----AGAEPIFEISSVDEQGLEAL  136 (142)
T ss_pred             EecCCCCCcCCC-hhHHH-hc------cCCeEEEEEeeccCCcccCHHHHHHHHHH----cCCCcEEEEecCCCCCHHHH
Confidence            578888877644 23322 21      2499999999999642 223333332211    11236899999999999999


Q ss_pred             HHHHH
Q psy2977          80 LQWLI   84 (92)
Q Consensus        80 ~~~l~   84 (92)
                      |++|+
T Consensus       137 ~~~l~  141 (142)
T TIGR02528       137 VDYLN  141 (142)
T ss_pred             HHHHh
Confidence            99985

This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site.

>KOG0077|consensus

Probab=99.32  E-value=2.8e-12  Score=73.75  Aligned_cols=87  Identities=31%  Similarity=0.477  Sum_probs=73.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCC------------cCCCceEEEee
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCA------------IQDREICCYSI   68 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~------------~~~~~~~~~~~   68 (92)
                      ++|+.|.++|.+++.+++.++....+.+.|+++++||+|.+.+.+.++....+++..            ...++..+|.|
T Consensus        94 lvda~d~er~~es~~eld~ll~~e~la~vp~lilgnKId~p~a~se~~l~~~l~l~~~t~~~~~v~~~~~~~rp~evfmc  173 (193)
T KOG0077|consen   94 LVDAYDQERFAESKKELDALLSDESLATVPFLILGNKIDIPYAASEDELRFHLGLSNFTTGKGKVNLTDSNVRPLEVFMC  173 (193)
T ss_pred             eeehhhHHHhHHHHHHHHHHHhHHHHhcCcceeecccccCCCcccHHHHHHHHHHHHHhcccccccccCCCCCeEEEEEE
Confidence            378999999999999999999877778999999999999999888887777665422            12346789999


Q ss_pred             ccccCCCHHHHHHHHHHhh
Q psy2977          69 SCKERDNIDITLQWLIAHS   87 (92)
Q Consensus        69 SA~~~~gi~~~~~~l~~~i   87 (92)
                      |...+.|.-+.|.|+...+
T Consensus       174 si~~~~gy~e~fkwl~qyi  192 (193)
T KOG0077|consen  174 SIVRKMGYGEGFKWLSQYI  192 (193)
T ss_pred             EEEccCccceeeeehhhhc
Confidence            9999999999999998765

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.31  E-value=1.2e-11  Score=81.77  Aligned_cols=84  Identities=21%  Similarity=0.132  Sum_probs=54.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|+++..++... .++..+..    .++|+++|+||+|+.+......+...+..........+++++||++|.||+++|
T Consensus       300 V~Da~~~~s~~~~-~~~~~~~~----~~~piIiV~NK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~~SAk~g~gv~~lf  374 (472)
T PRK03003        300 LIDASEPISEQDQ-RVLSMVIE----AGRALVLAFNKWDLVDEDRRYYLEREIDRELAQVPWAPRVNISAKTGRAVDKLV  374 (472)
T ss_pred             EEeCCCCCCHHHH-HHHHHHHH----cCCCEEEEEECcccCChhHHHHHHHHHHHhcccCCCCCEEEEECCCCCCHHHHH
Confidence            5788877666554 34444432    368999999999997432222222221110001123568999999999999999


Q ss_pred             HHHHHhhhh
Q psy2977          81 QWLIAHSKS   89 (92)
Q Consensus        81 ~~l~~~i~~   89 (92)
                      +.+.+.+..
T Consensus       375 ~~i~~~~~~  383 (472)
T PRK03003        375 PALETALES  383 (472)
T ss_pred             HHHHHHHHH
Confidence            999988754

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.29  E-value=1.3e-11  Score=79.08  Aligned_cols=77  Identities=23%  Similarity=0.244  Sum_probs=51.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++.++.....|. .++......++|+++|+||+|+.+.   .++....      ....+++++||++|.|+++++
T Consensus       275 VvD~s~~~~~~~~~~~~-~~L~~l~~~~~piIlV~NK~Dl~~~---~~v~~~~------~~~~~~i~iSAktg~GI~eL~  344 (351)
T TIGR03156       275 VVDASDPDREEQIEAVE-KVLEELGAEDIPQLLVYNKIDLLDE---PRIERLE------EGYPEAVFVSAKTGEGLDLLL  344 (351)
T ss_pred             EEECCCCchHHHHHHHH-HHHHHhccCCCCEEEEEEeecCCCh---HhHHHHH------hCCCCEEEEEccCCCCHHHHH
Confidence            68999887766554333 3333223347899999999999642   2222211      112357999999999999999


Q ss_pred             HHHHHhh
Q psy2977          81 QWLIAHS   87 (92)
Q Consensus        81 ~~l~~~i   87 (92)
                      ++|.+.+
T Consensus       345 ~~I~~~~  351 (351)
T TIGR03156       345 EAIAERL  351 (351)
T ss_pred             HHHHhhC
Confidence            9998753

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).

>PRK04213 GTP-binding protein; Provisional

Probab=99.28  E-value=1.3e-11  Score=73.28  Aligned_cols=64  Identities=22%  Similarity=0.206  Sum_probs=43.9

Q ss_pred             CCCcEEEEeeCCCCCCCC--CHHHHHHhhccCC-cCCCceEEEeeccccCCCHHHHHHHHHHhhhhcC
Q psy2977          27 IGIPILVLGNKRDLPNAL--DEKELIDRMNLCA-IQDREICCYSISCKERDNIDITLQWLIAHSKSHT   91 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~-~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~~~   91 (92)
                      .++|+++|+||+|+.+..  ..+++.+.++... ......+++++||++| ||+++|+||.+.+.+..
T Consensus       129 ~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g-gi~~l~~~l~~~~~~~~  195 (201)
T PRK04213        129 LGIPPIVAVNKMDKIKNRDEVLDEIAERLGLYPPWRQWQDIIAPISAKKG-GIEELKEAIRKRLHEAK  195 (201)
T ss_pred             cCCCeEEEEECccccCcHHHHHHHHHHHhcCCccccccCCcEEEEecccC-CHHHHHHHHHHhhcCcc
Confidence            368999999999996432  1233444443210 0011125899999999 99999999999887644

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.27  E-value=1.8e-11  Score=70.56  Aligned_cols=78  Identities=14%  Similarity=0.174  Sum_probs=52.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|+++..++.  ..|+..+.     .++|+++++||+|+++. ..+.+.+.+...   ....+++++||++|+|++++|
T Consensus        71 v~d~~~~~s~~--~~~~~~~~-----~~~~ii~v~nK~Dl~~~-~~~~~~~~~~~~---~~~~p~~~~Sa~~g~gi~~l~  139 (158)
T PRK15467         71 VHGANDPESRL--PAGLLDIG-----VSKRQIAVISKTDMPDA-DVAATRKLLLET---GFEEPIFELNSHDPQSVQQLV  139 (158)
T ss_pred             EEeCCCccccc--CHHHHhcc-----CCCCeEEEEEccccCcc-cHHHHHHHHHHc---CCCCCEEEEECCCccCHHHHH
Confidence            46887765542  23444431     35799999999999653 334444332211   112479999999999999999


Q ss_pred             HHHHHhhhh
Q psy2977          81 QWLIAHSKS   89 (92)
Q Consensus        81 ~~l~~~i~~   89 (92)
                      +++.+.+..
T Consensus       140 ~~l~~~~~~  148 (158)
T PRK15467        140 DYLASLTKQ  148 (158)
T ss_pred             HHHHHhchh
Confidence            999988754

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.26  E-value=2.5e-11  Score=79.26  Aligned_cols=84  Identities=15%  Similarity=0.079  Sum_probs=52.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCC-CCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLP-NALDEKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|+++..+.... .++..+..    .++|+++|+||+|+. +....+++...+..........+++++||++|.|++++
T Consensus       261 V~D~~~~~~~~~~-~~~~~~~~----~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~vi~~SA~~g~~v~~l  335 (429)
T TIGR03594       261 VLDATEGITEQDL-RIAGLILE----AGKALVIVVNKWDLVKDEKTREEFKKELRRKLPFLDFAPIVFISALTGQGVDKL  335 (429)
T ss_pred             EEECCCCccHHHH-HHHHHHHH----cCCcEEEEEECcccCCCHHHHHHHHHHHHHhcccCCCCceEEEeCCCCCCHHHH
Confidence            5677765544332 23333332    358999999999997 22222333333321110112467999999999999999


Q ss_pred             HHHHHHhhhh
Q psy2977          80 LQWLIAHSKS   89 (92)
Q Consensus        80 ~~~l~~~i~~   89 (92)
                      |+++.+....
T Consensus       336 ~~~i~~~~~~  345 (429)
T TIGR03594       336 LDAIDEVYEN  345 (429)
T ss_pred             HHHHHHHHHH
Confidence            9999887653

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.

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.25  E-value=6.4e-11  Score=65.94  Aligned_cols=81  Identities=22%  Similarity=0.352  Sum_probs=55.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHH--HhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELI--DRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~--~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.++.....|+...........+|+++++||+|+..........  ....    .....+++++||.++.|+++
T Consensus        75 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~~~~~~~~~~~~~~----~~~~~~~~~~s~~~~~~i~~  150 (157)
T cd00882          75 VYDVTDRESFENVKEWLLLILINKEGENIPIILVGNKIDLPEERVVSEEELAEQLA----KELGVPYFETSAKTGENVEE  150 (157)
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhhccCCCcEEEEEeccccccccchHHHHHHHHHH----hhcCCcEEEEecCCCCChHH
Confidence            57888888877776663333333334679999999999997543333221  1111    22357799999999999999


Q ss_pred             HHHHHHH
Q psy2977          79 TLQWLIA   85 (92)
Q Consensus        79 ~~~~l~~   85 (92)
                      +++||.+
T Consensus       151 ~~~~l~~  157 (157)
T cd00882         151 LFEELAE  157 (157)
T ss_pred             HHHHHhC
Confidence            9999863

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

>KOG0097|consensus

Probab=99.23  E-value=9.9e-11  Score=66.12  Aligned_cols=84  Identities=14%  Similarity=0.120  Sum_probs=63.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++.+..++....|+....+- ..++..+++++||.||...  .+.++.++..+     ..+..+.++||+||+||++
T Consensus        90 vyditrrstynhlsswl~dar~l-tnpnt~i~lignkadle~qrdv~yeeak~fae-----engl~fle~saktg~nved  163 (215)
T KOG0097|consen   90 VYDITRRSTYNHLSSWLTDARNL-TNPNTVIFLIGNKADLESQRDVTYEEAKEFAE-----ENGLMFLEASAKTGQNVED  163 (215)
T ss_pred             EEEehhhhhhhhHHHHHhhhhcc-CCCceEEEEecchhhhhhcccCcHHHHHHHHh-----hcCeEEEEecccccCcHHH
Confidence            57999888899888999877543 2256778999999999653  34455544332     3457799999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|-.-++.+.++
T Consensus       164 afle~akkiyqn  175 (215)
T KOG0097|consen  164 AFLETAKKIYQN  175 (215)
T ss_pred             HHHHHHHHHHHh
Confidence            998888777543

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

Probab=99.23  E-value=4.3e-11  Score=68.07  Aligned_cols=77  Identities=19%  Similarity=0.226  Sum_probs=48.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|+++++..   ..++..+..    .++|+++|+||+|+.+........+.+.    ...+.+++++||++|.|+++++
T Consensus        81 v~d~~~~~~~---~~~~~~~~~----~~~~~iiv~NK~Dl~~~~~~~~~~~~~~----~~~~~~~~~iSa~~~~~~~~l~  149 (158)
T cd01879          81 VVDATNLERN---LYLTLQLLE----LGLPVVVALNMIDEAEKRGIKIDLDKLS----ELLGVPVVPTSARKGEGIDELK  149 (158)
T ss_pred             EeeCCcchhH---HHHHHHHHH----cCCCEEEEEehhhhcccccchhhHHHHH----HhhCCCeEEEEccCCCCHHHHH
Confidence            4677664332   234444432    2589999999999965422211111111    1123578999999999999999


Q ss_pred             HHHHHhhh
Q psy2977          81 QWLIAHSK   88 (92)
Q Consensus        81 ~~l~~~i~   88 (92)
                      ++|.+.+.
T Consensus       150 ~~l~~~~~  157 (158)
T cd01879         150 DAIAELAE  157 (158)
T ss_pred             HHHHHHhc
Confidence            99988653

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.

>PRK11058 GTPase HflX; Provisional

Probab=99.21  E-value=1.2e-10  Score=76.28  Aligned_cols=81  Identities=21%  Similarity=0.256  Sum_probs=51.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++..+.....| .+++......++|+++|+||+|+..... ..+... .    ... ..++.+||++|.|+++++
T Consensus       283 VvDaS~~~~~e~l~~v-~~iL~el~~~~~pvIiV~NKiDL~~~~~-~~~~~~-~----~~~-~~~v~ISAktG~GIdeL~  354 (426)
T PRK11058        283 VVDAADVRVQENIEAV-NTVLEEIDAHEIPTLLVMNKIDMLDDFE-PRIDRD-E----ENK-PIRVWLSAQTGAGIPLLF  354 (426)
T ss_pred             EEeCCCccHHHHHHHH-HHHHHHhccCCCCEEEEEEcccCCCchh-HHHHHH-h----cCC-CceEEEeCCCCCCHHHHH
Confidence            6899988766654322 2222222224689999999999964211 111111 0    011 125789999999999999


Q ss_pred             HHHHHhhhh
Q psy2977          81 QWLIAHSKS   89 (92)
Q Consensus        81 ~~l~~~i~~   89 (92)
                      ++|.+.+..
T Consensus       355 e~I~~~l~~  363 (426)
T PRK11058        355 QALTERLSG  363 (426)
T ss_pred             HHHHHHhhh
Confidence            999998753

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

Probab=99.20  E-value=1.2e-10  Score=66.84  Aligned_cols=61  Identities=23%  Similarity=0.284  Sum_probs=41.6

Q ss_pred             CCCcEEEEeeCCCCCCCCCHHHHHHhh---ccCC--cCCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          27 IGIPILVLGNKRDLPNALDEKELIDRM---NLCA--IQDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~~~~~~~~~---~~~~--~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      .++|+++|+||+|+.... .+.+...+   ....  .....++++++||++|+|++++++||.+...
T Consensus       101 ~~~p~ivv~NK~Dl~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  166 (168)
T cd01887         101 ANVPFIVALNKIDKPNAN-PERVKNELSELGLQGEDEWGGDVQIVPTSAKTGEGIDDLLEAILLLAE  166 (168)
T ss_pred             cCCCEEEEEEceeccccc-HHHHHHHHHHhhccccccccCcCcEEEeecccCCCHHHHHHHHHHhhh
Confidence            358999999999987432 22222211   1110  0123467999999999999999999998764

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.

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.20  E-value=8.6e-11  Score=76.23  Aligned_cols=87  Identities=22%  Similarity=0.200  Sum_probs=55.6

Q ss_pred             CeeCC---chhhHHHHHHHHHHhhcC-CCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAA---DTDKLEASRNELHALIEK-PQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s---~~~~~~~~~~~~~~~~~~-~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      |+|++   +.+.++....|++++... ..+.++|+++|+||+|+.......+....+.  ........++++||+++.|+
T Consensus       244 VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~~el~~~l~~l~--~~~~~~~~Vi~ISA~tg~GI  321 (390)
T PRK12298        244 LIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLDEEEAEERAKAIV--EALGWEGPVYLISAASGLGV  321 (390)
T ss_pred             EeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCChHHHHHHHHHHH--HHhCCCCCEEEEECCCCcCH
Confidence            46776   345566666666665542 2235689999999999964322222111111  00011135899999999999


Q ss_pred             HHHHHHHHHhhhh
Q psy2977          77 DITLQWLIAHSKS   89 (92)
Q Consensus        77 ~~~~~~l~~~i~~   89 (92)
                      ++++++|.+.+.+
T Consensus       322 deLl~~I~~~L~~  334 (390)
T PRK12298        322 KELCWDLMTFIEE  334 (390)
T ss_pred             HHHHHHHHHHhhh
Confidence            9999999998864

>TIGR00436 era GTP-binding protein Era

Probab=99.19  E-value=7.4e-11  Score=73.18  Aligned_cols=79  Identities=15%  Similarity=0.064  Sum_probs=49.8

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHH-HHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEK-ELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|+++..+..   .++...+..   .+.|+++|+||+|+....... ........    .....++++||++|.|++++
T Consensus        86 VvD~~~~~~~~---~~i~~~l~~---~~~p~ilV~NK~Dl~~~~~~~~~~~~~~~~----~~~~~v~~iSA~~g~gi~~L  155 (270)
T TIGR00436        86 VVDSDQWNGDG---EFVLTKLQN---LKRPVVLTRNKLDNKFKDKLLPLIDKYAIL----EDFKDIVPISALTGDNTSFL  155 (270)
T ss_pred             EEECCCCCchH---HHHHHHHHh---cCCCEEEEEECeeCCCHHHHHHHHHHHHhh----cCCCceEEEecCCCCCHHHH
Confidence            46887765543   223333322   358999999999996321111 11111111    11226899999999999999


Q ss_pred             HHHHHHhhhh
Q psy2977          80 LQWLIAHSKS   89 (92)
Q Consensus        80 ~~~l~~~i~~   89 (92)
                      +++|.+.+..
T Consensus       156 ~~~l~~~l~~  165 (270)
T TIGR00436       156 AAFIEVHLPE  165 (270)
T ss_pred             HHHHHHhCCC
Confidence            9999988754

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

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

Probab=99.19  E-value=6.9e-11  Score=70.55  Aligned_cols=59  Identities=19%  Similarity=0.254  Sum_probs=40.6

Q ss_pred             CcEEEEeeCCCCCCCCCH----HHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          29 IPILVLGNKRDLPNALDE----KELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~~~----~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      .|+++|+||+|+.+....    +++.+.+..  .....++++++||++|+|++++|++|.+.+..
T Consensus       138 ~~iiivvNK~Dl~~~~~~~~~~~~i~~~~~~--~~~~~~~i~~vSA~~g~gi~~L~~~l~~~l~~  200 (203)
T cd01888         138 KHIIIVQNKIDLVKEEQALENYEQIKKFVKG--TIAENAPIIPISAQLKYNIDVLLEYIVKKIPT  200 (203)
T ss_pred             CcEEEEEEchhccCHHHHHHHHHHHHHHHhc--cccCCCcEEEEeCCCCCCHHHHHHHHHHhCCC
Confidence            578999999999642221    122222211  01124679999999999999999999988754

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

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.19  E-value=6.3e-11  Score=78.07  Aligned_cols=71  Identities=24%  Similarity=0.267  Sum_probs=50.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++.+++.... +..      ..++|+++|+||+|+.+.....           .....+++++||++|.|+++++
T Consensus       301 VvD~s~~~s~~~~~~-l~~------~~~~piiiV~NK~DL~~~~~~~-----------~~~~~~~i~iSAktg~GI~~L~  362 (449)
T PRK05291        301 VLDASEPLTEEDDEI-LEE------LKDKPVIVVLNKADLTGEIDLE-----------EENGKPVIRISAKTGEGIDELR  362 (449)
T ss_pred             EecCCCCCChhHHHH-HHh------cCCCCcEEEEEhhhccccchhh-----------hccCCceEEEEeeCCCCHHHHH
Confidence            578888766654322 222      2468999999999997432211           1123568999999999999999


Q ss_pred             HHHHHhhhh
Q psy2977          81 QWLIAHSKS   89 (92)
Q Consensus        81 ~~l~~~i~~   89 (92)
                      ++|.+.+..
T Consensus       363 ~~L~~~l~~  371 (449)
T PRK05291        363 EAIKELAFG  371 (449)
T ss_pred             HHHHHHHhh
Confidence            999988753

>PRK15494 era GTPase Era; Provisional

Probab=99.18  E-value=1.2e-10  Score=74.46  Aligned_cols=58  Identities=21%  Similarity=0.237  Sum_probs=42.0

Q ss_pred             CCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          28 GIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      +.|.++|+||+|+.+. ...++.+.+..   ......++++||++|.|++++|+||.+.+..
T Consensus       160 ~~p~IlViNKiDl~~~-~~~~~~~~l~~---~~~~~~i~~iSAktg~gv~eL~~~L~~~l~~  217 (339)
T PRK15494        160 NIVPIFLLNKIDIESK-YLNDIKAFLTE---NHPDSLLFPISALSGKNIDGLLEYITSKAKI  217 (339)
T ss_pred             CCCEEEEEEhhcCccc-cHHHHHHHHHh---cCCCcEEEEEeccCccCHHHHHHHHHHhCCC
Confidence            4577889999999643 33444444321   1123579999999999999999999988754

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

Probab=99.17  E-value=1.4e-10  Score=65.77  Aligned_cols=70  Identities=21%  Similarity=0.106  Sum_probs=48.3

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++.+......+..       ....|+++|+||+|+.+....      .    ......+++++||+++.|+++++
T Consensus        87 v~d~~~~~~~~~~~~~~~-------~~~~~vi~v~nK~D~~~~~~~------~----~~~~~~~~~~~Sa~~~~~v~~l~  149 (157)
T cd04164          87 VIDASRGLDEEDLEILEL-------PADKPIIVVLNKSDLLPDSEL------L----SLLAGKPIIAISAKTGEGLDELK  149 (157)
T ss_pred             EEECCCCCCHHHHHHHHh-------hcCCCEEEEEEchhcCCcccc------c----cccCCCceEEEECCCCCCHHHHH
Confidence            467776555544322111       246899999999999753222      1    12234679999999999999999


Q ss_pred             HHHHHhh
Q psy2977          81 QWLIAHS   87 (92)
Q Consensus        81 ~~l~~~i   87 (92)
                      ++|.+.+
T Consensus       150 ~~l~~~~  156 (157)
T cd04164         150 EALLELA  156 (157)
T ss_pred             HHHHHhh
Confidence            9998865

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.

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.16  E-value=5.3e-10  Score=65.18  Aligned_cols=62  Identities=21%  Similarity=0.193  Sum_probs=44.3

Q ss_pred             CCCcEEEEeeCCCCCCCCC----HHHHHHhhccCCc---------CCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          27 IGIPILVLGNKRDLPNALD----EKELIDRMNLCAI---------QDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~----~~~~~~~~~~~~~---------~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      .+.|+++++||+|+.....    ..++.+.+.....         .....+++++||++|.|+++++++|.+.+.
T Consensus       113 ~~~~i~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~Sa~~g~gi~~l~~~l~~~l~  187 (189)
T cd00881         113 GGLPIIVAINKIDRVGEEDLEEVLREIKELLGLIGFISTKEEGTRNGLLVPIVPGSALTGIGVEELLEAIVEHLP  187 (189)
T ss_pred             CCCCeEEEEECCCCcchhcHHHHHHHHHHHHccccccchhhhhcccCCcceEEEEecccCcCHHHHHHHHHhhCC
Confidence            4689999999999975322    2233333332211         123578999999999999999999998874

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.

>KOG1489|consensus

Probab=99.16  E-value=1.2e-10  Score=73.15  Aligned_cols=79  Identities=23%  Similarity=0.291  Sum_probs=53.1

Q ss_pred             CeeCCch---hhHHHHHHHHHHhhc-CCCCCCCcEEEEeeCCCCCCCCCH--HHHHHhhccCCcCCCceEEEeeccccCC
Q psy2977           1 MVDAADT---DKLEASRNELHALIE-KPQLIGIPILVLGNKRDLPNALDE--KELIDRMNLCAIQDREICCYSISCKERD   74 (92)
Q Consensus         1 v~D~s~~---~~~~~~~~~~~~~~~-~~~~~~~p~ilv~NK~Dl~~~~~~--~~~~~~~~~~~~~~~~~~~~~~SA~~~~   74 (92)
                      |+|.+.+   +.++.......++-. +..+.+.|.++|+||+|++++...  +++...+.       +.+++++||++++
T Consensus       281 VvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~eae~~~l~~L~~~lq-------~~~V~pvsA~~~e  353 (366)
T KOG1489|consen  281 VVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLPEAEKNLLSSLAKRLQ-------NPHVVPVSAKSGE  353 (366)
T ss_pred             EEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCchhHHHHHHHHHHHHcC-------CCcEEEeeecccc
Confidence            5788877   566655433333221 234678999999999999743211  33444332       2369999999999


Q ss_pred             CHHHHHHHHHHh
Q psy2977          75 NIDITLQWLIAH   86 (92)
Q Consensus        75 gi~~~~~~l~~~   86 (92)
                      |+++++..|.+.
T Consensus       354 gl~~ll~~lr~~  365 (366)
T KOG1489|consen  354 GLEELLNGLREL  365 (366)
T ss_pred             chHHHHHHHhhc
Confidence            999999988654

>COG2262 HflX GTPases [General function prediction only]

Probab=99.15  E-value=3.7e-10  Score=72.79  Aligned_cols=80  Identities=23%  Similarity=0.317  Sum_probs=56.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|+|+|...... .....++...+..++|+++|.||+|+.....   ....+.    ...+ ..+.+||++|.|++.+.
T Consensus       278 VVDaSdp~~~~~~-~~v~~vL~el~~~~~p~i~v~NKiD~~~~~~---~~~~~~----~~~~-~~v~iSA~~~~gl~~L~  348 (411)
T COG2262         278 VVDASDPEILEKL-EAVEDVLAEIGADEIPIILVLNKIDLLEDEE---ILAELE----RGSP-NPVFISAKTGEGLDLLR  348 (411)
T ss_pred             EeecCChhHHHHH-HHHHHHHHHcCCCCCCEEEEEecccccCchh---hhhhhh----hcCC-CeEEEEeccCcCHHHHH
Confidence            6899999655444 4466666666667899999999999764222   111111    0112 57899999999999999


Q ss_pred             HHHHHhhhh
Q psy2977          81 QWLIAHSKS   89 (92)
Q Consensus        81 ~~l~~~i~~   89 (92)
                      +.|.+.+..
T Consensus       349 ~~i~~~l~~  357 (411)
T COG2262         349 ERIIELLSG  357 (411)
T ss_pred             HHHHHHhhh
Confidence            999998864

>cd00880 Era_like Era (E

Probab=99.15  E-value=3.4e-10  Score=63.68  Aligned_cols=82  Identities=27%  Similarity=0.226  Sum_probs=50.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|+++........ ++....    ..+.|+++|+||+|+.......................+++++||+++.|+++++
T Consensus        82 v~~~~~~~~~~~~~-~~~~~~----~~~~~~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~v~~l~  156 (163)
T cd00880          82 VVDADLRADEEEEK-LLELLR----ERGKPVLLVLNKIDLLPEEEEEELLELRLLILLLLLGLPVIAVSALTGEGIDELR  156 (163)
T ss_pred             EEeCCCCCCHHHHH-HHHHHH----hcCCeEEEEEEccccCChhhHHHHHHHHHhhcccccCCceEEEeeeccCCHHHHH
Confidence            35666554443332 222222    2468999999999997543333322101111122345779999999999999999


Q ss_pred             HHHHHhh
Q psy2977          81 QWLIAHS   87 (92)
Q Consensus        81 ~~l~~~i   87 (92)
                      ++|.+.+
T Consensus       157 ~~l~~~~  163 (163)
T cd00880         157 EALIEAL  163 (163)
T ss_pred             HHHHhhC
Confidence            9998753

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

>cd01889 SelB_euk SelB subfamily

Probab=99.15  E-value=2.3e-10  Score=67.58  Aligned_cols=61  Identities=15%  Similarity=0.026  Sum_probs=41.4

Q ss_pred             CCcEEEEeeCCCCCCCCCH----HHHHHhhc--cCCcCCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          28 GIPILVLGNKRDLPNALDE----KELIDRMN--LCAIQDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~----~~~~~~~~--~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      +.|+++++||+|+......    +++.+.+.  +......+++++++||++|+|+++++++|.+++.
T Consensus       120 ~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~vi~iSa~~g~gi~~L~~~l~~~~~  186 (192)
T cd01889         120 CKKLIVVLNKIDLIPEEERERKIEKMKKKLQKTLEKTRFKNSPIIPVSAKPGGGEAELGKDLNNLIV  186 (192)
T ss_pred             CCCEEEEEECcccCCHHHHHHHHHHHHHHHHHHHHhcCcCCCCEEEEeccCCCCHHHHHHHHHhccc
Confidence            5699999999998642221    22222211  0000123568999999999999999999998874

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

>cd01895 EngA2 EngA2 subfamily

Probab=99.14  E-value=4e-10  Score=64.67  Aligned_cols=81  Identities=16%  Similarity=0.066  Sum_probs=48.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+.... .++..+..    .+.|+++++||+|+.+.  ...+.+...+..........+++++||++|.|+++
T Consensus        91 v~d~~~~~~~~~~-~~~~~~~~----~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~  165 (174)
T cd01895          91 VIDATEGITEQDL-RIAGLILE----EGKALVIVVNKWDLVEKDSKTMKEFKKEIRRKLPFLDYAPIVFISALTGQGVDK  165 (174)
T ss_pred             EEeCCCCcchhHH-HHHHHHHh----cCCCEEEEEeccccCCccHHHHHHHHHHHHhhcccccCCceEEEeccCCCCHHH
Confidence            4577665444322 22332221    35899999999999754  22222223221110011235799999999999999


Q ss_pred             HHHHHHHh
Q psy2977          79 TLQWLIAH   86 (92)
Q Consensus        79 ~~~~l~~~   86 (92)
                      +++++.+.
T Consensus       166 ~~~~l~~~  173 (174)
T cd01895         166 LFDAIDEV  173 (174)
T ss_pred             HHHHHHHh
Confidence            99999764

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.

>cd04171 SelB SelB subfamily

Probab=99.13  E-value=1.4e-10  Score=66.21  Aligned_cols=55  Identities=18%  Similarity=0.100  Sum_probs=38.1

Q ss_pred             CcEEEEeeCCCCCCCCC----HHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHH
Q psy2977          29 IPILVLGNKRDLPNALD----EKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIA   85 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~~----~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~   85 (92)
                      .|+++++||+|+.....    .+++.+.+....  ....+++++||++|+|++++++++.+
T Consensus       105 ~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~Sa~~~~~v~~l~~~l~~  163 (164)
T cd04171         105 KRGLVVLTKADLVDEDWLELVEEEIRELLAGTF--LADAPIFPVSAVTGEGIEELKEYLDE  163 (164)
T ss_pred             CcEEEEEECccccCHHHHHHHHHHHHHHHHhcC--cCCCcEEEEeCCCCcCHHHHHHHHhh
Confidence            49999999999974321    123333332110  13467999999999999999999865

SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and eukaryo

>cd01894 EngA1 EngA1 subfamily

Probab=99.13  E-value=3.7e-10  Score=64.04  Aligned_cols=53  Identities=19%  Similarity=0.072  Sum_probs=37.8

Q ss_pred             CCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhh
Q psy2977          28 GIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHS   87 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i   87 (92)
                      +.|+++|+||+|+.+....   ...+.  .  ....+++++||++|.|++++|++|.+++
T Consensus       105 ~~piiiv~nK~D~~~~~~~---~~~~~--~--~~~~~~~~~Sa~~~~gv~~l~~~l~~~~  157 (157)
T cd01894         105 KKPVILVVNKVDNIKEEDE---AAEFY--S--LGFGEPIPISAEHGRGIGDLLDAILELL  157 (157)
T ss_pred             CCCEEEEEECcccCChHHH---HHHHH--h--cCCCCeEEEecccCCCHHHHHHHHHhhC
Confidence            5899999999999753221   11111  0  1112579999999999999999998764

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.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.12  E-value=4.7e-10  Score=63.09  Aligned_cols=71  Identities=20%  Similarity=0.248  Sum_probs=45.1

Q ss_pred             hHHHHH-HHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHH
Q psy2977           9 KLEASR-NELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLI   84 (92)
Q Consensus         9 ~~~~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~   84 (92)
                      ++.... .+...+..... .+.|+++++||+|+............+..    ....+++++||++|.|++++|++|.
T Consensus        89 ~~~~~~~~~~~~~~~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~----~~~~~~~~~sa~~~~gv~~~~~~l~  160 (161)
T TIGR00231        89 DVEEILEKQTKEIIHHAE-SNVPIILVGNKIDLRDAKLKTHVAFLFAK----LNGEPIIPLSAETGKNIDSAFKIVE  160 (161)
T ss_pred             hhhhHhHHHHHHHHHhcc-cCCcEEEEEEcccCCcchhhHHHHHHHhh----ccCCceEEeecCCCCCHHHHHHHhh
Confidence            344333 44444443322 27899999999999653223333333321    1234599999999999999999974

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.

>KOG0095|consensus

Probab=99.11  E-value=3.8e-11  Score=68.30  Aligned_cols=84  Identities=17%  Similarity=0.238  Sum_probs=60.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCC-HHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALD-EKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|++-..+|+-.-+|+.++-+... ..+--++|+||+|+.+... .+.+.+.+.    ..+...+.++||+..+||+.+
T Consensus        86 vydiscqpsfdclpewlreie~yan-~kvlkilvgnk~d~~drrevp~qigeefs----~~qdmyfletsakea~nve~l  160 (213)
T KOG0095|consen   86 VYDISCQPSFDCLPEWLREIEQYAN-NKVLKILVGNKIDLADRREVPQQIGEEFS----EAQDMYFLETSAKEADNVEKL  160 (213)
T ss_pred             EEecccCcchhhhHHHHHHHHHHhh-cceEEEeeccccchhhhhhhhHHHHHHHH----HhhhhhhhhhcccchhhHHHH
Confidence            5799988899988899998876533 3456689999999974321 223333322    223455889999999999999


Q ss_pred             HHHHHHhhhh
Q psy2977          80 LQWLIAHSKS   89 (92)
Q Consensus        80 ~~~l~~~i~~   89 (92)
                      |..++-.+..
T Consensus       161 f~~~a~rli~  170 (213)
T KOG0095|consen  161 FLDLACRLIS  170 (213)
T ss_pred             HHHHHHHHHH
Confidence            9998877643

>KOG0393|consensus

Probab=99.11  E-value=3.2e-10  Score=67.27  Aligned_cols=85  Identities=13%  Similarity=0.198  Sum_probs=59.4

Q ss_pred             CeeCCchhhHHHHH-HHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCH-HHHHHhhccCC---------cC-CCceEEEee
Q psy2977           1 MVDAADTDKLEASR-NELHALIEKPQLIGIPILVLGNKRDLPNALDE-KELIDRMNLCA---------IQ-DREICCYSI   68 (92)
Q Consensus         1 v~D~s~~~~~~~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~-~~~~~~~~~~~---------~~-~~~~~~~~~   68 (92)
                      +|++.++++|+++. .|+-++...  .++.|+++||+|.||.+.... +.+... +...         .+ -+...+++|
T Consensus        83 cfsv~~p~S~~nv~~kW~pEi~~~--cp~vpiiLVGtk~DLr~d~~~~~~l~~~-~~~~Vt~~~g~~lA~~iga~~y~Ec  159 (198)
T KOG0393|consen   83 CFSVVSPESFENVKSKWIPEIKHH--CPNVPIILVGTKADLRDDPSTLEKLQRQ-GLEPVTYEQGLELAKEIGAVKYLEC  159 (198)
T ss_pred             EEEcCChhhHHHHHhhhhHHHHhh--CCCCCEEEEeehHHhhhCHHHHHHHHhc-cCCcccHHHHHHHHHHhCcceeeee
Confidence            47888999999975 788888765  478999999999999742211 111110 0000         00 123579999


Q ss_pred             ccccCCCHHHHHHHHHHhhh
Q psy2977          69 SCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        69 SA~~~~gi~~~~~~l~~~i~   88 (92)
                      ||++..|+.++|+.......
T Consensus       160 Sa~tq~~v~~vF~~a~~~~l  179 (198)
T KOG0393|consen  160 SALTQKGVKEVFDEAIRAAL  179 (198)
T ss_pred             hhhhhCCcHHHHHHHHHHHh
Confidence            99999999999998877664

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.10  E-value=4.9e-10  Score=74.29  Aligned_cols=77  Identities=16%  Similarity=0.148  Sum_probs=48.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|+++..++..  ..+...+..   .++|+++|+||+|+.....  +..+...+    ..+ ..++|||++|.|++++|
T Consensus       124 VvD~~~~~s~~~--~~i~~~l~~---~~~piilV~NK~Dl~~~~~--~~~~~~~~----g~~-~~~~iSA~~g~gi~eL~  191 (472)
T PRK03003        124 VVDATVGATATD--EAVARVLRR---SGKPVILAANKVDDERGEA--DAAALWSL----GLG-EPHPVSALHGRGVGDLL  191 (472)
T ss_pred             EEECCCCCCHHH--HHHHHHHHH---cCCCEEEEEECccCCccch--hhHHHHhc----CCC-CeEEEEcCCCCCcHHHH
Confidence            578887654432  222233322   3689999999999864321  11121111    111 24799999999999999


Q ss_pred             HHHHHhhhh
Q psy2977          81 QWLIAHSKS   89 (92)
Q Consensus        81 ~~l~~~i~~   89 (92)
                      ++|.+.+.+
T Consensus       192 ~~i~~~l~~  200 (472)
T PRK03003        192 DAVLAALPE  200 (472)
T ss_pred             HHHHhhccc
Confidence            999988754

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.10  E-value=4.7e-10  Score=77.46  Aligned_cols=84  Identities=13%  Similarity=0.041  Sum_probs=54.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|+++..+.... .++..+..    .++|+++|+||+|+.+....+.+...+..........+++++||++|.|++++|
T Consensus       539 ViDat~~~s~~~~-~i~~~~~~----~~~piIiV~NK~DL~~~~~~~~~~~~~~~~l~~~~~~~ii~iSAktg~gv~~L~  613 (712)
T PRK09518        539 LFDASQPISEQDL-KVMSMAVD----AGRALVLVFNKWDLMDEFRRQRLERLWKTEFDRVTWARRVNLSAKTGWHTNRLA  613 (712)
T ss_pred             EEECCCCCCHHHH-HHHHHHHH----cCCCEEEEEEchhcCChhHHHHHHHHHHHhccCCCCCCEEEEECCCCCCHHHHH
Confidence            5788876665544 23444432    368999999999997533323333322211001123467899999999999999


Q ss_pred             HHHHHhhhh
Q psy2977          81 QWLIAHSKS   89 (92)
Q Consensus        81 ~~l~~~i~~   89 (92)
                      +.+.+...+
T Consensus       614 ~~i~~~~~~  622 (712)
T PRK09518        614 PAMQEALES  622 (712)
T ss_pred             HHHHHHHHH
Confidence            999888764

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.09  E-value=9.4e-10  Score=64.24  Aligned_cols=79  Identities=20%  Similarity=0.270  Sum_probs=61.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      ++|.+.+..+ ++...+.- +...  ..+|++|.+||+||+++.+.+.+.+.+....   ...++++++|..++|+.+.+
T Consensus        98 lVDss~~~~~-~a~~ii~f-~~~~--~~ip~vVa~NK~DL~~a~ppe~i~e~l~~~~---~~~~vi~~~a~e~~~~~~~L  170 (187)
T COG2229          98 LVDSSRPITF-HAEEIIDF-LTSR--NPIPVVVAINKQDLFDALPPEKIREALKLEL---LSVPVIEIDATEGEGARDQL  170 (187)
T ss_pred             EEecCCCcch-HHHHHHHH-Hhhc--cCCCEEEEeeccccCCCCCHHHHHHHHHhcc---CCCceeeeecccchhHHHHH
Confidence            4789988887 44343333 3331  2299999999999999999999999886442   35779999999999999999


Q ss_pred             HHHHHh
Q psy2977          81 QWLIAH   86 (92)
Q Consensus        81 ~~l~~~   86 (92)
                      +.|...
T Consensus       171 ~~ll~~  176 (187)
T COG2229         171 DVLLLK  176 (187)
T ss_pred             HHHHhh
Confidence            988765

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.08  E-value=5.7e-10  Score=73.12  Aligned_cols=84  Identities=15%  Similarity=0.073  Sum_probs=51.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|+++..+.... ..+..+..    .++|+++|+||+|+.+.....++.+.+..........+++++||++|.|+++++
T Consensus       262 ViD~~~~~~~~~~-~i~~~~~~----~~~~~ivv~NK~Dl~~~~~~~~~~~~~~~~l~~~~~~~i~~~SA~~~~gv~~l~  336 (435)
T PRK00093        262 VIDATEGITEQDL-RIAGLALE----AGRALVIVVNKWDLVDEKTMEEFKKELRRRLPFLDYAPIVFISALTGQGVDKLL  336 (435)
T ss_pred             EEeCCCCCCHHHH-HHHHHHHH----cCCcEEEEEECccCCCHHHHHHHHHHHHHhcccccCCCEEEEeCCCCCCHHHHH
Confidence            4677765444332 22333322    358999999999997432233333333211111124679999999999999999


Q ss_pred             HHHHHhhhh
Q psy2977          81 QWLIAHSKS   89 (92)
Q Consensus        81 ~~l~~~i~~   89 (92)
                      +++.+...+
T Consensus       337 ~~i~~~~~~  345 (435)
T PRK00093        337 EAIDEAYEN  345 (435)
T ss_pred             HHHHHHHHH
Confidence            998876543

>PRK12289 GTPase RsgA; Reviewed

Probab=99.08  E-value=3.7e-10  Score=72.44  Aligned_cols=77  Identities=19%  Similarity=0.140  Sum_probs=49.2

Q ss_pred             CeeCCchh-hHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTD-KLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~-~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|++++. .......++....    ..++|+++|+||+||..........+.+     ...++.++.+||++|.|++++
T Consensus        96 V~d~~~p~~~~~~LdR~L~~a~----~~~ip~ILVlNK~DLv~~~~~~~~~~~~-----~~~g~~v~~iSA~tg~GI~eL  166 (352)
T PRK12289         96 VFALAEPPLDPWQLSRFLVKAE----STGLEIVLCLNKADLVSPTEQQQWQDRL-----QQWGYQPLFISVETGIGLEAL  166 (352)
T ss_pred             EEECCCCCCCHHHHHHHHHHHH----HCCCCEEEEEEchhcCChHHHHHHHHHH-----HhcCCeEEEEEcCCCCCHHHH
Confidence            46777654 2223344554432    2468999999999996321112222222     123467899999999999999


Q ss_pred             HHHHHHh
Q psy2977          80 LQWLIAH   86 (92)
Q Consensus        80 ~~~l~~~   86 (92)
                      +++|...
T Consensus       167 ~~~L~~k  173 (352)
T PRK12289        167 LEQLRNK  173 (352)
T ss_pred             hhhhccc
Confidence            9998754

>KOG4252|consensus

Probab=99.05  E-value=2.5e-10  Score=66.78  Aligned_cols=82  Identities=21%  Similarity=0.228  Sum_probs=63.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      ||..+|+.+|+....|.+++...  ..++|.++|-||+|+.+.  +...++....     +.....++.+|++...||-+
T Consensus        99 VFSTTDr~SFea~~~w~~kv~~e--~~~IPtV~vqNKIDlveds~~~~~evE~la-----k~l~~RlyRtSvked~NV~~  171 (246)
T KOG4252|consen   99 VFSTTDRYSFEATLEWYNKVQKE--TERIPTVFVQNKIDLVEDSQMDKGEVEGLA-----KKLHKRLYRTSVKEDFNVMH  171 (246)
T ss_pred             EEecccHHHHHHHHHHHHHHHHH--hccCCeEEeeccchhhHhhhcchHHHHHHH-----HHhhhhhhhhhhhhhhhhHH
Confidence            56788999999999999998765  468999999999999753  3333333321     12345689999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|..|++.+.+
T Consensus       172 vF~YLaeK~~q  182 (246)
T KOG4252|consen  172 VFAYLAEKLTQ  182 (246)
T ss_pred             HHHHHHHHHHH
Confidence            99999987754

>PRK00089 era GTPase Era; Reviewed

Probab=99.05  E-value=9e-10  Score=68.90  Aligned_cols=81  Identities=20%  Similarity=0.221  Sum_probs=50.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC-CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA-LDEKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|+++.  +.....++.+.+..   .+.|+++|+||+|+... .......+.+..   ......++++||++|.|++++
T Consensus        91 vvd~~~~--~~~~~~~i~~~l~~---~~~pvilVlNKiDl~~~~~~l~~~~~~l~~---~~~~~~i~~iSA~~~~gv~~L  162 (292)
T PRK00089         91 VVDADEK--IGPGDEFILEKLKK---VKTPVILVLNKIDLVKDKEELLPLLEELSE---LMDFAEIVPISALKGDNVDEL  162 (292)
T ss_pred             EEeCCCC--CChhHHHHHHHHhh---cCCCEEEEEECCcCCCCHHHHHHHHHHHHh---hCCCCeEEEecCCCCCCHHHH
Confidence            4576652  22222334444332   35899999999999632 111222222211   112457999999999999999


Q ss_pred             HHHHHHhhhh
Q psy2977          80 LQWLIAHSKS   89 (92)
Q Consensus        80 ~~~l~~~i~~   89 (92)
                      +++|.+.+..
T Consensus       163 ~~~L~~~l~~  172 (292)
T PRK00089        163 LDVIAKYLPE  172 (292)
T ss_pred             HHHHHHhCCC
Confidence            9999988754

>PRK12288 GTPase RsgA; Reviewed

Probab=99.04  E-value=9.7e-10  Score=70.45  Aligned_cols=80  Identities=15%  Similarity=0.105  Sum_probs=51.2

Q ss_pred             eeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHH
Q psy2977           2 VDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQ   81 (92)
Q Consensus         2 ~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~   81 (92)
                      ++.+...++..+..|+....    ..++|.++|+||+||.+......+.+....  ....+++++++||++|+|++++++
T Consensus       128 ~s~~p~~s~~~Ldr~L~~a~----~~~i~~VIVlNK~DL~~~~~~~~~~~~~~~--y~~~g~~v~~vSA~tg~GideL~~  201 (347)
T PRK12288        128 SAVLPELSLNIIDRYLVACE----TLGIEPLIVLNKIDLLDDEGRAFVNEQLDI--YRNIGYRVLMVSSHTGEGLEELEA  201 (347)
T ss_pred             EeCCCCCCHHHHHHHHHHHH----hcCCCEEEEEECccCCCcHHHHHHHHHHHH--HHhCCCeEEEEeCCCCcCHHHHHH
Confidence            34444456666666765432    246899999999999643221222222111  112346899999999999999999


Q ss_pred             HHHHhh
Q psy2977          82 WLIAHS   87 (92)
Q Consensus        82 ~l~~~i   87 (92)
                      +|...+
T Consensus       202 ~L~~ki  207 (347)
T PRK12288        202 ALTGRI  207 (347)
T ss_pred             HHhhCC
Confidence            997643

>cd04163 Era Era subfamily

Probab=99.04  E-value=6.7e-10  Score=63.17  Aligned_cols=57  Identities=21%  Similarity=0.261  Sum_probs=39.8

Q ss_pred             CCcEEEEeeCCCCCC-CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhh
Q psy2977          28 GIPILVLGNKRDLPN-ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHS   87 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i   87 (92)
                      +.|+++|+||+|+.. .....+....+..   .....+++++||+++.|+++++++|.+.+
T Consensus       111 ~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~~s~~~~~~~~~l~~~l~~~~  168 (168)
T cd04163         111 KTPVILVLNKIDLVKDKEDLLPLLEKLKE---LGPFAEIFPISALKGENVDELLEEIVKYL  168 (168)
T ss_pred             CCCEEEEEEchhccccHHHHHHHHHHHHh---ccCCCceEEEEeccCCChHHHHHHHHhhC
Confidence            579999999999973 2222233332221   12235789999999999999999998753

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.

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.03  E-value=2.3e-09  Score=72.85  Aligned_cols=78  Identities=28%  Similarity=0.270  Sum_probs=51.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCH---HHHHHhhccCCcCCCceEEEeeccccCCCHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDE---KELIDRMNLCAIQDREICCYSISCKERDNID   77 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~---~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~   77 (92)
                      |+|+++.........|... ..    .++|+++|+||+|++.....   +++.+.++.     ....++++||++|.||+
T Consensus       100 VvDat~g~~~qt~~~~~~~-~~----~~ipiIiViNKiDl~~~~~~~~~~el~~~lg~-----~~~~vi~vSAktG~GI~  169 (595)
T TIGR01393       100 LVDAAQGIEAQTLANVYLA-LE----NDLEIIPVINKIDLPSADPERVKKEIEEVIGL-----DASEAILASAKTGIGIE  169 (595)
T ss_pred             EecCCCCCCHhHHHHHHHH-HH----cCCCEEEEEECcCCCccCHHHHHHHHHHHhCC-----CcceEEEeeccCCCCHH
Confidence            5788875444443343332 22    25799999999999753221   233333221     12358999999999999


Q ss_pred             HHHHHHHHhhh
Q psy2977          78 ITLQWLIAHSK   88 (92)
Q Consensus        78 ~~~~~l~~~i~   88 (92)
                      ++|++|.+.+.
T Consensus       170 ~Lle~I~~~lp  180 (595)
T TIGR01393       170 EILEAIVKRVP  180 (595)
T ss_pred             HHHHHHHHhCC
Confidence            99999998775

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.

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.02  E-value=4.4e-10  Score=76.23  Aligned_cols=76  Identities=17%  Similarity=0.171  Sum_probs=47.3

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|+++.+   ....+..++.+    .++|+++|+||+|+.+......-.+.+.    ...+.+++++||++|+|+++++
T Consensus        79 VvDat~le---r~l~l~~ql~~----~~~PiIIVlNK~Dl~~~~~i~~d~~~L~----~~lg~pvv~tSA~tg~Gi~eL~  147 (591)
T TIGR00437        79 VVDASNLE---RNLYLTLQLLE----LGIPMILALNLVDEAEKKGIRIDEEKLE----ERLGVPVVPTSATEGRGIERLK  147 (591)
T ss_pred             EecCCcch---hhHHHHHHHHh----cCCCEEEEEehhHHHHhCCChhhHHHHH----HHcCCCEEEEECCCCCCHHHHH
Confidence            35666533   22333444432    3689999999999864222111111111    1124579999999999999999


Q ss_pred             HHHHHhh
Q psy2977          81 QWLIAHS   87 (92)
Q Consensus        81 ~~l~~~i   87 (92)
                      +++.+..
T Consensus       148 ~~i~~~~  154 (591)
T TIGR00437       148 DAIRKAI  154 (591)
T ss_pred             HHHHHHh
Confidence            9998753

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.

>cd01854 YjeQ_engC YjeQ/EngC

Probab=99.01  E-value=1.2e-09  Score=68.48  Aligned_cols=76  Identities=18%  Similarity=0.159  Sum_probs=50.5

Q ss_pred             CeeCCchh-hHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTD-KLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~-~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|+.++. ++.....|+..+..    .++|+++|+||+||.+.  .+...... .  ....+.+++.+||++|.|++++
T Consensus        85 V~d~~~p~~s~~~ldr~L~~~~~----~~ip~iIVlNK~DL~~~--~~~~~~~~-~--~~~~g~~v~~vSA~~g~gi~~L  155 (287)
T cd01854          85 VVSLNEPFFNPRLLDRYLVAAEA----AGIEPVIVLTKADLLDD--EEEELELV-E--ALALGYPVLAVSAKTGEGLDEL  155 (287)
T ss_pred             EEEcCCCCCCHHHHHHHHHHHHH----cCCCEEEEEEHHHCCCh--HHHHHHHH-H--HHhCCCeEEEEECCCCccHHHH
Confidence            46777776 66666666665532    36899999999999643  11111110 0  0123467899999999999999


Q ss_pred             HHHHHH
Q psy2977          80 LQWLIA   85 (92)
Q Consensus        80 ~~~l~~   85 (92)
                      +.+|..
T Consensus       156 ~~~L~~  161 (287)
T cd01854         156 REYLKG  161 (287)
T ss_pred             Hhhhcc
Confidence            988864

YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.

>cd01855 YqeH YqeH

Probab=99.00  E-value=8.7e-10  Score=65.10  Aligned_cols=62  Identities=16%  Similarity=0.141  Sum_probs=40.2

Q ss_pred             CCCcEEEEeeCCCCCCCC-CHHHHHHhh---ccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          27 IGIPILVLGNKRDLPNAL-DEKELIDRM---NLCAIQDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~-~~~~~~~~~---~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      .++|+++|+||+|+.... ....+....   ...........++.+||++|.|+++++++|.+.+.
T Consensus        60 ~~~~~ilV~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~vSA~~~~gi~eL~~~l~~~l~  125 (190)
T cd01855          60 GNNPVILVGNKIDLLPKDKNLVRIKNWLRAKAAAGLGLKPKDVILISAKKGWGVEELINAIKKLAK  125 (190)
T ss_pred             CCCcEEEEEEchhcCCCCCCHHHHHHHHHHHHHhhcCCCcccEEEEECCCCCCHHHHHHHHHHHhh
Confidence            468999999999986432 222222211   00000011135899999999999999999998764

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.

>PRK00098 GTPase RsgA; Reviewed

Probab=98.99  E-value=7.3e-10  Score=69.73  Aligned_cols=77  Identities=21%  Similarity=0.151  Sum_probs=48.8

Q ss_pred             CeeCCchhhHHHH-HHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEAS-RNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~-~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|++++...... ..|+..+..    .++|+++|+||+||.+.  .+........  ....+++++++||++|.|++++
T Consensus        87 V~d~~~p~~~~~~idr~L~~~~~----~~ip~iIVlNK~DL~~~--~~~~~~~~~~--~~~~g~~v~~vSA~~g~gi~~L  158 (298)
T PRK00098         87 VFAAKEPDFSTDLLDRFLVLAEA----NGIKPIIVLNKIDLLDD--LEEARELLAL--YRAIGYDVLELSAKEGEGLDEL  158 (298)
T ss_pred             EEECCCCCCCHHHHHHHHHHHHH----CCCCEEEEEEhHHcCCC--HHHHHHHHHH--HHHCCCeEEEEeCCCCccHHHH
Confidence            4688776544333 355554432    36899999999999532  2222111111  1123467999999999999999


Q ss_pred             HHHHHH
Q psy2977          80 LQWLIA   85 (92)
Q Consensus        80 ~~~l~~   85 (92)
                      ++++..
T Consensus       159 ~~~l~g  164 (298)
T PRK00098        159 KPLLAG  164 (298)
T ss_pred             HhhccC
Confidence            998754

>cd01859 MJ1464 MJ1464

Probab=98.99  E-value=8.9e-10  Score=63.15  Aligned_cols=56  Identities=23%  Similarity=0.156  Sum_probs=38.8

Q ss_pred             CCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          28 GIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      ++|+++|+||+|+.+...........     ...+.+++.+||++|.|++++++.|.+.+.
T Consensus        41 ~~p~iiv~NK~Dl~~~~~~~~~~~~~-----~~~~~~~~~iSa~~~~gi~~L~~~l~~~~~   96 (156)
T cd01859          41 GKKLLIVLNKADLVPKEVLEKWKSIK-----ESEGIPVVYVSAKERLGTKILRRTIKELAK   96 (156)
T ss_pred             CCcEEEEEEhHHhCCHHHHHHHHHHH-----HhCCCcEEEEEccccccHHHHHHHHHHHHh
Confidence            58999999999985321111111111     112346899999999999999999988764

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.

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=98.98  E-value=1.5e-09  Score=63.90  Aligned_cols=61  Identities=16%  Similarity=0.182  Sum_probs=41.8

Q ss_pred             CCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          28 GIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      ++|+++++||+|+......+.....+... +......++++||++|.|+++++++|.+.+++
T Consensus       135 ~~~~iiv~nK~Dl~~~~~~~~~~~~i~~~-l~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~~~  195 (196)
T PRK00454        135 GIPVLIVLTKADKLKKGERKKQLKKVRKA-LKFGDDEVILFSSLKKQGIDELRAAIAKWLAE  195 (196)
T ss_pred             CCcEEEEEECcccCCHHHHHHHHHHHHHH-HHhcCCceEEEEcCCCCCHHHHHHHHHHHhcC
Confidence            68999999999986432222222211100 11114678999999999999999999988764

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

Probab=98.97  E-value=7.4e-10  Score=63.78  Aligned_cols=68  Identities=28%  Similarity=0.404  Sum_probs=45.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC----CCHHHHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA----LDEKELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~----~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      |+|+++.   +.......++++.    ++|+++++||+|+...    .+.+.+.+.+        +++++++||++|+|+
T Consensus        85 VvDa~~l---~r~l~l~~ql~e~----g~P~vvvlN~~D~a~~~g~~id~~~Ls~~L--------g~pvi~~sa~~~~g~  149 (156)
T PF02421_consen   85 VVDATNL---ERNLYLTLQLLEL----GIPVVVVLNKMDEAERKGIEIDAEKLSERL--------GVPVIPVSARTGEGI  149 (156)
T ss_dssp             EEEGGGH---HHHHHHHHHHHHT----TSSEEEEEETHHHHHHTTEEE-HHHHHHHH--------TS-EEEEBTTTTBTH
T ss_pred             ECCCCCH---HHHHHHHHHHHHc----CCCEEEEEeCHHHHHHcCCEECHHHHHHHh--------CCCEEEEEeCCCcCH
Confidence            4677653   3333334445432    6899999999997532    2345555554        357999999999999


Q ss_pred             HHHHHHH
Q psy2977          77 DITLQWL   83 (92)
Q Consensus        77 ~~~~~~l   83 (92)
                      +++++.+
T Consensus       150 ~~L~~~I  156 (156)
T PF02421_consen  150 DELKDAI  156 (156)
T ss_dssp             HHHHHHH
T ss_pred             HHHHhhC
Confidence            9998865

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 ....

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

Probab=98.97  E-value=2e-09  Score=63.65  Aligned_cols=83  Identities=25%  Similarity=0.237  Sum_probs=45.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCH---HHHHHhhc-cC-CcCCCceEEEeeccccCCC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDE---KELIDRMN-LC-AIQDREICCYSISCKERDN   75 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~---~~~~~~~~-~~-~~~~~~~~~~~~SA~~~~g   75 (92)
                      |+|+++. .+.....++.....    .++|+++|+||+|+......   +++.+.+. +. .....+++++++||++|.|
T Consensus        95 V~d~~~~-~~~~~~~~~~~~~~----~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~~Sa~~g~~  169 (194)
T cd01891          95 LVDASEG-PMPQTRFVLKKALE----LGLKPIVVINKIDRPDARPEEVVDEVFDLFIELGATEEQLDFPVLYASAKNGWA  169 (194)
T ss_pred             EEECCCC-ccHHHHHHHHHHHH----cCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHhCCccccCccCEEEeehhcccc
Confidence            5687763 22233333444332    36899999999999653221   22233221 00 0112356899999999988


Q ss_pred             HHHH------HHHHHHhhh
Q psy2977          76 IDIT------LQWLIAHSK   88 (92)
Q Consensus        76 i~~~------~~~l~~~i~   88 (92)
                      +.++      +.+|.+.+.
T Consensus       170 ~~~~~~~~~~~~~l~~~~~  188 (194)
T cd01891         170 SLNLEDPSEDLEPLFDTII  188 (194)
T ss_pred             ccccccchhhHHHHHHHHH
Confidence            7444      445554443

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

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=98.96  E-value=4e-09  Score=69.54  Aligned_cols=73  Identities=16%  Similarity=0.179  Sum_probs=50.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++.+++..  |+..+..    .++|+++|+||+|+... +.+.+..        ..+.+++.+||++ .||+++|
T Consensus       289 V~D~s~~~s~~~~--~l~~~~~----~~~piIlV~NK~Dl~~~-~~~~~~~--------~~~~~~~~vSak~-~gI~~~~  352 (442)
T TIGR00450       289 VLDASQPLTKDDF--LIIDLNK----SKKPFILVLNKIDLKIN-SLEFFVS--------SKVLNSSNLSAKQ-LKIKALV  352 (442)
T ss_pred             EEECCCCCChhHH--HHHHHhh----CCCCEEEEEECccCCCc-chhhhhh--------hcCCceEEEEEec-CCHHHHH
Confidence            5788887776553  5555432    36899999999999643 2222111        1234578999998 6999999


Q ss_pred             HHHHHhhhh
Q psy2977          81 QWLIAHSKS   89 (92)
Q Consensus        81 ~~l~~~i~~   89 (92)
                      +.|.+.+.+
T Consensus       353 ~~L~~~i~~  361 (442)
T TIGR00450       353 DLLTQKINA  361 (442)
T ss_pred             HHHHHHHHH
Confidence            999887754

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.

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

Probab=98.95  E-value=3.3e-09  Score=62.56  Aligned_cols=61  Identities=28%  Similarity=0.359  Sum_probs=40.4

Q ss_pred             CCCcEEEEeeCCCCCCCCCH----HHHHHhh-ccCCcCC-CceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          27 IGIPILVLGNKRDLPNALDE----KELIDRM-NLCAIQD-REICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~~----~~~~~~~-~~~~~~~-~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      .++|+++|+||+|+... ..    +++...+ ....... ..++++++||++|.|++++++.|.+.+.
T Consensus       121 ~~~p~ivvlNK~D~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~vi~~Sa~~g~gi~~Ll~~l~~~~P  187 (188)
T PF00009_consen  121 LGIPIIVVLNKMDLIEK-ELEEIIEEIKEKLLKEYGENGEEIVPVIPISALTGDGIDELLEALVELLP  187 (188)
T ss_dssp             TT-SEEEEEETCTSSHH-HHHHHHHHHHHHHHHHTTSTTTSTEEEEEEBTTTTBTHHHHHHHHHHHS-
T ss_pred             cccceEEeeeeccchhh-hHHHHHHHHHHHhccccccCccccceEEEEecCCCCCHHHHHHHHHHhCc
Confidence            36889999999999721 11    1222222 1111111 2578999999999999999999998764

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 ....

>KOG0096|consensus

Probab=98.95  E-value=5e-10  Score=65.78  Aligned_cols=82  Identities=21%  Similarity=0.289  Sum_probs=61.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      ++|++..-.+.++..|-+.+...  ..++|+++++||.|.......   .+.  ..-....+++++++||+++.|.+..|
T Consensus        89 mFdVtsr~t~~n~~rwhrd~~rv--~~NiPiv~cGNKvDi~~r~~k---~k~--v~~~rkknl~y~~iSaksn~NfekPF  161 (216)
T KOG0096|consen   89 MFDVTSRFTYKNVPRWHRDLVRV--RENIPIVLCGNKVDIKARKVK---AKP--VSFHRKKNLQYYEISAKSNYNFERPF  161 (216)
T ss_pred             EeeeeehhhhhcchHHHHHHHHH--hcCCCeeeeccceeccccccc---ccc--ceeeecccceeEEeecccccccccch
Confidence            37888877888888898888765  357999999999997532211   111  11123567889999999999999999


Q ss_pred             HHHHHhhhh
Q psy2977          81 QWLIAHSKS   89 (92)
Q Consensus        81 ~~l~~~i~~   89 (92)
                      .||++.+..
T Consensus       162 l~LarKl~G  170 (216)
T KOG0096|consen  162 LWLARKLTG  170 (216)
T ss_pred             HHHhhhhcC
Confidence            999998754

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

Probab=98.95  E-value=3.8e-09  Score=63.14  Aligned_cols=85  Identities=24%  Similarity=0.295  Sum_probs=57.6

Q ss_pred             CeeCCch-hhHHHHHHHHHHhhcCCC--CCCCcEEEEeeCCCCCCCCCHHHHHHhhc-------------cCC-------
Q psy2977           1 MVDAADT-DKLEASRNELHALIEKPQ--LIGIPILVLGNKRDLPNALDEKELIDRMN-------------LCA-------   57 (92)
Q Consensus         1 v~D~s~~-~~~~~~~~~~~~~~~~~~--~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~-------------~~~-------   57 (92)
                      |+|+++. .++..+..++..++....  ...+|+++++||+|+..+.+.+.+.+.++             +..       
T Consensus        79 VvD~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~a~~~~~i~~~le~ei~~~~~~r~~~l~~~~~~~~~  158 (203)
T cd04105          79 VVDSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFTAKPAKKIKEQLEKELNTLRESRSKSLSSLDGDEGS  158 (203)
T ss_pred             EEECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhcccCCHHHHHHHHHHHHHHHHHHHhcccccccccccc
Confidence            5788887 677777788777664322  14799999999999976555433332221             000       


Q ss_pred             ---------------cCCCceEEEeeccccCC-CHHHHHHHHHH
Q psy2977          58 ---------------IQDREICCYSISCKERD-NIDITLQWLIA   85 (92)
Q Consensus        58 ---------------~~~~~~~~~~~SA~~~~-gi~~~~~~l~~   85 (92)
                                     ....+..++++|++.+. |++.+-+||.+
T Consensus       159 ~~~~~~~~~~~f~f~~~~~~v~~~~~s~~~~~~~~~~~~~w~~~  202 (203)
T cd04105         159 KESLGDKGGKSFEFDQLEGKVEFLEGSVKVDGGGIDGWEEWIDE  202 (203)
T ss_pred             ccccccccCcceeeccCceeEEEEEeEEecCCCChHhHHHHHhh
Confidence                           00124678999998876 69999999875

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

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.94  E-value=2.5e-09  Score=61.39  Aligned_cols=77  Identities=19%  Similarity=0.255  Sum_probs=47.8

Q ss_pred             CeeCCchhhHHHHHHHHH-HhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhh-ccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELH-ALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRM-NLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~-~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~-~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.....  .++. ..+..   .++|+++|+||+|+.+   .+++.... ...  ......++.+||++|.|+++
T Consensus         6 VvD~~~p~~~~~--~~i~~~~~~~---~~~p~IiVlNK~Dl~~---~~~~~~~~~~~~--~~~~~~ii~vSa~~~~gi~~   75 (155)
T cd01849           6 VLDARDPLGTRS--PDIERVLIKE---KGKKLILVLNKADLVP---KEVLRKWLAYLR--HSYPTIPFKISATNGQGIEK   75 (155)
T ss_pred             EEeccCCccccC--HHHHHHHHhc---CCCCEEEEEechhcCC---HHHHHHHHHHHH--hhCCceEEEEeccCCcChhh
Confidence            568877644332  2343 23222   4689999999999953   22222211 011  11235689999999999999


Q ss_pred             HHHHHHHhh
Q psy2977          79 TLQWLIAHS   87 (92)
Q Consensus        79 ~~~~l~~~i   87 (92)
                      +.+.+.+.+
T Consensus        76 L~~~i~~~~   84 (155)
T cd01849          76 KESAFTKQT   84 (155)
T ss_pred             HHHHHHHHh
Confidence            999987653

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.

>PRK05433 GTP-binding protein LepA; Provisional

Probab=98.93  E-value=1.1e-08  Score=69.59  Aligned_cols=78  Identities=24%  Similarity=0.254  Sum_probs=50.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCH---HHHHHhhccCCcCCCceEEEeeccccCCCHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDE---KELIDRMNLCAIQDREICCYSISCKERDNID   77 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~---~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~   77 (92)
                      |+|+++.........|.. ...    .++|+++|+||+|++.....   +++.+.++.     ....++++||++|.|++
T Consensus       104 VVDas~gv~~qt~~~~~~-~~~----~~lpiIvViNKiDl~~a~~~~v~~ei~~~lg~-----~~~~vi~iSAktG~GI~  173 (600)
T PRK05433        104 VVDASQGVEAQTLANVYL-ALE----NDLEIIPVLNKIDLPAADPERVKQEIEDVIGI-----DASDAVLVSAKTGIGIE  173 (600)
T ss_pred             EEECCCCCCHHHHHHHHH-HHH----CCCCEEEEEECCCCCcccHHHHHHHHHHHhCC-----CcceEEEEecCCCCCHH
Confidence            578876533333323322 221    35799999999999754221   233332221     12358999999999999


Q ss_pred             HHHHHHHHhhh
Q psy2977          78 ITLQWLIAHSK   88 (92)
Q Consensus        78 ~~~~~l~~~i~   88 (92)
                      +++++|.+.+.
T Consensus       174 ~Ll~~I~~~lp  184 (600)
T PRK05433        174 EVLEAIVERIP  184 (600)
T ss_pred             HHHHHHHHhCc
Confidence            99999998775

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=98.92  E-value=2.6e-09  Score=67.77  Aligned_cols=86  Identities=24%  Similarity=0.288  Sum_probs=52.7

Q ss_pred             CeeCCchh---hHHHHHHHHHHhhc-CCCCCCCcEEEEeeCCCCCCCC-CHHHHHHhhccCCcCCCceEEEe-eccccCC
Q psy2977           1 MVDAADTD---KLEASRNELHALIE-KPQLIGIPILVLGNKRDLPNAL-DEKELIDRMNLCAIQDREICCYS-ISCKERD   74 (92)
Q Consensus         1 v~D~s~~~---~~~~~~~~~~~~~~-~~~~~~~p~ilv~NK~Dl~~~~-~~~~~~~~~~~~~~~~~~~~~~~-~SA~~~~   74 (92)
                      |+|++..+   ..+++.....++-. .+.+.++|.+||+||+|++... ..+.+.+.+.    ....+..+. +||.+++
T Consensus       244 viD~s~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~~~~e~~~~~~~~l~----~~~~~~~~~~ISa~t~~  319 (369)
T COG0536         244 VIDLSPIDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLPLDEEELEELKKALA----EALGWEVFYLISALTRE  319 (369)
T ss_pred             EEecCcccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCCcCHHHHHHHHHHHH----HhcCCCcceeeehhccc
Confidence            46777433   24444333333333 2456789999999999976432 2233334332    112232222 9999999


Q ss_pred             CHHHHHHHHHHhhhhc
Q psy2977          75 NIDITLQWLIAHSKSH   90 (92)
Q Consensus        75 gi~~~~~~l~~~i~~~   90 (92)
                      |+++++..+.+.+.+.
T Consensus       320 g~~~L~~~~~~~l~~~  335 (369)
T COG0536         320 GLDELLRALAELLEET  335 (369)
T ss_pred             CHHHHHHHHHHHHHHh
Confidence            9999999999888654

>cd01858 NGP_1 NGP-1

Probab=98.90  E-value=6.3e-09  Score=59.77  Aligned_cols=80  Identities=15%  Similarity=0.121  Sum_probs=47.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++..-  ....+.+.+... ..++|+++|+||+|+.+..........+.    ......++.+||++|.|+++++
T Consensus        15 VvD~~~p~~~--~~~~i~~~l~~~-~~~~p~ilVlNKiDl~~~~~~~~~~~~~~----~~~~~~~~~iSa~~~~~~~~L~   87 (157)
T cd01858          15 VLDARDPMGT--RCKHVEEYLKKE-KPHKHLIFVLNKCDLVPTWVTARWVKILS----KEYPTIAFHASINNPFGKGSLI   87 (157)
T ss_pred             EEECCCCccc--cCHHHHHHHHhc-cCCCCEEEEEEchhcCCHHHHHHHHHHHh----cCCcEEEEEeeccccccHHHHH
Confidence            4677765221  112344444321 23589999999999953211112222221    1123346889999999999999


Q ss_pred             HHHHHhh
Q psy2977          81 QWLIAHS   87 (92)
Q Consensus        81 ~~l~~~i   87 (92)
                      +++.+.+
T Consensus        88 ~~l~~~~   94 (157)
T cd01858          88 QLLRQFS   94 (157)
T ss_pred             HHHHHHH
Confidence            9997764

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.

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

Probab=98.85  E-value=8.1e-09  Score=68.47  Aligned_cols=59  Identities=24%  Similarity=0.360  Sum_probs=42.3

Q ss_pred             CCCcEEEEeeCCCCCCCCCHHHHHHhhccCCc----CCCceEEEeeccccCCCHHHHHHHHHHh
Q psy2977          27 IGIPILVLGNKRDLPNALDEKELIDRMNLCAI----QDREICCYSISCKERDNIDITLQWLIAH   86 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~----~~~~~~~~~~SA~~~~gi~~~~~~l~~~   86 (92)
                      .+.|++++.||+|+++..+ +.+...+....+    ..+...++++||++|+|+++++..+.-.
T Consensus       106 a~vP~iVAiNKiDk~~~np-~~v~~el~~~gl~~E~~gg~v~~VpvSA~tg~Gi~eLL~~ill~  168 (509)
T COG0532         106 AGVPIVVAINKIDKPEANP-DKVKQELQEYGLVPEEWGGDVIFVPVSAKTGEGIDELLELILLL  168 (509)
T ss_pred             CCCCEEEEEecccCCCCCH-HHHHHHHHHcCCCHhhcCCceEEEEeeccCCCCHHHHHHHHHHH
Confidence            5799999999999996533 333333322211    2345789999999999999999877644

>CHL00189 infB translation initiation factor 2; Provisional

Probab=98.85  E-value=1.8e-08  Score=69.89  Aligned_cols=60  Identities=23%  Similarity=0.303  Sum_probs=42.1

Q ss_pred             CCCcEEEEeeCCCCCCCCCHHHHHHhhccCCc----CCCceEEEeeccccCCCHHHHHHHHHHhh
Q psy2977          27 IGIPILVLGNKRDLPNALDEKELIDRMNLCAI----QDREICCYSISCKERDNIDITLQWLIAHS   87 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~----~~~~~~~~~~SA~~~~gi~~~~~~l~~~i   87 (92)
                      .++|+++++||+|++.. +.+++...+.....    ....++++++||++|.|+++++++|....
T Consensus       346 ~~iPiIVViNKiDl~~~-~~e~v~~eL~~~~ll~e~~g~~vpvv~VSAktG~GIdeLle~I~~l~  409 (742)
T CHL00189        346 ANVPIIVAINKIDKANA-NTERIKQQLAKYNLIPEKWGGDTPMIPISASQGTNIDKLLETILLLA  409 (742)
T ss_pred             cCceEEEEEECCCcccc-CHHHHHHHHHHhccchHhhCCCceEEEEECCCCCCHHHHHHhhhhhh
Confidence            46899999999999753 33444433321110    12246899999999999999999997653

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=98.83  E-value=1.4e-08  Score=70.30  Aligned_cols=56  Identities=20%  Similarity=0.110  Sum_probs=39.3

Q ss_pred             CCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          27 IGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      .++|+++|+||+|+....  ....+...+    . ....+++||++|.||+++|++|.+.+..
T Consensus       382 ~~~pvIlV~NK~D~~~~~--~~~~~~~~l----g-~~~~~~iSA~~g~GI~eLl~~i~~~l~~  437 (712)
T PRK09518        382 AGKPVVLAVNKIDDQASE--YDAAEFWKL----G-LGEPYPISAMHGRGVGDLLDEALDSLKV  437 (712)
T ss_pred             cCCCEEEEEECcccccch--hhHHHHHHc----C-CCCeEEEECCCCCCchHHHHHHHHhccc
Confidence            468999999999986421  122222111    1 1135789999999999999999988754

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=98.83  E-value=1.7e-08  Score=57.48  Aligned_cols=60  Identities=17%  Similarity=0.089  Sum_probs=39.1

Q ss_pred             CCcEEEEeeCCCCCCCCCHHHHHHhhccCCc-CCCceEEEeeccccCCCHHHHHHHHHHhh
Q psy2977          28 GIPILVLGNKRDLPNALDEKELIDRMNLCAI-QDREICCYSISCKERDNIDITLQWLIAHS   87 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~~~SA~~~~gi~~~~~~l~~~i   87 (92)
                      +.|+++++||+|+.................. .....+++++||+++.|+.+++++|.+.+
T Consensus       110 ~~~vi~v~nK~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Sa~~~~~~~~l~~~l~~~~  170 (170)
T cd01876         110 GIPFLVVLTKADKLKKSELAKALKEIKKELKLFEIDPPIILFSSLKGQGIDELRALIEKWL  170 (170)
T ss_pred             CCCEEEEEEchhcCChHHHHHHHHHHHHHHHhccCCCceEEEecCCCCCHHHHHHHHHHhC
Confidence            4799999999998532222212111110000 12345789999999999999999998763

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.

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

Probab=98.83  E-value=2e-08  Score=65.72  Aligned_cols=58  Identities=16%  Similarity=0.138  Sum_probs=39.9

Q ss_pred             CcEEEEeeCCCCCCCCCH----HHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          29 IPILVLGNKRDLPNALDE----KELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~~~----~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      .|+++|+||+|+.+....    +++...+...  .....+++++||++|.|+++++++|.+.+.
T Consensus       140 ~~iiVVlNK~Dl~~~~~~~~~~~~i~~~l~~~--~~~~~~ii~vSA~~g~gI~~L~~~L~~~l~  201 (411)
T PRK04000        140 KNIVIVQNKIDLVSKERALENYEQIKEFVKGT--VAENAPIIPVSALHKVNIDALIEAIEEEIP  201 (411)
T ss_pred             CcEEEEEEeeccccchhHHHHHHHHHHHhccc--cCCCCeEEEEECCCCcCHHHHHHHHHHhCC
Confidence            478999999999643221    1222222110  112467999999999999999999998765

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=98.83  E-value=1.7e-08  Score=68.62  Aligned_cols=58  Identities=22%  Similarity=0.328  Sum_probs=40.6

Q ss_pred             CCCcEEEEeeCCCCCCCCCHHHHHHhhccCCc----CCCceEEEeeccccCCCHHHHHHHHHH
Q psy2977          27 IGIPILVLGNKRDLPNALDEKELIDRMNLCAI----QDREICCYSISCKERDNIDITLQWLIA   85 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~----~~~~~~~~~~SA~~~~gi~~~~~~l~~   85 (92)
                      .++|+++++||+|+++. +.+++...+.....    .....+++++||++|+|++++|++|..
T Consensus       186 ~~vPiIVviNKiDl~~~-~~e~v~~~L~~~g~~~~~~~~~~~~v~iSAktGeGI~eLl~~I~~  247 (587)
T TIGR00487       186 ANVPIIVAINKIDKPEA-NPDRVKQELSEYGLVPEDWGGDTIFVPVSALTGDGIDELLDMILL  247 (587)
T ss_pred             cCCCEEEEEECcccccC-CHHHHHHHHHHhhhhHHhcCCCceEEEEECCCCCChHHHHHhhhh
Confidence            46899999999999753 33444443321110    112357999999999999999999865

This model discriminates eubacterial (and mitochondrial) translation initiation factor 2 (IF-2), encoded by the infB gene in bacteria, from similar proteins in the Archaea and Eukaryotes. In the bacteria and in organelles, the initiator tRNA is charged with N-formyl-Met instead of Met. This translation factor acts in delivering the initator tRNA to the ribosome. It is one of a number of GTP-binding translation factors recognized by the pfam model GTP_EFTU.

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=98.83  E-value=1.6e-08  Score=66.09  Aligned_cols=58  Identities=19%  Similarity=0.156  Sum_probs=39.6

Q ss_pred             CcEEEEeeCCCCCCCCCH----HHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          29 IPILVLGNKRDLPNALDE----KELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~~~----~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      .|+++++||+|+.+....    +++.+.+..  .....++++++||++|.|+++++++|...+.
T Consensus       135 ~~iIVvvNK~Dl~~~~~~~~~~~~i~~~l~~--~~~~~~~ii~vSA~~g~gi~~L~e~L~~~l~  196 (406)
T TIGR03680       135 KNIVIVQNKIDLVSKEKALENYEEIKEFVKG--TVAENAPIIPVSALHNANIDALLEAIEKFIP  196 (406)
T ss_pred             CeEEEEEEccccCCHHHHHHHHHHHHhhhhh--cccCCCeEEEEECCCCCChHHHHHHHHHhCC
Confidence            578999999999743211    222222110  0112467999999999999999999998654

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

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=98.81  E-value=6.6e-09  Score=62.24  Aligned_cols=57  Identities=21%  Similarity=0.193  Sum_probs=40.6

Q ss_pred             CCcEEEEeeCCCCCCCCC--HHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhh
Q psy2977          28 GIPILVLGNKRDLPNALD--EKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHS   87 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i   87 (92)
                      ..|.++++||+|+.+...  ..++.+.+..   .....+++++||++|.|++++|+|+.++.
T Consensus       148 ~~a~iiv~NK~Dl~~~~~~~~~~~~~~l~~---~~~~~~i~~~Sa~~g~gv~~l~~~i~~~~  206 (207)
T TIGR00073       148 KEADLIVINKADLAEAVGFDVEKMKADAKK---INPEAEIILMSLKTGEGLDEWLEFLEGQV  206 (207)
T ss_pred             hhCCEEEEEHHHccccchhhHHHHHHHHHH---hCCCCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            467899999999975322  2333333221   12346799999999999999999998764

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

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=98.81  E-value=9.1e-09  Score=71.72  Aligned_cols=59  Identities=24%  Similarity=0.370  Sum_probs=40.9

Q ss_pred             CCCcEEEEeeCCCCCCCCCHHHHHHhhccCCc----CCCceEEEeeccccCCCHHHHHHHHHHh
Q psy2977          27 IGIPILVLGNKRDLPNALDEKELIDRMNLCAI----QDREICCYSISCKERDNIDITLQWLIAH   86 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~----~~~~~~~~~~SA~~~~gi~~~~~~l~~~   86 (92)
                      .++|+++++||+|+++. +.+.+...+.....    ....++++++||++|.||+++|++|...
T Consensus       388 ~~vPiIVviNKiDl~~a-~~e~V~~eL~~~~~~~e~~g~~vp~vpvSAktG~GI~eLle~I~~~  450 (787)
T PRK05306        388 AGVPIIVAINKIDKPGA-NPDRVKQELSEYGLVPEEWGGDTIFVPVSAKTGEGIDELLEAILLQ  450 (787)
T ss_pred             cCCcEEEEEECcccccc-CHHHHHHHHHHhcccHHHhCCCceEEEEeCCCCCCchHHHHhhhhh
Confidence            46899999999999753 33333332211111    1224689999999999999999998753

>TIGR00101 ureG urease accessory protein UreG

Probab=98.81  E-value=1e-08  Score=61.22  Aligned_cols=54  Identities=19%  Similarity=0.192  Sum_probs=39.0

Q ss_pred             EEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          32 LVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        32 ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      ++++||+|+.+.  ...+.+.+.+...   +...+++++||++|+|++++|+|+.+...
T Consensus       141 ~~~~~k~d~~~~~~~~~~~~~~~~~~~---~~~~~i~~~Sa~~g~gi~el~~~i~~~~~  196 (199)
T TIGR00101       141 LLVINKIDLAPMVGADLGVMERDAKKM---RGEKPFIFTNLKTKEGLDTVIDWIEHYAL  196 (199)
T ss_pred             EEEEEhhhccccccccHHHHHHHHHHh---CCCCCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            899999999753  2233333333211   23467999999999999999999998764

This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=98.81  E-value=1e-08  Score=69.63  Aligned_cols=61  Identities=23%  Similarity=0.168  Sum_probs=40.8

Q ss_pred             CCc-EEEEeeCCCCCCCCCHH----HHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          28 GIP-ILVLGNKRDLPNALDEK----ELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        28 ~~p-~ilv~NK~Dl~~~~~~~----~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      ++| +++|+||+|+.+....+    ++.+.+..... ..+.+++++||++|+|+++++.+|.+.+..
T Consensus       102 gi~~iIVVlNK~Dlv~~~~~~~~~~ei~~~l~~~~~-~~~~~ii~vSA~tG~GI~eL~~~L~~l~~~  167 (581)
T TIGR00475       102 GIPHTIVVITKADRVNEEEIKRTEMFMKQILNSYIF-LKNAKIFKTSAKTGQGIGELKKELKNLLES  167 (581)
T ss_pred             CCCeEEEEEECCCCCCHHHHHHHHHHHHHHHHHhCC-CCCCcEEEEeCCCCCCchhHHHHHHHHHHh
Confidence            467 99999999997532211    22222211100 114689999999999999999999877653

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.

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

Probab=98.81  E-value=1.1e-08  Score=61.70  Aligned_cols=51  Identities=18%  Similarity=0.119  Sum_probs=32.4

Q ss_pred             CCcEEEEeeCCCCCCC-CC---HHHHHHh----hccCCcCCCceEEEeeccccCCCHHH
Q psy2977          28 GIPILVLGNKRDLPNA-LD---EKELIDR----MNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~-~~---~~~~~~~----~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      ..|+++++||+|++.+ .+   .+++.+.    +........+++++++||++|.||++
T Consensus       137 ~~~iiivvNK~Dl~~~~~~~~~~~~i~~~l~~~l~~~~~~~~~~~ii~iSA~tg~gi~~  195 (219)
T cd01883         137 VKQLIVAVNKMDDVTVNWSEERYDEIKKELSPFLKKVGYNPKDVPFIPISGLTGDNLIE  195 (219)
T ss_pred             CCeEEEEEEccccccccccHHHHHHHHHHHHHHHHHcCCCcCCceEEEeecCcCCCCCc
Confidence            3689999999999742 12   1222222    22111122357899999999999874

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

>PRK13768 GTPase; Provisional

Probab=98.80  E-value=8.4e-09  Score=63.63  Aligned_cols=63  Identities=14%  Similarity=0.173  Sum_probs=43.4

Q ss_pred             CCCcEEEEeeCCCCCCCCCHHHHHHhhcc--------CC---------------c--CCCceEEEeeccccCCCHHHHHH
Q psy2977          27 IGIPILVLGNKRDLPNALDEKELIDRMNL--------CA---------------I--QDREICCYSISCKERDNIDITLQ   81 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~--------~~---------------~--~~~~~~~~~~SA~~~~gi~~~~~   81 (92)
                      .++|+++|+||+|+......+.....+..        ..               +  .....+++++||++++|++++.+
T Consensus       161 ~~~~~i~v~nK~D~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~~~vi~iSa~~~~gl~~L~~  240 (253)
T PRK13768        161 LGLPQIPVLNKADLLSEEELERILKWLEDPEYLLEELKLEKGLQGLLSLELLRALEETGLPVRVIPVSAKTGEGFDELYA  240 (253)
T ss_pred             cCCCEEEEEEhHhhcCchhHHHHHHHHhCHHHHHHHHhcccchHHHHHHHHHHHHHHHCCCCcEEEEECCCCcCHHHHHH
Confidence            36899999999999754333333332221        00               0  01235789999999999999999


Q ss_pred             HHHHhhhh
Q psy2977          82 WLIAHSKS   89 (92)
Q Consensus        82 ~l~~~i~~   89 (92)
                      +|.+.+..
T Consensus       241 ~I~~~l~~  248 (253)
T PRK13768        241 AIQEVFCG  248 (253)
T ss_pred             HHHHHcCC
Confidence            99988743

>KOG0090|consensus

Probab=98.79  E-value=6.7e-08  Score=57.99  Aligned_cols=86  Identities=20%  Similarity=0.253  Sum_probs=58.0

Q ss_pred             CeeCC-chhhHHHHHHHHHHhhcCCC--CCCCcEEEEeeCCCCCCCCCHHHHHHhhccC---------------------
Q psy2977           1 MVDAA-DTDKLEASRNELHALIEKPQ--LIGIPILVLGNKRDLPNALDEKELIDRMNLC---------------------   56 (92)
Q Consensus         1 v~D~s-~~~~~~~~~~~~~~~~~~~~--~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~---------------------   56 (92)
                      |+|+. .+.....+.+.+..++....  ...+|++|++||+|+..+.+.+-|++.++..                     
T Consensus       115 VVDSa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~tAkt~~~Ir~~LEkEi~~lr~sRsa~~~~~~ed~~~  194 (238)
T KOG0090|consen  115 VVDSATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLFTAKTAEKIRQQLEKEIHKLRESRSALRSISDEDIAK  194 (238)
T ss_pred             EEeccccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhhhcCcHHHHHHHHHHHHHHHHHHHhhhhccccccccc
Confidence            45655 34455666677777776542  2458999999999997766655554443210                     


Q ss_pred             --------------CcCCCceEEEeeccccCCCHHHHHHHHHHhh
Q psy2977          57 --------------AIQDREICCYSISCKERDNIDITLQWLIAHS   87 (92)
Q Consensus        57 --------------~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i   87 (92)
                                    .+......|.++|+++| +++++-+|+.+.+
T Consensus       195 ~~tlg~~g~dF~fs~l~~~~V~F~e~S~~~~-~i~~~~~wi~~~l  238 (238)
T KOG0090|consen  195 DFTLGKEGEDFKFSHLEDQKVTFAEASAKTG-EIDQWESWIREAL  238 (238)
T ss_pred             cccccccccccchhhcccceeEEeecccCcC-ChHHHHHHHHHhC
Confidence                          01123467889999999 9999999998753

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.78  E-value=5.4e-09  Score=67.37  Aligned_cols=58  Identities=24%  Similarity=0.331  Sum_probs=38.4

Q ss_pred             CCcEEEEeeCCCCCCC-CCHHHHHHhhccCCcCCCc---eEEEeeccccCCCHHHHHHHHHHh
Q psy2977          28 GIPILVLGNKRDLPNA-LDEKELIDRMNLCAIQDRE---ICCYSISCKERDNIDITLQWLIAH   86 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~-~~~~~~~~~~~~~~~~~~~---~~~~~~SA~~~~gi~~~~~~l~~~   86 (92)
                      +.|+++|+||+|+.+. ...+.+.+.+... ....+   ..++.+||++|.|++++++.|.+.
T Consensus        90 ~~piilV~NK~DLl~k~~~~~~~~~~l~~~-~k~~g~~~~~i~~vSAk~g~gv~eL~~~l~~~  151 (360)
T TIGR03597        90 GNPVLLVGNKIDLLPKSVNLSKIKEWMKKR-AKELGLKPVDIILVSAKKGNGIDELLDKIKKA  151 (360)
T ss_pred             CCCEEEEEEchhhCCCCCCHHHHHHHHHHH-HHHcCCCcCcEEEecCCCCCCHHHHHHHHHHH
Confidence            5799999999998532 2333333221100 01112   248999999999999999999764

This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli.

