Psyllid ID: psy9521

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-----
Protein Sequence
MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT
Secondary Structure (PSIPRED)
cHHHHHHHHHHHccccEEEEEEEEcccccHHHHHHHHHHccccccccccccccccccccEEEEEEEccEEEEEEEcccccccHHHHHHHHcccccEEEcccEEEEEccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHccccEEEEEEccccccHHHHHHEEEccccccccccEEEEEccEEEEEEEEEEEEEEEEEEEEcccHHHHHHHHHHHHHcccccEEEEEEEcccHHHHHHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
MYTLVSGFYKYMLRKDEFCVLILGldnagkttYLESAKTKftknykgmnpskitttvglnigqidinTVRLNFWDLGGQLELQSLWdkdirdcmgvrevkpifnknsahligrrdcmvmpvsalt
Flexible Loop (DISEMBL)
MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTkftknykgmnpskITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGvrevkpifnknsahligrrdcmVMPVSALT
Low Complexity Region (SEG)
MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT
Disordered region (IsUnstruct)
**TLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGVREVKPIFNKNSAHLIGRRDCMVM******
Disordered Region (DISOPRED)
MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT
Disordered Region (DISEMBL)
MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT
Disordered Region (DISPRO)
*YTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVS***
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT
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	125	2.2.26 [Sep-21-2011]
Q32LJ2	201	ADP-ribosylation factor-r	yes	N/A	0.992	0.616	0.479	9e-38
Q5R579	201	ADP-ribosylation factor-r	yes	N/A	0.992	0.616	0.468	3e-37
Q13795	201	ADP-ribosylation factor-r	no	N/A	0.992	0.616	0.468	3e-37
Q63055	201	ADP-ribosylation factor-r	yes	N/A	0.992	0.616	0.468	6e-37
Q8BXL7	201	ADP-ribosylation factor-r	yes	N/A	0.992	0.616	0.468	6e-37
Q02804	198	ADP-ribosylation factor-l	yes	N/A	0.976	0.616	0.327	5e-19
P39110	191	GTP-binding protein CIN4	no	N/A	0.632	0.413	0.404	8e-09
Q9D0J4	184	ADP-ribosylation factor-l	no	N/A	0.6	0.407	0.385	4e-08
P36404	184	ADP-ribosylation factor-l	no	N/A	0.6	0.407	0.385	4e-08
Q2TA37	184	ADP-ribosylation factor-l	no	N/A	0.6	0.407	0.385	4e-08

>sp|Q32LJ2|ARFRP_BOVIN ADP-ribosylation factor-related protein 1 OS=Bos taurus GN=ARFRP1 PE=2 SV=1

 Score =  155 bits (391), Expect = 9e-38,   Method: Compositional matrix adjust.
 Identities = 83/173 (47%), Positives = 100/173 (57%), Gaps = 49/173 (28%)

Query: 1   MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
           MYTL+SG YKYM +KDE+CVLILGLDNAGKTT+LE +KT+F KNYKGM+ SKITTTVGLN
Sbjct: 1   MYTLLSGLYKYMFQKDEYCVLILGLDNAGKTTFLEQSKTRFNKNYKGMSLSKITTTVGLN 60

Query: 61  IGQIDINTVRLNFWDLGGQLELQSLWDK-------------------------------- 88
           IG +D+   RL FWDLGGQ ELQSLWDK                                
Sbjct: 61  IGTVDVGKARLMFWDLGGQEELQSLWDKYYAECHGVIYVIDSTDEERLSESKQAFEKMVT 120

Query: 89  ----------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT 125
                           D+  C+ + ++K  F+ + A  IGRRDC+    SALT
Sbjct: 121 SEALDGVPILVLANKQDVETCLSIPDIKTAFS-DCASKIGRRDCLTQACSALT 172

Possibly involved in plasma membrane-related signaling events.
Bos taurus (taxid: 9913)