>KOG3883|consensus

Probab=98.77  E-value=2.6e-08  Score=57.09  Aligned_cols=84  Identities=13%  Similarity=0.247  Sum_probs=57.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCH-HHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDE-KELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      ||+..|++||+.+.-.-.++-...+-.++|+++++||+|+.++... .++....+    ..-....++++|.....+-+.
T Consensus        91 VYs~~d~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~~p~~vd~d~A~~Wa----~rEkvkl~eVta~dR~sL~ep  166 (198)
T KOG3883|consen   91 VYSPMDPESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRAEPREVDMDVAQIWA----KREKVKLWEVTAMDRPSLYEP  166 (198)
T ss_pred             EecCCCHHHHHHHHHHHHHHhhccccccccEEEEechhhcccchhcCHHHHHHHH----hhhheeEEEEEeccchhhhhH
Confidence            5788899999876432233333444568999999999999643221 12222221    233577899999999999999


Q ss_pred             HHHHHHhhh
Q psy2977          80 LQWLIAHSK   88 (92)
Q Consensus        80 ~~~l~~~i~   88 (92)
                      |..|...+.
T Consensus       167 f~~l~~rl~  175 (198)
T KOG3883|consen  167 FTYLASRLH  175 (198)
T ss_pred             HHHHHHhcc
Confidence            999988764

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

Probab=98.76  E-value=8.1e-08  Score=63.56  Aligned_cols=56  Identities=27%  Similarity=0.271  Sum_probs=42.3

Q ss_pred             CCcEEEEeeCCCCCCCCCH---HHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          28 GIPILVLGNKRDLPNALDE---KELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~---~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      +.-++-|+||+|||.+.+.   .++.+.+++..     -..+.+|||||.||+++++.+.+.+.
T Consensus       128 ~LeIiPViNKIDLP~Adpervk~eIe~~iGid~-----~dav~~SAKtG~gI~~iLe~Iv~~iP  186 (603)
T COG0481         128 NLEIIPVLNKIDLPAADPERVKQEIEDIIGIDA-----SDAVLVSAKTGIGIEDVLEAIVEKIP  186 (603)
T ss_pred             CcEEEEeeecccCCCCCHHHHHHHHHHHhCCCc-----chheeEecccCCCHHHHHHHHHhhCC
Confidence            4567888999999976432   34555555432     24789999999999999999998874

>cd04165 GTPBP1_like GTPBP1-like

Probab=98.75  E-value=5e-08  Score=59.27  Aligned_cols=58  Identities=22%  Similarity=0.321  Sum_probs=37.9

Q ss_pred             CCcEEEEeeCCCCCCCCCH----HHHHHhhccCCc---------------------CCCceEEEeeccccCCCHHHHHHH
Q psy2977          28 GIPILVLGNKRDLPNALDE----KELIDRMNLCAI---------------------QDREICCYSISCKERDNIDITLQW   82 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~----~~~~~~~~~~~~---------------------~~~~~~~~~~SA~~~~gi~~~~~~   82 (92)
                      ++|+++|+||+|+......    .++.+.+.....                     .....++|.+||.+|+|++++...
T Consensus       138 ~ip~ivvvNK~D~~~~~~~~~~~~~l~~~L~~~g~~~~p~~~~~~~~~~~~~~~~~~~~~~pi~~vSavtg~Gi~~L~~~  217 (224)
T cd04165         138 NIPVFVVVTKIDLAPANILQETLKDLKRILKVPGVRKLPVPVKSDDDVVLAASNFSSERIVPIFQVSNVTGEGLDLLHAF  217 (224)
T ss_pred             CCCEEEEEECccccCHHHHHHHHHHHHHHhcCCCccccceeeecccceeehhhcCCccccCcEEEeeCCCccCHHHHHHH
Confidence            5799999999998543222    223333321100                     112347999999999999999887


Q ss_pred             HHH
Q psy2977          83 LIA   85 (92)
Q Consensus        83 l~~   85 (92)
                      |..
T Consensus       218 L~~  220 (224)
T cd04165         218 LNL  220 (224)
T ss_pred             HHh
Confidence            754

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

>KOG4423|consensus

Probab=98.74  E-value=1.6e-08  Score=59.52  Aligned_cols=85  Identities=18%  Similarity=0.130  Sum_probs=61.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCC---CCCCCcEEEEeeCCCCCCCCCH---HHHHHhhccCCcCCCceEEEeeccccCC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKP---QLIGIPILVLGNKRDLPNALDE---KELIDRMNLCAIQDREICCYSISCKERD   74 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~---~~~~~p~ilv~NK~Dl~~~~~~---~~~~~~~~~~~~~~~~~~~~~~SA~~~~   74 (92)
                      |||+|++..|+.+..|.+++.+..   ....+|+++++||+|.......   ..+.....    .+.....+++|||.+.
T Consensus       105 Vfdvt~s~tfe~~skwkqdldsk~qLpng~Pv~~vllankCd~e~~a~~~~~~~~d~f~k----engf~gwtets~Kenk  180 (229)
T KOG4423|consen  105 VFDVTRSLTFEPVSKWKQDLDSKLQLPNGTPVPCVLLANKCDQEKSAKNEATRQFDNFKK----ENGFEGWTETSAKENK  180 (229)
T ss_pred             EEEccccccccHHHHHHHhccCcccCCCCCcchheeccchhccChHhhhhhHHHHHHHHh----ccCccceeeecccccc
Confidence            689999999999999999876643   3345899999999998532111   12222211    1223458999999999


Q ss_pred             CHHHHHHHHHHhhhh
Q psy2977          75 NIDITLQWLIAHSKS   89 (92)
Q Consensus        75 gi~~~~~~l~~~i~~   89 (92)
                      +++|+.+.|++++.-
T Consensus       181 ni~Ea~r~lVe~~lv  195 (229)
T KOG4423|consen  181 NIPEAQRELVEKILV  195 (229)
T ss_pred             ChhHHHHHHHHHHHh
Confidence            999999999998753

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=98.74  E-value=4.6e-08  Score=58.60  Aligned_cols=42  Identities=21%  Similarity=0.201  Sum_probs=34.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCC------------------CCCCCcEEEEeeCCCCCC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKP------------------QLIGIPILVLGNKRDLPN   42 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~------------------~~~~~p~ilv~NK~Dl~~   42 (92)
                      |+|++++++|+++..|+.++....                  ...++|++||+||.|+.+
T Consensus        84 VyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~  143 (202)
T cd04102          84 VHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIP  143 (202)
T ss_pred             EEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchh
Confidence            689999999999999999887531                  123689999999999964

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

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

Probab=98.73  E-value=8.5e-08  Score=57.41  Aligned_cols=88  Identities=19%  Similarity=0.249  Sum_probs=55.2

Q ss_pred             CeeCCchhhHHHH-HHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHH-HHHHhh----------ccCCcC-CCceEEEe
Q psy2977           1 MVDAADTDKLEAS-RNELHALIEKPQLIGIPILVLGNKRDLPNALDEK-ELIDRM----------NLCAIQ-DREICCYS   67 (92)
Q Consensus         1 v~D~s~~~~~~~~-~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~-~~~~~~----------~~~~~~-~~~~~~~~   67 (92)
                      |+|.++..++.+. ..|...+..... ...|+++|+||+|+....... .+...+          ...... .....+++
T Consensus        84 ~~d~~~~~~~~~~~~~~~~~l~~~~~-~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (219)
T COG1100          84 VYDSTLRESSDELTEEWLEELRELAP-DDVPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLE  162 (219)
T ss_pred             EEecccchhhhHHHHHHHHHHHHhCC-CCceEEEEecccccccchhHHHHHHhhhhcCcchhhhHhHHhhhhhcccceeE
Confidence            4677875555554 466666654422 469999999999997643211 111110          000000 11234899


Q ss_pred             eccc--cCCCHHHHHHHHHHhhhh
Q psy2977          68 ISCK--ERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        68 ~SA~--~~~gi~~~~~~l~~~i~~   89 (92)
                      +||+  ++.||.++|..+...+..
T Consensus       163 ~s~~~~~~~~v~~~~~~~~~~~~~  186 (219)
T COG1100         163 TSAKSLTGPNVNELFKELLRKLLE  186 (219)
T ss_pred             eecccCCCcCHHHHHHHHHHHHHH
Confidence            9999  999999999999888753

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

Probab=98.73  E-value=1.2e-08  Score=66.91  Aligned_cols=51  Identities=22%  Similarity=0.123  Sum_probs=32.2

Q ss_pred             CCcEEEEeeCCCCCCCCC------HHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977          28 GIPILVLGNKRDLPNALD------EKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~------~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      ..|+++++||+|+.+...      ..++.+.+.........++++++||++|.|+++
T Consensus       141 ~~~iIVviNK~Dl~~~~~~~~~~~~~ei~~~~~~~g~~~~~~~~i~iSA~~g~ni~~  197 (426)
T TIGR00483       141 INQLIVAINKMDSVNYDEEEFEAIKKEVSNLIKKVGYNPDTVPFIPISAWNGDNVIK  197 (426)
T ss_pred             CCeEEEEEEChhccCccHHHHHHHHHHHHHHHHHcCCCcccceEEEeeccccccccc
Confidence            357999999999964211      122222222111122347899999999999986

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.

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

Probab=98.72  E-value=1.1e-08  Score=59.83  Aligned_cols=47  Identities=21%  Similarity=0.319  Sum_probs=31.8

Q ss_pred             CCcEEEEeeCCCCCCCCC----HHHHHHhhccCCcCCCceEEEeeccccCCCHH
Q psy2977          28 GIPILVLGNKRDLPNALD----EKELIDRMNLCAIQDREICCYSISCKERDNID   77 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~----~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~   77 (92)
                      ++|+++++||+|+.....    .+++.+.+..   ....+.++++||++|+|++
T Consensus       129 ~~pviiv~nK~D~~~~~~~~~~~~~i~~~l~~---~~~~~~v~~~Sa~~g~gi~  179 (179)
T TIGR03598       129 GIPVLIVLTKADKLKKSELNKQLKKIKKALKK---DADDPSVQLFSSLKKTGID  179 (179)
T ss_pred             CCCEEEEEECcccCCHHHHHHHHHHHHHHHhh---ccCCCceEEEECCCCCCCC
Confidence            689999999999964322    2233333321   1224579999999999984

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.

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

Probab=98.72  E-value=4.8e-08  Score=59.61  Aligned_cols=52  Identities=27%  Similarity=0.161  Sum_probs=39.0

Q ss_pred             CCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          27 IGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      .-+|+++|+||+|+.   +.++.... .      ....++++||++|.|++++|+.+.+.+.
T Consensus       175 ~y~p~iiV~NK~Dl~---~~~~~~~~-~------~~~~~~~~SA~~g~gi~~l~~~i~~~L~  226 (233)
T cd01896         175 VYIPCLYVYNKIDLI---SIEELDLL-A------RQPNSVVISAEKGLNLDELKERIWDKLG  226 (233)
T ss_pred             eEeeEEEEEECccCC---CHHHHHHH-h------cCCCEEEEcCCCCCCHHHHHHHHHHHhC
Confidence            347999999999986   33343321 1      1234889999999999999999998763

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.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=98.69  E-value=9.3e-08  Score=62.65  Aligned_cols=55  Identities=18%  Similarity=0.101  Sum_probs=39.2

Q ss_pred             CCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          28 GIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      ++|+++|+||+|+.....  ...+...+     ...+++++||++|.|++++++++.+.+.+
T Consensus       107 ~~piilVvNK~D~~~~~~--~~~~~~~l-----g~~~~~~vSa~~g~gv~~ll~~i~~~l~~  161 (429)
T TIGR03594       107 GKPVILVANKIDGKKEDA--VAAEFYSL-----GFGEPIPISAEHGRGIGDLLDAILELLPE  161 (429)
T ss_pred             CCCEEEEEECccCCcccc--cHHHHHhc-----CCCCeEEEeCCcCCChHHHHHHHHHhcCc
Confidence            589999999999864321  11111111     11258999999999999999999988743

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

>PRK00093 GTP-binding protein Der; Reviewed

Probab=98.67  E-value=1.8e-07  Score=61.54  Aligned_cols=53  Identities=23%  Similarity=0.258  Sum_probs=37.0

Q ss_pred             CCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhh
Q psy2977          28 GIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHS   87 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i   87 (92)
                      ++|+++|+||+|+...  .....+...+     ....++++||++|.|++++++++....
T Consensus       109 ~~piilv~NK~D~~~~--~~~~~~~~~l-----g~~~~~~iSa~~g~gv~~l~~~I~~~~  161 (435)
T PRK00093        109 NKPVILVVNKVDGPDE--EADAYEFYSL-----GLGEPYPISAEHGRGIGDLLDAILEEL  161 (435)
T ss_pred             CCcEEEEEECccCccc--hhhHHHHHhc-----CCCCCEEEEeeCCCCHHHHHHHHHhhC
Confidence            6899999999997541  1222222111     111378999999999999999998743

>PRK13796 GTPase YqeH; Provisional

Probab=98.67  E-value=3.8e-08  Score=63.60  Aligned_cols=59  Identities=20%  Similarity=0.277  Sum_probs=38.6

Q ss_pred             CCcEEEEeeCCCCCCC-CCHHHHHHhhccCCcCCCc---eEEEeeccccCCCHHHHHHHHHHhh
Q psy2977          28 GIPILVLGNKRDLPNA-LDEKELIDRMNLCAIQDRE---ICCYSISCKERDNIDITLQWLIAHS   87 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~-~~~~~~~~~~~~~~~~~~~---~~~~~~SA~~~~gi~~~~~~l~~~i   87 (92)
                      +.|+++|+||+||.+. ...+.+...+... ....+   ..++.+||++|.|++++++.|.+..
T Consensus        96 ~kpviLViNK~DLl~~~~~~~~i~~~l~~~-~k~~g~~~~~v~~vSAk~g~gI~eL~~~I~~~~  158 (365)
T PRK13796         96 NNPVLLVGNKADLLPKSVKKNKVKNWLRQE-AKELGLRPVDVVLISAQKGHGIDELLEAIEKYR  158 (365)
T ss_pred             CCCEEEEEEchhhCCCccCHHHHHHHHHHH-HHhcCCCcCcEEEEECCCCCCHHHHHHHHHHhc
Confidence            5799999999999642 2223332221100 01111   2589999999999999999997754

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

Probab=98.66  E-value=9.4e-08  Score=65.07  Aligned_cols=25  Identities=20%  Similarity=0.173  Sum_probs=22.2

Q ss_pred             ceEEEeeccccCCCHHHHHHHHHHh
Q psy2977          62 EICCYSISCKERDNIDITLQWLIAH   86 (92)
Q Consensus        62 ~~~~~~~SA~~~~gi~~~~~~l~~~   86 (92)
                      ..+++++||+||+|+++++.+|...
T Consensus       190 ~v~iVpVSA~tGeGideLl~~l~~l  214 (590)
T TIGR00491       190 TVAIIPISAITGEGIPELLTMLAGL  214 (590)
T ss_pred             CceEEEeecCCCCChhHHHHHHHHH
Confidence            4689999999999999999998653

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.

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=98.66  E-value=7.1e-08  Score=67.38  Aligned_cols=76  Identities=20%  Similarity=0.226  Sum_probs=48.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|+++.++   ...+..++.+    .++|+++++||+|+.+......-.+.+.    ...+.+++++||++|+|++++.
T Consensus        92 VvDat~ler---~l~l~~ql~e----~giPvIvVlNK~Dl~~~~~i~id~~~L~----~~LG~pVvpiSA~~g~GIdeL~  160 (772)
T PRK09554         92 VVDASNLER---NLYLTLQLLE----LGIPCIVALNMLDIAEKQNIRIDIDALS----ARLGCPVIPLVSTRGRGIEALK  160 (772)
T ss_pred             EecCCcchh---hHHHHHHHHH----cCCCEEEEEEchhhhhccCcHHHHHHHH----HHhCCCEEEEEeecCCCHHHHH
Confidence            467776543   2234444433    2589999999999864322211111111    1124578999999999999999


Q ss_pred             HHHHHhh
Q psy2977          81 QWLIAHS   87 (92)
Q Consensus        81 ~~l~~~i   87 (92)
                      +.+.+..
T Consensus       161 ~~I~~~~  167 (772)
T PRK09554        161 LAIDRHQ  167 (772)
T ss_pred             HHHHHhh
Confidence            9988764

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

Probab=98.66  E-value=8.7e-08  Score=54.45  Aligned_cols=53  Identities=15%  Similarity=0.238  Sum_probs=39.0

Q ss_pred             CCcEEEEeeCCCCC-CCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHH
Q psy2977          28 GIPILVLGNKRDLP-NALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLI   84 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~   84 (92)
                      ++|++=|.||+|++ +..+.+...+.+.....    -.+|.+||.+|+||+++.++|.
T Consensus        89 ~~pvIGVITK~Dl~~~~~~i~~a~~~L~~aG~----~~if~vS~~~~eGi~eL~~~L~  142 (143)
T PF10662_consen   89 NKPVIGVITKIDLPSDDANIERAKKWLKNAGV----KEIFEVSAVTGEGIEELKDYLE  142 (143)
T ss_pred             CCCEEEEEECccCccchhhHHHHHHHHHHcCC----CCeEEEECCCCcCHHHHHHHHh
Confidence            58999999999998 33344444455432221    2479999999999999999985

Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process

>KOG0462|consensus

Probab=98.66  E-value=2.1e-07  Score=62.40  Aligned_cols=56  Identities=27%  Similarity=0.363  Sum_probs=42.1

Q ss_pred             CCcEEEEeeCCCCCCCCCHH---HHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          28 GIPILVLGNKRDLPNALDEK---ELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~---~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      +..+|.|+||+|+|.+...+   ++.+.+++     ..-+++.+||++|.|++++++.+.+.+.
T Consensus       177 ~L~iIpVlNKIDlp~adpe~V~~q~~~lF~~-----~~~~~i~vSAK~G~~v~~lL~AII~rVP  235 (650)
T KOG0462|consen  177 GLAIIPVLNKIDLPSADPERVENQLFELFDI-----PPAEVIYVSAKTGLNVEELLEAIIRRVP  235 (650)
T ss_pred             CCeEEEeeeccCCCCCCHHHHHHHHHHHhcC-----CccceEEEEeccCccHHHHHHHHHhhCC
Confidence            56789999999999764433   23333332     2346899999999999999999999874

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=98.63  E-value=5.5e-08  Score=63.87  Aligned_cols=51  Identities=22%  Similarity=0.217  Sum_probs=32.1

Q ss_pred             CcEEEEeeCCCCCCCCC------HHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977          29 IPILVLGNKRDLPNALD------EKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~~------~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      .|+++++||+|+.+...      .+++.+.+.........++++++||++|.|+++.
T Consensus       140 ~~iivviNK~Dl~~~~~~~~~~~~~~i~~~l~~~g~~~~~~~ii~iSA~~g~gi~~~  196 (425)
T PRK12317        140 NQLIVAINKMDAVNYDEKRYEEVKEEVSKLLKMVGYKPDDIPFIPVSAFEGDNVVKK  196 (425)
T ss_pred             CeEEEEEEccccccccHHHHHHHHHHHHHHHHhhCCCcCcceEEEeecccCCCcccc
Confidence            46899999999974211      1233333221111122467999999999999873

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=98.62  E-value=1.6e-07  Score=64.06  Aligned_cols=83  Identities=22%  Similarity=0.276  Sum_probs=52.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCH---HHHHHhhccCCc--CCCceEEEeeccccCC-
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDE---KELIDRMNLCAI--QDREICCYSISCKERD-   74 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~---~~~~~~~~~~~~--~~~~~~~~~~SA~~~~-   74 (92)
                      |+|+++. .......++..+..    .++|+++++||+|++++...   .++.+.+.....  ....++++.+||++|. 
T Consensus        94 VVDa~~G-~~~qT~~~l~~a~~----~~ip~IVviNKiD~~~a~~~~v~~ei~~l~~~~g~~~e~l~~pvl~~SA~~g~~  168 (594)
T TIGR01394        94 LVDASEG-PMPQTRFVLKKALE----LGLKPIVVINKIDRPSARPDEVVDEVFDLFAELGADDEQLDFPIVYASGRAGWA  168 (594)
T ss_pred             EEeCCCC-CcHHHHHHHHHHHH----CCCCEEEEEECCCCCCcCHHHHHHHHHHHHHhhccccccccCcEEechhhcCcc
Confidence            4677642 33344556666543    35799999999999754321   233333311101  1224679999999995 


Q ss_pred             ---------CHHHHHHHHHHhhh
Q psy2977          75 ---------NIDITLQWLIAHSK   88 (92)
Q Consensus        75 ---------gi~~~~~~l~~~i~   88 (92)
                               |++.+|+.+.+.+.
T Consensus       169 ~~~~~~~~~gi~~Lld~Iv~~lP  191 (594)
T TIGR01394       169 SLDLDDPSDNMAPLFDAIVRHVP  191 (594)
T ss_pred             cccCcccccCHHHHHHHHHHhCC
Confidence                     89999999998875

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.

>KOG1145|consensus

Probab=98.60  E-value=1.7e-07  Score=62.95  Aligned_cols=61  Identities=21%  Similarity=0.257  Sum_probs=43.5

Q ss_pred             CCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCc----CCCceEEEeeccccCCCHHHHHHHHHHh
Q psy2977          25 QLIGIPILVLGNKRDLPNALDEKELIDRMNLCAI----QDREICCYSISCKERDNIDITLQWLIAH   86 (92)
Q Consensus        25 ~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~----~~~~~~~~~~SA~~~~gi~~~~~~l~~~   86 (92)
                      ...+.|+++.+||+|.|++. .+.+...+-...+    .....+++++||++|+|++.+-+.+.-+
T Consensus       250 k~A~VpiVvAinKiDkp~a~-pekv~~eL~~~gi~~E~~GGdVQvipiSAl~g~nl~~L~eaill~  314 (683)
T KOG1145|consen  250 KSANVPIVVAINKIDKPGAN-PEKVKRELLSQGIVVEDLGGDVQVIPISALTGENLDLLEEAILLL  314 (683)
T ss_pred             HhcCCCEEEEEeccCCCCCC-HHHHHHHHHHcCccHHHcCCceeEEEeecccCCChHHHHHHHHHH
Confidence            34679999999999998764 4444333322211    2456899999999999999988876543

>PRK14845 translation initiation factor IF-2; Provisional

Probab=98.59  E-value=4.9e-07  Score=64.82  Aligned_cols=26  Identities=19%  Similarity=0.236  Sum_probs=22.4

Q ss_pred             CceEEEeeccccCCCHHHHHHHHHHh
Q psy2977          61 REICCYSISCKERDNIDITLQWLIAH   86 (92)
Q Consensus        61 ~~~~~~~~SA~~~~gi~~~~~~l~~~   86 (92)
                      ...+++++||+||+||++++.+|...
T Consensus       646 ~~v~iVpVSA~tGeGId~Ll~~l~~l  671 (1049)
T PRK14845        646 RTVAIVPVSAKTGEGIPELLMMVAGL  671 (1049)
T ss_pred             CCceEEEEEcCCCCCHHHHHHHHHHh
Confidence            35689999999999999999988644

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.58  E-value=1.4e-07  Score=58.90  Aligned_cols=56  Identities=20%  Similarity=0.264  Sum_probs=38.7

Q ss_pred             CCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          28 GIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      ++|+++|+||+|+.+........+.+.     ..+..++.+||+++.|++++.+.+.+.+.
T Consensus        48 ~kp~IiVlNK~DL~~~~~~~~~~~~~~-----~~~~~vi~iSa~~~~gi~~L~~~i~~~~~  103 (276)
T TIGR03596        48 NKPRLIVLNKADLADPAVTKQWLKYFE-----EKGIKALAINAKKGKGVKKIIKAAKKLLK  103 (276)
T ss_pred             CCCEEEEEEccccCCHHHHHHHHHHHH-----HcCCeEEEEECCCcccHHHHHHHHHHHHH
Confidence            579999999999953211122222221     11246899999999999999998887764

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.

>TIGR00750 lao LAO/AO transport system ATPase

Probab=98.57  E-value=1.4e-07  Score=59.50  Aligned_cols=62  Identities=19%  Similarity=0.069  Sum_probs=40.5

Q ss_pred             CCCcEEEEeeCCCCCCCCCHHHHHHhh--ccCCc----CCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          27 IGIPILVLGNKRDLPNALDEKELIDRM--NLCAI----QDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~~~~~~~~~--~~~~~----~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      .++|.++++||+|+.+..........+  .+..+    .....+++++||++|+|+++++++|.+.+.
T Consensus       171 ~~~~~ivv~NK~Dl~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~~~  238 (300)
T TIGR00750       171 MEIADIYVVNKADGEGATNVTIARLMLALALEEIRRREDGWRPPVLTTSAVEGRGIDELWDAIEEHKT  238 (300)
T ss_pred             hhhccEEEEEcccccchhHHHHHHHHHHHHHhhccccccCCCCCEEEEEccCCCCHHHHHHHHHHHHH
Confidence            457889999999997543322211111  11111    112235899999999999999999988753

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>COG1160 Predicted GTPases [General function prediction only]

Probab=98.57  E-value=5.5e-07  Score=59.13  Aligned_cols=63  Identities=16%  Similarity=0.048  Sum_probs=43.3

Q ss_pred             CCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          27 IGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      .+.+++||.||.|+.+.  ...++..+.+......-...+++.+||++|.|+.++|+++......
T Consensus       288 ~g~~~vIvvNKWDl~~~~~~~~~~~k~~i~~~l~~l~~a~i~~iSA~~~~~i~~l~~~i~~~~~~  352 (444)
T COG1160         288 AGRGIVIVVNKWDLVEEDEATMEEFKKKLRRKLPFLDFAPIVFISALTGQGLDKLFEAIKEIYEC  352 (444)
T ss_pred             cCCCeEEEEEccccCCchhhHHHHHHHHHHHHhccccCCeEEEEEecCCCChHHHHHHHHHHHHH
Confidence            36899999999998654  3334444443321101123578999999999999999998876543

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=98.56  E-value=3e-07  Score=61.06  Aligned_cols=58  Identities=22%  Similarity=0.279  Sum_probs=39.6

Q ss_pred             CcEEEEeeCCCCCCCCCH----HHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          29 IPILVLGNKRDLPNALDE----KELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~~~----~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      .|+++|+||+|+.+....    +++.+.+..  ......+++++||++|.|++.+++.|.+.+.
T Consensus       172 ~~iIVvlNKiDlv~~~~~~~~~~ei~~~l~~--~~~~~~~iipVSA~~G~nI~~Ll~~L~~~lp  233 (460)
T PTZ00327        172 KHIIILQNKIDLVKEAQAQDQYEEIRNFVKG--TIADNAPIIPISAQLKYNIDVVLEYICTQIP  233 (460)
T ss_pred             CcEEEEEecccccCHHHHHHHHHHHHHHHHh--hccCCCeEEEeeCCCCCCHHHHHHHHHhhCC
Confidence            468999999999742221    222222210  0123568999999999999999999987654

>PRK09866 hypothetical protein; Provisional

Probab=98.56  E-value=5e-07  Score=62.00  Aligned_cols=58  Identities=16%  Similarity=0.052  Sum_probs=39.4

Q ss_pred             CcEEEEeeCCCCCCCCC--HHHHHHhhc--cCCcCCCceEEEeeccccCCCHHHHHHHHHHh
Q psy2977          29 IPILVLGNKRDLPNALD--EKELIDRMN--LCAIQDREICCYSISCKERDNIDITLQWLIAH   86 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~~--~~~~~~~~~--~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~   86 (92)
                      .|+++|+||+|+.+...  .+.+.....  +.........+|++||++|.|++++++.|...
T Consensus       290 ~PVILVVNKIDl~dreeddkE~Lle~V~~~L~q~~i~f~eIfPVSAlkG~nid~LLdeI~~~  351 (741)
T PRK09866        290 VPLYVLVNKFDQQDRNSDDADQVRALISGTLMKGCITPQQIFPVSSMWGYLANRARHELANN  351 (741)
T ss_pred             CCEEEEEEcccCCCcccchHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHhC
Confidence            59999999999863221  344444322  11111123469999999999999999998873

>cd01856 YlqF YlqF

Probab=98.55  E-value=1.9e-07  Score=54.37  Aligned_cols=55  Identities=15%  Similarity=0.166  Sum_probs=37.9

Q ss_pred             CCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhh
Q psy2977          28 GIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHS   87 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i   87 (92)
                      ++|.++|+||+|+.+........+.+.     .....++.+||+++.|++++...+...+
T Consensus        46 ~k~~ilVlNK~Dl~~~~~~~~~~~~~~-----~~~~~vi~iSa~~~~gi~~L~~~l~~~l  100 (171)
T cd01856          46 NKPRIIVLNKADLADPKKTKKWLKYFE-----SKGEKVLFVNAKSGKGVKKLLKAAKKLL  100 (171)
T ss_pred             CCCEEEEEehhhcCChHHHHHHHHHHH-----hcCCeEEEEECCCcccHHHHHHHHHHHH
Confidence            579999999999963211111112211     1124588999999999999999998875

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.

>COG1159 Era GTPase [General function prediction only]

Probab=98.54  E-value=2.5e-07  Score=57.94  Aligned_cols=60  Identities=20%  Similarity=0.113  Sum_probs=42.8

Q ss_pred             CCCcEEEEeeCCCCCCCCC-HHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          27 IGIPILVLGNKRDLPNALD-EKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      ...|+++++||+|...... ...+.+.+..   ......++++||++|.|++.+.+.+...+.+
T Consensus       113 ~~~pvil~iNKID~~~~~~~l~~~~~~~~~---~~~f~~ivpiSA~~g~n~~~L~~~i~~~Lpe  173 (298)
T COG1159         113 TKTPVILVVNKIDKVKPKTVLLKLIAFLKK---LLPFKEIVPISALKGDNVDTLLEIIKEYLPE  173 (298)
T ss_pred             cCCCeEEEEEccccCCcHHHHHHHHHHHHh---hCCcceEEEeeccccCCHHHHHHHHHHhCCC
Confidence            3579999999999865433 1223332221   1223479999999999999999999998865

>PRK04004 translation initiation factor IF-2; Validated

Probab=98.54  E-value=8.7e-07  Score=60.48  Aligned_cols=24  Identities=21%  Similarity=0.210  Sum_probs=21.2

Q ss_pred             ceEEEeeccccCCCHHHHHHHHHH
Q psy2977          62 EICCYSISCKERDNIDITLQWLIA   85 (92)
Q Consensus        62 ~~~~~~~SA~~~~gi~~~~~~l~~   85 (92)
                      ..+++++||++|+|++++++.+..
T Consensus       192 ~v~ivpiSA~tGeGi~dLl~~i~~  215 (586)
T PRK04004        192 TVAIVPVSAKTGEGIPDLLMVLAG  215 (586)
T ss_pred             CceEeeccCCCCCChHHHHHHHHH
Confidence            468999999999999999988764

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.54  E-value=9.8e-08  Score=53.98  Aligned_cols=67  Identities=18%  Similarity=0.188  Sum_probs=37.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDN   75 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~g   75 (92)
                      |+|+.++.+..  ...+.+.+.... .++|+++|+||+|+.+........+.+.     .....++++||++|.+
T Consensus        18 ViD~~~p~~~~--~~~l~~~l~~~~-~~k~~iivlNK~DL~~~~~~~~~~~~~~-----~~~~~ii~iSa~~~~~   84 (141)
T cd01857          18 IVDARNPLLFR--PPDLERYVKEVD-PRKKNILLLNKADLLTEEQRKAWAEYFK-----KEGIVVVFFSALKENA   84 (141)
T ss_pred             EEEccCCcccC--CHHHHHHHHhcc-CCCcEEEEEechhcCCHHHHHHHHHHHH-----hcCCeEEEEEecCCCc
Confidence            46777654322  123333333221 4689999999999853221122222221     2235689999998764

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.

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=98.53  E-value=2.9e-07  Score=63.06  Aligned_cols=58  Identities=16%  Similarity=0.096  Sum_probs=38.6

Q ss_pred             Cc-EEEEeeCCCCCCCCCHH----HHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          29 IP-ILVLGNKRDLPNALDEK----ELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        29 ~p-~ilv~NK~Dl~~~~~~~----~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      +| +++|+||+|+.+....+    ++.+.+...  .....+++++||++|+|+++++++|.+...
T Consensus       104 i~~iIVVlNKiDlv~~~~~~~v~~ei~~~l~~~--~~~~~~ii~VSA~tG~gI~~L~~~L~~~~~  166 (614)
T PRK10512        104 NPMLTVALTKADRVDEARIAEVRRQVKAVLREY--GFAEAKLFVTAATEGRGIDALREHLLQLPE  166 (614)
T ss_pred             CCeEEEEEECCccCCHHHHHHHHHHHHHHHHhc--CCCCCcEEEEeCCCCCCCHHHHHHHHHhhc
Confidence            45 57999999996422222    222222111  112357999999999999999999987654

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=98.52  E-value=1.4e-07  Score=59.27  Aligned_cols=55  Identities=31%  Similarity=0.308  Sum_probs=39.0

Q ss_pred             CcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHh
Q psy2977          29 IPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAH   86 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~   86 (92)
                      .+-++|+||+|+.+..  +.+.+.+.+..   .....+++++||++|+|++++++||.++
T Consensus       231 ~ADIVVLNKiDLl~~~~~dle~~~~~lr~---lnp~a~I~~vSA~tGeGld~L~~~L~~~  287 (290)
T PRK10463        231 AASLMLLNKVDLLPYLNFDVEKCIACARE---VNPEIEIILISATSGEGMDQWLNWLETQ  287 (290)
T ss_pred             cCcEEEEEhHHcCcccHHHHHHHHHHHHh---hCCCCcEEEEECCCCCCHHHHHHHHHHh
Confidence            5569999999997422  23333333211   1235679999999999999999999874

>PRK10218 GTP-binding protein; Provisional

Probab=98.48  E-value=7.6e-07  Score=60.95  Aligned_cols=83  Identities=20%  Similarity=0.189  Sum_probs=51.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCH---HHHHHhhcc-CCc-CCCceEEEeeccccCC-
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDE---KELIDRMNL-CAI-QDREICCYSISCKERD-   74 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~---~~~~~~~~~-~~~-~~~~~~~~~~SA~~~~-   74 (92)
                      |+|+++.. ......++..+..    .++|.++++||+|++.+...   +++.+.+.. ... ....++++.+||++|. 
T Consensus        98 VVDa~~G~-~~qt~~~l~~a~~----~gip~IVviNKiD~~~a~~~~vl~ei~~l~~~l~~~~~~~~~PVi~~SA~~G~~  172 (607)
T PRK10218         98 VVDAFDGP-MPQTRFVTKKAFA----YGLKPIVVINKVDRPGARPDWVVDQVFDLFVNLDATDEQLDFPIVYASALNGIA  172 (607)
T ss_pred             EEecccCc-cHHHHHHHHHHHH----cCCCEEEEEECcCCCCCchhHHHHHHHHHHhccCccccccCCCEEEeEhhcCcc
Confidence            46776531 1222333444332    36789999999999765432   233333311 111 1235789999999998 


Q ss_pred             ---------CHHHHHHHHHHhhh
Q psy2977          75 ---------NIDITLQWLIAHSK   88 (92)
Q Consensus        75 ---------gi~~~~~~l~~~i~   88 (92)
                               |+..+++.+.+.+.
T Consensus       173 ~~~~~~~~~~i~~Lld~Ii~~iP  195 (607)
T PRK10218        173 GLDHEDMAEDMTPLYQAIVDHVP  195 (607)
T ss_pred             cCCccccccchHHHHHHHHHhCC
Confidence                     68899998888764

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

Probab=98.47  E-value=1.7e-07  Score=55.62  Aligned_cols=53  Identities=17%  Similarity=0.176  Sum_probs=38.5

Q ss_pred             EEEeeCCCCCCCCCH--HHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhh
Q psy2977          32 LVLGNKRDLPNALDE--KELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHS   87 (92)
Q Consensus        32 ilv~NK~Dl~~~~~~--~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i   87 (92)
                      ++|+||.||.+....  +...+....   .+...+++++|++||+|++++++|+....
T Consensus       146 llVInK~DLa~~v~~dlevm~~da~~---~np~~~ii~~n~ktg~G~~~~~~~i~~~~  200 (202)
T COG0378         146 LLVINKTDLAPYVGADLEVMARDAKE---VNPEAPIIFTNLKTGEGLDEWLRFIEPQA  200 (202)
T ss_pred             EEEEehHHhHHHhCccHHHHHHHHHH---hCCCCCEEEEeCCCCcCHHHHHHHHHhhc
Confidence            689999999764432  433333221   13457899999999999999999998764

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.47  E-value=3.1e-07  Score=57.66  Aligned_cols=56  Identities=23%  Similarity=0.275  Sum_probs=38.7

Q ss_pred             CCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          28 GIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      ++|+++|+||+|+.+........+.+.     ..+..++.+||+++.|++++.+.+.+.+.
T Consensus        51 ~kp~iiVlNK~DL~~~~~~~~~~~~~~-----~~~~~vi~vSa~~~~gi~~L~~~l~~~l~  106 (287)
T PRK09563         51 NKPRLLILNKSDLADPEVTKKWIEYFE-----EQGIKALAINAKKGQGVKKILKAAKKLLK  106 (287)
T ss_pred             CCCEEEEEEchhcCCHHHHHHHHHHHH-----HcCCeEEEEECCCcccHHHHHHHHHHHHH
Confidence            579999999999953211112222221     11346789999999999999998887764

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

Probab=98.44  E-value=7.7e-07  Score=60.84  Aligned_cols=74  Identities=20%  Similarity=0.297  Sum_probs=51.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC----CCCHHHHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN----ALDEKELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~----~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      |+|+++.++   .....-++++    -++|+++++|++|...    .++.+.+.+.+        +.+++++||++|.|+
T Consensus        88 VvDAtnLeR---nLyltlQLlE----~g~p~ilaLNm~D~A~~~Gi~ID~~~L~~~L--------GvPVv~tvA~~g~G~  152 (653)
T COG0370          88 VVDATNLER---NLYLTLQLLE----LGIPMILALNMIDEAKKRGIRIDIEKLSKLL--------GVPVVPTVAKRGEGL  152 (653)
T ss_pred             EcccchHHH---HHHHHHHHHH----cCCCeEEEeccHhhHHhcCCcccHHHHHHHh--------CCCEEEEEeecCCCH
Confidence            457776543   2222333432    2689999999999853    23555565554        467999999999999


Q ss_pred             HHHHHHHHHhhhh
Q psy2977          77 DITLQWLIAHSKS   89 (92)
Q Consensus        77 ~~~~~~l~~~i~~   89 (92)
                      +++.+.+.+...+
T Consensus       153 ~~l~~~i~~~~~~  165 (653)
T COG0370         153 EELKRAIIELAES  165 (653)
T ss_pred             HHHHHHHHHhccc
Confidence            9999998875544

>COG0218 Predicted GTPase [General function prediction only]

Probab=98.38  E-value=1.7e-06  Score=51.58  Aligned_cols=61  Identities=18%  Similarity=0.271  Sum_probs=42.3

Q ss_pred             CCCcEEEEeeCCCCCCCCCH----HHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          27 IGIPILVLGNKRDLPNALDE----KELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~~----~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      .++|+++++||+|.......    ..+.+.+.... ....+ ++..|+.++.|++++-..|.+.+..
T Consensus       134 ~~i~~~vv~tK~DKi~~~~~~k~l~~v~~~l~~~~-~~~~~-~~~~ss~~k~Gi~~l~~~i~~~~~~  198 (200)
T COG0218         134 LGIPVIVVLTKADKLKKSERNKQLNKVAEELKKPP-PDDQW-VVLFSSLKKKGIDELKAKILEWLKE  198 (200)
T ss_pred             cCCCeEEEEEccccCChhHHHHHHHHHHHHhcCCC-Cccce-EEEEecccccCHHHHHHHHHHHhhc
Confidence            36899999999998753222    33444443221 11122 8889999999999999999888764

>PRK01889 GTPase RsgA; Reviewed

Probab=98.38  E-value=2.5e-06  Score=55.15  Aligned_cols=53  Identities=19%  Similarity=0.349  Sum_probs=36.9

Q ss_pred             CCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHH
Q psy2977          27 IGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLI   84 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~   84 (92)
                      .++|.+||+||+||.+.  .++..+.+..  . ..+++++.+||++|.|++++..+|.
T Consensus       141 ~~i~piIVLNK~DL~~~--~~~~~~~~~~--~-~~g~~Vi~vSa~~g~gl~~L~~~L~  193 (356)
T PRK01889        141 SGAEPVIVLTKADLCED--AEEKIAEVEA--L-APGVPVLAVSALDGEGLDVLAAWLS  193 (356)
T ss_pred             cCCCEEEEEEChhcCCC--HHHHHHHHHH--h-CCCCcEEEEECCCCccHHHHHHHhh
Confidence            35777999999999643  2222222111  1 2356789999999999999999885

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=98.37  E-value=1.2e-06  Score=57.73  Aligned_cols=55  Identities=22%  Similarity=0.199  Sum_probs=40.9

Q ss_pred             CCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          27 IGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      .++|+++|.||.||........+ + .      ....+++.+||+||+|++.+.+.|.+.+..
T Consensus       323 ~~~~~i~v~NK~DL~~~~~~~~~-~-~------~~~~~~i~iSa~t~~Gl~~L~~~i~~~~~~  377 (454)
T COG0486         323 KKKPIIVVLNKADLVSKIELESE-K-L------ANGDAIISISAKTGEGLDALREAIKQLFGK  377 (454)
T ss_pred             cCCCEEEEEechhcccccccchh-h-c------cCCCceEEEEecCccCHHHHHHHHHHHHhh
Confidence            46899999999999764432222 1 0      123368999999999999999999887754

>PLN00023 GTP-binding protein; Provisional

Probab=98.36  E-value=7.6e-07  Score=56.82  Aligned_cols=42  Identities=17%  Similarity=0.266  Sum_probs=34.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCC-----------CCCCcEEEEeeCCCCCC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQ-----------LIGIPILVLGNKRDLPN   42 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~-----------~~~~p~ilv~NK~Dl~~   42 (92)
                      |+|++++.+|+.+..|++.+.....           ..++|++||+||+||..
T Consensus       113 VyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~  165 (334)
T PLN00023        113 VHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAP  165 (334)
T ss_pred             EEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECccccc
Confidence            6899999999999999988875421           13589999999999964

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=98.34  E-value=1.3e-06  Score=55.99  Aligned_cols=59  Identities=22%  Similarity=0.135  Sum_probs=40.0

Q ss_pred             cEEEEeeCCCCCCCCC----HHHHHHhhccCCcC--CCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          30 PILVLGNKRDLPNALD----EKELIDRMNLCAIQ--DREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        30 p~ilv~NK~Dl~~~~~----~~~~~~~~~~~~~~--~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      .-++|+||.|+.....    ..++...+.+....  ....+++.+||++|.||++++++|.+++.
T Consensus       196 aDIiVVNKaDl~~~~~a~~~~~el~~~L~l~~~~~~~w~~pVi~vSA~~g~GIdeL~~~I~~~~~  260 (332)
T PRK09435        196 ADLIVINKADGDNKTAARRAAAEYRSALRLLRPKDPGWQPPVLTCSALEGEGIDEIWQAIEDHRA  260 (332)
T ss_pred             hheEEeehhcccchhHHHHHHHHHHHHHhcccccccCCCCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3489999999874322    23344444332111  12246999999999999999999998764

>KOG1673|consensus

Probab=98.31  E-value=1.9e-06  Score=49.65  Aligned_cols=85  Identities=15%  Similarity=0.154  Sum_probs=58.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCH---HHHHHhhccCCcCCCceEEEeeccccCCCHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDE---KELIDRMNLCAIQDREICCYSISCKERDNID   77 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~---~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~   77 (92)
                      ++|.+.+..++.+++|..+...-.. ..+| ++|++|-|+--..+.   +++..... ...+-.+...|.||+....||.
T Consensus        99 mFDLt~r~TLnSi~~WY~QAr~~Nk-tAiP-ilvGTKyD~fi~lp~e~Q~~I~~qar-~YAk~mnAsL~F~Sts~sINv~  175 (205)
T KOG1673|consen   99 MFDLTRRSTLNSIKEWYRQARGLNK-TAIP-ILVGTKYDLFIDLPPELQETISRQAR-KYAKVMNASLFFCSTSHSINVQ  175 (205)
T ss_pred             EEecCchHHHHHHHHHHHHHhccCC-ccce-EEeccchHhhhcCCHHHHHHHHHHHH-HHHHHhCCcEEEeeccccccHH
Confidence            4799999999999999999875432 3466 678999996432222   22322211 1112245679999999999999


Q ss_pred             HHHHHHHHhhh
Q psy2977          78 ITLQWLIAHSK   88 (92)
Q Consensus        78 ~~~~~l~~~i~   88 (92)
                      ..|..+...+.
T Consensus       176 KIFK~vlAklF  186 (205)
T KOG1673|consen  176 KIFKIVLAKLF  186 (205)
T ss_pred             HHHHHHHHHHh
Confidence            99997766553

>COG1160 Predicted GTPases [General function prediction only]

Probab=98.29  E-value=2.8e-06  Score=55.92  Aligned_cols=54  Identities=20%  Similarity=0.079  Sum_probs=39.0

Q ss_pred             CCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhh
Q psy2977          27 IGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHS   87 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i   87 (92)
                      .++|+++|+||+|-...  .....+...+     ..-.++.+||..|.|+.++++++...+
T Consensus       111 ~~kpviLvvNK~D~~~~--e~~~~efysl-----G~g~~~~ISA~Hg~Gi~dLld~v~~~l  164 (444)
T COG1160         111 SKKPVILVVNKIDNLKA--EELAYEFYSL-----GFGEPVPISAEHGRGIGDLLDAVLELL  164 (444)
T ss_pred             cCCCEEEEEEcccCchh--hhhHHHHHhc-----CCCCceEeehhhccCHHHHHHHHHhhc
Confidence            35899999999997521  1222332221     123478999999999999999999886

>cd01884 EF_Tu EF-Tu subfamily

Probab=98.27  E-value=5e-06  Score=49.57  Aligned_cols=49  Identities=18%  Similarity=0.186  Sum_probs=29.2

Q ss_pred             CCc-EEEEeeCCCCCCCCC-HH----HHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977          28 GIP-ILVLGNKRDLPNALD-EK----ELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus        28 ~~p-~ilv~NK~Dl~~~~~-~~----~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      ++| +++++||+|+..... .+    ++...+..........+++++||++|.|+
T Consensus       117 ~~~~iIvviNK~D~~~~~~~~~~~~~~i~~~l~~~g~~~~~v~iipiSa~~g~n~  171 (195)
T cd01884         117 GVPYIVVFLNKADMVDDEELLELVEMEVRELLSKYGFDGDNTPIVRGSALKALEG  171 (195)
T ss_pred             CCCcEEEEEeCCCCCCcHHHHHHHHHHHHHHHHHhcccccCCeEEEeeCccccCC
Confidence            456 778999999863211 11    23333221111123578999999999985

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.

>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=98.25  E-value=1.2e-06  Score=51.76  Aligned_cols=54  Identities=26%  Similarity=0.345  Sum_probs=34.6

Q ss_pred             CeeCC-chhhHHHHHHHHHHhhcCCC--CCCCcEEEEeeCCCCCCCCCHHHHHHhhc
Q psy2977           1 MVDAA-DTDKLEASRNELHALIEKPQ--LIGIPILVLGNKRDLPNALDEKELIDRMN   54 (92)
Q Consensus         1 v~D~s-~~~~~~~~~~~~~~~~~~~~--~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~   54 (92)
                      |+|++ +...+.++.+.+..++....  ...+|++|++||+|+..+.+...++..++
T Consensus        82 vvDSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~A~~~~~Ik~~LE  138 (181)
T PF09439_consen   82 VVDSSTDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFTAKPPKKIKKLLE  138 (181)
T ss_dssp             EEETTTHHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT---HHHHHHHHH
T ss_pred             EEeCccchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCccccccCCHHHHHHHHH
Confidence            57887 45567777777888776432  24689999999999988777666666553

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.

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=98.25  E-value=9e-07  Score=48.23  Aligned_cols=37  Identities=32%  Similarity=0.498  Sum_probs=27.0

Q ss_pred             CeeCCchhhHHHHHH---HHHHhhcCCCCCCCcEEEEeeCCC
Q psy2977           1 MVDAADTDKLEASRN---ELHALIEKPQLIGIPILVLGNKRD   39 (92)
Q Consensus         1 v~D~s~~~~~~~~~~---~~~~~~~~~~~~~~p~ilv~NK~D   39 (92)
                      |||++++.+++.+..   |+..+...  ..++|+++|+||.|
T Consensus        80 v~D~s~~~s~~~~~~~~~~l~~~~~~--~~~~piilv~nK~D  119 (119)
T PF08477_consen   80 VYDLSDPESLEYLSQLLKWLKNIRKR--DKNIPIILVGNKSD  119 (119)
T ss_dssp             EEECCGHHHHHHHHHHHHHHHHHHHH--SSCSEEEEEEE-TC
T ss_pred             EEcCCChHHHHHHHHHHHHHHHHHcc--CCCCCEEEEEeccC
Confidence            689999999988744   45555432  24699999999998

They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.

>cd04168 TetM_like Tet(M)-like subfamily

Probab=98.22  E-value=1.3e-05  Score=49.19  Aligned_cols=27  Identities=15%  Similarity=-0.030  Sum_probs=23.4

Q ss_pred             ceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          62 EICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        62 ~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      -++++..||.++.|+..+++.+.+.+.
T Consensus       209 ~~Pv~~gsa~~~~Gv~~ll~~~~~~~p  235 (237)
T cd04168         209 VFPVYHGSALKGIGIEELLEGITKLFP  235 (237)
T ss_pred             eEEEEEccccCCcCHHHHHHHHHHhcC
Confidence            357888899999999999999988763

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.

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=98.19  E-value=2.7e-06  Score=50.98  Aligned_cols=51  Identities=22%  Similarity=0.208  Sum_probs=29.3

Q ss_pred             CcEEEEeeCCCCCCCCC--HHHHHHhhcc--CCcCCCceEEEeeccccCCCHHHH
Q psy2977          29 IPILVLGNKRDLPNALD--EKELIDRMNL--CAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~~--~~~~~~~~~~--~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      .|+++|+||+|+.+...  ...+...+..  ..+.....+++++||++|.|+.+.
T Consensus       131 ~~iIvviNK~D~~~~~~~~~~~i~~~~~~~~~~~~~~~~~ii~iSA~~g~ni~~~  185 (208)
T cd04166         131 RHVVVAVNKMDLVDYSEEVFEEIVADYLAFAAKLGIEDITFIPISALDGDNVVSR  185 (208)
T ss_pred             CcEEEEEEchhcccCCHHHHHHHHHHHHHHHHHcCCCCceEEEEeCCCCCCCccC
Confidence            45778999999964211  1112111110  001112356899999999999753

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.

>PRK12736 elongation factor Tu; Reviewed

Probab=98.19  E-value=1e-05  Score=52.92  Aligned_cols=61  Identities=18%  Similarity=0.123  Sum_probs=38.1

Q ss_pred             CCc-EEEEeeCCCCCCCCCH-----HHHHHhhccCCcCCCceEEEeeccccCC--------CHHHHHHHHHHhhh
Q psy2977          28 GIP-ILVLGNKRDLPNALDE-----KELIDRMNLCAIQDREICCYSISCKERD--------NIDITLQWLIAHSK   88 (92)
Q Consensus        28 ~~p-~ilv~NK~Dl~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~SA~~~~--------gi~~~~~~l~~~i~   88 (92)
                      ++| +++++||+|+.+....     +++.+.+..........+++++||++|.        ++.++++.|.+.+.
T Consensus       127 g~~~~IvviNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~~~~~ii~vSa~~g~~~~~~~~~~i~~Ll~~l~~~lp  201 (394)
T PRK12736        127 GVPYLVVFLNKVDLVDDEELLELVEMEVRELLSEYDFPGDDIPVIRGSALKALEGDPKWEDAIMELMDAVDEYIP  201 (394)
T ss_pred             CCCEEEEEEEecCCcchHHHHHHHHHHHHHHHHHhCCCcCCccEEEeeccccccCCCcchhhHHHHHHHHHHhCC
Confidence            567 6788999998632111     1223322211111224679999999983        68888888887664

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.16  E-value=2.7e-06  Score=53.65  Aligned_cols=59  Identities=19%  Similarity=0.155  Sum_probs=41.5

Q ss_pred             CCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhh
Q psy2977          26 LIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHS   87 (92)
Q Consensus        26 ~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i   87 (92)
                      ..++..+||+||+||.+...... .+.+..  ....+++++.+||+++.|++++..+|...+
T Consensus       108 ~~gi~pvIvlnK~DL~~~~~~~~-~~~~~~--y~~~gy~v~~~s~~~~~~~~~l~~~l~~~~  166 (301)
T COG1162         108 AGGIEPVIVLNKIDLLDDEEAAV-KELLRE--YEDIGYPVLFVSAKNGDGLEELAELLAGKI  166 (301)
T ss_pred             HcCCcEEEEEEccccCcchHHHH-HHHHHH--HHhCCeeEEEecCcCcccHHHHHHHhcCCe
Confidence            35677788899999986443332 122111  124578899999999999999999887654

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

Probab=98.16  E-value=1.6e-06  Score=53.61  Aligned_cols=60  Identities=22%  Similarity=0.181  Sum_probs=38.8

Q ss_pred             CcEEEEeeCCCCCCCC-CHHHHHHhhccCCcC--CCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          29 IPILVLGNKRDLPNAL-DEKELIDRMNLCAIQ--DREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~-~~~~~~~~~~~~~~~--~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      ++=++|.||.|++.+. ...++...+.+....  .+..+++.|||.+|.||+++++.|.++..
T Consensus       168 iaDi~vVNKaD~~gA~~~~~~l~~~l~l~~~~~~~W~ppV~~tsA~~~~Gi~eL~~~i~~~~~  230 (266)
T PF03308_consen  168 IADIFVVNKADRPGADRTVRDLRSMLHLLREREDGWRPPVLKTSALEGEGIDELWEAIDEHRD  230 (266)
T ss_dssp             H-SEEEEE--SHHHHHHHHHHHHHHHHHCSTSCTSB--EEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             hccEEEEeCCChHHHHHHHHHHHHHHhhccccccCCCCCEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            3448999999976432 234555555543322  23457999999999999999999987653

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

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

Probab=98.12  E-value=1.1e-05  Score=44.94  Aligned_cols=55  Identities=11%  Similarity=0.104  Sum_probs=40.9

Q ss_pred             CCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHh
Q psy2977          28 GIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAH   86 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~   86 (92)
                      ..|.|=|.+|.||++..+.+..+..+..    ....++|.+||.+..||+++++.|...
T Consensus        90 ~k~vIgvVTK~DLaed~dI~~~~~~L~e----aGa~~IF~~s~~d~~gv~~l~~~L~~~  144 (148)
T COG4917          90 VKKVIGVVTKADLAEDADISLVKRWLRE----AGAEPIFETSAVDNQGVEELVDYLASL  144 (148)
T ss_pred             ccceEEEEecccccchHhHHHHHHHHHH----cCCcceEEEeccCcccHHHHHHHHHhh
Confidence            3568889999999864455444544432    124579999999999999999998764

>cd00066 G-alpha G protein alpha subunit

Probab=98.11  E-value=1.5e-05  Score=50.81  Aligned_cols=83  Identities=17%  Similarity=0.197  Sum_probs=57.8

Q ss_pred             hhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC------------------CCCHHHHHHhhc-----cCCcCCCceE
Q psy2977           8 DKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN------------------ALDEKELIDRMN-----LCAIQDREIC   64 (92)
Q Consensus         8 ~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~------------------~~~~~~~~~~~~-----~~~~~~~~~~   64 (92)
                      .++.++...++.+++++...++|+++++||+|+..                  ..+.+.....+.     ......+.+.
T Consensus       208 nrl~esl~~f~~i~~~~~~~~~pill~~NK~D~f~~ki~~~~l~~~fp~y~g~~~~~~~~~~~i~~~F~~~~~~~~~~~~  287 (317)
T cd00066         208 NRMQESLNLFDSICNSRWFANTSIILFLNKKDLFEEKIKKSPLTDYFPDYTGPPNDYEEAAKFIRKKFLDLNRNPNKEIY  287 (317)
T ss_pred             hHHHHHHHHHHHHHhCccccCCCEEEEccChHHHHHhhcCCCccccCCCCCCCCCCHHHHHHHHHHHHHHhhcCCCCeEE
Confidence            67888888899999887778899999999999521                  011222222111     1111134566


Q ss_pred             EEeeccccCCCHHHHHHHHHHhhhhc
Q psy2977          65 CYSISCKERDNIDITLQWLIAHSKSH   90 (92)
Q Consensus        65 ~~~~SA~~~~gi~~~~~~l~~~i~~~   90 (92)
                      ++.++|..-.++..+|..+.+.+..+
T Consensus       288 ~~~t~a~Dt~~i~~vf~~v~~~i~~~  313 (317)
T cd00066         288 PHFTCATDTENIRFVFDAVKDIILQN  313 (317)
T ss_pred             EEeccccchHHHHHHHHHHHHHHHHH
Confidence            78899999999999999998887653

The alpha subunit of G proteins contains the guanine nucleotide binding site. The heterotrimeric GNP-binding proteins are signal transducers that communicate signals from many hormones, neurotransmitters, chemokines, and autocrine and paracrine factors. Extracellular signals are received by receptors, which activate the G proteins, which in turn route the signals to several distinct intracellular signaling pathways. The alpha subunit of G proteins is a weak GTPase. In the resting state, heterotrimeric G proteins are associated at the cytosolic face of the plasma membrane and the alpha subunit binds to GDP. Upon activation by a receptor GDP is replaced with GTP, and the G-alpha/GTP complex dissociates from the beta and gamma subunits. This results in activation of downstream signaling pathways, such as cAMP synthesis by adenylyl cyclase, which is terminated when GTP is hydrolized and the heterotrimers reconstitute.

>cd01899 Ygr210 Ygr210 subfamily

Probab=98.08  E-value=1e-05  Score=51.67  Aligned_cols=57  Identities=19%  Similarity=0.281  Sum_probs=40.5

Q ss_pred             CCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHH-HHHHhhhh
Q psy2977          27 IGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQ-WLIAHSKS   89 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~-~l~~~i~~   89 (92)
                      ..+|+++++||+|+...   .+..+.+..   ......++++||+.+.|++++.+ .+.+++..
T Consensus       213 t~KPvI~VlNK~Dl~~~---~~~~~~l~~---~~~~~~iI~iSA~~e~~L~~L~~~~i~~~lPe  270 (318)
T cd01899         213 RSKPMVIAANKADIPDA---ENNISKLRL---KYPDEIVVPTSAEAELALRRAAKQGLIKYDPG  270 (318)
T ss_pred             cCCcEEEEEEHHHccCh---HHHHHHHHh---hCCCCeEEEEeCcccccHHHHHHhhHHHhCCC
Confidence            45899999999998532   222222221   12245699999999999999997 68888754

Ygr210 is a member of Obg-like family and present in archaea and fungi. They are characterized by a distinct glycine-rich motif immediately following the Walker B motif. The Ygr210 and YyaF/YchF subfamilies appear to form one major branch of the Obg-like family. Among eukaryotes, the Ygr210 subfamily is represented only in fungi. These fungal proteins form a tight cluster with their archaeal orthologs, which suggests the possibility of horizontal transfer from archaea to fungi.

>smart00275 G_alpha G protein alpha subunit

Probab=98.04  E-value=4.6e-05  Score=49.14  Aligned_cols=83  Identities=16%  Similarity=0.151  Sum_probs=57.6

Q ss_pred             hhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC-----------------CCHHHH----HHhhc-cCCc-CCCce
Q psy2977           7 TDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA-----------------LDEKEL----IDRMN-LCAI-QDREI   63 (92)
Q Consensus         7 ~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~-----------------~~~~~~----~~~~~-~~~~-~~~~~   63 (92)
                      ..++.++...++.+++++...+.|++|++||.|+...                 .+.+..    ...+. .... ..+.+
T Consensus       230 ~nrl~esl~~f~~l~~~~~~~~~piil~~NK~D~~~~Kl~~~~l~~~fp~y~g~~~~~~~~~yi~~~F~~~~~~~~~r~~  309 (342)
T smart00275      230 TNRMQESLNLFESICNSRWFANTSIILFLNKIDLFEEKIKKVPLVDYFPDYKGPNDYEAAAKFIKQKFLRLNRNSSRKSI  309 (342)
T ss_pred             chHHHHHHHHHHHHHcCccccCCcEEEEEecHHhHHHHhCCCchhccCCCCCCCCCHHHHHHHHHHHHHHhccCCCCceE
Confidence            3578888889999998877788999999999997320                 011111    22111 1110 12456


Q ss_pred             EEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          64 CCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        64 ~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      .++.+||.+-.++..+|..+.+.+.+
T Consensus       310 y~h~t~a~Dt~~~~~v~~~v~~~I~~  335 (342)
T smart00275      310 YHHFTCATDTRNIRVVFDAVKDIILQ  335 (342)
T ss_pred             EEEEeeecccHHHHHHHHHHHHHHHH
Confidence            77889999999999999998887764

Subunit of G proteins that contains the guanine nucleotide binding site

>PLN00043 elongation factor 1-alpha; Provisional

Probab=98.02  E-value=2.2e-05  Score=52.19  Aligned_cols=51  Identities=24%  Similarity=0.229  Sum_probs=30.8

Q ss_pred             CC-cEEEEeeCCCCCCC-CC-------HHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977          28 GI-PILVLGNKRDLPNA-LD-------EKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus        28 ~~-p~ilv~NK~Dl~~~-~~-------~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      ++ ++++++||+|+.+. .+       .+++...+.........++++++||++|+|+.+
T Consensus       144 gi~~iIV~vNKmD~~~~~~~~~~~~~i~~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni~~  203 (447)
T PLN00043        144 GVKQMICCCNKMDATTPKYSKARYDEIVKEVSSYLKKVGYNPDKIPFVPISGFEGDNMIE  203 (447)
T ss_pred             CCCcEEEEEEcccCCchhhhHHHHHHHHHHHHHHHHHcCCCcccceEEEEeccccccccc
Confidence            45 46889999998621 11       223333332111112247899999999999854

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=97.99  E-value=1.8e-05  Score=50.53  Aligned_cols=51  Identities=27%  Similarity=0.179  Sum_probs=39.0

Q ss_pred             CCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          28 GIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      -+|-++|.||+|++.   .+++.....       ....+.+||++|.|++++.+.|.+.+.
T Consensus       239 Y~p~l~v~NKiD~~~---~e~~~~l~~-------~~~~v~isa~~~~nld~L~e~i~~~L~  289 (365)
T COG1163         239 YKPALYVVNKIDLPG---LEELERLAR-------KPNSVPISAKKGINLDELKERIWDVLG  289 (365)
T ss_pred             eeeeEEEEecccccC---HHHHHHHHh-------ccceEEEecccCCCHHHHHHHHHHhhC
Confidence            489999999999975   333333211       125899999999999999999998764

>KOG1423|consensus

Probab=97.97  E-value=1.9e-05  Score=50.14  Aligned_cols=26  Identities=15%  Similarity=0.238  Sum_probs=23.7

Q ss_pred             EEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          64 CCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        64 ~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      .+|.+||++|+||+++-+||..+...
T Consensus       247 ~vF~vSaL~G~GikdlkqyLmsqa~~  272 (379)
T KOG1423|consen  247 RVFMVSALYGEGIKDLKQYLMSQAPP  272 (379)
T ss_pred             eEEEEecccccCHHHHHHHHHhcCCC
Confidence            59999999999999999999988754

>KOG1707|consensus

Probab=97.97  E-value=3e-06  Score=57.27  Aligned_cols=81  Identities=12%  Similarity=0.149  Sum_probs=52.4

Q ss_pred             CeeCCchhhHHHHH-HHHHHhhcCCC-CCCCcEEEEeeCCCCCCCCCH--HH----HHHhhccCCcCCCceEEEeecccc
Q psy2977           1 MVDAADTDKLEASR-NELHALIEKPQ-LIGIPILVLGNKRDLPNALDE--KE----LIDRMNLCAIQDREICCYSISCKE   72 (92)
Q Consensus         1 v~D~s~~~~~~~~~-~~~~~~~~~~~-~~~~p~ilv~NK~Dl~~~~~~--~~----~~~~~~~~~~~~~~~~~~~~SA~~   72 (92)
                      +++.+++.+++.+. .|+=.+.+..+ --+.|+|+|+||+|.....+.  +.    +..++.  .    --..++|||++
T Consensus        86 vyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~~s~e~~~~pim~~f~--E----iEtciecSA~~  159 (625)
T KOG1707|consen   86 VYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNENNSDEVNTLPIMIAFA--E----IETCIECSALT  159 (625)
T ss_pred             EEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCccccccchhHHHHHHHHHhH--H----HHHHHhhhhhh
Confidence            35667777887765 56655544211 146999999999998653322  22    111111  0    12378999999


Q ss_pred             CCCHHHHHHHHHHhh
Q psy2977          73 RDNIDITLQWLIAHS   87 (92)
Q Consensus        73 ~~gi~~~~~~l~~~i   87 (92)
                      -.++.++|....+.+
T Consensus       160 ~~n~~e~fYyaqKaV  174 (625)
T KOG1707|consen  160 LANVSELFYYAQKAV  174 (625)
T ss_pred             hhhhHhhhhhhhhee
Confidence            999999998776654

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

Probab=97.96  E-value=1.2e-05  Score=50.68  Aligned_cols=60  Identities=23%  Similarity=0.190  Sum_probs=41.7

Q ss_pred             CcEEEEeeCCCCCCCC-CHHHHHHhhccCC----cCCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          29 IPILVLGNKRDLPNAL-DEKELIDRMNLCA----IQDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~-~~~~~~~~~~~~~----~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      +-=++|.||.|..++. ...++...+.+..    ......+++.|||.+|+|++++++.+.++..
T Consensus       190 iaDi~vINKaD~~~A~~a~r~l~~al~~~~~~~~~~~W~ppv~~t~A~~g~Gi~~L~~ai~~h~~  254 (323)
T COG1703         190 IADIIVINKADRKGAEKAARELRSALDLLREVWRENGWRPPVVTTSALEGEGIDELWDAIEDHRK  254 (323)
T ss_pred             hhheeeEeccChhhHHHHHHHHHHHHHhhcccccccCCCCceeEeeeccCCCHHHHHHHHHHHHH
Confidence            3348899999976532 2334455444332    1223457999999999999999999988875

>PRK12735 elongation factor Tu; Reviewed

Probab=97.93  E-value=7.7e-05  Score=48.92  Aligned_cols=60  Identities=15%  Similarity=0.101  Sum_probs=36.9

Q ss_pred             CCcEE-EEeeCCCCCCCCC-HH----HHHHhhccCCcCCCceEEEeeccccCC----------CHHHHHHHHHHhh
Q psy2977          28 GIPIL-VLGNKRDLPNALD-EK----ELIDRMNLCAIQDREICCYSISCKERD----------NIDITLQWLIAHS   87 (92)
Q Consensus        28 ~~p~i-lv~NK~Dl~~~~~-~~----~~~~~~~~~~~~~~~~~~~~~SA~~~~----------gi~~~~~~l~~~i   87 (92)
                      ++|.+ +++||+|+.+... .+    ++...+........+.+++++||++|.          |+..+++.|.+.+
T Consensus       127 gi~~iivvvNK~Dl~~~~~~~~~~~~ei~~~l~~~~~~~~~~~ii~~Sa~~g~n~~~~~~w~~~~~~Ll~~l~~~~  202 (396)
T PRK12735        127 GVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYDFPGDDTPIIRGSALKALEGDDDEEWEAKILELMDAVDSYI  202 (396)
T ss_pred             CCCeEEEEEEecCCcchHHHHHHHHHHHHHHHHHcCCCcCceeEEecchhccccCCCCCcccccHHHHHHHHHhcC
Confidence            57755 5799999963211 11    233332211111124789999999984          7888888887765

>KOG1532|consensus

Probab=97.92  E-value=3.5e-05  Score=48.47  Aligned_cols=63  Identities=16%  Similarity=0.198  Sum_probs=42.8

Q ss_pred             CCCcEEEEeeCCCCCCCC-------CHHHHHHhhcc-C-----CcC----------CCceEEEeeccccCCCHHHHHHHH
Q psy2977          27 IGIPILVLGNKRDLPNAL-------DEKELIDRMNL-C-----AIQ----------DREICCYSISCKERDNIDITLQWL   83 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~-------~~~~~~~~~~~-~-----~~~----------~~~~~~~~~SA~~~~gi~~~~~~l   83 (92)
                      ...|+|+++||+|+.+..       +.+.+.+.+.. .     .+.          -.+...+.+||.||.|.+++|..+
T Consensus       180 tklp~ivvfNK~Dv~d~~fa~eWm~DfE~FqeAl~~~~~~y~s~l~~SmSL~leeFY~~lrtv~VSs~tG~G~ddf~~av  259 (366)
T KOG1532|consen  180 TKLPFIVVFNKTDVSDSEFALEWMTDFEAFQEALNEAESSYMSNLTRSMSLMLEEFYRSLRTVGVSSVTGEGFDDFFTAV  259 (366)
T ss_pred             ccCCeEEEEecccccccHHHHHHHHHHHHHHHHHHhhccchhHHhhhhHHHHHHHHHhhCceEEEecccCCcHHHHHHHH
Confidence            468999999999997642       12233333321 0     000          124678999999999999999998


Q ss_pred             HHhhhh
Q psy2977          84 IAHSKS   89 (92)
Q Consensus        84 ~~~i~~   89 (92)
                      ...+.+
T Consensus       260 ~~~vdE  265 (366)
T KOG1532|consen  260 DESVDE  265 (366)
T ss_pred             HHHHHH
Confidence            876643

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=97.91  E-value=5.4e-05  Score=51.34  Aligned_cols=26  Identities=8%  Similarity=-0.036  Sum_probs=23.3

Q ss_pred             eEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          63 ICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        63 ~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      .+++..||.++.||..+++.+.+.+.
T Consensus       249 ~PV~~GSA~~n~Gv~~LLd~i~~~~P  274 (526)
T PRK00741        249 TPVFFGSALNNFGVQEFLDAFVEWAP  274 (526)
T ss_pred             EEEEEeecccCcCHHHHHHHHHHHCC
Confidence            56889999999999999999998874

>TIGR00485 EF-Tu translation elongation factor TU

Probab=97.88  E-value=8.4e-05  Score=48.70  Aligned_cols=59  Identities=15%  Similarity=0.088  Sum_probs=32.8

Q ss_pred             CCcEE-EEeeCCCCCCCCC-H----HHHHHhhccCCcCCCceEEEeeccccCC--------CHHHHHHHHHHh
Q psy2977          28 GIPIL-VLGNKRDLPNALD-E----KELIDRMNLCAIQDREICCYSISCKERD--------NIDITLQWLIAH   86 (92)
Q Consensus        28 ~~p~i-lv~NK~Dl~~~~~-~----~~~~~~~~~~~~~~~~~~~~~~SA~~~~--------gi~~~~~~l~~~   86 (92)
                      ++|.+ +++||+|+.+... .    +++.+.+.........++++++||++|.        ++..+++.|.+.
T Consensus       127 gi~~iIvvvNK~Dl~~~~~~~~~~~~~i~~~l~~~~~~~~~~~ii~vSa~~g~~g~~~~~~~~~~ll~~l~~~  199 (394)
T TIGR00485       127 GVPYIVVFLNKCDMVDDEELLELVEMEVRELLSEYDFPGDDTPIIRGSALKALEGDAEWEAKILELMDAVDEY  199 (394)
T ss_pred             CCCEEEEEEEecccCCHHHHHHHHHHHHHHHHHhcCCCccCccEEECccccccccCCchhHhHHHHHHHHHhc
Confidence            46655 6899999864211 1    1233333211111123789999999885        345555555543

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.

>CHL00071 tufA elongation factor Tu

Probab=97.84  E-value=9.1e-05  Score=48.77  Aligned_cols=48  Identities=23%  Similarity=0.195  Sum_probs=28.2

Q ss_pred             CCc-EEEEeeCCCCCCCCCH-----HHHHHhhccCCcCCCceEEEeeccccCCC
Q psy2977          28 GIP-ILVLGNKRDLPNALDE-----KELIDRMNLCAIQDREICCYSISCKERDN   75 (92)
Q Consensus        28 ~~p-~ilv~NK~Dl~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~SA~~~~g   75 (92)
                      ++| +++++||+|+.+....     +++...+..........+++++||.+|.|
T Consensus       127 g~~~iIvvvNK~D~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~ii~~Sa~~g~n  180 (409)
T CHL00071        127 GVPNIVVFLNKEDQVDDEELLELVELEVRELLSKYDFPGDDIPIVSGSALLALE  180 (409)
T ss_pred             CCCEEEEEEEccCCCCHHHHHHHHHHHHHHHHHHhCCCCCcceEEEcchhhccc
Confidence            568 6789999999742211     12333322111112247899999999873

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=97.82  E-value=4.3e-05  Score=48.96  Aligned_cols=59  Identities=17%  Similarity=0.180  Sum_probs=42.1

Q ss_pred             CcEEEEeeCCCCCCCC----CHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          29 IPILVLGNKRDLPNAL----DEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~----~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      +.++++-||+||....    +.+++.+...-..  .-+.+++++||..+.||+-+++.|.+.+..
T Consensus       141 k~iiIvQNKIDlV~~E~AlE~y~qIk~FvkGt~--Ae~aPIIPiSA~~~~NIDal~e~i~~~Ipt  203 (415)
T COG5257         141 KNIIIVQNKIDLVSRERALENYEQIKEFVKGTV--AENAPIIPISAQHKANIDALIEAIEKYIPT  203 (415)
T ss_pred             ceEEEEecccceecHHHHHHHHHHHHHHhcccc--cCCCceeeehhhhccCHHHHHHHHHHhCCC
Confidence            5689999999997421    2334444332110  124679999999999999999999999864

>PRK00049 elongation factor Tu; Reviewed

Probab=97.80  E-value=0.00016  Score=47.45  Aligned_cols=60  Identities=15%  Similarity=0.086  Sum_probs=36.6

Q ss_pred             CCcEE-EEeeCCCCCCCCC-H----HHHHHhhccCCcCCCceEEEeeccccCC----------CHHHHHHHHHHhh
Q psy2977          28 GIPIL-VLGNKRDLPNALD-E----KELIDRMNLCAIQDREICCYSISCKERD----------NIDITLQWLIAHS   87 (92)
Q Consensus        28 ~~p~i-lv~NK~Dl~~~~~-~----~~~~~~~~~~~~~~~~~~~~~~SA~~~~----------gi~~~~~~l~~~i   87 (92)
                      ++|.+ +++||+|+.+... .    .++...+........+.+++++||++|.          |+..+++.|...+
T Consensus       127 g~p~iiVvvNK~D~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~iv~iSa~~g~~~~~~~~w~~~~~~ll~~l~~~~  202 (396)
T PRK00049        127 GVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYDFPGDDTPIIRGSALKALEGDDDEEWEKKILELMDAVDSYI  202 (396)
T ss_pred             CCCEEEEEEeecCCcchHHHHHHHHHHHHHHHHhcCCCccCCcEEEeecccccCCCCcccccccHHHHHHHHHhcC
Confidence            57876 5899999964211 1    1233333211111234679999999975          5778888887654

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=97.76  E-value=3.6e-05  Score=51.19  Aligned_cols=51  Identities=22%  Similarity=0.185  Sum_probs=31.0

Q ss_pred             CCc-EEEEeeCCCCCCC-CC---H----HHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977          28 GIP-ILVLGNKRDLPNA-LD---E----KELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus        28 ~~p-~ilv~NK~Dl~~~-~~---~----~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      ++| ++++.||+|.+.. .+   .    +++.+.+.........++++++||.+|+|+.+
T Consensus       144 gi~~iiv~vNKmD~~~~~~~~~~~~~i~~~i~~~l~~~g~~~~~~~~ipiSa~~g~ni~~  203 (446)
T PTZ00141        144 GVKQMIVCINKMDDKTVNYSQERYDEIKKEVSAYLKKVGYNPEKVPFIPISGWQGDNMIE  203 (446)
T ss_pred             CCCeEEEEEEccccccchhhHHHHHHHHHHHHHHHHhcCCCcccceEEEeecccCCCccc
Confidence            555 6789999996421 11   2    23333332211222357899999999999964

>PRK13351 elongation factor G; Reviewed

Probab=97.76  E-value=0.00022  Score=49.75  Aligned_cols=26  Identities=12%  Similarity=-0.059  Sum_probs=22.8

Q ss_pred             eEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          63 ICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        63 ~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      ++++..||++|.||+.+++.+...+.
T Consensus       253 ~PV~~gSA~~~~Gv~~LLd~I~~~lP  278 (687)
T PRK13351        253 VPVLFGSALKNIGIEPLLDAVVDYLP  278 (687)
T ss_pred             EEEEecccCcCccHHHHHHHHHHHCC
Confidence            46788899999999999999998764

>PRK12740 elongation factor G; Reviewed

Probab=97.72  E-value=0.00053  Score=47.77  Aligned_cols=26  Identities=8%  Similarity=0.066  Sum_probs=23.0

Q ss_pred             eEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          63 ICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        63 ~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      ++++..||++|.|++.+++.+...+.
T Consensus       237 ~Pv~~gSA~~~~Gv~~LLd~i~~~lP  262 (668)
T PRK12740        237 VPVFCGSALKNKGVQRLLDAVVDYLP  262 (668)
T ss_pred             EEEEeccccCCccHHHHHHHHHHHCC
Confidence            46888999999999999999998764

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=97.64  E-value=8.3e-05  Score=44.25  Aligned_cols=64  Identities=13%  Similarity=0.034  Sum_probs=40.1

Q ss_pred             CCcEEEEeeCCCCCCCCC---------HHHH----HHhhccC--CcCCCceEEEeeccc--cCCCHHHHHHHHHHhhhhc
Q psy2977          28 GIPILVLGNKRDLPNALD---------EKEL----IDRMNLC--AIQDREICCYSISCK--ERDNIDITLQWLIAHSKSH   90 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~---------~~~~----~~~~~~~--~~~~~~~~~~~~SA~--~~~gi~~~~~~l~~~i~~~   90 (92)
                      +.|+++|+||+|+.....         .+++    .+.....  ........+|.+|+.  .+.|+..+.+.+...+.+.
T Consensus       107 ~~~~ilV~nK~D~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~~~~~p~v~~vS~~~~~~~~~~~l~~~~~~~l~~~  186 (197)
T cd04104         107 GKKFYFVRTKVDRDLSNEQRSKPRSFNREQVLQEIRDNCLENLQEAGVSEPPVFLVSNFDPSDYDFPKLRETLLKDLPAH  186 (197)
T ss_pred             CCCEEEEEecccchhhhhhccccccccHHHHHHHHHHHHHHHHHHcCCCCCCEEEEeCCChhhcChHHHHHHHHHHhhHH
Confidence            579999999999832101         1121    1111100  000123468999998  6899999999999988764


Q ss_pred             C
Q psy2977          91 T   91 (92)
Q Consensus        91 ~   91 (92)
                      +
T Consensus       187 ~  187 (197)
T cd04104         187 K  187 (197)
T ss_pred             H
Confidence            4

The p47 GTPase family consists of several highly homologous proteins, including IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1. They are found in higher eukaryotes where they play a role in immune resistance against intracellular pathogens. p47 proteins exist at low resting levels in mouse cells, but are strongly induced by Type II interferon (IFN-gamma). ITGP is critical for resistance to Toxoplasma gondii infection and in involved in inhibition of Coxsackievirus-B3-induced apoptosis. TGTP was shown to limit vesicular stomatitis virus (VSV) infection of fibroblasts in vitro. IRG-47 is involved in resistance to T. gondii infection. LRG-47 has been implicated in resistance to T. gondii, Listeria monocytogenes, Leishmania, and mycobacterial infections. IIGP1 has been shown to localize to the ER and to the Golgi membranes in IFN-induced cells and inflamed tissues. In macrophages, IIGP1 interacts with hook3, a microtubule binding protei

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=97.63  E-value=0.00011  Score=48.39  Aligned_cols=50  Identities=16%  Similarity=0.121  Sum_probs=29.8

Q ss_pred             CcEEEEeeCCCCCCCCC--HHHHHHhhcc--CCcCCCceEEEeeccccCCCHHH
Q psy2977          29 IPILVLGNKRDLPNALD--EKELIDRMNL--CAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~~--~~~~~~~~~~--~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      .++++++||+|+.+...  .+++.+.+..  ........+++++||++|+|+++
T Consensus       134 ~~iivviNK~D~~~~~~~~~~~i~~~~~~~~~~~~~~~~~iipiSA~~g~ni~~  187 (406)
T TIGR02034       134 RHVVLAVNKMDLVDYDEEVFENIKKDYLAFAEQLGFRDVTFIPLSALKGDNVVS  187 (406)
T ss_pred             CcEEEEEEecccccchHHHHHHHHHHHHHHHHHcCCCCccEEEeecccCCCCcc
Confidence            46889999999964221  1122222210  00011245799999999999986

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).

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

Probab=97.60  E-value=0.00018  Score=48.21  Aligned_cols=71  Identities=18%  Similarity=0.237  Sum_probs=47.5

Q ss_pred             HHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCC-----cCCCceEEEeeccccC----------CCHHH
Q psy2977          14 RNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCA-----IQDREICCYSISCKER----------DNIDI   78 (92)
Q Consensus        14 ~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~SA~~~----------~gi~~   78 (92)
                      +--+.+.+..    +.+.|+|.||+|.|.+.+.+.+.+.+.+..     ..+..++++..||+.|          .++..
T Consensus       110 rFVlkKAl~~----gL~PIVVvNKiDrp~Arp~~Vvd~vfDLf~~L~A~deQLdFPivYAS~~~G~a~~~~~~~~~~m~p  185 (603)
T COG1217         110 RFVLKKALAL----GLKPIVVINKIDRPDARPDEVVDEVFDLFVELGATDEQLDFPIVYASARNGTASLDPEDEADDMAP  185 (603)
T ss_pred             hhhHHHHHHc----CCCcEEEEeCCCCCCCCHHHHHHHHHHHHHHhCCChhhCCCcEEEeeccCceeccCccccccchhH
Confidence            3345555543    456689999999998776554444433211     1234678999999876          56888


Q ss_pred             HHHHHHHhhh
Q psy2977          79 TLQWLIAHSK   88 (92)
Q Consensus        79 ~~~~l~~~i~   88 (92)
                      +|+.|.+++.
T Consensus       186 Lfe~I~~hvp  195 (603)
T COG1217         186 LFETILDHVP  195 (603)
T ss_pred             HHHHHHHhCC
Confidence            9999988874

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=97.60  E-value=3.6e-05  Score=41.89  Aligned_cols=63  Identities=17%  Similarity=0.230  Sum_probs=39.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNID   77 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~   77 (92)
                      |+|.++.++++..  |...++.... .+.|.++++||.|+.....   +...        ....++++||++|.|+.
T Consensus        53 v~~~~~~~s~~~~--~~~~i~~~~k-~dl~~~~~~nk~dl~~~~~---~~~~--------~~~~~~~~s~~~~~~~~  115 (124)
T smart00010       53 CWRVDDRDSADNK--NVPEVLVGNK-SDLPILVGGNRDVLEEERQ---VATE--------EGLEFAETSAKTPEEGE  115 (124)
T ss_pred             EEEccCHHHHHHH--hHHHHHhcCC-CCCcEEEEeechhhHhhCc---CCHH--------HHHHHHHHhCCCcchhh
Confidence            3677777777654  6665554322 4688999999999843211   1111        11235789999999984

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

>PRK09602 translation-associated GTPase; Reviewed

Probab=97.57  E-value=0.00023  Score=46.86  Aligned_cols=54  Identities=22%  Similarity=0.223  Sum_probs=36.8

Q ss_pred             CCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH-HHHHHHHhh
Q psy2977          27 IGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI-TLQWLIAHS   87 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~-~~~~l~~~i   87 (92)
                      ..+|+++|+||.|+...  ...+......     ....++++||+.+.|+++ +.+.+.+.+
T Consensus       216 t~KPvI~VlNK~D~~~~--~~~l~~i~~~-----~~~~vvpISA~~e~~l~~~l~~~i~~~l  270 (396)
T PRK09602        216 ISKPMVIAANKADLPPA--EENIERLKEE-----KYYIVVPTSAEAELALRRAAKAGLIDYI  270 (396)
T ss_pred             cCCCEEEEEEchhcccc--hHHHHHHHhc-----CCCcEEEEcchhhhhHHHHHHHhHHhhC
Confidence            45899999999997521  1122222211     234589999999999999 677776654

>TIGR00484 EF-G translation elongation factor EF-G

Probab=97.51  E-value=0.0015  Score=45.86  Aligned_cols=26  Identities=8%  Similarity=0.025  Sum_probs=20.6

Q ss_pred             eEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          63 ICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        63 ~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      ++++..||.+|.|++.+++.|.+.+.
T Consensus       254 ~PV~~gSa~~~~Gv~~LLd~I~~~lP  279 (689)
T TIGR00484       254 FPVLCGSAFKNKGVQLLLDAVVDYLP  279 (689)
T ss_pred             EEEEeccccCCccHHHHHHHHHHHCC
Confidence            45677788888888888888887664

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.

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=97.50  E-value=4.1e-05  Score=51.28  Aligned_cols=51  Identities=20%  Similarity=0.161  Sum_probs=31.2

Q ss_pred             CcEEEEeeCCCCCCCCC--HHHHHHhhcc--CCcC-CCceEEEeeccccCCCHHHH
Q psy2977          29 IPILVLGNKRDLPNALD--EKELIDRMNL--CAIQ-DREICCYSISCKERDNIDIT   79 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~~--~~~~~~~~~~--~~~~-~~~~~~~~~SA~~~~gi~~~   79 (92)
                      .|+++++||+|+.+...  ..++.+.+..  .... ....+++++||++|.|++++
T Consensus       161 ~~iIvvvNKiD~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~iipvSA~~g~ni~~~  216 (474)
T PRK05124        161 KHLVVAVNKMDLVDYSEEVFERIREDYLTFAEQLPGNLDIRFVPLSALEGDNVVSQ  216 (474)
T ss_pred             CceEEEEEeeccccchhHHHHHHHHHHHHHHHhcCCCCCceEEEEEeecCCCcccc
Confidence            47899999999964211  2223322210  0000 12467999999999999764

>PLN03127 Elongation factor Tu; Provisional

Probab=97.49  E-value=0.00076  Score=45.09  Aligned_cols=61  Identities=21%  Similarity=0.205  Sum_probs=35.4

Q ss_pred             CCc-EEEEeeCCCCCCCCC-HH----HHHHhhccCCcCCCceEEEeeccc---cCCC-------HHHHHHHHHHhhh
Q psy2977          28 GIP-ILVLGNKRDLPNALD-EK----ELIDRMNLCAIQDREICCYSISCK---ERDN-------IDITLQWLIAHSK   88 (92)
Q Consensus        28 ~~p-~ilv~NK~Dl~~~~~-~~----~~~~~~~~~~~~~~~~~~~~~SA~---~~~g-------i~~~~~~l~~~i~   88 (92)
                      ++| +++++||+|+.+... .+    ++.+.+..........+++++||.   +|.|       +..++++|.+.+.
T Consensus       176 gip~iIvviNKiDlv~~~~~~~~i~~~i~~~l~~~~~~~~~vpiip~Sa~sa~~g~n~~~~~~~i~~Ll~~l~~~lp  252 (447)
T PLN03127        176 GVPSLVVFLNKVDVVDDEELLELVEMELRELLSFYKFPGDEIPIIRGSALSALQGTNDEIGKNAILKLMDAVDEYIP  252 (447)
T ss_pred             CCCeEEEEEEeeccCCHHHHHHHHHHHHHHHHHHhCCCCCcceEEEeccceeecCCCcccccchHHHHHHHHHHhCC
Confidence            578 578899999964211 11    222222111111224678888876   5555       7888888887653

>TIGR00503 prfC peptide chain release factor 3

Probab=97.48  E-value=0.0011  Score=45.22  Aligned_cols=26  Identities=12%  Similarity=0.002  Sum_probs=21.9

Q ss_pred             eEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          63 ICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        63 ~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      .+++..||.++.||+.+++.+.+.+.
T Consensus       250 ~PV~~GSA~~n~Gv~~LLd~i~~~~P  275 (527)
T TIGR00503       250 TPVFFGTALGNFGVDHFLDGLLQWAP  275 (527)
T ss_pred             eEEEEeecccCccHHHHHHHHHHHCC
Confidence            35688899999999999999988764

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.

>KOG1490|consensus

Probab=97.47  E-value=0.00017  Score=48.62  Aligned_cols=57  Identities=16%  Similarity=0.147  Sum_probs=38.5

Q ss_pred             CCCCcEEEEeeCCCCCCCCCHH----HHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHh
Q psy2977          26 LIGIPILVLGNKRDLPNALDEK----ELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAH   86 (92)
Q Consensus        26 ~~~~p~ilv~NK~Dl~~~~~~~----~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~   86 (92)
                      ..++|.|+|+||+|+....+..    ++.+.+.    ...+..++++|+.+.+||-++-....+.
T Consensus       279 FaNK~~IlvlNK~D~m~~edL~~~~~~ll~~~~----~~~~v~v~~tS~~~eegVm~Vrt~ACe~  339 (620)
T KOG1490|consen  279 FANKVTILVLNKIDAMRPEDLDQKNQELLQTII----DDGNVKVVQTSCVQEEGVMDVRTTACEA  339 (620)
T ss_pred             hcCCceEEEeecccccCccccCHHHHHHHHHHH----hccCceEEEecccchhceeeHHHHHHHH
Confidence            4679999999999985433322    2222221    2345789999999999998865544443

>KOG1144|consensus

Probab=97.44  E-value=0.0003  Score=49.48  Aligned_cols=28  Identities=14%  Similarity=0.140  Sum_probs=24.4

Q ss_pred             ceEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          62 EICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        62 ~~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      .+.++++||.+|+||.+++.||.+.-.+
T Consensus       661 ~vsiVPTSA~sGeGipdLl~llv~ltQk  688 (1064)
T KOG1144|consen  661 TVSIVPTSAISGEGIPDLLLLLVQLTQK  688 (1064)
T ss_pred             eEEeeecccccCCCcHHHHHHHHHHHHH
Confidence            4679999999999999999999887654

>PLN03126 Elongation factor Tu; Provisional

Probab=97.40  E-value=0.001  Score=44.79  Aligned_cols=48  Identities=21%  Similarity=0.220  Sum_probs=28.1

Q ss_pred             CCc-EEEEeeCCCCCCCCC-HH----HHHHhhccCCcCCCceEEEeeccccCCC
Q psy2977          28 GIP-ILVLGNKRDLPNALD-EK----ELIDRMNLCAIQDREICCYSISCKERDN   75 (92)
Q Consensus        28 ~~p-~ilv~NK~Dl~~~~~-~~----~~~~~~~~~~~~~~~~~~~~~SA~~~~g   75 (92)
                      ++| +++++||+|+.+... .+    ++...+..........+++++||.+|.+
T Consensus       196 gi~~iIvvvNK~Dl~~~~~~~~~i~~~i~~~l~~~g~~~~~~~~vp~Sa~~g~n  249 (478)
T PLN03126        196 GVPNMVVFLNKQDQVDDEELLELVELEVRELLSSYEFPGDDIPIISGSALLALE  249 (478)
T ss_pred             CCCeEEEEEecccccCHHHHHHHHHHHHHHHHHhcCCCcCcceEEEEEcccccc
Confidence            567 778999999964211 11    2233222111122357899999998853

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=97.39  E-value=0.00029  Score=43.38  Aligned_cols=57  Identities=19%  Similarity=0.207  Sum_probs=32.6

Q ss_pred             CCcEEEEeeCCCCCCCC---------CH-----------H----HHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHH
Q psy2977          28 GIPILVLGNKRDLPNAL---------DE-----------K----ELIDRMNLCAIQDREICCYSISCKERDNIDITLQWL   83 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~---------~~-----------~----~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l   83 (92)
                      +.|.+.|+||+|+....         +.           .    .+.+.+.   .......++++|+.+++|+++++..+
T Consensus       156 ~lP~vnvlsK~Dl~~~~~~~~l~~~~d~~~l~~~~~~~~~~l~~~i~~~l~---~~~~~~~f~pls~~~~~~~~~L~~~i  232 (238)
T PF03029_consen  156 ELPHVNVLSKIDLLSKYLEFILEWFEDPDSLEDLLESDYKKLNEEIAELLD---DFGLVIRFIPLSSKDGEGMEELLAAI  232 (238)
T ss_dssp             TSEEEEEE--GGGS-HHHHHHHHHHHSHHHHHHHHHT-HHHHHHHHHHHCC---CCSSS---EE-BTTTTTTHHHHHHHH
T ss_pred             CCCEEEeeeccCcccchhHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHh---hcCCCceEEEEECCChHHHHHHHHHH
Confidence            68999999999997511         00           1    1111111   01122379999999999999999988


Q ss_pred             HHhh
Q psy2977          84 IAHS   87 (92)
Q Consensus        84 ~~~i   87 (92)
                      -+.+
T Consensus       233 d~a~  236 (238)
T PF03029_consen  233 DKAN  236 (238)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            7654

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

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

Probab=97.39  E-value=0.00027  Score=46.76  Aligned_cols=56  Identities=14%  Similarity=0.039  Sum_probs=38.5

Q ss_pred             cEEEEeeCCCCCCCCCHHHHHHhh-ccCCcCCCceEEEeeccccCCCHHHHHHHHHHhh
Q psy2977          30 PILVLGNKRDLPNALDEKELIDRM-NLCAIQDREICCYSISCKERDNIDITLQWLIAHS   87 (92)
Q Consensus        30 p~ilv~NK~Dl~~~~~~~~~~~~~-~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i   87 (92)
                      ..++|+||+|..+....++..+.. +.-.  -...++|.+||++|+||+++-..|.+..
T Consensus       105 ~giivltk~D~~d~~r~e~~i~~Il~~l~--l~~~~i~~~s~~~g~GI~~Lk~~l~~L~  161 (447)
T COG3276         105 NGIIVLTKADRVDEARIEQKIKQILADLS--LANAKIFKTSAKTGRGIEELKNELIDLL  161 (447)
T ss_pred             ceEEEEeccccccHHHHHHHHHHHHhhcc--cccccccccccccCCCHHHHHHHHHHhh
Confidence            349999999997543333222221 1111  2245679999999999999999999887

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

Probab=97.29  E-value=0.00026  Score=49.04  Aligned_cols=50  Identities=18%  Similarity=0.187  Sum_probs=29.6

Q ss_pred             CcEEEEeeCCCCCCCCC--HHHHHHhhcc--CCcCCCceEEEeeccccCCCHHH
Q psy2977          29 IPILVLGNKRDLPNALD--EKELIDRMNL--CAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~~--~~~~~~~~~~--~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      .|+++++||+|+.+...  .+++...+..  ........+++++||++|.|+++
T Consensus       158 ~~iivvvNK~D~~~~~~~~~~~i~~~i~~~~~~~~~~~~~iipiSA~~g~ni~~  211 (632)
T PRK05506        158 RHVVLAVNKMDLVDYDQEVFDEIVADYRAFAAKLGLHDVTFIPISALKGDNVVT  211 (632)
T ss_pred             CeEEEEEEecccccchhHHHHHHHHHHHHHHHHcCCCCccEEEEecccCCCccc
Confidence            57889999999964111  1222222210  00111235689999999999974

>cd04167 Snu114p Snu114p subfamily

Probab=97.24  E-value=0.00032  Score=42.18  Aligned_cols=36  Identities=25%  Similarity=0.303  Sum_probs=22.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLP   41 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~   41 (92)
                      |+|+++..+... ..++.....    .++|+++|+||+|+.
T Consensus       101 VvD~~~~~~~~~-~~~~~~~~~----~~~p~iiviNK~D~~  136 (213)
T cd04167         101 VVDVVEGVTSNT-ERLIRHAIL----EGLPIVLVINKIDRL  136 (213)
T ss_pred             EEECCCCCCHHH-HHHHHHHHH----cCCCEEEEEECcccC
Confidence            467776544322 233333322    248999999999975

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.

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=97.20  E-value=0.0008  Score=39.48  Aligned_cols=16  Identities=25%  Similarity=0.160  Sum_probs=13.6

Q ss_pred             CCCcEEEEeeCCCCCC
Q psy2977          27 IGIPILVLGNKRDLPN   42 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~   42 (92)
                      .++|+++|+||+|+.+
T Consensus        29 ~~kp~IlVlNK~DL~~   44 (172)
T cd04178          29 GNKKLVLVLNKIDLVP   44 (172)
T ss_pred             CCCCEEEEEehhhcCC
Confidence            3589999999999963

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

>PRK12739 elongation factor G; Reviewed

Probab=97.16  E-value=0.0044  Score=43.55  Aligned_cols=26  Identities=8%  Similarity=-0.044  Sum_probs=22.7

Q ss_pred             eEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          63 ICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        63 ~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      ++++..||.++.|++.+++.|.+.+.
T Consensus       253 ~Pv~~gSa~~~~Gv~~LLd~I~~~lP  278 (691)
T PRK12739        253 FPVLCGSAFKNKGVQPLLDAVVDYLP  278 (691)
T ss_pred             EEEEeccccCCccHHHHHHHHHHHCC
Confidence            46788899999999999999998774

>COG1084 Predicted GTPase [General function prediction only]

Probab=97.15  E-value=0.002  Score=41.44  Aligned_cols=78  Identities=21%  Similarity=0.156  Sum_probs=48.5

Q ss_pred             eeCCch--hhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           2 VDAADT--DKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         2 ~D~s~~--~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      +|.|..  -+++.-...++++...   -..|+++|+||+|+.+....+++...+..    ........+|+..+.+++.+
T Consensus       255 ~D~Se~cgy~lE~Q~~L~~eIk~~---f~~p~v~V~nK~D~~~~e~~~~~~~~~~~----~~~~~~~~~~~~~~~~~d~~  327 (346)
T COG1084         255 FDPSETCGYSLEEQISLLEEIKEL---FKAPIVVVINKIDIADEEKLEEIEASVLE----EGGEEPLKISATKGCGLDKL  327 (346)
T ss_pred             EcCccccCCCHHHHHHHHHHHHHh---cCCCeEEEEecccccchhHHHHHHHHHHh----hccccccceeeeehhhHHHH
Confidence            566632  2344444445555433   23899999999999755444555444321    12233567889999999988


Q ss_pred             HHHHHHh
Q psy2977          80 LQWLIAH   86 (92)
Q Consensus        80 ~~~l~~~   86 (92)
                      -..+...
T Consensus       328 ~~~v~~~  334 (346)
T COG1084         328 REEVRKT  334 (346)
T ss_pred             HHHHHHH
Confidence            7776665

>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1)

Probab=97.13  E-value=0.00089  Score=32.35  Aligned_cols=36  Identities=19%  Similarity=0.313  Sum_probs=17.7

Q ss_pred             eeCCch--hhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCC
Q psy2977           2 VDAADT--DKLEASRNELHALIEKPQLIGIPILVLGNKRD   39 (92)
Q Consensus         2 ~D~s~~--~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D   39 (92)
                      +|.|..  -++++-...++++...  ..++|+++|+||+|
T Consensus        21 ~D~Se~CGysie~Q~~L~~~ik~~--F~~~P~i~V~nK~D   58 (58)
T PF06858_consen   21 IDPSEQCGYSIEEQLSLFKEIKPL--FPNKPVIVVLNKID   58 (58)
T ss_dssp             E-TT-TTSS-HHHHHHHHHHHHHH--TTTS-EEEEE--TT
T ss_pred             EcCCCCCCCCHHHHHHHHHHHHHH--cCCCCEEEEEeccC
Confidence            566632  2344433445555432  35799999999998

The NOG1 family includes eukaryotic, bacterial and archaeal proteins. In Saccharomyces cerevisiae, the NOG1 gene has been shown to be essential for cell viability, suggesting that NOG1 may play an important role in nucleolar functions. In particular, NOG1 is believed to be functionally linked to ribosome biogenesis, which occurs in the nucleolus. In eukaryotes, NOG1 mutants were found to disrupt the biogenesis of the 60S ribosomal subunit []. The DRG and OBG proteins as well as the prokaryotic NOG-like proteins are homologous throughout their length to the amino half of eukaryotic NOG1, which contains the GTP binding motifs (IPR006073 from INTERPRO); the N-terminal GTP-binding motif is required for function.; GO: 0005525 GTP binding; PDB: 2E87_A.

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

Probab=97.06  E-value=0.0011  Score=43.79  Aligned_cols=49  Identities=24%  Similarity=0.337  Sum_probs=31.3

Q ss_pred             CcEEEEeeCCCCCCCCCHH---HHHHhhcc----CCcCCCceEEEeeccccCCCHHH
Q psy2977          29 IPILVLGNKRDLPNALDEK---ELIDRMNL----CAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~~~~---~~~~~~~~----~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      ..++++.||+|+++ .+.+   ++...+..    ......+.+|++|||.+|.|+.+
T Consensus       146 ~~lIVavNKMD~v~-wde~rf~ei~~~v~~l~k~~G~~~~~v~FIPiSg~~G~Nl~~  201 (428)
T COG5256         146 KQLIVAVNKMDLVS-WDEERFEEIVSEVSKLLKMVGYNPKDVPFIPISGFKGDNLTK  201 (428)
T ss_pred             ceEEEEEEcccccc-cCHHHHHHHHHHHHHHHHHcCCCccCCeEEecccccCCcccc
Confidence            45789999999985 4432   33332211    11112257899999999999865

>PRK00007 elongation factor G; Reviewed

Probab=97.02  E-value=0.0081  Score=42.31  Aligned_cols=26  Identities=8%  Similarity=-0.017  Sum_probs=22.6

Q ss_pred             eEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          63 ICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        63 ~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      ++++..||.++.|++.+++.+.+.+.
T Consensus       255 ~Pv~~gSa~~~~Gv~~LLd~I~~~lP  280 (693)
T PRK00007        255 VPVLCGSAFKNKGVQPLLDAVVDYLP  280 (693)
T ss_pred             EEEEecccccCcCHHHHHHHHHHHCC
Confidence            46778899999999999999998774

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=96.92  E-value=0.0033  Score=41.58  Aligned_cols=57  Identities=12%  Similarity=0.198  Sum_probs=35.6

Q ss_pred             CCcEEEEeeCCCCCCCCCH----HHHHHhhccC--------------------CcCCCceEEEeeccccCCCHHHHHHHH
Q psy2977          28 GIPILVLGNKRDLPNALDE----KELIDRMNLC--------------------AIQDREICCYSISCKERDNIDITLQWL   83 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~----~~~~~~~~~~--------------------~~~~~~~~~~~~SA~~~~gi~~~~~~l   83 (92)
                      +.|++++.+|+|+.+....    +++...+..-                    .....-.++|.+||.||+|++-+.+.+
T Consensus       255 ~lPviVvvTK~D~~~ddr~~~v~~ei~~~Lk~v~Rip~~vk~~~d~v~aa~a~k~~~~vvPi~~tSsVTg~GldlL~e~f  334 (527)
T COG5258         255 ELPVIVVVTKIDMVPDDRFQGVVEEISALLKRVGRIPLIVKDTDDVVLAAKAMKAGRGVVPIFYTSSVTGEGLDLLDEFF  334 (527)
T ss_pred             cCCEEEEEEecccCcHHHHHHHHHHHHHHHHHhcccceeeeccchhHHhhhhhhcCCceEEEEEEecccCccHHHHHHHH
Confidence            5899999999999754322    2333322110                    001123589999999999988555444


Q ss_pred             H
Q psy2977          84 I   84 (92)
Q Consensus        84 ~   84 (92)
                      .
T Consensus       335 ~  335 (527)
T COG5258         335 L  335 (527)
T ss_pred             H
Confidence            3

>KOG1707|consensus

Probab=96.87  E-value=0.0096  Score=41.01  Aligned_cols=76  Identities=20%  Similarity=0.279  Sum_probs=49.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC-----CCHHHHHHhhccCCcCCCceEEEeeccccCCC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA-----LDEKELIDRMNLCAIQDREICCYSISCKERDN   75 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~g   75 (92)
                      +||++++.+|+-.....+....   ....|+++|+.|+|+.+.     ...+++...+++..       .+.+|.++...
T Consensus       502 ~YDsS~p~sf~~~a~v~~~~~~---~~~~Pc~~va~K~dlDe~~Q~~~iqpde~~~~~~i~~-------P~~~S~~~~~s  571 (625)
T KOG1707|consen  502 VYDSSNPRSFEYLAEVYNKYFD---LYKIPCLMVATKADLDEVPQRYSIQPDEFCRQLGLPP-------PIHISSKTLSS  571 (625)
T ss_pred             ecccCCchHHHHHHHHHHHhhh---ccCCceEEEeeccccchhhhccCCChHHHHHhcCCCC-------CeeeccCCCCC
Confidence            5899999998776554443322   257899999999999642     23455555554321       34556664222


Q ss_pred             HHHHHHHHHHhh
Q psy2977          76 IDITLQWLIAHS   87 (92)
Q Consensus        76 i~~~~~~l~~~i   87 (92)
                       .++|..|+.+.
T Consensus       572 -~~lf~kL~~~A  582 (625)
T KOG1707|consen  572 -NELFIKLATMA  582 (625)
T ss_pred             -chHHHHHHHhh
Confidence             78888887764

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

Probab=96.86  E-value=0.0067  Score=38.05  Aligned_cols=41  Identities=15%  Similarity=0.104  Sum_probs=24.7

Q ss_pred             CCCcEEEEeeCCCCCCCCC---HHHHHHhhccCCcCCCceEEEeeccc
Q psy2977          27 IGIPILVLGNKRDLPNALD---EKELIDRMNLCAIQDREICCYSISCK   71 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~---~~~~~~~~~~~~~~~~~~~~~~~SA~   71 (92)
                      .++|+++++||+|+.+...   .+++.+.++..    .....+++||.
T Consensus       115 ~~~p~ivviNK~D~~~a~~~~~~~~l~~~l~~~----~~~~~~Pisa~  158 (270)
T cd01886         115 YNVPRIAFVNKMDRTGADFFRVVEQIREKLGAN----PVPLQLPIGEE  158 (270)
T ss_pred             cCCCEEEEEECCCCCCCCHHHHHHHHHHHhCCC----ceEEEeccccC
Confidence            3589999999999975321   34455554422    11235666665

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

>KOG0082|consensus

Probab=96.78  E-value=0.011  Score=38.58  Aligned_cols=83  Identities=13%  Similarity=0.197  Sum_probs=56.4

Q ss_pred             hhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC-----------------CCHHHHHHhhc-----cCCcCCCceEE
Q psy2977           8 DKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA-----------------LDEKELIDRMN-----LCAIQDREICC   65 (92)
Q Consensus         8 ~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~-----------------~~~~~~~~~~~-----~~~~~~~~~~~   65 (92)
                      .++.++...++.+.+++-..+.++++.+||.||-..                 .+.++....+.     +..-..+.+-+
T Consensus       242 NRM~eS~~LF~sI~n~~~F~~tsiiLFLNK~DLFeEKi~~~~~~~~Fpdy~G~~~~~~a~~yI~~kF~~l~~~~~k~iy~  321 (354)
T KOG0082|consen  242 NRMHESLKLFESICNNKWFANTSIILFLNKKDLFEEKIKKVPLTDCFPDYKGVNTYEEAAKYIRKKFEELNKNKDKKIYV  321 (354)
T ss_pred             hHHHHHHHHHHHHhcCcccccCcEEEEeecHHHHHHHhccCchhhhCcCCCCCCChHHHHHHHHHHHHHHhcccCCcceE
Confidence            466777788889988877788999999999998321                 11222222111     11111245556


Q ss_pred             EeeccccCCCHHHHHHHHHHhhhhc
Q psy2977          66 YSISCKERDNIDITLQWLIAHSKSH   90 (92)
Q Consensus        66 ~~~SA~~~~gi~~~~~~l~~~i~~~   90 (92)
                      ..++|..-.+|+.+|..+.+.+.++
T Consensus       322 h~T~AtDT~nv~~vf~av~d~Ii~~  346 (354)
T KOG0082|consen  322 HFTCATDTQNVQFVFDAVTDTIIQN  346 (354)
T ss_pred             EEEeeccHHHHHHHHHHHHHHHHHH
Confidence            7789999999999999999888653

>KOG0461|consensus

Probab=96.71  E-value=0.0026  Score=41.53  Aligned_cols=61  Identities=15%  Similarity=0.054  Sum_probs=39.1

Q ss_pred             CcEEEEeeCCCCCCCCC----HHHHHHhhc--cCCc-CCCceEEEeeccccC----CCHHHHHHHHHHhhhh
Q psy2977          29 IPILVLGNKRDLPNALD----EKELIDRMN--LCAI-QDREICCYSISCKER----DNIDITLQWLIAHSKS   89 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~~----~~~~~~~~~--~~~~-~~~~~~~~~~SA~~~----~gi~~~~~~l~~~i~~   89 (92)
                      ...++|+||+|+..+..    .+.......  +..- -..+.+++++||+.|    ++|.++.+.|...+..
T Consensus       123 ~klvvvinkid~lpE~qr~ski~k~~kk~~KtLe~t~f~g~~PI~~vsa~~G~~~~~~i~eL~e~l~s~if~  194 (522)
T KOG0461|consen  123 KKLVVVINKIDVLPENQRASKIEKSAKKVRKTLESTGFDGNSPIVEVSAADGYFKEEMIQELKEALESRIFE  194 (522)
T ss_pred             cceEEEEeccccccchhhhhHHHHHHHHHHHHHHhcCcCCCCceeEEecCCCccchhHHHHHHHHHHHhhcC
Confidence            46788999999754321    122222211  1110 134578999999999    8999999988888754

>KOG1191|consensus

Probab=96.69  E-value=0.0046  Score=41.75  Aligned_cols=59  Identities=15%  Similarity=0.161  Sum_probs=37.1

Q ss_pred             CCcEEEEeeCCCCCCCCCHHH--HHHhhccCCcCCCceE-EEeeccccCCCHHHHHHHHHHhhh
Q psy2977          28 GIPILVLGNKRDLPNALDEKE--LIDRMNLCAIQDREIC-CYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~~--~~~~~~~~~~~~~~~~-~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      ..|++++.||+|+....+.-.  ...+... .. ...++ +.++|++|++|++.+...|.+.+.
T Consensus       389 ~~~~i~~~nk~D~~s~~~~~~~~~~~~~~~-~~-~~~~~i~~~vs~~tkeg~~~L~~all~~~~  450 (531)
T KOG1191|consen  389 KQRIILVANKSDLVSKIPEMTKIPVVYPSA-EG-RSVFPIVVEVSCTTKEGCERLSTALLNIVE  450 (531)
T ss_pred             ccceEEEechhhccCccccccCCceecccc-cc-CcccceEEEeeechhhhHHHHHHHHHHHHH
Confidence            479999999999965322100  0001110 00 11233 455999999999999999988764

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

Probab=96.64  E-value=0.0022  Score=41.80  Aligned_cols=49  Identities=18%  Similarity=0.206  Sum_probs=30.2

Q ss_pred             CcEEEEeeCCCCCCCCC--HHHHHHhh-ccC-CcCCCceEEEeeccccCCCHH
Q psy2977          29 IPILVLGNKRDLPNALD--EKELIDRM-NLC-AIQDREICCYSISCKERDNID   77 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~~--~~~~~~~~-~~~-~~~~~~~~~~~~SA~~~~gi~   77 (92)
                      ..+++..||+||.+...  .++|...+ .+. .+......++++||+.|.||-
T Consensus       140 rhvvvAVNKmDLvdy~e~~F~~I~~dy~~fa~~L~~~~~~~IPiSAl~GDNV~  192 (431)
T COG2895         140 RHVVVAVNKMDLVDYSEEVFEAIVADYLAFAAQLGLKDVRFIPISALLGDNVV  192 (431)
T ss_pred             cEEEEEEeeecccccCHHHHHHHHHHHHHHHHHcCCCcceEEechhccCCccc
Confidence            46788899999986421  22333222 111 112234579999999999974

>KOG0410|consensus

Probab=96.58  E-value=0.0015  Score=42.24  Aligned_cols=75  Identities=20%  Similarity=0.196  Sum_probs=47.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCc----EEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIP----ILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p----~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      |+|+|.|+.-.. +.....+++..+.++.|    ++=|-||+|.......++           .  ...+.+||++|+|+
T Consensus       264 vvDiShP~ae~q-~e~Vl~vL~~igv~~~pkl~~mieVdnkiD~e~~~~e~E-----------~--n~~v~isaltgdgl  329 (410)
T KOG0410|consen  264 VVDISHPNAEEQ-RETVLHVLNQIGVPSEPKLQNMIEVDNKIDYEEDEVEEE-----------K--NLDVGISALTGDGL  329 (410)
T ss_pred             EeecCCccHHHH-HHHHHHHHHhcCCCcHHHHhHHHhhccccccccccCccc-----------c--CCccccccccCccH
Confidence            578998854332 34455566655555444    455678888653221110           1  11578999999999


Q ss_pred             HHHHHHHHHhhhh
Q psy2977          77 DITLQWLIAHSKS   89 (92)
Q Consensus        77 ~~~~~~l~~~i~~   89 (92)
                      ++++..+-..+..
T Consensus       330 ~el~~a~~~kv~~  342 (410)
T KOG0410|consen  330 EELLKAEETKVAS  342 (410)
T ss_pred             HHHHHHHHHHhhh
Confidence            9999988776543

>KOG3905|consensus

Probab=96.57  E-value=0.0029  Score=41.02  Aligned_cols=60  Identities=25%  Similarity=0.335  Sum_probs=40.4

Q ss_pred             CCcEEEEeeCCCCCCCCC---------HHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          28 GIPILVLGNKRDLPNALD---------EKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      ++|+++|++|+|......         .+-+...+.... ..++..+|.+|++...|++-+...|+..+.
T Consensus       222 Gi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lRkFC-Lr~GaaLiyTSvKE~KNidllyKYivhr~y  290 (473)
T KOG3905|consen  222 GIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLRKFC-LRYGAALIYTSVKETKNIDLLYKYIVHRSY  290 (473)
T ss_pred             CCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHHHHH-HHcCceeEEeecccccchHHHHHHHHHHhc
Confidence            589999999999832111         111222221111 235677999999999999999999987764

>cd04169 RF3 RF3 subfamily

Probab=96.49  E-value=0.0035  Score=39.23  Aligned_cols=28  Identities=29%  Similarity=0.355  Sum_probs=20.1

Q ss_pred             CCCcEEEEeeCCCCCCCCC---HHHHHHhhc
Q psy2977          27 IGIPILVLGNKRDLPNALD---EKELIDRMN   54 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~---~~~~~~~~~   54 (92)
                      .++|+++++||+|+.....   .+++.+.++
T Consensus       122 ~~~P~iivvNK~D~~~a~~~~~~~~l~~~l~  152 (267)
T cd04169         122 RGIPIITFINKLDREGRDPLELLDEIEEELG  152 (267)
T ss_pred             cCCCEEEEEECCccCCCCHHHHHHHHHHHHC
Confidence            3689999999999876533   345666554

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.

>KOG0458|consensus

Probab=96.21  E-value=0.0042  Score=42.62  Aligned_cols=50  Identities=20%  Similarity=0.287  Sum_probs=32.8

Q ss_pred             CcEEEEeeCCCCCCCCC---HHHHHHhhc-----cCCcCCCceEEEeeccccCCCHHHH
Q psy2977          29 IPILVLGNKRDLPNALD---EKELIDRMN-----LCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~~---~~~~~~~~~-----~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      .-++|+.||+|+.+ .+   .++|...+.     ...+....+.|++||+.+|+|+-..
T Consensus       316 ~qlivaiNKmD~V~-Wsq~RF~eIk~~l~~fL~~~~gf~es~v~FIPiSGl~GeNL~k~  373 (603)
T KOG0458|consen  316 SQLIVAINKMDLVS-WSQDRFEEIKNKLSSFLKESCGFKESSVKFIPISGLSGENLIKI  373 (603)
T ss_pred             ceEEEEeecccccC-ccHHHHHHHHHHHHHHHHHhcCcccCCcceEecccccCCccccc
Confidence            46789999999974 23   234443332     1223344678999999999997543

>KOG0466|consensus

Probab=96.11  E-value=0.0081  Score=38.76  Aligned_cols=58  Identities=19%  Similarity=0.256  Sum_probs=39.7

Q ss_pred             CcEEEEeeCCCCCCCCCH----HHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          29 IPILVLGNKRDLPNALDE----KELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~~~----~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      +.++++-||+||......    +++..... .. ...+.+++++||.-+.||+-+.+.+.+.+.
T Consensus       180 khiiilQNKiDli~e~~A~eq~e~I~kFi~-~t-~ae~aPiiPisAQlkyNId~v~eyivkkIP  241 (466)
T KOG0466|consen  180 KHIIILQNKIDLIKESQALEQHEQIQKFIQ-GT-VAEGAPIIPISAQLKYNIDVVCEYIVKKIP  241 (466)
T ss_pred             ceEEEEechhhhhhHHHHHHHHHHHHHHHh-cc-ccCCCceeeehhhhccChHHHHHHHHhcCC
Confidence            468999999999743221    12222221 00 112467999999999999999999998774

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

Probab=96.09  E-value=0.0062  Score=37.93  Aligned_cols=17  Identities=41%  Similarity=0.557  Sum_probs=14.4

Q ss_pred             CCCcEEEEeeCCCCCCC
Q psy2977          27 IGIPILVLGNKRDLPNA   43 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~   43 (92)
                      .++|.++++||+|+...
T Consensus       115 ~~~p~iivvNK~D~~~~  131 (268)
T cd04170         115 AGIPRIIFINKMDRERA  131 (268)
T ss_pred             cCCCEEEEEECCccCCC
Confidence            36899999999998754

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

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=96.08  E-value=0.011  Score=40.01  Aligned_cols=61  Identities=23%  Similarity=0.316  Sum_probs=41.0

Q ss_pred             CCcEEEEeeCCCCCCCC------CH---HHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          28 GIPILVLGNKRDLPNAL------DE---KELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~------~~---~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      ++|++||++|+|.....      ..   +-+...+... +..++..+|.||++...+++-++..|...+..
T Consensus       196 Gipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~~-cL~yGAsL~yts~~~~~n~~~L~~yi~h~l~~  265 (472)
T PF05783_consen  196 GIPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRTF-CLKYGASLIYTSVKEEKNLDLLYKYILHRLYG  265 (472)
T ss_pred             CcceEEEEecccHHHHHhhhcccchhhHHHHHHHHHHH-HHhcCCeEEEeeccccccHHHHHHHHHHHhcc
Confidence            48999999999974211      11   1222222211 12456789999999999999999888877653

The light intermediate chains (LICs) of cytoplasmic dynein consist of multiple isoforms, which undergo post-translational modification to produce a large number of species. DLIC1 is known to be involved in assembly, organisation, and function of centrosomes and mitotic spindles when bound to pericentrin [, ]. DLIC2 is a subunit of cytoplasmic dynein 2 that may play a role in maintaining Golgi organisation by binding cytoplasmic dynein 2 to its Golgi-associated cargo [].

>COG1161 Predicted GTPases [General function prediction only]

Probab=95.89  E-value=0.0079  Score=38.70  Aligned_cols=49  Identities=22%  Similarity=0.124  Sum_probs=28.3

Q ss_pred             CCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977          28 GIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      +.|.++|+||.||.+....+...+.+..    ..+...+.+|++.+.|...+.
T Consensus        61 ~k~~i~vlNK~DL~~~~~~~~W~~~~~~----~~~~~~~~v~~~~~~~~~~i~  109 (322)
T COG1161          61 EKPKLLVLNKADLAPKEVTKKWKKYFKK----EEGIKPIFVSAKSRQGGKKIR  109 (322)
T ss_pred             cCCcEEEEehhhcCCHHHHHHHHHHHHh----cCCCccEEEEeecccCccchH
Confidence            3566999999999753333344444431    113445666777666555444

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=95.88  E-value=0.017  Score=35.25  Aligned_cols=36  Identities=19%  Similarity=0.190  Sum_probs=21.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLP   41 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~   41 (92)
                      |+|+++...... ...+.....    .++|+++++||+|+.
T Consensus       103 VvD~~~g~~~~t-~~~l~~~~~----~~~p~ilviNKiD~~  138 (222)
T cd01885         103 VVDAVEGVCVQT-ETVLRQALK----ERVKPVLVINKIDRL  138 (222)
T ss_pred             EEECCCCCCHHH-HHHHHHHHH----cCCCEEEEEECCCcc
Confidence            467775433322 233333332    257999999999985

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

>KOG1424|consensus

Probab=95.78  E-value=0.0091  Score=40.60  Aligned_cols=63  Identities=17%  Similarity=0.128  Sum_probs=37.3

Q ss_pred             eeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeecccc
Q psy2977           2 VDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKE   72 (92)
Q Consensus         2 ~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~   72 (92)
                      +|+-+|--|-.  .-++.+.... ...+..+|+.||.||..........+++.     ..+++++.-||..
T Consensus       182 VDARnPllfr~--~dLe~Yvke~-d~~K~~~LLvNKaDLl~~~qr~aWa~YF~-----~~ni~~vf~SA~~  244 (562)
T KOG1424|consen  182 VDARNPLLFRS--PDLEDYVKEV-DPSKANVLLVNKADLLPPEQRVAWAEYFR-----QNNIPVVFFSALA  244 (562)
T ss_pred             eecCCccccCC--hhHHHHHhcc-ccccceEEEEehhhcCCHHHHHHHHHHHH-----hcCceEEEEeccc
Confidence            56655543322  1244444332 23477899999999975444445555654     3457788888875

>cd01882 BMS1 Bms1

Probab=95.68  E-value=0.013  Score=35.77  Aligned_cols=47  Identities=13%  Similarity=0.049  Sum_probs=25.1

Q ss_pred             CCcE-EEEeeCCCCCCCC-CHHHHHHhhcc--CCcCCCceEEEeeccccCC
Q psy2977          28 GIPI-LVLGNKRDLPNAL-DEKELIDRMNL--CAIQDREICCYSISCKERD   74 (92)
Q Consensus        28 ~~p~-ilv~NK~Dl~~~~-~~~~~~~~~~~--~~~~~~~~~~~~~SA~~~~   74 (92)
                      +.|. ++|+||+|+.... ..+++.+.+..  ........+++.+||++.-
T Consensus       132 g~p~vi~VvnK~D~~~~~~~~~~~~~~l~~~~~~~~~~~~ki~~iSa~~~~  182 (225)
T cd01882         132 GFPRVMGVLTHLDLFKKNKTLRKTKKRLKHRFWTEVYQGAKLFYLSGIVHG  182 (225)
T ss_pred             CCCeEEEEEeccccCCcHHHHHHHHHHHHHHHHHhhCCCCcEEEEeeccCC
Confidence            4674 4599999986321 12222222211  0001123579999999873

Bms1 is an essential, evolutionarily conserved, nucleolar protein. Its depletion interferes with processing of the 35S pre-rRNA at sites A0, A1, and A2, and the formation of 40S subunits. Bms1, the putative endonuclease Rc11, and the essential U3 small nucleolar RNA form a stable subcomplex that is believed to control an early step in the formation of the 40S subumit. The C-terminal domain of Bms1 contains a GTPase-activating protein (GAP) that functions intramolecularly. It is believed that Rc11 activates Bms1 by acting as a guanine-nucleotide exchange factor (GEF) to promote GDP/GTP exchange, and that activated (GTP-bound) Bms1 delivers Rc11 to the preribosomes.

>PF00503 G-alpha: G-protein alpha subunit; InterPro: IPR001019 Guanine nucleotide binding proteins (G proteins) are membrane-associated, heterotrimeric proteins composed of three subunits: alpha (IPR001019 from INTERPRO), beta (IPR001632 from INTERPRO) and gamma (IPR001770 from INTERPRO) []

Probab=95.66  E-value=0.02  Score=37.61  Aligned_cols=80  Identities=21%  Similarity=0.248  Sum_probs=51.9

Q ss_pred             hhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC------C--------------CCHHHHHHhhc-----cCCcCC--
Q psy2977           8 DKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN------A--------------LDEKELIDRMN-----LCAIQD--   60 (92)
Q Consensus         8 ~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~------~--------------~~~~~~~~~~~-----~~~~~~--   60 (92)
                      .++.++...+..+.+.+-..+.|++|++||.|+..      .              .+.+.....+.     ......  
T Consensus       283 nrl~esl~lF~~i~~~~~~~~~~iil~lnK~D~f~~Kl~~~~~l~~~fp~y~g~~~~~~~~~~~~i~~~f~~~~~~~~~~  362 (389)
T PF00503_consen  283 NRLHESLNLFESICNNPWFKNTPIILFLNKIDLFEEKLKKGPKLSKYFPDYTGDRPNDVDSAIKFIKNKFLRLNRNNSPS  362 (389)
T ss_dssp             BHHHHHHHHHHHHHTSGGGTTSEEEEEEE-HHHHHHHTTTSSCGGGTSTTGGSH-TSSHHHHHHHHHHHHHCTHSTTTTC
T ss_pred             HHHHHHHHHHHHHHhCcccccCceEEeeecHHHHHHHccCCCchHhhCCCCCCCcccCHHHHHHHHHHHHHHhccCCCCC
Confidence            46778888889998877677899999999999621      1              11122222211     111111  


Q ss_pred             CceEEEeeccccCCCHHHHHHHHHHhh
Q psy2977          61 REICCYSISCKERDNIDITLQWLIAHS   87 (92)
Q Consensus        61 ~~~~~~~~SA~~~~gi~~~~~~l~~~i   87 (92)
                      +.+.+..|+|.+..++..+|..+.+.|
T Consensus       363 ~~~~~h~t~a~d~~~~~~v~~~v~~~i  389 (389)
T PF00503_consen  363 RRIYVHFTCATDTENIRKVFNAVKDII  389 (389)
T ss_dssp             S-EEEEEESTTSHHHHHHHHHHHHHHH
T ss_pred             cceEEEEeeecccHHHHHHHHHhcCcC
Confidence            456677899999999999998887654

G proteins and their receptors (GPCRs) form one of the most prevalent signalling systems in mammalian cells, regulating systems as diverse as sensory perception, cell growth and hormonal regulation []. At the cell surface, the binding of ligands such as hormones and neurotransmitters to a GPCR activates the receptor by causing a conformational change, which in turn activates the bound G protein on the intracellular-side of the membrane. The activated receptor promotes the exchange of bound GDP for GTP on the G protein alpha subunit. GTP binding changes the conformation of switch regions within the alpha subunit, which allows the bound trimeric G protein (inactive) to be released from the receptor, and to dissociate into active alpha subunit (GTP-bound) and beta/gamma dimer. The alpha subunit and the beta/gamma dimer go on to activate distinct downstream effectors, such as adenylyl cyclase, phosphodiesterases, phospholipase C, and ion channels. These effectors in turn regulate the intracellular concentrations of secondary messengers, such as cAMP, diacylglycerol, sodium or calcium cations, which ultimately lead to a physiological response, usually via the downstream regulation of gene transcription. The cycle is completed by the hydrolysis of alpha subunit-bound GTP to GDP, resulting in the re-association of the alpha and beta/gamma subunits and their binding to the receptor, which terminates the signal []. The length of the G protein signal is controlled by the duration of the GTP-bound alpha subunit, which can be regulated by RGS (regulator of G protein signalling) proteins (IPR000342 from INTERPRO) or by covalent modifications []. There are several isoforms of each subunit, many of which have splice variants, which together can make up hundreds of combinations of G proteins. The specific combination of subunits in heterotrimeric G proteins affects not only which receptor it can bind to, but also which downstream target is affected, providing the means to target specific physiological processes in response to specific external stimuli [, ]. G proteins carry lipid modifications on one or more of their subunits to target them to the plasma membrane and to contribute to protein interactions. This family consists of the G protein alpha subunit, which acts as a weak GTPase. G protein classes are defined based on the sequence and function of their alpha subunits, which in mammals fall into four main categories: G(S)alpha, G(Q)alpha, G(I)alpha and G(12)alpha; there are also fungal and plant classes of alpha subunits. The alpha subunit consists of two domains: a GTP-binding domain and a helical insertion domain (IPR011025 from INTERPRO). The GTP-binding domain is homologous to Ras-like small GTPases, and includes switch regions I and II, which change conformation during activation. The switch regions are loops of alpha-helices with conformations sensitive to guanine nucleotides. The helical insertion domain is inserted into the GTP-binding domain before switch region I and is unique to heterotrimeric G proteins. This helical insertion domain functions to sequester the guanine nucleotide at the interface with the GTP-binding domain and must be displaced to enable nucleotide dissociation.; GO: 0004871 signal transducer activity, 0019001 guanyl nucleotide binding, 0007186 G-protein coupled receptor protein signaling pathway; PDB: 3QI2_B 3QE0_A 2IK8_A 2OM2_A 2GTP_B 2XNS_B 3ONW_B 1KJY_A 2EBC_A 1Y3A_B ....

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

Probab=95.66  E-value=0.021  Score=35.55  Aligned_cols=27  Identities=11%  Similarity=-0.116  Sum_probs=24.0

Q ss_pred             CceEEEeeccccCCCHHHHHHHHHHhh
Q psy2977          61 REICCYSISCKERDNIDITLQWLIAHS   87 (92)
Q Consensus        61 ~~~~~~~~SA~~~~gi~~~~~~l~~~i   87 (92)
                      .-.+++..||+++.|++.+++.+.+.+
T Consensus       239 ~~~pv~~gSa~~~~G~~~ll~~~~~~~  265 (268)
T cd04170         239 LLVPVLCGSALTNIGVRELLDALVHLL  265 (268)
T ss_pred             CEEEEEEeeCCCCcCHHHHHHHHHHhC
Confidence            346899999999999999999998875

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

>KOG2423|consensus

Probab=95.42  E-value=0.046  Score=36.58  Aligned_cols=61  Identities=11%  Similarity=0.133  Sum_probs=32.2

Q ss_pred             HHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHH
Q psy2977          16 ELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQ   81 (92)
Q Consensus        16 ~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~   81 (92)
                      -+++.+.. ..+.+.+++|+||+||.+..-.......+.    +.++.--|-.|-.+..|=..+++
T Consensus       233 ~ve~ylkk-e~phKHli~vLNKvDLVPtwvt~~Wv~~lS----keyPTiAfHAsi~nsfGKgalI~  293 (572)
T KOG2423|consen  233 HVEEYLKK-EKPHKHLIYVLNKVDLVPTWVTAKWVRHLS----KEYPTIAFHASINNSFGKGALIQ  293 (572)
T ss_pred             HHHHHHhh-cCCcceeEEEeeccccccHHHHHHHHHHHh----hhCcceeeehhhcCccchhHHHH
Confidence            35555543 235688999999999975433223333322    22333344555555555443333

>KOG2484|consensus

Probab=95.10  E-value=0.031  Score=37.09  Aligned_cols=27  Identities=15%  Similarity=0.039  Sum_probs=19.0

Q ss_pred             CCCcEEEEeeCCCCCCCCCHHHHHHhh
Q psy2977          27 IGIPILVLGNKRDLPNALDEKELIDRM   53 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~~~~~~~~~   53 (92)
                      +++.+|+|+||+||.+....+....++
T Consensus       176 gnKkLILVLNK~DLVPrEv~e~Wl~YL  202 (435)
T KOG2484|consen  176 GNKKLILVLNKIDLVPREVVEKWLVYL  202 (435)
T ss_pred             CCceEEEEeehhccCCHHHHHHHHHHH
Confidence            458899999999997544444444554

>KOG2485|consensus

Probab=94.82  E-value=0.027  Score=36.20  Aligned_cols=27  Identities=26%  Similarity=0.469  Sum_probs=20.2

Q ss_pred             CCcEEEEeeCCCCCCCCCHHHHHHhhc
Q psy2977          28 GIPILVLGNKRDLPNALDEKELIDRMN   54 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~~~~~~~~   54 (92)
                      .+|-|||.||+||.+......+.+.++
T Consensus        73 ~k~riiVlNK~DLad~~~~k~~iq~~~   99 (335)
T KOG2485|consen   73 PKPRIIVLNKMDLADPKEQKKIIQYLE   99 (335)
T ss_pred             CCceEEEEecccccCchhhhHHHHHHH
Confidence            578999999999987555555555554

>KOG1487|consensus

Probab=94.66  E-value=0.04  Score=34.91  Aligned_cols=51  Identities=24%  Similarity=0.040  Sum_probs=37.8

Q ss_pred             CCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          28 GIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      -+|.+.++||+|-.   +.+++.-       .....+.+++||-++-|++++++.+.+.+.
T Consensus       231 yVp~iyvLNkIdsI---SiEELdi-------i~~iphavpISA~~~wn~d~lL~~mweyL~  281 (358)
T KOG1487|consen  231 YVPCIYVLNKIDSI---SIEELDI-------IYTIPHAVPISAHTGWNFDKLLEKMWEYLK  281 (358)
T ss_pred             eeeeeeeeccccee---eeeccce-------eeeccceeecccccccchHHHHHHHhhcch
Confidence            48999999999953   3333211       123356789999999999999999887764

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

Probab=94.66  E-value=0.15  Score=34.58  Aligned_cols=31  Identities=26%  Similarity=0.268  Sum_probs=19.9

Q ss_pred             CCCCCCcEEEEeeCCCCCCCCCH---HHHHHhhc
Q psy2977          24 PQLIGIPILVLGNKRDLPNALDE---KELIDRMN   54 (92)
Q Consensus        24 ~~~~~~p~ilv~NK~Dl~~~~~~---~~~~~~~~   54 (92)
                      ..+.++|++-..||.|.....+.   +++.+.++
T Consensus       129 crlR~iPI~TFiNKlDR~~rdP~ELLdEiE~~L~  162 (528)
T COG4108         129 CRLRDIPIFTFINKLDREGRDPLELLDEIEEELG  162 (528)
T ss_pred             HhhcCCceEEEeeccccccCChHHHHHHHHHHhC
Confidence            44578999999999997643332   34444444

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

Probab=94.56  E-value=0.07  Score=33.55  Aligned_cols=28  Identities=7%  Similarity=-0.015  Sum_probs=24.4

Q ss_pred             CceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          61 REICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        61 ~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      .-+++|..||.++.|+..+++.+...+.
T Consensus       241 ~~~PV~~gSa~~~~Gi~~lld~i~~~~p  268 (270)
T cd01886         241 KIVPVLCGSAFKNKGVQPLLDAVVDYLP  268 (270)
T ss_pred             cEEEEEeCcCCCCcCHHHHHHHHHHhcC
Confidence            3468999999999999999999988763

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

>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

Probab=94.50  E-value=0.088  Score=34.64  Aligned_cols=41  Identities=20%  Similarity=0.126  Sum_probs=26.8

Q ss_pred             CCCCcEEEEeeCCCCCCCCC---HHHHHHhhccCCcCCCceEEEeeccc
Q psy2977          26 LIGIPILVLGNKRDLPNALD---EKELIDRMNLCAIQDREICCYSISCK   71 (92)
Q Consensus        26 ~~~~p~ilv~NK~Dl~~~~~---~~~~~~~~~~~~~~~~~~~~~~~SA~   71 (92)
                      +..+|+++++||.|.+....   .+.+.+...     ..+..++++||.
T Consensus       204 lt~KP~lyvaN~~e~~~~~~n~~~~~i~~~~~-----~~~~~vV~~sA~  247 (372)
T COG0012         204 LTAKPMLYVANVSEDDLANLNEYVKRLKELAA-----KENAEVVPVSAA  247 (372)
T ss_pred             hhcCCeEEEEECCcccccchhHHHHHHHHHhh-----hcCCcEEEeeHH
Confidence            35799999999999875432   333333321     223568899986

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=94.38  E-value=0.16  Score=34.38  Aligned_cols=62  Identities=13%  Similarity=0.239  Sum_probs=33.3

Q ss_pred             HHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeecc--ccCCCHHHHHHHHHH
Q psy2977          15 NELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISC--KERDNIDITLQWLIA   85 (92)
Q Consensus        15 ~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA--~~~~gi~~~~~~l~~   85 (92)
                      .++.++.+    .++|+++++||+|-... ...++.+.+.    ...+.+++.+|+  .+.+.|..+++.+.-
T Consensus       171 ~~i~eLk~----~~kPfiivlN~~dp~~~-et~~l~~~l~----eky~vpvl~v~c~~l~~~DI~~il~~vL~  234 (492)
T TIGR02836       171 RVIEELKE----LNKPFIILLNSTHPYHP-ETEALRQELE----EKYDVPVLAMDVESMRESDILSVLEEVLY  234 (492)
T ss_pred             HHHHHHHh----cCCCEEEEEECcCCCCc-hhHHHHHHHH----HHhCCceEEEEHHHcCHHHHHHHHHHHHh
Confidence            34555532    47999999999993211 1222332221    122345566665  445566666665543

A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis.

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

Probab=94.26  E-value=0.14  Score=33.12  Aligned_cols=61  Identities=18%  Similarity=0.200  Sum_probs=37.0

Q ss_pred             CCc-EEEEeeCCCCCCCCC-----HHHHHHhhccCCcCCCceEEEeecccc-CCC-------HHHHHHHHHHhhh
Q psy2977          28 GIP-ILVLGNKRDLPNALD-----EKELIDRMNLCAIQDREICCYSISCKE-RDN-------IDITLQWLIAHSK   88 (92)
Q Consensus        28 ~~p-~ilv~NK~Dl~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~SA~~-~~g-------i~~~~~~l~~~i~   88 (92)
                      +.| +++++||+|+.+...     ..++++.+....+.....+++.-||+. .+|       |.++++.+.+.+.
T Consensus       127 Gvp~ivvflnK~Dmvdd~ellelVemEvreLLs~y~f~gd~~Pii~gSal~ale~~~~~~~~i~eLm~avd~yip  201 (394)
T COG0050         127 GVPYIVVFLNKVDMVDDEELLELVEMEVRELLSEYGFPGDDTPIIRGSALKALEGDAKWEAKIEELMDAVDSYIP  201 (394)
T ss_pred             CCcEEEEEEecccccCcHHHHHHHHHHHHHHHHHcCCCCCCcceeechhhhhhcCCcchHHHHHHHHHHHHhcCC
Confidence            455 566789999986322     234555555444444567788888863 332       5666666666553

>KOG0463|consensus

Probab=94.02  E-value=0.4  Score=32.18  Aligned_cols=20  Identities=10%  Similarity=0.054  Sum_probs=16.1

Q ss_pred             ceEEEeeccccCCCHHHHHH
Q psy2977          62 EICCYSISCKERDNIDITLQ   81 (92)
Q Consensus        62 ~~~~~~~SA~~~~gi~~~~~   81 (92)
                      -+++|.+|-.+|+|++-+-.
T Consensus       332 ~CPIFQvSNVtG~NL~LLkm  351 (641)
T KOG0463|consen  332 VCPIFQVSNVTGTNLPLLKM  351 (641)
T ss_pred             ccceEEeccccCCChHHHHH
Confidence            46799999999999875533

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

Probab=93.99  E-value=0.21  Score=32.40  Aligned_cols=44  Identities=18%  Similarity=0.145  Sum_probs=24.3

Q ss_pred             EEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977          32 LVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus        32 ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      +|++||.|+.++...+.+...+..   .+...+++.+|. .+.+..++
T Consensus       149 ~ivlNK~Dlv~~~~l~~l~~~l~~---lnp~A~i~~~~~-~~~~~~~l  192 (323)
T COG0523         149 VIVLNKTDLVDAEELEALEARLRK---LNPRARIIETSY-GDVDLAEL  192 (323)
T ss_pred             EEEEecccCCCHHHHHHHHHHHHH---hCCCCeEEEccc-cCCCHHHh
Confidence            788999999864433333333321   123456777776 33443333

>PTZ00258 GTP-binding protein; Provisional

Probab=93.86  E-value=0.16  Score=33.76  Aligned_cols=43  Identities=12%  Similarity=-0.007  Sum_probs=25.4

Q ss_pred             CCCcEEEEeeCC--CC-CCCC-CHHHHHHhhccCCcCCCceEEEeeccccC
Q psy2977          27 IGIPILVLGNKR--DL-PNAL-DEKELIDRMNLCAIQDREICCYSISCKER   73 (92)
Q Consensus        27 ~~~p~ilv~NK~--Dl-~~~~-~~~~~~~~~~~~~~~~~~~~~~~~SA~~~   73 (92)
                      ..+|+++|+||.  |+ .... ..+.+.+..+.    .....++.+||+..
T Consensus       219 t~KP~iyv~N~~E~D~~~~~~~~~~~l~~~~~~----~~~~~~v~~sa~~E  265 (390)
T PTZ00258        219 TAKPMIYLVNMSEKDFIRQKNKWLAKIKEWVGE----KGGGPIIPYSAEFE  265 (390)
T ss_pred             hcCCEEEEEECchhhhcccchHHHHHHHHHHHh----cCCCeEEEeeHHHH
Confidence            468999999999  86 2211 12333333221    11356899998654

>KOG0085|consensus

Probab=93.73  E-value=0.51  Score=29.67  Aligned_cols=84  Identities=17%  Similarity=0.244  Sum_probs=52.7

Q ss_pred             chhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC-CCHHHHHHhhc----------------------cCCcCCCc
Q psy2977           6 DTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA-LDEKELIDRMN----------------------LCAIQDRE   62 (92)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~-~~~~~~~~~~~----------------------~~~~~~~~   62 (92)
                      +..+.++.+..+..++..+=..+.++|+.+||.|+.+. +....+...+.                      +..-...-
T Consensus       244 nENRMeESkALFrTIi~yPWF~nssVIlFLNKkDlLEekI~ySHl~~YFPe~~GP~qDa~AAreFILkm~~d~nPd~dKi  323 (359)
T KOG0085|consen  244 NENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKILYSHLADYFPEFDGPKQDAQAAREFILKMYVDMNPDSDKI  323 (359)
T ss_pred             chhhHHHHHHHHHHHhccccccCCceEEEechhhhhhhhhhHHHHHHhCcccCCCcccHHHHHHHHHHHHHhhCCCccce
Confidence            45567777777777777766678899999999998542 11111111111                      11001111


Q ss_pred             eEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          63 ICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        63 ~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      ..-..++|.+-+||.-+|..+.+.+.+
T Consensus       324 i~SHfTcATDT~NIRfVFaaVkDtiLq  350 (359)
T KOG0085|consen  324 IYSHFTCATDTENIRFVFAAVKDTILQ  350 (359)
T ss_pred             eeeeeeecccchhHHHHHHHHHHHHHH
Confidence            234457889999999999998887754

>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1

Probab=93.28  E-value=0.11  Score=32.17  Aligned_cols=86  Identities=17%  Similarity=0.185  Sum_probs=45.3

Q ss_pred             CeeCCchh---hHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHH----HHhhcc--CCcCCCceEEEeeccc
Q psy2977           1 MVDAADTD---KLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKEL----IDRMNL--CAIQDREICCYSISCK   71 (92)
Q Consensus         1 v~D~s~~~---~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~----~~~~~~--~~~~~~~~~~~~~SA~   71 (92)
                      |+|+.+.+   .+......+..+.+.  .+++.+-++..|+|+.......++    .+.+..  .........++.||-.
T Consensus        83 V~D~qs~~~~~~l~~~~~~i~~l~~~--sp~~~v~vfiHK~D~l~~~~r~~~~~~~~~~i~~~~~~~~~~~~~~~~TSI~  160 (232)
T PF04670_consen   83 VFDAQSDDYDEDLAYLSDCIEALRQY--SPNIKVFVFIHKMDLLSEDEREEIFRDIQQRIRDELEDLGIEDITFFLTSIW  160 (232)
T ss_dssp             EEETT-STCHHHHHHHHHHHHHHHHH--STT-EEEEEEE-CCCS-HHHHHHHHHHHHHHHHHHHHHTT-TSEEEEEE-TT
T ss_pred             EEEcccccHHHHHHHHHHHHHHHHHh--CCCCeEEEEEeecccCCHHHHHHHHHHHHHHHHHHhhhccccceEEEeccCc
Confidence            57877333   222223334444433  257899999999998642222211    111110  0001113789999988


Q ss_pred             cCCCHHHHHHHHHHhhhh
Q psy2977          72 ERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        72 ~~~gi~~~~~~l~~~i~~   89 (92)
                      + +.+-+++-.+...+..
T Consensus       161 D-~Sly~A~S~Ivq~LiP  177 (232)
T PF04670_consen  161 D-ESLYEAWSKIVQKLIP  177 (232)
T ss_dssp             S-THHHHHHHHHHHTTST
T ss_pred             C-cHHHHHHHHHHHHHcc
Confidence            7 6899999888887654

RCC1 catalyzes guanine nucleotide exchange on Ran, a well characterised nuclear Ras-like small G protein that plays an essential role in the import and export of proteins and RNAs across the nuclear membrane through the nuclear pore complex. RCC1 is located inside the nucleus, bound to chromatin. The concentration of GTP within the cell is ~30 times higher than the concentration of GDP, thus resulting in the preferential production of the GTP form of Ran by RCC1 within the nucleus. Gtr1p is located within both the cytoplasm and the nucleus and has been reported to play a role in cell growth. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1 and Rag A and Gtr1p belong to the sixth subfamily of the Ras-like small GTPase superfamily []. ; GO: 0005525 GTP binding, 0005634 nucleus, 0005737 cytoplasm; PDB: 3R7W_B 2Q3F_B 3LLU_A.

>PF08438 MMR_HSR1_C: GTPase of unknown function C-terminal; InterPro: IPR013646 This domain is found at the C terminus of IPR002917 from INTERPRO in archaeal and eukaryotic GTP-binding proteins

Probab=92.67  E-value=0.049  Score=29.78  Aligned_cols=31  Identities=26%  Similarity=0.282  Sum_probs=13.9

Q ss_pred             EeeCCCCCCCC-CHHHHHHhhccCCcCCCceEEEeeccc
Q psy2977          34 LGNKRDLPNAL-DEKELIDRMNLCAIQDREICCYSISCK   71 (92)
Q Consensus        34 v~NK~Dl~~~~-~~~~~~~~~~~~~~~~~~~~~~~~SA~   71 (92)
                      ++||+|++.+. ..+.+.+.+       ....+++|||.
T Consensus         1 AaNK~D~~~a~~ni~kl~~~~-------~~~~vVp~SA~   32 (109)
T PF08438_consen    1 AANKADLPAADENIEKLKEKY-------PDEPVVPTSAA   32 (109)
T ss_dssp             EEE-GGG-S-HHHHHHHHHHH-------TT-EEEEE-HH
T ss_pred             CCccccccccHhHHHHHHHhC-------CCCceeeccHH
Confidence            58999986421 233333322       13457777775

; PDB: 1WXQ_A.

>KOG0705|consensus

Probab=92.55  E-value=0.091  Score=36.52  Aligned_cols=83  Identities=12%  Similarity=0.246  Sum_probs=49.9

Q ss_pred             eeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCC----CCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHH
Q psy2977           2 VDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDL----PNALDEKELIDRMNLCAIQDREICCYSISCKERDNID   77 (92)
Q Consensus         2 ~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl----~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~   77 (92)
                      |...+.++|+.+.....++-.......+|+++++++.-.    ++............    ......+|+++|.+|.+++
T Consensus       103 f~~~d~~s~q~v~~l~~~l~~~r~r~~i~l~lvgtqd~iS~~~~rv~~da~~r~l~~----~~krcsy~et~atyGlnv~  178 (749)
T KOG0705|consen  103 FSVEDEQSFQAVQALAHEMSSYRNISDLPLILVGTQDHISAKRPRVITDDRARQLSA----QMKRCSYYETCATYGLNVE  178 (749)
T ss_pred             EEeccccCHHHHHHHHhhcccccccccchHHhhcCcchhhcccccccchHHHHHHHH----hcCccceeecchhhhhhHH
Confidence            344456667666544444433333457899999887332    22222122222211    2345678999999999999


Q ss_pred             HHHHHHHHhhh
Q psy2977          78 ITLQWLIAHSK   88 (92)
Q Consensus        78 ~~~~~l~~~i~   88 (92)
                      .+|+.+...+.
T Consensus       179 rvf~~~~~k~i  189 (749)
T KOG0705|consen  179 RVFQEVAQKIV  189 (749)
T ss_pred             HHHHHHHHHHH
Confidence            99998887654

>PRK13505 formate--tetrahydrofolate ligase; Provisional

Probab=92.42  E-value=0.62  Score=32.42  Aligned_cols=68  Identities=15%  Similarity=0.079  Sum_probs=38.6

Q ss_pred             HHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeec--cccCCCHHHHHHHHHHhhh
Q psy2977          16 ELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSIS--CKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        16 ~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~S--A~~~~gi~~~~~~l~~~i~   88 (92)
                      -+.+.++....-++|++|++||.|.......+.+.+.+.     ..++++..+.  ++-|+|-.++-+.+.+.+.
T Consensus       360 NL~RHIenvr~FGvPvVVAINKFd~DTe~Ei~~I~~~c~-----e~Gv~va~~~~~~~Gg~Gai~LA~aVveA~~  429 (557)
T PRK13505        360 NLERHIENIRKFGVPVVVAINKFVTDTDAEIAALKELCE-----ELGVEVALSEVWAKGGEGGVELAEKVVELIE  429 (557)
T ss_pred             HHHHHHHHHHHcCCCEEEEEeCCCCCCHHHHHHHHHHHH-----HcCCCEEEecccccCCcchHHHHHHHHHHHh
Confidence            344444332235799999999999753323334444432     2233444333  4567787777777766654

>PF14331 ImcF-related_N: ImcF-related N-terminal domain

Probab=92.19  E-value=0.8  Score=28.81  Aligned_cols=71  Identities=17%  Similarity=0.246  Sum_probs=36.2

Q ss_pred             HHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceE-EEeec-cccCCC---HHHHHHHHHHhhhh
Q psy2977          15 NELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREIC-CYSIS-CKERDN---IDITLQWLIAHSKS   89 (92)
Q Consensus        15 ~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~-~~~~S-A~~~~g---i~~~~~~l~~~i~~   89 (92)
                      .-++++...-+ ...|+.+++||+|+..  ...++...+.... ....+. .++.. ...+..   +++.|+.|...+..
T Consensus        57 ~rL~el~~~lg-~~~PVYvv~Tk~D~l~--GF~ef~~~L~~~~-r~q~lG~t~~~~~~~~~~~~~~~~~~~~~l~~~L~~  132 (266)
T PF14331_consen   57 QRLEELQRTLG-VRLPVYVVFTKCDLLP--GFDEFFSDLSEEE-REQVLGFTFPYDEDADGDAWAWFDEEFDELVARLNA  132 (266)
T ss_pred             HHHHHHHHHhC-CCCCeEeeeECCCccc--CHHHHHHhCCHHH-HhCCcccccCCccccccchHHHHHHHHHHHHHHHHH
Confidence            33455544322 4799999999999874  3334333332111 011111 11222 233344   77777777766643

>KOG1143|consensus

Probab=91.38  E-value=1.1  Score=30.16  Aligned_cols=52  Identities=19%  Similarity=0.301  Sum_probs=31.1

Q ss_pred             CCcEEEEeeCCCCCCCCCHH----HHHHhhccCC---------------------cCCCceEEEeeccccCCCHHHH
Q psy2977          28 GIPILVLGNKRDLPNALDEK----ELIDRMNLCA---------------------IQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~----~~~~~~~~~~---------------------~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      ++|++++.+|+|+.+....+    ++...+....                     ....-.++|.+|+.+|+|+.-+
T Consensus       303 ~iPfFvlvtK~Dl~~~~~~~~tv~~l~nll~~~Gc~kvp~~Vt~~ddAv~Aaq~~~s~nivPif~vSsVsGegl~ll  379 (591)
T KOG1143|consen  303 NIPFFVLVTKMDLVDRQGLKKTVKDLSNLLAKAGCTKVPKRVTTKDDAVKAAQELCSGNIVPIFAVSSVSGEGLRLL  379 (591)
T ss_pred             CCCeEEEEEeeccccchhHHHHHHHHHHHHhhcCccccceEeechHHHHHHHHHhccCCceeEEEEeecCccchhHH
Confidence            68999999999986542222    2211111000                     1112357999999999998744

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=91.30  E-value=1.3  Score=26.20  Aligned_cols=59  Identities=8%  Similarity=0.007  Sum_probs=35.3

Q ss_pred             CcEEEEeeCCCCCCCCCHHHH--------HHhhccCCcCCCceEEEe-e--ccccCCCHHHHHHHHHHhhhhc
Q psy2977          29 IPILVLGNKRDLPNALDEKEL--------IDRMNLCAIQDREICCYS-I--SCKERDNIDITLQWLIAHSKSH   90 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~~~~~~--------~~~~~~~~~~~~~~~~~~-~--SA~~~~gi~~~~~~l~~~i~~~   90 (92)
                      .++++|+|+.|.......++.        ...+..   -...+..|. .  |+..+.+++++++.+.+.+.++
T Consensus       117 ~~~ivv~T~~d~l~~~~~~~~~~~~~~~l~~l~~~---c~~r~~~f~~~~~~~~~~~q~~~Ll~~i~~~~~~~  186 (196)
T cd01852         117 DHTIVLFTRGDDLEGGTLEDYLENSCEALKRLLEK---CGGRYVAFNNKAKGEEQEQQVKELLAKVESMVKEN  186 (196)
T ss_pred             hcEEEEEECccccCCCcHHHHHHhccHHHHHHHHH---hCCeEEEEeCCCCcchhHHHHHHHHHHHHHHHHhc
Confidence            578899999996543222222        221111   011222222 2  3678899999999999998864

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).

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=90.58  E-value=0.39  Score=28.10  Aligned_cols=25  Identities=20%  Similarity=0.154  Sum_probs=20.5

Q ss_pred             CceEEEeeccccCCCHHHHHHHHHH
Q psy2977          61 REICCYSISCKERDNIDITLQWLIA   85 (92)
Q Consensus        61 ~~~~~~~~SA~~~~gi~~~~~~l~~   85 (92)
                      .+++++.+|+++++|++++.+++..
T Consensus        11 ~gy~v~~~S~~~~~g~~~l~~~l~~   35 (161)
T PF03193_consen   11 LGYPVFFISAKTGEGIEELKELLKG   35 (161)
T ss_dssp             TTSEEEE-BTTTTTTHHHHHHHHTT
T ss_pred             cCCcEEEEeCCCCcCHHHHHHHhcC
Confidence            3577999999999999999888765

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

>cd04169 RF3 RF3 subfamily

Probab=90.54  E-value=0.42  Score=30.03  Aligned_cols=27  Identities=11%  Similarity=-0.050  Sum_probs=24.0

Q ss_pred             ceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          62 EICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        62 ~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      -++++..||.++.|+..+++.|.+.+.
T Consensus       239 ~~Pv~~gsa~~~~Gv~~Lld~i~~~~P  265 (267)
T cd04169         239 LTPVFFGSALNNFGVQELLDALVDLAP  265 (267)
T ss_pred             EEEEEecccccCcCHHHHHHHHHHHCC
Confidence            468999999999999999999988763

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.

>cd01850 CDC_Septin CDC/Septin

Probab=90.18  E-value=0.27  Score=31.02  Aligned_cols=15  Identities=20%  Similarity=0.166  Sum_probs=13.0

Q ss_pred             CCcEEEEeeCCCCCC
Q psy2977          28 GIPILVLGNKRDLPN   42 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~   42 (92)
                      .+|+++|+||+|+..
T Consensus       143 ~v~vi~VinK~D~l~  157 (276)
T cd01850         143 RVNIIPVIAKADTLT  157 (276)
T ss_pred             cCCEEEEEECCCcCC
Confidence            589999999999853

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.

>PRK07560 elongation factor EF-2; Reviewed

Probab=90.17  E-value=1.3  Score=31.90  Aligned_cols=14  Identities=21%  Similarity=0.126  Sum_probs=11.8

Q ss_pred             CCcEEEEeeCCCCC
Q psy2977          28 GIPILVLGNKRDLP   41 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~   41 (92)
                      +.|.++++||+|+.
T Consensus       139 ~~~~iv~iNK~D~~  152 (731)
T PRK07560        139 RVKPVLFINKVDRL  152 (731)
T ss_pred             CCCeEEEEECchhh
Confidence            45789999999986

>KOG1486|consensus

Probab=90.16  E-value=1.4  Score=28.13  Aligned_cols=51  Identities=24%  Similarity=0.165  Sum_probs=38.5

Q ss_pred             CCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          28 GIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      -+|.+.|.||+|-.   +.+++.....       ....+.+|+.-.-|++.+++.+.+.+.
T Consensus       238 Y~~ClYvYnKID~v---s~eevdrlAr-------~PnsvViSC~m~lnld~lle~iWe~l~  288 (364)
T KOG1486|consen  238 YIKCLYVYNKIDQV---SIEEVDRLAR-------QPNSVVISCNMKLNLDRLLERIWEELN  288 (364)
T ss_pred             EEEEEEEeecccee---cHHHHHHHhc-------CCCcEEEEeccccCHHHHHHHHHHHhc
Confidence            37899999999964   6666655432       123467888999999999999988764

>KOG2486|consensus

Probab=88.96  E-value=0.13  Score=32.84  Aligned_cols=60  Identities=12%  Similarity=-0.027  Sum_probs=35.1

Q ss_pred             CCCcEEEEeeCCCCCCCC------CHHHHHH-hhccCCc-CCCceEEEeeccccCCCHHHHHHHHHHh
Q psy2977          27 IGIPILVLGNKRDLPNAL------DEKELID-RMNLCAI-QDREICCYSISCKERDNIDITLQWLIAH   86 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~------~~~~~~~-~~~~~~~-~~~~~~~~~~SA~~~~gi~~~~~~l~~~   86 (92)
                      .++|+.+|+||+|.....      +...+.. ..++... .....+++.+|+.|+.|++++.-.++..
T Consensus       247 ~~VP~t~vfTK~DK~k~~~~~~kKp~~~i~~~f~~l~~~~f~~~~Pw~~~Ssvt~~Grd~Ll~~i~q~  314 (320)
T KOG2486|consen  247 NNVPMTSVFTKCDKQKKVKRTGKKPGLNIKINFQGLIRGVFLVDLPWIYVSSVTSLGRDLLLLHIAQL  314 (320)
T ss_pred             cCCCeEEeeehhhhhhhccccccCccccceeehhhccccceeccCCceeeecccccCceeeeeehhhh
Confidence            368999999999974211      1111111 1111100 0112346679999999999987766654

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=87.85  E-value=1.2  Score=29.43  Aligned_cols=41  Identities=17%  Similarity=0.151  Sum_probs=24.0

Q ss_pred             CCCCcEEEEeeCCCCC--CC-CCHHHHHHhhccCCcCCCceEEEeeccc
Q psy2977          26 LIGIPILVLGNKRDLP--NA-LDEKELIDRMNLCAIQDREICCYSISCK   71 (92)
Q Consensus        26 ~~~~p~ilv~NK~Dl~--~~-~~~~~~~~~~~~~~~~~~~~~~~~~SA~   71 (92)
                      +..+|+++++|+.|..  .. ...+.+.+...     ..+..++++||.
T Consensus       197 lt~KP~i~v~N~~e~~~~~~~~~~~~i~~~~~-----~~~~~~i~~sa~  240 (364)
T PRK09601        197 LTAKPVLYVANVDEDDLADGNPYVKKVREIAA-----KEGAEVVVICAK  240 (364)
T ss_pred             cccCCeEEEEECCccccccccHHHHHHHHHHH-----HcCCeEEEEEHH
Confidence            3569999999999852  11 11223333221     124568888884

>smart00053 DYNc Dynamin, GTPase

Probab=87.60  E-value=4.8  Score=25.12  Aligned_cols=16  Identities=25%  Similarity=0.154  Sum_probs=13.3

Q ss_pred             CCCcEEEEeeCCCCCC
Q psy2977          27 IGIPILVLGNKRDLPN   42 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~   42 (92)
                      ...|.++|+||.|...
T Consensus       191 ~~~rti~ViTK~D~~~  206 (240)
T smart00053      191 QGERTIGVITKLDLMD  206 (240)
T ss_pred             cCCcEEEEEECCCCCC
Confidence            3578999999999864

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>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=86.60  E-value=1.4  Score=23.58  Aligned_cols=10  Identities=40%  Similarity=0.580  Sum_probs=5.5

Q ss_pred             CCcEEEEeeC
Q psy2977          28 GIPILVLGNK   37 (92)
Q Consensus        28 ~~p~ilv~NK   37 (92)
                      ..|+++|+||
T Consensus       107 ~~~~i~v~NK  116 (116)
T PF01926_consen  107 KKPIILVLNK  116 (116)
T ss_dssp             TSEEEEEEES
T ss_pred             CCCEEEEEcC
Confidence            3555555555

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 ....

>KOG0459|consensus

Probab=85.94  E-value=2  Score=29.15  Aligned_cols=52  Identities=17%  Similarity=0.161  Sum_probs=31.9

Q ss_pred             CcEEEEeeCCCCCCCC-CH---HHHHHhhcc----CCc-CCCceEEEeeccccCCCHHHHH
Q psy2977          29 IPILVLGNKRDLPNAL-DE---KELIDRMNL----CAI-QDREICCYSISCKERDNIDITL   80 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~-~~---~~~~~~~~~----~~~-~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      ..++++.||+|-|... +.   +++.+.+..    ... ......++++|..+|.++.+..
T Consensus       218 ~~lVv~vNKMddPtvnWs~eRy~E~~~k~~~fLr~~g~n~~~d~~f~p~sg~tG~~~k~~~  278 (501)
T KOG0459|consen  218 KHLIVLINKMDDPTVNWSNERYEECKEKLQPFLRKLGFNPKPDKHFVPVSGLTGANVKDRT  278 (501)
T ss_pred             ceEEEEEEeccCCccCcchhhHHHHHHHHHHHHHHhcccCCCCceeeecccccccchhhcc
Confidence            5689999999976432 22   233332210    000 1234679999999999998754

>KOG0460|consensus

Probab=84.44  E-value=2.6  Score=28.09  Aligned_cols=59  Identities=20%  Similarity=0.124  Sum_probs=34.2

Q ss_pred             CcEEEEeeCCCCCCCCC-----HHHHHHhhccCCcCCCceEEEeeccc---cCC----C---HHHHHHHHHHhh
Q psy2977          29 IPILVLGNKRDLPNALD-----EKELIDRMNLCAIQDREICCYSISCK---ERD----N---IDITLQWLIAHS   87 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~SA~---~~~----g---i~~~~~~l~~~i   87 (92)
                      ..+++..||.|+.+...     .-++++.+....+..-+.+++.-||+   .|.    |   |..+++.+-+.+
T Consensus       171 ~~ivvfiNKvD~V~d~e~leLVEmE~RElLse~gf~Gd~~PvI~GSAL~ALeg~~peig~~aI~kLldavDsyi  244 (449)
T KOG0460|consen  171 KHIVVFINKVDLVDDPEMLELVEMEIRELLSEFGFDGDNTPVIRGSALCALEGRQPEIGLEAIEKLLDAVDSYI  244 (449)
T ss_pred             ceEEEEEecccccCCHHHHHHHHHHHHHHHHHcCCCCCCCCeeecchhhhhcCCCccccHHHHHHHHHHHhccC
Confidence            35778889999974321     12455555544444556788887765   442    2   455555554443

>PTZ00416 elongation factor 2; Provisional

Probab=83.68  E-value=1  Score=32.89  Aligned_cols=14  Identities=29%  Similarity=0.202  Sum_probs=12.7

Q ss_pred             CCcEEEEeeCCCCC
Q psy2977          28 GIPILVLGNKRDLP   41 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~   41 (92)
                      ++|+++++||+|+.
T Consensus       144 ~~p~iv~iNK~D~~  157 (836)
T PTZ00416        144 RIRPVLFINKVDRA  157 (836)
T ss_pred             CCCEEEEEEChhhh
Confidence            57999999999986

>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A

Probab=83.24  E-value=3.8  Score=28.07  Aligned_cols=54  Identities=20%  Similarity=0.466  Sum_probs=32.0

Q ss_pred             CCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeecc--ccCCCHHHHHHHHHH
Q psy2977          27 IGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISC--KERDNIDITLQWLIA   85 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA--~~~~gi~~~~~~l~~   85 (92)
                      -++|+++++|=.+ |......++.+.+.    .+++.+++++++  .+.+.|..+++.+.-
T Consensus       179 igKPFvillNs~~-P~s~et~~L~~eL~----ekY~vpVlpvnc~~l~~~DI~~Il~~vLy  234 (492)
T PF09547_consen  179 IGKPFVILLNSTK-PYSEETQELAEELE----EKYDVPVLPVNCEQLREEDITRILEEVLY  234 (492)
T ss_pred             hCCCEEEEEeCCC-CCCHHHHHHHHHHH----HHhCCcEEEeehHHcCHHHHHHHHHHHHh
Confidence            3689999999877 43333334444443    245667777665  345556666555443

It acts in the mother cell compartment and plays a role in spore coat morphogenesis []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=82.55  E-value=2.1  Score=31.37  Aligned_cols=15  Identities=27%  Similarity=0.014  Sum_probs=13.2

Q ss_pred             CCCcEEEEeeCCCCC
Q psy2977          27 IGIPILVLGNKRDLP   41 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~   41 (92)
                      .++|+++++||+|++
T Consensus       149 ~~~p~i~~iNK~D~~  163 (843)
T PLN00116        149 ERIRPVLTVNKMDRC  163 (843)
T ss_pred             CCCCEEEEEECCccc
Confidence            368999999999986

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

Probab=81.17  E-value=1  Score=26.35  Aligned_cols=36  Identities=33%  Similarity=0.380  Sum_probs=18.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN   42 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~   42 (92)
                      |+|+.+..........+...+...+      ++++||+|+.+
T Consensus       120 vVDa~~~~~~~~~~~~~~~Qi~~AD------vIvlnK~D~~~  155 (178)
T PF02492_consen  120 VVDATNFDELENIPELLREQIAFAD------VIVLNKIDLVS  155 (178)
T ss_dssp             EEEGTTHGGHTTHCHHHHHHHCT-S------EEEEE-GGGHH
T ss_pred             EeccccccccccchhhhhhcchhcC------EEEEeccccCC
Confidence            3566543333333333444443322      78899999864

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

>COG1908 FrhD Coenzyme F420-reducing hydrogenase, delta subunit [Energy production and conversion]

Probab=80.82  E-value=3.1  Score=23.29  Aligned_cols=58  Identities=22%  Similarity=0.273  Sum_probs=39.1

Q ss_pred             cEEEEeeCCCCCCCC--C---------HHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhhhc
Q psy2977          30 PILVLGNKRDLPNAL--D---------EKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKSH   90 (92)
Q Consensus        30 p~ilv~NK~Dl~~~~--~---------~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~~   90 (92)
                      -++|++.|.+-....  +         ..++.+.++   +....++++.+||-.++.+.+.+....+.+++-
T Consensus        56 GV~v~GC~~geCHy~~GN~ka~rR~~~lke~l~elg---ie~eRv~~~wiSa~E~ekf~e~~~efv~~i~~l  124 (132)
T COG1908          56 GVLVAGCKIGECHYISGNYKAKRRMELLKELLKELG---IEPERVRVLWISAAEGEKFAETINEFVERIKEL  124 (132)
T ss_pred             eEEEecccccceeeeccchHHHHHHHHHHHHHHHhC---CCcceEEEEEEehhhHHHHHHHHHHHHHHHHHh
Confidence            468888887743211  1         112233333   234468899999999999999999999888753

>cd03112 CobW_like The function of this protein family is unkown

Probab=80.07  E-value=2  Score=24.76  Aligned_cols=9  Identities=56%  Similarity=0.593  Sum_probs=5.7

Q ss_pred             EEEeeCCCC
Q psy2977          32 LVLGNKRDL   40 (92)
Q Consensus        32 ilv~NK~Dl   40 (92)
                      ++++||+|+
T Consensus       150 ~ivlnk~dl  158 (158)
T cd03112         150 RILLNKTDL  158 (158)
T ss_pred             EEEEecccC
Confidence            456777764

The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	92
2al7_A	186	Structure Of Human Adp-Ribosylation Factor-Like 10c		3e-40
1zd9_A	188	Structure Of Human Adp-Ribosylation Factor-Like 10b		6e-40
2h18_A	193	Structure Of Human Adp-Ribosylation Factor-Like 10b		2e-39
3lrp_A	181	Crystal Structure Of Plasmodium Falciparum Adp-Ribo		2e-09
1e0s_A	174	Small G Protein Arf6-Gdp Length = 174		7e-09
3n5c_A	162	Crystal Structure Of Arf6delta13 Complexed With Gdp		7e-09
2a5d_A	175	Structural Basis For The Activation Of Cholera Toxi		7e-09
2w83_A	165	Crystal Structure Of The Arf6 Gtpase In Complex Wit		8e-09
3vhx_A	172	The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesi		8e-09
2a5g_A	175	Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length		8e-09
4dcn_A	166	Crystal Structure Analysis Of The Arfaptin2 Bar Dom		9e-09
1moz_A	183	Adp-Ribosylation Factor-Like 1 (Arl1) From Saccharo		9e-09
2x77_A	189	Crystal Structure Of Leishmania Major Adp Ribosylat		1e-08
3lvr_E	497	The Crystal Structure Of Asap3 In Complex With Arf6		1e-08
1r4a_A	165	Crystal Structure Of Gtp-Bound Adp-Ribosylation Fac		1e-08
3aq4_A	184	Molecular Insights Into Plant Cell Proliferation Di		3e-08
3pcr_B	162	Structure Of Espg-Arf6 Complex Length = 162		4e-08
4fme_C	160	Espg-Rab1-Arf6 Complex Length = 160		7e-08
2qtv_B	167	Structure Of Sec23-Sar1 Complexed With The Active F		1e-07
1m2o_B	190	Crystal Structure Of The Sec23-Sar1 Complex Length		1e-07
3o47_A	329	Crystal Structure Of Arfgap1-Arf1 Fusion Protein Le		5e-07
3rd1_A	178	Structure Of An Adp Ribosylation Factor From Entamo		1e-06
1hur_A	180	Human Adp-Ribosylation Factor 1 Complexed With Gdp,		1e-06
1re0_A	164	Structure Of Arf1-Gdp Bound To Sec7 Domain Complexe		1e-06
1rrg_A	181	Non-Myristoylated Rat Adp-Ribosylation Factor-1 Com		1e-06
1j2j_A	166	Crystal Structure Of Gga1 Gat N-terminal Region In		1e-06
3doe_A	192	Complex Of Arl2 And Bart, Crystal Form 1 Length = 1		3e-06
2b6h_A	192	Structure Of Human Adp-Ribosylation Factor 5 Length		4e-06
1f6b_A	198	Crystal Structure Of Sar1-Gdp Complex Length = 198		3e-05
2fmx_A	195	An Open Conformation Of Switch I Revealed By Sar1-g		3e-05
2fa9_A	189	The Crystal Structure Of Sar1[h79g]-gdp Provides In		3e-05
2k5u_A	181	Solution Structure Of Myirstoylated Yeast Arf1 Prot		9e-05
3tjz_A	164	Crystal Structure Of Arf1 Bound To The GammaZETA-Co		9e-05
1mr3_F	181	Saccharomyces Cerevisiae Adp-Ribosylation Factor 2		1e-04
2ksq_A	181	The Myristoylated Yeast Arf1 In A Gtp And Bicelle B		1e-04
1ksh_A	186	Complex Of Arl2 And Pde Delta, Crystal Form 2 (Nati		2e-04
1z6x_A	180	Structure Of Human Adp-Ribosylation Factor 4 Length		2e-04
2gao_A	208	Crystal Structure Of Human Sar1a In Complex With Gd		2e-04
1ksj_A	186	Complex Of Arl2 And Pde Delta, Crystal Form 2 (Seme		4e-04
1ksg_A	186	Complex Of Arl2 And Pde Delta, Crystal Form 1 Lengt		5e-04
4gok_B	169	The Crystal Structure Of Arl2gppnhp In Complex With		5e-04

>pdb|2AL7|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10c Length = 186

Iteration: 1
 Score =  159 bits (403), Expect = 3e-40,   Method: Compositional matrix adjust.
 Identities = 74/90 (82%), Positives = 84/90 (93%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           M+DAAD +K+EASRNELH L++KPQL GIP+LVLGNKRDLPNALDEK+LI++MNL AIQD
Sbjct: 97  MIDAADREKIEASRNELHNLLDKPQLQGIPVLVLGNKRDLPNALDEKQLIEKMNLSAIQD 156
Query: 61  REICCYSISCKERDNIDITLQWLIAHSKSH 90
           REICCYSISCKE+DNIDITLQWLI HSKS 
Sbjct: 157 REICCYSISCKEKDNIDITLQWLIQHSKSR 186

>pdb|1ZD9|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b Length = 188

Iteration: 1
 Score =  158 bits (400), Expect = 6e-40,   Method: Compositional matrix adjust.
 Identities = 74/90 (82%), Positives = 83/90 (92%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           MVDAAD +K+EAS+NELH L++KPQL GIP+LVLGNKRDLP ALDEKELI++MNL AIQD
Sbjct: 97  MVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALDEKELIEKMNLSAIQD 156
Query: 61  REICCYSISCKERDNIDITLQWLIAHSKSH 90
           REICCYSISCKE+DNIDITLQWLI HSKS 
Sbjct: 157 REICCYSISCKEKDNIDITLQWLIQHSKSR 186

>pdb|2H18|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b (Arl10b) Length = 193

Iteration: 1
 Score =  157 bits (396), Expect = 2e-39,   Method: Compositional matrix adjust.
 Identities = 73/88 (82%), Positives = 82/88 (93%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           MVDAAD +K+EAS+NELH L++KPQL GIP+LVLGNKRDLP ALDEKELI++MNL AIQD
Sbjct: 106 MVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALDEKELIEKMNLSAIQD 165
Query: 61  REICCYSISCKERDNIDITLQWLIAHSK 88
           REICCYSISCKE+DNIDITLQWLI HSK
Sbjct: 166 REICCYSISCKEKDNIDITLQWLIQHSK 193

>pdb|3LRP|A Chain A, Crystal Structure Of Plasmodium Falciparum Adp-Ribosylation Factor 1 Length = 181

Iteration: 1
 Score = 57.4 bits (137), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 28/86 (32%), Positives = 48/86 (55%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+ D ++++ +R ELH +I + +L    ILV  NK+DLPNA+   E+ ++++L  I++
Sbjct: 91  VVDSNDRERIDDAREELHRMINEEELKDAIILVFANKQDLPNAMSAAEVTEKLHLNTIRE 150
Query: 61  REICCYSISCKERDNIDITLQWLIAH 86
           R     S      D +     WL  H
Sbjct: 151 RNWFIQSTCATRGDGLYEGFDWLTTH 176

>pdb|1E0S|A Chain A, Small G Protein Arf6-Gdp Length = 174

Iteration: 1
 Score = 55.5 bits (132), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 29/89 (32%), Positives = 49/89 (55%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD AD D+++ +R ELH +I   ++    IL+  NK+DLP+A+   E+ +++ L  I+D
Sbjct: 86  VVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQEKLGLTRIRD 145
Query: 61  REICCYSISCKERDNIDITLQWLIAHSKS 89
           R            D +   L WL ++ KS
Sbjct: 146 RNWYVQPSCATSGDGLYEGLTWLTSNYKS 174

>pdb|3N5C|A Chain A, Crystal Structure Of Arf6delta13 Complexed With Gdp Length = 162

Iteration: 1
 Score = 55.5 bits (132), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 29/89 (32%), Positives = 49/89 (55%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD AD D+++ +R ELH +I   ++    IL+  NK+DLP+A+   E+ +++ L  I+D
Sbjct: 74  VVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQEKLGLTRIRD 133
Query: 61  REICCYSISCKERDNIDITLQWLIAHSKS 89
           R            D +   L WL ++ KS
Sbjct: 134 RNWYVQPSCATSGDGLYEGLTWLTSNYKS 162

>pdb|2A5D|A Chain A, Structural Basis For The Activation Of Cholera Toxin By Human Arf6-Gtp Length = 175

Iteration: 1
 Score = 55.5 bits (132), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 29/89 (32%), Positives = 49/89 (55%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD AD D+++ +R ELH +I   ++    IL+  NK+DLP+A+   E+ +++ L  I+D
Sbjct: 87  VVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQEKLGLTRIRD 146
Query: 61  REICCYSISCKERDNIDITLQWLIAHSKS 89
           R            D +   L WL ++ KS
Sbjct: 147 RNWYVQPSCATSGDGLYEGLTWLTSNYKS 175

>pdb|2W83|A Chain A, Crystal Structure Of The Arf6 Gtpase In Complex With A Specific Effector, Jip4 Length = 165

Iteration: 1
 Score = 55.5 bits (132), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 29/89 (32%), Positives = 49/89 (55%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD AD D+++ +R ELH +I   ++    IL+  NK+DLP+A+   E+ +++ L  I+D
Sbjct: 77  VVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQEKLGLTRIRD 136
Query: 61  REICCYSISCKERDNIDITLQWLIAHSKS 89
           R            D +   L WL ++ KS
Sbjct: 137 RNWYVQPSCATSGDGLYEGLTWLTSNYKS 165

>pdb|3VHX|A Chain A, The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesin-Like Protein 1) Complex Length = 172

Iteration: 1
 Score = 55.5 bits (132), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 29/89 (32%), Positives = 49/89 (55%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD AD D+++ +R ELH +I   ++    IL+  NK+DLP+A+   E+ +++ L  I+D
Sbjct: 76  VVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQEKLGLTRIRD 135
Query: 61  REICCYSISCKERDNIDITLQWLIAHSKS 89
           R            D +   L WL ++ KS
Sbjct: 136 RNWYVQPSCATSGDGLYEGLTWLTSNYKS 164

>pdb|2A5G|A Chain A, Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length = 175

Iteration: 1
 Score = 55.5 bits (132), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 29/89 (32%), Positives = 49/89 (55%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD AD D+++ +R ELH +I   ++    IL+  NK+DLP+A+   E+ +++ L  I+D
Sbjct: 87  VVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQEKLGLTRIRD 146
Query: 61  REICCYSISCKERDNIDITLQWLIAHSKS 89
           R            D +   L WL ++ KS
Sbjct: 147 RNWYVQPSCATSGDGLYEGLTWLTSNYKS 175

>pdb|4DCN|A Chain A, Crystal Structure Analysis Of The Arfaptin2 Bar Domain In Complex With Arl1 Length = 166

Iteration: 1
 Score = 55.5 bits (132), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 26/89 (29%), Positives = 53/89 (59%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+ D D++  S++EL A++E+ +L    ++V  NK+D+  A+   E+ + + L A++D
Sbjct: 78  VVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMANSLGLPALKD 137
Query: 61  REICCYSISCKERDNIDITLQWLIAHSKS 89
           R+   +  S  +   +D  ++WL+   KS
Sbjct: 138 RKWQIFKTSATKGTGLDEAMEWLVETLKS 166

>pdb|1MOZ|A Chain A, Adp-Ribosylation Factor-Like 1 (Arl1) From Saccharomyces Cerevisiae Length = 183

Iteration: 1
 Score = 55.1 bits (131), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 27/84 (32%), Positives = 46/84 (54%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+ D D++  +  ELH ++++ +L    +LV  NK+D P AL   E+   +NL  ++D
Sbjct: 92  VVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGALSASEVSKELNLVELKD 151
Query: 61  REICCYSISCKERDNIDITLQWLI 84
           R     + S  + + I   L WLI
Sbjct: 152 RSWSIVASSAIKGEGITEGLDWLI 175

>pdb|2X77|A Chain A, Crystal Structure Of Leishmania Major Adp Ribosylation Factor-Like 1. Length = 189

Iteration: 1
 Score = 55.1 bits (131), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 25/84 (29%), Positives = 51/84 (60%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+ D D++  +++EL+AL+++ +L    +L+  NK+DLP+A  E E+ +++ + +I +
Sbjct: 96  VVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPDAASEAEIAEQLGVSSIMN 155
Query: 61  REICCYSISCKERDNIDITLQWLI 84
           R       S K  D +   + WL+
Sbjct: 156 RTWTIVKSSSKTGDGLVEGMDWLV 179

>pdb|3LVR|E Chain E, The Crystal Structure Of Asap3 In Complex With Arf6 In Trans State Soaked With Calcium Length = 497

Iteration: 1
 Score = 55.1 bits (131), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 29/89 (32%), Positives = 49/89 (55%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD AD D+++ +R ELH +I   ++    IL+  NK+DLP+A+   E+ +++ L  I+D
Sbjct: 396 VVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQEKLGLTRIRD 455
Query: 61  REICCYSISCKERDNIDITLQWLIAHSKS 89
           R            D +   L WL ++ KS
Sbjct: 456 RNWYVQPSCATSGDGLYEGLTWLTSNYKS 484

>pdb|1R4A|A Chain A, Crystal Structure Of Gtp-Bound Adp-Ribosylation Factor Like Protein 1 (Arl1) And Grip Domain Of Golgin245 Complex Length = 165