>sp|Q5R579|ARFRP_PONAB ADP-ribosylation factor-related protein 1 OS=Pongo abelii GN=ARFRP1 PE=2 SV=1

 Score =  153 bits (386), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 81/173 (46%), Positives = 100/173 (57%), Gaps = 49/173 (28%)

Query: 1   MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
           MYTL+SG YKYM +KDE+C+LILGLDNAGKTT+LE +KT+F KNYKGM+ SKITTTVGLN
Sbjct: 1   MYTLLSGLYKYMFQKDEYCILILGLDNAGKTTFLEQSKTRFNKNYKGMSLSKITTTVGLN 60

Query: 61  IGQIDINTVRLNFWDLGGQLELQSLWDK-------------------------------- 88
           IG +D+   RL FWDLGGQ ELQSLWDK                                
Sbjct: 61  IGTVDVGKARLMFWDLGGQEELQSLWDKYYAECHGVIYVIDSTDEERLAESKQAFEKVVT 120

Query: 89  ----------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT 125
                           D+  C+ + ++K  F+  ++  IGRRDC+    SALT
Sbjct: 121 SEALCGVPVLVLANKQDVETCLSIPDIKTAFSDCTSK-IGRRDCLTQACSALT 172

Possibly involved in plasma membrane-related signaling events.

Pongo abelii (taxid: 9601)

>sp|Q13795|ARFRP_HUMAN ADP-ribosylation factor-related protein 1 OS=Homo sapiens GN=ARFRP1 PE=1 SV=1

 Score =  153 bits (386), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 81/173 (46%), Positives = 100/173 (57%), Gaps = 49/173 (28%)

Query: 1   MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
           MYTL+SG YKYM +KDE+C+LILGLDNAGKTT+LE +KT+F KNYKGM+ SKITTTVGLN
Sbjct: 1   MYTLLSGLYKYMFQKDEYCILILGLDNAGKTTFLEQSKTRFNKNYKGMSLSKITTTVGLN 60

Query: 61  IGQIDINTVRLNFWDLGGQLELQSLWDK-------------------------------- 88
           IG +D+   RL FWDLGGQ ELQSLWDK                                
Sbjct: 61  IGTVDVGKARLMFWDLGGQEELQSLWDKYYAECHGVIYVIDSTDEERLAESKQAFEKVVT 120

Query: 89  ----------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT 125
                           D+  C+ + ++K  F+  ++  IGRRDC+    SALT
Sbjct: 121 SEALCGVPVLVLANKQDVETCLSIPDIKTAFSDCTSK-IGRRDCLTQACSALT 172

Possibly involved in plasma membrane-related signaling events.

Homo sapiens (taxid: 9606)

>sp|Q63055|ARFRP_RAT ADP-ribosylation factor-related protein 1 OS=Rattus norvegicus GN=Arfrp1 PE=2 SV=1

 Score =  152 bits (384), Expect = 6e-37,   Method: Compositional matrix adjust.
 Identities = 81/173 (46%), Positives = 99/173 (57%), Gaps = 49/173 (28%)

Query: 1   MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
           MYTL+SG YKYM +KDE+C+LILGLDNAGKTT+LE +KT+F KNYKGM+ SKITTTVGLN
Sbjct: 1   MYTLLSGLYKYMFQKDEYCILILGLDNAGKTTFLEQSKTRFNKNYKGMSLSKITTTVGLN 60

Query: 61  IGQIDINTVRLNFWDLGGQLELQSLWDK-------------------------------- 88
           IG +D+   RL FWDLGGQ ELQSLWDK                                
Sbjct: 61  IGTVDVGKARLMFWDLGGQEELQSLWDKYYAECHGVIYVIDSTDEERLSESKEAFEKVVS 120

Query: 89  ----------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT 125
                           D+  C+ + ++K  F+  +   IGRRDC+    SALT
Sbjct: 121 SEALDGVPILVLANKQDVETCLSIPDIKTAFSDCTCK-IGRRDCLTQACSALT 172

Possibly involved in plasma membrane-related signaling events.

Rattus norvegicus (taxid: 10116)

>sp|Q8BXL7|ARFRP_MOUSE ADP-ribosylation factor-related protein 1 OS=Mus musculus GN=Arfrp1 PE=2 SV=2

 Score =  152 bits (384), Expect = 6e-37,   Method: Compositional matrix adjust.
 Identities = 81/173 (46%), Positives = 99/173 (57%), Gaps = 49/173 (28%)

Query: 1   MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
           MYTL+SG YKYM +KDE+C+LILGLDNAGKTT+LE +KT+F KNYKGM+ SKITTTVGLN
Sbjct: 1   MYTLLSGLYKYMFQKDEYCILILGLDNAGKTTFLEQSKTRFNKNYKGMSLSKITTTVGLN 60

Query: 61  IGQIDINTVRLNFWDLGGQLELQSLWDK-------------------------------- 88
           IG +D+   RL FWDLGGQ ELQSLWDK                                
Sbjct: 61  IGTVDVGKARLMFWDLGGQEELQSLWDKYYAECHGVIYVIDSTDEERLSESKEAFEKVVS 120

Query: 89  ----------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT 125
                           D+  C+ + ++K  F+  +   IGRRDC+    SALT
Sbjct: 121 SEALDGVPILVLANKQDVETCLSIPDIKTAFSDCTCK-IGRRDCLTQACSALT 172

Possibly involved in plasma membrane-related signaling events.

Mus musculus (taxid: 10090)

>sp|Q02804|ARL3_YEAST ADP-ribosylation factor-like protein 3 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=ARL3 PE=1 SV=1

 Score = 92.8 bits (229), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 57/174 (32%), Positives = 87/174 (50%), Gaps = 52/174 (29%)

Query: 1   MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
           M+ LV G Y    +K+++ +LILGLDNAGKTT+LE+ K +++  +K +   KI  TVG N
Sbjct: 1   MFHLVKGLYNNWNKKEQYSILILGLDNAGKTTFLETLKKEYSLAFKALE--KIQPTVGQN 58

Query: 61  IGQIDINTVR-LNFWDLGGQLELQSLWD-------------------------------- 87
           +  I +++ + L FWD+GGQ  L+S+W                                 
Sbjct: 59  VATIPVDSKQILKFWDVGGQESLRSMWSEYYSLCHGIIFIVDSSDRERLDECSTTLQSVV 118

Query: 88  ----------------KDIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT 125
                           +D +D M V+++K +FNK + H I  RD  V+P+SALT
Sbjct: 119 MDEEIEGVPILMLANKQDRQDRMEVQDIKEVFNKIAEH-ISARDSRVLPISALT 171

Involved in the targeting of ARL1 to the Golgi. Can bind and hydrolyze GTP.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|P39110|CIN4_YEAST GTP-binding protein CIN4 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=CIN4 PE=1 SV=1

 Score = 58.9 bits (141), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 34/84 (40%), Positives = 45/84 (53%), Gaps = 5/84 (5%)

Query: 4  LVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQ 63
          L+S   K  LR  E   LILGLDN+GK+T +     K  +N  G+ P     TVG  I  
Sbjct: 3  LLSIIRKQKLRDKEIRCLILGLDNSGKSTIVNKLLPKDEQNNDGIMP-----TVGFQIHS 57

Query: 64 IDINTVRLNFWDLGGQLELQSLWD 87
          + I  V ++ WD+GGQ  L+  WD
Sbjct: 58 LMIKDVTISLWDIGGQRTLRPFWD 81

Implicated in yeast microtubule function.