Iteration: 1
 Score = 54.7 bits (130), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 26/90 (28%), Positives = 53/90 (58%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+ D D++  S++EL A++E+ +L    ++V  NK+D+  A+   E+ + + L A++D
Sbjct: 76  VVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTPSEMANALGLPALKD 135
Query: 61  REICCYSISCKERDNIDITLQWLIAHSKSH 90
           R+   +  S  +   +D  ++WL+   KS 
Sbjct: 136 RKWQIFKTSATKGTGLDEAMEWLVETLKSR 165

>pdb|3AQ4|A Chain A, Molecular Insights Into Plant Cell Proliferation Disturbance By Agrobacterium Protein 6b Length = 184

Iteration: 1
 Score = 53.5 bits (127), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 26/83 (31%), Positives = 48/83 (57%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+ D D++  +R+ELH ++ + +L    +LV  NK+DLPNA++  E+ D++ L +++ 
Sbjct: 94  VVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQ 153
Query: 61  REICCYSISCKERDNIDITLQWL 83
           R     S      + +   L WL
Sbjct: 154 RHWYIQSTCATSGEGLYEGLDWL 176

>pdb|3PCR|B Chain B, Structure Of Espg-Arf6 Complex Length = 162

Iteration: 1
 Score = 53.1 bits (126), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 29/89 (32%), Positives = 47/89 (52%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD AD D+++ +R ELH +I   +     IL+  NK+DLP+A    E+ +++ L  I+D
Sbjct: 74  VVDCADRDRIDEARQELHRIINDREXRDAIILIFANKQDLPDAXKPHEIQEKLGLTRIRD 133
Query: 61  REICCYSISCKERDNIDITLQWLIAHSKS 89
           R            D +   L WL ++ KS
Sbjct: 134 RNWYVQPSCATSGDGLYEGLTWLTSNYKS 162

>pdb|4FME|C Chain C, Espg-Rab1-Arf6 Complex Length = 160

Iteration: 1
 Score = 52.4 bits (124), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 27/86 (31%), Positives = 47/86 (54%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD AD D+++ +R ELH +I   ++    IL+  NK+DLP+A+   E+ +++ L  I+D
Sbjct: 74  VVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQEKLGLTRIRD 133
Query: 61  REICCYSISCKERDNIDITLQWLIAH 86
           R            D +   L WL ++
Sbjct: 134 RNWYVQPSCATSGDGLYEGLTWLTSN 159

>pdb|2QTV|B Chain B, Structure Of Sec23-Sar1 Complexed With The Active Fragment Of Sec31 Length = 167

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 31/90 (34%), Positives = 46/90 (51%), Gaps = 7/90 (7%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKEL---IDRMNLCA 57
           +VDAAD ++ + +R EL AL    +L  +P ++LGNK D PNA+ E EL   +  +N   
Sbjct: 75  LVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAVSEAELRSALGLLNTTG 134
Query: 58  IQ----DREICCYSISCKERDNIDITLQWL 83
            Q     R +  +  S   R+      QWL
Sbjct: 135 SQRIEGQRPVEVFMCSVVMRNGYLEAFQWL 164

>pdb|1M2O|B Chain B, Crystal Structure Of The Sec23-Sar1 Complex Length = 190

Iteration: 1
 Score = 51.2 bits (121), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 31/90 (34%), Positives = 46/90 (51%), Gaps = 7/90 (7%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKEL---IDRMNLCA 57
           +VDAAD ++ + +R EL AL    +L  +P ++LGNK D PNA+ E EL   +  +N   
Sbjct: 97  LVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAVSEAELRSALGLLNTTG 156
Query: 58  IQ----DREICCYSISCKERDNIDITLQWL 83
            Q     R +  +  S   R+      QWL
Sbjct: 157 SQRIEGQRPVEVFMCSVVMRNGYLEAFQWL 186

>pdb|3O47|A Chain A, Crystal Structure Of Arfgap1-Arf1 Fusion Protein Length = 329

Iteration: 1
 Score = 49.3 bits (116), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 24/83 (28%), Positives = 46/83 (55%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+ D +++  +R EL  ++ + +L    +LV  NK+DLPNA++  E+ D++ L +++ 
Sbjct: 239 VVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRH 298
Query: 61  REICCYSISCKERDNIDITLQWL 83
           R     +      D +   L WL
Sbjct: 299 RNWYIQATCATSGDGLYEGLDWL 321

>pdb|3RD1|A Chain A, Structure Of An Adp Ribosylation Factor From Entamoeba Histolytica Hm- 1:imss Bound To Mg-Gdp Length = 178

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 24/83 (28%), Positives = 45/83 (54%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+ D D++  +R EL  ++ + ++    +LV  NK DLP A+   E+ +++ L  I++
Sbjct: 91  VVDSNDRDRIGEAREELMKMLNEDEMRNAILLVFANKHDLPQAMSISEVTEKLGLQTIKN 150
Query: 61  REICCYSISCKERDNIDITLQWL 83
           R+  C +      D +   L WL
Sbjct: 151 RKWYCQTSCATNGDGLYEGLDWL 173

>pdb|1HUR|A Chain A, Human Adp-Ribosylation Factor 1 Complexed With Gdp, Full Length = 180

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 24/83 (28%), Positives = 46/83 (55%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+ D +++  +R EL  ++ + +L    +LV  NK+DLPNA++  E+ D++ L +++ 
Sbjct: 90  VVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRH 149
Query: 61  REICCYSISCKERDNIDITLQWL 83
           R     +      D +   L WL
Sbjct: 150 RNWYIQATCATSGDGLYEGLDWL 172

>pdb|1RE0|A Chain A, Structure Of Arf1-Gdp Bound To Sec7 Domain Complexed With Brefeldin A Length = 164

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 24/83 (28%), Positives = 46/83 (55%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+ D +++  +R EL  ++ + +L    +LV  NK+DLPNA++  E+ D++ L +++ 
Sbjct: 74  VVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRH 133
Query: 61  REICCYSISCKERDNIDITLQWL 83
           R     +      D +   L WL
Sbjct: 134 RNWYIQATCATSGDGLYEGLDWL 156

>pdb|1RRG|A Chain A, Non-Myristoylated Rat Adp-Ribosylation Factor-1 Complexed With Gdp, Dimeric Crystal Form Length = 181

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 24/83 (28%), Positives = 46/83 (55%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+ D +++  +R EL  ++ + +L    +LV  NK+DLPNA++  E+ D++ L +++ 
Sbjct: 91  VVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRH 150
Query: 61  REICCYSISCKERDNIDITLQWL 83
           R     +      D +   L WL
Sbjct: 151 RNWYIQATCATSGDGLYEGLDWL 173

>pdb|1J2J|A Chain A, Crystal Structure Of Gga1 Gat N-terminal Region In Complex With Arf1 Gtp Form Length = 166

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 24/83 (28%), Positives = 46/83 (55%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+ D +++  +R EL  ++ + +L    +LV  NK+DLPNA++  E+ D++ L +++ 
Sbjct: 76  VVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRH 135
Query: 61  REICCYSISCKERDNIDITLQWL 83
           R     +      D +   L WL
Sbjct: 136 RNWYIQATCATSGDGLYEGLDWL 158

>pdb|3DOE|A Chain A, Complex Of Arl2 And Bart, Crystal Form 1 Length = 192

Iteration: 1
 Score = 47.0 bits (110), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 24/84 (28%), Positives = 46/84 (54%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+AD  +++  + EL +L+ + +L G  +L+  NK+DLP AL    + + + L +I+ 
Sbjct: 90  VVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSSNAIREVLELDSIRS 149
Query: 61  REICCYSISCKERDNIDITLQWLI 84
              C    S    +N+   + WL+
Sbjct: 150 HHWCIQGCSAVTGENLLPGIDWLL 173

>pdb|2B6H|A Chain A, Structure Of Human Adp-Ribosylation Factor 5 Length = 192

Iteration: 1
 Score = 46.2 bits (108), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 23/83 (27%), Positives = 46/83 (55%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+ D ++++ S +EL  ++++ +L    +LV  NK+D+PNA+   EL D++ L  ++ 
Sbjct: 103 VVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPNAMPVSELTDKLGLQHLRS 162
Query: 61  REICCYSISCKERDNIDITLQWL 83
           R     +    +   +   L WL
Sbjct: 163 RTWYVQATCATQGTGLYDGLDWL 185

>pdb|1F6B|A Chain A, Crystal Structure Of Sar1-Gdp Complex Length = 198

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 26/72 (36%), Positives = 40/72 (55%), Gaps = 3/72 (4%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD AD ++L  S+ EL +L+    +  +PIL+LGNK D P A+ E+ L +   L     
Sbjct: 99  LVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEAISEERLREMFGLYG--- 155
Query: 61  REICCYSISCKE 72
           +     S+S KE
Sbjct: 156 QTTGKGSVSLKE 167

>pdb|2FMX|A Chain A, An Open Conformation Of Switch I Revealed By Sar1-gdp Crystal Structure At Low Mg(2+) Length = 195

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 26/72 (36%), Positives = 40/72 (55%), Gaps = 3/72 (4%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD AD ++L  S+ EL +L+    +  +PIL+LGNK D P A+ E+ L +   L     
Sbjct: 96  LVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEAISEERLREMFGLYG--- 152
Query: 61  REICCYSISCKE 72
           +     S+S KE
Sbjct: 153 QTTGKGSVSLKE 164

>pdb|2FA9|A Chain A, The Crystal Structure Of Sar1[h79g]-gdp Provides Insight Into The Coat-controlled Gtp Hydrolysis In The Disassembly Of Cop Ii Length = 189

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 26/72 (36%), Positives = 40/72 (55%), Gaps = 3/72 (4%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD AD ++L  S+ EL +L+    +  +PIL+LGNK D P A+ E+ L +   L     
Sbjct: 90  LVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEAISEERLREMFGLYG--- 146
Query: 61  REICCYSISCKE 72
           +     S+S KE
Sbjct: 147 QTTGKGSVSLKE 158

>pdb|2K5U|A Chain A, Solution Structure Of Myirstoylated Yeast Arf1 Protein, Gdp- Bound Length = 181

Iteration: 1
 Score = 42.0 bits (97), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 22/91 (24%), Positives = 46/91 (50%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+ D  ++  +R  +  ++ + +L     LV  NK+DLP A+   E+ +++ L +I++
Sbjct: 91  VVDSNDRSRIGEAREVMQRMLNEDELRNAAWLVFANKQDLPEAMSAAEITEKLGLHSIRN 150
Query: 61  REICCYSISCKERDNIDITLQWLIAHSKSHT 91
           R     +      + +   L+WL    K+ T
Sbjct: 151 RPWFIQATCATSGEGLYEGLEWLSNSLKNST 181

>pdb|3TJZ|A Chain A, Crystal Structure Of Arf1 Bound To The GammaZETA-Cop Core Complex Length = 164

Iteration: 1
 Score = 42.0 bits (97), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 22/91 (24%), Positives = 46/91 (50%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+ D  ++  +R  +  ++ + +L     LV  NK+DLP A+   E+ +++ L +I++
Sbjct: 74  VVDSNDRSRIGEAREVMQRMLNEDELRNAAWLVFANKQDLPEAMSAAEITEKLGLHSIRN 133
Query: 61  REICCYSISCKERDNIDITLQWLIAHSKSHT 91
           R     +      + +   L+WL    K+ T
Sbjct: 134 RPWFIQATCATSGEGLYEGLEWLSNSLKNST 164

>pdb|1MR3|F Chain F, Saccharomyces Cerevisiae Adp-Ribosylation Factor 2 (Scarf2) Complexed With Gdp-3'p At 1.6a Resolution Length = 181

Iteration: 1
 Score = 41.2 bits (95), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 21/91 (23%), Positives = 47/91 (51%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           ++D+ D  ++  +R  +  ++ + +L     LV  NK+DLP A+   E+ +++ L +I++
Sbjct: 91  VIDSNDRSRIGEAREVMQRMLNEDELRNAVWLVFANKQDLPEAMSAAEITEKLGLHSIRN 150
Query: 61  REICCYSISCKERDNIDITLQWLIAHSKSHT 91
           R     S      + +   L+WL  + K+ +
Sbjct: 151 RPWFIQSTCATSGEGLYEGLEWLSNNLKNQS 181

>pdb|2KSQ|A Chain A, The Myristoylated Yeast Arf1 In A Gtp And Bicelle Bound Conformation Length = 181

Iteration: 1
 Score = 41.2 bits (95), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 20/83 (24%), Positives = 43/83 (51%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+ D  ++  +R  +  ++ + +L     LV  NK+DLP A+   E+ +++ L +I++
Sbjct: 91  VVDSNDRSRIGEAREVMQRMLNEDELCNAAWLVFANKQDLPEAMSAAEITEKLGLHSIRN 150
Query: 61  REICCYSISCKERDNIDITLQWL 83
           R     +      + +   L+WL
Sbjct: 151 RPWFIQATCATSGEGLYEGLEWL 173

>pdb|1KSH|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 2 (Native) Length = 186

Iteration: 1
 Score = 40.8 bits (94), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 22/84 (26%), Positives = 45/84 (53%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+AD  +++  + EL +L+ + +L G  +L+  NK+DLP AL    + + + L +I+ 
Sbjct: 92  VVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSXNAIQEALELDSIRS 151
Query: 61  REICCYSISCKERDNIDITLQWLI 84
                   S    +++   + WL+
Sbjct: 152 HHWRIQGCSAVTGEDLLPGIDWLL 175

>pdb|1Z6X|A Chain A, Structure Of Human Adp-Ribosylation Factor 4 Length = 180

Iteration: 1
 Score = 40.8 bits (94), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 21/83 (25%), Positives = 45/83 (54%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+ D ++++   +EL  ++   +L    +L+  NK+DLPNA+   E+ D++ L ++++
Sbjct: 91  VVDSNDRERIQEVADELQKMLLVDELRDAVLLLFANKQDLPNAMAISEMTDKLGLQSLRN 150
Query: 61  REICCYSISCKERDNIDITLQWL 83
           R     +    +   +   L WL
Sbjct: 151 RTWYVQATCATQGTGLYEGLDWL 173

>pdb|2GAO|A Chain A, Crystal Structure Of Human Sar1a In Complex With Gdp Length = 208

Iteration: 1
 Score = 40.8 bits (94), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 27/95 (28%), Positives = 45/95 (47%), Gaps = 12/95 (12%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCA--- 57
           +VD AD  +L  S+ EL+AL+    +  +PIL+LGNK D  +A+ E++L +   L     
Sbjct: 109 LVDCADHSRLVESKVELNALMTDETISNVPILILGNKIDRTDAISEEKLREIFGLYGQTT 168
Query: 58  ---------IQDREICCYSISCKERDNIDITLQWL 83
                    +  R +  +  S  +R       +WL
Sbjct: 169 GKGNVTLKELNARPMEVFMCSVLKRQGYGEGFRWL 203

>pdb|1KSJ|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 2 (Semet) Length = 186

Iteration: 1
 Score = 39.7 bits (91), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 22/84 (26%), Positives = 44/84 (52%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+AD  + +  + EL +L+ + +L G  +L+  NK+DLP AL    + + + L +I+ 
Sbjct: 92  VVDSADRQRXQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSXNAIQEALELDSIRS 151
Query: 61  REICCYSISCKERDNIDITLQWLI 84
                   S    +++   + WL+
Sbjct: 152 HHWRIQGCSAVTGEDLLPGIDWLL 175

>pdb|1KSG|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 1 Length = 186

Iteration: 1
 Score = 39.3 bits (90), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 17/44 (38%), Positives = 30/44 (68%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL 44
           +VD+AD  +++  + EL +L+ + +L G  +L+  NK+DLP AL
Sbjct: 92  VVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGAL 135

>pdb|4GOK|B Chain B, The Crystal Structure Of Arl2gppnhp In Complex With Unc119a Length = 169

Iteration: 1
 Score = 39.3 bits (90), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 22/84 (26%), Positives = 45/84 (53%)
Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+AD  +++  + EL +L+ + +L G  +L+  NK+DLP AL    + + + L +I+ 
Sbjct: 75  VVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSCNAIQEALELDSIRS 134
Query: 61  REICCYSISCKERDNIDITLQWLI 84
                   S    +++   + WL+
Sbjct: 135 HHWRIQGCSAVTGEDLLPGIDWLL 158

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	92
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	3e-32
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	5e-31
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	5e-31
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	5e-29
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	2e-28
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	3e-28
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	4e-28
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	3e-27
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	4e-27
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	3e-26
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	1e-25
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	1e-24
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	5e-24
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	8e-20
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	2e-18
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	6e-13
2fh5_B	214	SR-beta, signal recognition particle receptor beta	7e-13
1nrj_B	218	SR-beta, signal recognition particle receptor beta	5e-12
2ged_A	193	SR-beta, signal recognition particle receptor beta	1e-11
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	3e-05
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	3e-04

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A* Length = 188

 Score =  109 bits (275), Expect = 3e-32
 Identities = 74/89 (83%), Positives = 83/89 (93%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           MVDAAD +K+EAS+NELH L++KPQL GIP+LVLGNKRDLP ALDEKELI++MNL AIQD
Sbjct: 97  MVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALDEKELIEKMNLSAIQD 156

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKS 89
           REICCYSISCKE+DNIDITLQWLI HSKS
Sbjct: 157 REICCYSISCKEKDNIDITLQWLIQHSKS 185

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major} Length = 189

 Score =  106 bits (267), Expect = 5e-31
 Identities = 25/90 (27%), Positives = 52/90 (57%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+ D D++  +++EL+AL+++ +L    +L+  NK+DLP+A  E E+ +++ + +I +
Sbjct: 96  VVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPDAASEAEIAEQLGVSSIMN 155

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKSH 90
           R       S K  D +   + WL+   +  
Sbjct: 156 RTWTIVKSSSKTGDGLVEGMDWLVERLREQ 185

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A* Length = 171

 Score =  106 bits (266), Expect = 5e-31
 Identities = 26/89 (29%), Positives = 53/89 (59%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+ D D++  S++EL A++E+ +L    ++V  NK+D+  A+   E+ + + L A++D
Sbjct: 81  VVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMANSLGLPALKD 140

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKS 89
           R+   +  S  +   +D  ++WL+   KS
Sbjct: 141 RKWQIFKTSATKGTGLDEAMEWLVETLKS 169

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A* Length = 181

 Score =  101 bits (254), Expect = 5e-29
 Identities = 25/91 (27%), Positives = 47/91 (51%)

Query: 2   VDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDR 61
           +D+AD  + E +  EL  L+E+ +L  +P+L+  NK+DL  A    E+ + +NL  I+DR
Sbjct: 91  IDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAPASEIAEGLNLHTIRDR 150

Query: 62  EICCYSISCKERDNIDITLQWLIAHSKSHTR 92
                S S    + +   + W+  +  +  +
Sbjct: 151 VWQIQSCSALTGEGVQDGMNWVCKNVNAKKK 181

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A* Length = 192

 Score =  100 bits (250), Expect = 2e-28
 Identities = 23/88 (26%), Positives = 45/88 (51%)

Query: 2   VDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDR 61
           VD+ D ++++ S +EL  ++++ +L    +LV  NK+D+PNA+   EL D++ L  ++ R
Sbjct: 104 VDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPNAMPVSELTDKLGLQHLRSR 163

Query: 62  EICCYSISCKERDNIDITLQWLIAHSKS 89
                +    +   +   L WL      
Sbjct: 164 TWYVQATCATQGTGLYDGLDWLSHELSK 191

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ... Length = 164

 Score = 98.8 bits (247), Expect = 3e-28
 Identities = 24/89 (26%), Positives = 47/89 (52%)

Query: 2   VDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDR 61
           VD+ D +++  +R EL  ++ + +L    +LV  NK+DLPNA++  E+ D++ L +++ R
Sbjct: 75  VDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHR 134

Query: 62  EICCYSISCKERDNIDITLQWLIAHSKSH 90
                +      D +   L WL    ++ 
Sbjct: 135 NWYIQATCATSGDGLYEGLDWLSNQLRNQ 163

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens} Length = 190

 Score = 99.3 bits (248), Expect = 4e-28
 Identities = 20/92 (21%), Positives = 44/92 (47%), Gaps = 2/92 (2%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIG--IPILVLGNKRDLPNALDEKELIDRMNLCAI 58
           ++D++D  ++  ++ EL  L+  P +    IPIL   NK DL +A+   ++   + L  I
Sbjct: 97  VIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRDAVTSVKVSQLLCLENI 156

Query: 59  QDREICCYSISCKERDNIDITLQWLIAHSKSH 90
           +D+     +    + + +   + WL    ++ 
Sbjct: 157 KDKPWHICASDAIKGEGLQEGVDWLQDQIQTV 188

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A* Length = 186

 Score = 96.9 bits (242), Expect = 3e-27
 Identities = 23/89 (25%), Positives = 45/89 (50%)

Query: 2   VDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDR 61
           VD+AD  +++  + EL +L+ + +L G  +L+  NK+DLP AL    + + + L +I+  
Sbjct: 93  VDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSCNAIQEALELDSIRSH 152

Query: 62  EICCYSISCKERDNIDITLQWLIAHSKSH 90
                  S    +++   + WL+    S 
Sbjct: 153 HWRIQGCSAVTGEDLLPGIDWLLDDISSR 181

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 183

 Score = 96.6 bits (241), Expect = 4e-27
 Identities = 28/89 (31%), Positives = 46/89 (51%)

Query: 2   VDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDR 61
           VD+ D D++  +  ELH ++++ +L    +LV  NK+D P AL   E+   +NL  ++DR
Sbjct: 93  VDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGALSASEVSKELNLVELKDR 152

Query: 62  EICCYSISCKERDNIDITLQWLIAHSKSH 90
                + S  + + I   L WLI   K  
Sbjct: 153 SWSIVASSAIKGEGITEGLDWLIDVIKEE 181

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B* Length = 190

 Score = 94.6 bits (236), Expect = 3e-26
 Identities = 30/93 (32%), Positives = 45/93 (48%), Gaps = 7/93 (7%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQ- 59
           +VDAAD ++ + +R EL AL    +L  +P ++LGNK D PNA+ E EL   + L     
Sbjct: 97  LVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAVSEAELRSALGLLNTTG 156

Query: 60  ------DREICCYSISCKERDNIDITLQWLIAH 86
                  R +  +  S   R+      QWL  +
Sbjct: 157 SQRIEGQRPVEVFMCSVVMRNGYLEAFQWLSQY 189

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 187

 Score = 93.1 bits (232), Expect = 1e-25
 Identities = 18/89 (20%), Positives = 43/89 (48%)

Query: 2   VDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDR 61
           VD+ D +++  +R EL+ ++    L    +L+  NK+D+   +   E+   + L +I+D 
Sbjct: 91  VDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTVAEISQFLKLTSIKDH 150

Query: 62  EICCYSISCKERDNIDITLQWLIAHSKSH 90
           +    +      + +   L+W+++  K  
Sbjct: 151 QWHIQACCALTGEGLCQGLEWMMSRLKIR 179

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A* Length = 198

 Score = 90.4 bits (225), Expect = 1e-24
 Identities = 26/98 (26%), Positives = 45/98 (45%), Gaps = 12/98 (12%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCA--- 57
           +VD AD ++L  S+ EL +L+    +  +PIL+LGNK D P A+ E+ L +   L     
Sbjct: 99  LVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEAISEERLREMFGLYGQTT 158

Query: 58  ---------IQDREICCYSISCKERDNIDITLQWLIAH 86
                    +  R +  +  S  +R       +W+  +
Sbjct: 159 GKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQY 196

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A* Length = 181

 Score = 88.5 bits (220), Expect = 5e-24
 Identities = 17/83 (20%), Positives = 41/83 (49%)

Query: 2   VDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDR 61
           VD+ D +++  +R EL+ ++    L    +L+  NK+D+   +   E+   + L +I+D 
Sbjct: 96  VDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTVAEISQFLKLTSIKDH 155

Query: 62  EICCYSISCKERDNIDITLQWLI 84
           +    +      + +   L+W++
Sbjct: 156 QWHIQACCALTGEGLCQGLEWMM 178

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens} Length = 329

 Score = 80.3 bits (198), Expect = 8e-20
 Identities = 24/89 (26%), Positives = 47/89 (52%)

Query: 2   VDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDR 61
           VD+ D +++  +R EL  ++ + +L    +LV  NK+DLPNA++  E+ D++ L +++ R
Sbjct: 240 VDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHR 299

Query: 62  EICCYSISCKERDNIDITLQWLIAHSKSH 90
                +      D +   L WL    ++ 
Sbjct: 300 NWYIQATCATSGDGLYEGLDWLSNQLRNQ 328

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A* Length = 198

 Score = 60.1 bits (146), Expect = 6e-13
 Identities = 19/90 (21%), Positives = 38/90 (42%), Gaps = 10/90 (11%)

Query: 2   VDAADTDKLEASRNELHALIE-----KPQLIGIPILVLGNKRDLPNALDEKELIDRMNLC 56
            D+A  ++L A+   +  + E        L  +PI++  NKRDLP+AL  + +   ++  
Sbjct: 105 ADSAP-NRLRANAESMRNMRENLAEYGLTLDDVPIVIQVNKRDLPDALPVEMVRAVVDP- 162

Query: 57  AIQDREICCYSISCKERDNIDITLQWLIAH 86
              + +         E   +  TL+ +   
Sbjct: 163 ---EGKFPVLEAVATEGKGVFETLKEVSRL 189

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2 Length = 214

 Score = 60.1 bits (146), Expect = 7e-13
 Identities = 14/86 (16%), Positives = 32/86 (37%), Gaps = 5/86 (5%)

Query: 1   MVDAADTDK-LEASRNELHALIEKPQLI--GIPILVLGNKRDLPNALDEKELIDRMNLCA 57
           +VD+A   + ++     L+ ++     +     +L+  NK+D+  A   K +  ++    
Sbjct: 85  VVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAKLIQQQLEKEL 144

Query: 58  IQDREICCYSISCKERDNIDITLQWL 83
              R     S +    D+       L
Sbjct: 145 NTLRVT--RSAAPSTLDSSSTAPAQL 168

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 218

 Score = 57.8 bits (140), Expect = 5e-12
 Identities = 21/92 (22%), Positives = 36/92 (39%), Gaps = 9/92 (9%)

Query: 1   MVDAA-DTDKLEASRNELHALIEKPQLI---GIPILVLGNKRDLPNALDEKELIDRM--- 53
           MVD+  D  KL  +   L  ++   +     GI IL+  NK +L  A    ++ D +   
Sbjct: 89  MVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKDALESE 148

Query: 54  --NLCAIQDREICCYSISCKERDNIDITLQWL 83
              +   + + +        E D  + TL  L
Sbjct: 149 IQKVIERRKKSLNEVERKINEEDYAENTLDVL 180

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae} Length = 193

 Score = 56.7 bits (137), Expect = 1e-11
 Identities = 16/59 (27%), Positives = 26/59 (44%), Gaps = 4/59 (6%)

Query: 1   MVDAA-DTDKLEASRNELHALIEKPQLI---GIPILVLGNKRDLPNALDEKELIDRMNL 55
           MVD+  D  KL  +   L  ++   +     GI IL+  NK +L  A    ++ D +  
Sbjct: 125 MVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKDALES 183

>3l82_B F-box only protein 4; TRFH domain, helix, GTPase domain, acetylation, ADP- ribosylation, alternative splicing, cell cycle, cell division; 2.40A {Homo sapiens} Length = 227

 Score = 39.7 bits (92), Expect = 3e-05
 Identities = 10/63 (15%), Positives = 20/63 (31%), Gaps = 4/63 (6%)

Query: 1   MVDAADTDKLEASRNELHALI---EKPQLIGIPILVLG-NKRDLPNALDEKELIDRMNLC 56
           + +A    + E      H +          G P+LVL    +     +    L   ++L 
Sbjct: 132 VANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKRMPCFYLAHELHLN 191

Query: 57  AIQ 59
            + 
Sbjct: 192 LLN 194

>3l2o_B F-box only protein 4; small G protein fold, UBL conjugation pathway, ubiquitin Pro ligase, protein binding-cell cycle complex; 2.80A {Homo sapiens} Length = 312

 Score = 37.0 bits (85), Expect = 3e-04
 Identities = 10/63 (15%), Positives = 20/63 (31%), Gaps = 4/63 (6%)

Query: 1   MVDAADTDKLEASRNELHALI---EKPQLIGIPILVLG-NKRDLPNALDEKELIDRMNLC 56
           + +A    + E      H +          G P+LVL    +     +    L   ++L 
Sbjct: 217 VANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKRMPCFYLAHELHLN 276

Query: 57  AIQ 59
            + 
Sbjct: 277 LLN 279

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	92
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.85
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.84
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.83
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	99.82
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.82
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.82
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.82
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.82
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.81
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.81
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.81
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.81
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.8
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.8
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.8
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.78
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	99.78
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.77
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	99.77
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.76
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.75
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.75
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.74
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.74
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.73
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.72
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.7
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.7
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.7
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.69
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.69
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.69
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.68
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.68
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.68
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.68
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.68
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.68
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.67
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.66
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.66
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.66
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.66
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.66
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.66
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.66
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.66
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.65
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.65
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.65
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.65
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.64
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.64
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.64
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.64
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.64
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.64
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.64
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.64
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.64
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.64
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.63
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.63
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.63
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.63
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.63
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.63
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.63
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.63
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.62
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.62
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.62
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.62
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.62
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.62
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.62
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.62
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.62
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.62
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.61
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.61
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.6
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.6
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.6
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.59
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.59
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.59
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.59
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.58
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.58
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.58
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.57
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.56
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.56
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.56
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.55
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.55
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.55
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.54
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.52
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.51
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.51
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.51
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.51
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	99.5
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.49
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.49
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.48
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.2
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.46
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.46
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.45
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.43
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.43
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.41
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.39
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.38
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.37
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.35
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.34
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.34
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	99.32
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.31
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.31
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.28
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.27
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.26
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.26
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.23
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.23
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.23
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.22
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.21
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.21
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.2
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.19
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.18
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.16
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.16
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.14
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.14
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.09
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.08
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.07
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	99.07
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.06
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.05
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.02
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.02
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.02
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.02
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.01
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.01
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.98
2hf9_A	226	Probable hydrogenase nickel incorporation protein	98.97
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	98.97
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	98.91
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	98.9
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	98.9
1nrj_B	218	SR-beta, signal recognition particle receptor beta	98.88
1wb1_A	482	Translation elongation factor SELB; selenocysteine	98.88
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.87
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	98.83
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	98.83
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	98.81
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	98.75
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	98.74
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	98.7
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	98.68
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	98.67
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	98.66
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	98.65
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	98.62
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	98.6
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	98.6
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	98.56
2ged_A	193	SR-beta, signal recognition particle receptor beta	98.56
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	98.54
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	98.54
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	98.49
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	98.49
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	98.49
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	98.47
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	98.39
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	98.37
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	98.37
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	98.36
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	98.34
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	98.32
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	98.29
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	98.27
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	98.24
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	98.23
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	98.23
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.2
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	98.17
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	98.14
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	98.06
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	98.06
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	97.98
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	97.89
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	97.89
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	97.8
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	97.8
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	97.74
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	97.48
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	97.36
1wxq_A	397	GTP-binding protein; structural genomics, riken st	97.14
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	96.84
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	96.13
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	95.96
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	95.88
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	94.96
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	94.66
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	94.66
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	93.68
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	92.77
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	92.76
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	86.48

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=99.85  E-value=1.4e-20  Score=108.98  Aligned_cols=91  Identities=27%  Similarity=0.491  Sum_probs=72.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|+++++++.....|+..++......+.|+++|+||+|+.+....+++.+.++.......++++++|||++|.||+++|
T Consensus        90 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~  169 (181)
T 1fzq_A           90 VIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAPASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGM  169 (181)
T ss_dssp             EEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHhChhhcCCCEEEEEECcCcccCCCHHHHHHHhCchhccCCceEEEEccCCCCCCHHHHH
Confidence            58999999999998899888765444679999999999998766667777766544334456889999999999999999


Q ss_pred             HHHHHhhhhcC
Q psy2977          81 QWLIAHSKSHT   91 (92)
Q Consensus        81 ~~l~~~i~~~~   91 (92)
                      +||.+.+.+++
T Consensus       170 ~~l~~~~~~~~  180 (181)
T 1fzq_A          170 NWVCKNVNAKK  180 (181)
T ss_dssp             HHHHHTC----
T ss_pred             HHHHHHHHhcc
Confidence            99999987654

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=99.84  E-value=4.1e-20  Score=104.80  Aligned_cols=90  Identities=27%  Similarity=0.529  Sum_probs=72.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|+++++++.....|+..++......+.|+++|+||+|+.+....+++.+.++.......++++++|||++|.|++++|
T Consensus        74 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  153 (164)
T 1r8s_A           74 VVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGL  153 (164)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHhchhhcCCeEEEEEECcCCcCCCCHHHHHHHhCcccccCccEEEEEcccCCCcCHHHHH
Confidence            58999999999998999988865444679999999999998766667777766644444456889999999999999999


Q ss_pred             HHHHHhhhhc
Q psy2977          81 QWLIAHSKSH   90 (92)
Q Consensus        81 ~~l~~~i~~~   90 (92)
                      ++|.+.+.++
T Consensus       154 ~~l~~~i~~~  163 (164)
T 1r8s_A          154 DWLSNQLRNQ  163 (164)
T ss_dssp             HHHHHHC---
T ss_pred             HHHHHHHhhc
Confidence            9999998765

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.83  E-value=1.4e-19  Score=104.30  Aligned_cols=90  Identities=31%  Similarity=0.546  Sum_probs=75.8

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++.+++....|+..++......+.|+++|+||+|+.+..+.+++.+.++.......++++++|||++|.|++++|
T Consensus        92 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  171 (183)
T 1moz_A           92 VVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGALSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGL  171 (183)
T ss_dssp             EEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTCCCHHHHHHHTTTTTCCSSCEEEEEEBGGGTBTHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHcChhhCCCeEEEEEECCCCCCCCCHHHHHHHhCcccccCCceEEEEccCCCCcCHHHHH
Confidence            57999999999999999998875445679999999999998766777787777655444556789999999999999999


Q ss_pred             HHHHHhhhhc
Q psy2977          81 QWLIAHSKSH   90 (92)
Q Consensus        81 ~~l~~~i~~~   90 (92)
                      ++|.+.+.++
T Consensus       172 ~~l~~~~~~~  181 (183)
T 1moz_A          172 DWLIDVIKEE  181 (183)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhc
Confidence            9999998764

>3l82_B F-box only protein 4; TRFH domain, helix, GTPase domain, acetylation, ADP- ribosylation, alternative splicing, cell cycle, cell division; 2.40A {Homo sapiens}

Probab=99.82  E-value=2.1e-20  Score=110.71  Aligned_cols=89  Identities=15%  Similarity=0.209  Sum_probs=75.0

Q ss_pred             CeeCCchhhHHHHHHHH---HHhhcCCC-CCCCcEEEEeeCC-CCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCC
Q psy2977           1 MVDAADTDKLEASRNEL---HALIEKPQ-LIGIPILVLGNKR-DLPNALDEKELIDRMNLCAIQDREICCYSISCKERDN   75 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~---~~~~~~~~-~~~~p~ilv~NK~-Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~g   75 (92)
                      |||++|.++++ ++.++   ..++.+.. +.+.|++|++||+ |++.+.+..++.+.+++..+ .+.|.++.|||+||+|
T Consensus       132 VVDSsD~~R~e-ak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp~Ams~~EI~e~L~L~~l-~R~W~Iq~csA~TGeG  209 (227)
T 3l82_B          132 VANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKRMPCFYLAHELHLNLL-NHPWLVQDTEAETLTG  209 (227)
T ss_dssp             EEECBTTCCCC-HHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTSCBCCHHHHHHHTTGGGG-CSCEEEEEEETTTCTT
T ss_pred             EeccccHhHHH-HHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCccCCCCHHHHHHHcCCcCC-CCCEEEEEeECCCCcC
Confidence            68999988765 67777   45565543 4789999999995 89999999999999998876 5799999999999999


Q ss_pred             HHHHHHHHHHhhhhcC
Q psy2977          76 IDITLQWLIAHSKSHT   91 (92)
Q Consensus        76 i~~~~~~l~~~i~~~~   91 (92)
                      +.+.++||.+.+++++
T Consensus       210 L~EGLdWL~~~l~~k~  225 (227)
T 3l82_B          210 FLNGIEWILEEVESKR  225 (227)
T ss_dssp             HHHHHHHHTTTTTTC-
T ss_pred             HHHHHHHHHHHHHhhc
Confidence            9999999999997654

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=99.82  E-value=1.3e-19  Score=105.83  Aligned_cols=89  Identities=26%  Similarity=0.479  Sum_probs=74.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|+++++++.....|+..++......+.|+++|+||+|+.+....+++.+.++.......++++++|||++|.||+++|
T Consensus       103 v~D~~~~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~  182 (192)
T 2b6h_A          103 VVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPNAMPVSELTDKLGLQHLRSRTWYVQATCATQGTGLYDGL  182 (192)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHhcccccCCCeEEEEEECCCCCCCCCHHHHHHHhCcccccCCceEEEECcCCCcCCHHHHH
Confidence            58999999999999999988865444679999999999998766667777776654444556889999999999999999


Q ss_pred             HHHHHhhhh
Q psy2977          81 QWLIAHSKS   89 (92)
Q Consensus        81 ~~l~~~i~~   89 (92)
                      ++|.+.+.+
T Consensus       183 ~~l~~~i~~  191 (192)
T 2b6h_A          183 DWLSHELSK  191 (192)
T ss_dssp             HHHHHHTTT
T ss_pred             HHHHHHHhc
Confidence            999998865

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.82  E-value=2.5e-19  Score=103.95  Aligned_cols=91  Identities=27%  Similarity=0.522  Sum_probs=75.8

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|+++++++.....|+..++......+.|+++|+||+|+.+....+++.+.++.......++++++|||++|.|++++|
T Consensus        96 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  175 (189)
T 2x77_A           96 VVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPDAASEAEIAEQLGVSSIMNRTWTIVKSSSKTGDGLVEGM  175 (189)
T ss_dssp             EEETTCCTTHHHHHHHHHHHHTCSTTTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHH
T ss_pred             EEeCCCHHHHHHHHHHHHHHHhhhhcCCCeEEEEEECCCCcCCCCHHHHHHHhChhhccCCceEEEEccCCCccCHHHHH
Confidence            58999999999998999998876555689999999999998766667777766544444556789999999999999999


Q ss_pred             HHHHHhhhhcC
Q psy2977          81 QWLIAHSKSHT   91 (92)
Q Consensus        81 ~~l~~~i~~~~   91 (92)
                      ++|.+.+.++.
T Consensus       176 ~~l~~~i~~~~  186 (189)
T 2x77_A          176 DWLVERLREQG  186 (189)
T ss_dssp             HHHHHHHHHTC
T ss_pred             HHHHHHHHhcc
Confidence            99999987654

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=99.82  E-value=2.1e-19  Score=102.40  Aligned_cols=90  Identities=29%  Similarity=0.540  Sum_probs=74.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++.++.....|+..++......+.|+++|+||+|+.+..+..++.+.++.......+++++++||++|.|++++|
T Consensus        81 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  160 (171)
T 1upt_A           81 VVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAM  160 (171)
T ss_dssp             EEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHhchhhCCCEEEEEEECCCCcCCCCHHHHHHHhCchhccCCceEEEECcCCCCcCHHHHH
Confidence            58999999999998999888865444679999999999998766667777766544444567899999999999999999


Q ss_pred             HHHHHhhhhc
Q psy2977          81 QWLIAHSKSH   90 (92)
Q Consensus        81 ~~l~~~i~~~   90 (92)
                      ++|.+.+.++
T Consensus       161 ~~l~~~i~~~  170 (171)
T 1upt_A          161 EWLVETLKSR  170 (171)
T ss_dssp             HHHHHHHHTC
T ss_pred             HHHHHHHhhc
Confidence            9999998754

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=99.82  E-value=2.6e-19  Score=103.55  Aligned_cols=90  Identities=26%  Similarity=0.481  Sum_probs=74.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++.+++....|+.+++......+.|+++|+||+|+.+....+++.+.++.......++++++|||++|.|++++|
T Consensus        92 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  171 (186)
T 1ksh_A           92 VVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGI  171 (186)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHhChhcCCCcEEEEEeCccCCCCCCHHHHHHHhChhhccCCceEEEEeeCCCCCCHHHHH
Confidence            58999999999998999988875444679999999999998766777777766544333457889999999999999999


Q ss_pred             HHHHHhhhhc
Q psy2977          81 QWLIAHSKSH   90 (92)
Q Consensus        81 ~~l~~~i~~~   90 (92)
                      ++|.+.+.++
T Consensus       172 ~~l~~~i~~~  181 (186)
T 1ksh_A          172 DWLLDDISSR  181 (186)
T ss_dssp             HHHHHHHHTC
T ss_pred             HHHHHHHHhc
Confidence            9999988754

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=99.81  E-value=3.2e-19  Score=103.64  Aligned_cols=91  Identities=81%  Similarity=1.285  Sum_probs=72.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|+++++++.....|+..++......++|+++|+||+|+....+.+++.+.++........+.+++|||++|.||+++|
T Consensus        97 v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~  176 (188)
T 1zd9_A           97 MVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALDEKELIEKMNLSAIQDREICCYSISCKEKDNIDITL  176 (188)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHhCcccCCCCEEEEEECCCCccCCCHHHHHHHhChhhhccCCeeEEEEECCCCCCHHHHH
Confidence            58999999999998999988765334679999999999998766666776666543333456789999999999999999


Q ss_pred             HHHHHhhhhcC
Q psy2977          81 QWLIAHSKSHT   91 (92)
Q Consensus        81 ~~l~~~i~~~~   91 (92)
                      ++|.+.+.+++
T Consensus       177 ~~l~~~~~~~~  187 (188)
T 1zd9_A          177 QWLIQHSKSRR  187 (188)
T ss_dssp             HHHHHTCC---
T ss_pred             HHHHHHHHhhc
Confidence            99999887653

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.81  E-value=3.4e-19  Score=103.27  Aligned_cols=89  Identities=20%  Similarity=0.414  Sum_probs=73.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++++++....|+..++......+.|+++|+||+|+.+..+.+++.+.++.......++++++|||++|.|++++|
T Consensus        90 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~  169 (187)
T 1zj6_A           90 VVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGL  169 (187)
T ss_dssp             EEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHHHHH
T ss_pred             EEeCCCHHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCCcCCCCHHHHHHHhChhhhcCCCcEEEEccCCCCcCHHHHH
Confidence            58999999999999999998875334579999999999998766677777766544334456899999999999999999


Q ss_pred             HHHHHhhhh
Q psy2977          81 QWLIAHSKS   89 (92)
Q Consensus        81 ~~l~~~i~~   89 (92)
                      ++|.+.+..
T Consensus       170 ~~l~~~~~~  178 (187)
T 1zj6_A          170 EWMMSRLKI  178 (187)
T ss_dssp             HHHHHHHCC
T ss_pred             HHHHHHHHH
Confidence            999998864

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=99.81  E-value=4.6e-19  Score=103.32  Aligned_cols=87  Identities=34%  Similarity=0.528  Sum_probs=70.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCC-------cCCCceEEEeeccccC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCA-------IQDREICCYSISCKER   73 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~SA~~~   73 (92)
                      |+|++++++++....|+..++......+.|+++|+||+|++...+.+++.+.++...       ....++++++|||++|
T Consensus        97 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g  176 (190)
T 1m2o_B           97 LVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMR  176 (190)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCCCHHHHHHHTTCSSCCC---CCSSCCEEEEECBTTTT
T ss_pred             EEECCChHHHHHHHHHHHHHHcchhhcCCCEEEEEECCCCcCCCCHHHHHHHhCCccccccccccccceEEEEEeECCcC
Confidence            589999999999999999887654446799999999999987667777877665322       1124578999999999


Q ss_pred             CCHHHHHHHHHHhh
Q psy2977          74 DNIDITLQWLIAHS   87 (92)
Q Consensus        74 ~gi~~~~~~l~~~i   87 (92)
                      +||+++|+||.+.+
T Consensus       177 ~gi~~l~~~l~~~l  190 (190)
T 1m2o_B          177 NGYLEAFQWLSQYI  190 (190)
T ss_dssp             BSHHHHHHHHHTTC
T ss_pred             CCHHHHHHHHHhhC
Confidence            99999999998754

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=99.81  E-value=6.2e-19  Score=102.42  Aligned_cols=90  Identities=22%  Similarity=0.428  Sum_probs=72.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCC--CCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQL--IGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~--~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.++.....|+..++.....  .++|+++|+||+|+.+..+.+++.+.+.+..+...++.+++|||++|.||++
T Consensus        97 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  176 (190)
T 2h57_A           97 VIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRDAVTSVKVSQLLCLENIKDKPWHICASDAIKGEGLQE  176 (190)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTSTTCCCHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHhChhhccCCCeEEEEEeCcCcccCCCHHHHHHHhChhhccCCceEEEEccCCCCcCHHH
Confidence            58999999999998999988876444  5799999999999987667777777665443334568899999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|.+.+.+.
T Consensus       177 l~~~l~~~i~~~  188 (190)
T 2h57_A          177 GVDWLQDQIQTV  188 (190)
T ss_dssp             HHHHHHHHC---
T ss_pred             HHHHHHHHHHHh
Confidence            999999988754

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=99.80  E-value=4.7e-19  Score=103.92  Aligned_cols=87  Identities=30%  Similarity=0.556  Sum_probs=70.8

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCC---------cC---CCceEEEee
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCA---------IQ---DREICCYSI   68 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~---------~~---~~~~~~~~~   68 (92)
                      |+|+++++++.....|+.+++......++|+++|+||+|++...+.+++.+.++...         +.   ...+++++|
T Consensus        99 v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  178 (198)
T 1f6b_A           99 LVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEAISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMC  178 (198)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTTCCCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEEEEC
T ss_pred             EEECCCHHHHHHHHHHHHHHHhCcccCCCcEEEEEECCCccccCCHHHHHHHhCcccccccccccccccccCceEEEEEE
Confidence            589999999999999999988654446799999999999987667777777665321         11   245789999


Q ss_pred             ccccCCCHHHHHHHHHHhh
Q psy2977          69 SCKERDNIDITLQWLIAHS   87 (92)
Q Consensus        69 SA~~~~gi~~~~~~l~~~i   87 (92)
                      ||++|+||+++|+||.+.+
T Consensus       179 SA~~g~gv~~l~~~l~~~l  197 (198)
T 1f6b_A          179 SVLKRQGYGEGFRWMAQYI  197 (198)
T ss_dssp             BTTTTBSHHHHHHHHHTTC
T ss_pred             ECCCCCCHHHHHHHHHHhc
Confidence            9999999999999998765

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=99.80  E-value=4e-19  Score=102.60  Aligned_cols=87  Identities=20%  Similarity=0.418  Sum_probs=71.3

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++++++....|+..++......++|+++|+||+|+......+++.+.++.......++.+++|||++|.||+++|
T Consensus        95 v~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~  174 (181)
T 2h17_A           95 VVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGL  174 (181)
T ss_dssp             EEETTCTTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECBTTTTBTHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHhChhhCCCeEEEEEECCCcccCCCHHHHHHHhCcccccCCceEEEEccCCCCcCHHHHH
Confidence            58999999999998999988865334679999999999998766777777776554444556789999999999999999


Q ss_pred             HHHHHhh
Q psy2977          81 QWLIAHS   87 (92)
Q Consensus        81 ~~l~~~i   87 (92)
                      ++|.+.+
T Consensus       175 ~~l~~~l  181 (181)
T 2h17_A          175 EWMMSRL  181 (181)
T ss_dssp             HHHHTC-
T ss_pred             HHHHhhC
Confidence            9998753

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.80  E-value=1.5e-19  Score=105.31  Aligned_cols=90  Identities=20%  Similarity=0.409  Sum_probs=73.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCC-------CCCcEEEEeeCCCCCCCCCHHHHHHhhccCCc-CCCceEEEeecccc
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQL-------IGIPILVLGNKRDLPNALDEKELIDRMNLCAI-QDREICCYSISCKE   72 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~-------~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~~~SA~~   72 (92)
                      |+|++++++|.....|+..++.....       .++|+++|+||+|+......+++.+.+++... ...++++++|||++
T Consensus        93 v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  172 (199)
T 4bas_A           93 VVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGAKTAAELVEILDLTTLMGDHPFVIFASNGLK  172 (199)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTCCCHHHHHHHHTHHHHHTTSCEEEEECBTTT
T ss_pred             EEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCCCCCHHHHHHHhcchhhccCCeeEEEEeeCCC
Confidence            68999999999999999988764221       27899999999999877677777776654332 34578999999999


Q ss_pred             CCCHHHHHHHHHHhhhhc
Q psy2977          73 RDNIDITLQWLIAHSKSH   90 (92)
Q Consensus        73 ~~gi~~~~~~l~~~i~~~   90 (92)
                      |.||+++|++|.+.+.++
T Consensus       173 g~gv~~l~~~l~~~~~~~  190 (199)
T 4bas_A          173 GTGVHEGFSWLQETASRQ  190 (199)
T ss_dssp             TBTHHHHHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHH
Confidence            999999999999988654

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.78  E-value=1.9e-18  Score=108.47  Aligned_cols=90  Identities=27%  Similarity=0.529  Sum_probs=76.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |||++++.+|.....|+..++......++|+++|+||+|+++....+++...++.......++++++|||++|.||+++|
T Consensus       239 V~D~~~~~s~~~~~~~~~~~~~~~~~~~~piilV~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~vSAk~g~gi~el~  318 (329)
T 3o47_A          239 VVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGL  318 (329)
T ss_dssp             EEETTCSSSHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTCTTCCSSCEEEEECBTTTTBTHHHHH
T ss_pred             EEECCchHHHHHHHHHHHHHHhhhccCCCeEEEEEECccCCcccCHHHHHHHhchhhhhcCCCEEEEEECCCCcCHHHHH
Confidence            68999999999998899888876555689999999999998877778888887766555567899999999999999999


Q ss_pred             HHHHHhhhhc
Q psy2977          81 QWLIAHSKSH   90 (92)
Q Consensus        81 ~~l~~~i~~~   90 (92)
                      ++|.+.+.++
T Consensus       319 ~~l~~~l~~~  328 (329)
T 3o47_A          319 DWLSNQLRNQ  328 (329)
T ss_dssp             HHHHHHHTC-
T ss_pred             HHHHHHHHhc
Confidence            9999998764

>3l2o_B F-box only protein 4; small G protein fold, UBL conjugation pathway, ubiquitin Pro ligase, protein binding-cell cycle complex; 2.80A {Homo sapiens}

Probab=99.78  E-value=3.3e-19  Score=109.91  Aligned_cols=89  Identities=15%  Similarity=0.219  Sum_probs=73.6

Q ss_pred             CeeCCchhhHHHHHHHHH---HhhcCCC-CCCCcEEEEeeC-CCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCC
Q psy2977           1 MVDAADTDKLEASRNELH---ALIEKPQ-LIGIPILVLGNK-RDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDN   75 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~---~~~~~~~-~~~~p~ilv~NK-~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~g   75 (92)
                      |||++|.++++ ++.++.   .++.+.. ..+.|++|++|| .|++++.+..++.+.+++..+ .+.|.++.|||.||+|
T Consensus       217 VVDSsDreRle-ak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp~Ams~~EI~e~L~L~~l-~r~W~Iq~csA~tGeG  294 (312)
T 3l2o_B          217 VANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVKRMPCFYLAHELHLNLL-NHPWLVQDTEAETLTG  294 (312)
T ss_dssp             CCBCBTTCCCC-HHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTSCBCCHHHHHHHTTGGGG-CSCEEEEEEETTTCTT
T ss_pred             EecCCcHhHHH-HHHHHHHHHHHhcchhhcCCCeEEEEeCCcccccCCCCHHHHHHHcCCccC-CCcEEEEecccCCCcC
Confidence            78999998876 556555   4554332 468999999996 699999999999999998776 4789999999999999


Q ss_pred             HHHHHHHHHHhhhhcC
Q psy2977          76 IDITLQWLIAHSKSHT   91 (92)
Q Consensus        76 i~~~~~~l~~~i~~~~   91 (92)
                      +.+.++||.+.+++++
T Consensus       295 L~EGldWL~~~l~~k~  310 (312)
T 3l2o_B          295 FLNGIEWILEEVESKR  310 (312)
T ss_dssp             HHHHHHHHHHHSCC--
T ss_pred             HHHHHHHHHHHHHhhc
Confidence            9999999999997653

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=99.77  E-value=6.9e-19  Score=104.94  Aligned_cols=83  Identities=14%  Similarity=0.213  Sum_probs=64.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++|+.+..|+..+.... ..++|++||+||+|+.+  ..+.++..+...     ..++.+++|||++|.||++
T Consensus        92 v~di~~~~Sf~~i~~~~~~i~~~~-~~~~piilVgNK~Dl~~~r~V~~~e~~~~a~-----~~~~~~~e~SAktg~nV~e  165 (216)
T 4dkx_A           92 VYDITNVNSFQQTTKWIDDVRTER-GSDVIIMLVGNKTDLADKRQVSIEEGERKAK-----ELNVMFIETSAKAGYNVKQ  165 (216)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHH-TTSSEEEEEEECTTCGGGCCSCHHHHHHHHH-----HHTCEEEEEBTTTTBSHHH
T ss_pred             EeecchhHHHHHHHHHHHHHHHhc-CCCCeEEEEeeccchHhcCcccHHHHhhHHH-----HhCCeeEEEeCCCCcCHHH
Confidence            589999999999999998887642 25789999999999964  345555444321     2356799999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|++|++.+..
T Consensus       166 ~F~~i~~~i~~  176 (216)
T 4dkx_A          166 LFRRVAAALPG  176 (216)
T ss_dssp             HHHHHHHHC--
T ss_pred             HHHHHHHHHHh
Confidence            99999998854

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=99.76  E-value=7.8e-18  Score=95.53  Aligned_cols=85  Identities=16%  Similarity=0.165  Sum_probs=65.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++++....|+..+.......++|+++|+||+|+.+.  ...++......     ..+.+++++||++|.|+++
T Consensus        79 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~  153 (166)
T 3q72_A           79 VYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAV-----VFDCKFIETSAALHHNVQA  153 (166)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHCC---CCCEEEEEECTTCCSSCCSCHHHHHHHHH-----HTTCEEEECBGGGTBSHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccccccccccCHHHHHHHHH-----HhCCcEEEeccCCCCCHHH
Confidence            5799999999999999988887654567999999999999743  23333333221     2346899999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|.+.+.++
T Consensus       154 l~~~l~~~~~~~  165 (166)
T 3q72_A          154 LFEGVVRQIRLR  165 (166)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhc
Confidence            999999998765

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=99.75  E-value=6.1e-18  Score=96.21  Aligned_cols=85  Identities=14%  Similarity=0.141  Sum_probs=67.3

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++++....|+.++.......++|+++|+||+|+.+  ..+.++......     ..+++++++||++|.|+++
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~  156 (169)
T 3q85_A           82 VFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAG-----TLSCKHIETSAALHHNTRE  156 (169)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCGGGCCSCHHHHHHHHH-----HTTCEEEECBTTTTBSHHH
T ss_pred             EEECCChHHHHHHHHHHHHHHhcccCCCCCEEEEeeCcchhhcccCCHHHHHHHHH-----HcCCcEEEecCccCCCHHH
Confidence            589999999999999999887754445799999999999963  334444433321     2356899999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|.+.+..+
T Consensus       157 l~~~l~~~i~~~  168 (169)
T 3q85_A          157 LFEGAVRQIRLR  168 (169)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhc
Confidence            999999998765

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=99.75  E-value=1.4e-17  Score=96.65  Aligned_cols=87  Identities=10%  Similarity=0.126  Sum_probs=67.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCC----CCCCHHHHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLP----NALDEKELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~----~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      |||++++.+|+.+..|+..+.......+.|+++|+||+|+.    ...+.++..+....    .....+++|||++|.||
T Consensus        92 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~----~~~~~~~e~Sa~~~~gv  167 (184)
T 3ihw_A           92 VFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISAANPRVIDDSRARKLSTD----LKRCTYYETCATYGLNV  167 (184)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHTTSCGGGSCEEEEEECTTCBTTBCCCSCHHHHHHHHHH----TTTCEEEEEBTTTTBTH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccccCHHHHHHHHHH----cCCCeEEEecCCCCCCH
Confidence            58999999999988999998765444579999999999994    23344444443321    12367999999999999


Q ss_pred             HHHHHHHHHhhhhcC
Q psy2977          77 DITLQWLIAHSKSHT   91 (92)
Q Consensus        77 ~~~~~~l~~~i~~~~   91 (92)
                      +++|++|.+.+.+++
T Consensus       168 ~~lf~~l~~~i~~~~  182 (184)
T 3ihw_A          168 ERVFQDVAQKVVALR  182 (184)
T ss_dssp             HHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHh
Confidence            999999999887643

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=99.74  E-value=8.9e-18  Score=99.79  Aligned_cols=85  Identities=18%  Similarity=0.168  Sum_probs=63.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |||++++++|+.+..|+..+.......++|+++|+||+|+..  ....++.....     ...++++++|||++|.||++
T Consensus       118 Vydvt~~~sf~~~~~~~~~l~~~~~~~~~piilVgNK~DL~~~r~v~~~e~~~~a-----~~~~~~~~e~SAk~g~~v~e  192 (211)
T 2g3y_A          118 VYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACA-----VVFDCKFIETSAAVQHNVKE  192 (211)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHH-----HHHTCEEEECBTTTTBSHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHhCCCCCcEEEEEEChHHhcCceEeHHHHHHHH-----HHcCCEEEEEeCCCCCCHHH
Confidence            589999999999888887776432234799999999999964  23333322211     12246799999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|++.+..+
T Consensus       193 lf~~l~~~i~~~  204 (211)
T 2g3y_A          193 LFEGIVRQVRLR  204 (211)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999988543

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=99.74  E-value=1.1e-17  Score=95.48  Aligned_cols=85  Identities=18%  Similarity=0.170  Sum_probs=63.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+++....|+..+.......++|+++|+||+|+.+.  .+.++.....     ...++++++|||++|.||++
T Consensus        84 v~d~~~~~s~~~~~~~~~~l~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~-----~~~~~~~~~~Sa~~g~gi~~  158 (175)
T 2nzj_A           84 VYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLARCREVSVEEGRACA-----VVFDCKFIETSATLQHNVAE  158 (175)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHCC----CCEEEEEECTTCTTTCCSCHHHHHHHH-----HHHTSEEEECBTTTTBSHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhhccCCCCEEEEEEChhhccccccCHHHHHHHH-----HHcCCeEEEEecCCCCCHHH
Confidence            5899999999998888888776533457999999999999753  3333333221     12246799999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|.+.+.++
T Consensus       159 l~~~l~~~~~~~  170 (175)
T 2nzj_A          159 LFEGVVRQLRLR  170 (175)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999988653

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=99.73  E-value=4.4e-17  Score=94.48  Aligned_cols=83  Identities=22%  Similarity=0.244  Sum_probs=66.5

Q ss_pred             CeeCC------chhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCce-EEEeeccccC
Q psy2977           1 MVDAA------DTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREI-CCYSISCKER   73 (92)
Q Consensus         1 v~D~s------~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~~~~~SA~~~   73 (92)
                      |+|++      +.+++..+..|+.++..  ...++|+++|+||+|+.+..+.+++.+.+.     ..++ +++++||++|
T Consensus       104 v~D~~~~~~~~~~~s~~~l~~~l~~~~~--~~~~~piilv~NK~Dl~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~  176 (198)
T 3t1o_A          104 VADSAPNRLRANAESMRNMRENLAEYGL--TLDDVPIVIQVNKRDLPDALPVEMVRAVVD-----PEGKFPVLEAVATEG  176 (198)
T ss_dssp             EEECCGGGHHHHHHHHHHHHHHHHHTTC--CTTSSCEEEEEECTTSTTCCCHHHHHHHHC-----TTCCSCEEECBGGGT
T ss_pred             EEECCcchhhHhHHHHHHHHHHHHhhcc--ccCCCCEEEEEEchhcccccCHHHHHHHHH-----hcCCceEEEEecCCC
Confidence            57888      55677777788887732  346799999999999988777777777654     2345 7999999999


Q ss_pred             CCHHHHHHHHHHhhhhc
Q psy2977          74 DNIDITLQWLIAHSKSH   90 (92)
Q Consensus        74 ~gi~~~~~~l~~~i~~~   90 (92)
                      .||+++|++|.+.+.++
T Consensus       177 ~gv~~l~~~l~~~i~~~  193 (198)
T 3t1o_A          177 KGVFETLKEVSRLVLAR  193 (198)
T ss_dssp             BTHHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHH
Confidence            99999999999988654

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=99.72  E-value=3.5e-17  Score=95.77  Aligned_cols=85  Identities=14%  Similarity=0.146  Sum_probs=65.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+|..+..|+.++.......++|+++|+||+|+...  .+.++......     ..+..+++|||++|.||++
T Consensus       103 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~a~-----~~~~~~~e~Sa~~~~~v~~  177 (195)
T 3cbq_A          103 VFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAG-----TLSCKHIETSAALHHNTRE  177 (195)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCTTTCCSCHHHHHHHHH-----HTTCEEEEEBTTTTBSHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEeechhccccCCcCHHHHHHHHH-----HhCCEEEEEcCCCCCCHHH
Confidence            5899999999999999988876433357999999999999743  34444433221     1246799999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|.+.+..+
T Consensus       178 lf~~l~~~i~~~  189 (195)
T 3cbq_A          178 LFEGAVRQIRLR  189 (195)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHh
Confidence            999999988654

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=99.70  E-value=2.9e-17  Score=92.96  Aligned_cols=84  Identities=19%  Similarity=0.329  Sum_probs=65.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+++....|+..+.......++|+++|+||+|+.+  ....++......     ..+++++++||++|.|+++
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~  156 (168)
T 1u8z_A           82 VFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAD-----QWNVNYVETSAKTRANVDK  156 (168)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHH-----HHTCEEEECCTTTCTTHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccccccCccCHHHHHHHHH-----HcCCeEEEeCCCCCCCHHH
Confidence            579999999999888888877643345799999999999964  234444444321     2346799999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|+||.+.+.+
T Consensus       157 l~~~l~~~i~~  167 (168)
T 1u8z_A          157 VFFDLMREIRA  167 (168)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHh
Confidence            99999998865

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=99.70  E-value=4.2e-17  Score=93.91  Aligned_cols=84  Identities=17%  Similarity=0.193  Sum_probs=65.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccc-cCCCHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCK-ERDNID   77 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~-~~~gi~   77 (92)
                      |+|++++.+++....|+..+.......++|+++|+||+|+.+  ....++......     ..+++++++||+ +|.||+
T Consensus        96 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~~~~~v~  170 (183)
T 3kkq_A           96 VYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMAT-----KYNIPYIETSAKDPPLNVD  170 (183)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHH-----HHTCCEEEEBCSSSCBSHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCCchhccCcCHHHHHHHHH-----HhCCeEEEeccCCCCCCHH
Confidence            589999999999888888876543345789999999999975  334444443322     224679999999 999999


Q ss_pred             HHHHHHHHhhhh
Q psy2977          78 ITLQWLIAHSKS   89 (92)
Q Consensus        78 ~~~~~l~~~i~~   89 (92)
                      ++|++|.+.+.+
T Consensus       171 ~l~~~l~~~i~~  182 (183)
T 3kkq_A          171 KTFHDLVRVIRQ  182 (183)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhh
Confidence            999999998865

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=99.70  E-value=5.4e-17  Score=93.62  Aligned_cols=84  Identities=21%  Similarity=0.291  Sum_probs=64.8

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC-CHHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL-DEKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~-~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|++++.++.....|+..+.......+.|+++|+||+|+.... ..++......     ..+++++++||++|.|++++
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~g~gi~~l  156 (189)
T 4dsu_A           82 VFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPSRTVDTKQAQDLAR-----SYGIPFIETSAKTRQGVDDA  156 (189)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTSSSCSSCHHHHHHHHH-----HHTCCEEECCTTTCTTHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccCcccccCHHHHHHHHH-----HcCCeEEEEeCCCCCCHHHH
Confidence            57999999999988888887764445679999999999997533 3333333221     22457999999999999999


Q ss_pred             HHHHHHhhhh
Q psy2977          80 LQWLIAHSKS   89 (92)
Q Consensus        80 ~~~l~~~i~~   89 (92)
                      |++|.+.+.+
T Consensus       157 ~~~l~~~~~~  166 (189)
T 4dsu_A          157 FYTLVREIRK  166 (189)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999998864

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=99.69  E-value=8.7e-17  Score=94.35  Aligned_cols=84  Identities=17%  Similarity=0.215  Sum_probs=65.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCce-EEEeeccccCCCHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREI-CCYSISCKERDNID   77 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~-~~~~~SA~~~~gi~   77 (92)
                      |+|++++.+++.+..|+..+.... ..++|+++|+||+|+.+  ..+.+++.+...     ..++ .+++|||++|.||+
T Consensus       108 v~D~~~~~s~~~~~~~~~~i~~~~-~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~~SA~~g~gi~  181 (201)
T 2hup_A          108 AYDITKRSSFLSVPHWIEDVRKYA-GSNIVQLLIGNKSDLSELREVSLAEAQSLAE-----HYDILCAIETSAKDSSNVE  181 (201)
T ss_dssp             EEETTBHHHHHTHHHHHHHHHHHS-CTTCEEEEEEECTTCGGGCCSCHHHHHHHHH-----HTTCSEEEECBTTTTBSHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhc-CCCCCEEEEEECCccccccccCHHHHHHHHH-----HcCCCEEEEEeCCCCCCHH
Confidence            689999999999888988877542 25789999999999964  334455544332     1245 79999999999999


Q ss_pred             HHHHHHHHhhhhc
Q psy2977          78 ITLQWLIAHSKSH   90 (92)
Q Consensus        78 ~~~~~l~~~i~~~   90 (92)
                      ++|++|.+.+.++
T Consensus       182 ~l~~~l~~~i~~~  194 (201)
T 2hup_A          182 EAFLRVATELIMR  194 (201)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988654

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=99.69  E-value=8.6e-17  Score=91.09  Aligned_cols=84  Identities=12%  Similarity=0.174  Sum_probs=63.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+++....|+..+.......+.|+++|+||+|+.+.  ...++.......    ..+.+++++||++|.|+++
T Consensus        81 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~----~~~~~~~~~Sa~~~~gi~~  156 (167)
T 1c1y_A           81 VYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQ----WCNCAFLESSAKSKINVNE  156 (167)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHH----TTSCEEEECBTTTTBSHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhhCcCCCcEEEEEECccccccccCCHHHHHHHHHH----ccCCcEEEecCCCCCCHHH
Confidence            5799999999988888877765433457999999999999642  234444433211    1256799999999999999


Q ss_pred             HHHHHHHhhh
Q psy2977          79 TLQWLIAHSK   88 (92)
Q Consensus        79 ~~~~l~~~i~   88 (92)
                      +|++|.+.+.
T Consensus       157 l~~~l~~~i~  166 (167)
T 1c1y_A          157 IFYDLVRQIN  166 (167)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHh
Confidence            9999998874

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=99.69  E-value=1.8e-16  Score=92.58  Aligned_cols=84  Identities=18%  Similarity=0.175  Sum_probs=61.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |||++++++|+....|+..+.......++|+++|+||+|+..  ....++.....     ...+.++++|||++|.||++
T Consensus        87 v~dv~~~~s~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~r~v~~~~~~~~a-----~~~~~~~~e~SA~~g~~v~~  161 (192)
T 2cjw_A           87 VYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAXA-----VVFDXKFIETSAAVQHNVKE  161 (192)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECTTCGGGCCSCHHHHHHHH-----HHTTCEEEECBTTTTBSHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhhCCCCCeEEEEEechhhhccccccHHHHHHHH-----HHhCCceEEeccccCCCHHH
Confidence            589999999999888877665432235789999999999863  22333322211     11245789999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|++|++.+..
T Consensus       162 lf~~l~~~~~~  172 (192)
T 2cjw_A          162 LFEGIVRQVRL  172 (192)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999998753

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=99.68  E-value=3.8e-16  Score=89.53  Aligned_cols=84  Identities=11%  Similarity=0.133  Sum_probs=61.3

Q ss_pred             CeeCCchhhHHHHHHHHHH---hhcCCCCCCCcEEEEeeCCCCCC----CCCHHHHHHhhccCCcCCCceEEEeeccccC
Q psy2977           1 MVDAADTDKLEASRNELHA---LIEKPQLIGIPILVLGNKRDLPN----ALDEKELIDRMNLCAIQDREICCYSISCKER   73 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~---~~~~~~~~~~p~ilv~NK~Dl~~----~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~   73 (92)
                      |+|+++++++.....|+..   +... ...++|+++|+||+|+..    ..+.++..+...    ...++++++|||++|
T Consensus        79 v~D~~~~~s~~~~~~~~~~i~~~~~~-~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~----~~~~~~~~~~Sa~~~  153 (178)
T 2iwr_A           79 VFSLEDENSFQAVSRLHGQLSSLRGE-GRGGLALALVGTQDRISASSPRVVGDARARALXA----DMKRCSYYETXATYG  153 (178)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHCS-SSCCCEEEEEEECTTCBTTBCCCSCHHHHHHHHH----HHSSEEEEEEBTTTT
T ss_pred             EEECcCHHHHHHHHHHHHHHHHHHhc-CCCCCCEEEEEECccccccccCcCCHHHHHHHHH----hhcCCeEEEEecccc
Confidence            6899999999988876443   3322 235789999999999942    234444443321    112578999999999


Q ss_pred             CCHHHHHHHHHHhhhh
Q psy2977          74 DNIDITLQWLIAHSKS   89 (92)
Q Consensus        74 ~gi~~~~~~l~~~i~~   89 (92)
                      .||+++|++|.+.+.+
T Consensus       154 ~~i~~lf~~l~~~~~~  169 (178)
T 2iwr_A          154 LNVDRVFQEVAQKVVT  169 (178)
T ss_dssp             BTHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHH
Confidence            9999999999998864

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=99.68  E-value=5.8e-17  Score=93.26  Aligned_cols=85  Identities=19%  Similarity=0.322  Sum_probs=66.3

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.++.....|+..+.......++|+++|+||+|+.+  ....+++.+...     ..+++++++||++|.||++
T Consensus        96 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~  170 (187)
T 2a9k_A           96 VFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAE-----QWNVNYVETSAKTRANVDK  170 (187)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHCCTTCCEEEEEECGGGGGGCCSCHHHHHHHHH-----HTTCEEEECCTTTCTTHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHH-----HcCCeEEEeCCCCCCCHHH
Confidence            589999999999888888877643335799999999999964  234445444332     2346799999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|.+.+.++
T Consensus       171 l~~~l~~~i~~~  182 (187)
T 2a9k_A          171 VFFDLMREIRAR  182 (187)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999988654

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=99.68  E-value=1.4e-16  Score=93.07  Aligned_cols=84  Identities=19%  Similarity=0.324  Sum_probs=65.8

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.++..+..|+..+.......++|+++|+||+|+.+  ....+++.....     ..+++++++||++|.||++
T Consensus        92 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~g~gi~~  166 (206)
T 2bov_A           92 VFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAE-----QWNVNYVETSAKTRANVDK  166 (206)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTCGGGCCSCHHHHHHHHH-----HHTCEEEEECTTTCTTHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccCccccccccHHHHHHHHH-----HhCCeEEEEeCCCCCCHHH
Confidence            589999999999988988887654445799999999999964  234444444332     2346799999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|++|.+.+.+
T Consensus       167 l~~~l~~~i~~  177 (206)
T 2bov_A          167 VFFDLMREIRA  177 (206)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999998864

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=99.68  E-value=7.7e-17  Score=92.66  Aligned_cols=85  Identities=18%  Similarity=0.220  Sum_probs=64.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++++.+..|+..+.......++|+++|+||+|+...  ...++......     ..+++++++||++|.|+++
T Consensus        84 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~  158 (181)
T 3t5g_A           84 VYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAE-----SWNAAFLESSAKENQTAVD  158 (181)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHC----CCEEEEEECTTCTTTCCSCHHHHHHHHH-----HTTCEEEECCTTSHHHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcceecHHHHHHHHH-----HhCCcEEEEecCCCCCHHH
Confidence            5799999999999899888876544457999999999999643  34444444322     2346799999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|.+.+.+.
T Consensus       159 l~~~l~~~~~~~  170 (181)
T 3t5g_A          159 VFRRIILEAEKM  170 (181)
T ss_dssp             HHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHh
Confidence            999999998764

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=99.68  E-value=1.5e-16  Score=91.62  Aligned_cols=83  Identities=19%  Similarity=0.220  Sum_probs=59.3

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+++.+..|+..+.... ..+.|+++|+||+|+.+.  .+.++......     ..++++++|||++|.||++
T Consensus        87 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~~~~i~~  160 (183)
T 2fu5_C           87 VYDITNEKSFDNIRNWIRNIEEHA-SADVEKMILGNKCDVNDKRQVSKERGEKLAL-----DYGIKFMETSAKANINVEN  160 (183)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHS-CTTCEEEEEEEC--CCSCCCSCHHHHHHHHH-----HHTCEEEECCC---CCHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhc-CCCCCEEEEEECccCCccCcCCHHHHHHHHH-----HcCCeEEEEeCCCCCCHHH
Confidence            589999999999888888876542 247899999999999753  34444443321     2346799999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|++|.+.+.+
T Consensus       161 l~~~l~~~i~~  171 (183)
T 2fu5_C          161 AFFTLARDIKA  171 (183)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999988864

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=99.68  E-value=1e-16  Score=91.82  Aligned_cols=85  Identities=16%  Similarity=0.267  Sum_probs=65.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.++.....|+..++......++|+++|+||+|+..  ....++.....     ...++.++++||++|.|+++
T Consensus        87 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~-----~~~~~~~~~~Sa~~~~gv~~  161 (181)
T 2fn4_A           87 VFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFG-----ASHHVAYFEASAKLRLNVDE  161 (181)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHH-----HHTTCEEEECBTTTTBSHHH
T ss_pred             EEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHH-----HHcCCeEEEecCCCCCCHHH
Confidence            579999999999888888876543345789999999999964  23334433322     12356899999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|.+.+.+.
T Consensus       162 l~~~l~~~~~~~  173 (181)
T 2fn4_A          162 AFEQLVRAVRKY  173 (181)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999988654

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=99.67  E-value=3.1e-16  Score=90.89  Aligned_cols=85  Identities=20%  Similarity=0.189  Sum_probs=65.8

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC-CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA-LDEKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|++++.++.....|+..+.......++|+++|+||+|+... ...++......     ..++.++++||++|.||+++
T Consensus        94 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l  168 (195)
T 1x3s_A           94 VYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKENREVDRNEGLKFAR-----KHSMLFIEASAKTCDGVQCA  168 (195)
T ss_dssp             EEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSSCCSCHHHHHHHHH-----HTTCEEEECCTTTCTTHHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhcCcCCCcEEEEEECCcCcccccCHHHHHHHHH-----HcCCEEEEecCCCCCCHHHH
Confidence            5899999999988889888876544457999999999999542 33444433322     23467999999999999999


Q ss_pred             HHHHHHhhhhc
Q psy2977          80 LQWLIAHSKSH   90 (92)
Q Consensus        80 ~~~l~~~i~~~   90 (92)
                      |++|.+.+.+.
T Consensus       169 ~~~l~~~~~~~  179 (195)
T 1x3s_A          169 FEELVEKIIQT  179 (195)
T ss_dssp             HHHHHHHHHTS
T ss_pred             HHHHHHHHHhh
Confidence            99999988653

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=99.66  E-value=2.9e-16  Score=92.74  Aligned_cols=84  Identities=20%  Similarity=0.302  Sum_probs=64.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.++.....|+..+.......++|+++|+||+|+.+.  ...++..+...     ..++++++|||++|.||++
T Consensus       114 V~D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~g~gi~~  188 (217)
T 2f7s_A          114 MFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELAD-----KYGIPYFETSAATGQNVEK  188 (217)
T ss_dssp             EEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHH-----HTTCCEEEEBTTTTBTHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEECCccccccccCHHHHHHHHH-----HCCCcEEEEECCCCCCHHH
Confidence            5899999999988888888765543367999999999999642  33444433321     2245799999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|++|.+.+.+
T Consensus       189 l~~~l~~~i~~  199 (217)
T 2f7s_A          189 AVETLLDLIMK  199 (217)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999998764

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.66  E-value=1.1e-16  Score=93.34  Aligned_cols=85  Identities=19%  Similarity=0.200  Sum_probs=64.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCC-CHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERD-NID   77 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~-gi~   77 (92)
                      |+|++++++++.+..|+..+.......++|+++|+||+|+..  ..+.++......     ..++++++|||++|. ||+
T Consensus       105 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~g~~gi~  179 (196)
T 2atv_A          105 VYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLAT-----ELACAFYECSACTGEGNIT  179 (196)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHH-----HHTSEEEECCTTTCTTCHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhhCCCCCcEEEEEECcccccccccCHHHHHHHHH-----HhCCeEEEECCCcCCcCHH
Confidence            589999999998888887776543335789999999999964  233444433221     224689999999999 999


Q ss_pred             HHHHHHHHhhhhc
Q psy2977          78 ITLQWLIAHSKSH   90 (92)
Q Consensus        78 ~~~~~l~~~i~~~   90 (92)
                      ++|++|.+.+.++
T Consensus       180 ~l~~~l~~~i~~~  192 (196)
T 2atv_A          180 EIFYELCREVRRR  192 (196)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999988654

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=99.66  E-value=2.3e-16  Score=91.19  Aligned_cols=84  Identities=21%  Similarity=0.253  Sum_probs=64.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.++..+..|+..+.......++|+++|+||+|+.+  ....+++.+...     ..+++++++||++|.|+++
T Consensus       100 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~  174 (195)
T 3bc1_A          100 LFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLEDQRAVKEEEARELAE-----KYGIPYFETSAANGTNISH  174 (195)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSSSSSCCEEEEEECTTCGGGCCSCHHHHHHHHH-----HHTCCEEECCTTTCTTHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHH-----HcCCCEEEEECCCCCCHHH
Confidence            589999999998888888887654335789999999999964  334444443321     1235789999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|++|.+.+.+
T Consensus       175 l~~~l~~~~~~  185 (195)
T 3bc1_A          175 AIEMLLDLIMK  185 (195)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999998864

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.66  E-value=2e-16  Score=92.60  Aligned_cols=85  Identities=14%  Similarity=0.139  Sum_probs=63.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.++..+..|+..+.......++|+++|+||+|+...  ....+......     ..+.+++++||++|.||++
T Consensus       102 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~  176 (201)
T 3oes_A          102 VYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPEREVQAVEGKKLAE-----SWGATFMESSARENQLTQG  176 (201)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHC-----CCCEEEEEECTTCGGGCCSCHHHHHHHHH-----HHTCEEEECCTTCHHHHHH
T ss_pred             EEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCccccccCHHHHHHHHH-----HhCCeEEEEeCCCCCCHHH
Confidence            5899999999999999998887644467899999999999642  23333332221     2346799999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|.+.+.+.
T Consensus       177 l~~~l~~~i~~~  188 (201)
T 3oes_A          177 IFTKVIQEIARV  188 (201)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhh
Confidence            999999998654

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=99.66  E-value=6.6e-16  Score=88.58  Aligned_cols=84  Identities=14%  Similarity=0.189  Sum_probs=64.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+++....|+..+.... ..+.|+++|+||+|+.+.  ...+++.+...     ..+++++++||++|.|+++
T Consensus        91 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~g~gi~~  164 (181)
T 2efe_B           91 VFDVTNQASFERAKKWVQELQAQG-NPNMVMALAGNKSDLLDARKVTAEDAQTYAQ-----ENGLFFMETSAKTATNVKE  164 (181)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHS-CTTCEEEEEEECTTCTTTCCSCHHHHHHHHH-----HTTCEEEECCSSSCTTHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhc-CCCCcEEEEEECCcccccccCCHHHHHHHHH-----HcCCEEEEEECCCCCCHHH
Confidence            589999999999888988877642 257899999999999643  34444444332     2346799999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|.+.+.+.
T Consensus       165 l~~~l~~~~~~~  176 (181)
T 2efe_B          165 IFYEIARRLPRV  176 (181)
T ss_dssp             HHHHHHHTCC--
T ss_pred             HHHHHHHHHHhc
Confidence            999999988654

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=99.66  E-value=2.6e-16  Score=88.76  Aligned_cols=84  Identities=17%  Similarity=0.256  Sum_probs=63.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC-CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA-LDEKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|++++.++.....|+..+.......+.|+++|+||+|+.+. ...++..+...     ..+++++++||++|.|++++
T Consensus        81 v~d~~~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l  155 (166)
T 2ce2_X           81 VFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAARTVESRQAQDLAR-----SYGIPYIETSAKTRQGVEDA  155 (166)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSCCCSCHHHHHHHHH-----HHTCCEEEECTTTCTTHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEchhhhhcccCHHHHHHHHH-----HcCCeEEEecCCCCCCHHHH
Confidence            5799999999888888887765433347899999999999752 23333333221     12457999999999999999


Q ss_pred             HHHHHHhhhh
Q psy2977          80 LQWLIAHSKS   89 (92)
Q Consensus        80 ~~~l~~~i~~   89 (92)
                      |++|.+.+.+
T Consensus       156 ~~~l~~~~~~  165 (166)
T 2ce2_X          156 FYTLVREIRQ  165 (166)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHh
Confidence            9999998864

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.66  E-value=1.3e-17  Score=94.65  Aligned_cols=83  Identities=17%  Similarity=0.197  Sum_probs=63.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC-----CCHHHHHHhhccCCcCCCceEEEeeccccCCC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA-----LDEKELIDRMNLCAIQDREICCYSISCKERDN   75 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~g   75 (92)
                      |+|++++.++.....|+..+.... ..+.|+++|+||+|+...     ...++.....     ...+++++++||++|.|
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~v~~~~~~~~~-----~~~~~~~~~~Sa~~~~g  155 (170)
T 1ek0_A           82 VYDVTKPQSFIKARHWVKELHEQA-SKDIIIALVGNKIDXLQEGGERKVAREEGEKLA-----EEKGLLFFETSAKTGEN  155 (170)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHS-CTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHH-----HHHTCEEEECCTTTCTT
T ss_pred             EEecCChHHHHHHHHHHHHHHHhc-CCCCcEEEEEECCCccccccccCCCHHHHHHHH-----HHcCCEEEEEeCCCCCC
Confidence            579999999999888888877643 257899999999998643     2233332221     12346899999999999


Q ss_pred             HHHHHHHHHHhhhh
Q psy2977          76 IDITLQWLIAHSKS   89 (92)
Q Consensus        76 i~~~~~~l~~~i~~   89 (92)
                      ++++|++|.+.+.+
T Consensus       156 i~~l~~~l~~~i~~  169 (170)
T 1ek0_A          156 VNDVFLGIGEKIPL  169 (170)
T ss_dssp             HHHHHHHHHTTSCC
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999988754

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=99.66  E-value=3.5e-16  Score=90.89  Aligned_cols=83  Identities=14%  Similarity=0.150  Sum_probs=64.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+++.+..|+..+.... ..+.|+++|+||+|+..  ....++......     ..++.++++||++|.||++
T Consensus       100 v~d~~~~~s~~~~~~~l~~i~~~~-~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~  173 (191)
T 2a5j_A          100 VYDITRRETFNHLTSWLEDARQHS-SSNMVIMLIGNKSDLESRRDVKREEGEAFAR-----EHGLIFMETSAKTACNVEE  173 (191)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHS-CTTCEEEEEEECTTCGGGCCSCHHHHHHHHH-----HHTCEEEEECTTTCTTHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhc-CCCCCEEEEEECcccCCccccCHHHHHHHHH-----HcCCEEEEEeCCCCCCHHH
Confidence            589999999998888888876532 25789999999999964  234444433321     2346799999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|++|.+.+.+
T Consensus       174 l~~~l~~~i~~  184 (191)
T 2a5j_A          174 AFINTAKEIYR  184 (191)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999988865

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=99.65  E-value=4.5e-16  Score=88.22  Aligned_cols=83  Identities=22%  Similarity=0.264  Sum_probs=64.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+++....|+..+.... ..+.|+++|+||+|+.+  ..+.++......     ..+++++++||++|.|+++
T Consensus        85 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~g~gi~~  158 (170)
T 1r2q_A           85 VYDITNEESFARAKNWVKELQRQA-SPNIVIALSGNKADLANKRAVDFQEAQSYAD-----DNSLLFMETSAKTSMNVNE  158 (170)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHS-CTTCEEEEEEECGGGGGGCCSCHHHHHHHHH-----HTTCEEEECCTTTCTTHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhc-CCCCcEEEEEECccCccccccCHHHHHHHHH-----HcCCeEEEEeCCCCCCHHH
Confidence            589999999999888888877542 25789999999999864  233444443321     2356899999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|++|.+.+.+
T Consensus       159 l~~~i~~~~~~  169 (170)
T 1r2q_A          159 IFMAIAKKLPK  169 (170)
T ss_dssp             HHHHHHHTSCC
T ss_pred             HHHHHHHHHhh
Confidence            99999998754

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=99.65  E-value=5.9e-16  Score=90.05  Aligned_cols=84  Identities=19%  Similarity=0.164  Sum_probs=64.8

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.++.....|+..+.... ..++|+++|+||+|+.+  ....+++.+...     ..++++++|||++|.||++
T Consensus       102 V~d~~~~~s~~~~~~~~~~i~~~~-~~~~piiiv~NK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~  175 (192)
T 2fg5_A          102 VYDITKQDSFYTLKKWVKELKEHG-PENIVMAIAGNKCDLSDIREVPLKDAKEYAE-----SIGAIVVETSAKNAINIEE  175 (192)
T ss_dssp             EEETTCTHHHHHHHHHHHHHHHHS-CTTCEEEEEEECGGGGGGCCSCHHHHHHHHH-----TTTCEEEECBTTTTBSHHH
T ss_pred             EEeCCCHHHHHHHHHHHHHHHHhC-CCCCcEEEEEECcccccccccCHHHHHHHHH-----HcCCEEEEEeCCCCcCHHH
Confidence            589999999999888888876542 35789999999999964  334455544432     2357899999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|.+.+.+.
T Consensus       176 l~~~l~~~i~~~  187 (192)
T 2fg5_A          176 LFQGISRQIPPL  187 (192)
T ss_dssp             HHHHHHHTCC--
T ss_pred             HHHHHHHHHHhh
Confidence            999999988654

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=99.65  E-value=3.2e-16  Score=88.95  Aligned_cols=84  Identities=17%  Similarity=0.174  Sum_probs=63.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC-CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA-LDEKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|++++.+++....|+..+.... ..+.|+++|+||+|+... ...++..+...     ..+++++++||++|.|++++
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gv~~l  155 (170)
T 1g16_A           82 VYDITDERTFTNIKQWFKTVNEHA-NDEAQLLLVGNKSDMETRVVTADQGEALAK-----ELGIPFIESSAKNDDNVNEI  155 (170)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHS-CTTCEEEEEEECTTCTTCCSCHHHHHHHHH-----HHTCCEEECBTTTTBSHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhc-CCCCcEEEEEECccCCcCccCHHHHHHHHH-----HcCCeEEEEECCCCCCHHHH
Confidence            579999999988888888776542 247899999999999542 23333333221     12457999999999999999


Q ss_pred             HHHHHHhhhhc
Q psy2977          80 LQWLIAHSKSH   90 (92)
Q Consensus        80 ~~~l~~~i~~~   90 (92)
                      |++|.+.+.++
T Consensus       156 ~~~l~~~~~~~  166 (170)
T 1g16_A          156 FFTLAKLIQEK  166 (170)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHH
Confidence            99999988754

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=99.65  E-value=7.2e-16  Score=88.11  Aligned_cols=83  Identities=14%  Similarity=0.113  Sum_probs=63.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+++....|+..+.... ..+.|+++|+||+|+..  ....+++.+...     ..+++++++||++|.||++
T Consensus        94 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~  167 (179)
T 1z0f_A           94 VYDITRRSTYNHLSSWLTDARNLT-NPNTVIILIGNKADLEAQRDVTYEEAKQFAE-----ENGLLFLEASAKTGENVED  167 (179)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHS-CTTCEEEEEEECTTCGGGCCSCHHHHHHHHH-----HTTCEEEECCTTTCTTHHH
T ss_pred             EEeCcCHHHHHHHHHHHHHHHHhc-CCCCcEEEEEECcccccccccCHHHHHHHHH-----HcCCEEEEEeCCCCCCHHH
Confidence            589999999988888887776532 24789999999999964  234444444332     2346899999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|++|.+.+.+
T Consensus       168 l~~~l~~~i~~  178 (179)
T 1z0f_A          168 AFLEAAKKIYQ  178 (179)
T ss_dssp             HHHHHHHHHC-
T ss_pred             HHHHHHHHHhh
Confidence            99999998764

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.64  E-value=5.5e-16  Score=90.06  Aligned_cols=84  Identities=13%  Similarity=0.164  Sum_probs=64.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+++....|+..+.... ..+.|+++|+||+|+.+.  ...++......     ..++.++++||++|.||++
T Consensus       102 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~  175 (191)
T 3dz8_A          102 MYDITNEESFNAVQDWATQIKTYS-WDNAQVILVGNKCDMEEERVVPTEKGQLLAE-----QLGFDFFEASAKENISVRQ  175 (191)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHS-CTTCEEEEEEECTTCGGGCCSCHHHHHHHHH-----HHTCEEEECBTTTTBSHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhc-CCCCCEEEEEECCCCccccccCHHHHHHHHH-----HcCCeEEEEECCCCCCHHH
Confidence            589999999998888888876532 357999999999999642  33333333221     2346799999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|.+.+.++
T Consensus       176 l~~~l~~~i~~~  187 (191)
T 3dz8_A          176 AFERLVDAICDK  187 (191)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999988764