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (taxid: 559292)

>sp|Q9D0J4|ARL2_MOUSE ADP-ribosylation factor-like protein 2 OS=Mus musculus GN=Arl2 PE=1 SV=1

 Score = 57.0 bits (136), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 32/83 (38%), Positives = 47/83 (56%), Gaps = 8/83 (9%)

Query: 4  LVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQ 63
          L++   K   ++ E  +L+LGLDNAGKTT L        K + G +   I+ T+G NI  
Sbjct: 3  LLTILKKMKQKERELRLLMLGLDNAGKTTIL--------KKFNGEDVDTISPTLGFNIKT 54

Query: 64 IDINTVRLNFWDLGGQLELQSLW 86
          ++    +LN WD+GGQ  L+S W
Sbjct: 55 LEHRGFKLNIWDVGGQKSLRSYW 77

Small GTP-binding protein which cycles between an inactive GDP-bound and an active GTP-bound form, and the rate of cycling is regulated by guanine nucleotide exchange factors (GEF) and GTPase-activating proteins (GAP). GTP-binding protein that does not act as an allosteric activator of the cholera toxin catalytic subunit. Regulates formation of new microtubules and centrosome integrity. Prevents the TBCD-induced microtubule destruction. Participates in association with TBCD, in the disassembly of the apical junction complexes. Antagonizes the effect of TBCD on epithelial cell detachment and tight and adherens junctions disassembly. Together with ARL2, plays a role in the nuclear translocation, retention and transcriptional activity of STAT3. Component of a regulated secretory pathway involved in Ca(2+)-dependent release of acetylcholine. Required for normal progress through the cell cycle.

Mus musculus (taxid: 10090)

>sp|P36404|ARL2_HUMAN ADP-ribosylation factor-like protein 2 OS=Homo sapiens GN=ARL2 PE=1 SV=4

 Score = 56.6 bits (135), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 32/83 (38%), Positives = 47/83 (56%), Gaps = 8/83 (9%)

Query: 4  LVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQ 63
          L++   K   ++ E  +L+LGLDNAGKTT L        K + G +   I+ T+G NI  
Sbjct: 3  LLTILKKMKQKERELRLLMLGLDNAGKTTIL--------KKFNGEDIDTISPTLGFNIKT 54

Query: 64 IDINTVRLNFWDLGGQLELQSLW 86
          ++    +LN WD+GGQ  L+S W
Sbjct: 55 LEHRGFKLNIWDVGGQKSLRSYW 77

Small GTP-binding protein which cycles between an inactive GDP-bound and an active GTP-bound form, and the rate of cycling is regulated by guanine nucleotide exchange factors (GEF) and GTPase-activating proteins (GAP). GTP-binding protein that does not act as an allosteric activator of the cholera toxin catalytic subunit. Regulates formation of new microtubules and centrosome integrity. Prevents the TBCD-induced microtubule destruction. Participates in association with TBCD, in the disassembly of the apical junction complexes. Antagonizes the effect of TBCD on epithelial cell detachment and tight and adherens junctions disassembly. Together with ARL2, plays a role in the nuclear translocation, retention and transcriptional activity of STAT3. Component of a regulated secretory pathway involved in Ca(2+)-dependent release of acetylcholine. Required for normal progress through the cell cycle.

Homo sapiens (taxid: 9606)

>sp|Q2TA37|ARL2_BOVIN ADP-ribosylation factor-like protein 2 OS=Bos taurus GN=ARL2 PE=1 SV=1

 Score = 56.6 bits (135), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 32/83 (38%), Positives = 47/83 (56%), Gaps = 8/83 (9%)

Query: 4  LVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQ 63
          L++   K   ++ E  +L+LGLDNAGKTT L        K + G +   I+ T+G NI  
Sbjct: 3  LLTILKKMKQKERELRLLMLGLDNAGKTTIL--------KKFNGEDIDTISPTLGFNIKT 54

Query: 64 IDINTVRLNFWDLGGQLELQSLW 86
          ++    +LN WD+GGQ  L+S W
Sbjct: 55 LEHRGFKLNIWDVGGQKSLRSYW 77

Small GTP-binding protein which cycles between an inactive GDP-bound and an active GTP-bound form, and the rate of cycling is regulated by guanine nucleotide exchange factors (GEF) and GTPase-activating proteins (GAP). GTP-binding protein that does not act as an allosteric activator of the cholera toxin catalytic subunit. Regulates formation of new microtubules and centrosome integrity. Prevents the TBCD-induced microtubule destruction. Participates in association with TBCD, in the disassembly of the apical junction complexes. Antagonizes the effect of TBCD on epithelial cell detachment and tight and adherens junctions disassembly. Together with ARL2, plays a role in the nuclear translocation, retention and transcriptional activity of STAT3. Component of a regulated secretory pathway involved in Ca(2+)-dependent release of acetylcholine. Required for normal progress through the cell cycle.

Bos taurus (taxid: 9913)

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	125
156552517	205	PREDICTED: ADP-ribosylation factor-relat	0.984	0.6	0.627	9e-51
312375482	1101	hypothetical protein AND_14113 [Anophele	0.992	0.112	0.595	3e-50
157126089	201	ARL3, putative [Aedes aegypti] gi|108873	0.992	0.616	0.583	7e-50
31212513	201	AGAP004586-PA [Anopheles gambiae str. PE	0.992	0.616	0.583	1e-49
170050739	201	ADP-ribosylation factor [Culex quinquefa	0.992	0.616	0.578	2e-49
189240847	202	PREDICTED: similar to AGAP004586-PA [Tri	0.992	0.613	0.595	5e-49
66554170	205	PREDICTED: ADP-ribosylation factor-relat	0.984	0.6	0.604	9e-49
332373066	202	unknown [Dendroctonus ponderosae]	0.992	0.613	0.589	9e-49
383850076	205	PREDICTED: ADP-ribosylation factor-relat	0.984	0.6	0.604	9e-49
332028448	205	ADP-ribosylation factor-related protein	0.984	0.6	0.604	1e-48

>gi|156552517|ref|XP_001599319.1| PREDICTED: ADP-ribosylation factor-related protein 1-like [Nasonia vitripennis]

 Score =  203 bits (517), Expect = 9e-51,   Method: Compositional matrix adjust.
 Identities = 108/172 (62%), Positives = 117/172 (68%), Gaps = 49/172 (28%)

Query: 1   MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
           MYTL+SGFYKY+++KDEF +LILGLDNAGKTTYLE+AKTKFTKNYKGMNPSKITTTVGLN
Sbjct: 1   MYTLLSGFYKYLVQKDEFFILILGLDNAGKTTYLEAAKTKFTKNYKGMNPSKITTTVGLN 60

Query: 61  IGQIDINTVRLNFWDLGGQLELQSLWDK-------------------------------- 88
           IG+ID   +RLNFWDLGGQ ELQSLWDK                                
Sbjct: 61  IGKIDTAGIRLNFWDLGGQEELQSLWDKYYAESHAVIYIVDSSDRDRIPVSKETFDKVIS 120

Query: 89  ----------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSAL 124
                           DI DCMGVREVKPIFN+N AHLIGRRDCMVMPVSAL
Sbjct: 121 SEHLQGVPLLVLANKQDIDDCMGVREVKPIFNQN-AHLIGRRDCMVMPVSAL 171

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|312375482|gb|EFR22848.1| hypothetical protein AND_14113 [Anopheles darlingi]

 Score =  202 bits (513), Expect = 3e-50,   Method: Compositional matrix adjust.
 Identities = 103/173 (59%), Positives = 117/173 (67%), Gaps = 49/173 (28%)

Query: 1   MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
           MYTL+SGFYKY+ +KDE+C+LILGLDNAGKTTYLE+AKTK TKNYKGMNPSKITTTVGLN
Sbjct: 160 MYTLLSGFYKYLTQKDEYCILILGLDNAGKTTYLEAAKTKLTKNYKGMNPSKITTTVGLN 219