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.64  E-value=6.9e-16  Score=88.43  Aligned_cols=84  Identities=17%  Similarity=0.239  Sum_probs=63.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+++.+..|+..+..... .+.|+++|+||+|+...  ...++......     ..+++++++||++|.|+++
T Consensus        90 v~d~~~~~s~~~~~~~~~~i~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~  163 (180)
T 2g6b_A           90 LYDVTNKASFDNIQAWLTEIHEYAQ-HDVALMLLGNKVDSAHERVVKREDGEKLAK-----EYGLPFMETSAKTGLNVDL  163 (180)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHSC-TTCEEEEEEECCSTTSCCCSCHHHHHHHHH-----HHTCCEEECCTTTCTTHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhCC-CCCcEEEEEECcccCcccccCHHHHHHHHH-----HcCCeEEEEeCCCCCCHHH
Confidence            5899999999888888887765422 57899999999999753  23333333221     1245799999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|.+.+.++
T Consensus       164 l~~~l~~~~~~~  175 (180)
T 2g6b_A          164 AFTAIAKELKRR  175 (180)
T ss_dssp             HHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHH
Confidence            999999988754

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=99.64  E-value=4.9e-16  Score=89.03  Aligned_cols=86  Identities=17%  Similarity=0.251  Sum_probs=64.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCC---CCCCCcEEEEeeCCCCCCC---CCHHHHHHhhccCCcCCCceEEEeeccccCC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKP---QLIGIPILVLGNKRDLPNA---LDEKELIDRMNLCAIQDREICCYSISCKERD   74 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~---~~~~~p~ilv~NK~Dl~~~---~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~   74 (92)
                      |+|++++.+++....|+..+....   ...++|+++|+||+|+...   ...++..+...    .....+++++||++|.
T Consensus        88 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~v~~~~~~~~~~----~~~~~~~~~~Sa~~~~  163 (182)
T 1ky3_A           88 VYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAK----SLGDIPLFLTSAKNAI  163 (182)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHH----HTTSCCEEEEBTTTTB
T ss_pred             EEECCChHHHHHHHHHHHHHHHHhcccCcCCCcEEEEEECCccccccccCCHHHHHHHHH----hcCCCeEEEEecCCCC
Confidence            589999999998888887766432   2257899999999999532   23444443322    1234679999999999


Q ss_pred             CHHHHHHHHHHhhhhc
Q psy2977          75 NIDITLQWLIAHSKSH   90 (92)
Q Consensus        75 gi~~~~~~l~~~i~~~   90 (92)
                      ||+++|++|.+.+.++
T Consensus       164 gi~~l~~~l~~~~~~~  179 (182)
T 1ky3_A          164 NVDTAFEEIARSALQQ  179 (182)
T ss_dssp             SHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHh
Confidence            9999999999988654

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.64  E-value=9.7e-16  Score=88.93  Aligned_cols=84  Identities=19%  Similarity=0.220  Sum_probs=63.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+++....|+..+.... ..+.|+++|+||+|+....  ...+......     ..+.+++++||++|.||++
T Consensus        95 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~g~gv~~  168 (196)
T 3tkl_A           95 VYDVTDQESFNNVKQWLQEIDRYA-SENVNKLLVGNKCDLTTKKVVDYTTAKEFAD-----SLGIPFLETSAKNATNVEQ  168 (196)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHS-CTTCEEEEEEECTTCTTTCCSCHHHHHHHHH-----HTTCCEEEECTTTCTTHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhc-CCCCCEEEEEECcccccccccCHHHHHHHHH-----HcCCcEEEEeCCCCCCHHH
Confidence            589999999998888888776542 2478999999999997532  3333333221     2245799999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|.+.+.++
T Consensus       169 l~~~l~~~i~~~  180 (196)
T 3tkl_A          169 SFMTMAAEIKKR  180 (196)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999998754

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=99.64  E-value=1.3e-15  Score=89.24  Aligned_cols=84  Identities=14%  Similarity=0.185  Sum_probs=64.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.++.....|+..+.... ..+.|+++|+||+|+.+.  ...++......     ..+++++++||++|.||++
T Consensus        87 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~g~gi~~  160 (206)
T 2bcg_Y           87 VYDVTDQESFNGVKMWLQEIDRYA-TSTVLKLLVGNKCDLKDKRVVEYDVAKEFAD-----ANKMPFLETSALDSTNVED  160 (206)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHS-CTTCEEEEEEECTTCTTTCCSCHHHHHHHHH-----HTTCCEEECCTTTCTTHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhc-CCCCCEEEEEECCCCccccccCHHHHHHHHH-----HcCCeEEEEeCCCCCCHHH
Confidence            589999999999888888776532 247899999999999753  33444433321     2346799999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|.+|.+.+.+.
T Consensus       161 l~~~l~~~i~~~  172 (206)
T 2bcg_Y          161 AFLTMARQIKES  172 (206)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999988653

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.64  E-value=5.8e-16  Score=90.52  Aligned_cols=84  Identities=13%  Similarity=0.185  Sum_probs=56.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCC--CCCCcEEEEeeCCCCCC---CCCHHHHHHhhccCCcCCCceEEEeecccc-CC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQ--LIGIPILVLGNKRDLPN---ALDEKELIDRMNLCAIQDREICCYSISCKE-RD   74 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~--~~~~p~ilv~NK~Dl~~---~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~-~~   74 (92)
                      |+|++++.+++....|+..+.....  ..++|+++|+||+|+..   ..+.+++.+...     ..+++++++||++ |.
T Consensus       103 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~~~~  177 (208)
T 2yc2_C          103 VFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQRHQVRLDMAQDWAT-----TNTLDFFDVSANPPGK  177 (208)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC-------CCCHHHHHHHHH-----HTTCEEEECCC-----
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhhcccccCCcEEEEEECcccchhhccCCHHHHHHHHH-----HcCCEEEEeccCCCCc
Confidence            5899999999999899888876432  24789999999999975   234444444332     2346899999999 99


Q ss_pred             CHHHHHHHHHHhhhh
Q psy2977          75 NIDITLQWLIAHSKS   89 (92)
Q Consensus        75 gi~~~~~~l~~~i~~   89 (92)
                      ||+++|++|.+.+.+
T Consensus       178 gi~~l~~~i~~~~~~  192 (208)
T 2yc2_C          178 DADAPFLSIATTFYR  192 (208)
T ss_dssp             --CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHH
Confidence            999999999998754

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=99.64  E-value=2.3e-16  Score=89.11  Aligned_cols=84  Identities=13%  Similarity=0.199  Sum_probs=63.8

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+++....|+..+.......+.|+++|+||+|+...  ...++......     ..+++++++||++|.|+++
T Consensus        81 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~  155 (167)
T 1kao_A           81 VYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAE-----EWGCPFMETSAKSKTMVDE  155 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHH-----HHTSCEEEECTTCHHHHHH
T ss_pred             EEeCCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcccccccCCHHHHHHHHH-----HhCCCEEEecCCCCcCHHH
Confidence            5799999999988888888776444457999999999998642  23333333221     1245799999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|++|.+.+.+
T Consensus       156 l~~~l~~~~~~  166 (167)
T 1kao_A          156 LFAEIVRQMNY  166 (167)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhh
Confidence            99999998864

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=99.64  E-value=3.5e-16  Score=88.84  Aligned_cols=83  Identities=20%  Similarity=0.182  Sum_probs=63.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.++.....|+..+.... ..+.|+++|+||+|+.+  ..+.++..+...     ..+.+++++||++|.|+++
T Consensus        85 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~  158 (170)
T 1z08_A           85 VYDITDEDSFQKVKNWVKELRKML-GNEICLCIVGNKIDLEKERHVSIQEAESYAE-----SVGAKHYHTSAKQNKGIEE  158 (170)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHH-GGGSEEEEEEECGGGGGGCCSCHHHHHHHHH-----HTTCEEEEEBTTTTBSHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhc-CCCCeEEEEEECcccccccccCHHHHHHHHH-----HcCCeEEEecCCCCCCHHH
Confidence            579999999998888887765431 14689999999999964  234444444322     2346799999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|++|.+.+.+
T Consensus       159 l~~~l~~~~~~  169 (170)
T 1z08_A          159 LFLDLCKRMIE  169 (170)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHhh
Confidence            99999998764

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens}

Probab=99.64  E-value=9.8e-17  Score=97.48  Aligned_cols=84  Identities=13%  Similarity=0.110  Sum_probs=59.7

Q ss_pred             CeeCCch--hhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADT--DKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~--~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++  .+|+.+..|+..+.......++|+++|+||+|+......++..+...    ...++.+++|||++|.||++
T Consensus       169 V~D~t~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~----~~~~~~~~e~SAk~g~gv~e  244 (255)
T 3c5h_A          169 GIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVERYIRDAHTFAL----SKKNLQVVETSARSNVNVDL  244 (255)
T ss_dssp             EEECBC----CHHHHHHHHHHHHHHHHHTTCCEEEEEECGGGBCHHHHHHHHHHHH----TSSSCCEEECBTTTTBSHHH
T ss_pred             EEECCCCchhhHHHHHHHHHHHHHHhccCCCCEEEEEEcccccccHHHHHHHHHHH----hcCCCeEEEEECCCCCCHHH
Confidence            5899998  89999888888876531124689999999999964222222222211    11256799999999999999


Q ss_pred             HHHHHHHhhh
Q psy2977          79 TLQWLIAHSK   88 (92)
Q Consensus        79 ~~~~l~~~i~   88 (92)
                      +|++|.+.+.
T Consensus       245 lf~~l~~~l~  254 (255)
T 3c5h_A          245 AFSTLVQLID  254 (255)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhc
Confidence            9999998775

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=99.64  E-value=9e-16  Score=88.84  Aligned_cols=85  Identities=16%  Similarity=0.240  Sum_probs=64.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC-CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN-ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|++++.++.....|+..+.......++|+++|+||+|+.. ....+++.+...     ..+++++++||++|.|++++
T Consensus        99 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l  173 (190)
T 3con_A           99 VFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPTRTVDTKQAHELAK-----SYGIPFIETSAKTRQGVEDA  173 (190)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSCCCSCHHHHHHHHH-----HHTCCEEECCTTTCTTHHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCcCCcccCCHHHHHHHHH-----HcCCeEEEEeCCCCCCHHHH
Confidence            579999999988888877766533334789999999999975 234444443321     12457999999999999999


Q ss_pred             HHHHHHhhhhc
Q psy2977          80 LQWLIAHSKSH   90 (92)
Q Consensus        80 ~~~l~~~i~~~   90 (92)
                      |++|.+.+.+.
T Consensus       174 ~~~l~~~~~~~  184 (190)
T 3con_A          174 FYTLVREIRQY  184 (190)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999988664

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

Probab=99.63  E-value=8.9e-16  Score=87.85  Aligned_cols=83  Identities=16%  Similarity=0.238  Sum_probs=63.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.++.....|+..+...  ..+.|+++|+||+|+.+.  ....+......     ..+++++++||++|.|+++
T Consensus        88 v~d~~~~~s~~~~~~~~~~~~~~--~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~  160 (181)
T 3tw8_B           88 VYDVTSAESFVNVKRWLHEINQN--CDDVCRILVGNKNDDPERKVVETEDAYKFAG-----QMGIQLFETSAKENVNVEE  160 (181)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHH--CTTSEEEEEEECTTCGGGCCSCHHHHHHHHH-----HHTCCEEECBTTTTBSHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHh--CCCCCEEEEEECCCCchhcccCHHHHHHHHH-----HcCCeEEEEECCCCCCHHH
Confidence            58999999999988898887654  257999999999998643  23333333221     2245799999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|.+.+.+.
T Consensus       161 l~~~l~~~~~~~  172 (181)
T 3tw8_B          161 MFNCITELVLRA  172 (181)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999988653

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=99.63  E-value=1.3e-15  Score=87.05  Aligned_cols=86  Identities=15%  Similarity=0.246  Sum_probs=64.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCC---CCCCCcEEEEeeCCCCCC-CCCHHHHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKP---QLIGIPILVLGNKRDLPN-ALDEKELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~---~~~~~p~ilv~NK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      |+|++++.++.....|+..+....   ...+.|+++|+||+|+.. ....+++.+...    ....++++++||++|.|+
T Consensus        86 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~----~~~~~~~~~~Sa~~~~gi  161 (177)
T 1wms_A           86 TFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISERQVSTEEAQAWCR----DNGDYPYFETSAKDATNV  161 (177)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSSCSSCHHHHHHHHH----HTTCCCEEECCTTTCTTH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHHccccccCCCcEEEEEECCcccccccCHHHHHHHHH----hcCCceEEEEeCCCCCCH
Confidence            579999999988888877765421   225789999999999963 334455544332    123467999999999999


Q ss_pred             HHHHHHHHHhhhhc
Q psy2977          77 DITLQWLIAHSKSH   90 (92)
Q Consensus        77 ~~~~~~l~~~i~~~   90 (92)
                      +++|++|.+.+.++
T Consensus       162 ~~l~~~l~~~~~~~  175 (177)
T 1wms_A          162 AAAFEEAVRRVLAT  175 (177)
T ss_dssp             HHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999988754

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.63  E-value=1.3e-15  Score=88.63  Aligned_cols=85  Identities=14%  Similarity=0.128  Sum_probs=63.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+++....|+..+... ...++|+++|+||+|+...  ...++..+...    ...++.+++|||++|.||++
T Consensus       105 V~D~~~~~s~~~~~~~~~~i~~~-~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~----~~~~~~~~~~SA~~g~gi~~  179 (192)
T 2il1_A          105 VYDITKKETFDDLPKWMKMIDKY-ASEDAELLLVGNKLDCETDREITRQQGEKFAQ----QITGMRFCEASAKDNFNVDE  179 (192)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHH-SCTTCEEEEEEECGGGGGGCCSCHHHHHHHHH----TSTTCEEEECBTTTTBSHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHh-cCCCCcEEEEEECcccccccccCHHHHHHHHH----hcCCCeEEEEeCCCCCCHHH
Confidence            58999999998888887766543 2247899999999999642  33444443321    11256899999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|.+.+.++
T Consensus       180 l~~~l~~~i~~~  191 (192)
T 2il1_A          180 IFLKLVDDILKK  191 (192)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHh
Confidence            999999988654

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi}

Probab=99.63  E-value=1.3e-15  Score=89.93  Aligned_cols=84  Identities=17%  Similarity=0.209  Sum_probs=63.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.++.....|+..+.... ..+.|+++|+||+|+...  ...++.....     ...++++++|||++|.|+++
T Consensus        91 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~g~gv~~  164 (218)
T 4djt_A           91 FFDVTSRITCQNLARWVKEFQAVV-GNEAPIVVCANKIDIKNRQKISKKLVMEVL-----KGKNYEYFEISAKTAHNFGL  164 (218)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHH-CSSSCEEEEEECTTCC----CCHHHHHHHT-----TTCCCEEEEEBTTTTBTTTH
T ss_pred             EEeCCCHHHHHHHHHHHHHHHHhc-CCCCCEEEEEECCCCccccccCHHHHHHHH-----HHcCCcEEEEecCCCCCHHH
Confidence            589999999988888887776532 235899999999999753  2333333332     23457899999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|.+.+.+.
T Consensus       165 l~~~l~~~~~~~  176 (218)
T 4djt_A          165 PFLHLARIFTGR  176 (218)
T ss_dssp             HHHHHHHHHHCC
T ss_pred             HHHHHHHHHhcc
Confidence            999999998754

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=99.63  E-value=1.2e-15  Score=88.56  Aligned_cols=84  Identities=15%  Similarity=0.248  Sum_probs=64.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.++.....|+..+.... ..+.|+++|+||+|+...  ...++......     ..++.++++||++|.||++
T Consensus       104 v~D~~~~~s~~~~~~~l~~i~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~  177 (193)
T 2oil_A          104 VFDLTKHQTYAVVERWLKELYDHA-EATIVVMLVGNKSDLSQAREVPTEEARMFAE-----NNGLLFLETSALDSTNVEL  177 (193)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHTTS-CTTCEEEEEEECGGGGGGCCSCHHHHHHHHH-----HTTCEEEEECTTTCTTHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhc-CCCCeEEEEEECCCcccccccCHHHHHHHHH-----HcCCEEEEEeCCCCCCHHH
Confidence            589999999988888888887542 357899999999999642  33444443321     2346899999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|.+.+.++
T Consensus       178 l~~~l~~~i~~~  189 (193)
T 2oil_A          178 AFETVLKEIFAK  189 (193)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999988653

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=99.63  E-value=1.3e-15  Score=89.04  Aligned_cols=83  Identities=16%  Similarity=0.207  Sum_probs=63.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+++....|+..+.... ..+.|+++|+||+|+...  ...++......     ..+++++++||++|.||++
T Consensus        87 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~  160 (203)
T 1zbd_A           87 MYDITNEESFNAVQDWSTQIKTYS-WDNAQVLLVGNKCDMEDERVVSSERGRQLAD-----HLGFEFFEASAKDNINVKQ  160 (203)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHS-CSSCEEEEEEECTTCTTSCCSCHHHHHHHHH-----HHTCEEEECBTTTTBSSHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhc-CCCCCEEEEEECcccCcccccCHHHHHHHHH-----HCCCeEEEEECCCCCCHHH
Confidence            589999999998888888876532 357899999999999753  23333333221     1245799999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|++|.+.+.+
T Consensus       161 l~~~l~~~i~~  171 (203)
T 1zbd_A          161 TFERLVDVICE  171 (203)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999988754

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=99.63  E-value=1e-15  Score=88.67  Aligned_cols=84  Identities=18%  Similarity=0.224  Sum_probs=63.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+++....|+..+.... ..+.|+++|+||+|+...  ...++..+...     ..+++++++||++|.|+++
T Consensus       101 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~g~gi~~  174 (189)
T 2gf9_A          101 MYDIANQESFAAVQDWATQIKTYS-WDNAQVILVGNKCDLEDERVVPAEDGRRLAD-----DLGFEFFEASAKENINVKQ  174 (189)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHS-CTTCEEEEEEECTTCGGGCCSCHHHHHHHHH-----HHTCEEEECBTTTTBSHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhc-CCCCCEEEEEECcccccccCCCHHHHHHHHH-----HcCCeEEEEECCCCCCHHH
Confidence            589999999998888888776532 357899999999999642  23334333221     1246799999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|.+.+.++
T Consensus       175 l~~~l~~~i~~~  186 (189)
T 2gf9_A          175 VFERLVDVICEK  186 (189)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999988653

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=99.63  E-value=1e-15  Score=88.15  Aligned_cols=83  Identities=18%  Similarity=0.149  Sum_probs=63.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.++.....|+..+.... ..+.|+++|+||+|+..  ..+..+......     ..+++++++||++|.|+++
T Consensus        89 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~  162 (186)
T 2bme_A           89 VYDITSRETYNALTNWLTDARMLA-SQNIVIILCGNKKDLDADREVTFLEASRFAQ-----ENELMFLETSALTGENVEE  162 (186)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHS-CTTCEEEEEEECGGGGGGCCSCHHHHHHHHH-----HTTCEEEECCTTTCTTHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhc-CCCCcEEEEEECcccccccccCHHHHHHHHH-----HcCCEEEEecCCCCCCHHH
Confidence            589999999998888887765532 25789999999999963  234444433321     2356899999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|++|.+.+.+
T Consensus       163 l~~~l~~~~~~  173 (186)
T 2bme_A          163 AFVQCARKILN  173 (186)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999988764

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=99.62  E-value=1.1e-15  Score=89.51  Aligned_cols=83  Identities=14%  Similarity=0.127  Sum_probs=63.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+++....|+..+..... .+.|+++|+||+|+..  ..+..+......     ..++.+++|||++|.||++
T Consensus       104 v~d~~~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~SA~~g~gi~~  177 (200)
T 2o52_A          104 VYDITSRETYNSLAAWLTDARTLAS-PNIVVILCGNKKDLDPEREVTFLEASRFAQ-----ENELMFLETSALTGENVEE  177 (200)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHTC-TTCEEEEEEECGGGGGGCCSCHHHHHHHHH-----HTTCEEEEECTTTCTTHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhcC-CCCcEEEEEECCCcccccccCHHHHHHHHH-----HcCCEEEEEeCCCCCCHHH
Confidence            5899999999988888888765322 5789999999999963  233444433321     2356899999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|++|.+.+.+
T Consensus       178 l~~~l~~~i~~  188 (200)
T 2o52_A          178 AFLKCARTILN  188 (200)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999998764

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=99.62  E-value=1.9e-15  Score=85.75  Aligned_cols=83  Identities=19%  Similarity=0.197  Sum_probs=63.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.++.....|+..+... .....|+++|+||+|+.+.  ...++......     ..+++++++||++|.|+++
T Consensus        85 v~d~~~~~s~~~~~~~~~~l~~~-~~~~~~iilv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~~~~i~~  158 (170)
T 1z0j_A           85 VYDITKEETFSTLKNWVRELRQH-GPPSIVVAIAGNKCDLTDVREVMERDAKDYAD-----SIHAIFVETSAKNAININE  158 (170)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHH-SCTTSEEEEEEECTTCGGGCCSCHHHHHHHHH-----HTTCEEEECBTTTTBSHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHh-CCCCCcEEEEEECCccccccccCHHHHHHHHH-----HcCCEEEEEeCCCCcCHHH
Confidence            57999999999888888877653 2357899999999999642  23333333221     2346899999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|++|.+.+.+
T Consensus       159 l~~~i~~~i~~  169 (170)
T 1z0j_A          159 LFIEISRRIPS  169 (170)
T ss_dssp             HHHHHHHHCCC
T ss_pred             HHHHHHHHHhc
Confidence            99999988753

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.62  E-value=6.7e-16  Score=90.83  Aligned_cols=83  Identities=17%  Similarity=0.193  Sum_probs=62.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+++.+..|+..+.... ..+.|+++|+||+|+..  ....++......     ..++++++|||++|.||++
T Consensus       105 v~D~~~~~s~~~~~~~~~~i~~~~-~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~g~gv~~  178 (201)
T 2ew1_A          105 TYDITCEESFRCLPEWLREIEQYA-SNKVITVLVGNKIDLAERREVSQQRAEEFSE-----AQDMYYLETSAKESDNVEK  178 (201)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHS-CTTCEEEEEEECGGGGGGCSSCHHHHHHHHH-----HHTCCEEECCTTTCTTHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhc-CCCCCEEEEEECCCCccccccCHHHHHHHHH-----HcCCEEEEEeCCCCCCHHH
Confidence            589999999998888888776532 24689999999999963  233444433221     2246799999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|++|.+.+.+
T Consensus       179 l~~~l~~~i~~  189 (201)
T 2ew1_A          179 LFLDLACRLIS  189 (201)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999988854

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=99.62  E-value=4.1e-16  Score=88.33  Aligned_cols=82  Identities=20%  Similarity=0.263  Sum_probs=63.3

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+++....|+..+....  .+.|+++|+||+|+.+  ....+++.....     ..+++++++||++|.|+++
T Consensus        84 v~d~~~~~s~~~~~~~~~~i~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~i~~  156 (168)
T 1z2a_A           84 VFSTTDRESFEAISSWREKVVAEV--GDIPTALVQNKIDLLDDSCIKNEEAEGLAK-----RLKLRFYRTSVKEDLNVSE  156 (168)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHH--CSCCEEEEEECGGGGGGCSSCHHHHHHHHH-----HHTCEEEECBTTTTBSSHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhC--CCCCEEEEEECcccCcccccCHHHHHHHHH-----HcCCeEEEEecCCCCCHHH
Confidence            579999999988888888776542  4689999999999864  233444443321     2346899999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|++|.+.+.+
T Consensus       157 l~~~l~~~~~~  167 (168)
T 1z2a_A          157 VFKYLAEKHLQ  167 (168)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHhh
Confidence            99999998764

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=99.62  E-value=7.9e-16  Score=89.17  Aligned_cols=84  Identities=18%  Similarity=0.210  Sum_probs=60.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccC---CC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKER---DN   75 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~---~g   75 (92)
                      |+|++++.++.....|+..+.......+.|+++|+||+|+.+.  ...++......     ..++.++++||++|   .|
T Consensus       100 v~D~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~~~~~~~  174 (189)
T 1z06_A          100 VYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFAD-----THSMPLFETSAKNPNDNDH  174 (189)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHH-----HTTCCEEECCSSSGGGGSC
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceeCHHHHHHHHH-----HcCCEEEEEeCCcCCcccC
Confidence            5899999999998889888876543457999999999999642  33343333221     23457999999999   99


Q ss_pred             HHHHHHHHHHhhhh
Q psy2977          76 IDITLQWLIAHSKS   89 (92)
Q Consensus        76 i~~~~~~l~~~i~~   89 (92)
                      |+++|++|.+.+.+
T Consensus       175 i~~l~~~l~~~i~~  188 (189)
T 1z06_A          175 VEAIFMTLAHKLKS  188 (189)
T ss_dssp             HHHHHHHHC-----
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999988754

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=99.62  E-value=9.3e-16  Score=89.19  Aligned_cols=84  Identities=10%  Similarity=0.027  Sum_probs=61.5

Q ss_pred             CeeCCchhhHHHH-HHHHHHhhcCCCCCCCcEEEEeeCCCCCCC----CCHHHHHHhhccCCcCCCceE-EEeeccccCC
Q psy2977           1 MVDAADTDKLEAS-RNELHALIEKPQLIGIPILVLGNKRDLPNA----LDEKELIDRMNLCAIQDREIC-CYSISCKERD   74 (92)
Q Consensus         1 v~D~s~~~~~~~~-~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~----~~~~~~~~~~~~~~~~~~~~~-~~~~SA~~~~   74 (92)
                      |+|++++.++..+ ..|+..+...  ..+.|+++|+||+|+...    ...++..+...     ..++. ++++||++|.
T Consensus       101 v~d~~~~~s~~~~~~~~~~~~~~~--~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~  173 (194)
T 3reg_A          101 CFAVNNRTSFDNISTKWEPEIKHY--IDTAKTVLVGLKVDLRKDGSDDVTKQEGDDLCQ-----KLGCVAYIEASSVAKI  173 (194)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHH--CTTSEEEEEEECGGGCCTTTTCCCHHHHHHHHH-----HHTCSCEEECBTTTTB
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHh--CCCCCEEEEEEChhhccCCCCcccHHHHHHHHH-----hcCCCEEEEeecCCCC
Confidence            5899999999887 4566655433  357999999999999642    33444433321     12334 8999999999


Q ss_pred             CHHHHHHHHHHhhhhcC
Q psy2977          75 NIDITLQWLIAHSKSHT   91 (92)
Q Consensus        75 gi~~~~~~l~~~i~~~~   91 (92)
                      ||+++|++|.+.+.+++
T Consensus       174 gi~~l~~~l~~~i~~~~  190 (194)
T 3reg_A          174 GLNEVFEKSVDCIFSNK  190 (194)
T ss_dssp             SHHHHHHHHHHHHHCSC
T ss_pred             CHHHHHHHHHHHHHhcC
Confidence            99999999999987653

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=99.62  E-value=7e-16  Score=90.16  Aligned_cols=84  Identities=17%  Similarity=0.164  Sum_probs=60.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--------CCCHHHHHHhhccCCcCCCceEEEeecccc
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--------ALDEKELIDRMNLCAIQDREICCYSISCKE   72 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~   72 (92)
                      |+|++++.++.....|+..+.... ..++|+++|+||+|+.+        ....++.....     ...+++++++||++
T Consensus       107 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piilv~NK~Dl~~~~~~~~~~~v~~~~~~~~~-----~~~~~~~~~~SA~~  180 (199)
T 2p5s_A          107 LYDVTCEKSFLNIREWVDMIEDAA-HETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLA-----MTYGALFCETSAKD  180 (199)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHC----CCEEEEEECGGGHHHHHHTTCCCCCHHHHHHHH-----HHHTCEEEECCTTT
T ss_pred             EEECCChHHHHHHHHHHHHHHHhc-CCCCCEEEEEECcccccccccccccccCHHHHHHHH-----HHcCCeEEEeeCCC
Confidence            589999999998888887765432 24689999999999852        22233322221     12346799999999


Q ss_pred             CCCHHHHHHHHHHhhhhc
Q psy2977          73 RDNIDITLQWLIAHSKSH   90 (92)
Q Consensus        73 ~~gi~~~~~~l~~~i~~~   90 (92)
                      |.||+++|++|.+.+.++
T Consensus       181 g~gv~el~~~l~~~i~~~  198 (199)
T 2p5s_A          181 GSNIVEAVLHLAREVKKR  198 (199)
T ss_dssp             CTTHHHHHHHHHHHHTC-
T ss_pred             CCCHHHHHHHHHHHHHhh
Confidence            999999999999988654

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=99.62  E-value=3.4e-16  Score=92.78  Aligned_cols=83  Identities=23%  Similarity=0.300  Sum_probs=63.3

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++.++.....|+..+....  .++|+++|+||+|+.+.....+....     ....++.+++|||++|.||+++|
T Consensus        94 v~d~~~~~s~~~~~~~~~~~~~~~--~~~p~ilv~nK~Dl~~~~~~~~~~~~-----~~~~~~~~~~~Sa~~~~gi~~l~  166 (221)
T 3gj0_A           94 MFDVTSRVTYKNVPNWHRDLVRVC--ENIPIVLCGNKVDIKDRKVKAKSIVF-----HRKKNLQYYDISAKSNYNFEKPF  166 (221)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHS--TTCCEEEEEECTTSSSCSSCGGGCCH-----HHHHTCEEEECBGGGTBTTTHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhC--CCCCEEEEEECCccccccccHHHHHH-----HHHcCCEEEEEeCCCCCCHHHHH
Confidence            589999999999888988887642  47899999999999754322111111     11235689999999999999999


Q ss_pred             HHHHHhhhhc
Q psy2977          81 QWLIAHSKSH   90 (92)
Q Consensus        81 ~~l~~~i~~~   90 (92)
                      ++|.+.+...
T Consensus       167 ~~l~~~l~~~  176 (221)
T 3gj0_A          167 LWLARKLIGD  176 (221)
T ss_dssp             HHHHHHHHTC
T ss_pred             HHHHHHHHhC
Confidence            9999988654

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

Probab=99.62  E-value=3.4e-15  Score=86.67  Aligned_cols=82  Identities=18%  Similarity=0.227  Sum_probs=63.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC-CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN-ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|++++.++.....|+..+....   +.|+++|+||+|+.. ....+++.+.+.     ..+++++++||++|.|++++
T Consensus       123 v~D~~~~~s~~~~~~~~~~i~~~~---~~piilv~NK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~i~~l  194 (208)
T 3clv_A          123 VFDISNSNTLDRAKTWVNQLKISS---NYIIILVANKIDKNKFQVDILEVQKYAQ-----DNNLLFIQTSAKTGTNIKNI  194 (208)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHS---CCEEEEEEECTTCC-CCSCHHHHHHHHH-----HTTCEEEEECTTTCTTHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHhhC---CCcEEEEEECCCcccccCCHHHHHHHHH-----HcCCcEEEEecCCCCCHHHH
Confidence            589999999998888888887542   389999999999432 334555555432     23568999999999999999


Q ss_pred             HHHHHHhhhhc
Q psy2977          80 LQWLIAHSKSH   90 (92)
Q Consensus        80 ~~~l~~~i~~~   90 (92)
                      |++|.+.+.++
T Consensus       195 ~~~l~~~~~~~  205 (208)
T 3clv_A          195 FYMLAEEIYKN  205 (208)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999988654

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.62  E-value=1.7e-15  Score=88.03  Aligned_cols=81  Identities=12%  Similarity=0.177  Sum_probs=59.4

Q ss_pred             CeeCCchhhHHHHH-HHHHHhhcCCCCCCCcEEEEeeCCCCCCC--------------CCHHHHHHhhccCCcCCCce-E
Q psy2977           1 MVDAADTDKLEASR-NELHALIEKPQLIGIPILVLGNKRDLPNA--------------LDEKELIDRMNLCAIQDREI-C   64 (92)
Q Consensus         1 v~D~s~~~~~~~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--------------~~~~~~~~~~~~~~~~~~~~-~   64 (92)
                      |+|+++++++.... .|+..+...  ..++|+++|+||+|+.+.              .+.++..+...     ..+. +
T Consensus        96 v~d~~~~~s~~~~~~~~~~~~~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~-----~~~~~~  168 (194)
T 2atx_A           96 CFSVVNPASFQNVKEEWVPELKEY--APNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAK-----EIGACC  168 (194)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHH--STTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHH-----HHTCSC
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHh--CCCCCEEEEEEChhhcccccchhhcccccCcccCHHHHHHHHH-----HcCCcE
Confidence            58999999999887 677776653  247899999999999753              22222222111     1122 6


Q ss_pred             EEeeccccCCCHHHHHHHHHHhhh
Q psy2977          65 CYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        65 ~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      +++|||++|.||+++|++|.+.+.
T Consensus       169 ~~~~Sa~~g~gi~~l~~~l~~~i~  192 (194)
T 2atx_A          169 YVECSALTQKGLKTVFDEAIIAIL  192 (194)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             EEEeeCCCCCCHHHHHHHHHHHHh
Confidence            899999999999999999998875

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.61  E-value=1.3e-15  Score=90.44  Aligned_cols=84  Identities=20%  Similarity=0.253  Sum_probs=61.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+++.+..|+..+.... ..++|+++|+||+|+..  ....++......     ..+++++++||++|.||++
T Consensus        92 V~D~~~~~s~~~~~~~l~~i~~~~-~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~  165 (223)
T 3cpj_B           92 VYDISKSSSYENCNHWLSELRENA-DDNVAVGLIGNKSDLAHLRAVPTEESKTFAQ-----ENQLLFTETSALNSENVDK  165 (223)
T ss_dssp             EEC-CCHHHHHHHHHHHHHHHHHC-C--CEEEEEECCGGGGGGCCSCHHHHHHHHH-----HTTCEEEECCCC-CCCHHH
T ss_pred             EEeCCCHHHHHHHHHHHHHHHHhC-CCCCeEEEEEECcccccccccCHHHHHHHHH-----HcCCEEEEEeCCCCCCHHH
Confidence            589999999999888888876542 24789999999999964  234444443321     2346899999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|.+.+.++
T Consensus       166 l~~~l~~~i~~~  177 (223)
T 3cpj_B          166 AFEELINTIYQK  177 (223)
T ss_dssp             HHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHH
Confidence            999999988654

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=99.61  E-value=3.7e-16  Score=90.68  Aligned_cols=84  Identities=15%  Similarity=0.248  Sum_probs=63.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCC--CCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeecc-ccCCC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKP--QLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISC-KERDN   75 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~--~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA-~~~~g   75 (92)
                      |+|++++++++.+..|+..+....  ...+.|+++|+||+|+..  ..+.++..+...     ..++.+++||| ++|.|
T Consensus        98 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~e~Sa~~~g~g  172 (187)
T 3c5c_A           98 VYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYRQVTKAEGVALAG-----RFGCLFFEVSACLDFEH  172 (187)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECGGGGGGCSSCHHHHHHHHH-----HHTCEEEECCSSSCSHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHhhccCCCCCEEEEEECcchhhcCccCHHHHHHHHH-----HcCCcEEEEeecCcccc
Confidence            589999999999988888876531  114689999999999964  234444433321     22467999999 89999


Q ss_pred             HHHHHHHHHHhhhh
Q psy2977          76 IDITLQWLIAHSKS   89 (92)
Q Consensus        76 i~~~~~~l~~~i~~   89 (92)
                      |+++|++|.+.+.+
T Consensus       173 v~~lf~~l~~~i~~  186 (187)
T 3c5c_A          173 VQHVFHEAVREARR  186 (187)
T ss_dssp             HHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999998864

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=99.60  E-value=7.2e-16  Score=91.29  Aligned_cols=83  Identities=10%  Similarity=0.085  Sum_probs=62.1

Q ss_pred             CeeCCchhhHHH-HHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--------------CCHHHHHHhhccCCcCCCce-E
Q psy2977           1 MVDAADTDKLEA-SRNELHALIEKPQLIGIPILVLGNKRDLPNA--------------LDEKELIDRMNLCAIQDREI-C   64 (92)
Q Consensus         1 v~D~s~~~~~~~-~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--------------~~~~~~~~~~~~~~~~~~~~-~   64 (92)
                      |||+++++++.. ...|+..+...  ..+.|+++|+||+|+...              ...++......     ..++ .
T Consensus       105 v~d~~~~~s~~~~~~~~~~~i~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~-----~~~~~~  177 (214)
T 3q3j_B          105 CFDISRPETVDSALKKWRTEILDY--CPSTRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAK-----QLGAEI  177 (214)
T ss_dssp             EEETTCTHHHHHHHTHHHHHHHHH--CTTSEEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHH-----HHTCSE
T ss_pred             EEECcCHHHHHHHHHHHHHHHHHh--CCCCCEEEEEEChhhccchhhhhhhcccccCccCHHHHHHHHH-----HcCCCE
Confidence            689999999998 56787777654  257999999999999642              33333333221     2245 7


Q ss_pred             EEeeccccCCC-HHHHHHHHHHhhhhc
Q psy2977          65 CYSISCKERDN-IDITLQWLIAHSKSH   90 (92)
Q Consensus        65 ~~~~SA~~~~g-i~~~~~~l~~~i~~~   90 (92)
                      +++|||++|.| |+++|++|.+.+.+.
T Consensus       178 ~~e~SA~~g~g~v~~lf~~l~~~~~~~  204 (214)
T 3q3j_B          178 YLEGSAFTSEKSIHSIFRTASMLCLNK  204 (214)
T ss_dssp             EEECCTTTCHHHHHHHHHHHHHHHHC-
T ss_pred             EEEeccCCCcccHHHHHHHHHHHHhcc
Confidence            99999999998 999999999988654

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=99.60  E-value=1.2e-15  Score=87.14  Aligned_cols=84  Identities=15%  Similarity=0.220  Sum_probs=62.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+++....|+..+.... ..+.|+++|+||+|+.+.  ...++......     ..+++++++||++|.|+++
T Consensus        93 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~i~~  166 (179)
T 2y8e_A           93 VYDITNTNSFHQTSKWIDDVRTER-GSDVIIMLVGNKTDLSDKRQVSTEEGERKAK-----ELNVMFIETSAKAGYNVKQ  166 (179)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHH-TTSSEEEEEEECGGGGGGCCSCHHHHHHHHH-----HHTCEEEEEBTTTTBSHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhc-CCCCcEEEEEECCcccccCcCCHHHHHHHHH-----HcCCeEEEEeCCCCCCHHH
Confidence            579999999998888888876532 246899999999999642  23344333221     2346899999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|.+.+.++
T Consensus       167 l~~~l~~~~~~~  178 (179)
T 2y8e_A          167 LFRRVAAALPGM  178 (179)
T ss_dssp             HHHHHHHTCC--
T ss_pred             HHHHHHHHHhhc
Confidence            999999988653

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=99.60  E-value=1.9e-15  Score=88.40  Aligned_cols=85  Identities=20%  Similarity=0.268  Sum_probs=63.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCC---CCCCCcEEEEeeCCCCCCC-CCHHHHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKP---QLIGIPILVLGNKRDLPNA-LDEKELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~---~~~~~p~ilv~NK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      |+|++++.++.....|+..+....   ...+.|+++|+||+|+... ...++......    ....++++++||++|.|+
T Consensus        87 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~----~~~~~~~~~~Sa~~g~gi  162 (207)
T 1vg8_A           87 VFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVATKRAQAWCY----SKNNIPYFETSAKEAINV  162 (207)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCCCSCHHHHHHHHH----HTTSCCEEECBTTTTBSH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhcccccCCCCcEEEEEECCCCcccccCHHHHHHHHH----hcCCceEEEEeCCCCCCH
Confidence            589999999988888877765431   1246899999999999742 23444443321    123567999999999999


Q ss_pred             HHHHHHHHHhhhh
Q psy2977          77 DITLQWLIAHSKS   89 (92)
Q Consensus        77 ~~~~~~l~~~i~~   89 (92)
                      +++|++|.+.+.+
T Consensus       163 ~~l~~~l~~~~~~  175 (207)
T 1vg8_A          163 EQAFQTIARNALK  175 (207)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999998754

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.59  E-value=1.5e-15  Score=86.94  Aligned_cols=86  Identities=15%  Similarity=0.191  Sum_probs=61.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCC-CCCCc-EEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQ-LIGIP-ILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~-~~~~p-~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      |+|++++.+++....|+..+..... ....| +++|+||+|+.+.  .+.++......     ..+++++++||++|.||
T Consensus        86 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi  160 (178)
T 2hxs_A           86 VYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMRTIKPEKHLRFCQ-----ENGFSSHFVSAKTGDSV  160 (178)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGGGGGCSSCHHHHHHHHH-----HHTCEEEEECTTTCTTH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEccccccccccCHHHHHHHHH-----HcCCcEEEEeCCCCCCH
Confidence            5899999999888888777654210 11345 8999999999642  33444433321     22467999999999999


Q ss_pred             HHHHHHHHHhhhhcC
Q psy2977          77 DITLQWLIAHSKSHT   91 (92)
Q Consensus        77 ~~~~~~l~~~i~~~~   91 (92)
                      +++|++|.+.+.+..
T Consensus       161 ~~l~~~l~~~~~~~~  175 (178)
T 2hxs_A          161 FLCFQKVAAEILGIK  175 (178)
T ss_dssp             HHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHhhh
Confidence            999999999887643

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.59  E-value=8.6e-17  Score=94.06  Aligned_cols=85  Identities=19%  Similarity=0.211  Sum_probs=57.3

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+++.+..|+..+.... ..++|+++|+||+|+.+..  ..++.....     ...+++++++||++|.||++
T Consensus       112 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~-----~~~~~~~~~vSA~~g~gv~~  185 (199)
T 3l0i_B          112 VYDVTDQESFNNVKQWLQEIDRYA-SENVNKLLVGNKCDLTTKKVVDYTTAKEFA-----DSLGIPFLETSAKNATNVEQ  185 (199)
T ss_dssp             CC-CCCSHHHHHHHHHHHHHHSCC--CCSEEEEC-CCSSCC--CCCCSCC-CHHH-----HTTTCCBCCCCC---HHHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhc-cCCCCEEEEEECccCCccccCCHHHHHHHH-----HHcCCeEEEEECCCCCCHHH
Confidence            689999999999988888886542 2579999999999996432  111111111     12345689999999999999


Q ss_pred             HHHHHHHhhhhcC
Q psy2977          79 TLQWLIAHSKSHT   91 (92)
Q Consensus        79 ~~~~l~~~i~~~~   91 (92)
                      +|++|.+.+.++.
T Consensus       186 l~~~l~~~l~~~~  198 (199)
T 3l0i_B          186 SFMTMAAEIKKRM  198 (199)
T ss_dssp             HHHHHTTTTTTTC
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999987653

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.59  E-value=2e-15  Score=88.69  Aligned_cols=83  Identities=17%  Similarity=0.178  Sum_probs=62.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC-CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA-LDEKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|++++.+++....|+..+.... ..+.|+++|+||+|+... ...++......     ..+++++++||++|.||+++
T Consensus        99 v~d~~~~~s~~~~~~~~~~i~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~gi~~l  172 (213)
T 3cph_A           99 VYDVTDERTFTNIKQWFKTVNEHA-NDEAQLLLVGNKSDMETRVVTADQGEALAK-----ELGIPFIESSAKNDDNVNEI  172 (213)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHT-TTCSEEEEEEECTTCSSCCSCHHHHHHHHH-----HHTCCEEECBTTTTBSSHHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHHhc-CCCCCEEEEEECCCCcccccCHHHHHHHHH-----HcCCEEEEEeCCCCCCHHHH
Confidence            589999999988888888776542 246899999999999532 23333333221     12357999999999999999


Q ss_pred             HHHHHHhhhh
Q psy2977          80 LQWLIAHSKS   89 (92)
Q Consensus        80 ~~~l~~~i~~   89 (92)
                      |++|.+.+.+
T Consensus       173 ~~~l~~~~~~  182 (213)
T 3cph_A          173 FFTLAKLIQE  182 (213)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999988764

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=99.59  E-value=3.5e-15  Score=88.20  Aligned_cols=84  Identities=15%  Similarity=0.137  Sum_probs=60.5

Q ss_pred             CeeCCchhhHHHHH-HHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--------------CHHHHHHhhccCCcCCCc-eE
Q psy2977           1 MVDAADTDKLEASR-NELHALIEKPQLIGIPILVLGNKRDLPNAL--------------DEKELIDRMNLCAIQDRE-IC   64 (92)
Q Consensus         1 v~D~s~~~~~~~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--------------~~~~~~~~~~~~~~~~~~-~~   64 (92)
                      |+|++++.++..+. .|+..+...  ..++|+++|+||+|+....              +.++..+...     ..+ ..
T Consensus       112 v~d~~~~~s~~~~~~~~~~~~~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~-----~~~~~~  184 (214)
T 2j1l_A          112 CFDVTSPNSFDNIFNRWYPEVNHF--CKKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMAR-----SVGAVA  184 (214)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHH--CSSCCEEEEEECGGGGSCHHHHHHHHHTTCCCCCHHHHHHHHH-----HTTCSE
T ss_pred             EEECcCHHHHHHHHHHHHHHHHHh--CCCCCEEEEEEChhhhccchhhhhhcccccCcccHHHHHHHHH-----hcCCCE
Confidence            58999999999886 577666543  2478999999999996532              1122222111     123 37


Q ss_pred             EEeeccccCCCHHHHHHHHHHhhhhcC
Q psy2977          65 CYSISCKERDNIDITLQWLIAHSKSHT   91 (92)
Q Consensus        65 ~~~~SA~~~~gi~~~~~~l~~~i~~~~   91 (92)
                      +++|||++|.||+++|++|.+.+.+.+
T Consensus       185 ~~~~SA~~g~gi~el~~~l~~~~~~~~  211 (214)
T 2j1l_A          185 YLECSARLHDNVHAVFQEAAEVALSSR  211 (214)
T ss_dssp             EEECBTTTTBSHHHHHHHHHHHHHHC-
T ss_pred             EEEecCCCCCCHHHHHHHHHHHHHHhh
Confidence            999999999999999999999987643

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.58  E-value=1.5e-15  Score=88.25  Aligned_cols=85  Identities=19%  Similarity=0.255  Sum_probs=61.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCC-CCCCCcEEEEeeCCCCCCC-CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKP-QLIGIPILVLGNKRDLPNA-LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~-~~~~~p~ilv~NK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+++....|+..+.... ...+.|+++|+||+|+... ...++.....     ...++.++++||++|.||++
T Consensus        86 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~gi~~  160 (199)
T 2gf0_A           86 VFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQREVDTREAQAVA-----QEWKCAFMETSAKMNYNVKE  160 (199)
T ss_dssp             EEETTCHHHHHTTHHHHHHHHHHHSCGGGSCEEEEEECTTCSSCSSCHHHHHHHH-----HHHTCEEEECBTTTTBSHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCCccccCHHHHHHHH-----HHhCCeEEEEecCCCCCHHH
Confidence            579999999888777765554321 1246899999999999753 2333333321     12246799999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|.+.+.++
T Consensus       161 l~~~l~~~~~~~  172 (199)
T 2gf0_A          161 LFQELLTLETRR  172 (199)
T ss_dssp             HHHHHHHHCSSS
T ss_pred             HHHHHHHHHhhh
Confidence            999999987653

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.58  E-value=2.6e-15  Score=85.20  Aligned_cols=85  Identities=20%  Similarity=0.235  Sum_probs=60.8

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcC-CCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEK-PQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNID   77 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~-~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~   77 (92)
                      |+|++++.+++....|+..+... ....+.|+++|+||+|+.+.  ....+.....     ...+++++++||++|.|++
T Consensus        81 v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~pii~v~nK~Dl~~~~~v~~~~~~~~~-----~~~~~~~~~~Sa~~~~gi~  155 (172)
T 2erx_A           81 VYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALA-----RTWKCAFMETSAKLNHNVK  155 (172)
T ss_dssp             EEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHH-----HHHTCEEEECBTTTTBSHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHHhCCCCCCCEEEEEEccccccccccCHHHHHHHH-----HHhCCeEEEecCCCCcCHH
Confidence            57999999998877777665542 12347899999999998642  2333332221     1224679999999999999


Q ss_pred             HHHHHHHHhhhhc
Q psy2977          78 ITLQWLIAHSKSH   90 (92)
Q Consensus        78 ~~~~~l~~~i~~~   90 (92)
                      ++|++|.+.+.++
T Consensus       156 ~l~~~l~~~~~~~  168 (172)
T 2erx_A          156 ELFQELLNLEKRR  168 (172)
T ss_dssp             HHHHHHHHTCCSS
T ss_pred             HHHHHHHHHHhhh
Confidence            9999999988654

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.58  E-value=2.8e-15  Score=87.49  Aligned_cols=83  Identities=11%  Similarity=0.111  Sum_probs=60.6

Q ss_pred             CeeCCchhhHHHHH-HHHHHhhcCCCCCCCcEEEEeeCCCCCCC--------------CCHHHHHHhhccCCcCCCc-eE
Q psy2977           1 MVDAADTDKLEASR-NELHALIEKPQLIGIPILVLGNKRDLPNA--------------LDEKELIDRMNLCAIQDRE-IC   64 (92)
Q Consensus         1 v~D~s~~~~~~~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--------------~~~~~~~~~~~~~~~~~~~-~~   64 (92)
                      |+|++++.++.... .|+..+...  ..+.|+++|+||+|+...              ...++......     ..+ ++
T Consensus        98 v~d~~~~~s~~~~~~~~~~~~~~~--~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~-----~~~~~~  170 (201)
T 2q3h_A           98 CFSVVSPSSFQNVSEKWVPEIRCH--CPKAPIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAE-----EIKAAS  170 (201)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHH--CSSSCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHH-----HHTCSE
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHh--CCCCCEEEEEECHhhhhchhhhhhhcccccccCCHHHHHHHHH-----hcCCcE
Confidence            58999999999886 677776653  247899999999999642              12222222211     112 37


Q ss_pred             EEeeccccCCCHHHHHHHHHHhhhhc
Q psy2977          65 CYSISCKERDNIDITLQWLIAHSKSH   90 (92)
Q Consensus        65 ~~~~SA~~~~gi~~~~~~l~~~i~~~   90 (92)
                      +++|||++|.||+++|++|.+.+.+.
T Consensus       171 ~~~~Sa~~g~gi~~l~~~l~~~~~~~  196 (201)
T 2q3h_A          171 YIECSALTQKNLKEVFDAAIVAGIQY  196 (201)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             EEEEecCCCCCHHHHHHHHHHHHhcc
Confidence            99999999999999999999988643

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=99.57  E-value=2.9e-15  Score=88.03  Aligned_cols=81  Identities=14%  Similarity=0.129  Sum_probs=57.6

Q ss_pred             CeeCCchhhHHHHH-HHHHHhhcCCCCCCCcEEEEeeCCCCCCCCC--------------HHHHHHhhccCCcCCCceEE
Q psy2977           1 MVDAADTDKLEASR-NELHALIEKPQLIGIPILVLGNKRDLPNALD--------------EKELIDRMNLCAIQDREICC   65 (92)
Q Consensus         1 v~D~s~~~~~~~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~--------------~~~~~~~~~~~~~~~~~~~~   65 (92)
                      |+|++++.++.... .|+..+....  .++|+++|+||+|+.....              .++......    .....++
T Consensus       108 v~d~~~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~----~~~~~~~  181 (204)
T 4gzl_A          108 CFSLVSPASFENVRAKWYPEVRHHC--PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAK----EIGAVKY  181 (204)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHC--SSCCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHH----HTTCSEE
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHhC--CCCCEEEEEechhhccchhhhhhhhccccccccHHHHHHHHH----hcCCcEE
Confidence            58999999999886 5666665432  5789999999999965321              111111110    0112469


Q ss_pred             EeeccccCCCHHHHHHHHHHhh
Q psy2977          66 YSISCKERDNIDITLQWLIAHS   87 (92)
Q Consensus        66 ~~~SA~~~~gi~~~~~~l~~~i   87 (92)
                      ++|||++|.||+++|++|.+.+
T Consensus       182 ~~~SA~~g~gi~~l~~~l~~~~  203 (204)
T 4gzl_A          182 LECSALTQRGLKTVFDEAIRAV  203 (204)
T ss_dssp             EECCTTTCTTHHHHHHHHHHTT
T ss_pred             EEeeCCCCCCHHHHHHHHHHHh
Confidence            9999999999999999999865

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=99.56  E-value=4.8e-15  Score=85.19  Aligned_cols=83  Identities=12%  Similarity=0.108  Sum_probs=59.6

Q ss_pred             CeeCCchhhHHHHH-HHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--------------CHHHHHHhhccCCcCCCc-eE
Q psy2977           1 MVDAADTDKLEASR-NELHALIEKPQLIGIPILVLGNKRDLPNAL--------------DEKELIDRMNLCAIQDRE-IC   64 (92)
Q Consensus         1 v~D~s~~~~~~~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--------------~~~~~~~~~~~~~~~~~~-~~   64 (92)
                      |+|++++.++.... .|+..+....  .+.|+++|+||+|+.+..              +.++.....     ...+ ++
T Consensus        83 v~d~~~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~-----~~~~~~~  155 (186)
T 1mh1_A           83 CFSLVSPASFENVRAKWYPEVRHHC--PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMA-----KEIGAVK  155 (186)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHS--TTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHH-----HHTTCSE
T ss_pred             EEECCChhhHHHHHHHHHHHHHHhC--CCCCEEEEeEcccccccchhhhhhcccccccCCHHHHHHHH-----HhcCCcE
Confidence            58999999998886 5766665432  378999999999986431              111211111     1123 37


Q ss_pred             EEeeccccCCCHHHHHHHHHHhhhhc
Q psy2977          65 CYSISCKERDNIDITLQWLIAHSKSH   90 (92)
Q Consensus        65 ~~~~SA~~~~gi~~~~~~l~~~i~~~   90 (92)
                      +++|||++|.|++++|++|.+.+.+.
T Consensus       156 ~~~~Sa~~g~gi~~l~~~l~~~~~~~  181 (186)
T 1mh1_A          156 YLECSALTQRGLKTVFDEAIRAVLCP  181 (186)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHHSCC
T ss_pred             EEEecCCCccCHHHHHHHHHHHHhcc
Confidence            99999999999999999999988653

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=99.56  E-value=1.4e-14  Score=84.74  Aligned_cols=82  Identities=18%  Similarity=0.193  Sum_probs=57.7

Q ss_pred             CeeCCchhhHHHH-HHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--------------CHHHHHHhhccCCcCCCce-E
Q psy2977           1 MVDAADTDKLEAS-RNELHALIEKPQLIGIPILVLGNKRDLPNAL--------------DEKELIDRMNLCAIQDREI-C   64 (92)
Q Consensus         1 v~D~s~~~~~~~~-~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--------------~~~~~~~~~~~~~~~~~~~-~   64 (92)
                      |+|+++++++... ..|+..+...  ..+.|+++|+||+|+....              ..++......     ..+. .
T Consensus       103 v~d~~~~~s~~~~~~~~~~~~~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~-----~~~~~~  175 (201)
T 2gco_A          103 CFSIDSPDSLENIPEKWTPEVKHF--CPNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMAN-----RISAFG  175 (201)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHH--STTCCEEEEEECGGGTTCHHHHHHHHTTTCCCCCHHHHHHHHH-----HTTCSE
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHh--CCCCCEEEEEecHHhhcCccchhhhcccccCcCCHHHHHHHHH-----hCCCcE
Confidence            5799999999888 4566555442  2478999999999997531              1112111111     1123 7


Q ss_pred             EEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          65 CYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        65 ~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      +++|||++|.||+++|++|.+.+.+
T Consensus       176 ~~~~SA~~g~gi~~l~~~i~~~~l~  200 (201)
T 2gco_A          176 YLECSAKTKEGVREVFEMATRAGLQ  200 (201)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             EEEeeCCCCCCHHHHHHHHHHHHhc
Confidence            9999999999999999999987653

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.56  E-value=2.7e-15  Score=88.27  Aligned_cols=82  Identities=15%  Similarity=0.125  Sum_probs=60.4

Q ss_pred             CeeCCchhhHHHHH-HHHHHhhcCCCCCCCcEEEEeeCCCCCCCC----------CHHHHHHhhccCCcCCCc-eEEEee
Q psy2977           1 MVDAADTDKLEASR-NELHALIEKPQLIGIPILVLGNKRDLPNAL----------DEKELIDRMNLCAIQDRE-ICCYSI   68 (92)
Q Consensus         1 v~D~s~~~~~~~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~----------~~~~~~~~~~~~~~~~~~-~~~~~~   68 (92)
                      |+|+++++++.... .|+..+....  .+.|+++|+||+|+.+..          +.++..+...     ..+ .++++|
T Consensus        87 v~d~~~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~v~~~~~~~~~~-----~~~~~~~~~~  159 (212)
T 2j0v_A           87 AFSLISKASYENVLKKWMPELRRFA--PNVPIVLVGTKLDLRDDKGYLADHTNVITSTQGEELRK-----QIGAAAYIEC  159 (212)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHC--TTCCEEEEEECHHHHTCHHHHHTCSSCCCHHHHHHHHH-----HHTCSEEEEC
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHhC--CCCCEEEEEeCHHhhhCccccccccCCCCHHHHHHHHH-----HcCCceEEEc
Confidence            58999999999886 6777765432  478999999999986431          2222222211     112 479999


Q ss_pred             ccccCCCHHHHHHHHHHhhhh
Q psy2977          69 SCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        69 SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      ||++|.||+++|++|.+.+.+
T Consensus       160 Sa~~g~gi~~l~~~l~~~~~~  180 (212)
T 2j0v_A          160 SSKTQQNVKAVFDTAIKVVLQ  180 (212)
T ss_dssp             CTTTCTTHHHHHHHHHHHHHC
T ss_pred             cCCCCCCHHHHHHHHHHHHhh
Confidence            999999999999999998864

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.55  E-value=1.4e-14  Score=85.14  Aligned_cols=88  Identities=15%  Similarity=0.184  Sum_probs=58.4

Q ss_pred             CeeCCchhhHHHH-HHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCc---------CCCc-eEEEeec
Q psy2977           1 MVDAADTDKLEAS-RNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAI---------QDRE-ICCYSIS   69 (92)
Q Consensus         1 v~D~s~~~~~~~~-~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~---------~~~~-~~~~~~S   69 (92)
                      |+|++++.++... ..|+..+...  ..++|+++|+||+|+.......+....+.....         ...+ ..+++||
T Consensus       103 v~d~~~~~s~~~~~~~~~~~~~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~S  180 (207)
T 2fv8_A          103 CFSVDSPDSLENIPEKWVPEVKHF--CPNVPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECS  180 (207)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHH--STTCCEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECC
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHh--CCCCCEEEEEEchhhhccccchhhhhhcccCCCCHHHHHHHHHhcCCCEEEEee
Confidence            5799999999888 4566655442  247899999999999643111111110000000         0112 3799999


Q ss_pred             cccCCCHHHHHHHHHHhhhhc
Q psy2977          70 CKERDNIDITLQWLIAHSKSH   90 (92)
Q Consensus        70 A~~~~gi~~~~~~l~~~i~~~   90 (92)
                      |++|.||+++|++|.+.+.+.
T Consensus       181 A~~g~gi~el~~~l~~~i~~~  201 (207)
T 2fv8_A          181 AKTKEGVREVFETATRAALQK  201 (207)
T ss_dssp             TTTCTTHHHHHHHHHHHHHSC
T ss_pred             CCCCCCHHHHHHHHHHHHHHH
Confidence            999999999999999987643

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=99.55  E-value=5e-14  Score=82.95  Aligned_cols=87  Identities=17%  Similarity=0.210  Sum_probs=55.2

Q ss_pred             CeeCCchh-hHHHHHHHHHHhhcC--CCCCCCcEEEEeeCCCCCCCCCHHHHHHhhc-----------------------
Q psy2977           1 MVDAADTD-KLEASRNELHALIEK--PQLIGIPILVLGNKRDLPNALDEKELIDRMN-----------------------   54 (92)
Q Consensus         1 v~D~s~~~-~~~~~~~~~~~~~~~--~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~-----------------------   54 (92)
                      |+|+++.. ++.....++..++..  ....++|+++|+||+|+......+++.+.+.                       
T Consensus        85 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~~s~~~~~~~~  164 (214)
T 2fh5_B           85 VVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAKLIQQQLEKELNTLRVTRSAAPSTLDSSSTA  164 (214)
T ss_dssp             EEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHHCC------------
T ss_pred             EEECCCcCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCCCcccHHHHHHHHHHHHHHHhccchhccccccCCccc
Confidence            57888854 455665666555432  1224689999999999986555443322211                       


Q ss_pred             cCCcC---------C--CceEEEeeccccC------CCHHHHHHHHHHhh
Q psy2977          55 LCAIQ---------D--REICCYSISCKER------DNIDITLQWLIAHS   87 (92)
Q Consensus        55 ~~~~~---------~--~~~~~~~~SA~~~------~gi~~~~~~l~~~i   87 (92)
                      .....         .  ....+++|||++|      .||+++|+||.+.+
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~~~~~~gv~~lf~~l~~~~  214 (214)
T 2fh5_B          165 PAQLGKKGKEFEFSQLPLKVEFLECSAKGGRGDTGSADIQDLEKWLAKIA  214 (214)
T ss_dssp             CCCSSCTTSCCCGGGSSSCEEEEECBCC-------CCBCHHHHHHHHHHC
T ss_pred             cccccCCCCCcccccCCCcEEEEEeeccCCCccccccChHHHHHHHHHhC
Confidence            00000         1  1678999999999      99999999998753

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=99.55  E-value=4.4e-15  Score=85.78  Aligned_cols=83  Identities=11%  Similarity=0.073  Sum_probs=59.6

Q ss_pred             CeeCCchhhHHHH-HHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--------------CCHHHHHHhhccCCcCCCceEE
Q psy2977           1 MVDAADTDKLEAS-RNELHALIEKPQLIGIPILVLGNKRDLPNA--------------LDEKELIDRMNLCAIQDREICC   65 (92)
Q Consensus         1 v~D~s~~~~~~~~-~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--------------~~~~~~~~~~~~~~~~~~~~~~   65 (92)
                      |+|++++.+++.+ ..|+..+...  ..+.|+++|+||+|+.+.              .+.++..+....    ....++
T Consensus        85 v~d~~~~~s~~~~~~~~~~~i~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~----~~~~~~  158 (184)
T 1m7b_A           85 CFDISRPETLDSVLKKWKGEIQEF--CPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQ----IGAATY  158 (184)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHH--CTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHH----HTCSEE
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHH--CCCCCEEEEEEcchhhcchhhHhhhhhcccCCCCHHHHHHHHHH----cCCcEE
Confidence            5899999999888 5676666543  247899999999999632              233333322110    012579


Q ss_pred             Eeeccc-cCCCHHHHHHHHHHhhhh
Q psy2977          66 YSISCK-ERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        66 ~~~SA~-~~~gi~~~~~~l~~~i~~   89 (92)
                      ++|||+ +|.||+++|+++.+.+.+
T Consensus       159 ~e~Sa~~~~~gi~~l~~~i~~~~l~  183 (184)
T 1m7b_A          159 IECSALQSENSVRDIFHVATLACVN  183 (184)
T ss_dssp             EECBTTTBHHHHHHHHHHHHHHHHT
T ss_pred             EEeeecCCCcCHHHHHHHHHHHHhc
Confidence            999999 699999999999998764

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=99.54  E-value=4.1e-15  Score=85.31  Aligned_cols=81  Identities=16%  Similarity=0.123  Sum_probs=58.6

Q ss_pred             CeeCCchhhHHHHH-HHHHHhhcCCCCCCCcEEEEeeCCCCCCCC------------CHHHHHHhhccCCcCCCc-eEEE
Q psy2977           1 MVDAADTDKLEASR-NELHALIEKPQLIGIPILVLGNKRDLPNAL------------DEKELIDRMNLCAIQDRE-ICCY   66 (92)
Q Consensus         1 v~D~s~~~~~~~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~------------~~~~~~~~~~~~~~~~~~-~~~~   66 (92)
                      |+|++++.+++... .|+..+....  .+.|+++|+||+|+.+..            ..++..+...     ..+ .+++
T Consensus        86 v~d~~~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~v~~~~~~~~~~-----~~~~~~~~  158 (182)
T 3bwd_D           86 AFSLISKASYENVSKKWIPELKHYA--PGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKK-----LIGAPAYI  158 (182)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHC--TTCCEEEEEECHHHHTCHHHHHHC--CCCCCHHHHHHHHH-----HHTCSEEE
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHhC--CCCCEEEEEechhhhcCcccccccccCCCCCHHHHHHHHH-----HcCCCEEE
Confidence            58999999998886 5776665432  378999999999986431            2222222111     123 3799


Q ss_pred             eeccccCCCHHHHHHHHHHhhh
Q psy2977          67 SISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        67 ~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      +|||++|.||+++|++|.+.+.
T Consensus       159 ~~Sa~~~~gi~~l~~~l~~~i~  180 (182)
T 3bwd_D          159 ECSSKSQENVKGVFDAAIRVVL  180 (182)
T ss_dssp             ECCTTTCTTHHHHHHHHHHHHS
T ss_pred             EEECCCCCCHHHHHHHHHHHHh
Confidence            9999999999999999998774

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=99.52  E-value=1e-14  Score=85.90  Aligned_cols=83  Identities=11%  Similarity=0.073  Sum_probs=59.6

Q ss_pred             CeeCCchhhHHHH-HHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--------------CCHHHHHHhhccCCcCCCceEE
Q psy2977           1 MVDAADTDKLEAS-RNELHALIEKPQLIGIPILVLGNKRDLPNA--------------LDEKELIDRMNLCAIQDREICC   65 (92)
Q Consensus         1 v~D~s~~~~~~~~-~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--------------~~~~~~~~~~~~~~~~~~~~~~   65 (92)
                      |+|++++.++..+ ..|+..+...  ..+.|+++|+||+|+.+.              .+.++..+....    .....+
T Consensus       106 v~D~~~~~s~~~~~~~~~~~i~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~----~~~~~~  179 (205)
T 1gwn_A          106 CFDISRPETLDSVLKKWKGEIQEF--CPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQ----IGAATY  179 (205)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHH--CTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHH----HTCSEE
T ss_pred             EEECCCHHHHHHHHHHHHHHHHHH--CCCCCEEEEEechhhccchhhhhhhcccccCCCCHHHHHHHHHH----cCCCEE
Confidence            5899999999988 5677666543  247899999999999632              233333222110    012579


Q ss_pred             Eeeccc-cCCCHHHHHHHHHHhhhh
Q psy2977          66 YSISCK-ERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        66 ~~~SA~-~~~gi~~~~~~l~~~i~~   89 (92)
                      ++|||+ +|.||+++|++|.+.+.+
T Consensus       180 ~e~SAk~~~~gv~~lf~~l~~~~l~  204 (205)
T 1gwn_A          180 IECSALQSENSVRDIFHVATLACVN  204 (205)
T ss_dssp             EECCTTTCHHHHHHHHHHHHHHHHH
T ss_pred             EEeeeccCCcCHHHHHHHHHHHHhh
Confidence            999999 689999999999988764

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=99.51  E-value=1.3e-14  Score=86.55  Aligned_cols=84  Identities=14%  Similarity=0.008  Sum_probs=55.5

Q ss_pred             CeeCCchhhHH--HHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHH---HHHHhhccCCcCCCceEEEeeccccC
Q psy2977           1 MVDAADTDKLE--ASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEK---ELIDRMNLCAIQDREICCYSISCKER   73 (92)
Q Consensus         1 v~D~s~~~~~~--~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~---~~~~~~~~~~~~~~~~~~~~~SA~~~   73 (92)
                      |+|++++.++.  ....|+..+...  ..++|+++|+||+|+.+..  ...   .......   .....+.+++|||++|
T Consensus       115 v~d~~~~~s~~~~~~~~~~~~l~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~SA~~g  189 (228)
T 2qu8_A          115 IIDISEQCGLTIKEQINLFYSIKSV--FSNKSIVIGFNKIDKCNMDSLSIDNKLLIKQILD---NVKNPIKFSSFSTLTG  189 (228)
T ss_dssp             EEETTCTTSSCHHHHHHHHHHHHTC--C-CCCEEEEEECGGGCC--CCCHHHHHHHHHHHH---HCCSCEEEEECCTTTC
T ss_pred             EEecccccCcchHHHHHHHHHHHHh--hcCCcEEEEEeCcccCCchhhHHHHHHHHHHHHH---hcCCCceEEEEecccC
Confidence            57998877654  233566665433  2478999999999997532  222   1111111   0111278999999999


Q ss_pred             CCHHHHHHHHHHhhhh
Q psy2977          74 DNIDITLQWLIAHSKS   89 (92)
Q Consensus        74 ~gi~~~~~~l~~~i~~   89 (92)
                      .||+++|++|.+.+.+
T Consensus       190 ~gi~~l~~~l~~~i~~  205 (228)
T 2qu8_A          190 VGVEQAKITACELLKN  205 (228)
T ss_dssp             TTHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHH
Confidence            9999999999998864

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.51  E-value=2.2e-14  Score=82.99  Aligned_cols=62  Identities=15%  Similarity=0.109  Sum_probs=42.9

Q ss_pred             CCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          28 GIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      +.|+++|+||+|+.+........+...........++++++||++|.||+++|+||.+.+.+
T Consensus       133 ~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~l~~  194 (195)
T 3pqc_A          133 NIPFTIVLTKMDKVKMSERAKKLEEHRKVFSKYGEYTIIPTSSVTGEGISELLDLISTLLKE  194 (195)
T ss_dssp             TCCEEEEEECGGGSCGGGHHHHHHHHHHHHHSSCCSCEEECCTTTCTTHHHHHHHHHHHHC-
T ss_pred             CCCEEEEEEChhcCChHHHHHHHHHHHHHHhhcCCCceEEEecCCCCCHHHHHHHHHHHhhc
Confidence            58999999999997543333222221100001134679999999999999999999998865

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=99.51  E-value=9.5e-15  Score=85.23  Aligned_cols=84  Identities=13%  Similarity=0.132  Sum_probs=57.4

Q ss_pred             CeeCCch--hhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC----CHHHHH----HhhccCCcCCCceEEEeecc
Q psy2977           1 MVDAADT--DKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL----DEKELI----DRMNLCAIQDREICCYSISC   70 (92)
Q Consensus         1 v~D~s~~--~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~----~~~~~~----~~~~~~~~~~~~~~~~~~SA   70 (92)
                      |+|++++  +++.....|+.++...  ..+.|+++|+||+|+.+..    ...++.    +.+........++.+++|||
T Consensus       102 v~d~~~~~~~~~~~~~~~l~~~~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~e~Sa  179 (196)
T 3llu_A          102 VIDAQDDYMEALTRLHITVSKAYKV--NPDMNFEVFIHKVDGLSDDHKIETQRDIHQRANDDLADAGLEKLHLSFYLTSI  179 (196)
T ss_dssp             EEETTSCCHHHHHHHHHHHHHHHHH--CTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHHTTCTTSCEEEEEECT
T ss_pred             EEECCCchHHHHHHHHHHHHHHHhc--CCCCcEEEEEeccccCchhhhhHHHhHHHHHHHHHHHHhhhhcCCcceEEEEe
Confidence            5799986  6677777777776432  2479999999999986421    011121    11111111145678999999


Q ss_pred             ccCCCHHHHHHHHHHhh
Q psy2977          71 KERDNIDITLQWLIAHS   87 (92)
Q Consensus        71 ~~~~gi~~~~~~l~~~i   87 (92)
                      ++ .||+++|++|++.+
T Consensus       180 ~~-~~v~~~f~~l~~~l  195 (196)
T 3llu_A          180 YD-HSIFEAFSKVVQKL  195 (196)
T ss_dssp             TS-THHHHHHHHHHHHT
T ss_pred             ch-hhHHHHHHHHHHHh
Confidence            99 99999999999875

>1cip_A Protein (guanine nucleotide-binding protein alpha-1 subunit); GTPase, hydrolase; HET: GNP; 1.50A {Rattus norvegicus} SCOP: a.66.1.1 c.37.1.8 PDB: 1agr_A* 1bof_A* 1gdd_A* 1gfi_A* 1gia_A* 1gp2_A* 3ffa_A* 3ffb_A* 1gg2_A* 1git_A* 1svs_A* 1svk_A* 2zjz_A* 2zjy_A* 3ums_A* 2pz2_A* 2pz3_A* 1as0_A* 1as2_A* 1as3_A* ...

Probab=99.51  E-value=1.4e-14  Score=91.72  Aligned_cols=90  Identities=14%  Similarity=0.190  Sum_probs=67.6

Q ss_pred             CeeCCc----------hhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC-----------------CCCHHHHHHhh
Q psy2977           1 MVDAAD----------TDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN-----------------ALDEKELIDRM   53 (92)
Q Consensus         1 v~D~s~----------~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~-----------------~~~~~~~~~~~   53 (92)
                      |+|+++          .+++.++..|+..+..+....+.|++|++||+|+..                 ..+.++..+.+
T Consensus       223 V~dls~~d~~l~ed~~~nr~~e~~~~~~~i~~~~~~~~~piiLv~NK~DL~~~ki~~~~l~~~fp~~~g~~~~~e~~~~~  302 (353)
T 1cip_A          223 CVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYI  302 (353)
T ss_dssp             EEEGGGGGCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHHTTSCGGGTCTTCCSCSCHHHHHHHH
T ss_pred             EEECccccccccccchhhhHHHHHHHHHHHHcCccccCCcEEEEEECcCchhhhccccchhhcccccCCCCCHHHHHHHH
Confidence            578888          578999999999998765556899999999999841                 23444444433


Q ss_pred             c-----cCCc-CCCceEEEeeccccCCCHHHHHHHHHHhhhhc
Q psy2977          54 N-----LCAI-QDREICCYSISCKERDNIDITLQWLIAHSKSH   90 (92)
Q Consensus        54 ~-----~~~~-~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~~   90 (92)
                      .     +... ..+++.+++|||++|.||+++|.++.+.+.++
T Consensus       303 ~~~f~~l~~~~~~~~~~~~etSA~~~~nV~~vF~~v~~~i~~~  345 (353)
T 1cip_A          303 QCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVIIKN  345 (353)
T ss_dssp             HHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcccCCCceEEEEEECcCchhHHHHHHHHHHHHHHH
Confidence            2     1110 13568899999999999999999999988653

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=99.50  E-value=1.7e-14  Score=91.68  Aligned_cols=89  Identities=16%  Similarity=0.210  Sum_probs=66.3

Q ss_pred             CeeCCc----------hhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC-----------------C-CCHHHHHHh
Q psy2977           1 MVDAAD----------TDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN-----------------A-LDEKELIDR   52 (92)
Q Consensus         1 v~D~s~----------~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~-----------------~-~~~~~~~~~   52 (92)
                      |+|+++          .+++.++..|+..+.++....+.|++|++||+|+..                 . .+.++....
T Consensus       231 v~dls~~dq~l~ed~~~n~~~es~~~~~~i~~~~~~~~~piILv~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~~e~~~~  310 (362)
T 1zcb_A          231 LVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKF  310 (362)
T ss_dssp             EEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHH
T ss_pred             EEECccccccccccccccHHHHHHHHHHHHhcchhhCCCCEEEEEEChhhhhhhccccchhhcCccccCCCCCHHHHHHH
Confidence            578888          789999999999998765456899999999999852                 1 344554443


Q ss_pred             h-----ccCCcC-CCceEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          53 M-----NLCAIQ-DREICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        53 ~-----~~~~~~-~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      +     .+.... .+++.+++|||++|+||+++|.++.+.+.+
T Consensus       311 ~~~~f~~l~~~~~~~~~~~~~tSA~d~~nV~~vF~~v~~~i~~  353 (362)
T 1zcb_A          311 LVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTILH  353 (362)
T ss_dssp             HHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcccCCCceEEEEEecCCchhHHHHHHHHHHHHHH
Confidence            2     222111 346789999999999999999999998864

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=99.49  E-value=1.6e-14  Score=83.53  Aligned_cols=84  Identities=13%  Similarity=0.238  Sum_probs=59.1

Q ss_pred             CeeCCch-hhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHH----HHHHhhccCCcCCCce----EEEeeccc
Q psy2977           1 MVDAADT-DKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEK----ELIDRMNLCAIQDREI----CCYSISCK   71 (92)
Q Consensus         1 v~D~s~~-~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~----~~~~~~~~~~~~~~~~----~~~~~SA~   71 (92)
                      |+|++++ .++.....|+.++....  .+.|+++|+||+|+.......    +..+.+.    ...++    .++++||+
T Consensus        86 v~d~~~~~~s~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~Sa~  159 (184)
T 2zej_A           86 VYDLSKGQAEVDAMKPWLFNIKARA--SSSPVILVGTHLDVSDEKQRKACMSKITKELL----NKRGFPAIRDYHFVNAT  159 (184)
T ss_dssp             EEEGGGCHHHHHTHHHHHHHHHHHC--TTCEEEEEEECGGGCCHHHHHHHHHHHHHHTT----TCTTSCEEEEEEECCTT
T ss_pred             EEeCCcchhHHHHHHHHHHHHHhhC--CCCcEEEEEECCCcccchhhHHHHHHHHHHHH----HhcCCcchhheEEEecc
Confidence            5799887 47888888988876532  468999999999997432211    1112221    11223    48999999


Q ss_pred             cCC-CHHHHHHHHHHhhhhc
Q psy2977          72 ERD-NIDITLQWLIAHSKSH   90 (92)
Q Consensus        72 ~~~-gi~~~~~~l~~~i~~~   90 (92)
                      +|. |++++++.|.+.+.+.
T Consensus       160 ~~~~~~~~l~~~i~~~~~~~  179 (184)
T 2zej_A          160 EESDALAKLRKTIINESLNF  179 (184)
T ss_dssp             SCCHHHHHHHHHHHHHHHCC
T ss_pred             cCchhHHHHHHHHHHHHhcc
Confidence            997 9999999999888653

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=99.49  E-value=6.9e-14  Score=81.08  Aligned_cols=79  Identities=16%  Similarity=0.164  Sum_probs=53.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHH----HHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEK----ELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~----~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      |+|++++.++...  ++...+..   .+.|+++|+||+|+.+.....    ++.+.++    .....+++++||++|.|+
T Consensus       112 v~d~~~~~~~~~~--~~~~~~~~---~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~----~~~~~~~~~~Sa~~~~gv  182 (195)
T 1svi_A          112 IVDLRHAPSNDDV--QMYEFLKY---YGIPVIVIATKADKIPKGKWDKHAKVVRQTLN----IDPEDELILFSSETKKGK  182 (195)
T ss_dssp             EEETTSCCCHHHH--HHHHHHHH---TTCCEEEEEECGGGSCGGGHHHHHHHHHHHHT----CCTTSEEEECCTTTCTTH
T ss_pred             EEECCCCCCHHHH--HHHHHHHH---cCCCEEEEEECcccCChHHHHHHHHHHHHHHc----ccCCCceEEEEccCCCCH
Confidence            4788876665543  12222222   368999999999997543332    2333232    123578999999999999


Q ss_pred             HHHHHHHHHhhh
Q psy2977          77 DITLQWLIAHSK   88 (92)
Q Consensus        77 ~~~~~~l~~~i~   88 (92)
                      +++|++|.+.+.
T Consensus       183 ~~l~~~l~~~l~  194 (195)
T 1svi_A          183 DEAWGAIKKMIN  194 (195)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhc
Confidence            999999998875

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=99.48  E-value=1.1e-14  Score=84.07  Aligned_cols=90  Identities=17%  Similarity=0.131  Sum_probs=55.5

Q ss_pred             CeeCCchhhHHHH-HHHHHH--------hhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeec
Q psy2977           1 MVDAADTDKLEAS-RNELHA--------LIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSIS   69 (92)
Q Consensus         1 v~D~s~~~~~~~~-~~~~~~--------~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~S   69 (92)
                      |+|+.|..++... ..|...        +.......++|+++|+||+|+....  ..+++...++.. .......+++||
T Consensus        86 v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~S  164 (190)
T 2cxx_A           86 AVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKNVQEVINFLAEKFEVP-LSEIDKVFIPIS  164 (190)
T ss_dssp             EEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSCHHHHHHHHHHHHTCC-GGGHHHHEEECC
T ss_pred             EEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCceEEEeehHhccCcHHHHHHHHHHHhhhh-hhccCCcEEEEe
Confidence            3566777777665 334321        1111111468999999999997543  122333333321 001123589999


Q ss_pred             cccCCCHHHHHHHHHHhhhhcC
Q psy2977          70 CKERDNIDITLQWLIAHSKSHT   91 (92)
Q Consensus        70 A~~~~gi~~~~~~l~~~i~~~~   91 (92)
                      |++|.||+++|++|.+.+.+..
T Consensus       165 a~~~~~v~~l~~~l~~~~~~~~  186 (190)
T 2cxx_A          165 AKFGDNIERLKNRIFEVIRERQ  186 (190)
T ss_dssp             TTTCTTHHHHHHHHHHHHHHC-
T ss_pred             cCCCCCHHHHHHHHHHhcchhh
Confidence            9999999999999999987643

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens}

Probab=99.20  E-value=4.1e-15  Score=87.13  Aligned_cols=85  Identities=14%  Similarity=0.143  Sum_probs=56.2

Q ss_pred             CeeCCchhhHHHHH-HHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHH---------HHHHhhccCCcCCCce-EEEeec
Q psy2977           1 MVDAADTDKLEASR-NELHALIEKPQLIGIPILVLGNKRDLPNALDEK---------ELIDRMNLCAIQDREI-CCYSIS   69 (92)
Q Consensus         1 v~D~s~~~~~~~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~---------~~~~~~~~~~~~~~~~-~~~~~S   69 (92)
                      |+|++++.++.... .|+..+...  ..++|+++|+||+|+.+.....         .+............+. ++++||
T Consensus       108 v~D~~~~~s~~~~~~~~~~~l~~~--~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~vS  185 (204)
T 3th5_A          108 CFSLVSPASFENVRAKWYPEVRHH--CPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECS  185 (204)
Confidence            67999999998876 566555432  2378999999999996432110         0100000000112233 789999


Q ss_pred             cccCCCHHHHHHHHHHhh
Q psy2977          70 CKERDNIDITLQWLIAHS   87 (92)
Q Consensus        70 A~~~~gi~~~~~~l~~~i   87 (92)
                      |++|.||+++|++|.+.+
T Consensus       186 A~~g~gi~~l~~~l~~~i  203 (204)
T 3th5_A          186 ALTQRGLKTVFDEAIRAV  203 (204)
Confidence            999999999999998764

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A*

Probab=99.46  E-value=6.5e-14  Score=86.95  Aligned_cols=82  Identities=11%  Similarity=0.116  Sum_probs=58.9

Q ss_pred             CeeCCchhhHHHHH-HHHHHhhcCCCCCCCcEEEEeeCCCCCCC--------------CCHHHHHHhhccCCcCCCc-eE
Q psy2977           1 MVDAADTDKLEASR-NELHALIEKPQLIGIPILVLGNKRDLPNA--------------LDEKELIDRMNLCAIQDRE-IC   64 (92)
Q Consensus         1 v~D~s~~~~~~~~~-~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--------------~~~~~~~~~~~~~~~~~~~-~~   64 (92)
                      |+|++++.++.... .|+..+....  .++|+++|+||+|+...              .+.++......     ..+ .+
T Consensus       233 v~d~~~~~s~~~~~~~~~~~~~~~~--~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~-----~~~~~~  305 (332)
T 2wkq_A          233 CFSLVSPASFHHVRAKWYPEVRHHC--PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAK-----EIGAVK  305 (332)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHC--TTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHH-----HTTCSE
T ss_pred             EEeCCCHHHHHHHHHHHHHHHHhhC--CCCcEEEEEEchhcccccchhhhccccccccccHHHHHHHHH-----HcCCcE
Confidence            58999999998886 5666665432  37899999999998642              11222222111     123 37


Q ss_pred             EEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          65 CYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        65 ~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      +++|||++|.||+++|++|.+.+..
T Consensus       306 ~~~~Sa~~~~gi~~l~~~l~~~~~~  330 (332)
T 2wkq_A          306 YLECSALTQRGLKTVFDEAIRAVLC  330 (332)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             EEEecCCCCcCHHHHHHHHHHHHhc
Confidence            9999999999999999999988764

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=99.46  E-value=5e-14  Score=87.48  Aligned_cols=79  Identities=14%  Similarity=0.048  Sum_probs=55.4

Q ss_pred             CeeCCchh-hHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTD-KLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~-~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|++++. +++....|+..+..    .++|+++|+||+||.+....++..+.....  ... +.+++|||++|.||+++
T Consensus        91 V~D~~~~~~s~~~l~~~l~~~~~----~~~piilv~NK~DL~~~~~v~~~~~~~~~~--~~~-~~~~~~SAktg~gv~~l  163 (301)
T 1u0l_A           91 VVTVKMPETSTYIIDKFLVLAEK----NELETVMVINKMDLYDEDDLRKVRELEEIY--SGL-YPIVKTSAKTGMGIEEL  163 (301)
T ss_dssp             EECSSTTCCCHHHHHHHHHHHHH----TTCEEEEEECCGGGCCHHHHHHHHHHHHHH--TTT-SCEEECCTTTCTTHHHH
T ss_pred             EEeCCCCCCCHHHHHHHHHHHHH----CCCCEEEEEeHHHcCCchhHHHHHHHHHHH--hhh-CcEEEEECCCCcCHHHH
Confidence            58999887 67777788876643    368999999999996432211222222111  112 67999999999999999


Q ss_pred             HHHHHHh
Q psy2977          80 LQWLIAH   86 (92)
Q Consensus        80 ~~~l~~~   86 (92)
                      |.++...
T Consensus       164 f~~l~ge  170 (301)
T 1u0l_A          164 KEYLKGK  170 (301)
T ss_dssp             HHHHSSS
T ss_pred             HHHhcCC
Confidence            9988654

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=99.45  E-value=1.5e-14  Score=83.08  Aligned_cols=77  Identities=19%  Similarity=0.256  Sum_probs=53.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++.+++. ..|+..+.... ..++|+++|+||+|+.+...        ..  ......++++|||++|.||+++|
T Consensus        90 v~D~~~~~s~~~-~~~~~~~~~~~-~~~~p~ilv~NK~Dl~~~~~--------~~--~~~~~~~~~~~SA~~g~gv~~l~  157 (172)
T 2gj8_A           90 MVDGTTTDAVDP-AEIWPEFIARL-PAKLPITVVRNKADITGETL--------GM--SEVNGHALIRLSARTGEGVDVLR  157 (172)
T ss_dssp             EEETTTCCCCSH-HHHCHHHHHHS-CTTCCEEEEEECHHHHCCCC--------EE--EEETTEEEEECCTTTCTTHHHHH
T ss_pred             EEECCCCCCHHH-HHHHHHHHHhc-ccCCCEEEEEECccCCcchh--------hh--hhccCCceEEEeCCCCCCHHHHH
Confidence            578888777653 35665555432 24689999999999853210        00  11235689999999999999999


Q ss_pred             HHHHHhhhh
Q psy2977          81 QWLIAHSKS   89 (92)
Q Consensus        81 ~~l~~~i~~   89 (92)
                      ++|.+.+..
T Consensus       158 ~~l~~~~~~  166 (172)
T 2gj8_A          158 NHLKQSMGF  166 (172)
T ss_dssp             HHHHHHC--
T ss_pred             HHHHHHhhh
Confidence            999988754

>1lnz_A SPO0B-associated GTP-binding protein; GTPase, OBG, stringent factor, stress response, sporulation, large G-protein, structural genomics, PSI; HET: G4P; 2.60A {Bacillus subtilis} SCOP: b.117.1.1 c.37.1.8

Probab=99.43  E-value=1.2e-13  Score=87.12  Aligned_cols=84  Identities=18%  Similarity=0.290  Sum_probs=61.1

Q ss_pred             CeeCCc---hhhHHHHHHHHHHhhcCC-CCCCCcEEEEeeCCCCCCCCC-HHHHHHhhccCCcCCCceEEEeeccccCCC
Q psy2977           1 MVDAAD---TDKLEASRNELHALIEKP-QLIGIPILVLGNKRDLPNALD-EKELIDRMNLCAIQDREICCYSISCKERDN   75 (92)
Q Consensus         1 v~D~s~---~~~~~~~~~~~~~~~~~~-~~~~~p~ilv~NK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~~~~SA~~~~g   75 (92)
                      |+|+++   +.+++....|+.++.... ...++|+++|+||+|++.... .+++.+.+.      ...+++++||++++|
T Consensus       243 VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~Dl~~~~e~~~~l~~~l~------~~~~v~~iSA~tg~g  316 (342)
T 1lnz_A          243 VIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAAENLEAFKEKLT------DDYPVFPISAVTREG  316 (342)
T ss_dssp             EEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHHHHHHHHHHHCC------SCCCBCCCSSCCSST
T ss_pred             EEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECccCCCCHHHHHHHHHHhh------cCCCEEEEECCCCcC
Confidence            579988   778888777777776532 246799999999999974211 122333221      115689999999999


Q ss_pred             HHHHHHHHHHhhhhc
Q psy2977          76 IDITLQWLIAHSKSH   90 (92)
Q Consensus        76 i~~~~~~l~~~i~~~   90 (92)
                      +++++++|.+.+.+.
T Consensus       317 i~eL~~~l~~~l~~~  331 (342)
T 1lnz_A          317 LRELLFEVANQLENT  331 (342)
T ss_dssp             THHHHHHHHHHHTSC
T ss_pred             HHHHHHHHHHHHhhC
Confidence            999999999998754

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

Probab=99.43  E-value=7.5e-13  Score=75.54  Aligned_cols=85  Identities=19%  Similarity=0.302  Sum_probs=54.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCc--CC--CceEEEeeccccCCCH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAI--QD--REICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~--~~--~~~~~~~~SA~~~~gi   76 (92)
                      |+|++++... .....+..+..    .++|+++|+||+|+... ..+++...+.....  ..  ...++++|||++|.|+
T Consensus        85 v~d~~~~~~~-~~~~~l~~~~~----~~~p~ilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv  158 (178)
T 2lkc_A           85 VVAADDGVMP-QTVEAINHAKA----ANVPIIVAINKMDKPEA-NPDRVMQELMEYNLVPEEWGGDTIFCKLSAKTKEGL  158 (178)
T ss_dssp             EEETTCCCCH-HHHHHHHHHGG----GSCCEEEEEETTTSSCS-CHHHHHHHHTTTTCCBTTTTSSEEEEECCSSSSHHH
T ss_pred             EEECCCCCcH-HHHHHHHHHHh----CCCCEEEEEECccCCcC-CHHHHHHHHHhcCcChhHcCCcccEEEEecCCCCCH
Confidence            4677763221 11223333321    36899999999999753 33444443322111  11  1368999999999999