Query: 61  IGQIDINTVRLNFWDLGGQLELQSLWDK-------------------------------- 88
           IGQIDI+ VRL+FWDLGGQ ELQSLWDK                                
Sbjct: 220 IGQIDISGVRLSFWDLGGQQELQSLWDKYYSESHAVIYVIDSNDRVRMNESKEVFDRMIN 279

Query: 89  ----------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT 125
                           D+ +CMGVRE+KP+F + S HLIGRRDC+VMPVSALT
Sbjct: 280 NEYLSGIPLLVLANKQDLPECMGVREIKPVF-QESGHLIGRRDCLVMPVSALT 331

Source: Anopheles darlingi

Species: Anopheles darlingi

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|157126089|ref|XP_001654530.1| ARL3, putative [Aedes aegypti] gi|108873374|gb|EAT37599.1| AAEL010423-PA [Aedes aegypti]

 Score =  200 bits (509), Expect = 7e-50,   Method: Compositional matrix adjust.
 Identities = 101/173 (58%), Positives = 117/173 (67%), Gaps = 49/173 (28%)

Query: 1   MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
           MYTL+SGFYKY+ +KDE+C+LILGLDNAGKTTYLE+AKTKFTKNY+GMNPSKITTTVGLN
Sbjct: 1   MYTLLSGFYKYLTQKDEYCILILGLDNAGKTTYLEAAKTKFTKNYRGMNPSKITTTVGLN 60

Query: 61  IGQIDINTVRLNFWDLGGQLELQSLWDK-------------------------------- 88
           IGQIDI  +R++FWDLGGQ ELQSLWDK                                
Sbjct: 61  IGQIDIQGIRMSFWDLGGQQELQSLWDKYYSESHAVIYVVDSNDRDRMHESKEVFDRMIA 120

Query: 89  ----------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT 125
                           D+ DCMGVRE+KP+F + + HLIGRRDC+VMPVSALT
Sbjct: 121 NEYLSSVPLLVLANKQDLPDCMGVREIKPVF-QEAGHLIGRRDCLVMPVSALT 172

Source: Aedes aegypti

Species: Aedes aegypti

Genus: Aedes

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|31212513|ref|XP_315241.1| AGAP004586-PA [Anopheles gambiae str. PEST] gi|347972205|ref|XP_003436856.1| AGAP004586-PB [Anopheles gambiae str. PEST] gi|21298433|gb|EAA10578.1| AGAP004586-PA [Anopheles gambiae str. PEST] gi|333469359|gb|EGK97267.1| AGAP004586-PB [Anopheles gambiae str. PEST]

 Score =  200 bits (508), Expect = 1e-49,   Method: Compositional matrix adjust.
 Identities = 101/173 (58%), Positives = 117/173 (67%), Gaps = 49/173 (28%)

Query: 1   MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
           MYTL+SGFYKY+ +KDE+C+LILGLDNAGKTTYLE+AKTKF+KNY+GMNPSKITTTVGLN
Sbjct: 1   MYTLLSGFYKYLTQKDEYCILILGLDNAGKTTYLEAAKTKFSKNYRGMNPSKITTTVGLN 60

Query: 61  IGQIDINTVRLNFWDLGGQLELQSLWDK-------------------------------- 88
           IGQIDI  +R++FWDLGGQ ELQSLWDK                                
Sbjct: 61  IGQIDIAGIRMSFWDLGGQQELQSLWDKYYSESHAVIYVVDSNDRVRMNESKEVFDRMIS 120

Query: 89  ----------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT 125
                           D+ DCMGVRE+KP+F + S HLIGRRDC+VMPVSALT
Sbjct: 121 NEYLSGIPLLVLANKQDLPDCMGVREIKPVF-QESGHLIGRRDCLVMPVSALT 172

Source: Anopheles gambiae str. PEST

Species: Anopheles gambiae

Genus: Anopheles

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|170050739|ref|XP_001861447.1| ADP-ribosylation factor [Culex quinquefasciatus] gi|167872249|gb|EDS35632.1| ADP-ribosylation factor [Culex quinquefasciatus]