Q ss_pred             HHHHHHHHHhhhhcC
Q psy2977          77 DITLQWLIAHSKSHT   91 (92)
Q Consensus        77 ~~~~~~l~~~i~~~~   91 (92)
                      +++|++|.+.+...+
T Consensus       159 ~~l~~~l~~~~~~~~  173 (178)
T 2lkc_A          159 DHLLEMILLVSEMEE  173 (178)
T ss_dssp             HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhhhhhc
Confidence            999999999886543

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.41  E-value=2.4e-13  Score=86.00  Aligned_cols=82  Identities=20%  Similarity=0.244  Sum_probs=58.6

Q ss_pred             CeeCCchh--hHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTD--KLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~--~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.  ++.....|+..+....  .+.|+++|+||+|+......++....+.     ..+.++++|||++|+||++
T Consensus       253 V~D~s~~~~~~~~~~~~~~~~i~~~~--~~~piilV~NK~Dl~~~~~~~~~~~~~~-----~~~~~~~~iSA~~g~gi~~  325 (357)
T 2e87_A          253 IFDPSEHCGFPLEEQIHLFEEVHGEF--KDLPFLVVINKIDVADEENIKRLEKFVK-----EKGLNPIKISALKGTGIDL  325 (357)
T ss_dssp             EECTTCTTSSCHHHHHHHHHHHHHHT--TTSCEEEEECCTTTCCHHHHHHHHHHHH-----HTTCCCEECBTTTTBTHHH
T ss_pred             EEeCCccccCCHHHHHHHHHHHHHhc--CCCCEEEEEECcccCChHHHHHHHHHHH-----hcCCCeEEEeCCCCcCHHH
Confidence            57888766  6676677777776532  2789999999999974322222222221     2245689999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      ++++|.+.+..
T Consensus       326 l~~~i~~~l~~  336 (357)
T 2e87_A          326 VKEEIIKTLRP  336 (357)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999988754

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=99.39  E-value=4.3e-14  Score=80.44  Aligned_cols=73  Identities=22%  Similarity=0.258  Sum_probs=50.8

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--C--CHHHHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--L--DEKELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      |+|+++.++.   ..|+.++..    .++|+++|+||+|+...  .  ..+.+.+.+        +++++++||++|.||
T Consensus        88 v~D~~~~~~~---~~~~~~~~~----~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~--------~~~~~~~SA~~~~~v  152 (165)
T 2wji_A           88 IVDATALERN---LYLTLQLME----MGANLLLALNKMDLAKSLGIEIDVDKLEKIL--------GVKVVPLSAAKKMGI  152 (165)
T ss_dssp             EEETTCHHHH---HHHHHHHHH----TTCCEEEEEECHHHHHHTTCCCCHHHHHHHH--------TSCEEECBGGGTBSH
T ss_pred             EecCCchhHh---HHHHHHHHh----cCCCEEEEEEchHhccccChhhHHHHHHHHh--------CCCEEEEEcCCCCCH
Confidence            4677765433   346666543    25899999999998531  1  122333322        356899999999999


Q ss_pred             HHHHHHHHHhhh
Q psy2977          77 DITLQWLIAHSK   88 (92)
Q Consensus        77 ~~~~~~l~~~i~   88 (92)
                      +++|++|.+.++
T Consensus       153 ~~l~~~l~~~~~  164 (165)
T 2wji_A          153 EELKKAISIAVK  164 (165)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhh
Confidence            999999998774

>2xtz_A Guanine nucleotide-binding protein alpha-1 subuni; hydrolase, G-protein signaling, SELF-activation, RAS-like DO; HET: GSP; 2.34A {Arabidopsis thaliana}

Probab=99.38  E-value=1.1e-13  Score=87.74  Aligned_cols=84  Identities=10%  Similarity=0.162  Sum_probs=59.0

Q ss_pred             chhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC----CC-------------------HHHHHHhhcc-------
Q psy2977           6 DTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA----LD-------------------EKELIDRMNL-------   55 (92)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~----~~-------------------~~~~~~~~~~-------   55 (92)
                      +.++|+++..|+..+..+....+.|++|++||+|+...    .+                   .++..+.+..       
T Consensus       228 ~~~s~~~~~~~~~~i~~~~~~~~~piiLvgNK~DL~~~k~~~v~l~~~~~fp~y~~~~~~~~~~~~a~~~~~~~f~~l~~  307 (354)
T 2xtz_A          228 QKNRMMETKELFDWVLKQPCFEKTSFMLFLNKFDIFEKKVLDVPLNVCEWFRDYQPVSSGKQEIEHAYEFVKKKFEELYY  307 (354)
T ss_dssp             TSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHHHHTTTSCGGGSGGGTTCCCCSSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHhccccCCCeEEEEEECcchhhhhcccccccccccccccccccCCCcCHHHHHHHHHHHHHHhhh
Confidence            78899999999999987644567999999999998421    11                   1222221110       


Q ss_pred             -CC---cCCCceEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          56 -CA---IQDREICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        56 -~~---~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                       ..   ...+.+.+++|||++|.||+++|.++.+.+.+
T Consensus       308 ~~~~~~~~~~~~~~~eTSA~d~~nV~~vF~~v~~~I~~  345 (354)
T 2xtz_A          308 QNTAPDRVDRVFKIYRTTALDQKLVKKTFKLVDETLRR  345 (354)
T ss_dssp             HTCCTTTTTSCEEEEECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             ccccccccCcceEEEEEEeecchhHHHHHHHHHHHHHH
Confidence             00   00234667899999999999999999998764

>3ohm_A Guanine nucleotide-binding protein G(Q) subunit A; PH domain, EF hand, TIM barrel, C2 domain, GTPase, lipase, C binding, GTP binding; HET: GDP; 2.70A {Mus musculus} PDB: 2bcj_Q* 2rgn_A* 3ah8_A*

Probab=99.37  E-value=6.7e-13  Score=83.34  Aligned_cols=88  Identities=16%  Similarity=0.248  Sum_probs=65.8

Q ss_pred             eCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC------------------CCCHHHHHHhh-----ccCCcC
Q psy2977           3 DAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN------------------ALDEKELIDRM-----NLCAIQ   59 (92)
Q Consensus         3 D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~------------------~~~~~~~~~~~-----~~~~~~   59 (92)
                      |.++.+++.++..|+..+..+....+.|++|++||+|+..                  ..+.++..+.+     .+....
T Consensus       209 d~~~~nr~~es~~~~~~i~~~~~~~~~~iiL~~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~e~a~~fi~~~F~~~~~~~  288 (327)
T 3ohm_A          209 ESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDS  288 (327)
T ss_dssp             SCTTSBHHHHHHHHHHHHHTSGGGTTCEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSCHHHHHHHHHHHHHSSCTTT
T ss_pred             ccccHhHHHHHHHHHHHHhhhhccCCceEEEEEECchhhhhhhccchHhhhchhccCCCCCHHHHHHHHHHHHHhhcccc
Confidence            5557889999999999998876567899999999999843                  12333333321     122123


Q ss_pred             CCceEEEeeccccCCCHHHHHHHHHHhhhhc
Q psy2977          60 DREICCYSISCKERDNIDITLQWLIAHSKSH   90 (92)
Q Consensus        60 ~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~~   90 (92)
                      .+++.+++|||+++.||+.+|..+.+.+.++
T Consensus       289 ~~~i~~~~TsA~d~~nV~~vF~~v~~~Il~~  319 (327)
T 3ohm_A          289 DKIIYSHFTCATDTENIRFVFAAVKDTILQL  319 (327)
T ss_dssp             TSCEEEEECCTTCHHHHHHHHHHHHHHHHHT
T ss_pred             cCCcEEEEEEeecCHHHHHHHHHHHHHHHHH
Confidence            4567889999999999999999999988654

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.35  E-value=8.3e-13  Score=78.04  Aligned_cols=84  Identities=15%  Similarity=0.097  Sum_probs=51.3

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHH----HHHHhhccCC--cCCCceEEEeeccccCC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEK----ELIDRMNLCA--IQDREICCYSISCKERD   74 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~----~~~~~~~~~~--~~~~~~~~~~~SA~~~~   74 (92)
                      |+|+++..+. ....++..+..    .++|+++|+||+|+.......    .+.+.+....  ......+++++||++|.
T Consensus       122 v~d~~~~~~~-~~~~~~~~l~~----~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~SA~~g~  196 (223)
T 4dhe_A          122 MMDARRPLTE-LDRRMIEWFAP----TGKPIHSLLTKCDKLTRQESINALRATQKSLDAYRDAGYAGKLTVQLFSALKRT  196 (223)
T ss_dssp             EEETTSCCCH-HHHHHHHHHGG----GCCCEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHHTCCSCEEEEEEBTTTTB
T ss_pred             EEeCCCCCCH-HHHHHHHHHHh----cCCCEEEEEeccccCChhhHHHHHHHHHHHHHhhhhcccCCCCeEEEeecCCCc
Confidence            4677754321 11233333332    368999999999997432211    1122221000  00245789999999999


Q ss_pred             CHHHHHHHHHHhhhh
Q psy2977          75 NIDITLQWLIAHSKS   89 (92)
Q Consensus        75 gi~~~~~~l~~~i~~   89 (92)
                      ||+++|++|.+.+..
T Consensus       197 gv~~l~~~l~~~~~~  211 (223)
T 4dhe_A          197 GLDDAHALIESWLRP  211 (223)
T ss_dssp             SHHHHHHHHHHHHC-
T ss_pred             CHHHHHHHHHHhcCc
Confidence            999999999998864

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.34  E-value=1.6e-12  Score=81.61  Aligned_cols=86  Identities=14%  Similarity=0.122  Sum_probs=53.8

Q ss_pred             CeeCCch--hhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCH----HHHHHhhccCCcC----CCceEEEeecc
Q psy2977           1 MVDAADT--DKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDE----KELIDRMNLCAIQ----DREICCYSISC   70 (92)
Q Consensus         1 v~D~s~~--~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~----~~~~~~~~~~~~~----~~~~~~~~~SA   70 (92)
                      |||++++  +.+.....|+.++...  .+++|+++++||+|+......    .++....+.....    ..+..+++|||
T Consensus        79 V~Ditd~~~~~~~~l~~~l~~~~~~--~~~ipillvgNK~DL~~~~~R~~~~R~V~~~~~~~la~~~~~~~~i~f~eTSA  156 (331)
T 3r7w_B           79 VIDSQDEYINAITNLAMIIEYAYKV--NPSINIEVLIHKVDGLSEDFKVDAQRDIMQRTGEELLELGLDGVQVSFYLTSI  156 (331)
T ss_dssp             ECCCSSCTTHHHHHHHHHHHHHHHH--CTTCEEEEECCCCCSSCSHHHHHHHHHHHHHHHHTTSSSSCSCCCEEEECCCS
T ss_pred             EEECCchHHHHHHHHHHHHHHHhhc--CCCCcEEEEEECcccCchhhhhhHHHHhhHHHHHHHHhhcccccCceEEEecc
Confidence            5799987  2222223334433322  257999999999999743211    2233322211112    24689999999


Q ss_pred             ccCCCHHHHHHHHHHhhhh
Q psy2977          71 KERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        71 ~~~~gi~~~~~~l~~~i~~   89 (92)
                      ++ .||.++|..+++.+.+
T Consensus       157 kd-~nV~eAFs~iv~~li~  174 (331)
T 3r7w_B          157 FD-HSIYEAFSRIVQKLIP  174 (331)
T ss_dssp             SS-SHHHHHHHHHHTTSST
T ss_pred             CC-CcHHHHHHHHHHHHHh
Confidence            98 5999999999988754

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.34  E-value=4.2e-13  Score=75.42  Aligned_cols=74  Identities=16%  Similarity=0.150  Sum_probs=48.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCce-EEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREI-CCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~~~~~SA~~~~gi~~~   79 (92)
                      |+|++++.+..  ..++.+.+..   .+.|+++|+||+|+.+.  .+++.+..      ..+. +++++||++|.|++++
T Consensus        86 v~d~~~~~~~~--~~~~~~~~~~---~~~p~ilv~nK~Dl~~~--~~~~~~~~------~~~~~~~~~~Sa~~~~gv~~l  152 (161)
T 2dyk_A           86 AVDGRAELTQA--DYEVAEYLRR---KGKPVILVATKVDDPKH--ELYLGPLY------GLGFGDPIPTSSEHARGLEEL  152 (161)
T ss_dssp             EEESSSCCCHH--HHHHHHHHHH---HTCCEEEEEECCCSGGG--GGGCGGGG------GGSSCSCEECBTTTTBSHHHH
T ss_pred             EEECCCcccHh--HHHHHHHHHh---cCCCEEEEEECcccccc--hHhHHHHH------hCCCCCeEEEecccCCChHHH
Confidence            46777643322  2344444432   36899999999999643  11221111      1223 5899999999999999


Q ss_pred             HHHHHHhh
Q psy2977          80 LQWLIAHS   87 (92)
Q Consensus        80 ~~~l~~~i   87 (92)
                      |++|.+.+
T Consensus       153 ~~~l~~~l  160 (161)
T 2dyk_A          153 LEAIWERL  160 (161)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHHhC
Confidence            99998875

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=99.32  E-value=1e-12  Score=81.69  Aligned_cols=77  Identities=18%  Similarity=0.123  Sum_probs=54.3

Q ss_pred             CeeCCchh-hHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCC---HHHHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAADTD-KLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALD---EKELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~-~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~---~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      |+|++++. ++..+..|+..+..    .++|+++|+||+|+.+...   .++..+.+.     ..+++++++||++|.|+
T Consensus        86 V~d~~~p~~s~~~l~~~l~~~~~----~~~~~ilV~NK~DL~~~~~v~~~~~~~~~~~-----~~g~~~~~~SA~~g~gi  156 (302)
T 2yv5_A           86 VETLKMPEFNNYLLDNMLVVYEY----FKVEPVIVFNKIDLLNEEEKKELERWISIYR-----DAGYDVLKVSAKTGEGI  156 (302)
T ss_dssp             EECSTTTTCCHHHHHHHHHHHHH----TTCEEEEEECCGGGCCHHHHHHHHHHHHHHH-----HTTCEEEECCTTTCTTH
T ss_pred             EEECCCCCCCHHHHHHHHHHHHh----CCCCEEEEEEcccCCCccccHHHHHHHHHHH-----HCCCeEEEEECCCCCCH
Confidence            57999886 78777778776543    4689999999999964211   112222211     12467999999999999


Q ss_pred             HHHHHHHHHh
Q psy2977          77 DITLQWLIAH   86 (92)
Q Consensus        77 ~~~~~~l~~~   86 (92)
                      ++++.++...
T Consensus       157 ~~L~~~l~G~  166 (302)
T 2yv5_A          157 DELVDYLEGF  166 (302)
T ss_dssp             HHHHHHTTTC
T ss_pred             HHHHhhccCc
Confidence            9999987654

>1azs_C GS-alpha; complex (lyase/hydrolase), hydrolase, signal transducing protein, cyclase, effector enzyme; HET: GSP FKP; 2.30A {Bos taurus} SCOP: a.66.1.1 c.37.1.8 PDB: 1azt_A* 3c14_C* 3c15_C* 3c16_C* 1cjt_C* 1cjk_C* 1cju_C* 1cjv_C* 1tl7_C* 1cs4_C* 1u0h_C* 2gvd_C* 2gvz_C* 3e8a_C* 3g82_C* 3maa_C* 1cul_C* 3sn6_A*

Probab=99.31  E-value=1.9e-13  Score=87.86  Aligned_cols=89  Identities=13%  Similarity=0.093  Sum_probs=63.5

Q ss_pred             CeeCCc----------hhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC-----C-C-------------------
Q psy2977           1 MVDAAD----------TDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA-----L-D-------------------   45 (92)
Q Consensus         1 v~D~s~----------~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~-----~-~-------------------   45 (92)
                      |+|+++          .++|.++..|+..+.......+.|++|++||+|+...     . +                   
T Consensus       247 V~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~~~~~~~~piiLvgNK~DL~~~ki~~~~~~l~~~fp~y~~~~~~~~~~~  326 (402)
T 1azs_C          247 VVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATP  326 (402)
T ss_dssp             EEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCTTCSSCCEEEEEECHHHHHHHHHHCSSCGGGTCGGGGTCCCCSSCCC
T ss_pred             EEECcccccccccccccchHHHHHHHHHHHHhcccCCCCeEEEEEEChhhhhhhhcccccchhhcccccccccccccccc
Confidence            578888          8899999999999987655578999999999998421     0 0                   


Q ss_pred             -------HHHHHHhh-----ccCC---cCCCceEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          46 -------EKELIDRM-----NLCA---IQDREICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        46 -------~~~~~~~~-----~~~~---~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                             .++....+     ....   -..+.+.+++|||+++.||+++|.++.+.+.+
T Consensus       327 ~~g~~~~~~~a~~fi~~kF~~~~~~~~~~~~~~~~~~TSA~d~~nV~~vF~~v~~~I~~  385 (402)
T 1azs_C          327 EPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIRRVFNDCRDIIQR  385 (402)
T ss_dssp             CTTCCHHHHHHHHHHHHHHHHHHHTSCTTSSCEEEEECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             ccCCcccHHHHHHHHHHHHHHhhccccccCcccEEEEEEeecCcCHHHHHHHHHHHHHH
Confidence                   11111110     1000   01135678899999999999999999988764

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=99.31  E-value=2.6e-12  Score=79.93  Aligned_cols=83  Identities=19%  Similarity=0.159  Sum_probs=56.8

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCC-CCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLP-NALDEKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|+++..++.....|+..+..    .+.|+++|+||+|+. +.....+..+.+..  ......+++++||++|.|++++
T Consensus        99 VvD~~~~~~~~~~~~~~~~l~~----~~~pvilV~NK~Dl~~~~~~~~~~~~~l~~--~~~~~~~i~~vSA~~g~gv~~L  172 (308)
T 3iev_A           99 MIDATEGWRPRDEEIYQNFIKP----LNKPVIVVINKIDKIGPAKNVLPLIDEIHK--KHPELTEIVPISALKGANLDEL  172 (308)
T ss_dssp             EEETTTBSCHHHHHHHHHHTGG----GCCCEEEEEECGGGSSSGGGGHHHHHHHHH--HCTTCCCEEECBTTTTBSHHHH
T ss_pred             EEeCCCCCCchhHHHHHHHHHh----cCCCEEEEEECccCCCCHHHHHHHHHHHHH--hccCCCeEEEEeCCCCCCHHHH
Confidence            5788887777665555666543    368999999999996 32222222222210  0112356999999999999999


Q ss_pred             HHHHHHhhhh
Q psy2977          80 LQWLIAHSKS   89 (92)
Q Consensus        80 ~~~l~~~i~~   89 (92)
                      |++|.+.+..
T Consensus       173 ~~~l~~~l~~  182 (308)
T 3iev_A          173 VKTILKYLPE  182 (308)
T ss_dssp             HHHHHHHSCB
T ss_pred             HHHHHHhCcc
Confidence            9999998754

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.28  E-value=4.3e-13  Score=77.32  Aligned_cols=74  Identities=26%  Similarity=0.284  Sum_probs=52.4

Q ss_pred             eeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC----CHHHHHHhhccCCcCCCceEEEeeccccCCCHH
Q psy2977           2 VDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL----DEKELIDRMNLCAIQDREICCYSISCKERDNID   77 (92)
Q Consensus         2 ~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~----~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~   77 (92)
                      +|.++   ++....|+..+..    .+.|+++|+||+|+....    ..+++.+.+        +++++++||++|.|++
T Consensus        93 ~d~~~---~~~~~~~~~~~~~----~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~--------~~~~~~~Sa~~~~~v~  157 (188)
T 2wjg_A           93 VDATA---LERNLYLTLQLME----MGANLLLALNKMDLAKSLGIEIDVDKLEKIL--------GVKVVPLSAAKKMGIE  157 (188)
T ss_dssp             EEGGG---HHHHHHHHHHHHT----TTCCEEEEEECHHHHHHTTCCCCHHHHHHHH--------TSCEEECBGGGTBSHH
T ss_pred             ecchh---HHHHHHHHHHHHh----cCCCEEEEEEhhhccccccchHHHHHHHHHh--------CCCeEEEEecCCCCHH
Confidence            45543   5555567776654    368999999999985321    223333332        3568999999999999


Q ss_pred             HHHHHHHHhhhhc
Q psy2977          78 ITLQWLIAHSKSH   90 (92)
Q Consensus        78 ~~~~~l~~~i~~~   90 (92)
                      ++|++|.+.+.+.
T Consensus       158 ~l~~~i~~~~~~~  170 (188)
T 2wjg_A          158 ELKKAISIAVKDK  170 (188)
T ss_dssp             HHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999988654

>1xzp_A Probable tRNA modification GTPase TRME; GTP-binding, THF-binding, hydrolase; 2.30A {Thermotoga maritima} SCOP: a.24.25.1 c.37.1.8 d.250.1.2 PDB: 1xzq_A* 1xzp_B 1xzq_B*

Probab=99.27  E-value=2e-11  Score=80.03  Aligned_cols=75  Identities=19%  Similarity=0.233  Sum_probs=54.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++.+++.. ..+ +.+     .++|+++|+||+|+....+.+++.+..+      ...++++|||++|+||++++
T Consensus       330 VvD~s~~~s~~~~-~il-~~l-----~~~piivV~NK~DL~~~~~~~~~~~~~~------~~~~~i~iSAktg~Gi~eL~  396 (482)
T 1xzp_A          330 VLDASSPLDEEDR-KIL-ERI-----KNKRYLVVINKVDVVEKINEEEIKNKLG------TDRHMVKISALKGEGLEKLE  396 (482)
T ss_dssp             EEETTSCCCHHHH-HHH-HHH-----TTSSEEEEEEECSSCCCCCHHHHHHHHT------CSTTEEEEEGGGTCCHHHHH
T ss_pred             EecCCCCCCHHHH-HHH-HHh-----cCCCEEEEEECcccccccCHHHHHHHhc------CCCcEEEEECCCCCCHHHHH
Confidence            5798887776543 223 333     2689999999999976555555554322      22468999999999999999


Q ss_pred             HHHHHhhh
Q psy2977          81 QWLIAHSK   88 (92)
Q Consensus        81 ~~l~~~i~   88 (92)
                      ++|.+.+.
T Consensus       397 ~~l~~~~~  404 (482)
T 1xzp_A          397 ESIYRETQ  404 (482)
T ss_dssp             HHHHHHTH
T ss_pred             HHHHHHHh
Confidence            99998764

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.26  E-value=7.6e-12  Score=80.98  Aligned_cols=84  Identities=14%  Similarity=0.062  Sum_probs=56.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCC--HHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALD--EKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|+++..+++.. .|+..+..    .++|+++|+||+|+.+...  .+++.+.+..........+++++||++|.||++
T Consensus       264 v~D~~~~~s~~~~-~~~~~~~~----~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~SA~tg~~v~~  338 (436)
T 2hjg_A          264 VLDGEEGIIEQDK-RIAGYAHE----AGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPILFMSALTKKRIHT  338 (436)
T ss_dssp             EEETTTCCCHHHH-HHHHHHHH----TTCEEEEEEECGGGSCCCTTHHHHHHHHHHHHCGGGTTSCEEECCTTTCTTGGG
T ss_pred             EEcCCcCCcHHHH-HHHHHHHH----cCCcEEEEEECccCCCcchHHHHHHHHHHHHhcccCCCCCEEEEecccCCCHHH
Confidence            5788887666554 46655543    3689999999999975432  233332221110011245799999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|+++.+.+.+
T Consensus       339 l~~~i~~~~~~  349 (436)
T 2hjg_A          339 LMPAIIKASEN  349 (436)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999988764

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=99.26  E-value=3.1e-11  Score=70.40  Aligned_cols=83  Identities=18%  Similarity=0.216  Sum_probs=60.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|+++..++.....|+..+... .....|+++++||+|+...  ....+......     ..++.++++||+++.|+++
T Consensus        84 v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~-----~~~~~~~d~Sal~~~~i~~  157 (199)
T 2f9l_A           84 VYDIAKHLTYENVERWLKELRDH-ADSNIVIMLVGNKSDLRHLRAVPTDEARAFAE-----KNNLSFIETSALDSTNVEE  157 (199)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHH-SCTTCEEEEEEECTTCGGGCCSCHHHHHHHHH-----HTTCEEEECCTTTCTTHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHh-cCCCCeEEEEEECcccccccCcCHHHHHHHHH-----HcCCeEEEEeCCCCCCHHH
Confidence            47889888888877787765432 1246899999999999642  23333333221     2346788999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|++|.+.+.+
T Consensus       158 l~~~l~~~~~~  168 (199)
T 2f9l_A          158 AFKNILTEIYR  168 (199)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999988754

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=99.23  E-value=9.8e-13  Score=80.74  Aligned_cols=73  Identities=19%  Similarity=0.263  Sum_probs=51.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC----CCHHHHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA----LDEKELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~----~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      |+|+++.++.   ..|..++..    .++|+++|+||+|+...    .....+.+.+        ++++++|||++|.||
T Consensus        87 V~D~t~~e~~---~~~~~~l~~----~~~p~ilv~NK~Dl~~~~~~~~~~~~l~~~l--------g~~vi~~SA~~g~gi  151 (272)
T 3b1v_A           87 VVDATNLERN---LYLTTQLIE----TGIPVTIALNMIDVLDGQGKKINVDKLSYHL--------GVPVVATSALKQTGV  151 (272)
T ss_dssp             EEEGGGHHHH---HHHHHHHHH----TCSCEEEEEECHHHHHHTTCCCCHHHHHHHH--------TSCEEECBTTTTBSH
T ss_pred             EecCCchHhH---HHHHHHHHh----cCCCEEEEEEChhhCCcCCcHHHHHHHHHHc--------CCCEEEEEccCCCCH
Confidence            5688776543   345555543    36899999999998531    1233344333        356999999999999


Q ss_pred             HHHHHHHHHhhh
Q psy2977          77 DITLQWLIAHSK   88 (92)
Q Consensus        77 ~~~~~~l~~~i~   88 (92)
                      +++|++|.+.+.
T Consensus       152 ~el~~~i~~~~~  163 (272)
T 3b1v_A          152 DQVVKKAAHTTT  163 (272)
T ss_dssp             HHHHHHHHHSCT
T ss_pred             HHHHHHHHHHHh
Confidence            999999998764

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.23  E-value=2.2e-11  Score=80.49  Aligned_cols=80  Identities=20%  Similarity=0.221  Sum_probs=51.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|+++.+.+   ..|+..+....  .+.|+++|+||+|+....  ..+++.+.+.     ..+.++++|||++|.||++
T Consensus       128 V~D~s~~~~~---~~~~~~l~~~~--~~~pvilV~NK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~~vSA~~g~gi~e  197 (535)
T 3dpu_A          128 LLDSRTDSNK---HYWLRHIEKYG--GKSPVIVVMNKIDENPSYNIEQKKINERFP-----AIENRFHRISCKNGDGVES  197 (535)
T ss_dssp             EECGGGGGGH---HHHHHHHHHHS--SSCCEEEEECCTTTCTTCCCCHHHHHHHCG-----GGTTCEEECCC-----CTT
T ss_pred             EEeCCCchhH---HHHHHHHHHhC--CCCCEEEEEECCCcccccccCHHHHHHHHH-----hcCCceEEEecCcccCHHH
Confidence            5788776544   45565555432  368999999999997532  3444555432     2245699999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|.+.+.+.
T Consensus       198 L~~~l~~~~~~~  209 (535)
T 3dpu_A          198 IAKSLKSAVLHP  209 (535)
T ss_dssp             HHHHHHHHHTCT
T ss_pred             HHHHHHHHHhcc
Confidence            999999988653

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=99.23  E-value=1.1e-11  Score=80.70  Aligned_cols=85  Identities=16%  Similarity=0.105  Sum_probs=53.3

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|+++.-. +....++..+..    .++|+++|+||+|+.+..  ..+++.+.+..........++++|||++|.||++
T Consensus       284 viD~~~~~~-~~~~~~~~~~~~----~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~  358 (456)
T 4dcu_A          284 VLDGEEGII-EQDKRIAGYAHE----AGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPILFMSALTKKRIHT  358 (456)
T ss_dssp             EEETTTCCC-HHHHHHHHHHHH----TTCEEEEEEECGGGSCCCSSHHHHHHHHHHHHCGGGTTSCEEECCTTTCTTGGG
T ss_pred             EEeCCCCcC-HHHHHHHHHHHH----cCCCEEEEEEChhcCCCchHHHHHHHHHHHHhcccCCCCCEEEEcCCCCcCHHH
Confidence            467776322 222234444432    358999999999997532  2334333322110011246799999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|+++.+.+.+.
T Consensus       359 l~~~i~~~~~~~  370 (456)
T 4dcu_A          359 LMPAIIKASENH  370 (456)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999887543

>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO, cell inner membrane, cell ME GTP-binding, ION transport, membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A* 3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*

Probab=99.22  E-value=3.5e-13  Score=82.67  Aligned_cols=74  Identities=19%  Similarity=0.177  Sum_probs=51.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC----CHHHHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL----DEKELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~----~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      |+|+++.++......++.+.       ++|+++|+||+|+....    ..+.+.+.+        +++++++||++|.|+
T Consensus        92 VvD~~~~~~~~~~~~~l~~~-------~~p~ivv~NK~Dl~~~~~~~~~~~~l~~~l--------g~~~i~~SA~~g~gi  156 (274)
T 3i8s_A           92 VVDASNLERNLYLTLQLLEL-------GIPCIVALNMLDIAEKQNIRIEIDALSARL--------GCPVIPLVSTRGRGI  156 (274)
T ss_dssp             EEEGGGHHHHHHHHHHHHHH-------TCCEEEEEECHHHHHHTTEEECHHHHHHHH--------TSCEEECCCGGGHHH
T ss_pred             EecCCChHHHHHHHHHHHhc-------CCCEEEEEECccchhhhhHHHHHHHHHHhc--------CCCEEEEEcCCCCCH
Confidence            56888765544333333322       58999999999985321    233343333        356999999999999


Q ss_pred             HHHHHHHHHhhhh
Q psy2977          77 DITLQWLIAHSKS   89 (92)
Q Consensus        77 ~~~~~~l~~~i~~   89 (92)
                      +++|++|.+.+..
T Consensus       157 ~el~~~i~~~~~~  169 (274)
T 3i8s_A          157 EALKLAIDRYKAN  169 (274)
T ss_dssp             HHHHHHHHTCCCC
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999988754

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A*

Probab=99.21  E-value=2e-11  Score=79.93  Aligned_cols=74  Identities=22%  Similarity=0.129  Sum_probs=51.7

Q ss_pred             CeeCCchhhHHH---HHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHH--HHHhhccCCcCCCceEEEeeccccCCC
Q psy2977           1 MVDAADTDKLEA---SRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKE--LIDRMNLCAIQDREICCYSISCKERDN   75 (92)
Q Consensus         1 v~D~s~~~~~~~---~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~--~~~~~~~~~~~~~~~~~~~~SA~~~~g   75 (92)
                      |+|++++.++..   ...++..+      .++|+++|+||+|+........  +.+.        ...++++|||++|.|
T Consensus       319 VvD~s~~~s~~~~~~~~~~l~~l------~~~piIvV~NK~Dl~~~~~~~~~~l~~~--------~~~~~i~vSAktg~G  384 (476)
T 3gee_A          319 LLDLGTERLDDELTEIRELKAAH------PAAKFLTVANKLDRAANADALIRAIADG--------TGTEVIGISALNGDG  384 (476)
T ss_dssp             EEETTTCSSGGGHHHHHHHHHHC------TTSEEEEEEECTTSCTTTHHHHHHHHHH--------HTSCEEECBTTTTBS
T ss_pred             EEECCCCcchhhhHHHHHHHHhc------CCCCEEEEEECcCCCCccchhHHHHHhc--------CCCceEEEEECCCCC
Confidence            578888776643   22333332      2689999999999975433221  2111        014689999999999


Q ss_pred             HHHHHHHHHHhhh
Q psy2977          76 IDITLQWLIAHSK   88 (92)
Q Consensus        76 i~~~~~~l~~~i~   88 (92)
                      |+++|++|.+.+.
T Consensus       385 I~eL~~~i~~~~~  397 (476)
T 3gee_A          385 IDTLKQHMGDLVK  397 (476)
T ss_dssp             HHHHHHHHTHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999999886

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=99.21  E-value=5.9e-13  Score=81.04  Aligned_cols=71  Identities=21%  Similarity=0.271  Sum_probs=49.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC----CCHHHHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA----LDEKELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~----~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      |+|+++.++...   +...+..    .++|+++|+||+|+...    .....+.+.+        +++++++||++|.|+
T Consensus        90 VvDas~~~~~~~---l~~~l~~----~~~pvilv~NK~Dl~~~~~~~~~~~~l~~~l--------g~~vi~~SA~~g~gi  154 (256)
T 3iby_A           90 VIDACHLERHLY---LTSQLFE----LGKPVVVALNMMDIAEHRGISIDTEKLESLL--------GCSVIPIQAHKNIGI  154 (256)
T ss_dssp             EEEGGGHHHHHH---HHHHHTT----SCSCEEEEEECHHHHHHTTCEECHHHHHHHH--------CSCEEECBGGGTBSH
T ss_pred             EeeCCCchhHHH---HHHHHHH----cCCCEEEEEEChhcCCcCCcHHHHHHHHHHc--------CCCEEEEECCCCCCH
Confidence            578887655433   3333332    26899999999998532    1233344433        357999999999999


Q ss_pred             HHHHHHHHHh
Q psy2977          77 DITLQWLIAH   86 (92)
Q Consensus        77 ~~~~~~l~~~   86 (92)
                      +++|++|.+.
T Consensus       155 ~el~~~i~~~  164 (256)
T 3iby_A          155 PALQQSLLHC  164 (256)
T ss_dssp             HHHHHHHHTC
T ss_pred             HHHHHHHHhh
Confidence            9999999886

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=99.20  E-value=2.1e-11  Score=74.27  Aligned_cols=73  Identities=12%  Similarity=0.170  Sum_probs=52.3

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC----CCHHHHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA----LDEKELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~----~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      |+|+++.++.   ..|+.++..    .++|+++|+||+|+...    .....+.+.+        +++++++||++|.|+
T Consensus        90 V~D~t~~~~~---~~~~~~l~~----~~~pvilv~NK~Dl~~~~~i~~~~~~l~~~l--------g~~vi~~SA~~g~gi  154 (258)
T 3a1s_A           90 VADSVNPEQS---LYLLLEILE----MEKKVILAMTAIDEAKKTGMKIDRYELQKHL--------GIPVVFTSSVTGEGL  154 (258)
T ss_dssp             EEETTSCHHH---HHHHHHHHT----TTCCEEEEEECHHHHHHTTCCBCHHHHHHHH--------CSCEEECCTTTCTTH
T ss_pred             EeCCCchhhH---HHHHHHHHh----cCCCEEEEEECcCCCCccchHHHHHHHHHHc--------CCCEEEEEeeCCcCH
Confidence            5788876543   245555553    26899999999998431    1233444433        357999999999999


Q ss_pred             HHHHHHHHHhhh
Q psy2977          77 DITLQWLIAHSK   88 (92)
Q Consensus        77 ~~~~~~l~~~i~   88 (92)
                      +++|++|.+.+.
T Consensus       155 ~el~~~i~~~~~  166 (258)
T 3a1s_A          155 EELKEKIVEYAQ  166 (258)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhh
Confidence            999999998765

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.19  E-value=2e-11  Score=79.00  Aligned_cols=66  Identities=20%  Similarity=0.153  Sum_probs=48.3

Q ss_pred             HHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          14 RNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        14 ~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      ..|+..+...    ++|+++|+||+|+...... +..+.+.    ...+.+++++||++|.|++++|++|.+.+.
T Consensus       130 ~~~l~~l~~~----~~piIvV~NK~Dl~~~~~~-~~~~~l~----~~~g~~v~~vSAktg~gI~eL~~~L~~~l~  195 (423)
T 3qq5_A          130 DDVVNLFKEM----EIPFVVVVNKIDVLGEKAE-ELKGLYE----SRYEAKVLLVSALQKKGFDDIGKTISEILP  195 (423)
T ss_dssp             HHHHHHHHHT----TCCEEEECCCCTTTTCCCT-HHHHHSS----CCTTCCCCCCSSCCTTSTTTHHHHHHHHSC
T ss_pred             HHHHHHHHhc----CCCEEEEEeCcCCCCccHH-HHHHHHH----HHcCCCEEEEECCCCCCHHHHHHHHHHhhh
Confidence            3455555433    6899999999999865443 2333332    233567999999999999999999999884

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=99.18  E-value=9.2e-11  Score=68.13  Aligned_cols=81  Identities=20%  Similarity=0.239  Sum_probs=57.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|.++..+++....|+..+.... ....|+++++||+|+.+.  ....+......     ..++.++.+||+++.|+++
T Consensus       108 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~-----~~~~~~ld~Sald~~~v~~  181 (191)
T 1oix_A          108 VYDIAKHLTYENVERWLKELRDHA-DSNIVIMLVGNKSDLRHLRAVPTDEARAFAE-----KNGLSFIETSALDSTNVEA  181 (191)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHS-CTTCEEEEEEECGGGGGGCCSCHHHHHHHHH-----HTTCEEEECCTTTCTTHHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHHhc-CCCCcEEEEEECcccccccccCHHHHHHHHH-----HcCCEEEEEeCCCCCCHHH
Confidence            478888888887777776654321 246899999999999642  23333333221     2346788999999999999


Q ss_pred             HHHHHHHhh
Q psy2977          79 TLQWLIAHS   87 (92)
Q Consensus        79 ~~~~l~~~i   87 (92)
                      +|++|.+.+
T Consensus       182 l~~~l~~~i  190 (191)
T 1oix_A          182 AFQTILTEI  190 (191)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            999998865

>3sjy_A Translation initiation factor 2 subunit gamma; zinc finger, initiate translation, tRNA binding, mRNA bindin binding; HET: GCP GDP; 2.00A {Sulfolobus solfataricus P2} PDB: 3pen_A* 3sjz_A* 2qn6_A* 2aho_A 2qmu_A* 2plf_A* 3v11_A* 3i1f_A* 3cw2_A 2pmd_A* 3p3m_A* 3qsy_A*

Probab=99.16  E-value=2.8e-11  Score=77.69  Aligned_cols=84  Identities=15%  Similarity=0.079  Sum_probs=54.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHH----HHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEK----ELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~----~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      |+|+++..++....+++..+...   ...|+++|+||+|+.+.....    ++.+.+..  ......+++++||++|.|+
T Consensus       105 Vvda~~~~~~~qt~~~~~~~~~~---~~~~iivviNK~Dl~~~~~~~~~~~~i~~~l~~--~~~~~~~ii~vSA~~g~gi  179 (403)
T 3sjy_A          105 VVAANEPFPQPQTREHFVALGII---GVKNLIIVQNKVDVVSKEEALSQYRQIKQFTKG--TWAENVPIIPVSALHKINI  179 (403)
T ss_dssp             EEETTSCSSCHHHHHHHHHHHHH---TCCCEEEEEECGGGSCHHHHHHHHHHHHHHHTT--STTTTCCEEECBTTTTBSH
T ss_pred             EEECCCCCCcHHHHHHHHHHHHc---CCCCEEEEEECccccchHHHHHHHHHHHHHHHh--hCCCCCEEEEEECCCCcCh
Confidence            57887765555655665544321   235899999999997532111    22222211  1123567999999999999


Q ss_pred             HHHHHHHHHhhhh
Q psy2977          77 DITLQWLIAHSKS   89 (92)
Q Consensus        77 ~~~~~~l~~~i~~   89 (92)
                      ++++++|.+.+..
T Consensus       180 ~~L~~~l~~~l~~  192 (403)
T 3sjy_A          180 DSLIEGIEEYIKT  192 (403)
T ss_dssp             HHHHHHHHHHSCC
T ss_pred             HHHHHHHHHhCCC
Confidence            9999999987643

>4fid_A G protein alpha subunit; RAS-like domain, all-helical domain, GTP binding, nucleotide signaling protein, transducer, lipoprotein; HET: MLY MSE GDP; 2.62A {Entamoeba histolytica}

Probab=99.16  E-value=2.2e-11  Score=76.82  Aligned_cols=84  Identities=14%  Similarity=0.122  Sum_probs=60.4

Q ss_pred             chhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC-----------------CCHHHHH----Hhh-------ccCC
Q psy2977           6 DTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA-----------------LDEKELI----DRM-------NLCA   57 (92)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~-----------------~~~~~~~----~~~-------~~~~   57 (92)
                      +.+++.++..|+..+..+....+.|++|++||+|+...                 .+.++..    ..+       .+..
T Consensus       206 ~~nr~~es~~~~~~i~~~~~~~~~piiLv~NK~DL~~eki~~~~l~~~fp~y~g~~~~e~a~~~i~~~f~~~~~~~~~~~  285 (340)
T 4fid_A          206 NTSRLTESIAVFKDIMTNEFLKGAVKLIFLNKMDLFEEKLTKVPLNTIFPEYTGGDNAVMGAQYIQQLFTGKLQTEEMNI  285 (340)
T ss_dssp             CSBHHHHHHHHHHHHHHCGGGTTSEEEEEEECHHHHHHHHHHSCGGGTCTTCCCTTCHHHHHHHHHHHHHTTSEEEESCC
T ss_pred             ccchHHHHHHHHHHHhhhhccCCCeEEEEEECchhhhhhcCcchHHHhhhhhcCCCCHHHHHHHHHHhcccccchhhhhc
Confidence            67899999999999988765678999999999998421                 1222221    222       1111


Q ss_pred             cCC-----------CceEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          58 IQD-----------REICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        58 ~~~-----------~~~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      ...           +.+.+++|||+++.||+.+|..+.+.+.+
T Consensus       286 ~~~~~~~~~~~~~~~~iy~h~TsA~dt~nv~~vF~~v~~~Il~  328 (340)
T 4fid_A          286 SGADGTANIEGAVNEKVYTNPTNATDGSNIKRVFMLAVDVIMK  328 (340)
T ss_dssp             --------------CEEEEEEECTTCHHHHHHHHHHHHHHHHH
T ss_pred             cccccccccccccCcceEEEEEEeeCcHHHHHHHHHHHHHHHH
Confidence            111           35788999999999999999999988754

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.14  E-value=1.5e-11  Score=76.45  Aligned_cols=80  Identities=18%  Similarity=0.149  Sum_probs=55.4

Q ss_pred             CeeCCchhhHHHHHHH---HHHhhcCCCCCCCcEEEEeeCCCCCCCCCH--------HHHHHhhccCCcCCC---ceEEE
Q psy2977           1 MVDAADTDKLEASRNE---LHALIEKPQLIGIPILVLGNKRDLPNALDE--------KELIDRMNLCAIQDR---EICCY   66 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~---~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~--------~~~~~~~~~~~~~~~---~~~~~   66 (92)
                      |+|++++++++....|   +.++...  ..++|+++|+||+|+......        +++.+..     ...   ..+++
T Consensus        87 V~D~t~~~s~~~l~~~~~~l~~l~~~--~~~~piilv~NK~Dl~~~~~r~~~~~v~~~~~~~~~-----~~~g~~~~~~~  159 (307)
T 3r7w_A           87 VFDVESTEVLKDIEIFAKALKQLRKY--SPDAKIFVLLHKMDLVQLDKREELFQIMMKNLSETS-----SEFGFPNLIGF  159 (307)
T ss_dssp             EEETTCSCHHHHHHHHHHHHHHHHHH--CTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHH-----HTTTCCSCEEE
T ss_pred             EEECCChhhHHHHHHHHHHHHHHHHh--CCCCeEEEEEecccccchhhhhHHHHHHHHHHHHHH-----HHcCCCCeEEE
Confidence            6899999998887555   4444332  247999999999999742111        1222221     112   37899


Q ss_pred             eeccccCCCHHHHHHHHHHhhh
Q psy2977          67 SISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        67 ~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      +|||++ .|+.++|..+...+.
T Consensus       160 ~tSa~~-~~i~e~~~~iv~~li  180 (307)
T 3r7w_A          160 PTSIWD-ESLYKAWSQIVCSLI  180 (307)
T ss_dssp             ECCTTS-SHHHHHHHHHHHTTC
T ss_pred             EeeecC-ChHHHHHHHHHHHHc
Confidence            999999 899999999887654

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=99.14  E-value=2.4e-11  Score=75.51  Aligned_cols=80  Identities=18%  Similarity=0.142  Sum_probs=52.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCC-HHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALD-EKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|++++.+..  ..|+.+.+... ..+.|+++|+||+|+..... ..+..+.+      ....+++++||++|.|++++
T Consensus        93 VvD~~~~~~~~--~~~i~~~l~~~-~~~~p~ilV~NK~Dl~~~~~~~~~~~~~~------~~~~~~~~iSA~~g~gv~~l  163 (301)
T 1wf3_A           93 VVDLRHPPTPE--DELVARALKPL-VGKVPILLVGNKLDAAKYPEEAMKAYHEL------LPEAEPRMLSALDERQVAEL  163 (301)
T ss_dssp             EEETTSCCCHH--HHHHHHHHGGG-TTTSCEEEEEECGGGCSSHHHHHHHHHHT------STTSEEEECCTTCHHHHHHH
T ss_pred             EEECCCCCChH--HHHHHHHHHhh-cCCCCEEEEEECcccCCchHHHHHHHHHh------cCcCcEEEEeCCCCCCHHHH
Confidence            57888754332  34554444332 14689999999999974322 11222221      12346899999999999999


Q ss_pred             HHHHHHhhhh
Q psy2977          80 LQWLIAHSKS   89 (92)
Q Consensus        80 ~~~l~~~i~~   89 (92)
                      |++|.+.+..
T Consensus       164 ~~~l~~~l~~  173 (301)
T 1wf3_A          164 KADLLALMPE  173 (301)
T ss_dssp             HHHHHTTCCB
T ss_pred             HHHHHHhccc
Confidence            9999987643

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=99.09  E-value=3.2e-10  Score=74.11  Aligned_cols=75  Identities=15%  Similarity=0.083  Sum_probs=50.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++.+... ..++..+      ...|+++|+||+|+.......    .  .... ....+++++||++|.|+++++
T Consensus       310 VvD~s~~~~~~~-~~i~~~l------~~~piivV~NK~Dl~~~~~~~----~--~~~~-~~~~~~i~iSAktg~Gi~eL~  375 (462)
T 3geh_A          310 TIDAATGWTTGD-QEIYEQV------KHRPLILVMNKIDLVEKQLIT----S--LEYP-ENITQIVHTAAAQKQGIDSLE  375 (462)
T ss_dssp             EEETTTCSCHHH-HHHHHHH------TTSCEEEEEECTTSSCGGGST----T--CCCC-TTCCCEEEEBTTTTBSHHHHH
T ss_pred             EeccCCCCCHHH-HHHHHhc------cCCcEEEEEECCCCCcchhhH----H--HHHh-ccCCcEEEEECCCCCCHHHHH
Confidence            578887655433 2344433      236999999999997432211    1  1111 134578999999999999999


Q ss_pred             HHHHHhhhh
Q psy2977          81 QWLIAHSKS   89 (92)
Q Consensus        81 ~~l~~~i~~   89 (92)
                      ++|.+.+..
T Consensus       376 ~~i~~~~~~  384 (462)
T 3geh_A          376 TAILEIVQT  384 (462)
T ss_dssp             HHHHHHHTT
T ss_pred             HHHHHHHhc
Confidence            999998764

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

Probab=99.08  E-value=7e-10  Score=71.31  Aligned_cols=58  Identities=19%  Similarity=0.189  Sum_probs=36.6

Q ss_pred             CcEEEEeeCCCCCCCCC----HHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          29 IPILVLGNKRDLPNALD----EKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~~----~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      .|+++++||+|+.+...    .+++.+.+...  .....+++++||++|.||++++++|.+.+.
T Consensus       136 ~~iivv~NK~Dl~~~~~~~~~~~~i~~~l~~~--~~~~~~~i~vSA~~g~gi~~L~~~l~~~i~  197 (408)
T 1s0u_A          136 DKIIIVQNKIDLVDEKQAEENYEQIKEFVKGT--IAENAPIIPISAHHEANIDVLLKAIQDFIP  197 (408)
T ss_dssp             CCEEEEEECTTSSCTTTTTTHHHHHHHHHTTS--TTTTCCEEEC------CHHHHHHHHHHHSC
T ss_pred             CeEEEEEEccCCCCHHHHHHHHHHHHHHHhhc--CCCCCeEEEeeCCCCCCHHHHHHHHHHhCC
Confidence            58999999999975422    23444443311  123568999999999999999999998765

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.07  E-value=1.7e-10  Score=74.71  Aligned_cols=83  Identities=19%  Similarity=0.048  Sum_probs=51.0

Q ss_pred             eeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           2 VDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         2 ~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      +|+++..+...  .++...+..   .++|+++|+||+|+.+..  ..+++.+.+..........+++++||++|.||+++
T Consensus       271 ~d~~~~~~~~~--~~i~~~l~~---~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l  345 (439)
T 1mky_A          271 LDATQGITRQD--QRMAGLMER---RGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLIFTSADKGWNIDRM  345 (439)
T ss_dssp             EETTTCCCHHH--HHHHHHHHH---TTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCEEECBTTTTBSHHHH
T ss_pred             EeCCCCCCHHH--HHHHHHHHH---cCCCEEEEEECccCCCchhhHHHHHHHHHHHHhccCCCCcEEEEECCCCCCHHHH
Confidence            57665444332  223333322   368999999999997432  23333322211000112357899999999999999


Q ss_pred             HHHHHHhhhh
Q psy2977          80 LQWLIAHSKS   89 (92)
Q Consensus        80 ~~~l~~~i~~   89 (92)
                      |+.+.+.+.+
T Consensus       346 ~~~i~~~~~~  355 (439)
T 1mky_A          346 IDAMNLAYAS  355 (439)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999987754

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=99.07  E-value=5.1e-11  Score=75.84  Aligned_cols=79  Identities=19%  Similarity=0.184  Sum_probs=48.8

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC-CCHHHHHHhhccCCcCCCc---eEEEeeccccCCCH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA-LDEKELIDRMNLCAIQDRE---ICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~-~~~~~~~~~~~~~~~~~~~---~~~~~~SA~~~~gi   76 (92)
                      |+|++|+.  ......+.+++     .++|+++|+||+|+.+. ...+.+.+.+... ....+   ..++.+||++|.|+
T Consensus        76 VvD~~d~~--~~~~~~l~~~~-----~~~p~ilV~NK~DL~~~~~~~~~~~~~l~~~-~~~~g~~~~~v~~iSA~~g~gi  147 (368)
T 3h2y_A           76 IVDIFDFN--GSWLPGLHRFV-----GNNKVLLVGNKADLIPKSVKHDKVKHWMRYS-AKQLGLKPEDVFLISAAKGQGI  147 (368)
T ss_dssp             EEETTSHH--HHCCTTHHHHS-----SSSCEEEEEECGGGSCTTSCHHHHHHHHHHH-HHHTTCCCSEEEECCTTTCTTH
T ss_pred             EEECCCCc--ccHHHHHHHHh-----CCCcEEEEEEChhcCCcccCHHHHHHHHHHH-HHHcCCCcccEEEEeCCCCcCH
Confidence            57888753  11112233332     36899999999999643 2233333221100 01112   37899999999999


Q ss_pred             HHHHHHHHHhh
Q psy2977          77 DITLQWLIAHS   87 (92)
Q Consensus        77 ~~~~~~l~~~i   87 (92)
                      ++++++|.+..
T Consensus       148 ~~L~~~l~~~~  158 (368)
T 3h2y_A          148 AELADAIEYYR  158 (368)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHhhhhhhc
Confidence            99999998754

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=99.06  E-value=2.1e-10  Score=72.95  Aligned_cols=87  Identities=20%  Similarity=0.219  Sum_probs=52.3

Q ss_pred             CeeCCchh--hHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhh-cc-CCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAADTD--KLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRM-NL-CAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~--~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~-~~-~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      |+|++++.  ....... +.+++......+.|+++|+||+|+.... ........ .+ ........+++++||++|.|+
T Consensus       264 VvD~s~~~~~~~~~~~~-~~~~L~~l~~~~~p~ilV~NK~Dl~~~~-~~~~~~~~~~l~~~l~~~~~~~~~~SA~~g~gi  341 (364)
T 2qtf_A          264 VIDSTFSENLLIETLQS-SFEILREIGVSGKPILVTLNKIDKINGD-LYKKLDLVEKLSKELYSPIFDVIPISALKRTNL  341 (364)
T ss_dssp             EEETTSCHHHHHHHHHH-HHHHHHHHTCCSCCEEEEEECGGGCCSC-HHHHHHHHHHHHHHHCSCEEEEEECBTTTTBSH
T ss_pred             EEECCCCcchHHHHHHH-HHHHHHHhCcCCCCEEEEEECCCCCCch-HHHHHHHHHHHHHHhcCCCCcEEEEECCCCcCH
Confidence            57888765  3333322 2333332233578999999999997432 22111110 00 000012456899999999999


Q ss_pred             HHHHHHHHHhhhh
Q psy2977          77 DITLQWLIAHSKS   89 (92)
Q Consensus        77 ~~~~~~l~~~i~~   89 (92)
                      ++++++|.+.+..
T Consensus       342 ~~L~~~I~~~l~~  354 (364)
T 2qtf_A          342 ELLRDKIYQLATQ  354 (364)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcc
Confidence            9999999988764

>2ywe_A GTP-binding protein LEPA; G domain, beta-barrel, ferredoxin-like domain, structural GE NPPSFA; 2.05A {Aquifex aeolicus} PDB: 2ywf_A* 2ywg_A* 2ywh_A*

Probab=99.05  E-value=5.6e-10  Score=74.91  Aligned_cols=82  Identities=21%  Similarity=0.182  Sum_probs=53.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|+++....+....|.... .    .++|+++++||+|++... .+++.+.+... +......++++||++|.||+++|
T Consensus       103 VVDa~~gv~~qt~~~~~~a~-~----~~ipiIvviNKiDl~~a~-~~~v~~el~~~-lg~~~~~vi~vSAktg~GI~~Ll  175 (600)
T 2ywe_A          103 LIDASQGIEAQTVANFWKAV-E----QDLVIIPVINKIDLPSAD-VDRVKKQIEEV-LGLDPEEAILASAKEGIGIEEIL  175 (600)
T ss_dssp             EEETTTBCCHHHHHHHHHHH-H----TTCEEEEEEECTTSTTCC-HHHHHHHHHHT-SCCCGGGCEECBTTTTBSHHHHH
T ss_pred             EEECCCCccHHHHHHHHHHH-H----CCCCEEEEEeccCccccC-HHHHHHHHHHh-hCCCcccEEEEEeecCCCchHHH
Confidence            57888765555544444333 2    368999999999998643 33322222110 01112348999999999999999


Q ss_pred             HHHHHhhhh
Q psy2977          81 QWLIAHSKS   89 (92)
Q Consensus        81 ~~l~~~i~~   89 (92)
                      ++|.+.+..
T Consensus       176 e~I~~~lp~  184 (600)
T 2ywe_A          176 EAIVNRIPP  184 (600)
T ss_dssp             HHHHHHSCC
T ss_pred             HHHHHhccc
Confidence            999988753

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=99.02  E-value=4.9e-10  Score=68.39  Aligned_cols=76  Identities=16%  Similarity=0.138  Sum_probs=51.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC----CCCHHHHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN----ALDEKELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~----~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      |+|+++.+   ....++.++...   ..+|+++|+||+|+..    ......+.+.+        +.+++++||++|.|+
T Consensus        88 v~D~~~~~---~~~~~~~~~~~~---~~~p~ilv~NK~Dl~~~~~~~~~~~~l~~~l--------g~~~~~~Sa~~g~gi  153 (271)
T 3k53_A           88 IVDSTCLM---RNLFLTLELFEM---EVKNIILVLNKFDLLKKKGAKIDIKKMRKEL--------GVPVIPTNAKKGEGV  153 (271)
T ss_dssp             EEEGGGHH---HHHHHHHHHHHT---TCCSEEEEEECHHHHHHHTCCCCHHHHHHHH--------SSCEEECBGGGTBTH
T ss_pred             EecCCcch---hhHHHHHHHHhc---CCCCEEEEEEChhcCcccccHHHHHHHHHHc--------CCcEEEEEeCCCCCH
Confidence            45666543   333445555433   2389999999999742    12334444443        356899999999999


Q ss_pred             HHHHHHHHHhhhhc
Q psy2977          77 DITLQWLIAHSKSH   90 (92)
Q Consensus        77 ~~~~~~l~~~i~~~   90 (92)
                      +++|+++.+.+...
T Consensus       154 ~~l~~~i~~~~~~~  167 (271)
T 3k53_A          154 EELKRMIALMAEGK  167 (271)
T ss_dssp             HHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhcc
Confidence            99999999887543

>1udx_A The GTP-binding protein OBG; TGS domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1 c.37.1.8 d.242.1.1

Probab=99.02  E-value=2.2e-10  Score=74.02  Aligned_cols=84  Identities=23%  Similarity=0.194  Sum_probs=55.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCC-CCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKP-QLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~-~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      ++|++ ..++.....+..++.... .+...|.++++||+|+......+.+.+.+.     ..++.++.+||++++|++++
T Consensus       242 vvDls-~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl~~~~~~~~l~~~l~-----~~g~~vi~iSA~~g~gi~eL  315 (416)
T 1udx_A          242 VLDAA-DEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEEEAVKALADALA-----REGLAVLPVSALTGAGLPAL  315 (416)
T ss_dssp             EEETT-SCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCHHHHHHHHHHHH-----TTTSCEEECCTTTCTTHHHH
T ss_pred             EeCCc-cCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCChhhHHHHHHHHHHHH-----hcCCeEEEEECCCccCHHHH
Confidence            46776 445555555555544321 123579999999999874311122333221     23467999999999999999


Q ss_pred             HHHHHHhhhhc
Q psy2977          80 LQWLIAHSKSH   90 (92)
Q Consensus        80 ~~~l~~~i~~~   90 (92)
                      +++|.+.+.+.
T Consensus       316 ~~~i~~~l~~~  326 (416)
T 1udx_A          316 KEALHALVRST  326 (416)
T ss_dssp             HHHHHHHHHTS
T ss_pred             HHHHHHHHHhc
Confidence            99999988654

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

Probab=99.02  E-value=6.1e-10  Score=74.75  Aligned_cols=79  Identities=24%  Similarity=0.256  Sum_probs=53.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCH---HHHHHhhccCCcCCCceEEEeeccccCCCHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDE---KELIDRMNLCAIQDREICCYSISCKERDNID   77 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~---~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~   77 (92)
                      |+|+++....+....|.... .    .++|+++++||+|+++....   +++.+.++..     ...++++||++|.||+
T Consensus       101 VVDa~~gv~~qt~~~~~~~~-~----~~ipiIvViNKiDl~~a~~~~v~~ei~~~lg~~-----~~~vi~vSAktg~GI~  170 (599)
T 3cb4_D          101 VVDAGQGVEAQTLANCYTAM-E----MDLEVVPVLNKIDLPAADPERVAEEIEDIVGID-----ATDAVRCSAKTGVGVQ  170 (599)
T ss_dssp             EEETTTCCCTHHHHHHHHHH-H----TTCEEEEEEECTTSTTCCHHHHHHHHHHHTCCC-----CTTCEEECTTTCTTHH
T ss_pred             EEECCCCCCHHHHHHHHHHH-H----CCCCEEEeeeccCcccccHHHHHHHHHHHhCCC-----cceEEEeecccCCCch
Confidence            57888755554444444333 2    35799999999999864322   2333333221     1247999999999999


Q ss_pred             HHHHHHHHhhhh
Q psy2977          78 ITLQWLIAHSKS   89 (92)
Q Consensus        78 ~~~~~l~~~i~~   89 (92)
                      +++++|.+.+..
T Consensus       171 ~Ll~~I~~~lp~  182 (599)
T 3cb4_D          171 DVLERLVRDIPP  182 (599)
T ss_dssp             HHHHHHHHHSCC
T ss_pred             hHHHHHhhcCCC
Confidence            999999988753

>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=99.02  E-value=1.3e-09  Score=73.03  Aligned_cols=28  Identities=18%  Similarity=0.239  Sum_probs=24.5

Q ss_pred             CceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          61 REICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        61 ~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      ..++++++||++|.||++++++|...+.
T Consensus       190 ~~vpvv~vSA~tG~GI~eLl~~I~~~~~  217 (594)
T 1g7s_A          190 SQVSIIPISAITGEGIPELLTMLMGLAQ  217 (594)
T ss_dssp             TEEEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             CcceEEEEeccCCCCchhHHHHHHhhcc
Confidence            3468999999999999999999987664

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.01  E-value=1e-09  Score=71.09  Aligned_cols=76  Identities=18%  Similarity=0.191  Sum_probs=49.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCce-EEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREI-CCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~~~~~SA~~~~gi~~~   79 (92)
                      |+|+++..+..  ..++.+.+..   .++|+++|+||+|+....  .+..+      ....+. .++++||++|.|++++
T Consensus        89 vvD~~~~~~~~--d~~~~~~l~~---~~~pvilv~NK~D~~~~~--~~~~~------~~~lg~~~~~~iSA~~g~gv~~L  155 (436)
T 2hjg_A           89 MVNGREGVTAA--DEEVAKILYR---TKKPVVLAVNKLDNTEMR--ANIYD------FYSLGFGEPYPISGTHGLGLGDL  155 (436)
T ss_dssp             EEETTTCSCHH--HHHHHHHHTT---CCSCEEEEEECCCC-------CCCS------SGGGSSCCCEECBTTTTBTHHHH
T ss_pred             EEeCCCCCCHH--HHHHHHHHHH---cCCCEEEEEECccCccch--hhHHH------HHHcCCCCeEEEeCcCCCChHHH
Confidence            46877654433  2456565543   468999999999986421  11111      111122 5799999999999999


Q ss_pred             HHHHHHhhhh
Q psy2977          80 LQWLIAHSKS   89 (92)
Q Consensus        80 ~~~l~~~i~~   89 (92)
                      ++++.+.+.+
T Consensus       156 ~~~i~~~l~~  165 (436)
T 2hjg_A          156 LDAVAEHFKN  165 (436)
T ss_dssp             HHHHHHTGGG
T ss_pred             HHHHHHhcCc
Confidence            9999998863

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

Probab=99.01  E-value=4.7e-10  Score=74.47  Aligned_cols=83  Identities=20%  Similarity=0.209  Sum_probs=51.3

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCC---HHHHHHhhccCCcCCCceEEEeeccccCCCHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALD---EKELIDRMNLCAIQDREICCYSISCKERDNID   77 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~---~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~   77 (92)
                      |+|+++..... ....+..+..    .++|+++++||+|+++...   ..++..............+++++||++|.|++
T Consensus        82 VVDa~dg~~~q-t~e~l~~~~~----~~vPiIVViNKiDl~~~~~~~v~~~l~~~~~~~e~~~~~~~iv~vSAktG~GI~  156 (537)
T 3izy_P           82 VVAADDGVMKQ-TVESIQHAKD----AHVPIVLAINKCDKAEADPEKVKKELLAYDVVCEDYGGDVQAVHVSALTGENMM  156 (537)
T ss_dssp             ECBSSSCCCHH-HHHHHHHHHT----TTCCEEECCBSGGGTTTSCCSSSSHHHHTTSCCCCSSSSEEECCCCSSSSCSSH
T ss_pred             EEECCCCccHH-HHHHHHHHHH----cCCcEEEEEecccccccchHHHHHHHHhhhhhHHhcCCCceEEEEECCCCCCch
Confidence            46777643332 2233443332    3679999999999975321   12232221111111235789999999999999


Q ss_pred             HHHHHHHHhhh
Q psy2977          78 ITLQWLIAHSK   88 (92)
Q Consensus        78 ~~~~~l~~~i~   88 (92)
                      ++|++|...+.
T Consensus       157 eLle~I~~l~~  167 (537)
T 3izy_P          157 ALAEATIALAE  167 (537)
T ss_dssp             HHHHHHHHHHT
T ss_pred             hHHHHHHHhhh
Confidence            99999988754

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.98  E-value=1.6e-10  Score=73.60  Aligned_cols=80  Identities=19%  Similarity=0.187  Sum_probs=49.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC-CHHHHHHhhccCCcCCCc---eEEEeeccccCCCH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL-DEKELIDRMNLCAIQDRE---ICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~-~~~~~~~~~~~~~~~~~~---~~~~~~SA~~~~gi   76 (92)
                      |+|++++..  .....+.+.+     .++|+++|+||+|+.+.. ..+.+.+.+... ....+   ..++.+||++|.|+
T Consensus        78 VvD~~d~~~--s~~~~l~~~l-----~~~piilV~NK~DLl~~~~~~~~~~~~l~~~-~~~~g~~~~~v~~iSA~~g~gi  149 (369)
T 3ec1_A           78 IVDIFDFNG--SFIPGLPRFA-----ADNPILLVGNKADLLPRSVKYPKLLRWMRRM-AEELGLCPVDVCLVSAAKGIGM  149 (369)
T ss_dssp             EEETTCSGG--GCCSSHHHHC-----TTSCEEEEEECGGGSCTTCCHHHHHHHHHHH-HHTTTCCCSEEEECBTTTTBTH
T ss_pred             EEECCCCCC--chhhHHHHHh-----CCCCEEEEEEChhcCCCccCHHHHHHHHHHH-HHHcCCCcccEEEEECCCCCCH
Confidence            578887653  1112233332     368999999999996432 233333321100 01112   37899999999999


Q ss_pred             HHHHHHHHHhhh
Q psy2977          77 DITLQWLIAHSK   88 (92)
Q Consensus        77 ~~~~~~l~~~i~   88 (92)
                      +++++++.+...
T Consensus       150 ~~L~~~I~~~~~  161 (369)
T 3ec1_A          150 AKVMEAINRYRE  161 (369)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHhhcc
Confidence            999999987654

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=98.97  E-value=3.1e-10  Score=67.18  Aligned_cols=59  Identities=22%  Similarity=0.225  Sum_probs=42.2

Q ss_pred             CcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhhhc
Q psy2977          29 IPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKSH   90 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~~   90 (92)
                      .|.++|+||+|+.+.  ...+++.+.+..   .....+++++||++|.|++++|++|.+.+...
T Consensus       165 ~~~iiv~NK~Dl~~~~~~~~~~~~~~~~~---~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~~  225 (226)
T 2hf9_A          165 TADLIVINKIDLADAVGADIKKMENDAKR---INPDAEVVLLSLKTMEGFDKVLEFIEKSVKEV  225 (226)
T ss_dssp             TCSEEEEECGGGHHHHTCCHHHHHHHHHH---HCTTSEEEECCTTTCTTHHHHHHHHHHHHHHC
T ss_pred             cCCEEEEeccccCchhHHHHHHHHHHHHH---hCCCCeEEEEEecCCCCHHHHHHHHHHHHHhh
Confidence            455999999998642  234444443321   12246799999999999999999999988653

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=98.97  E-value=1e-09  Score=68.08  Aligned_cols=80  Identities=15%  Similarity=0.198  Sum_probs=50.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCce-EEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREI-CCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~-~~~~~SA~~~~gi~~~   79 (92)
                      |+|+++   +.....++.+.+..   .+.|.++++||+|+..  ....+.+.+.... ...++ .++++||++|.|++++
T Consensus        95 Vvd~~~---~~~~~~~i~~~l~~---~~~P~ilvlNK~D~~~--~~~~~~~~l~~l~-~~~~~~~~i~iSA~~g~~v~~l  165 (301)
T 1ega_A           95 VVEGTR---WTPDDEMVLNKLRE---GKAPVILAVNKVDNVQ--EKADLLPHLQFLA-SQMNFLDIVPISAETGLNVDTI  165 (301)
T ss_dssp             EEETTC---CCHHHHHHHHHHHS---SSSCEEEEEESTTTCC--CHHHHHHHHHHHH-TTSCCSEEEECCTTTTTTHHHH
T ss_pred             EEeCCC---CCHHHHHHHHHHHh---cCCCEEEEEECcccCc--cHHHHHHHHHHHH-HhcCcCceEEEECCCCCCHHHH
Confidence            367665   33333455555443   3689999999999974  1222222211000 11223 6899999999999999


Q ss_pred             HHHHHHhhhh
Q psy2977          80 LQWLIAHSKS   89 (92)
Q Consensus        80 ~~~l~~~i~~   89 (92)
                      ++++.+.+..
T Consensus       166 ~~~i~~~l~~  175 (301)
T 1ega_A          166 AAIVRKHLPE  175 (301)
T ss_dssp             HHHHHTTCCB
T ss_pred             HHHHHHhCCc
Confidence            9999987643

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=98.91  E-value=8.3e-10  Score=67.81  Aligned_cols=81  Identities=15%  Similarity=0.079  Sum_probs=47.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCC-HHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALD-EKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|+++.........++..+ ..   .+.|+++|+||+|+.+... ..+..+. .+.........++++||++|.|++++
T Consensus       169 v~d~~~~~~~~~~~~~~~~~-~~---~~~~~i~V~NK~Dl~~~~~~~~~~~~~-~~~~~~~~~~~v~~~SA~~~~gi~~l  243 (299)
T 2aka_B          169 VSPANSDLANSDALKIAKEV-DP---QGQRTIGVITKLDLMDEGTDARDVLEN-KLLPLRRGYIGVVNRSQKDIDGKKDI  243 (299)
T ss_dssp             EEESSSCGGGCHHHHHHHHH-CT---TCSSEEEEEECGGGSCTTCCCHHHHTT-CSSCCTTCEEECCCCCCBCTTSCBCH
T ss_pred             EecCCcchhhhHHHHHHHHh-CC---CCCeEEEEEEccccCCCCchHHHHHhC-CcCcCCCCcEEEECCChhhccccccH
Confidence            35766533322222334433 21   3689999999999975322 1121111 01111111246899999999999999


Q ss_pred             HHHHHHh
Q psy2977          80 LQWLIAH   86 (92)
Q Consensus        80 ~~~l~~~   86 (92)
                      +++|.+.
T Consensus       244 ~~~l~~~  250 (299)
T 2aka_B          244 TAALAAE  250 (299)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            9998764

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=98.90  E-value=5.3e-10  Score=65.95  Aligned_cols=59  Identities=15%  Similarity=0.143  Sum_probs=42.8

Q ss_pred             CCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          28 GIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      +.|.++|+||+|+.+.  ...+++.+.+..   .....+++++||++|.|++++|++|.+.+..
T Consensus       154 ~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~~---~~~~~~i~~~Sa~~g~gi~~l~~~l~~~~~~  214 (221)
T 2wsm_A          154 RVADLIVINKVALAEAVGADVEKMKADAKL---INPRAKIIEMDLKTGKGFEEWIDFLRGILNV  214 (221)
T ss_dssp             HTCSEEEEECGGGHHHHTCCHHHHHHHHHH---HCTTSEEEECBTTTTBTHHHHHHHHHHHHC-
T ss_pred             hcCCEEEEecccCCcchhhHHHHHHHHHHH---hCCCCeEEEeecCCCCCHHHHHHHHHHHHHH
Confidence            4688999999998532  244444444321   1224679999999999999999999988764

>1kk1_A EIF2gamma; initiation of translation; HET: GNP; 1.80A {Pyrococcus abyssi} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1kjz_A* 1kk2_A* 1kk3_A* 1kk0_A* 2d74_A 2dcu_A*

Probab=98.90  E-value=8.8e-10  Score=70.86  Aligned_cols=58  Identities=16%  Similarity=0.135  Sum_probs=41.3

Q ss_pred             CcEEEEeeCCCCCCCCC----HHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          29 IPILVLGNKRDLPNALD----EKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~~----~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      .|+++++||+|+.+...    .+++.+.+..  .....++++++||++|.|+++++++|.+.+.
T Consensus       138 ~~iivviNK~Dl~~~~~~~~~~~~i~~~l~~--~~~~~~~~i~vSA~~g~gi~~L~~~l~~~~~  199 (410)
T 1kk1_A          138 KNIIIAQNKIELVDKEKALENYRQIKEFIEG--TVAENAPIIPISALHGANIDVLVKAIEDFIP  199 (410)
T ss_dssp             CCEEEEEECGGGSCHHHHHHHHHHHHHHHTT--STTTTCCEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             CcEEEEEECccCCCHHHHHHHHHHHHHHHHh--cCcCCCeEEEeeCCCCCCHHHHHHHHHHhCC
Confidence            58999999999975321    1233333321  1123578999999999999999999998764

>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=98.88  E-value=4.4e-11  Score=70.42  Aligned_cols=46  Identities=33%  Similarity=0.360  Sum_probs=35.6

Q ss_pred             CeeCC-chhhHHHHHHHHHHhhcCC---CCCCCcEEEEeeCCCCCCCCCH
Q psy2977           1 MVDAA-DTDKLEASRNELHALIEKP---QLIGIPILVLGNKRDLPNALDE   46 (92)
Q Consensus         1 v~D~s-~~~~~~~~~~~~~~~~~~~---~~~~~p~ilv~NK~Dl~~~~~~   46 (92)
                      |+|++ +++++.....|+.+++...   ...++|+++|+||+|+......
T Consensus        89 v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~  138 (218)
T 1nrj_B           89 MVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPP  138 (218)
T ss_dssp             EEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCH
T ss_pred             EEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhcccCCH
Confidence            57998 8888988888888877532   1247999999999999866543

>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=98.88  E-value=1.3e-09  Score=71.52  Aligned_cols=59  Identities=20%  Similarity=0.220  Sum_probs=40.8

Q ss_pred             CCcEEEEeeCCCCCCCCCHH----HHHHhhccC-CcCCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          28 GIPILVLGNKRDLPNALDEK----ELIDRMNLC-AIQDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~----~~~~~~~~~-~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      ++|.++|+||+|+.+....+    ++.+.+... ..  ...+++++||++|.|+++++++|.+.+.
T Consensus       125 ~ip~IvviNK~Dl~~~~~~~~~~~~l~~~l~~~~~~--~~~~ii~vSA~~g~gI~~L~~~L~~~i~  188 (482)
T 1wb1_A          125 NIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNL--KNSSIIPISAKTGFGVDELKNLIITTLN  188 (482)
T ss_dssp             TCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSG--GGCCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCcccchhHHHHHHHHHHHHhhhccc--ccceEEEEECcCCCCHHHHHHHHHHhhc
Confidence            57889999999997422122    222222111 11  1467999999999999999999998763

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=98.87  E-value=8.5e-10  Score=68.03  Aligned_cols=76  Identities=16%  Similarity=0.160  Sum_probs=51.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|+.++.+...  ..+.+++     .++|.++|+||+||.+....+...+.+.     ..+.+++.+||++|.|+++++
T Consensus        30 VvDAr~p~~~~~--~~l~~~l-----~~kp~ilVlNK~DL~~~~~~~~~~~~~~-----~~g~~~i~iSA~~~~gi~~L~   97 (282)
T 1puj_A           30 LVDARIPMSSRN--PMIEDIL-----KNKPRIMLLNKADKADAAVTQQWKEHFE-----NQGIRSLSINSVNGQGLNQIV   97 (282)
T ss_dssp             EEETTSTTTTSC--HHHHHHC-----SSSCEEEEEECGGGSCHHHHHHHHHHHH-----TTTCCEEECCTTTCTTGGGHH
T ss_pred             EEeCCCCCccCC--HHHHHHH-----CCCCEEEEEECcccCCHHHHHHHHHHHH-----hcCCcEEEEECCCcccHHHHH
Confidence            578887765432  2344443     4689999999999974211122233321     224578999999999999999


Q ss_pred             HHHHHhhh
Q psy2977          81 QWLIAHSK   88 (92)
Q Consensus        81 ~~l~~~i~   88 (92)
                      +++.+.+.
T Consensus        98 ~~i~~~l~  105 (282)
T 1puj_A           98 PASKEILQ  105 (282)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            98887765

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=98.83  E-value=2.1e-09  Score=69.63  Aligned_cols=77  Identities=18%  Similarity=0.238  Sum_probs=48.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHH-HHhhccCCcCCCce-EEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKEL-IDRMNLCAIQDREI-CCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~-~~~~~~~~~~~~~~-~~~~~SA~~~~gi~~   78 (92)
                      |+|+++..+...  .++.+.+..   .++|+++|+||+|+.... ..+. .+...      .+. +++++||++|.|+++
T Consensus        88 V~D~~~~~~~~d--~~i~~~l~~---~~~p~ilv~NK~D~~~~~-~~~~~~~~~~------lg~~~~~~iSA~~g~gv~~  155 (439)
T 1mky_A           88 VVDGKRGITKED--ESLADFLRK---STVDTILVANKAENLREF-EREVKPELYS------LGFGEPIPVSAEHNINLDT  155 (439)
T ss_dssp             EEETTTCCCHHH--HHHHHHHHH---HTCCEEEEEESCCSHHHH-HHHTHHHHGG------GSSCSCEECBTTTTBSHHH
T ss_pred             EEECCCCCCHHH--HHHHHHHHH---cCCCEEEEEeCCCCcccc-HHHHHHHHHh------cCCCCEEEEeccCCCCHHH
Confidence            568776433221  233333332   258999999999985210 1122 22211      122 478999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|+++.+.+..
T Consensus       156 L~~~i~~~l~~  166 (439)
T 1mky_A          156 MLETIIKKLEE  166 (439)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHhccc
Confidence            99999988753

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=98.83  E-value=4.7e-10  Score=67.76  Aligned_cols=27  Identities=15%  Similarity=0.143  Sum_probs=24.0

Q ss_pred             eEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          63 ICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        63 ~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      .+++++||++|+|+++++++|.+.+..
T Consensus       231 ~~~~~~SA~~~~gi~~l~~~i~~~~~~  257 (262)
T 1yrb_A          231 VRVLYLSAKTREGFEDLETLAYEHYCT  257 (262)
T ss_dssp             CCCEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             ccceEEEecCcccHHHHHHHHHHHhcc
Confidence            368999999999999999999988754

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=98.81  E-value=1.1e-08  Score=67.90  Aligned_cols=26  Identities=8%  Similarity=-0.038  Sum_probs=23.5

Q ss_pred             eEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          63 ICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        63 ~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      .+++.+||++|.||+++++++.+.+.
T Consensus       251 ~PV~~gSA~~~~GV~~Lld~i~~~~p  276 (528)
T 3tr5_A          251 TPIFFGSAINNFGVGELLDAFVKEAP  276 (528)
T ss_dssp             EEEEECBGGGTBSHHHHHHHHHHHSC
T ss_pred             eEEEeccccCCccHHHHHHHHHHhCC
Confidence            37899999999999999999998874

>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=98.75  E-value=6.2e-09  Score=68.65  Aligned_cols=58  Identities=24%  Similarity=0.288  Sum_probs=39.1

Q ss_pred             CCcEEEEeeCCCCCCCCCHHHHHHhhccCCc----CCCceEEEeeccccCCCHHHHHHHHHHh
Q psy2977          28 GIPILVLGNKRDLPNALDEKELIDRMNLCAI----QDREICCYSISCKERDNIDITLQWLIAH   86 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~----~~~~~~~~~~SA~~~~gi~~~~~~l~~~   86 (92)
                      ++|+++++||+|+++... +.+...+.....    ....++++++||++|.|++++|++|...
T Consensus       103 ~vPiIVviNKiDl~~~~~-~~v~~~l~~~~~~~~~~~~~~~~v~vSAktG~gI~eLle~I~~~  164 (501)
T 1zo1_I          103 QVPVVVAVNKIDKPEADP-DRVKNELSQYGILPEEWGGESQFVHVSAKAGTGIDELLDAILLQ  164 (501)
T ss_dssp             TCCEEEEEECSSSSTTCC-CCTTCCCCCCCCCTTCCSSSCEEEECCTTTCTTCTTHHHHTTTT
T ss_pred             CceEEEEEEeccccccCH-HHHHHHHHHhhhhHHHhCCCccEEEEeeeeccCcchhhhhhhhh
Confidence            679999999999975321 122222111000    1123689999999999999999999754

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=98.74  E-value=2.5e-09  Score=67.90  Aligned_cols=61  Identities=20%  Similarity=0.183  Sum_probs=31.0

Q ss_pred             CCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          27 IGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      ..+|+++|+||+|+........+..... ..+...+++++++||++|.| ++.|.++.+.+.+
T Consensus       173 ~~~piIlV~NK~Dl~~~~ev~~~k~~i~-~~~~~~~i~~~~~Sa~~~~~-~e~~~~l~~~i~~  233 (361)
T 2qag_A          173 NKVNIVPVIAKADTLTLKERERLKKRIL-DEIEEHNIKIYHLPDAESDE-DEDFKEQTRLLKA  233 (361)
T ss_dssp             S-SCEEEEEECCSSSCHHHHHHHHHHHH-HHTTCC-CCSCCCC----------CHHHHHHHHH
T ss_pred             cCCCEEEEEECCCCCCHHHHHHHHHHHH-HHHHHCCCCEEeCCCcCCCc-chhHHHHHHHHHh
Confidence            4689999999999974221111111111 11123467899999999999 8888888887754

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=98.70  E-value=2.2e-08  Score=65.15  Aligned_cols=76  Identities=20%  Similarity=0.197  Sum_probs=45.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|+++.  +.....|+.+.+..   .++|+++|+||+|+....  ....+...   +  ....++++||++|.|+.+++
T Consensus       109 VvD~~~~--~~~~d~~l~~~l~~---~~~pvilV~NK~D~~~~~--~~~~e~~~---l--g~~~~~~iSA~~g~gv~~L~  176 (456)
T 4dcu_A          109 MVNGREG--VTAADEEVAKILYR---TKKPVVLAVNKLDNTEMR--ANIYDFYS---L--GFGEPYPISGTHGLGLGDLL  176 (456)
T ss_dssp             EEESSSC--SCHHHHHHHHHHTT---CCSCEEEEEECC-----------CCSGG---G--SSSSEEECCTTTCTTHHHHH
T ss_pred             EEeCCCC--CChHHHHHHHHHHH---cCCCEEEEEECccchhhh--hhHHHHHH---c--CCCceEEeecccccchHHHH
Confidence            4566542  22334566666654   478999999999986321  11111111   1  11236799999999999999


Q ss_pred             HHHHHhhh
Q psy2977          81 QWLIAHSK   88 (92)
Q Consensus        81 ~~l~~~i~   88 (92)
                      +++.+.+.
T Consensus       177 ~~i~~~l~  184 (456)
T 4dcu_A          177 DAVAEHFK  184 (456)
T ss_dssp             HHHHTTGG
T ss_pred             HHHHhhcc
Confidence            99998775

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=98.68  E-value=2.6e-09  Score=67.57  Aligned_cols=63  Identities=16%  Similarity=0.108  Sum_probs=41.5

Q ss_pred             CCCcEEEEeeCCCCCCCCCHH----HHHHhhccCCcC--CCceEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          27 IGIPILVLGNKRDLPNALDEK----ELIDRMNLCAIQ--DREICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~~~----~~~~~~~~~~~~--~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      .+.|.++|+||+|+.......    ++...+......  ....+++++||++|+||++++++|.+.+..
T Consensus       216 ~~~p~ivVlNK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~Gi~~L~~~i~~~~~~  284 (355)
T 3p32_A          216 LELADIVVVNKADGEHHKEARLAARELSAAIRLIYPREALWRPPVLTMSAVEGRGLAELWDTVERHRQV  284 (355)
T ss_dssp             GGGCSEEEEECCCGGGHHHHHHHHHHHHHHHHHHSTTCCSCCCCEEEEBGGGTBSHHHHHHHHHHHHHH
T ss_pred             hhcCCEEEEECCCCcChhHHHHHHHHHHHHHhhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            347999999999986322211    222222111000  123569999999999999999999988753

>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=98.67  E-value=1.9e-08  Score=64.63  Aligned_cols=83  Identities=23%  Similarity=0.197  Sum_probs=49.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCc-EEEEeeCCCCCCCCC-HH----HHHHhhccCCcCCCceEEEeeccccCC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIP-ILVLGNKRDLPNALD-EK----ELIDRMNLCAIQDREICCYSISCKERD   74 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p-~ilv~NK~Dl~~~~~-~~----~~~~~~~~~~~~~~~~~~~~~SA~~~~   74 (92)
                      |+|+++... ....+++..+..    .++| +++++||+|+.+... .+    ++.+.+..........+++++||++|.
T Consensus       105 Vvda~~g~~-~qt~~~l~~~~~----~~ip~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~SA~~g~  179 (405)
T 2c78_A          105 VVSAADGPM-PQTREHILLARQ----VGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPGDEVPVIRGSALLAL  179 (405)
T ss_dssp             EEETTTCCC-HHHHHHHHHHHH----TTCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTTSCTTTSCEEECCHHHHH
T ss_pred             EEECCCCCc-HHHHHHHHHHHH----cCCCEEEEEEECccccCcHHHHHHHHHHHHHHHHHhcccccCCCEEEccHHHhh
Confidence            468776432 233455544432    2577 889999999974211 11    222222211111124679999999998


Q ss_pred             C------------------HHHHHHHHHHhhh
Q psy2977          75 N------------------IDITLQWLIAHSK   88 (92)
Q Consensus        75 g------------------i~~~~~~l~~~i~   88 (92)
                      |                  +++++++|.+.+.
T Consensus       180 ~v~~~~~~~~~~~~~~~~~i~~Ll~~l~~~lp  211 (405)
T 2c78_A          180 EQMHRNPKTRRGENEWVDKIWELLDAIDEYIP  211 (405)
T ss_dssp             HHHHHCTTCCTTSCHHHHHHHHHHHHHHHHSC
T ss_pred             hhhccccccccCCCcccccHHHHHHHHHhhcC
Confidence            7                  8888888887664

>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=98.66  E-value=7e-09  Score=67.21  Aligned_cols=77  Identities=21%  Similarity=0.207  Sum_probs=42.7

Q ss_pred             CeeCCchhhHHHHHHHH---HH---hhcCCCCCCCcEEEEeeCCCCCCC-CCH-------HHHHHhhccCCcCCCceEEE
Q psy2977           1 MVDAADTDKLEASRNEL---HA---LIEKPQLIGIPILVLGNKRDLPNA-LDE-------KELIDRMNLCAIQDREICCY   66 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~---~~---~~~~~~~~~~p~ilv~NK~Dl~~~-~~~-------~~~~~~~~~~~~~~~~~~~~   66 (92)
                      |+|+++ .+|+....|.   .+   +...  ..-.|+++++||+|+.+. .+.       +++.+.+..........+++
T Consensus       114 VvDa~~-gsfe~~~~~~~qt~~~~~~~~~--~~~~~iivviNK~Dl~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~i  190 (435)
T 1jny_A          114 VVSAKK-GEYEAGMSVEGQTREHIILAKT--MGLDQLIVAVNKMDLTEPPYDEKRYKEIVDQVSKFMRSYGFNTNKVRFV  190 (435)
T ss_dssp             EEECST-THHHHHHSTTCHHHHHHHHHHH--TTCTTCEEEEECGGGSSSTTCHHHHHHHHHHHHHHHHHTTCCCTTCEEE
T ss_pred             EEECCC-CccccccccchHHHHHHHHHHH--cCCCeEEEEEEcccCCCccccHHHHHHHHHHHHHHHHHcCCCcCCceEE
Confidence            578887 6666433221   11   1111  122468999999999752 111       22333322111111247899


Q ss_pred             eeccccCCCHHHHH
Q psy2977          67 SISCKERDNIDITL   80 (92)
Q Consensus        67 ~~SA~~~~gi~~~~   80 (92)
                      ++||++|.|+.+++
T Consensus       191 ~iSA~~g~~v~e~~  204 (435)
T 1jny_A          191 PVVAPSGDNITHKS  204 (435)
T ss_dssp             ECBTTTTBTTTBCC
T ss_pred             EeecccCccccccc
Confidence            99999999998543

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

Probab=98.65  E-value=5.3e-08  Score=62.06  Aligned_cols=79  Identities=9%  Similarity=-0.022  Sum_probs=48.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcE-EEEee-CCCCCCCCCH----HHHHHhhccCCcCCCceEEEe--ecccc
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPI-LVLGN-KRDLPNALDE----KELIDRMNLCAIQDREICCYS--ISCKE   72 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~-ilv~N-K~Dl~~~~~~----~~~~~~~~~~~~~~~~~~~~~--~SA~~   72 (92)
                      |+| + ...+....+++..+..    .++|. ++++| |+|+ +....    +++.+.+...  ....+++++  +||++
T Consensus        90 Vvd-~-~g~~~qt~e~~~~~~~----~~i~~~ivvvNNK~Dl-~~~~~~~~~~~i~~~l~~~--~~~~~~ii~~~~SA~~  160 (370)
T 2elf_A           90 CIP-P-QGLDAHTGECIIALDL----LGFKHGIIALTRSDST-HMHAIDELKAKLKVITSGT--VLQDWECISLNTNKSA  160 (370)
T ss_dssp             EEC-T-TCCCHHHHHHHHHHHH----TTCCEEEEEECCGGGS-CHHHHHHHHHHHHHHTTTS--TTTTCEEEECCCCTTS
T ss_pred             EEc-C-CCCcHHHHHHHHHHHH----cCCCeEEEEEEeccCC-CHHHHHHHHHHHHHHHHhc--CCCceEEEeccccccc
Confidence            356 3 3334444444444332    24676 88999 9999 42211    2333333211  112478999  99999


Q ss_pred             ---CCCHHHHHHHHHHhhh
Q psy2977          73 ---RDNIDITLQWLIAHSK   88 (92)
Q Consensus        73 ---~~gi~~~~~~l~~~i~   88 (92)
                         |.|+++++++|.+.+.
T Consensus       161 ~~~g~gi~~L~~~l~~~~~  179 (370)
T 2elf_A          161 KNPFEGVDELKARINEVAE  179 (370)
T ss_dssp             SSTTTTHHHHHHHHHHHHH
T ss_pred             CcCCCCHHHHHHHHHhhcc
Confidence               9999999999988764

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=98.62  E-value=2.1e-09  Score=65.72  Aligned_cols=59  Identities=14%  Similarity=0.160  Sum_probs=29.2

Q ss_pred             CCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhh
Q psy2977          28 GIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHS   87 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i   87 (92)
                      .+|+++|+||+|+..........+.+. ..+...+++++++||++|+|+++++++|.+.+
T Consensus       144 ~~pvi~V~nK~D~~~~~e~~~~~~~i~-~~l~~~~i~v~~~sa~~~~~~~~l~~~l~~~~  202 (274)
T 3t5d_A          144 KVNIIPLIAKADTLTPEECQQFKKQIM-KEIQEHKIKIYEFPETDDEEENKLVKKIKDRL  202 (274)
T ss_dssp             TSCEEEEESSGGGSCHHHHHHHHHHHH-HHHHHTTCCCCCC-----------CHHHHHTC
T ss_pred             cCCEEEEEeccCCCCHHHHHHHHHHHH-HHHHHcCCeEEcCCCCCChhHHHHHHHHhcCC
Confidence            689999999999863222222111111 01113456789999999999999999998875

>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=98.60  E-value=2.9e-08  Score=63.68  Aligned_cols=83  Identities=19%  Similarity=0.121  Sum_probs=48.3

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCc-EEEEeeCCCCCCCCC-----HHHHHHhhccCCcCCCceEEEeeccccCC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIP-ILVLGNKRDLPNALD-----EKELIDRMNLCAIQDREICCYSISCKERD   74 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p-~ilv~NK~Dl~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~SA~~~~   74 (92)
                      |+|+++.... ...+.+..+..    .++| +++++||+|+.+...     .+++.+.+..........+++++||++|.
T Consensus        96 Vvda~~g~~~-qt~e~l~~~~~----~~vp~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~SA~~g~  170 (397)
T 1d2e_A           96 VVAANDGPMP-QTREHLLLARQ----IGVEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKGEETPIIVGSALCAL  170 (397)
T ss_dssp             EEETTTCSCH-HHHHHHHHHHH----TTCCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCTTTSCEEECCHHHHH
T ss_pred             EEECCCCCCH-HHHHHHHHHHH----cCCCeEEEEEECcccCCCHHHHHHHHHHHHHHHHHcCCCcccCcEEEeehhhcc
Confidence            4677763222 22233333322    2578 689999999974211     11233332211111224689999999977


Q ss_pred             C----------HHHHHHHHHHhhh
Q psy2977          75 N----------IDITLQWLIAHSK   88 (92)
Q Consensus        75 g----------i~~~~~~l~~~i~   88 (92)
                      |          +++++++|.+.+.
T Consensus       171 n~~~~~~~~g~i~~Ll~~l~~~~p  194 (397)
T 1d2e_A          171 EQRDPELGLKSVQKLLDAVDTYIP  194 (397)
T ss_dssp             TTCCTTTTHHHHHHHHHHHHHHSC
T ss_pred             cccCCCccCCcHHHHHHHHHHhCC
Confidence            4          8999999988764

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=98.60  E-value=8.6e-08  Score=55.89  Aligned_cols=59  Identities=17%  Similarity=0.089  Sum_probs=40.2

Q ss_pred             CCcEEEEeeCCCCCCCCC----HHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          28 GIPILVLGNKRDLPNALD----EKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~----~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      +.|.++++||+|+.....    ...+...+..   ....+.++++||+++.|+++++++|.+.+.+
T Consensus       137 ~~~~~~v~nK~D~~s~~~~~~~~~~~~~~~~~---~~~~~~~~~~Sal~~~~~~~l~~~l~~~~~~  199 (210)
T 1pui_A          137 NIAVLVLLTKADKLASGARKAQLNMVREAVLA---FNGDVQVETFSSLKKQGVDKLRQKLDTWFSE  199 (210)
T ss_dssp             TCCEEEEEECGGGSCHHHHHHHHHHHHHHHGG---GCSCEEEEECBTTTTBSHHHHHHHHHHHHC-
T ss_pred             CCCeEEEEecccCCCchhHHHHHHHHHHHHHh---cCCCCceEEEeecCCCCHHHHHHHHHHHHhh
Confidence            579999999999863211    1122222210   1224678999999999999999999987654

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

Probab=98.56  E-value=1.1e-07  Score=61.79  Aligned_cols=54  Identities=20%  Similarity=0.235  Sum_probs=32.9

Q ss_pred             CCc-EEEEeeCCCCCCCC-C---HHHHHH----hhccCCcC-CCceEEEeeccccCCCHHHHHH
Q psy2977          28 GIP-ILVLGNKRDLPNAL-D---EKELID----RMNLCAIQ-DREICCYSISCKERDNIDITLQ   81 (92)
Q Consensus        28 ~~p-~ilv~NK~Dl~~~~-~---~~~~~~----~~~~~~~~-~~~~~~~~~SA~~~~gi~~~~~   81 (92)
                      ++| +++++||+|++... +   .+++.+    .+...... ...++++++||++|.|++++++
T Consensus       154 ~v~~iIvviNK~Dl~~~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~~i~iSA~~G~ni~~l~~  217 (439)
T 3j2k_7          154 GVKHLIVLINKMDDPTVNWSNERYEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQSD  217 (439)
T ss_pred             CCCeEEEEeecCCCcccchHHHHHHHHHHHHHHHHHHhcccccCCeeEEEeeccCCcccccccc
Confidence            456 89999999996421 1   122222    21111111 1246899999999999999544

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=98.56  E-value=6.3e-08  Score=55.72  Aligned_cols=53  Identities=30%  Similarity=0.369  Sum_probs=40.1

Q ss_pred             CeeCC-chhhHHHHHHHHHHhhcCC---CCCCCcEEEEeeCCCCCCCCCHHHHHHhh
Q psy2977           1 MVDAA-DTDKLEASRNELHALIEKP---QLIGIPILVLGNKRDLPNALDEKELIDRM   53 (92)
Q Consensus         1 v~D~s-~~~~~~~~~~~~~~~~~~~---~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~   53 (92)
                      |+|++ +++++.....|+..++...   ...+.|+++|+||+|+.+....+++.+.+
T Consensus       125 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~l  181 (193)
T 2ged_A          125 MVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKDAL  181 (193)
T ss_dssp             EEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHHHHHHHH
T ss_pred             EEECCCCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHhcCCCCHHHHHHHH
Confidence            57999 8889988888888876532   12468999999999998766666655544

>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=98.54  E-value=5.5e-08  Score=69.48  Aligned_cols=83  Identities=18%  Similarity=0.163  Sum_probs=49.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCc-EEEEeeCCCCCCCCCH-----HHHHHhhccCCcCCCceEEEeeccccC-
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIP-ILVLGNKRDLPNALDE-----KELIDRMNLCAIQDREICCYSISCKER-   73 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p-~ilv~NK~Dl~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~SA~~~-   73 (92)
                      |||+++... ....+++..+..    .++| +++++||+|+.+....     +++.+.+.........++++++||++| 
T Consensus       389 VVDAtdGv~-~QTrEhL~ll~~----lgIP~IIVVINKiDLv~d~e~le~i~eEi~elLk~~G~~~~~vp~IpvSAktG~  463 (1289)
T 3avx_A          389 VVAATDGPM-PQTREHILLGRQ----VGVPYIIVFLNKCDMVDDEELLELVEMEVRELLSQYDFPGDDTPIVRGSALKAL  463 (1289)
T ss_dssp             EEETTTCSC-TTHHHHHHHHHH----HTCSCEEEEEECCTTCCCHHHHHHHHHHHHHHHHHTTSCTTTCCEEECCSTTTT
T ss_pred             EEcCCccCc-HHHHHHHHHHHH----cCCCeEEEEEeecccccchhhHHHHHHHHHHHHHhccccccceeEEEEEeccCC
Confidence            567776422 223344433322    2577 7899999999752111     123333221111123468999999999 


Q ss_pred             -------CCHHHHHHHHHHhhh
Q psy2977          74 -------DNIDITLQWLIAHSK   88 (92)
Q Consensus        74 -------~gi~~~~~~l~~~i~   88 (92)
                             .||++++++|.+.+.
T Consensus       464 ng~~~w~eGI~eLleaL~~~Ip  485 (1289)
T 3avx_A          464 EGDAEWEAKILELAGFLDSYIP  485 (1289)
T ss_dssp             TCCHHHHHHHHHHHHHHHHTSC
T ss_pred             CCCccccccchhhHhHHhhhcC
Confidence                   579999999988664

>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=98.54  E-value=1.5e-07  Score=60.96  Aligned_cols=75  Identities=19%  Similarity=0.047  Sum_probs=40.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCC--H----HHHHHhhccCCcCCCceEEEeeccccCC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALD--E----KELIDRMNLCAIQDREICCYSISCKERD   74 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~--~----~~~~~~~~~~~~~~~~~~~~~~SA~~~~   74 (92)
                      |+|+++... ....+++..+...   .-.|+++|+||+|+.+...  .    +++.+.+.........++++++||++|.
T Consensus       134 VvDa~~g~~-~qt~~~l~~~~~~---~~~~iIvviNK~Dl~~~~~~~~~~i~~~~~~~~~~~g~~~~~~~~i~vSA~~g~  209 (434)
T 1zun_B          134 LVDARYGVQ-TQTRRHSYIASLL---GIKHIVVAINKMDLNGFDERVFESIKADYLKFAEGIAFKPTTMAFVPMSALKGD  209 (434)
T ss_dssp             EEETTTCSC-HHHHHHHHHHHHT---TCCEEEEEEECTTTTTSCHHHHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCT
T ss_pred             EEECCCCCc-HHHHHHHHHHHHc---CCCeEEEEEEcCcCCcccHHHHHHHHHHHHHHHHHhCCCccCceEEEEeccCCC
Confidence            567776432 2233344333221   2236999999999975211  1    1122221111000124789999999999


Q ss_pred             CHHHH
Q psy2977          75 NIDIT   79 (92)
Q Consensus        75 gi~~~   79 (92)
                      |++++
T Consensus       210 gi~~~  214 (434)
T 1zun_B          210 NVVNK  214 (434)
T ss_dssp             TTSSC
T ss_pred             Ccccc
Confidence            99874

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=98.49  E-value=1.3e-07  Score=59.56  Aligned_cols=61  Identities=16%  Similarity=0.132  Sum_probs=40.1

Q ss_pred             CCcEEEEeeCCCCCCCCCHH----HHHHhhccCCc--CCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          28 GIPILVLGNKRDLPNALDEK----ELIDRMNLCAI--QDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~----~~~~~~~~~~~--~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      +.|.++|+||+|+.+.....    ++.+.++....  .....+++++||++|.|+++++++|.+.+.
T Consensus       194 ~~p~ivv~NK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~gi~~L~~~l~~~~~  260 (341)
T 2p67_A          194 EVADLIVINKDDGDNHTNVAIARHMYESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKT  260 (341)
T ss_dssp             HHCSEEEECCCCTTCHHHHHHHHHHHHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             cccCEEEEECCCCCChHHHHHHHHHHHHHHHhccccccCCCCcEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            46889999999996431222    23322221110  111346899999999999999999988664

>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=98.49  E-value=9e-08  Score=62.78  Aligned_cols=50  Identities=14%  Similarity=0.042  Sum_probs=31.2

Q ss_pred             CcEEEEeeCCCCCCCC--CHHHHHHhhc----cCCcCCCceEEEeeccccCCCHHH
Q psy2977          29 IPILVLGNKRDLPNAL--DEKELIDRMN----LCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~--~~~~~~~~~~----~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      .|+++|+||+|+.+..  ..+++.+.+.    .........+++++||++|.||++
T Consensus       172 ~~iIvviNK~Dl~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~i~iSA~~g~gi~e  227 (483)
T 3p26_A          172 HNLIIAMNKMDNVDWSQQRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYK  227 (483)
T ss_dssp             CCEEEEEECGGGGTTCHHHHHHHHHHHHHHHHHHTCCGGGEEEEECCSSSCTTSSS
T ss_pred             CcEEEEEECcCcccchHHHHHHHHHHHHHHHHHcCCCcccceEEEEeeecCCCccc
Confidence            5799999999997521  1122222211    001111257899999999999985

>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=98.49  E-value=8e-08  Score=58.06  Aligned_cols=85  Identities=11%  Similarity=0.115  Sum_probs=47.4

Q ss_pred             CeeCCchhhHH-HHHHHHHHhhcCCCCCCCcEEEEee-CCCCCCCCCHHH---------HHHhhccCCcCCCc--eEEEe
Q psy2977           1 MVDAADTDKLE-ASRNELHALIEKPQLIGIPILVLGN-KRDLPNALDEKE---------LIDRMNLCAIQDRE--ICCYS   67 (92)
Q Consensus         1 v~D~s~~~~~~-~~~~~~~~~~~~~~~~~~p~ilv~N-K~Dl~~~~~~~~---------~~~~~~~~~~~~~~--~~~~~   67 (92)
                      |+|+++..... .+..++.++... . ...|.++++| |+|+... ....         +.......  ....  +..++
T Consensus       112 V~d~~~~~~~~~~~~~~l~~~~~~-~-~~~~~i~vv~nK~Dl~~~-~~~~~i~~~~~~~~~~~~~~~--~~~~~~~~~~~  186 (260)
T 2xtp_A          112 VTQLGRYTSQDQQAAQRVKEIFGE-D-AMGHTIVLFTHKEDLNGG-SLMDYMHDSDNKALSKLVAAC--GGRICAFNNRA  186 (260)
T ss_dssp             EEETTCCCHHHHHHHHHHHHHHCG-G-GGGGEEEEEECGGGGTTC-CHHHHHHHCCCHHHHHHHHHT--TTCEEECCTTC
T ss_pred             EEeCCCCCHHHHHHHHHHHHHhCc-h-hhccEEEEEEcccccCCc-cHHHHHHhcchHHHHHHHHHh--CCeEEEecCcc
Confidence            46777533222 223445544321 1 1356666666 9999743 3322         11111111  1111  11278


Q ss_pred             eccccCCCHHHHHHHHHHhhhhc
Q psy2977          68 ISCKERDNIDITLQWLIAHSKSH   90 (92)
Q Consensus        68 ~SA~~~~gi~~~~~~l~~~i~~~   90 (92)
                      +||++|.|++++|++|.+.+...
T Consensus       187 ~SA~~~~gv~~l~~~i~~~~~~~  209 (260)
T 2xtp_A          187 EGSNQDDQVKELMDCIEDLLMEK  209 (260)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             cccccHHHHHHHHHHHHHHHHhC
Confidence            99999999999999999988754

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=98.47  E-value=1.3e-07  Score=63.46  Aligned_cols=60  Identities=23%  Similarity=0.181  Sum_probs=38.3

Q ss_pred             CCc-EEEEeeCCCCCCCCC--H----HHHHHhh-ccCCcCCCceEEEeeccccCCCHH--------------HHHHHHHH
Q psy2977          28 GIP-ILVLGNKRDLPNALD--E----KELIDRM-NLCAIQDREICCYSISCKERDNID--------------ITLQWLIA   85 (92)
Q Consensus        28 ~~p-~ilv~NK~Dl~~~~~--~----~~~~~~~-~~~~~~~~~~~~~~~SA~~~~gi~--------------~~~~~l~~   85 (92)
                      ++| +++|+||+|+.+...  .    .++...+ .........++++++||++|.||.              .+++.|..
T Consensus       314 gip~iIvviNKiDl~~~~~~~~~~i~~el~~~l~~~~g~~~~~~~ii~iSA~~G~gI~e~~~~~~~~w~~g~~Lle~l~~  393 (592)
T 3mca_A          314 GISEIVVSVNKLDLMSWSEDRFQEIKNIVSDFLIKMVGFKTSNVHFVPISAISGTNLIQKDSSDLYKWYKGPTLLSALDQ  393 (592)
T ss_dssp             SCCCEEEEEECGGGGTTCHHHHHHHHHHHHHHHTTTSCCCGGGEEEEEECSSSCSSSCSCCCCGGGGTCCSCCHHHHHHT
T ss_pred             CCCeEEEEEeccccccccHHHHHHHHHHHHHHHHHhhCCCccceEEEEEecccCcccccccccccccccchHHHHHHHHh
Confidence            355 899999999974211  1    2233332 111111235689999999999998              68888776


Q ss_pred             hh
Q psy2977          86 HS   87 (92)
Q Consensus        86 ~i   87 (92)
                      .+
T Consensus       394 ~~  395 (592)
T 3mca_A          394 LV  395 (592)
T ss_dssp             SC
T ss_pred             hc
Confidence            54

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=98.39  E-value=3.4e-07  Score=62.47  Aligned_cols=85  Identities=14%  Similarity=0.112  Sum_probs=50.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHH----------HHHH----hhccC-C---cCC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEK----------ELID----RMNLC-A---IQD   60 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~----------~~~~----~~~~~-~---~~~   60 (92)
                      |+|++++.+......|. +.+..   .+.|+++|+||+|+....  +.+          .+..    .+... .   ...
T Consensus       207 Vvda~~~~s~~e~~~l~-~~l~~---~~~~iiiVlNK~Dl~~~~~~~~ee~e~l~~~~~~i~~~~~~~l~~~~~~~g~~~  282 (695)
T 2j69_A          207 VMRASQPCTLGERRYLE-NYIKG---RGLTVFFLVNAWDQVRESLIDPDDVEELQASENRLRQVFNANLAEYCTVEGQNI  282 (695)
T ss_dssp             EEETTSTTCHHHHHHHH-HHTTT---SCCCEEEEEECGGGGGGGCSSTTCHHHHHHHHHHHHHHHHHHHGGGGBSSSCBC
T ss_pred             EEeCCCccchhHHHHHH-HHHHh---hCCCEEEEEECcccccccccChhhHHHHHHHHHHHHHHHHHHHHHhhccccccc
Confidence            56877765555443333 33322   257899999999985321  111          1211    11100 0   001


Q ss_pred             CceEEEeeccc--------------cCCCHHHHHHHHHHhhhh
Q psy2977          61 REICCYSISCK--------------ERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        61 ~~~~~~~~SA~--------------~~~gi~~~~~~l~~~i~~   89 (92)
                      ...++++|||+              +|.|+++++.+|.+.+..
T Consensus       283 ~~~~v~~vSAk~al~~~~~~~~~~~~~~Gi~~L~~~L~~~l~~  325 (695)
T 2j69_A          283 YDERVFELSSIQALRRRLKNPQADLDGTGFPKFMDSLNTFLTR  325 (695)
T ss_dssp             GGGTEEECCHHHHHHHHHHCTTCCCTTSSHHHHHHHHHHHHHH
T ss_pred             CCCcEEEEeChHHHHhhccCchhhhhccCHHHHHHHHHHHHHH
Confidence            23468999999              999999999999987753

>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=98.37  E-value=9.6e-07  Score=60.05  Aligned_cols=26  Identities=8%  Similarity=-0.097  Sum_probs=23.8

Q ss_pred             eEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          63 ICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        63 ~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      .+++.+||++|.||+++|++|.+.+.
T Consensus       248 ~pv~~~SA~~~~Gv~~Ll~~i~~~lp  273 (665)
T 2dy1_A          248 YPVALASGEREIGVLPLLELILEALP  273 (665)
T ss_dssp             EEEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             eEEEEeecccCcCHHHHHHHHHHhCC
Confidence            57999999999999999999998774

>2x2e_A Dynamin-1; nitration, hydrolase, membrane fission, nucleotide-binding, endocytosis, motor protein; HET: GDP; 2.00A {Homo sapiens} PDB: 2x2f_A* 3zyc_A* 3zys_A

Probab=98.37  E-value=1e-07  Score=60.21  Aligned_cols=58  Identities=19%  Similarity=0.134  Sum_probs=38.4

Q ss_pred             CCCcEEEEeeCCCCCCCCC-HHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHH
Q psy2977          27 IGIPILVLGNKRDLPNALD-EKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIA   85 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~   85 (92)
                      .+.|+++|+||+|+.+... ...+.+. ....+......++.+||++|.|++++++++.+
T Consensus       196 ~~~~~i~V~NK~Dl~~~~~~~~~~~~~-~~~~l~~~~~~v~~~SA~~~~~i~~l~~~l~~  254 (353)
T 2x2e_A          196 QGQRTIGVITKLDLMDEGTDARDVLEN-KLLPLRRGYIGVVNRSQKDIDGKKDITAALAA  254 (353)
T ss_dssp             TCTTEEEEEECGGGSCTTCCCHHHHTT-CSSCCTTCEEECCCCCHHHHHTTCCHHHHHHH
T ss_pred             CCCceEEEeccccccCcchhHHHHHhC-CcccccCCceEEEeCCcccccccccHHHHHHH
Confidence            4689999999999975322 1222211 11111112246889999999999999999876

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=98.36  E-value=4.3e-07  Score=57.45  Aligned_cols=61  Identities=16%  Similarity=0.092  Sum_probs=39.0

Q ss_pred             CCcEEEEeeCCCCCCCCC----HHHHHHhhccCCc--CCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          28 GIPILVLGNKRDLPNALD----EKELIDRMNLCAI--QDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~----~~~~~~~~~~~~~--~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      +.|.++|+||+|+.+...    ...+...+.....  .....+++.+||++|+|+++++++|.+.+.
T Consensus       212 ~~~~ivVlNK~Dl~~~~~~~~~~~~l~~~l~~~~~~a~~~~~~vi~iSA~~g~Gi~~L~~~I~~~~~  278 (349)
T 2www_A          212 EMADLVAVTKSDGDLIVPARRIQAEYVSALKLLRKRSQVWKPKVIRISARSGEGISEMWDKMKDFQD  278 (349)
T ss_dssp             CSCSEEEECCCSGGGHHHHHHHHHHHHHHHTTCC-----CCCEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             hcCCEEEEeeecCCCchhHHHHHHHHHHHHHhcCccccCCCceEEEEecCCCCCHHHHHHHHHHHHH
Confidence            468899999999863111    1122222221100  012346899999999999999999988753

>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=98.34  E-value=4.6e-08  Score=63.97  Aligned_cols=53  Identities=21%  Similarity=0.283  Sum_probs=33.0

Q ss_pred             CCc-EEEEeeCCCCCCCC-CHH-------HHHHhhccC-CcC-CCceEEEeeccccCCCHHHHH
Q psy2977          28 GIP-ILVLGNKRDLPNAL-DEK-------ELIDRMNLC-AIQ-DREICCYSISCKERDNIDITL   80 (92)
Q Consensus        28 ~~p-~ilv~NK~Dl~~~~-~~~-------~~~~~~~~~-~~~-~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      ++| +++++||+|++... +.+       ++.+.+... .+. ...++++++||++|.|+++++
T Consensus       180 ~vp~iivviNK~Dl~~~~~~~~~~~~i~~e~~~~l~~~~g~~~~~~~~~i~vSA~~g~~i~~l~  243 (467)
T 1r5b_A          180 GINHLVVVINKMDEPSVQWSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRV  243 (467)
T ss_dssp             TCSSEEEEEECTTSTTCSSCHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCC
T ss_pred             CCCEEEEEEECccCCCccccHHHHHHHHHHHHHHHHHhcCCCccCCceEEeccccccccccccc
Confidence            566 99999999996421 221       223222110 111 125789999999999998754

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=98.32  E-value=7.1e-08  Score=64.99  Aligned_cols=51  Identities=14%  Similarity=0.042  Sum_probs=31.4

Q ss_pred             CcEEEEeeCCCCCCCC--CHHHHHHhh----ccCCcCCCceEEEeeccccCCCHHHH
Q psy2977          29 IPILVLGNKRDLPNAL--DEKELIDRM----NLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~--~~~~~~~~~----~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      .|+++|+||+|+.+..  ..+++...+    ..........++++|||++|.||+++
T Consensus       306 ~~iIVVvNKiDl~~~~~~~~~ei~~~l~~~l~~~g~~~~~~~~i~vSA~tG~gI~el  362 (611)
T 3izq_1          306 HNLIIAMNKMDNVDWSQQRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKI  362 (611)
T ss_dssp             CEEEEEEECTTTTTTCHHHHHHHHHHHHHHHHHHTCCGGGCEEEECCTTTCTTTSSC
T ss_pred             CeEEEEEecccccchhHHHHHHHHHHHHHHHHhhcccccCccEEeeecccCCCcccc
Confidence            4699999999997521  112222221    10011112468999999999999865

>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=98.29  E-value=1.4e-06  Score=57.92  Aligned_cols=26  Identities=12%  Similarity=0.029  Sum_probs=23.2

Q ss_pred             eEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          63 ICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        63 ~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      .+++..||++|.||+++++.+.+.+.
T Consensus       252 ~Pv~~gSA~~~~Gv~~LLd~i~~~~P  277 (529)
T 2h5e_A          252 TPVFFGTALGNFGVDHMLDGLVEWAP  277 (529)
T ss_dssp             EEEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             eEEEeeecccCCCHHHHHHHHHHhCC
Confidence            47889999999999999999998764

>3zvr_A Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mitochondrial fission, GT stalk, PH, BSE, membrane fission; HET: 1PE; 3.10A {Rattus norvegicus} PDB: 3snh_A

Probab=98.27  E-value=4.8e-07  Score=62.37  Aligned_cols=59  Identities=19%  Similarity=0.134  Sum_probs=38.9

Q ss_pred             CCCcEEEEeeCCCCCCCCC-HHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHh
Q psy2977          27 IGIPILVLGNKRDLPNALD-EKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAH   86 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~   86 (92)
                      .+.|+++|+||+|+.+... ...+... ....+......++.+||++|.|++++++.+.+.
T Consensus       216 ~g~pvIlVlNKiDlv~~~~~~~~il~~-~~~~l~lg~~~VV~iSA~~G~GvdeL~eaI~~e  275 (772)
T 3zvr_A          216 QGQRTIGVITKLDLMDEGTDARDVLEN-KLLPLRRGYIGVVNRSQKDIDGKKDITAALAAE  275 (772)
T ss_dssp             TCSSEEEEEECTTSSCTTCCSHHHHTT-CSSCCSSCEEECCCCCCEESSSSEEHHHHHHHH
T ss_pred             cCCCEEEEEeCcccCCcchhhHHHHHH-HhhhhhccCCceEEecccccccchhHHHHHHHH
Confidence            3689999999999974322 1222221 111111123468899999999999999998873

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=98.24  E-value=5.5e-08  Score=60.40  Aligned_cols=56  Identities=18%  Similarity=0.226  Sum_probs=31.2

Q ss_pred             CCcEEEEeeCCCCCCCCCH----HHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          28 GIPILVLGNKRDLPNALDE----KELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~----~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      ..|+++|+||.|+......    +++.+.+     ...++.++++||++| |++++|.++.+.+.+
T Consensus       155 ~~~iilV~~K~Dl~~~~e~~~~~~~~~~~~-----~~~~~~~~e~Sa~~~-~v~e~f~~l~~~i~~  214 (301)
T 2qnr_A          155 KVNIVPVIAKADTLTLKERERLKKRILDEI-----EEHNIKIYHLPDAES-DEDEDFKEQTRLLKA  214 (301)
T ss_dssp             TSCEEEEECCGGGSCHHHHHHHHHHHHHHH-----HHTTCCCCCCC----------CHHHHHHHHT
T ss_pred             cCCEEEEEEeCCCCCHHHHHHHHHHHHHHH-----HHcCCeEEecCCccc-cccHHHHHHHHHhhc
Confidence            5799999999998632111    1222221     223567899999999 999999999988754

>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=98.23  E-value=3.3e-07  Score=59.85  Aligned_cols=52  Identities=19%  Similarity=0.132  Sum_probs=30.4

Q ss_pred             CCc-EEEEeeCCCCCCCCC--HHH----HHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977          28 GIP-ILVLGNKRDLPNALD--EKE----LIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus        28 ~~p-~ilv~NK~Dl~~~~~--~~~----~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      ++| +++++||+|+.+...  .++    +.+.+.........++++++||++|.|+.++
T Consensus       144 ~v~~iivviNK~Dl~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~i~vSA~~g~nv~~~  202 (458)
T 1f60_A          144 GVRQLIVAVNKMDSVKWDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIEA  202 (458)
T ss_dssp             TCCEEEEEEECGGGGTTCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTBC
T ss_pred             CCCeEEEEEEccccccCCHHHHHHHHHHHHHHHHHcCCCccCceEEEeecccCcCcccc
Confidence            455 899999999973211  112    2222111111111367999999999999743

>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=98.23  E-value=1.1e-05  Score=55.17  Aligned_cols=26  Identities=8%  Similarity=0.057  Sum_probs=23.6

Q ss_pred             eEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          63 ICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        63 ~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      .+++..||++|.|++.+++.+.+.+.
T Consensus       256 ~Pv~~gSA~~~~Gv~~LLd~i~~~lP  281 (691)
T 1dar_A          256 TPVFLGSALKNKGVQLLLDAVVDYLP  281 (691)
T ss_dssp             EEEEECBGGGTBSHHHHHHHHHHHSC
T ss_pred             eEEEEeecccCcCHHHHHHHHHHhCC
Confidence            57899999999999999999999874

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.20  E-value=3e-07  Score=56.10  Aligned_cols=53  Identities=11%  Similarity=0.092  Sum_probs=36.4

Q ss_pred             CCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHh
Q psy2977          28 GIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAH   86 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~   86 (92)
                      ++|.++|+||+||.+....+...+.+.     ..+.++ .+||++|.|++++++++...
T Consensus        46 ~k~~iivlNK~DL~~~~~~~~~~~~~~-----~~g~~v-~iSa~~~~gi~~L~~~l~~~   98 (262)
T 3cnl_A           46 RKETIILLNKVDIADEKTTKKWVEFFK-----KQGKRV-ITTHKGEPRKVLLKKLSFDR   98 (262)
T ss_dssp             TSEEEEEEECGGGSCHHHHHHHHHHHH-----HTTCCE-EECCTTSCHHHHHHHHCCCT
T ss_pred             CCCcEEEEECccCCCHHHHHHHHHHHH-----HcCCeE-EEECCCCcCHHHHHHHHHHh
Confidence            689999999999974211122233321     123456 99999999999999887553

>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=98.17  E-value=2.3e-06  Score=52.86  Aligned_cols=61  Identities=20%  Similarity=0.078  Sum_probs=38.3

Q ss_pred             CCCcEEEEeeCCCCCCCCC--HHHHHHhhccCCcCCCceEEEeecccc---CCCHHHHHHHHHHhhhh
Q psy2977          27 IGIPILVLGNKRDLPNALD--EKELIDRMNLCAIQDREICCYSISCKE---RDNIDITLQWLIAHSKS   89 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~SA~~---~~gi~~~~~~l~~~i~~   89 (92)
                      .+.|+++|+||+|+.....  .+.+...+  .......+++..+||.+   +.|+.++++++.+.+..
T Consensus       197 ~~~~~i~v~NK~Dl~~~~~~~~~~~~~~~--~~~~~~~~~v~~~sa~~~~~~~gv~~l~~~~~~~~~~  262 (315)
T 1jwy_B          197 EGKRTIGVITKLDLMDKGTDAMEVLTGRV--IPLTLGFIGVINRSQEDIIAKKSIRESLKSEILYFKN  262 (315)
T ss_dssp             SCSSEEEEEECTTSSCSSCCCHHHHTTSS--SCCTTCEEECCCCCHHHHSSSCCHHHHHHHHHHHHHT
T ss_pred             CCCcEEEEEcCcccCCcchHHHHHHhCCC--ccCCCCeEEEecCChhhhccCCCHHHHHHHHHHHHhC
Confidence            3689999999999975332  22221110  11101223456677777   89999999998887754

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=98.14  E-value=1.9e-07  Score=58.28  Aligned_cols=52  Identities=17%  Similarity=0.182  Sum_probs=35.3

Q ss_pred             CCCcEEEEeeCCCCCCCCC----HHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHH
Q psy2977          27 IGIPILVLGNKRDLPNALD----EKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWL   83 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~----~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l   83 (92)
                      .++|.+||+||+||.+...    .+.+.+.+.     ..+++++.+||.+|.|+++++..+
T Consensus       116 ~~~~~vivlnK~DL~~~~~~~~~~~~~~~~y~-----~~g~~v~~~sa~~~~g~~~L~~~~  171 (307)
T 1t9h_A          116 NDIQPIICITKMDLIEDQDTEDTIQAYAEDYR-----NIGYDVYLTSSKDQDSLADIIPHF  171 (307)
T ss_dssp             TTCEEEEEEECGGGCCCHHHHHHHHHHHHHHH-----HHTCCEEECCHHHHTTCTTTGGGG
T ss_pred             CCCCEEEEEECCccCchhhhHHHHHHHHHHHH-----hCCCeEEEEecCCCCCHHHHHhhc
Confidence            4689999999999975322    122333221     123578999999999998876644

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=98.06  E-value=2.8e-06  Score=54.03  Aligned_cols=54  Identities=17%  Similarity=0.172  Sum_probs=35.1

Q ss_pred             CCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHH
Q psy2977          28 GIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWL   83 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l   83 (92)
                      ++|.+||+||+||.+....+.+.+....  ....+++++.+||.+|.|++++...+
T Consensus       160 ~~~~iivlNK~DL~~~~~~~~~~~~~~~--y~~~G~~v~~~Sa~~~~gl~~L~~~~  213 (358)
T 2rcn_A          160 QVEPLIVLNKIDLLDDEGMDFVNEQMDI--YRNIGYRVLMVSSHTQDGLKPLEEAL  213 (358)
T ss_dssp             TCEEEEEEECGGGCCHHHHHHHHHHHHH--HHTTTCCEEECBTTTTBTHHHHHHHH
T ss_pred             CCCEEEEEECccCCCchhHHHHHHHHHH--HHhCCCcEEEEecCCCcCHHHHHHhc
Confidence            5788999999999743211112221111  11234678999999999999987754

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=97.98  E-value=7.2e-05  Score=51.22  Aligned_cols=26  Identities=8%  Similarity=0.015  Sum_probs=23.5

Q ss_pred             eEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          63 ICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        63 ~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      .+++..||++|.|++.+++.+.+.+.
T Consensus       254 ~Pv~~gSA~~~~Gv~~LLd~i~~~lP  279 (693)
T 2xex_A          254 YPVLCGTAFKNKGVQLMLDAVIDYLP  279 (693)
T ss_dssp             EEEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             eeEEEeecccCcCHHHHHHHHHHHCC
Confidence            46899999999999999999998874

>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=97.89  E-value=8.8e-05  Score=50.89  Aligned_cols=26  Identities=15%  Similarity=0.034  Sum_probs=23.3

Q ss_pred             eEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          63 ICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        63 ~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      .+++..||++|.|++.+++.+.+.+.
T Consensus       262 ~Pv~~gSa~~~~Gv~~LLd~i~~~lP  287 (704)
T 2rdo_7          262 ILVTCGSAFKNKGVQAMLDAVIDYLP  287 (704)
T ss_pred             eEEEEeecccCccHHHHHHHHHHHCC
Confidence            46889999999999999999998874

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

Probab=97.89  E-value=6.6e-05  Score=50.15  Aligned_cols=26  Identities=8%  Similarity=0.011  Sum_probs=23.4

Q ss_pred             eEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          63 ICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        63 ~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      .+++..||+++.||+.+++.+.+.+.
T Consensus       269 ~PV~~gSA~~~~Gv~~LLd~iv~~~P  294 (548)
T 3vqt_A          269 TPVFFGSAINNFGVREMLDMFVEFAP  294 (548)
T ss_dssp             EEEEECBGGGTBSHHHHHHHHHHHSC
T ss_pred             ceeeecccccCcCHHHHHHHHHHhCC
Confidence            57888999999999999999998874

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=97.80  E-value=4.1e-05  Score=48.21  Aligned_cols=60  Identities=13%  Similarity=0.073  Sum_probs=37.4

Q ss_pred             CcEEEEeeCCCCCCCCC-----HHHHHHhhccCCcC--CCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          29 IPILVLGNKRDLPNALD-----EKELIDRMNLCAIQ--DREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~~-----~~~~~~~~~~~~~~--~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      .|.++++||+|+.....     .+.+...+.+....  ....+++.+||++|.|+++++++|.+...
T Consensus       194 ~~~ivvlNK~Dl~~~~~~s~~~~~~l~~a~~l~~~~~~~~~~~vl~~Sal~g~gi~~L~~~I~~~~~  260 (337)
T 2qm8_A          194 LADMIAVNKADDGDGERRASAAASEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRS  260 (337)
T ss_dssp             HCSEEEEECCSTTCCHHHHHHHHHHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             cccEEEEEchhccCchhHHHHHHHHHHHHHHhccccccCCCCCEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            46688889999743211     12222222211100  11246888999999999999999988654

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=97.80  E-value=4.8e-06  Score=49.67  Aligned_cols=58  Identities=9%  Similarity=0.034  Sum_probs=32.8

Q ss_pred             CCcEEEEeeCCCCCCCCCHH--------HHHHhhccCCcCCCceEEEeeccc-----cCCCHHHHHHHHHHhhhhc
Q psy2977          28 GIPILVLGNKRDLPNALDEK--------ELIDRMNLCAIQDREICCYSISCK-----ERDNIDITLQWLIAHSKSH   90 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~SA~-----~~~gi~~~~~~l~~~i~~~   90 (92)
                      ..|+++|+||+|+......+        .+.+...     ..+..++.+++.     ++.|+.++|..+.+.+.++
T Consensus       145 ~~~~iiv~nK~D~~~~~~~~~~i~~~~~~l~~l~~-----~~~~~~~~~~~~~~~~~~~~~v~~ll~~i~~~~~~~  215 (239)
T 3lxx_A          145 RSFMILIFTRKDDLGDTNLHDYLREAPEDIQDLMD-----IFGDRYCALNNKATGAEQEAQRAQLLGLIQRVVREN  215 (239)
T ss_dssp             GGGEEEEEECGGGC------------CHHHHHHHH-----HHSSSEEECCTTCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             cceEEEEEeCCccCCcccHHHHHHhchHHHHHHHH-----HcCCEEEEEECCCCccccHHHHHHHHHHHHHHHHHc
Confidence            36999999999986432222        1222111     111224444443     4479999999998888654

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=97.74  E-value=4.3e-06  Score=54.18  Aligned_cols=64  Identities=16%  Similarity=0.147  Sum_probs=27.1

Q ss_pred             HHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHH---hhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhh
Q psy2977          15 NELHALIEKPQLIGIPILVLGNKRDLPNALDEKELID---RMNLCAIQDREICCYSISCKERDNIDITLQWLIAHS   87 (92)
Q Consensus        15 ~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~---~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i   87 (92)
                      .|+..+.     .++|+++|+||+|+..   ..++..   ... ..+...++.++++||+++.|++++|..+...+
T Consensus       159 ~~lk~L~-----~~v~iIlVinK~Dll~---~~ev~~~k~~i~-~~~~~~~i~~~~~sa~~~~~v~~~~~~l~~~i  225 (418)
T 2qag_C          159 EFMKRLH-----EKVNIIPLIAKADTLT---PEECQQFKKQIM-KEIQEHKIKIYEFPETDDEEENKLVKKIKDRL  225 (418)
T ss_dssp             HHHHHHT-----TTSEEEEEEESTTSSC---HHHHHHHHHHHH-HHHHHHTCCCCCCC-----------------C
T ss_pred             HHHHHHh-----ccCcEEEEEEcccCcc---HHHHHHHHHHHH-HHHHHcCCeEEeCCCCCCcCHHHHHHHHHhhC
Confidence            4565552     2689999999999863   222221   110 01112356789999999999999988887654

>3t34_A Dynamin-related protein 1A, linker, dynamin-relat 1A; dynamin-like protein 1A, GTPase, membrane fission, motor Pro; HET: GDP; 2.40A {Arabidopsis thaliana} PDB: 3t35_A*

Probab=97.48  E-value=8.1e-06  Score=51.63  Aligned_cols=54  Identities=11%  Similarity=0.080  Sum_probs=34.9

Q ss_pred             CCCcEEEEeeCCCCCCCCC-HHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHH
Q psy2977          27 IGIPILVLGNKRDLPNALD-EKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLI   84 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~   84 (92)
                      .+.|+++|+||+|+.+... ..++.+..    ....+..++++|++++.|+++.+.+..
T Consensus       202 ~~~~~i~V~nK~Dl~~~~~~~~~~~~~~----~~~~~~~~~~v~~~s~~~i~~~~~~~~  256 (360)
T 3t34_A          202 SGDRTFGVLTKIDLMDKGTDAVEILEGR----SFKLKYPWVGVVNRSQADINKNVDMIA  256 (360)
T ss_dssp             TCTTEEEEEECGGGCCTTCCSHHHHTTS----SSCCSSCCEEECCCCHHHHHTTCCHHH
T ss_pred             cCCCEEEEEeCCccCCCcccHHHHHcCc----cccccCCeEEEEECChHHhccCCCHHH
Confidence            4679999999999864322 11222211    122346689999999999887765543

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

Probab=97.36  E-value=0.00049  Score=46.77  Aligned_cols=26  Identities=19%  Similarity=0.087  Sum_probs=22.5

Q ss_pred             eEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          63 ICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        63 ~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      .+++..||+++.||+.+++.+.+.+.
T Consensus       213 ~Pv~~gSa~~~~Gv~~LLd~i~~~~p  238 (638)
T 3j25_A          213 FPLYHGSAKSNIGIDNLIEVITNKFY  238 (638)
T ss_dssp             CCCCCCCSTTCCSHHHHHHHHHHSCC
T ss_pred             ccccccccccCCCchhHhhhhhcccc
Confidence            45778899999999999999988764

>1wxq_A GTP-binding protein; structural genomics, riken structural genomics/proteomics initiative, RSGI, NPPSFA; 2.60A {Pyrococcus horikoshii} SCOP: c.37.1.8 d.15.10.2

Probab=97.14  E-value=1.5e-05  Score=51.36  Aligned_cols=49  Identities=16%  Similarity=0.211  Sum_probs=31.8

Q ss_pred             CCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHH
Q psy2977          28 GIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQ   81 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~   81 (92)
                      .+|+++|+||+|+........+.+.+.     ..+..++++||+.+.|+.++++
T Consensus       214 ~kP~i~v~NK~D~~~~~~l~~l~~~~~-----~~~~~vv~iSA~~e~~l~~L~~  262 (397)
T 1wxq_A          214 NKPMVIAANKADAASDEQIKRLVREEE-----KRGYIVIPTSAAAELTLRKAAK  262 (397)
T ss_dssp             HSCEEEEEECGGGSCHHHHHHHHHHHH-----HTTCEEEEECHHHHHHHHSCSS
T ss_pred             CCCEEEEEeCccccchHHHHHHHHHHh-----hcCCcEEEEeccchhhHHHHHh
Confidence            489999999999862111122222221     1135789999999999987543

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=96.84  E-value=0.0069  Score=41.67  Aligned_cols=26  Identities=12%  Similarity=0.047  Sum_probs=22.8

Q ss_pred             eEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          63 ICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        63 ~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      .+++..||.++.|+..+++.+.+.+.
T Consensus       265 ~pv~~gsa~~~~gv~~lLd~i~~~lP  290 (709)
T 4fn5_A          265 VPAVCGSSFKNKGVPLVLDAVIDYLP  290 (709)
T ss_dssp             EEEEECBTTTTBTHHHHHHHHHHHSC
T ss_pred             eeeeeeecccCCchHHHHHHHHhhCC
Confidence            46788899999999999999998874

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=96.13  E-value=0.0018  Score=43.32  Aligned_cols=38  Identities=24%  Similarity=0.180  Sum_probs=25.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN   42 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~   42 (92)
                      |+|+++.........++..+..    .+.|+++|+||+|+..
T Consensus       195 VvDa~~~~~~~~~~~~l~~l~~----~~~pvilVlNK~Dl~~  232 (550)
T 2qpt_A          195 LFDAHKLEISDEFSEAIGALRG----HEDKIRVVLNKADMVE  232 (550)
T ss_dssp             EEETTSCCCCHHHHHHHHHTTT----CGGGEEEEEECGGGSC
T ss_pred             EEeCCcCCCCHHHHHHHHHHHh----cCCCEEEEEECCCccC
Confidence            4677764444444455555432    3579999999999974

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=95.96  E-value=0.033  Score=35.73  Aligned_cols=52  Identities=23%  Similarity=0.068  Sum_probs=38.1

Q ss_pred             CCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          27 IGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      ...|.++++||+|..   +.+++.....       ...++++|+..+.|++.+.+.+.+.+.
T Consensus       248 ~~~p~i~v~nKid~~---~~eele~l~~-------~~~~~~is~~~e~gLd~Li~~~y~~L~  299 (376)
T 4a9a_A          248 RYMPAIYVLNKIDSL---SIEELELLYR-------IPNAVPISSGQDWNLDELLQVMWDRLN  299 (376)
T ss_dssp             EEECEEEEEECGGGS---CHHHHHHHTT-------STTEEECCTTTCTTHHHHHHHHHHHHC
T ss_pred             hccceEEEEeccccc---CHHHHHHHhc-------ccchhhhhhhhcccchhHHHHHHHHcC
Confidence            357999999999975   4444443221       123688999999999999998887763

>2dby_A GTP-binding protein; GDP, structural genomics, NPPSFA, natio project on protein structural and functional analyses; HET: GDP; 1.76A {Thermus thermophilus} PDB: 2dwq_A

Probab=95.88  E-value=0.0085  Score=38.28  Aligned_cols=47  Identities=9%  Similarity=0.161  Sum_probs=27.5

Q ss_pred             CCCcEEEEeeCCCC--CCC--C-CHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977          27 IGIPILVLGNKRDL--PNA--L-DEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl--~~~--~-~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      ..+|+++++||.|.  .+.  . ..+.+.+...     ..+.+++++||+++.++.+
T Consensus       200 t~KPvi~v~N~~e~d~~~~~~n~~~~~v~~~a~-----~~g~~vv~iSAk~E~el~e  251 (368)
T 2dby_A          200 TAKPVIYVANVAEEDLPDGRGNPQVEAVRRKAL-----EEGAEVVVVSARLEAELAE  251 (368)
T ss_dssp             GGSCEEEEEECCGGGTTTCTTCHHHHHHHHHHH-----HHTCEEEEECHHHHHHHHT
T ss_pred             hcCCeEEeccccHHhhcccchhhHHHHHHHHHH-----HcCCeEEEeechhHHHHHH
Confidence            45899999999974  221  1 1223333221     1236789999998444443

>1jal_A YCHF protein; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; 2.40A {Haemophilus influenzae} SCOP: c.37.1.8 d.15.10.2

Probab=94.96  E-value=0.074  Score=34.00  Aligned_cols=57  Identities=7%  Similarity=-0.014  Sum_probs=35.5

Q ss_pred             CCCCcEEEEeeCCCCCCCCC--HHHHHHhhccCCcCCCceEEEeecccc----------------------CCCHHHHHH
Q psy2977          26 LIGIPILVLGNKRDLPNALD--EKELIDRMNLCAIQDREICCYSISCKE----------------------RDNIDITLQ   81 (92)
Q Consensus        26 ~~~~p~ilv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~SA~~----------------------~~gi~~~~~   81 (92)
                      ...+|+++++||.|.....+  ...+.+...     ..+..++++||+.                      ..|++.+..
T Consensus       197 lt~KPvi~v~N~~e~~~~~n~~~~~v~~~~~-----~~~~~~i~~sA~~E~el~~l~~~e~~~~l~~~g~~~~gl~~li~  271 (363)
T 1jal_A          197 LTLKPTMYIANVNEDGFENNPYLDRVREIAA-----KEGAVVVPVCAAIESEIAELDDEEKVEFLQDLGIEEPGLNRVIR  271 (363)
T ss_dssp             STTSCEEEEEECCTTCSSSCHHHHHHHHHHH-----HTTCEEEEECHHHHHHGGGSCSSTTHHHHTTSSCCSCTTHHHHH
T ss_pred             ccCCcEEEEEecccccccccHHHHHHHHHHH-----HcCCCEEEechHHHHHHHhcCHHHHHHHHHHhCcccccHHHHHH
Confidence            34699999999999642111  223333221     1245788999764                      368888887


Q ss_pred             HHHHhh
Q psy2977          82 WLIAHS   87 (92)
Q Consensus        82 ~l~~~i   87 (92)
                      ...+.+
T Consensus       272 ~~~~~L  277 (363)
T 1jal_A          272 AGYALL  277 (363)
T ss_dssp             HHHHHT
T ss_pred             HHHHHh
Confidence            766654

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=94.66  E-value=0.023  Score=34.37  Aligned_cols=14  Identities=7%  Similarity=-0.014  Sum_probs=12.5

Q ss_pred             CcEEEEeeCCCCCC
Q psy2977          29 IPILVLGNKRDLPN   42 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~   42 (92)
                      .|+++|+||+|+.+
T Consensus       155 ~~iivV~nK~Dl~~  168 (270)
T 1h65_A          155 NKAIVALTHAQFSP  168 (270)
T ss_dssp             GGEEEEEECCSCCC
T ss_pred             cCEEEEEECcccCC
Confidence            69999999999964

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=94.66  E-value=0.017  Score=34.82  Aligned_cols=13  Identities=8%  Similarity=0.123  Sum_probs=11.7

Q ss_pred             CcEEEEeeCCCCC
Q psy2977          29 IPILVLGNKRDLP   41 (92)
Q Consensus        29 ~p~ilv~NK~Dl~   41 (92)
                      .|+++|+||+|+.
T Consensus       152 ~~~ivv~nK~Dl~  164 (262)
T 3def_A          152 CKTLLVLTHAQFS  164 (262)
T ss_dssp             GGEEEEEECTTCC
T ss_pred             cCEEEEEeCcccC
Confidence            5999999999995

>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=93.68  E-value=0.031  Score=39.33  Aligned_cols=36  Identities=19%  Similarity=0.098  Sum_probs=24.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLP   41 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~   41 (92)
                      |+|+++...+.....|. ....    .++|+++++||+|+.
T Consensus       128 VvDa~~g~~~qt~~~~~-~~~~----~~~p~ilviNK~D~~  163 (842)
T 1n0u_A          128 VVDTIEGVCVQTETVLR-QALG----ERIKPVVVINKVDRA  163 (842)
T ss_dssp             EEETTTBSCHHHHHHHH-HHHH----TTCEEEEEEECHHHH
T ss_pred             EEeCCCCCCHHHHHHHH-HHHH----cCCCeEEEEECCCcc
Confidence            57888776665543333 3332    358999999999986

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=92.77  E-value=0.059  Score=34.99  Aligned_cols=62  Identities=13%  Similarity=0.127  Sum_probs=38.9

Q ss_pred             CCcEEEEeeCCCCC---------CCCCHHHHHHhhccCC-----cC-CCceEEEeecc--ccCCCHHHHHHHHHHhhhh
Q psy2977          28 GIPILVLGNKRDLP---------NALDEKELIDRMNLCA-----IQ-DREICCYSISC--KERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~---------~~~~~~~~~~~~~~~~-----~~-~~~~~~~~~SA--~~~~gi~~~~~~l~~~i~~   89 (92)
                      +.|+++|.||.|+.         +.....++.+.+....     .. .....++.+|+  .++.|++++.+.+.+.+..
T Consensus       175 ~~p~~lV~tkpdlllLDEPtsgLD~~~~~~l~~~l~~l~~~~l~~~g~~~~~iiliSsh~l~~~~~e~L~d~I~~~Lpe  253 (413)
T 1tq4_A          175 KKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFRENGIAEPPIFLLSNKNVCHYDFPVLMDKLISDLPI  253 (413)
T ss_dssp             TCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHTTCSSCCEEECCTTCTTSTTHHHHHHHHHHHSCG
T ss_pred             CCCeEEEEecCcccccCcccccCCHHHHHHHHHHHHHHHHHHHHhcCCCCCcEEEEecCcCCccCHHHHHHHHHHhCcc
Confidence            57999999999863         1223333333221110     00 01235788999  6777899999999988754

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=92.76  E-value=0.28  Score=32.70  Aligned_cols=58  Identities=14%  Similarity=-0.103  Sum_probs=34.7

Q ss_pred             CcE-EEEeeCCCCCCCCCH-HHHHHhhccCC--------cCC--CceEEEeeccccCCC-HHHHHHHHHHh
Q psy2977          29 IPI-LVLGNKRDLPNALDE-KELIDRMNLCA--------IQD--REICCYSISCKERDN-IDITLQWLIAH   86 (92)
Q Consensus        29 ~p~-ilv~NK~Dl~~~~~~-~~~~~~~~~~~--------~~~--~~~~~~~~SA~~~~g-i~~~~~~l~~~   86 (92)
                      +|+ .+|+||.|....... -.+...++..-        ...  ...+.+.+||.+|.| ++++++++.+.
T Consensus       240 ~~i~gvVlNK~D~~~~~g~~l~~~~~~g~PI~fig~ge~~~dl~~f~~~~~vsal~G~Gdi~~Lie~i~e~  310 (504)
T 2j37_W          240 VDVASVIVTKLDGHAKGGGALSAVAATKSPIIFIGTGEHIDDFEPFKTQPFISKLLGMGDIEGLIDKVNEL  310 (504)
T ss_dssp             HCCCCEEEECTTSCCCCTHHHHHHHHHCCCEEEEECSSSTTCEECCTHHHHHHCCCTTTTTTTTHHHHTTT
T ss_pred             cCceEEEEeCCccccchHHHHHHHHHhCCCeEEeccccchhhhhccCcceeeehhcCCCcHHHHHHHHHHH
Confidence            464 899999998643221 12333332210        000  011235589999999 99999999865

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=86.48  E-value=3  Score=26.91  Aligned_cols=58  Identities=7%  Similarity=-0.056  Sum_probs=37.7

Q ss_pred             CCCcEEEEeeCCCC--C-C-CCCHHHHHHhhccCCcCCCceEEEeecccc---------------------CCCHHHHHH
Q psy2977          27 IGIPILVLGNKRDL--P-N-ALDEKELIDRMNLCAIQDREICCYSISCKE---------------------RDNIDITLQ   81 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl--~-~-~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~---------------------~~gi~~~~~   81 (92)
                      ..+|+++++|+.|-  . + ..-...+.+....   ...+..++++||+.                     +.|++.+..
T Consensus       223 t~kp~~y~~Nv~e~~~~~~~~~~~~~~~~~~~~---~~p~~~~v~~sa~~E~~l~~l~~~~~~~~l~~~g~~~gl~~~i~  299 (392)
T 1ni3_A          223 TAKPVIYLVNMSERDFLRQKNKYLPKIKKWIDE---NSPGDTLIPMSVAFEERLTNFTEEEAIEECKKLNTKSMLPKIIV  299 (392)
T ss_dssp             GGSCEEEEEECCHHHHTTTCCSSHHHHHHHHHT---TSTTCCEEEECHHHHHHHTTSCHHHHHHHHHHTTCCCSHHHHHH
T ss_pred             ccCceEEEEEecchhhcccchHHHHHHHHHHHh---cCCCCeEEEEEhHHHHHHhhCCHHHHHHHHHHhCCcccHHHHHH
Confidence            46899999999983  2 1 1123444443321   11125689999986                     688999888


Q ss_pred             HHHHhh
Q psy2977          82 WLIAHS   87 (92)
Q Consensus        82 ~l~~~i   87 (92)
                      ...+.+
T Consensus       300 ~~~~~L  305 (392)
T 1ni3_A          300 TGYNAL  305 (392)
T ss_dssp             HHHHHT
T ss_pred             HHHHHh
Confidence            877655

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	92
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	1e-12
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	2e-10
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	8e-10
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	2e-09
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	2e-08
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	7e-08
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	1e-06
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	2e-06
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	2e-06
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	3e-05
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	6e-04
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	0.002
d2fh5b1	207	c.37.1.8 (B:63-269) Signal recognition particle re	0.002
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	0.003
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	0.003
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	0.003
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	0.004

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

 Score = 57.8 bits (138), Expect = 1e-12
 Identities = 73/88 (82%), Positives = 82/88 (93%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           MVDAAD +K+EAS+NELH L++KPQL GIP+LVLGNKRDLP ALDEKELI++MNL AIQD
Sbjct: 77  MVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALDEKELIEKMNLSAIQD 136

Query: 61  REICCYSISCKERDNIDITLQWLIAHSK 88
           REICCYSISCKE+DNIDITLQWLI HSK
Sbjct: 137 REICCYSISCKEKDNIDITLQWLIQHSK 164

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

 Score = 52.3 bits (124), Expect = 2e-10
 Identities = 28/88 (31%), Positives = 48/88 (54%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD AD D+++ +R ELH +I   ++    IL+  NK+DLP+A+   E+ +++ L  I+D
Sbjct: 86  VVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQEKLGLTRIRD 145

Query: 61  REICCYSISCKERDNIDITLQWLIAHSK 88
           R            D +   L WL ++ K
Sbjct: 146 RNWYVQPSCATSGDGLYEGLTWLTSNYK 173

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]} Length = 176

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

 Score = 50.3 bits (119), Expect = 8e-10
 Identities = 25/86 (29%), Positives = 46/86 (53%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           ++D+AD  + E +  EL  L+E+ +L  +P+L+  NK+DL  A    E+ + +NL  I+D
Sbjct: 90  VIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAPASEIAEGLNLHTIRD 149

Query: 61  REICCYSISCKERDNIDITLQWLIAH 86
           R     S S    + +   + W+  +
Sbjct: 150 RVWQIQSCSALTGEGVQDGMNWVCKN 175

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]} Length = 182

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

 Score = 49.6 bits (117), Expect = 2e-09
 Identities = 28/90 (31%), Positives = 47/90 (52%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+ D D++  +  ELH ++++ +L    +LV  NK+D P AL   E+   +NL  ++D
Sbjct: 91  VVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGALSASEVSKELNLVELKD 150

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKSH 90
           R     + S  + + I   L WLI   K  
Sbjct: 151 RSWSIVASSAIKGEGITEGLDWLIDVIKEE 180

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

 Score = 46.6 bits (109), Expect = 2e-08
 Identities = 23/89 (25%), Positives = 46/89 (51%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+AD  +++  + EL +L+ + +L G  +L+  NK+DLP AL    + + + L +I+ 
Sbjct: 76  VVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSCNAIQEALELDSIRS 135

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKS 89
                   S    +++   + WL+    S
Sbjct: 136 HHWRIQGCSAVTGEDLLPGIDWLLDDISS 164

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

 Score = 45.4 bits (106), Expect = 7e-08
 Identities = 18/88 (20%), Positives = 44/88 (50%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+ D +++  +R EL+ ++    L    +L+  NK+D+   +   E+   + L +I+D
Sbjct: 89  VVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTVAEISQFLKLTSIKD 148

Query: 61  REICCYSISCKERDNIDITLQWLIAHSK 88
            +    +      + +   L+W+++  K
Sbjct: 149 HQWHIQACCALTGEGLCQGLEWMMSRLK 176

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 42.0 bits (97), Expect = 1e-06
 Identities = 30/93 (32%), Positives = 45/93 (48%), Gaps = 7/93 (7%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAI-- 58
           +VDAAD ++ + +R EL AL    +L  +P ++LGNK D PNA+ E EL   + L     
Sbjct: 74  LVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAVSEAELRSALGLLNTTG 133

Query: 59  -----QDREICCYSISCKERDNIDITLQWLIAH 86
                  R +  +  S   R+      QWL  +
Sbjct: 134 SQRIEGQRPVEVFMCSVVMRNGYLEAFQWLSQY 166

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

 Score = 41.2 bits (95), Expect = 2e-06
 Identities = 26/98 (26%), Positives = 45/98 (45%), Gaps = 12/98 (12%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNL----- 55
           +VD AD ++L  S+ EL +L+    +  +PIL+LGNK D P A+ E+ L +   L     
Sbjct: 87  LVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEAISEERLREMFGLYGQTT 146

Query: 56  -------CAIQDREICCYSISCKERDNIDITLQWLIAH 86
                    +  R +  +  S  +R       +W+  +
Sbjct: 147 GKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQY 184

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]} Length = 160

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

 Score = 41.2 bits (95), Expect = 2e-06
 Identities = 24/86 (27%), Positives = 46/86 (53%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+ D +++  +R EL  ++ + +L    +LV  NK+DLPNA++  E+ D++ L +++ 
Sbjct: 74  VVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRH 133

Query: 61  REICCYSISCKERDNIDITLQWLIAH 86
           R     +      D +   L WL   
Sbjct: 134 RNWYIQATCATSGDGLYEGLDWLSNQ 159

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

 Score = 38.2 bits (87), Expect = 3e-05
 Identities = 26/89 (29%), Positives = 53/89 (59%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +VD+ D D++  S++EL A++E+ +L    ++V  NK+D+  A+   E+ + + L A++D
Sbjct: 79  VVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMANSLGLPALKD 138

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKS 89
           R+   +  S  +   +D  ++WL+   KS
Sbjct: 139 RKWQIFKTSATKGTGLDEAMEWLVETLKS 167

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.5 bits (78), Expect = 6e-04
 Identities = 11/71 (15%), Positives = 24/71 (33%), Gaps = 3/71 (4%)

Query: 14  RNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKER 73
           + E     +  +    P ++LGNK D+       E           + +   +  S K+ 
Sbjct: 101 KKEFIYYADVKEPESFPFVILGNKIDISERQVSTEEAQAW---CRDNGDYPYFETSAKDA 157

Query: 74  DNIDITLQWLI 84
            N+    +  +
Sbjct: 158 TNVAAAFEEAV 168

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 33.1 bits (74), Expect = 0.002
 Identities = 10/56 (17%), Positives = 25/56 (44%)

Query: 29  IPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLI 84
           I I ++GNK D+     E+++         +++ +  +  S K  +N++     + 
Sbjct: 109 IIIALVGNKIDMLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIG 164

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]} Length = 207

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 33.1 bits (74), Expect = 0.002
 Identities = 10/56 (17%), Positives = 26/56 (46%), Gaps = 3/56 (5%)

Query: 1   MVDAADTDK-LEASRNELHALIEKPQLI--GIPILVLGNKRDLPNALDEKELIDRM 53
           +VD+A   + ++     L+ ++     +     +L+  NK+D+  A   K +  ++
Sbjct: 78  VVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAKLIQQQL 133

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 32.7 bits (73), Expect = 0.003
 Identities = 15/90 (16%), Positives = 29/90 (32%), Gaps = 4/90 (4%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +    +T   E        +        +P++++GNK DL     E      +     + 
Sbjct: 81  VFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDL----ARS 136

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKSH 90
             I     S K R  ++     L+   + H
Sbjct: 137 YGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 32.7 bits (73), Expect = 0.003
 Identities = 14/57 (24%), Positives = 25/57 (43%), Gaps = 5/57 (8%)

Query: 28  GIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLI 84
            IPI++ GNK D+     +   +   ++   + + +  Y IS K   N +    WL 
Sbjct: 107 NIPIVLCGNKVDI-----KDRKVKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLA 158

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

 Score = 32.2 bits (72), Expect = 0.003
 Identities = 14/89 (15%), Positives = 31/89 (34%), Gaps = 3/89 (3%)

Query: 1   MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQD 60
           +    + +   A+ +    ++   +   +P L++GNK DL +                  
Sbjct: 82  VFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSV---EEAKNRADQ 138

Query: 61  REICCYSISCKERDNIDITLQWLIAHSKS 89
             +     S K R N+D     L+   ++
Sbjct: 139 WNVNYVETSAKTRANVDKVFFDLMREIRA 167

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 32.2 bits (72), Expect = 0.004
 Identities = 10/57 (17%), Positives = 23/57 (40%), Gaps = 3/57 (5%)

Query: 28  GIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLI 84
            +P++++GNK DL +  +      R      ++        S K +  +D     ++
Sbjct: 108 KVPVILVGNKVDLESEREVSSSEGRAL---AEEWGCPFMETSAKSKTMVDELFAEIV 161

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	92
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.9
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.88
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.87
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.87
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.86
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.82
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.81
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	99.8
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.8
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	99.8
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.79
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.79
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	99.79
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.78
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.78
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.78
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	99.77
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.76
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.75
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.75
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.75
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.75
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.75
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.75
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	99.74
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.74
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.73
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.73
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.73
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.73
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.72
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.72
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	99.72
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.72
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.71
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.7
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.7
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.69
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.68
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.68
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.68
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.66
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.66
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.65
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.64
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.64
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.63
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.63
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.62
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.58
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.56
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.41
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.37
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.36
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.35
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.33
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.27
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.27
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.24
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.23
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.14
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.13
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.1
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.09
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.05
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	98.96
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	98.95
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	98.93
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	98.87
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	98.78
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	98.66
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	98.52
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.5
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.39
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	98.38
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	98.36
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	98.27
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	98.07
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.03
d1nrjb_	209	Signal recognition particle receptor beta-subunit	97.78
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	97.73
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	97.56
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	97.29
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	97.28
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	95.21
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	94.4
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	92.86
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	92.27
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	91.88
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	85.24
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	85.01
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	81.63
d1zpda1	175	Pyruvate decarboxylase {Zymomonas mobilis [TaxId:	80.49

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=99.90  E-value=3.1e-23  Score=119.01  Aligned_cols=90  Identities=31%  Similarity=0.546  Sum_probs=80.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++|+.++.....|+.+.+......+.|++||+||+|+++..+.+++.+.+++..+..+++++++|||++|+||+++|
T Consensus        91 v~d~~d~~s~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~e~SA~~g~gv~e~~  170 (182)
T d1moza_          91 VVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGALSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGL  170 (182)
T ss_dssp             EEETTCTTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTTCCCHHHHHHHTTTTTCCSSCEEEEEEBGGGTBTHHHHH
T ss_pred             EeeecccccchhHHHHHHHHHHhhccCCcceEEEEEeeccccccCHHHHHHHHHHHHHhhCCCEEEEEECCCCCCHHHHH
Confidence            58999999999999999988877666789999999999999888888898888776666678899999999999999999


Q ss_pred             HHHHHhhhhc
Q psy2977          81 QWLIAHSKSH   90 (92)
Q Consensus        81 ~~l~~~i~~~   90 (92)
                      +||.+.++++
T Consensus       171 ~~l~~~i~~~  180 (182)
T d1moza_         171 DWLIDVIKEE  180 (182)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHc
Confidence            9999999875

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=99.88  E-value=1.5e-22  Score=115.44  Aligned_cols=88  Identities=32%  Similarity=0.587  Sum_probs=77.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++.++..+..|+...++.....+.|+++++||+|+++.....++...+++..+..+++.+++|||++|+||+++|
T Consensus        86 v~D~s~~~~~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~e~SA~tg~gv~e~~  165 (173)
T d1e0sa_          86 VVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGL  165 (173)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECBTTTTBTHHHHH
T ss_pred             EEecccchhHHHHHHHHHHHhhhcccccceeeeeeecccccccccHHHHHHHHHHHHHHhCCCEEEEeeCCCCcCHHHHH
Confidence            58999999999999999988876556689999999999999888888888888776666778899999999999999999


Q ss_pred             HHHHHhhh
Q psy2977          81 QWLIAHSK   88 (92)
Q Consensus        81 ~~l~~~i~   88 (92)
                      +||.++++
T Consensus       166 ~~l~~~~k  173 (173)
T d1e0sa_         166 TWLTSNYK  173 (173)
T ss_dssp             HHHHHHCC
T ss_pred             HHHHHhcC
Confidence            99998764

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=99.87  E-value=5.2e-22  Score=113.11  Aligned_cols=87  Identities=29%  Similarity=0.503  Sum_probs=74.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++.++..+..|+..+.......++|+++|+||+|+.+......+.+.++......+.+.+++|||++|+||+++|
T Consensus        90 v~d~~d~~s~~~~~~~~~~~~~~~~~~~~pillv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~gv~e~~  169 (176)
T d1fzqa_          90 VIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAPASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGM  169 (176)
T ss_dssp             EEETTCGGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHH
T ss_pred             eeccccccchhhhhhhhhhhhhhhccCCCeEEEEEEeccccccccHHHHHHHHHHHHHHhcCCEEEEEeCCCCCCHHHHH
Confidence            58999999999998888888766555679999999999998877777777777655555667899999999999999999


Q ss_pred             HHHHHhh
Q psy2977          81 QWLIAHS   87 (92)
Q Consensus        81 ~~l~~~i   87 (92)
                      +||++++
T Consensus       170 ~~l~~~i  176 (176)
T d1fzqa_         170 NWVCKNV  176 (176)
T ss_dssp             HHHHHTC
T ss_pred             HHHHhcC
Confidence            9999864

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=99.87  E-value=7.4e-22  Score=111.56  Aligned_cols=90  Identities=26%  Similarity=0.481  Sum_probs=76.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++|..++..+..++...+......+.|+++|+||+|+++..+..+....+....+..+++++++|||++|+||+++|
T Consensus        76 v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~  155 (165)
T d1ksha_          76 VVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGI  155 (165)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHH
T ss_pred             eeecccchhHHHHHHhhhhhhhhcccCCCceEEEEeccccccccCHHHHHHHHHhhhhhcCCCEEEEEECCCCCCHHHHH
Confidence            57999999999988888888776556789999999999998877887777776655555667899999999999999999


Q ss_pred             HHHHHhhhhc
Q psy2977          81 QWLIAHSKSH   90 (92)
Q Consensus        81 ~~l~~~i~~~   90 (92)
                      +||.+++.++
T Consensus       156 ~~l~~~i~~r  165 (165)
T d1ksha_         156 DWLLDDISSR  165 (165)
T ss_dssp             HHHHHHHHTC
T ss_pred             HHHHHHHHcC
Confidence            9999998764

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=99.86  E-value=1.3e-21  Score=110.66  Aligned_cols=88  Identities=83%  Similarity=1.319  Sum_probs=77.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|+++++++.....|+..++......++|++||+||+|+++..+..++.+.++...+...++.+++|||++|+||+++|
T Consensus        77 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~pi~lv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e~~  156 (164)
T d1zd9a1          77 MVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALDEKELIEKMNLSAIQDREICCYSISCKEKDNIDITL  156 (164)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHH
T ss_pred             ccccccccccchhhhhhhhhhhhhcccCCcEEEEEeccccchhhhHHHHHHHHHHHHHHhCCCEEEEEeCcCCcCHHHHH
Confidence            58999999999999999999887666789999999999998877888888887766666678899999999999999999


Q ss_pred             HHHHHhhh
Q psy2977          81 QWLIAHSK   88 (92)
Q Consensus        81 ~~l~~~i~   88 (92)
                      +||.++++
T Consensus       157 ~~l~~~~k  164 (164)
T d1zd9a1         157 QWLIQHSK  164 (164)
T ss_dssp             HHHHHTCC
T ss_pred             HHHHHccC
Confidence            99998764

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=99.82  E-value=8.6e-20  Score=103.65  Aligned_cols=88  Identities=20%  Similarity=0.426  Sum_probs=73.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      ++|.++..++.....+.............|+++|+||+|++......++.+.+.+.....+++++++|||+||+||+++|
T Consensus        89 v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~tg~Gi~e~~  168 (177)
T d1zj6a1          89 VVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGL  168 (177)
T ss_dssp             EEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHHHHH
T ss_pred             ecccccccchhhhhhhhhhhhhcccccceEEEEEEEcccccccCcHHHHHHHHHHHhhHhcCCEEEEEeCCCCCCHHHHH
Confidence            47889999998877766666655555789999999999998877777888877766556678899999999999999999


Q ss_pred             HHHHHhhh
Q psy2977          81 QWLIAHSK   88 (92)
Q Consensus        81 ~~l~~~i~   88 (92)
                      +||.++++
T Consensus       169 ~~L~~~lk  176 (177)
T d1zj6a1         169 EWMMSRLK  176 (177)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHHhC
Confidence            99999875

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=5.1e-20  Score=104.83  Aligned_cols=86  Identities=17%  Similarity=0.165  Sum_probs=68.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |||++++++++.+..|+..+.......++|+++|+||+|++.  ..+.++..+..     ...++++++|||++|.||++
T Consensus        84 vfd~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~a-----~~~~~~~~e~Sak~g~~i~~  158 (172)
T d2g3ya1          84 VYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACA-----VVFDCKFIETSAAVQHNVKE  158 (172)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHH-----HHHTCEEEECBTTTTBSHHH
T ss_pred             eecccccchhhhhhhhhhhhhhccccCCceEEEEeccccccccccccHHHHHHHH-----HHcCCeEEEEeCCCCcCHHH
Confidence            579999999999999988887654456799999999999965  34445443321     12356899999999999999


Q ss_pred             HHHHHHHhhhhcC
Q psy2977          79 TLQWLIAHSKSHT   91 (92)
Q Consensus        79 ~~~~l~~~i~~~~   91 (92)
                      +|++|++.+..++
T Consensus       159 ~f~~l~~~i~~rr  171 (172)
T d2g3ya1         159 LFEGIVRQVRLRR  171 (172)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHcc
Confidence            9999999997664

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=99.80  E-value=3.3e-20  Score=105.28  Aligned_cols=85  Identities=19%  Similarity=0.327  Sum_probs=67.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++++.+..|+.+++......++|+++|+||+|+..  ..+.+++.....     ..++++++|||++|.||++
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiivgnK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~e~Sak~g~gv~e  156 (168)
T d1u8za_          82 VFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAD-----QWNVNYVETSAKTRANVDK  156 (168)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHH-----HHTCEEEECCTTTCTTHHH
T ss_pred             EeeccchhhhhhHHHHHHHHHHhhCCCCCcEEEEeccccccccccccHHHHHHHHH-----HcCCeEEEEcCCCCcCHHH
Confidence            589999999999999998887644446799999999999864  334555544322     2356799999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|++.++.+
T Consensus       157 ~f~~l~~~i~~r  168 (168)
T d1u8za_         157 VFFDLMREIRAR  168 (168)
T ss_dssp             HHHHHHHHHHTC
T ss_pred             HHHHHHHHHHCc
Confidence            999999998653

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=7.8e-20  Score=103.46  Aligned_cols=85  Identities=13%  Similarity=0.188  Sum_probs=66.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++|+.+..|+..+.......++|+++|+||+|+...  .+.++......    ...+.++++|||++|+||++
T Consensus        81 v~d~~~~~sf~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~----~~~~~~~~e~Sak~g~gv~e  156 (167)
T d1c1ya_          81 VYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLAR----QWCNCAFLESSAKSKINVNE  156 (167)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHH----HTTSCEEEECBTTTTBSHHH
T ss_pred             eeeccchhhhHhHHHHHHHHHHhcCCCCCeEEEEEEecCcccccccchhHHHHHHH----HhCCCEEEEEcCCCCcCHHH
Confidence            5799999999999999988876444567999999999999643  23333333221    12357899999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|++|++.+.+
T Consensus       157 ~F~~l~~~i~k  167 (167)
T d1c1ya_         157 IFYDLVRQINR  167 (167)
T ss_dssp             HHHHHHHHHTC
T ss_pred             HHHHHHHHhcC
Confidence            99999998763

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=7.7e-20  Score=103.68  Aligned_cols=85  Identities=16%  Similarity=0.168  Sum_probs=65.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |||++++.+++.+..|+.++........+|+++|+||+|+...  .+..+..+..     ...++++++|||++|.||++
T Consensus        78 v~d~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~~-----~~~~~~~~e~Sak~~~~v~~  152 (168)
T d2gjsa1          78 VYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACA-----VVFDCKFIETSAALHHNVQA  152 (168)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHCC--CCCEEEEEECTTCGGGCCSCHHHHHHHH-----HHHTSEEEECBTTTTBSHHH
T ss_pred             eccccccccccccccccchhhcccccccceEEEeecccchhhhcchhHHHHHHHH-----HhcCCEEEEEeCCCCcCHHH
Confidence            6899999999999999988876544567899999999999753  3344433322     12356799999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|++.+..+
T Consensus       153 ~f~~l~~~i~~~  164 (168)
T d2gjsa1         153 LFEGVVRQIRLR  164 (168)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999988654

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=99.79  E-value=6e-19  Score=98.37  Aligned_cols=87  Identities=28%  Similarity=0.529  Sum_probs=72.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      ++|.+++.++..+..|+.+++........|+++++||.|+.+.....++........+....+++++|||+||+||+++|
T Consensus        74 ~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~k~d~~~~~~~~~i~~~~~~~~~~~~~~~~~~~SAktg~gi~e~~  153 (160)
T d1r8sa_          74 VVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGL  153 (160)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHH
T ss_pred             EEEecChHHHHHHHHHHHHHHHhhcccCceEEEEeecccccccccHHHHHHHHHHHHHhhCCCEEEEeECCCCCCHHHHH
Confidence            47899999999998899888876666779999999999998877777776665544445567889999999999999999


Q ss_pred             HHHHHhh
Q psy2977          81 QWLIAHS   87 (92)
Q Consensus        81 ~~l~~~i   87 (92)
                      +||.+++
T Consensus       154 ~~l~~~l  160 (160)
T d1r8sa_         154 DWLSNQL  160 (160)
T ss_dssp             HHHHHHC
T ss_pred             HHHHhcC
Confidence            9999864

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=5.8e-20  Score=103.91  Aligned_cols=85  Identities=18%  Similarity=0.262  Sum_probs=66.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC-CHHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL-DEKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~-~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|++++.+|+....|+..+.......++|+++|+||+|+.... ..+++.+..     ...++++++|||++|+||+++
T Consensus        81 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~-----~~~~~~~~e~Sak~g~gi~e~  155 (166)
T d1ctqa_          81 VFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAARTVESRQAQDLA-----RSYGIPYIETSAKTRQGVEDA  155 (166)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTCSSCCEEEEEECTTCSCCCSCHHHHHHHH-----HHHTCCEEECCTTTCTTHHHH
T ss_pred             eecccccccHHHHHHHHHHHHHhcCCCCCeEEEEecccccccccccHHHHHHHH-----HHhCCeEEEEcCCCCcCHHHH
Confidence            57999999999999998887765444679999999999997533 444443332     123467999999999999999


Q ss_pred             HHHHHHhhhhc
Q psy2977          80 LQWLIAHSKSH   90 (92)
Q Consensus        80 ~~~l~~~i~~~   90 (92)
                      |.+|++.+.++
T Consensus       156 f~~i~~~i~~~  166 (166)
T d1ctqa_         156 FYTLVREIRQH  166 (166)
T ss_dssp             HHHHHHHHHTC
T ss_pred             HHHHHHHHHhC
Confidence            99999998753

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.79  E-value=1.7e-19  Score=102.41  Aligned_cols=85  Identities=16%  Similarity=0.218  Sum_probs=67.6

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCC-CHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERD-NID   77 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~-gi~   77 (92)
                      |+|++|+++|+.+..|+.++.+.....+.|+++++||+|+...  .+.+++.+...     ..++++++|||++|. ||+
T Consensus        82 v~d~~d~~Sf~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~v~~e~~~~~~~-----~~~~~~~e~Sak~~~~nV~  156 (169)
T d1x1ra1          82 VYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMAT-----KYNIPYIETSAKDPPLNVD  156 (169)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHH-----HHTCCEEEEBCSSSCBSHH
T ss_pred             ecccccchhhhccchhhHHHHhhccccCccEEEEecccchhhhceeehhhHHHHHH-----HcCCEEEEEcCCCCCcCHH
Confidence            5899999999999999988876544467999999999999754  44555544332     234679999999986 999


Q ss_pred             HHHHHHHHhhhhc
Q psy2977          78 ITLQWLIAHSKSH   90 (92)
Q Consensus        78 ~~~~~l~~~i~~~   90 (92)
                      ++|++|.+.+.++
T Consensus       157 ~~F~~l~~~i~~~  169 (169)
T d1x1ra1         157 KTFHDLVRVIRQQ  169 (169)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhC
Confidence            9999999998764

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=2.7e-19  Score=101.53  Aligned_cols=86  Identities=17%  Similarity=0.252  Sum_probs=68.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++|+.+..|+..++........|+++|+||+|+...  .+.++..+...     ..+.++++|||++|.||++
T Consensus        83 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~e~Sak~~~~i~e  157 (171)
T d2erya1          83 VFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLAR-----QLKVTYMEASAKIRMNVDQ  157 (171)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTSSCCSEEEEEECTTCTTSCSSCHHHHHHHHH-----HTTCEEEECBTTTTBSHHH
T ss_pred             eeccccccchhhHHHHhHHHHhhcccCCCCEEEEEeccchhhhccchHHHHHHHHH-----HcCCEEEEEcCCCCcCHHH
Confidence            5899999999999999888776544467999999999999653  44555544332     2356799999999999999


Q ss_pred             HHHHHHHhhhhcC
Q psy2977          79 TLQWLIAHSKSHT   91 (92)
Q Consensus        79 ~~~~l~~~i~~~~   91 (92)
                      +|.+|++.+.+..
T Consensus       158 ~f~~l~~~i~k~~  170 (171)
T d2erya1         158 AFHELVRVIRKFQ  170 (171)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999987653

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=1.2e-19  Score=103.14  Aligned_cols=84  Identities=23%  Similarity=0.300  Sum_probs=66.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++++|+.+..|+..+....  .++|+++|+||+|+......++.....     ...++++++|||++|.||+++|
T Consensus        82 v~d~~~~~Sf~~~~~~~~~~~~~~--~~~piilvgnK~Dl~~~~~~~~~~~~~-----~~~~~~~~e~Sak~~~~v~e~f  154 (170)
T d1i2ma_          82 MFDVTSRVTYKNVPNWHRDLVRVC--ENIPIVLCGNKVDIKDRKVKAKSIVFH-----RKKNLQYYDISAKSNYNFEKPF  154 (170)
T ss_dssp             EEETTSGGGGTTHHHHHHHHHHHH--CSCCEEEEEECCCCSCSCCTTTSHHHH-----SSCSSEEEEEBTTTTBTTTHHH
T ss_pred             ccccccccccchhHHHHHHHhhcc--CCCceeeecchhhhhhhhhhhHHHHHH-----HHcCCEEEEEeCCCCCCHHHHH
Confidence            589999999999999998877642  479999999999997644333222221     2346789999999999999999


Q ss_pred             HHHHHhhhhcC
Q psy2977          81 QWLIAHSKSHT   91 (92)
Q Consensus        81 ~~l~~~i~~~~   91 (92)
                      ++|++.+.+++
T Consensus       155 ~~l~~~l~~~~  165 (170)
T d1i2ma_         155 LWLARKLIGDP  165 (170)
T ss_dssp             HHHHHHHHTCT
T ss_pred             HHHHHHHccCC
Confidence            99999887543

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=2.1e-19  Score=102.30  Aligned_cols=86  Identities=16%  Similarity=0.263  Sum_probs=67.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+|+.+..|+..+.......+.|++||+||+|+...  ...++......     ..+.++++|||++|.||++
T Consensus        84 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~e~Sak~g~gv~e  158 (173)
T d2fn4a1          84 VFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGA-----SHHVAYFEASAKLRLNVDE  158 (173)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHH-----HTTCEEEECBTTTTBSHHH
T ss_pred             ecccccccccchhhhhhHHHHHHhccCCCceEEEEEeechhhccccchhhhhHHHH-----hcCCEEEEEeCCCCcCHHH
Confidence            5899999999999999888766434467899999999998642  33444433322     2356799999999999999


Q ss_pred             HHHHHHHhhhhcC
Q psy2977          79 TLQWLIAHSKSHT   91 (92)
Q Consensus        79 ~~~~l~~~i~~~~   91 (92)
                      +|++|++.+.+++
T Consensus       159 ~f~~l~~~i~k~~  171 (173)
T d2fn4a1         159 AFEQLVRAVRKYQ  171 (173)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999997654

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=1.3e-19  Score=102.47  Aligned_cols=84  Identities=18%  Similarity=0.228  Sum_probs=66.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |||++++++|..+..|+.++.......++|+++|+||+|+..  ..+.+++.+...     ..+.++++|||++|.||++
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~r~v~~~~~~~~a~-----~~~~~~~e~Sak~~~~v~~  156 (167)
T d1xtqa1          82 VYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAE-----SWNAAFLESSAKENQTAVD  156 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHHCSSCCCEEEEEECTTCGGGCCSCHHHHHHHHH-----HHTCEEEECCTTCHHHHHH
T ss_pred             hcccchhhhhhhhhhhhhhhhhcccccccceeeeccccccccccchhHHHHHHHHH-----HcCCEEEEEecCCCCCHHH
Confidence            589999999999999988887654446799999999999864  345555443321     2346789999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|+.|++.+.+
T Consensus       157 ~f~~li~~~~K  167 (167)
T d1xtqa1         157 VFRRIILEAEK  167 (167)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHhcC
Confidence            99999988764

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.76  E-value=1.9e-18  Score=98.12  Aligned_cols=87  Identities=17%  Similarity=0.246  Sum_probs=64.3

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcC---CCCCCCcEEEEeeCCCCCCC---CCHHHHHHhhccCCcCCCceEEEeeccccCC
Q psy2977           1 MVDAADTDKLEASRNELHALIEK---PQLIGIPILVLGNKRDLPNA---LDEKELIDRMNLCAIQDREICCYSISCKERD   74 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~---~~~~~~p~ilv~NK~Dl~~~---~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~   74 (92)
                      |+|++++.+|+.+..|+.++...   .....+|+++|+||+|+.+.   .+.++..+...    .....++++|||++|.
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~----~~~~~~~~e~SA~~g~  157 (175)
T d1ky3a_          82 VYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAK----SLGDIPLFLTSAKNAI  157 (175)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHH----HTTSCCEEEEBTTTTB
T ss_pred             EeecccccccchhhhcchhhhhhhhhcccccCcEEEEecccchhhhhcchhHHHHHHHHH----HcCCCeEEEEeCCCCc
Confidence            57999999999988888877542   22357899999999999742   33333333221    1123568999999999


Q ss_pred             CHHHHHHHHHHhhhhcC
Q psy2977          75 NIDITLQWLIAHSKSHT   91 (92)
Q Consensus        75 gi~~~~~~l~~~i~~~~   91 (92)
                      ||+++|++|++.+.+++
T Consensus       158 gv~e~f~~l~~~~l~~~  174 (175)
T d1ky3a_         158 NVDTAFEEIARSALQQN  174 (175)
T ss_dssp             SHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhcc
Confidence            99999999999876653

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=5.9e-19  Score=100.01  Aligned_cols=85  Identities=20%  Similarity=0.230  Sum_probs=64.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcC-CCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEK-PQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNID   77 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~-~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~   77 (92)
                      |+|+++++++..+..|+..+... ....++|+++|+||+|+..  ..+.++..+..     ...++++++|||++|.||+
T Consensus        80 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~~~~~v~~~e~~~~~-----~~~~~~~~e~Sak~~~~v~  154 (171)
T d2erxa1          80 VYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALA-----RTWKCAFMETSAKLNHNVK  154 (171)
T ss_dssp             EEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHH-----HHHTCEEEECBTTTTBSHH
T ss_pred             EeecccccchhcccchhhhhhhhhccCCCCcEEEEeecccccccccccHHHHHHHH-----HHcCCeEEEEcCCCCcCHH
Confidence            58999999999998888776542 2235789999999999854  33444444432     1235689999999999999


Q ss_pred             HHHHHHHHhhhhc
Q psy2977          78 ITLQWLIAHSKSH   90 (92)
Q Consensus        78 ~~~~~l~~~i~~~   90 (92)
                      ++|+.|++.++++
T Consensus       155 e~f~~l~~~~~~~  167 (171)
T d2erxa1         155 ELFQELLNLEKRR  167 (171)
T ss_dssp             HHHHHHHHTCCSS
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988765

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=2.5e-18  Score=98.57  Aligned_cols=85  Identities=20%  Similarity=0.301  Sum_probs=67.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+++.+..|+.++.........|+++|+||+|+...  .+.+++.+...     ..++++++|||++|.||++
T Consensus        94 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~v~~~e~~~~~~-----~~~~~~~e~Sak~~~~i~e  168 (186)
T d2f7sa1          94 MFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELAD-----KYGIPYFETSAATGQNVEK  168 (186)
T ss_dssp             EEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHH-----HTTCCEEEEBTTTTBTHHH
T ss_pred             EEeccccccceeeeeccchhhhhccCCCceEEEEeeeccchhhhcchHHHHHHHHH-----HcCCEEEEEeCCCCCCHHH
Confidence            6899999999999999888776655567899999999999643  34455444322     2346799999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|.+.+.++
T Consensus       169 ~f~~l~~~i~~k  180 (186)
T d2f7sa1         169 AVETLLDLIMKR  180 (186)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999998764

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.75  E-value=2.5e-18  Score=97.20  Aligned_cols=82  Identities=18%  Similarity=0.188  Sum_probs=64.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++|+.+..|+....... ....|+++|+||+|+...  ...++..+...     ..++++++|||++|.||++
T Consensus        83 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~e~SAk~~~nV~e  156 (167)
T d1z0ja1          83 VYDITKEETFSTLKNWVRELRQHG-PPSIVVAIAGNKCDLTDVREVMERDAKDYAD-----SIHAIFVETSAKNAININE  156 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHS-CTTSEEEEEEECTTCGGGCCSCHHHHHHHHH-----HTTCEEEECBTTTTBSHHH
T ss_pred             EeeechhhhhhhHHHhhhhhhhcc-CCcceEEEecccchhccccchhHHHHHHHHH-----HcCCEEEEEecCCCCCHHH
Confidence            589999999999988887765532 357899999999999643  34444444321     2357899999999999999


Q ss_pred             HHHHHHHhhh
Q psy2977          79 TLQWLIAHSK   88 (92)
Q Consensus        79 ~~~~l~~~i~   88 (92)
                      +|.+|++.+.
T Consensus       157 ~f~~l~~~i~  166 (167)
T d1z0ja1         157 LFIEISRRIP  166 (167)
T ss_dssp             HHHHHHHHCC
T ss_pred             HHHHHHHhCC
Confidence            9999999875

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=6.7e-19  Score=99.76  Aligned_cols=85  Identities=18%  Similarity=0.187  Sum_probs=64.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCC-HH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDN-ID   77 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~g-i~   77 (92)
                      |+|+++++++..+..|...........+.|+++|+||+|+..  ..+.++..+...     ..++++++|||++|.| |+
T Consensus        79 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~r~V~~~e~~~~a~-----~~~~~~~e~Saktg~gnV~  153 (168)
T d2atva1          79 VYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLAT-----ELACAFYECSACTGEGNIT  153 (168)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHH-----HHTSEEEECCTTTCTTCHH
T ss_pred             ecccCCccchhhhhhhcccccccccccCcceeeeccchhhhhhccCcHHHHHHHHH-----HhCCeEEEEccccCCcCHH
Confidence            589999999999887765544333346799999999999964  345555544321     2356799999999985 99


Q ss_pred             HHHHHHHHhhhhc
Q psy2977          78 ITLQWLIAHSKSH   90 (92)
Q Consensus        78 ~~~~~l~~~i~~~   90 (92)
                      ++|.+|++.+.++
T Consensus       154 e~F~~l~~~i~~~  166 (168)
T d2atva1         154 EIFYELCREVRRR  166 (168)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999998765