 Score =  199 bits (507), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 100/173 (57%), Positives = 118/173 (68%), Gaps = 49/173 (28%)

Query: 1   MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
           MYTL+SGFYKY+ +KDE+C+LILGLDNAGKTTYLE+AKTKFTKNY+GMNPSKITTTVGLN
Sbjct: 1   MYTLLSGFYKYLTQKDEYCILILGLDNAGKTTYLEAAKTKFTKNYRGMNPSKITTTVGLN 60

Query: 61  IGQIDINTVRLNFWDLGGQLELQSLWDK-------------------------------- 88
           IGQID++ +R++FWDLGGQ ELQSLWDK                                
Sbjct: 61  IGQIDLHGIRMSFWDLGGQQELQSLWDKYYSESHAVIYVVDSNDRERMHETKEVFDRMIG 120

Query: 89  ----------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT 125
                           D+ DCMGVRE+KP+F + + HLIGRRDC+VMPVSALT
Sbjct: 121 NEYLSGVPLLVLANKQDLPDCMGVREIKPVF-QEAGHLIGRRDCLVMPVSALT 172

Source: Culex quinquefasciatus

Species: Culex quinquefasciatus

Genus: Culex

Family: Culicidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|189240847|ref|XP_001812473.1| PREDICTED: similar to AGAP004586-PA [Tribolium castaneum] gi|270013511|gb|EFA09959.1| hypothetical protein TcasGA2_TC012116 [Tribolium castaneum]

 Score =  197 bits (502), Expect = 5e-49,   Method: Compositional matrix adjust.
 Identities = 103/173 (59%), Positives = 117/173 (67%), Gaps = 49/173 (28%)

Query: 1   MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
           MYTL+ GFYKY+++KDE+CVLILGLDNAGKTTYLE+AKTK TKNY G++PSKITTTVGLN
Sbjct: 1   MYTLLHGFYKYLVQKDEYCVLILGLDNAGKTTYLEAAKTKLTKNYTGIHPSKITTTVGLN 60

Query: 61  IGQIDINTVRLNFWDLGGQLELQSLWDK-------------------------------- 88
           IG+I+I  +RLNFWDLGGQ ELQSLWDK                                
Sbjct: 61  IGKIEIAGIRLNFWDLGGQSELQSLWDKYYAESHAIIYIVDSSDRDRIDDSKETFDKMIA 120

Query: 89  ----------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT 125
                           DI +CMGVREVKPIFNKN AHLIG+RDCMVMP+SALT
Sbjct: 121 NENLRGVPLLVLANKQDIPECMGVREVKPIFNKN-AHLIGKRDCMVMPISALT 172

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|66554170|ref|XP_392858.2| PREDICTED: ADP-ribosylation factor-related protein 1-like [Apis mellifera]

 Score =  197 bits (500), Expect = 9e-49,   Method: Compositional matrix adjust.
 Identities = 104/172 (60%), Positives = 115/172 (66%), Gaps = 49/172 (28%)

Query: 1   MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
           MYTL+ G YKY+++KDE+ +LILGLDNAGKTTYLE+AKTKFTKNYKGMNPSKITTTVGLN
Sbjct: 1   MYTLLHGLYKYLVQKDEYFILILGLDNAGKTTYLEAAKTKFTKNYKGMNPSKITTTVGLN 60

Query: 61  IGQIDINTVRLNFWDLGGQLELQSLWDK-------------------------------- 88
           IG+IDI  VR NFWDLGGQ EL+SLWDK                                
Sbjct: 61  IGKIDIAGVRFNFWDLGGQEELRSLWDKYYAESHAVIYIVDSSDREKIPESKETFDRVIS 120

Query: 89  ----------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSAL 124
                           D+ DCMGVREVKPIFN+N AHLIGRRDCMVMPVSAL
Sbjct: 121 SEHLIGVPLLVLANKQDVPDCMGVREVKPIFNQN-AHLIGRRDCMVMPVSAL 171