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=4.8e-19  Score=100.11  Aligned_cols=83  Identities=13%  Similarity=0.212  Sum_probs=64.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+|.....|+..+.......++|++||+||+|++..  ...++.....     ...+.++++|||++|.||++
T Consensus        81 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~e~Sak~g~~i~e  155 (167)
T d1kaoa_          81 VYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALA-----EEWGCPFMETSAKSKTMVDE  155 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHH-----HHHTSCEEEECTTCHHHHHH
T ss_pred             eeeecchhhhhhhhchhhhhhhhccCCCCCEEEEEEccchhhcccchHHHHHHHH-----HHcCCeEEEECCCCCcCHHH
Confidence            5899999999999999888766444467999999999998642  3333333322     12345789999999999999


Q ss_pred             HHHHHHHhhh
Q psy2977          79 TLQWLIAHSK   88 (92)
Q Consensus        79 ~~~~l~~~i~   88 (92)
                      +|++|++.+.
T Consensus       156 ~f~~i~~~i~  165 (167)
T d1kaoa_         156 LFAEIVRQMN  165 (167)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHc
Confidence            9999998764

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.75  E-value=8.7e-19  Score=98.73  Aligned_cols=79  Identities=16%  Similarity=0.215  Sum_probs=61.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeecccc---CCC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKE---RDN   75 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~---~~g   75 (92)
                      |+|++|+++|+.+..|+.++.+.....++|++||+||+|+.+.  .+.+++.+...     ..++++++|||+|   |.|
T Consensus        82 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~pi~lvgnK~Dl~~~~~v~~~~~~~~~~-----~~~~~~~e~SAkt~~~~~~  156 (165)
T d1z06a1          82 VYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFAD-----THSMPLFETSAKNPNDNDH  156 (165)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHH-----HTTCCEEECCSSSGGGGSC
T ss_pred             EEEeehhhhhhhhhhhhHHHHhhccCCCCeEEEEeccccchhccchhHHHHHHHHH-----HCCCEEEEEecccCCcCcC
Confidence            6899999999999999998877555568999999999999643  45555544322     2356799999997   459


Q ss_pred             HHHHHHHHH
Q psy2977          76 IDITLQWLI   84 (92)
Q Consensus        76 i~~~~~~l~   84 (92)
                      |+++|++|+
T Consensus       157 V~e~F~~lA  165 (165)
T d1z06a1         157 VEAIFMTLA  165 (165)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHhC
Confidence            999999884

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.74  E-value=5.8e-19  Score=99.58  Aligned_cols=81  Identities=20%  Similarity=0.280  Sum_probs=64.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+|+.+..|+.++...  ..++|+++|+||+|+...  .+.++..+..     ...++++++|||++|.||++
T Consensus        81 v~d~~~~~s~~~~~~~~~~i~~~--~~~~~iilVgnK~Dl~~~~~v~~~~~~~~~-----~~~~~~~~e~Sak~g~~v~e  153 (164)
T d1z2aa1          81 VFSTTDRESFEAISSWREKVVAE--VGDIPTALVQNKIDLLDDSCIKNEEAEGLA-----KRLKLRFYRTSVKEDLNVSE  153 (164)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHH--HCSCCEEEEEECGGGGGGCSSCHHHHHHHH-----HHHTCEEEECBTTTTBSSHH
T ss_pred             EEeccchhhhhhccccccccccc--CCCceEEEeeccCCcccceeeeehhhHHHH-----HHcCCEEEEeccCCCcCHHH
Confidence            58999999999999999888754  247899999999998642  3444444332     12356799999999999999


Q ss_pred             HHHHHHHhhh
Q psy2977          79 TLQWLIAHSK   88 (92)
Q Consensus        79 ~~~~l~~~i~   88 (92)
                      +|++|++.+.
T Consensus       154 ~f~~l~~~~l  163 (164)
T d1z2aa1         154 VFKYLAEKHL  163 (164)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999998875

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=99.74  E-value=1.3e-17  Score=93.33  Aligned_cols=91  Identities=29%  Similarity=0.534  Sum_probs=71.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      ++|+++..++.....++............|+++++||.|+.......++...++........+++++|||++|+||+++|
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iv~nk~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gv~e~~  158 (169)
T d1upta_          79 VVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAM  158 (169)
T ss_dssp             EEETTCCTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHHHH
T ss_pred             hhhhhhcchhhhccchhhhhhhhhccccceEEEEEeeccccccccHHHHHHHHHHHHHhcCCCEEEEEeCCCCCCHHHHH
Confidence            36777777777776666666555445678999999999998777777777665544444567899999999999999999


Q ss_pred             HHHHHhhhhcC
Q psy2977          81 QWLIAHSKSHT   91 (92)
Q Consensus        81 ~~l~~~i~~~~   91 (92)
                      +||++.+++++
T Consensus       159 ~~l~~~l~~k~  169 (169)
T d1upta_         159 EWLVETLKSRQ  169 (169)
T ss_dssp             HHHHHHHHTCC
T ss_pred             HHHHHHHHhCC
Confidence            99999998763

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.73  E-value=4.5e-18  Score=96.61  Aligned_cols=84  Identities=14%  Similarity=0.155  Sum_probs=64.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+|+.+..|+..+.... ..++|++||+||+|+..  ....++.....     ...++++++|||++|.||++
T Consensus        82 v~d~~~~~sf~~~~~~~~~~~~~~-~~~~piilv~nK~D~~~~~~~~~~~~~~~a-----~~~~~~~~e~Sa~tg~~V~e  155 (173)
T d2a5ja1          82 VYDITRRETFNHLTSWLEDARQHS-SSNMVIMLIGNKSDLESRRDVKREEGEAFA-----REHGLIFMETSAKTACNVEE  155 (173)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHS-CTTCEEEEEEECTTCGGGCCSCHHHHHHHH-----HHHTCEEEEECTTTCTTHHH
T ss_pred             EEeecChHHHHhHHHHHHHHHHhC-CCCCeEEEEecCCchhhhhhhHHHHHHHHH-----HHcCCEEEEecCCCCCCHHH
Confidence            589999999999999988876642 35799999999999864  23343333332     12346799999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|.+|.+.+.++
T Consensus       156 ~f~~i~~~i~~~  167 (173)
T d2a5ja1         156 AFINTAKEIYRK  167 (173)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999988654

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.73  E-value=4e-18  Score=95.95  Aligned_cols=82  Identities=15%  Similarity=0.214  Sum_probs=63.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|.+++.+++.+..|+..+.... ..+.|+++|+||+|+..  ....++..+...     ..+..+++|||++|.||++
T Consensus        79 v~d~~~~~s~~~i~~~~~~~~~~~-~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~e~SAk~g~~v~e  152 (164)
T d1yzqa1          79 VYDITNVNSFQQTTKWIDDVRTER-GSDVIIMLVGNKTDLADKRQVSIEEGERKAK-----ELNVMFIETSAKAGYNVKQ  152 (164)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHH-TTSSEEEEEEECTTCGGGCCSCHHHHHHHHH-----HTTCEEEECCTTTCTTHHH
T ss_pred             eeccccccchhhhHhhHHHHHHhc-CCCceEEEEecccchhhhhhhhHHHHHHHHH-----HcCCEEEEecCCCCcCHHH
Confidence            579999999999999988876542 25799999999999964  334444444322     2356799999999999999


Q ss_pred             HHHHHHHhhh
Q psy2977          79 TLQWLIAHSK   88 (92)
Q Consensus        79 ~~~~l~~~i~   88 (92)
                      +|++|++.+.
T Consensus       153 ~f~~i~~~l~  162 (164)
T d1yzqa1         153 LFRRVAAALP  162 (164)
T ss_dssp             HHHHHHHHSC
T ss_pred             HHHHHHHhhC
Confidence            9999998874

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.73  E-value=3.4e-17  Score=91.11  Aligned_cols=86  Identities=35%  Similarity=0.549  Sum_probs=69.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCc-------CCCceEEEeeccccC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAI-------QDREICCYSISCKER   73 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~SA~~~   73 (92)
                      ++|.+++.++.....++..........+.|+++++||.|++...+..++.+.+.+...       ..+.+++++|||+||
T Consensus        74 ~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg  153 (166)
T d2qtvb1          74 LVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMR  153 (166)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCTTTTTCCEEEEEECTTSSSCCCHHHHHHHHTCSSCCC---CCSSCCEEEEEEBTTTT
T ss_pred             eccccchhhhhhhhHHHHhhhhhhccCCceEEEEeccccccccCCHHHHHHHhhhhhhhHHHhhcccCCCEEEEeeCCCC
Confidence            4788998888888888777777666678999999999999887788888777654432       134578999999999


Q ss_pred             CCHHHHHHHHHHh
Q psy2977          74 DNIDITLQWLIAH   86 (92)
Q Consensus        74 ~gi~~~~~~l~~~   86 (92)
                      +||+|+|+||+++
T Consensus       154 ~Gv~e~~~~l~~~  166 (166)
T d2qtvb1         154 NGYLEAFQWLSQY  166 (166)
T ss_dssp             BSHHHHHHHHTTC
T ss_pred             CCHHHHHHHHhCC
Confidence            9999999999763

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.73  E-value=5.3e-18  Score=96.58  Aligned_cols=83  Identities=20%  Similarity=0.246  Sum_probs=59.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCC--------------HHHHHHhhccCCcCCCceEEE
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALD--------------EKELIDRMNLCAIQDREICCY   66 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~--------------~~~~~~~~~~~~~~~~~~~~~   66 (92)
                      |||++++++|+....|+...+... ..+.|++||+||+|++....              .++......    .....+++
T Consensus        80 v~d~~~~~Sf~~~~~~~~~~~~~~-~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~e~~~~a~----~~~~~~~~  154 (177)
T d1kmqa_          80 CFSIDSPDSLENIPEKWTPEVKHF-CPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMAN----RIGAFGYM  154 (177)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHH-STTSCEEEEEECGGGTTCHHHHHHHHHTTCCCCCHHHHHHHHH----HTTCSEEE
T ss_pred             hcccchhHHHHHHHHHHHHHHHHh-CCCCceEEeeecccccchhhHHHHHHHhhcccccHHHHHHHHH----HcCCcEEE
Confidence            589999999998887766665532 35799999999999975321              111111110    01235799


Q ss_pred             eeccccCCCHHHHHHHHHHhhh
Q psy2977          67 SISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        67 ~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      +|||++|.||+++|+++++.+.
T Consensus       155 E~SAkt~~gi~e~F~~i~~~~l  176 (177)
T d1kmqa_         155 ECSAKTKDGVREVFEMATRAAL  176 (177)
T ss_dssp             ECCTTTCTTHHHHHHHHHHHHH
T ss_pred             EecCCCCcCHHHHHHHHHHHHh
Confidence            9999999999999999998764

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=99.72  E-value=3.5e-17  Score=92.80  Aligned_cols=87  Identities=30%  Similarity=0.553  Sum_probs=69.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCC------------cCCCceEEEee
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCA------------IQDREICCYSI   68 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~------------~~~~~~~~~~~   68 (92)
                      ++|.++...+.....++..........+.|+++++||.|++...+..++.+.+.+..            ....++++++|
T Consensus        87 ~~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~li~~~K~D~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (186)
T d1f6ba_          87 LVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEAISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMC  166 (186)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTTCCCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEEEEC
T ss_pred             eeeccCccchHHHHHHHHHhhcccccCCCceEEEEeccCccccCCHHHHHHHHhhcccchhhhhhhHHHhhcCCCEEEEE
Confidence            468888888888777776666655567899999999999998878777777665332            12235789999


Q ss_pred             ccccCCCHHHHHHHHHHhh
Q psy2977          69 SCKERDNIDITLQWLIAHS   87 (92)
Q Consensus        69 SA~~~~gi~~~~~~l~~~i   87 (92)
                      ||++|+||+|+|+||++++
T Consensus       167 SA~tg~Gi~e~~~~l~~~i  185 (186)
T d1f6ba_         167 SVLKRQGYGEGFRWMAQYI  185 (186)
T ss_dssp             BTTTTBSHHHHHHHHHTTC
T ss_pred             eCCCCCCHHHHHHHHHHhh
Confidence            9999999999999999875

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=6.5e-18  Score=95.66  Aligned_cols=84  Identities=20%  Similarity=0.252  Sum_probs=65.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|.+++++++....|+..+... ...+.|+++|+||+|++..  .+.++..+...     ..++++++|||++|.||++
T Consensus        85 v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~iilvgnK~Dl~~~~~v~~e~~~~~~~-----~~~~~~~e~SAk~g~~V~e  158 (170)
T d1r2qa_          85 VYDITNEESFARAKNWVKELQRQ-ASPNIVIALSGNKADLANKRAVDFQEAQSYAD-----DNSLLFMETSAKTSMNVNE  158 (170)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHH-SCTTCEEEEEEECGGGGGGCCSCHHHHHHHHH-----HTTCEEEECCTTTCTTHHH
T ss_pred             EeccchhhHHHHHHHHhhhhhhc-cCCCceEEeecccccccccccccHHHHHHHHH-----hcCCEEEEeeCCCCCCHHH
Confidence            57999999999998888777653 2357999999999998643  34444443321     2356899999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|.+.+.++
T Consensus       159 ~f~~l~~~i~~n  170 (170)
T d1r2qa_         159 IFMAIAKKLPKN  170 (170)
T ss_dssp             HHHHHHHTSCCC
T ss_pred             HHHHHHHHHhhC
Confidence            999999988753

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=3.5e-18  Score=96.54  Aligned_cols=83  Identities=20%  Similarity=0.182  Sum_probs=64.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC--CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN--ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++|+.+..|+..+.... ....|+++|+||+|+..  ..+.++......     ..+.++++|||++|.||++
T Consensus        82 v~d~~~~~Sf~~~~~~~~~~~~~~-~~~~~~ilvgnK~Dl~~~~~v~~~e~~~~a~-----~~~~~~~e~Sak~~~~v~e  155 (167)
T d1z08a1          82 VYDITDEDSFQKVKNWVKELRKML-GNEICLCIVGNKIDLEKERHVSIQEAESYAE-----SVGAKHYHTSAKQNKGIEE  155 (167)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHH-GGGSEEEEEEECGGGGGGCCSCHHHHHHHHH-----HTTCEEEEEBTTTTBSHHH
T ss_pred             EEeCCchhHHHhhhhhhhhccccc-ccccceeeeccccccccccccchHHHHHHHH-----HcCCeEEEEecCCCcCHHH
Confidence            689999999999988887765432 24679999999999864  345555544332     2456899999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|++|++.+.+
T Consensus       156 ~F~~l~~~i~~  166 (167)
T d1z08a1         156 LFLDLCKRMIE  166 (167)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHhh
Confidence            99999998754

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=3.1e-17  Score=93.13  Aligned_cols=85  Identities=15%  Similarity=0.248  Sum_probs=64.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhc---CCCCCCCcEEEEeeCCCCCC-CCCHHHHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAADTDKLEASRNELHALIE---KPQLIGIPILVLGNKRDLPN-ALDEKELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~---~~~~~~~p~ilv~NK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      ++|.+++.+++.+..|+.++..   .....+.|+++|+||+|+.+ ..+.+++.+...    .....++++|||++|.||
T Consensus        85 ~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~~~~v~~~~~~~~~~----~~~~~~~~e~Sak~~~gI  160 (174)
T d1wmsa_          85 TFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISERQVSTEEAQAWCR----DNGDYPYFETSAKDATNV  160 (174)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSSCSSCHHHHHHHHH----HTTCCCEEECCTTTCTTH
T ss_pred             EEeeecccccchhhhHHHHHHHHhccccCCCceEEEeccccchhhccCcHHHHHHHHH----HcCCCeEEEEcCCCCcCH
Confidence            4789999999998888766543   23345789999999999965 345555554432    122467899999999999


Q ss_pred             HHHHHHHHHhhhh
Q psy2977          77 DITLQWLIAHSKS   89 (92)
Q Consensus        77 ~~~~~~l~~~i~~   89 (92)
                      +++|++|++.+..
T Consensus       161 ~e~f~~l~~~il~  173 (174)
T d1wmsa_         161 AAAFEEAVRRVLA  173 (174)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999988753

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.71  E-value=1.2e-17  Score=95.81  Aligned_cols=83  Identities=11%  Similarity=0.143  Sum_probs=59.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--------------CHHHHHHhhccCCcCCCceEEE
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--------------DEKELIDRMNLCAIQDREICCY   66 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--------------~~~~~~~~~~~~~~~~~~~~~~   66 (92)
                      |||++++++|++...|+...+... ..++|+++|+||+|+.+..              +.++..+...    ......++
T Consensus        87 v~d~t~~~Sf~~~~~~~~~~~~~~-~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~~~~~~~~a~----~~~~~~~~  161 (185)
T d2atxa1          87 CFSVVNPASFQNVKEEWVPELKEY-APNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAK----EIGACCYV  161 (185)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHH-STTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHH----HHTCSCEE
T ss_pred             ccccchHHHHHHHHHHHHHHHHhc-CCCCCeeEeeeccccccchhhhhhhhhcccccccHHHHHHHHH----HcCCCEEE
Confidence            689999999998876666655432 3578999999999997521              2222222110    01235789


Q ss_pred             eeccccCCCHHHHHHHHHHhhh
Q psy2977          67 SISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        67 ~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      +|||++|.||+++|+.+.+.+.
T Consensus       162 E~SAk~~~gv~e~F~~li~~il  183 (185)
T d2atxa1         162 ECSALTQKGLKTVFDEAIIAIL  183 (185)
T ss_dssp             ECCTTTCTTHHHHHHHHHHHHH
T ss_pred             EecCCCCcCHHHHHHHHHHHHc
Confidence            9999999999999999988763

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.70  E-value=1.9e-17  Score=94.74  Aligned_cols=86  Identities=20%  Similarity=0.252  Sum_probs=64.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcC---CCCCCCcEEEEeeCCCCCCCC-CHHHHHHhhccCCcCCCceEEEeeccccCCCH
Q psy2977           1 MVDAADTDKLEASRNELHALIEK---PQLIGIPILVLGNKRDLPNAL-DEKELIDRMNLCAIQDREICCYSISCKERDNI   76 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~---~~~~~~p~ilv~NK~Dl~~~~-~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi   76 (92)
                      |+|.+++.++..+..|+.++...   ....++|+++|+||+|+.+.. ..++..+...    .....++++|||++|.||
T Consensus        81 ~~d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~----~~~~~~~~e~Sak~~~gI  156 (184)
T d1vg8a_          81 VFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVATKRAQAWCY----SKNNIPYFETSAKEAINV  156 (184)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCCCSCHHHHHHHHH----HTTSCCEEECBTTTTBSH
T ss_pred             eecccchhhhhcchhhHHHHHHHhccccccCCCEEEEEEeecccccchhHHHHHHHHH----HhcCCeEEEEcCCCCcCH
Confidence            57999999999998888776542   223468999999999997533 3333333321    123567999999999999


Q ss_pred             HHHHHHHHHhhhhc
Q psy2977          77 DITLQWLIAHSKSH   90 (92)
Q Consensus        77 ~~~~~~l~~~i~~~   90 (92)
                      +++|++|++.+.++
T Consensus       157 ~e~f~~l~~~i~~~  170 (184)
T d1vg8a_         157 EQAFQTIARNALKQ  170 (184)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999999987654

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.70  E-value=3.5e-17  Score=93.04  Aligned_cols=83  Identities=18%  Similarity=0.218  Sum_probs=63.7

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|.+++++|.....|+..+.+.. ..++|+++|+||+|+.+.  ...+.......     ..+.++++|||++|.||++
T Consensus        83 v~d~~~~~S~~~~~~~~~~i~~~~-~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~e~Sa~~g~~i~e  156 (175)
T d2f9la1          83 VYDIAKHLTYENVERWLKELRDHA-DSNIVIMLVGNKSDLRHLRAVPTDEARAFAE-----KNNLSFIETSALDSTNVEE  156 (175)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHS-CTTCEEEEEEECTTCGGGCCSCHHHHHHHHH-----HTTCEEEECCTTTCTTHHH
T ss_pred             EEECCCcccchhHHHHHHHHHHhc-CCCCcEEEEEeeecccccccchHHHHHHhhc-----ccCceEEEEecCCCcCHHH
Confidence            589999999999999988877643 257899999999999743  23333222221     2356799999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|++|.+.+.+
T Consensus       157 ~f~~l~~~i~~  167 (175)
T d2f9la1         157 AFKNILTEIYR  167 (175)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999998753

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.69  E-value=1.2e-17  Score=94.57  Aligned_cols=85  Identities=16%  Similarity=0.188  Sum_probs=64.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.++.....|+..+... .....|+++|+||+|++..  .+.++..+...     ..++++++|||++|+||++
T Consensus        84 v~d~~~~~s~~~~~~~~~~i~~~-~~~~~~~ilvgnK~D~~~~~~v~~~~~~~~~~-----~~~~~~~~~SAktg~gV~e  157 (171)
T d2ew1a1          84 TYDITCEESFRCLPEWLREIEQY-ASNKVITVLVGNKIDLAERREVSQQRAEEFSE-----AQDMYYLETSAKESDNVEK  157 (171)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHH-SCTTCEEEEEEECGGGGGGCSSCHHHHHHHHH-----HHTCCEEECCTTTCTTHHH
T ss_pred             eeecccchhhhhhhhhhhhhccc-ccccccEEEEEeecccccccchhhhHHHHHHH-----hCCCEEEEEccCCCCCHHH
Confidence            57999999999998888877653 2356899999999998643  33444433321     2345789999999999999


Q ss_pred             HHHHHHHhhhhcC
Q psy2977          79 TLQWLIAHSKSHT   91 (92)
Q Consensus        79 ~~~~l~~~i~~~~   91 (92)
                      +|.+|++.+.+..
T Consensus       158 ~f~~l~~~l~~~~  170 (171)
T d2ew1a1         158 LFLDLACRLISEA  170 (171)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhc
Confidence            9999998876543

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.68  E-value=8.2e-17  Score=91.63  Aligned_cols=85  Identities=20%  Similarity=0.196  Sum_probs=68.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC-CCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN-ALDEKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|++++.++..+..|+.++.........|+++++||.|... ..+.++..+..     ...++++++|||++|+||+++
T Consensus        86 v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~~~~~v~~~~~~~~~-----~~~~~~~~e~Sa~tg~gv~e~  160 (177)
T d1x3sa1          86 VYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKENREVDRNEGLKFA-----RKHSMLFIEASAKTCDGVQCA  160 (177)
T ss_dssp             EEETTCHHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSSCCSCHHHHHHHH-----HHTTCEEEECCTTTCTTHHHH
T ss_pred             EEECCCccccccchhhhhhhcccccccceeeEEEeeccccccccccHHHHHHHH-----HHCCCEEEEEeCCCCCCHHHH
Confidence            589999999999999999987765556789999999999864 33444444432     234578999999999999999


Q ss_pred             HHHHHHhhhhc
Q psy2977          80 LQWLIAHSKSH   90 (92)
Q Consensus        80 ~~~l~~~i~~~   90 (92)
                      |++|.+.+.+.
T Consensus       161 f~~l~~~l~~~  171 (177)
T d1x3sa1         161 FEELVEKIIQT  171 (177)
T ss_dssp             HHHHHHHHHTS
T ss_pred             HHHHHHHHccC
Confidence            99999988765

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.68  E-value=5.6e-17  Score=91.73  Aligned_cols=84  Identities=15%  Similarity=0.201  Sum_probs=64.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|+++++++.....|+..+... .....|+++++||+|+++.  .+.++.....     ...++++++|||++|.||++
T Consensus        84 v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~iivv~nK~D~~~~~~v~~~~~~~~~-----~~~~~~~~e~Sak~g~gv~e  157 (169)
T d3raba_          84 MYDITNEESFNAVQDWSTQIKTY-SWDNAQVLLVGNKCDMEDERVVSSERGRQLA-----DHLGFEFFEASAKDNINVKQ  157 (169)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHH-CCSCCEEEEEEECTTCGGGCCSCHHHHHHHH-----HHHTCEEEECBTTTTBSHHH
T ss_pred             EEECccchhhhhhhhhhhhhhcc-cCCcceEEEEEeecccccccccchhhhHHHH-----HHcCCEEEEecCCCCcCHHH
Confidence            58999999999888877665543 3457899999999998753  3444443322     12356799999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|++.+.++
T Consensus       158 ~f~~l~~~i~ek  169 (169)
T d3raba_         158 TFERLVDVICEK  169 (169)
T ss_dssp             HHHHHHHHHHTC
T ss_pred             HHHHHHHHHhhC
Confidence            999999988754

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.68  E-value=7.3e-17  Score=90.97  Aligned_cols=81  Identities=15%  Similarity=0.124  Sum_probs=62.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++++++....|+..+... .....|+++++||+|+...  ...++......     ..++++++|||++|.||++
T Consensus        83 v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~e~Saktg~~v~e  156 (166)
T d1z0fa1          83 VYDITRRSTYNHLSSWLTDARNL-TNPNTVIILIGNKADLEAQRDVTYEEAKQFAE-----ENGLLFLEASAKTGENVED  156 (166)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHH-SCTTCEEEEEEECTTCGGGCCSCHHHHHHHHH-----HTTCEEEECCTTTCTTHHH
T ss_pred             EeccCchHHHHHHHHHHHHHHhh-ccccceEEEEcccccchhhcccHHHHHHHHHH-----HcCCEEEEEeCCCCCCHHH
Confidence            57999999999988888777653 3357899999999998542  23344444321     2356899999999999999


Q ss_pred             HHHHHHHhh
Q psy2977          79 TLQWLIAHS   87 (92)
Q Consensus        79 ~~~~l~~~i   87 (92)
                      +|++|.+.+
T Consensus       157 ~f~~i~~~i  165 (166)
T d1z0fa1         157 AFLEAAKKI  165 (166)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            999999875

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.66  E-value=3.6e-17  Score=93.55  Aligned_cols=88  Identities=14%  Similarity=0.144  Sum_probs=59.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCH-HHHHHhhccCC--------c-CCCceEEEeecc
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDE-KELIDRMNLCA--------I-QDREICCYSISC   70 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~-~~~~~~~~~~~--------~-~~~~~~~~~~SA   70 (92)
                      |+|++++++|+.+..|+...+... ..++|++||+||+|+...... +..........        . ......+++|||
T Consensus        83 v~d~~~~~sf~~i~~~~~~~~~~~-~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~E~SA  161 (183)
T d1mh1a_          83 CFSLVSPASFENVRAKWYPEVRHH-CPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSA  161 (183)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHH-STTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCT
T ss_pred             eeccchHHHHHHHHHHHHHHHHHh-CCCCcEEEEeecccchhhhhhhhhhhhccccchhhHHHHHHHHHcCCceEEEcCC
Confidence            589999999998877555555432 357899999999998643111 11111100000        0 012368999999


Q ss_pred             ccCCCHHHHHHHHHHhhhh
Q psy2977          71 KERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        71 ~~~~gi~~~~~~l~~~i~~   89 (92)
                      ++|.||+++|++|.+.+..
T Consensus       162 k~~~~V~e~F~~l~~~il~  180 (183)
T d1mh1a_         162 LTQRGLKTVFDEAIRAVLC  180 (183)
T ss_dssp             TTCTTHHHHHHHHHHHHSC
T ss_pred             CCCcCHHHHHHHHHHHHcC
Confidence            9999999999999987753

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.66  E-value=2.1e-16  Score=89.61  Aligned_cols=84  Identities=19%  Similarity=0.207  Sum_probs=59.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|++++.+++.+..|+..+... ...+.|+++|+||.|+....  ..++.....     ...+.++++|||++|+||++
T Consensus        85 v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~iilv~~k~D~~~~~~~~~~~~~~~~-----~~~~~~~~e~Sa~~g~gv~e  158 (173)
T d2fu5c1          85 VYDITNEKSFDNIRNWIRNIEEH-ASADVEKMILGNKCDVNDKRQVSKERGEKLA-----LDYGIKFMETSAKANINVEN  158 (173)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHH-SCTTCEEEEEEEC--CCSCCCSCHHHHHHHH-----HHHTCEEEECCC---CCHHH
T ss_pred             EEECCChhhHHHHHHHHHHhhhh-ccCCceEEEEEecccchhhcccHHHHHHHHH-----HhcCCEEEEEeCCCCCCHHH
Confidence            58999999999988888777543 34679999999999997532  333333322     12357899999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|+||++.+..+
T Consensus       159 ~f~~l~~~i~~k  170 (173)
T d2fu5c1         159 AFFTLARDIKAK  170 (173)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999998765

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.65  E-value=1.2e-16  Score=91.92  Aligned_cols=84  Identities=11%  Similarity=0.127  Sum_probs=60.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--------------CCHHHHHHhhccCCcCCCceEEE
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--------------LDEKELIDRMNLCAIQDREICCY   66 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--------------~~~~~~~~~~~~~~~~~~~~~~~   66 (92)
                      |||++++++|+.+..|+...+... ..+.|+++|+||+|+.+.              .+.++..+...    ......++
T Consensus        81 v~d~~~~~Sf~~~~~~~~~~~~~~-~~~~~i~lvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~----~~~~~~~~  155 (191)
T d2ngra_          81 CFSVVSPSSFENVKEKWVPEITHH-CPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLAR----DLKAVKYV  155 (191)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHH-CTTCCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHH----HTTCSCEE
T ss_pred             ccccchHHHHHHHHHHHHHHHhhc-CCCCceEEEeccccccccchhhhhhhhcccccccHHHHHHHHH----HcCCCeEE
Confidence            689999999999987666655432 357999999999998642              22222222111    11235689


Q ss_pred             eeccccCCCHHHHHHHHHHhhhh
Q psy2977          67 SISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        67 ~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      +|||++|.||+++|+.+...+.+
T Consensus       156 e~SAk~~~~V~e~f~~l~~~~~~  178 (191)
T d2ngra_         156 ECSALTQKGLKNVFDEAILAALE  178 (191)
T ss_dssp             ECCTTTCTTHHHHHHHHHHHHTS
T ss_pred             EEeCCCCcCHHHHHHHHHHHHhc
Confidence            99999999999999999987654

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.64  E-value=1e-17  Score=94.75  Aligned_cols=82  Identities=17%  Similarity=0.219  Sum_probs=63.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC-----CCCHHHHHHhhccCCcCCCceEEEeeccccCCC
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN-----ALDEKELIDRMNLCAIQDREICCYSISCKERDN   75 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~g   75 (92)
                      |+|++++.+++....|+....... ....|+++++||+|+.+     ..+.++..+..     ...++++++|||++|.|
T Consensus        82 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~~~v~nk~d~~~~~~~~~v~~~~~~~~~-----~~~~~~~~e~Sak~g~g  155 (170)
T d1ek0a_          82 VYDVTKPQSFIKARHWVKELHEQA-SKDIIIALVGNKIDMLQEGGERKVAREEGEKLA-----EEKGLLFFETSAKTGEN  155 (170)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHS-CTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHH-----HHHTCEEEECCTTTCTT
T ss_pred             EEeCCcccchhhhhhhhhhhcccc-ccccceeeeecccccccccchhhhhHHHHHHHH-----HHcCCEEEEecCCCCcC
Confidence            589999999999988887665532 35789999999999853     23444443332     23457899999999999


Q ss_pred             HHHHHHHHHHhhh
Q psy2977          76 IDITLQWLIAHSK   88 (92)
Q Consensus        76 i~~~~~~l~~~i~   88 (92)
                      |+++|.+|++.|.
T Consensus       156 V~e~F~~i~~~i~  168 (170)
T d1ek0a_         156 VNDVFLGIGEKIP  168 (170)
T ss_dssp             HHHHHHHHHTTSC
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999998875

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=2.5e-16  Score=89.29  Aligned_cols=84  Identities=19%  Similarity=0.141  Sum_probs=63.4

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC--CHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL--DEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|.++++++..+..|+..+.... ..++|+++|+||+|+....  ..++.....     ...++++++|||++|.||++
T Consensus        84 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~e~Sak~~~gi~e  157 (174)
T d2bmea1          84 VYDITSRETYNALTNWLTDARMLA-SQNIVIILCGNKKDLDADREVTFLEASRFA-----QENELMFLETSALTGENVEE  157 (174)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHS-CTTCEEEEEEECGGGGGGCCSCHHHHHHHH-----HHTTCEEEECCTTTCTTHHH
T ss_pred             EEecccchhHHHHhhhhccccccc-CCceEEEEEEecccccchhchhhhHHHHHH-----HhCCCEEEEeeCCCCcCHHH
Confidence            579999999999888888776543 3579999999999985422  233332221     12356899999999999999


Q ss_pred             HHHHHHHhhhhc
Q psy2977          79 TLQWLIAHSKSH   90 (92)
Q Consensus        79 ~~~~l~~~i~~~   90 (92)
                      +|++|.+.+.++
T Consensus       158 ~f~~l~~~i~~~  169 (174)
T d2bmea1         158 AFVQCARKILNK  169 (174)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999987653

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.63  E-value=2.4e-15  Score=85.64  Aligned_cols=85  Identities=11%  Similarity=0.135  Sum_probs=62.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhc--CCCCCCCcEEEEeeCCCCCCC----CCHHHHHHhhccCCcCCCceEEEeeccccCC
Q psy2977           1 MVDAADTDKLEASRNELHALIE--KPQLIGIPILVLGNKRDLPNA----LDEKELIDRMNLCAIQDREICCYSISCKERD   74 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~--~~~~~~~p~ilv~NK~Dl~~~----~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~   74 (92)
                      |||++++++|+.+..|...+..  .......|+++|+||.|+...    .+.++......    ...+..+++|||++|.
T Consensus        77 Vfd~~~~~Sf~~~~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~~~~~~v~~~~~~~~~~----~~~~~~~~e~SAk~~~  152 (175)
T d2bmja1          77 VFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALCA----DMKRCSYYETCATYGL  152 (175)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHHCC--CCCCEEEEEEECTTCCSSSCCCSCHHHHHHHHH----TSTTEEEEEEBTTTTB
T ss_pred             EeecccchhhhhhHHHHHHHHHHhhcccCCccEEEEeeecCcchhhhcchhHHHHHHHHH----HhCCCeEEEeCCCCCc
Confidence            6899999999998887776542  223356899999999997532    23344433321    1245789999999999


Q ss_pred             CHHHHHHHHHHhhhh
Q psy2977          75 NIDITLQWLIAHSKS   89 (92)
Q Consensus        75 gi~~~~~~l~~~i~~   89 (92)
                      ||+++|..|++.+.+
T Consensus       153 ~v~~~F~~l~~~i~~  167 (175)
T d2bmja1         153 NVDRVFQEVAQKVVT  167 (175)
T ss_dssp             THHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHH
Confidence            999999999988754

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.63  E-value=5.1e-16  Score=87.72  Aligned_cols=83  Identities=16%  Similarity=0.223  Sum_probs=63.9

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|+++++++..+..|+....... ....|+++|+||+|+...  .+.+++.....     ..++++++|||++|.||++
T Consensus        86 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~iilv~~k~d~~~~~~v~~~~~~~~~~-----~~~~~~~e~Sak~g~gi~e  159 (170)
T d2g6ba1          86 LYDVTNKASFDNIQAWLTEIHEYA-QHDVALMLLGNKVDSAHERVVKREDGEKLAK-----EYGLPFMETSAKTGLNVDL  159 (170)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHHS-CTTCEEEEEEECCSTTSCCCSCHHHHHHHHH-----HHTCCEEECCTTTCTTHHH
T ss_pred             EecCCcccchhhhhhhhhhhhhcc-CCCceEEEEEeeechhhcccccHHHHHHHHH-----HcCCEEEEEeCCCCcCHHH
Confidence            579999999999988887766542 246899999999998753  34444433321     2346799999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|++|++.+++
T Consensus       160 ~f~~l~~~i~k  170 (170)
T d2g6ba1         160 AFTAIAKELKR  170 (170)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHcCC
Confidence            99999998864

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.62  E-value=1.9e-16  Score=90.39  Aligned_cols=85  Identities=12%  Similarity=0.110  Sum_probs=60.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--------------CCHHHHHHhhccCCcCCCceEEE
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--------------LDEKELIDRMNLCAIQDREICCY   66 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--------------~~~~~~~~~~~~~~~~~~~~~~~   66 (92)
                      |||++++++|+....|+...+... ..+.|+++|+||+|+...              .+.++......    ......++
T Consensus        80 v~d~~~~~Sf~~~~~~~~~~~~~~-~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~V~~~e~~~~a~----~~~~~~y~  154 (179)
T d1m7ba_          80 CFDISRPETLDSVLKKWKGEIQEF-CPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAK----QIGAATYI  154 (179)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHH-CTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHH----HHTCSEEE
T ss_pred             eeecccCCCHHHHHHHHHHHHhcc-CCcceEEEEEecccccccchhhHHHhhhhcCcchHHHHHHHHH----HhCCCeEE
Confidence            689999999999887766655432 257899999999998532              22223222211    01235789


Q ss_pred             eeccccCC-CHHHHHHHHHHhhhhc
Q psy2977          67 SISCKERD-NIDITLQWLIAHSKSH   90 (92)
Q Consensus        67 ~~SA~~~~-gi~~~~~~l~~~i~~~   90 (92)
                      +|||++|+ ||+++|+.+.+.+.++
T Consensus       155 E~SAk~~~n~i~~~F~~~~~~~l~k  179 (179)
T d1m7ba_         155 ECSALQSENSVRDIFHVATLACVNK  179 (179)
T ss_dssp             ECBTTTBHHHHHHHHHHHHHHHHTC
T ss_pred             EEeCCCCCcCHHHHHHHHHHHHhcC
Confidence            99999998 5999999999988653

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.58  E-value=4.9e-15  Score=85.30  Aligned_cols=83  Identities=14%  Similarity=0.186  Sum_probs=63.1

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC--CCHHHHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA--LDEKELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      |+|+++++++.....|+..+... .....|+++|+||+|+.+.  ...++......     ..+..+++|||++|.||++
T Consensus        85 v~d~t~~~s~~~~~~~~~~~~~~-~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~e~SAk~g~gi~e  158 (194)
T d2bcgy1          85 VYDVTDQESFNGVKMWLQEIDRY-ATSTVLKLLVGNKCDLKDKRVVEYDVAKEFAD-----ANKMPFLETSALDSTNVED  158 (194)
T ss_dssp             EEETTCHHHHHHHHHHHHHHHHH-SCTTCEEEEEEECTTCTTTCCSCHHHHHHHHH-----HTTCCEEECCTTTCTTHHH
T ss_pred             EEeCcchhhhhhHhhhhhhhhhc-ccCCceEEEEEeccccccccchhHHHHhhhhh-----ccCcceEEEecCcCccHHH
Confidence            58999999999988777766543 2467899999999999753  23433333321     2346689999999999999


Q ss_pred             HHHHHHHhhhh
Q psy2977          79 TLQWLIAHSKS   89 (92)
Q Consensus        79 ~~~~l~~~i~~   89 (92)
                      +|++|.+.+.+
T Consensus       159 ~f~~l~~~i~~  169 (194)
T d2bcgy1         159 AFLTMARQIKE  169 (194)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999998765

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.56  E-value=4.6e-15  Score=83.36  Aligned_cols=84  Identities=17%  Similarity=0.175  Sum_probs=64.0

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCC-CHHHHHHhhccCCcCCCceEEEeeccccCCCHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNAL-DEKELIDRMNLCAIQDREICCYSISCKERDNIDIT   79 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~-~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~   79 (92)
                      |+|.+++++++.+..|....... .....|+++++||.|+.... ..++..+..     ...++++++|||++|+||+++
T Consensus        81 v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~~i~~~~k~d~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~~v~e~  154 (166)
T d1g16a_          81 VYDITDERTFTNIKQWFKTVNEH-ANDEAQLLLVGNKSDMETRVVTADQGEALA-----KELGIPFIESSAKNDDNVNEI  154 (166)
T ss_dssp             EEETTCHHHHHTHHHHHHHHHHH-SCTTCEEEEEEECTTCTTCCSCHHHHHHHH-----HHHTCCEEECBTTTTBSHHHH
T ss_pred             EEECCCccCHHHHHhhhhhhhcc-ccCcceeeeecchhhhhhhhhhHHHHHHHH-----HhcCCeEEEECCCCCCCHHHH
Confidence            58999999998887776665543 23568999999999987543 344443332     123578999999999999999


Q ss_pred             HHHHHHhhhhc
Q psy2977          80 LQWLIAHSKSH   90 (92)
Q Consensus        80 ~~~l~~~i~~~   90 (92)
                      |++|++.+.++
T Consensus       155 f~~l~~~i~~k  165 (166)
T d1g16a_         155 FFTLAKLIQEK  165 (166)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhc
Confidence            99999998765

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=99.41  E-value=2.2e-13  Score=78.14  Aligned_cols=57  Identities=19%  Similarity=0.168  Sum_probs=42.5

Q ss_pred             CCcEEEEeeCCCCCCCCCHHH----HHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          28 GIPILVLGNKRDLPNALDEKE----LIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~~----~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      ++|+++|+||+|+.......+    +.+.+.    .....+++++||++|+|+++++++|.+.+.
T Consensus       134 ~~piivv~NK~D~~~~~~~~~~~~~~~~~l~----~~~~~~~~~~SA~~~~gi~el~~~i~~~l~  194 (195)
T d1svia_         134 GIPVIVIATKADKIPKGKWDKHAKVVRQTLN----IDPEDELILFSSETKKGKDEAWGAIKKMIN  194 (195)
T ss_dssp             TCCEEEEEECGGGSCGGGHHHHHHHHHHHHT----CCTTSEEEECCTTTCTTHHHHHHHHHHHHT
T ss_pred             cCcceechhhccccCHHHHHHHHHHHHHHhc----ccCCCCEEEEeCCCCCCHHHHHHHHHHHhC
Confidence            589999999999864333322    223332    234567899999999999999999999875

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.37  E-value=2.4e-13  Score=77.11  Aligned_cols=58  Identities=24%  Similarity=0.186  Sum_probs=44.3

Q ss_pred             CCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhhhc
Q psy2977          28 GIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKSH   90 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~~   90 (92)
                      ++|+++|+||+|+......+++.+.+.     ..+.+++++||++|+||+++++.|.+.+...
T Consensus       113 ~~p~iiv~NK~D~~~~~~~~~~~~~~~-----~~~~~~~~iSA~tg~gid~L~~~i~~~l~~~  170 (180)
T d1udxa2         113 RRPSLVALNKVDLLEEEAVKALADALA-----REGLAVLPVSALTGAGLPALKEALHALVRST  170 (180)
T ss_dssp             HSCEEEEEECCTTSCHHHHHHHHHHHH-----TTTSCEEECCTTTCTTHHHHHHHHHHHHHTS
T ss_pred             hhhhhhhhhhhhhhhHHHHHHHHHHHH-----hcCCeEEEEEcCCCCCHHHHHHHHHHHHhhc
Confidence            579999999999975333333444332     2356799999999999999999999988653

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=99.36  E-value=6.5e-14  Score=78.92  Aligned_cols=59  Identities=12%  Similarity=0.086  Sum_probs=41.9

Q ss_pred             CCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhhhcC
Q psy2977          28 GIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKSHT   91 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~~~   91 (92)
                      ++|+++|+||+|+......+...+...     .....++++||++|.||++++++|.+.+.++.
T Consensus       109 ~~pviiv~NK~Dl~~~~~~~~~~~~~~-----~~~~~~i~iSAk~g~gid~L~~~i~~~l~e~~  167 (171)
T d1mkya1         109 TVDTILVANKAENLREFEREVKPELYS-----LGFGEPIPVSAEHNINLDTMLETIIKKLEEKG  167 (171)
T ss_dssp             TCCEEEEEESCCSHHHHHHHTHHHHGG-----GSSCSCEECBTTTTBSHHHHHHHHHHHHHHTT
T ss_pred             cccccccchhhhhhhhhhhHHHHHHHh-----cCCCCeEEEecCCCCCHHHHHHHHHHhCCCCC
Confidence            579999999999864322221222211     12235689999999999999999999987653

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=99.35  E-value=1.3e-13  Score=76.73  Aligned_cols=74  Identities=19%  Similarity=0.257  Sum_probs=48.1

Q ss_pred             eeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHH
Q psy2977           2 VDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQ   81 (92)
Q Consensus         2 ~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~   81 (92)
                      +|.+++..+.....|. +.+... ..++|+++|+||+|+.....        .+.  .....+++++||++|+||+++++
T Consensus        88 ~d~~~~~~~~~~~~~~-~~~~~~-~~~~~iilv~NK~Dl~~~~~--------~~~--~~~~~~~~~iSAk~~~gi~~L~~  155 (161)
T d2gj8a1          88 VDGTTTDAVDPAEIWP-EFIARL-PAKLPITVVRNKADITGETL--------GMS--EVNGHALIRLSARTGEGVDVLRN  155 (161)
T ss_dssp             EETTTCCCCSHHHHCH-HHHHHS-CTTCCEEEEEECHHHHCCCC--------EEE--EETTEEEEECCTTTCTTHHHHHH
T ss_pred             eccccccchhhhhhhh-hhhhhc-ccccceeeccchhhhhhhHH--------HHH--HhCCCcEEEEECCCCCCHHHHHH
Confidence            4666555544443332 222221 24689999999999854211        111  12357899999999999999999


Q ss_pred             HHHHhh
Q psy2977          82 WLIAHS   87 (92)
Q Consensus        82 ~l~~~i   87 (92)
                      +|.+.+
T Consensus       156 ~l~~~l  161 (161)
T d2gj8a1         156 HLKQSM  161 (161)
T ss_dssp             HHHHHC
T ss_pred             HHHhhC
Confidence            998864

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.33  E-value=7.5e-13  Score=74.92  Aligned_cols=81  Identities=17%  Similarity=0.128  Sum_probs=52.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++...  ...++.+.+... ..++|+++|+||+|+...  .++..+.+...   .....++++||++|.||++++
T Consensus        91 v~D~~~~~~~--~~~~i~~~l~~~-~~~~piilv~NK~Dl~~~--~~~~~~~~~~~---~~~~~~~~iSA~~~~gi~~L~  162 (178)
T d1wf3a1          91 VVDLRHPPTP--EDELVARALKPL-VGKVPILLVGNKLDAAKY--PEEAMKAYHEL---LPEAEPRMLSALDERQVAELK  162 (178)
T ss_dssp             EEETTSCCCH--HHHHHHHHHGGG-TTTSCEEEEEECGGGCSS--HHHHHHHHHHT---STTSEEEECCTTCHHHHHHHH
T ss_pred             eechhhhhcc--cccchhhheecc-ccchhhhhhhcccccccC--HHHHHHHHHhh---cccCceEEEecCCCCCHHHHH
Confidence            4687765332  224444444332 246899999999999642  23332222111   123468899999999999999


Q ss_pred             HHHHHhhhh
Q psy2977          81 QWLIAHSKS   89 (92)
Q Consensus        81 ~~l~~~i~~   89 (92)
                      ++|.+.+.+
T Consensus       163 ~~i~~~lpe  171 (178)
T d1wf3a1         163 ADLLALMPE  171 (178)
T ss_dssp             HHHHTTCCB
T ss_pred             HHHHHhCCC
Confidence            999998854

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=99.27  E-value=2.8e-12  Score=72.81  Aligned_cols=62  Identities=18%  Similarity=0.323  Sum_probs=45.3

Q ss_pred             CCCCCCCcEEEEeeCCCCCCCCC-HHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhhhc
Q psy2977          23 KPQLIGIPILVLGNKRDLPNALD-EKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKSH   90 (92)
Q Consensus        23 ~~~~~~~p~ilv~NK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~~   90 (92)
                      .....++|+++|+||+|+++... .+.+.+.+      ..+.+++.+||++|.||++++++|.+.+.+.
T Consensus       112 ~~~~~~kp~ivv~NK~Dl~~~~~~~~~~~~~~------~~~~~v~~iSA~~g~Gi~~L~~~i~~~L~~~  174 (185)
T d1lnza2         112 NLRLTERPQIIVANKMDMPEAAENLEAFKEKL------TDDYPVFPISAVTREGLRELLFEVANQLENT  174 (185)
T ss_dssp             CSSTTTSCBCBEEECTTSTTHHHHHHHHHHHC------CSCCCBCCCSSCCSSTTHHHHHHHHHHHTSC
T ss_pred             hhhccCCcchhhccccchHhHHHHHHHHHHHh------ccCCcEEEEECCCCCCHHHHHHHHHHhhhhC
Confidence            33456789999999999975321 12233322      2346789999999999999999999998653

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=99.27  E-value=3e-12  Score=72.69  Aligned_cols=62  Identities=19%  Similarity=0.199  Sum_probs=41.5

Q ss_pred             CCcEEEEeeCCCCCCCCCHH---HHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          28 GIPILVLGNKRDLPNALDEK---ELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~---~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      ++|+++|+||+|+.+.....   ++.+.+..........+++++||++|+|+++++++|.+.+.+
T Consensus       111 ~~p~iiv~NKiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~iSA~~g~gi~eL~~~I~~~l~~  175 (179)
T d1wb1a4         111 NIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSIIPISAKTGFGVDELKNLIITTLNN  175 (179)
T ss_dssp             TCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             CCcceeccccccccCHHHHHHHHHHHHHHHHHhhcCCCCeEEEEEccCCcCHHHHHHHHHhcCCc
Confidence            68999999999997532211   111111000001124578999999999999999999988764

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.24  E-value=1.4e-12  Score=74.38  Aligned_cols=82  Identities=17%  Similarity=0.245  Sum_probs=56.1

Q ss_pred             hHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC------------------CCHHH----HH-HhhccCCcCCCceEE
Q psy2977           9 KLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA------------------LDEKE----LI-DRMNLCAIQDREICC   65 (92)
Q Consensus         9 ~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~------------------~~~~~----~~-~~~~~~~~~~~~~~~   65 (92)
                      ++.+...++..++......+.|+++++||+|+...                  .+...    +. ...+......+.+.+
T Consensus        93 ~~~e~~~~~~~~l~~~~~~~~~~~~v~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~f~~~~~~~~~~~~~  172 (200)
T d2bcjq2          93 RMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYS  172 (200)
T ss_dssp             HHHHHHHHHHHHHHCGGGSSSEEEEEEECHHHHHHHTTTSCHHHHSTTCCSCSSCHHHHHHHHHHHHHTTCSCTTSCEEE
T ss_pred             chHHHHHHHHHHHhhhhccCccEEEecchhhhhhhcccchHHHHhcccccCCchhHHHHHHHHHHHHHHhcccCCCceEE
Confidence            45556677777777666678999999999997321                  01111    11 111222233456788


Q ss_pred             EeeccccCCCHHHHHHHHHHhhhhc
Q psy2977          66 YSISCKERDNIDITLQWLIAHSKSH   90 (92)
Q Consensus        66 ~~~SA~~~~gi~~~~~~l~~~i~~~   90 (92)
                      ++|||++|+||+++|+.|.+.|.++
T Consensus       173 ~~tSAk~~~ni~~vF~~i~~~I~~~  197 (200)
T d2bcjq2         173 HFTCATDTENIRFVFAAVKDTILQL  197 (200)
T ss_dssp             EECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             EEeEEEcCHhHHHHHHHHHHHHHHH
Confidence            9999999999999999999988754

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=99.23  E-value=3.6e-11  Score=66.53  Aligned_cols=73  Identities=18%  Similarity=0.225  Sum_probs=52.5

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|++++......  .+...+     ...|+++++||+|+.+..+.+++...++      ...+++++||++|+||++++
T Consensus        87 v~d~~~~~~~~~~--~~~~~~-----~~~~~i~~~~k~d~~~~~~~~~~~~~~~------~~~~~~~vSA~~g~gi~~L~  153 (160)
T d1xzpa2          87 VLDASSPLDEEDR--KILERI-----KNKRYLVVINKVDVVEKINEEEIKNKLG------TDRHMVKISALKGEGLEKLE  153 (160)
T ss_dssp             EEETTSCCCHHHH--HHHHHH-----TTSSEEEEEEECSSCCCCCHHHHHHHHT------CSTTEEEEEGGGTCCHHHHH
T ss_pred             EEeCCCCcchhhh--hhhhhc-----ccccceeeeeeccccchhhhHHHHHHhC------CCCcEEEEECCCCCCHHHHH
Confidence            4677766544322  122222     3468999999999988777777777654      23458999999999999999


Q ss_pred             HHHHHh
Q psy2977          81 QWLIAH   86 (92)
Q Consensus        81 ~~l~~~   86 (92)
                      ++|.++
T Consensus       154 ~~I~ke  159 (160)
T d1xzpa2         154 ESIYRE  159 (160)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            999764

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.14  E-value=1.6e-11  Score=69.59  Aligned_cols=80  Identities=14%  Similarity=0.173  Sum_probs=52.5

Q ss_pred             HHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC-----------------CCCHHH----HHHhh-ccCC-cCCCceEEEe
Q psy2977          11 EASRNELHALIEKPQLIGIPILVLGNKRDLPN-----------------ALDEKE----LIDRM-NLCA-IQDREICCYS   67 (92)
Q Consensus        11 ~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~-----------------~~~~~~----~~~~~-~~~~-~~~~~~~~~~   67 (92)
                      .+...++..++.+....+.|+++++||+|+..                 .....+    +...+ .... ...+++.+++
T Consensus        92 ~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~  171 (195)
T d1svsa1          92 HESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHF  171 (195)
T ss_dssp             HHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSHHHHHHHHHHHHHTTCSCTTTCCEEEEE
T ss_pred             HHHHHHHHHHhcccccCCCCEEEEeccchhhhhhccchHHHHHhhhhcCcccHHHHHHHHHHHHHHHhcccCCCcceeEE
Confidence            34455666777665567899999999998621                 011111    11111 1111 1235678889


Q ss_pred             eccccCCCHHHHHHHHHHhhhhc
Q psy2977          68 ISCKERDNIDITLQWLIAHSKSH   90 (92)
Q Consensus        68 ~SA~~~~gi~~~~~~l~~~i~~~   90 (92)
                      |||++|.||+++|+.+.+.+.++
T Consensus       172 tSA~~~~nv~~~F~~v~~~il~~  194 (195)
T d1svsa1         172 TCATDTKNVQFVFDAVTDVIIKN  194 (195)
T ss_dssp             CCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             EEeECCHhHHHHHHHHHHHHHhc
Confidence            99999999999999999988764

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.13  E-value=2.1e-10  Score=65.97  Aligned_cols=86  Identities=17%  Similarity=0.200  Sum_probs=53.3

Q ss_pred             CeeCCchhh-HHHHHHHHHHhhcC--CCCCCCcEEEEeeCCCCCCCCCHHHHHHhhcc----------------------
Q psy2977           1 MVDAADTDK-LEASRNELHALIEK--PQLIGIPILVLGNKRDLPNALDEKELIDRMNL----------------------   55 (92)
Q Consensus         1 v~D~s~~~~-~~~~~~~~~~~~~~--~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~----------------------   55 (92)
                      |+|+++..+ +.....++..++..  .....+|++||+||+|++++.+.+++.+.+..                      
T Consensus        78 v~D~~d~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~a~~~~~i~~~l~~e~~~~~~~~~~~~~~~~~~~~~  157 (207)
T d2fh5b1          78 VVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAKLIQQQLEKELNTLRVTRSAAPSTLDSSSTA  157 (207)
T ss_dssp             EEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHHCC------------
T ss_pred             EEEcccccccHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccCCCCCHHHHHHHHHHHhhhhhhccccccceeehhhhh
Confidence            579988765 34555666665532  11245899999999999987777665544310                      


Q ss_pred             -CCc-----------CCCceEEEeeccccCCC------HHHHHHHHHHh
Q psy2977          56 -CAI-----------QDREICCYSISCKERDN------IDITLQWLIAH   86 (92)
Q Consensus        56 -~~~-----------~~~~~~~~~~SA~~~~g------i~~~~~~l~~~   86 (92)
                       ..+           ...+..++++||++|.|      ++++-+||.+.
T Consensus       158 ~~~~~~~~~~~~~~~~~~~v~~~~~S~~~~~~~~~~~~i~~~~~wl~~~  206 (207)
T d2fh5b1         158 PAQLGKKGKEFEFSQLPLKVEFLECSAKGGRGDTGSADIQDLEKWLAKI  206 (207)
T ss_dssp             CCCSSCTTSCCCGGGSSSCEEEEECBCC-------CCBCHHHHHHHHHH
T ss_pred             hhhhcccchhhhHHhccCCcEEEEeeecCCCcccccccHHHHHHHHHHh
Confidence             000           01235789999999987      88888888753

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=99.10  E-value=1.3e-10  Score=65.76  Aligned_cols=63  Identities=19%  Similarity=-0.032  Sum_probs=43.0

Q ss_pred             CCcEEEEeeCCCCCCCCC--HHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhhhc
Q psy2977          28 GIPILVLGNKRDLPNALD--EKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKSH   90 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~~   90 (92)
                      +.|+++|+||+|+.....  ..++.+.+..........+++++||++|.||++++++|.+.+...
T Consensus       120 ~~~~i~v~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~vSa~~g~gv~~L~~~i~~~~~~~  184 (186)
T d1mkya2         120 GRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLIFTSADKGWNIDRMIDAMNLAYASY  184 (186)
T ss_dssp             TCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             CCceeeeccchhhhcchhhhhhhHHHHHHHHhcccCCCeEEEEeCCCCCCHHHHHHHHHHHHHhC
Confidence            579999999999864322  233333322111111234689999999999999999998877653

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=99.09  E-value=2.8e-11  Score=68.31  Aligned_cols=62  Identities=21%  Similarity=0.242  Sum_probs=42.5

Q ss_pred             CCcEEEEeeCCCCCCCCC--HHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhhhc
Q psy2977          28 GIPILVLGNKRDLPNALD--EKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKSH   90 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~~   90 (92)
                      ++|+++|+||+|+.....  ...+.+.+... .......++++||++|.||++++++|.+.+.++
T Consensus       121 ~~p~iiv~NK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~vSA~~g~gi~~L~~~i~~~l~e~  184 (184)
T d2cxxa1         121 DIPTIVAVNKLDKIKNVQEVINFLAEKFEVP-LSEIDKVFIPISAKFGDNIERLKNRIFEVIRER  184 (184)
T ss_dssp             TCCEEEEEECGGGCSCHHHHHHHHHHHHTCC-GGGHHHHEEECCTTTCTTHHHHHHHHHHHHHHC
T ss_pred             CCCEEEEEeeeehhhhHHHHHHHHHHHhccc-ccccCCeEEEEECCCCCCHHHHHHHHHHHccCC
Confidence            689999999999864211  11122222211 122234588999999999999999999988754

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.05  E-value=6.3e-11  Score=67.54  Aligned_cols=83  Identities=16%  Similarity=0.217  Sum_probs=55.5

Q ss_pred             hhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC------------------CCHHH----HHHhhc-cC-CcCCCce
Q psy2977           8 DKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA------------------LDEKE----LIDRMN-LC-AIQDREI   63 (92)
Q Consensus         8 ~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~------------------~~~~~----~~~~~~-~~-~~~~~~~   63 (92)
                      .++.....++..++.+....++|+++++||+|+...                  .+.+.    +.+.+. .. ....+.+
T Consensus        91 ~~~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~i  170 (200)
T d1zcba2          91 NRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPL  170 (200)
T ss_dssp             EHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--CC
T ss_pred             hhhhHHHHHHHHHhhChhhcCceEEEEeccchhhhhhccccHHHHhCccccCCcchHHHHHHHHHHHHHHhccCCCCCce
Confidence            456777788888888766678999999999997320                  01111    122211 11 1112345


Q ss_pred             EEEeeccccCCCHHHHHHHHHHhhhhc
Q psy2977          64 CCYSISCKERDNIDITLQWLIAHSKSH   90 (92)
Q Consensus        64 ~~~~~SA~~~~gi~~~~~~l~~~i~~~   90 (92)
                      .+++|||++++||+++|+.+.+.+.++
T Consensus       171 y~~~TsA~d~~ni~~vf~~v~d~i~~~  197 (200)
T d1zcba2         171 YHHFTTAINTENIRLVFRDVKDTILHD  197 (200)
T ss_dssp             EEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             EEEEeeeeCcHHHHHHHHHHHHHHHHH
Confidence            677899999999999999998887653

>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=98.96  E-value=3.5e-10  Score=64.72  Aligned_cols=57  Identities=16%  Similarity=0.141  Sum_probs=39.1

Q ss_pred             CcEEEEeeCCCCCCCCC----HHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhh
Q psy2977          29 IPILVLGNKRDLPNALD----EKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHS   87 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~~----~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i   87 (92)
                      .+++++.||+|+.+...    ...+.+.+..  ......+++++||++|+||+++++.+.+.+
T Consensus       133 ~~iiv~inK~D~~d~~~~~~~~~~~~~~~~~--~~~~~~~iIpiSA~~G~ni~~Ll~~I~~~i  193 (195)
T d1kk1a3         133 KNIIIAQNKIELVDKEKALENYRQIKEFIEG--TVAENAPIIPISALHGANIDVLVKAIEDFI  193 (195)
T ss_dssp             CCEEEEEECGGGSCHHHHHHHHHHHHHHHTT--STTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             ccceeeeecccchhhHHHHHHHHHHHHHhcc--ccCCCCeEEEEECCCCCCHHHHHHHHHHHC
Confidence            45788999999975321    1122232221  122346799999999999999999998765

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=98.95  E-value=5.7e-10  Score=64.32  Aligned_cols=58  Identities=14%  Similarity=0.139  Sum_probs=40.2

Q ss_pred             CcEEEEeeCCCCCCCCCHH----HHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          29 IPILVLGNKRDLPNALDEK----ELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~~~~~----~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      .|++++.||+|+.+.....    .+...+.  .......+++++||++|.||+++++.+...+.
T Consensus       141 ~~iIV~vNK~Dl~~~~~~~~~~~~~~~~l~--~~~~~~~p~ipiSA~~g~nI~~L~e~i~~~ip  202 (205)
T d2qn6a3         141 KNLIIVQNKVDVVSKEEALSQYRQIKQFTK--GTWAENVPIIPVSALHKINIDSLIEGIEEYIK  202 (205)
T ss_dssp             CCEEEEEECGGGSCHHHHHHHHHHHHHHHT--TSTTTTCCEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             ceeeeccccCCCccchHHHHHHHHHHHHhc--cccCCCCeEEEEeCCCCCChHHHHHHHHhhCC
Confidence            5889999999997532211    1222221  11223578999999999999999999988764

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=98.93  E-value=1.5e-09  Score=60.78  Aligned_cols=60  Identities=20%  Similarity=0.200  Sum_probs=41.1

Q ss_pred             CCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          28 GIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      ..|.++++||.|+...  ..++..............+++++||++|+||++++++|.+.+.+
T Consensus       113 ~~~~i~v~~k~d~~~~--~~~~~~~~~~~~~~~~~~~~~~vSA~~g~gi~~L~~~i~~~lpe  172 (179)
T d1egaa1         113 KAPVILAVNKVDNVQE--KADLLPHLQFLASQMNFLDIVPISAETGLNVDTIAAIVRKHLPE  172 (179)
T ss_dssp             SSCEEEEEESTTTCCC--HHHHHHHHHHHHTTSCCSEEEECCTTTTTTHHHHHHHHHTTCCB
T ss_pred             cCceeeeeeeeeccch--hhhhhhHhhhhhhhcCCCCEEEEeCcCCCCHHHHHHHHHHhCCC
Confidence            4688999999998643  22222211111111224579999999999999999999998865

>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=98.87  E-value=1.8e-09  Score=63.11  Aligned_cols=28  Identities=18%  Similarity=0.243  Sum_probs=24.2

Q ss_pred             ceEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          62 EICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        62 ~~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      ..+++++||++|.|++++++.|.....+
T Consensus       191 ~~~i~pvSa~~G~gid~Ll~~l~~l~~~  218 (227)
T d1g7sa4         191 QVSIIPISAITGEGIPELLTMLMGLAQQ  218 (227)
T ss_dssp             EEEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             CCeEEEeeCCCCCCHHHHHHHHHHHHHH
Confidence            3579999999999999999998876654

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=98.78  E-value=1.9e-09  Score=60.39  Aligned_cols=57  Identities=19%  Similarity=0.125  Sum_probs=40.2

Q ss_pred             CCcEEEEeeCCCCCCCCCHH----HHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHHhh
Q psy2977          28 GIPILVLGNKRDLPNALDEK----ELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIAHS   87 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~~~----~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i   87 (92)
                      ..|+++++||+|+.+.....    .+.+.+.   ......+++++||++|.||++++++|.+.+
T Consensus       127 ~~~~~~v~~k~D~~~~~~~~~~~~~~~~~l~---~~~~~~~~i~vSA~~g~Gid~L~~~i~~~~  187 (188)
T d1puia_         127 NIAVLVLLTKADKLASGARKAQLNMVREAVL---AFNGDVQVETFSSLKKQGVDKLRQKLDTWF  187 (188)
T ss_dssp             TCCEEEEEECGGGSCHHHHHHHHHHHHHHHG---GGCSCEEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             cccccchhhhhhccCHHHHHHHHHHHHHHHH---hhCCCCcEEEEeCCCCCCHHHHHHHHHHHh
Confidence            56899999999987532222    2222221   112346799999999999999999998765

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.66  E-value=2.7e-09  Score=62.09  Aligned_cols=82  Identities=13%  Similarity=0.098  Sum_probs=55.5

Q ss_pred             hhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCC------CCH--------------------------HH----HHH
Q psy2977           8 DKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNA------LDE--------------------------KE----LID   51 (92)
Q Consensus         8 ~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~------~~~--------------------------~~----~~~   51 (92)
                      .++.+...++..+++++...++|++|++||+|+...      .+.                          .+    +..
T Consensus        94 ~r~~e~~~~~~~il~~~~~~~~~iil~~NK~Dl~~~k~~~~~~~~~~~f~~~~~~~~~~~~~~~~g~~~~~~~a~~~i~~  173 (221)
T d1azta2          94 NRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRD  173 (221)
T ss_dssp             BHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHHHHHHHCSSCHHHHCGGGGGCCCCTTCCCCTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcChhhCCCcEEEEechhhhhhhhhccCcccHHHhCccccccCCcccccccCCCchhHHHHHHHHHH
Confidence            466777788899988877788999999999998321      110                          01    111


Q ss_pred             hh----ccCCcCCCceEEEeeccccCCCHHHHHHHHHHhhhh
Q psy2977          52 RM----NLCAIQDREICCYSISCKERDNIDITLQWLIAHSKS   89 (92)
Q Consensus        52 ~~----~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~~   89 (92)
                      .+    .......+.+.++.|||.++.+|+.+|..+.+.|.+
T Consensus       174 ~f~~~~~~~~~~~~~~y~h~T~A~Dt~ni~~vf~~v~d~I~~  215 (221)
T d1azta2         174 EFLRISTASGDGRHYCYPHFTCAVDTENIRRVFNDCRDIIQR  215 (221)
T ss_dssp             HHHHHHTSSCTTSCCEEEEECCTTCHHHHHHHHHTTHHHHHH
T ss_pred             HHHHHhccCCCCCCceeeeecceeccHHHHHHHHHHHHHHHH
Confidence            11    011112234667789999999999999988877754

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=98.52  E-value=1.4e-08  Score=59.06  Aligned_cols=26  Identities=15%  Similarity=0.158  Sum_probs=22.8

Q ss_pred             ceEEEeeccccCCCHHHHHHHHHHhh
Q psy2977          62 EICCYSISCKERDNIDITLQWLIAHS   87 (92)
Q Consensus        62 ~~~~~~~SA~~~~gi~~~~~~l~~~i   87 (92)
                      ..+++++||++|+|+++++.+|.+..
T Consensus       216 ~~~~v~vSa~~geGi~~L~~~l~e~~  241 (244)
T d1yrba1         216 PVRVLYLSAKTREGFEDLETLAYEHY  241 (244)
T ss_dssp             CCCCEECCTTTCTTHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998753

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.50  E-value=3.5e-08  Score=57.68  Aligned_cols=56  Identities=16%  Similarity=0.090  Sum_probs=38.1

Q ss_pred             CCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHHH
Q psy2977          27 IGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITLQWLIA   85 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~~   85 (92)
                      .++|.+||+||+||.+....+.+......   ....++++.+||++|.|++++..+|..
T Consensus        40 ~~i~pvIvlnK~DL~~~~~~~~~~~~~~~---~~~~~~v~~vSa~~~~g~~~L~~~l~~   95 (225)
T d1u0la2          40 NELETVMVINKMDLYDEDDLRKVRELEEI---YSGLYPIVKTSAKTGMGIEELKEYLKG   95 (225)
T ss_dssp             TTCEEEEEECCGGGCCHHHHHHHHHHHHH---HTTTSCEEECCTTTCTTHHHHHHHHSS
T ss_pred             cCCCEEEEEeCcccCCHHHHHHHHHhhcc---cccceeEEEeccccchhHhhHHHHhcC
Confidence            47899999999999743222222222211   122367899999999999999888743

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=98.39  E-value=6.2e-08  Score=57.91  Aligned_cols=77  Identities=16%  Similarity=0.173  Sum_probs=51.2

Q ss_pred             CeeCCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCCCCCHHHHHHhhccCCcCCCceEEEeeccccCCCHHHHH
Q psy2977           1 MVDAADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPNALDEKELIDRMNLCAIQDREICCYSISCKERDNIDITL   80 (92)
Q Consensus         1 v~D~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      |+|+-+|.+...  ..+.+++.     ++|.++|+||+|+.+....+...+++.     .....++.+||+++.|+.+..
T Consensus        22 V~DaR~P~ss~~--~~l~~~~~-----~Kp~IlVlNK~DLv~~~~~~~w~~~f~-----~~~~~~i~isa~~~~~~~~~~   89 (273)
T d1puja_          22 LVDARIPMSSRN--PMIEDILK-----NKPRIMLLNKADKADAAVTQQWKEHFE-----NQGIRSLSINSVNGQGLNQIV   89 (273)
T ss_dssp             EEETTSTTTTSC--HHHHHHCS-----SSCEEEEEECGGGSCHHHHHHHHHHHH-----TTTCCEEECCTTTCTTGGGHH
T ss_pred             EEECCCCCCCCC--HHHHHHHc-----CCCeEEEEECccCCchHHHHHHHHHHH-----hcCCccceeecccCCCccccc
Confidence            467766544321  34555542     579999999999975333344444443     234567899999999999888


Q ss_pred             HHHHHhhhh
Q psy2977          81 QWLIAHSKS   89 (92)
Q Consensus        81 ~~l~~~i~~   89 (92)
                      .++.+.+.+
T Consensus        90 ~~~~~~l~~   98 (273)
T d1puja_          90 PASKEILQE   98 (273)
T ss_dssp             HHHHHHHHH
T ss_pred             hhhhhhhhh
Confidence            877766543

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=98.38  E-value=2.2e-07  Score=56.94  Aligned_cols=59  Identities=17%  Similarity=0.139  Sum_probs=39.0

Q ss_pred             cEEEEeeCCCCCCCCCH----HHHHHhhccCC--cCCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          30 PILVLGNKRDLPNALDE----KELIDRMNLCA--IQDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        30 p~ilv~NK~Dl~~~~~~----~~~~~~~~~~~--~~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      +=++|.||+|++.....    .++...+.+..  ......+++.|||++|+||+++++.|.++..
T Consensus       194 aDi~VvNKaD~~~~~~~~~~~~~~~~al~~~~~~~~~w~p~V~~~SA~~g~Gi~eL~~~I~~~~~  258 (327)
T d2p67a1         194 ADLIVINKDDGDNHTNVAIARHMYESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKT  258 (327)
T ss_dssp             CSEEEECCCCTTCHHHHHHHHHHHHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             ccEEEEEeecccchHHHHHHHHHHHHHhhhcccCCCCCcceeEEEEeeCCCCHHHHHHHHHHHHH
Confidence            44889999998753221    22333222211  1233457999999999999999999987653

>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=98.36  E-value=1.2e-07  Score=54.27  Aligned_cols=60  Identities=13%  Similarity=0.001  Sum_probs=39.2

Q ss_pred             CCcEEEEeeCCCCCCCCC-HH----HHHHhhccCCcCCCceEEEeeccccC----------CCHHHHHHHHHHhh
Q psy2977          28 GIPILVLGNKRDLPNALD-EK----ELIDRMNLCAIQDREICCYSISCKER----------DNIDITLQWLIAHS   87 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~~~~~-~~----~~~~~~~~~~~~~~~~~~~~~SA~~~----------~gi~~~~~~l~~~i   87 (92)
                      ..|++++.||+|+..... .+    ++...+..........+++++||++|          .|+.++++.|.+.+
T Consensus       119 ~~~iIv~iNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~~~~pii~iSa~~g~~~~~~~~~~~~~~~Lldai~~~i  193 (196)
T d1d2ea3         119 VEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKGEETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTYI  193 (196)
T ss_dssp             CCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCTTTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHHHS
T ss_pred             CCcEEEEEecccccccHHHHHHHHHHHHHHHHHhCCCcccCEEEEEEccccccccCcccccCCHHHHHHHHHhhC
Confidence            457899999999864211 11    23333321122223467999999999          69999999887765

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=98.27  E-value=1.1e-06  Score=53.76  Aligned_cols=59  Identities=14%  Similarity=0.058  Sum_probs=39.1

Q ss_pred             cEEEEeeCCCCCCCCCHH-----HHHHhhccCCc--CCCceEEEeeccccCCCHHHHHHHHHHhhh
Q psy2977          30 PILVLGNKRDLPNALDEK-----ELIDRMNLCAI--QDREICCYSISCKERDNIDITLQWLIAHSK   88 (92)
Q Consensus        30 p~ilv~NK~Dl~~~~~~~-----~~~~~~~~~~~--~~~~~~~~~~SA~~~~gi~~~~~~l~~~i~   88 (92)
                      +=++|.||+|+++.....     +....+.....  .....+++.|||++|+|++++.++|.++..
T Consensus       191 aDi~vvNKaD~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~p~V~~~Sa~~g~Gi~el~~~I~~~~~  256 (323)
T d2qm8a1         191 ADMIAVNKADDGDGERRASAAASEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRS  256 (323)
T ss_dssp             CSEEEEECCSTTCCHHHHHHHHHHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             hheeeEeccccccchHHHHHHHHHHHHHhhcccccccCCCCceEEEEecCCCCHHHHHHHHHHHHH
Confidence            348999999987643221     12222222111  123456999999999999999999987754

>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=98.07  E-value=3.2e-06  Score=49.07  Aligned_cols=49  Identities=20%  Similarity=0.179  Sum_probs=30.4

Q ss_pred             cEEEEeeCCCCCCCCCH--H----HHHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977          30 PILVLGNKRDLPNALDE--K----ELIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus        30 p~ilv~NK~Dl~~~~~~--~----~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      .++++.||+|+.+....  .    ++...+.........++++++||++|.||.+
T Consensus       144 ~iiv~vNK~D~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i~~IPiSA~~G~ni~~  198 (222)
T d1zunb3         144 HIVVAINKMDLNGFDERVFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVN  198 (222)
T ss_dssp             EEEEEEECTTTTTSCHHHHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSS
T ss_pred             EEEEEEEccccccccceehhhhHHHHhhhhHhhccCCCceEEEEEEcccCccCCc
Confidence            47889999999753211  1    2222222122223457899999999999843

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=98.03  E-value=2.5e-08  Score=58.52  Aligned_cols=56  Identities=16%  Similarity=0.153  Sum_probs=36.9

Q ss_pred             CCCcEEEEeeCCCCCCCCCHHH-HHHhhccCCcCCCceEEEeeccccCCCHHHHHHHHH
Q psy2977          27 IGIPILVLGNKRDLPNALDEKE-LIDRMNLCAIQDREICCYSISCKERDNIDITLQWLI   84 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~~~~~l~   84 (92)
                      .++|.+||+||+||.+....++ +......  ....+++++.+||+++.|++++..+|.
T Consensus        40 ~~i~pvIvlnK~DL~~~~~~~~~~~~~~~~--y~~~g~~v~~~Sa~~~~gl~~L~~~l~   96 (231)
T d1t9ha2          40 NDIQPIICITKMDLIEDQDTEDTIQAYAED--YRNIGYDVYLTSSKDQDSLADIIPHFQ   96 (231)
T ss_dssp             TTCEEEEEEECGGGCCCHHHHHHHHHHHHH--HHHHTCCEEECCHHHHTTCTTTGGGGT
T ss_pred             cCCCEEEEEecccccccHHHHHHHHHHHHH--HhhccccceeeecCChhHHHHHHHhhc
Confidence            5789999999999975322222 2111110  012356899999999999998877663

>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=97.78  E-value=1.5e-05  Score=44.91  Aligned_cols=45  Identities=33%  Similarity=0.380  Sum_probs=28.5

Q ss_pred             eeCC-chhhHHHHHHHHHHhh---cCCCCCCCcEEEEeeCCCCCCCCCH
Q psy2977           2 VDAA-DTDKLEASRNELHALI---EKPQLIGIPILVLGNKRDLPNALDE   46 (92)
Q Consensus         2 ~D~s-~~~~~~~~~~~~~~~~---~~~~~~~~p~ilv~NK~Dl~~~~~~   46 (92)
                      +|++ +..+++....|+.+++   ......++|+++|+||+|++.....
T Consensus        81 vd~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~piiiv~NK~D~~~~~~~  129 (209)
T d1nrjb_          81 VDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPP  129 (209)
T ss_dssp             EETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCH
T ss_pred             EEEecccccHHHHHHHHHHHHHHHHHHHhccCCeEEEEEeecccccCcH
Confidence            4544 3555666666654433   2223357999999999999875543

>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=97.73  E-value=7.6e-06  Score=48.06  Aligned_cols=51  Identities=22%  Similarity=0.383  Sum_probs=31.4

Q ss_pred             cEEEEeeCCCCCCCC-CH---HHHHHhhccC--Cc----CCCceEEEeeccccCCCHHHHH
Q psy2977          30 PILVLGNKRDLPNAL-DE---KELIDRMNLC--AI----QDREICCYSISCKERDNIDITL   80 (92)
Q Consensus        30 p~ilv~NK~Dl~~~~-~~---~~~~~~~~~~--~~----~~~~~~~~~~SA~~~~gi~~~~   80 (92)
                      +++++.||+|++... ..   +++.+.+...  ..    .....+++++||++|+||.+++
T Consensus       164 ~iiv~iNKmD~~~~~~~e~~~~ei~~~l~~~l~~i~~~~~~~~v~~VPiSA~~G~nI~~~~  224 (245)
T d1r5ba3         164 HLVVVINKMDEPSVQWSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRV  224 (245)
T ss_dssp             SEEEEEECTTSTTCSSCHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCC
T ss_pred             eEEEEEEcCCCCccchhHHHHHHHHHHHHHHHHHHhCcCcccCCEEEEeeccCCCCcccch
Confidence            478999999997532 22   2332222110  00    1124689999999999998754

>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=97.56  E-value=3.7e-05  Score=43.83  Aligned_cols=46  Identities=26%  Similarity=0.304  Sum_probs=25.6

Q ss_pred             CCc-EEEEeeCCCCCCCCC-HH----HHHHhhccCCcCCCceEEEeeccccC
Q psy2977          28 GIP-ILVLGNKRDLPNALD-EK----ELIDRMNLCAIQDREICCYSISCKER   73 (92)
Q Consensus        28 ~~p-~ilv~NK~Dl~~~~~-~~----~~~~~~~~~~~~~~~~~~~~~SA~~~   73 (92)
                      ++| +++++||+|+.+... .+    ++...+..........++++.||..|
T Consensus       119 gi~~iiv~iNK~D~~~~~~~~~~~~~~i~~~l~~~~~~~~~i~~i~~sa~~~  170 (204)
T d2c78a3         119 GVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPGDEVPVIRGSALLA  170 (204)
T ss_dssp             TCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTTSCTTTSCEEECCHHHH
T ss_pred             CCCeEEEEEEecccCCCHHHHHHHHHHHHHHHHhcCCCcccceeeeeechhh
Confidence            455 677899999865211 12    23333322222234567899998643

>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=97.29  E-value=0.00012  Score=42.14  Aligned_cols=50  Identities=26%  Similarity=0.300  Sum_probs=30.6

Q ss_pred             CcEEEEeeCCCCCCC-CCHH---H----HHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977          29 IPILVLGNKRDLPNA-LDEK---E----LIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus        29 ~p~ilv~NK~Dl~~~-~~~~---~----~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      .+++++.||+|+... ....   .    +...+..........+++++||.+|.||.+
T Consensus       142 ~~iIv~iNK~D~~~~~~~~~~~~~v~~~i~~~~~~~~~~~~~i~~IPISA~~G~NV~~  199 (224)
T d1jnya3         142 DQLIVAVNKMDLTEPPYDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITH  199 (224)
T ss_dssp             TTCEEEEECGGGSSSTTCHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTB
T ss_pred             CceEEEEEcccCCCccccHHHHHHHHHHHHhHHHhcCCCcccCeEEEEEccCCCCccc
Confidence            468889999998642 2221   1    222211111223457889999999999854

>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=97.28  E-value=4.2e-05  Score=44.70  Aligned_cols=49  Identities=18%  Similarity=0.074  Sum_probs=29.0

Q ss_pred             cEEEEeeCCCCCCCCC--HHH----HHHhhccCCcCCCceEEEeeccccCCCHHH
Q psy2977          30 PILVLGNKRDLPNALD--EKE----LIDRMNLCAIQDREICCYSISCKERDNIDI   78 (92)
Q Consensus        30 p~ilv~NK~Dl~~~~~--~~~----~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~   78 (92)
                      +++++.||+|+.+...  .++    +...+...........++++||.+|.|+.+
T Consensus       146 ~iiv~iNKmD~~~~d~~~~~~~~~el~~~l~~~~~~~~~i~~ipiSa~~G~ni~~  200 (239)
T d1f60a3         146 QLIVAVNKMDSVKWDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIE  200 (239)
T ss_dssp             EEEEEEECGGGGTTCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTB
T ss_pred             eEEEEEECCCCCCCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEEccCCCccee
Confidence            4788999999875322  112    222221111112246789999999998743

>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=95.21  E-value=0.011  Score=34.91  Aligned_cols=27  Identities=7%  Similarity=0.063  Sum_probs=24.2

Q ss_pred             CceEEEeeccccCCCHHHHHHHHHHhh
Q psy2977          61 REICCYSISCKERDNIDITLQWLIAHS   87 (92)
Q Consensus        61 ~~~~~~~~SA~~~~gi~~~~~~l~~~i   87 (92)
                      .-.+++..||.++.||.++++.|.+.+
T Consensus       248 ~i~PV~~GSA~~n~GV~~LLD~i~~~~  274 (276)
T d2bv3a2         248 KITPVFLGSALKNKGVQLLLDAVVDYL  274 (276)
T ss_dssp             SCEEEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             cEEEEEEeECCCCcCHHHHHHHHHHhC
Confidence            347899999999999999999998875

>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=94.40  E-value=0.024  Score=33.23  Aligned_cols=27  Identities=7%  Similarity=-0.148  Sum_probs=23.9

Q ss_pred             CceEEEeeccccCCCHHHHHHHHHHhh
Q psy2977          61 REICCYSISCKERDNIDITLQWLIAHS   87 (92)
Q Consensus        61 ~~~~~~~~SA~~~~gi~~~~~~l~~~i   87 (92)
                      .-.+++..||.++.||.++++.+.+.+
T Consensus       239 ~i~PV~~GSA~~n~GV~~LLd~i~~~~  265 (267)
T d2dy1a2         239 LLYPVALASGEREIGVLPLLELILEAL  265 (267)
T ss_dssp             SCEEEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             cEEEEEeCcCCCCcCHHHHHHHHHHhC
Confidence            346899999999999999999998875

>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=92.86  E-value=0.04  Score=34.00  Aligned_cols=61  Identities=13%  Similarity=0.085  Sum_probs=37.0

Q ss_pred             CCcEEEEeeCCCCC---------CCCCHHH----HHH----hhccCCcCCCceEEEeecccc--CCCHHHHHHHHHHhhh
Q psy2977          28 GIPILVLGNKRDLP---------NALDEKE----LID----RMNLCAIQDREICCYSISCKE--RDNIDITLQWLIAHSK   88 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~---------~~~~~~~----~~~----~~~~~~~~~~~~~~~~~SA~~--~~gi~~~~~~l~~~i~   88 (92)
                      ++|+++|.||+|..         ...+.+.    +++    .+....  -...++|.+|..+  ..|+.++.+++.+.+.
T Consensus       162 ~k~~~~V~nK~D~~~~~~~~~~~~~~~~e~~l~~ir~~~~~~l~~~~--~~~~~vflvS~~~~~~~d~~~L~~~l~~~L~  239 (400)
T d1tq4a_         162 KKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFRENG--IAEPPIFLLSNKNVCHYDFPVLMDKLISDLP  239 (400)
T ss_dssp             TCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHTT--CSSCCEEECCTTCTTSTTHHHHHHHHHHHSC
T ss_pred             CCCEEEEEeCcccccchhhhcccccccHHHHHHHHHHHHHHHHHHcC--CCCCCEEEecCCcccccCHHHHHHHHHHHhH
Confidence            68999999999952         1112221    211    111111  1123578888754  5699999999998876


Q ss_pred             hc
Q psy2977          89 SH   90 (92)
Q Consensus        89 ~~   90 (92)
                      ..
T Consensus       240 ~~  241 (400)
T d1tq4a_         240 IY  241 (400)
T ss_dssp             GG
T ss_pred             HH
Confidence            43

>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=92.27  E-value=0.14  Score=30.05  Aligned_cols=28  Identities=21%  Similarity=0.312  Sum_probs=19.8

Q ss_pred             CCCcEEEEeeCCCCCCCCC---HHHHHHhhc
Q psy2977          27 IGIPILVLGNKRDLPNALD---EKELIDRMN   54 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~~~~~---~~~~~~~~~   54 (92)
                      .++|.++++||+|.+.+..   .+++.+.++
T Consensus       122 ~~lP~i~fINKmDr~~ad~~~~l~ei~~~l~  152 (276)
T d2bv3a2         122 YKVPRIAFANKMDKTGADLWLVIRTMQERLG  152 (276)
T ss_dssp             TTCCEEEEEECTTSTTCCHHHHHHHHHHTTC
T ss_pred             cCCCEEEEEecccccccccchhHHHHHHHhC
Confidence            4799999999999976432   345555554

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=91.88  E-value=0.16  Score=28.60  Aligned_cols=11  Identities=27%  Similarity=0.341  Sum_probs=9.4

Q ss_pred             EEEeeCCCCCC
Q psy2977          32 LVLGNKRDLPN   42 (92)
Q Consensus        32 ilv~NK~Dl~~   42 (92)
                      ++++||+|+.+
T Consensus       153 ~ivlNK~Dl~~  163 (222)
T d1nija1         153 RILLTKTDVAG  163 (222)
T ss_dssp             EEEEECTTTCS
T ss_pred             ccccccccccc
Confidence            68899999965

>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=85.24  E-value=0.28  Score=29.60  Aligned_cols=14  Identities=36%  Similarity=0.242  Sum_probs=12.4

Q ss_pred             CCcEEEEeeCCCCC
Q psy2977          28 GIPILVLGNKRDLP   41 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~   41 (92)
                      ++|+++++||+|..
T Consensus       148 ~~p~i~viNKiDr~  161 (341)
T d1n0ua2         148 RIKPVVVINKVDRA  161 (341)
T ss_dssp             TCEEEEEEECHHHH
T ss_pred             CCCeEEEEECcccc
Confidence            68999999999963

>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=85.01  E-value=0.45  Score=27.66  Aligned_cols=14  Identities=36%  Similarity=0.520  Sum_probs=12.5

Q ss_pred             CCcEEEEeeCCCCC
Q psy2977          28 GIPILVLGNKRDLP   41 (92)
Q Consensus        28 ~~p~ilv~NK~Dl~   41 (92)
                      ++|.+++.||+|..
T Consensus       119 ~~p~~i~iNk~D~~  132 (267)
T d2dy1a2         119 GLPRMVVVTKLDKG  132 (267)
T ss_dssp             TCCEEEEEECGGGC
T ss_pred             cccccccccccccc
Confidence            68999999999974

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=81.63  E-value=0.95  Score=26.31  Aligned_cols=42  Identities=10%  Similarity=0.043  Sum_probs=24.4

Q ss_pred             CCCcEEEEeeCCCCC--CC--CCHHHHHHhhccCCcCCCceEEEeeccc
Q psy2977          27 IGIPILVLGNKRDLP--NA--LDEKELIDRMNLCAIQDREICCYSISCK   71 (92)
Q Consensus        27 ~~~p~ilv~NK~Dl~--~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~   71 (92)
                      ..+|+++|+|+.|..  ..  .-.+.+.+....   ...+..++.+||+
T Consensus       213 t~KP~i~v~Nv~E~~~~~~~n~~~~~v~~~~~~---~~~~~~vi~isa~  258 (296)
T d1ni3a1         213 TAKPVIYLVNMSERDFLRQKNKYLPKIKKWIDE---NSPGDTLIPMSVA  258 (296)
T ss_dssp             GGSCEEEEEECCHHHHTTTCCSSHHHHHHHHHT---TSTTCCEEEECHH
T ss_pred             cCCCeeeeccccchhhhhhhhHHHHHHHHHHHh---hCCCCeEEEEEHH
Confidence            458999999998642  11  113344444321   1224568899984

>d1zpda1 c.31.1.3 (A:188-362) Pyruvate decarboxylase {Zymomonas mobilis [TaxId: 542]}

class: Alpha and beta proteins (a/b)
fold: DHS-like NAD/FAD-binding domain
superfamily: DHS-like NAD/FAD-binding domain
family: Pyruvate oxidase and decarboxylase, middle domain
domain: Pyruvate decarboxylase
species: Zymomonas mobilis [TaxId: 542]

Probab=80.49  E-value=2.7  Score=22.30  Aligned_cols=36  Identities=22%  Similarity=0.274  Sum_probs=27.9

Q ss_pred             CCchhhHHHHHHHHHHhhcCCCCCCCcEEEEeeCCCCCC
Q psy2977           4 AADTDKLEASRNELHALIEKPQLIGIPILVLGNKRDLPN   42 (92)
Q Consensus         4 ~s~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~   42 (92)
                      .||+..++.+.+.+.+++..   ...|+|+++.......
T Consensus         2 ~sd~~~l~~~v~~~~~~l~~---AkrPvIi~G~g~~~~~   37 (175)
T d1zpda1           2 ASDEASLNAAVDETLKFIAN---RDKVAVLVGSKLRAAG   37 (175)
T ss_dssp             CCCHHHHHHHHHHHHHHHTT---CSCEEEEECTTTTTTT
T ss_pred             CCChHHHHHHHHHHHHHHHc---CCCEEEEECcCccccc
Confidence            46788888877777777754   5689999999988654