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332373066|gb|AEE61674.1| unknown [Dendroctonus ponderosae]

 Score =  197 bits (500), Expect = 9e-49,   Method: Compositional matrix adjust.
 Identities = 102/173 (58%), Positives = 117/173 (67%), Gaps = 49/173 (28%)

Query: 1   MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
           MY+L+ GFY+YM++KDEFCVLILGLDNAGKTTYLE+AKTK TKNY+G+NP KITTTVGLN
Sbjct: 1   MYSLLHGFYQYMVQKDEFCVLILGLDNAGKTTYLEAAKTKLTKNYQGINPGKITTTVGLN 60

Query: 61  IGQIDINTVRLNFWDLGGQLELQSLWDK-------------------------------- 88
           IG+ID+  V+LNFWDLGGQ ELQSLWDK                                
Sbjct: 61  IGRIDVGGVQLNFWDLGGQSELQSLWDKYYEESHAVIYIVDSWDRERVDESKEIFDRMIA 120

Query: 89  ----------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT 125
                           D+ +CMGVREVKPIFNKN AHL+G+RDCMVMPVSALT
Sbjct: 121 NDNLQGVPLLVLANKQDLPECMGVREVKPIFNKN-AHLVGKRDCMVMPVSALT 172

Source: Dendroctonus ponderosae

Species: Dendroctonus ponderosae

Genus: Dendroctonus

Family: Curculionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383850076|ref|XP_003700643.1| PREDICTED: ADP-ribosylation factor-related protein 1-like [Megachile rotundata]

 Score =  197 bits (500), Expect = 9e-49,   Method: Compositional matrix adjust.
 Identities = 104/172 (60%), Positives = 115/172 (66%), Gaps = 49/172 (28%)

Query: 1   MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
           MYTL+ G YKY+++KDE+ +LILGLDNAGKTTYLE+AKTKFTKNYKGMNPSKITTTVGLN
Sbjct: 1   MYTLLHGLYKYLVQKDEYFILILGLDNAGKTTYLEAAKTKFTKNYKGMNPSKITTTVGLN 60

Query: 61  IGQIDINTVRLNFWDLGGQLELQSLWDK-------------------------------- 88
           IG+IDI  VR NFWDLGGQ EL+SLWDK                                
Sbjct: 61  IGKIDIAGVRFNFWDLGGQEELRSLWDKYYAESHAVIYIVDSSDREKIPESKETFDRVIS 120

Query: 89  ----------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSAL 124
                           D+ DCMGVREVKPIFN+N AHLIGRRDCMVMPVSAL
Sbjct: 121 SEHLIGVPLLVLANKQDVPDCMGVREVKPIFNQN-AHLIGRRDCMVMPVSAL 171

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332028448|gb|EGI68491.1| ADP-ribosylation factor-related protein 1 [Acromyrmex echinatior]

 Score =  196 bits (499), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 104/172 (60%), Positives = 114/172 (66%), Gaps = 49/172 (28%)

Query: 1   MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
           MYTL+ G YKY+++KDE+ +LILGLDNAGKTTYLE+AKTKFTKNYKGMNPSKITTTVGLN
Sbjct: 1   MYTLLHGLYKYLMQKDEYFILILGLDNAGKTTYLEAAKTKFTKNYKGMNPSKITTTVGLN 60

Query: 61  IGQIDINTVRLNFWDLGGQLELQSLWDK-------------------------------- 88
           IG+IDI  V  NFWDLGGQ ELQSLWDK                                
Sbjct: 61  IGKIDIAGVSFNFWDLGGQEELQSLWDKYYAESHAVIYIVDSSDRDRIPDSKETFDKVIS 120

Query: 89  ----------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSAL 124
                           D+ DCMGVREVKPIFN+ SAHLIGRRDCMVMPVSAL
Sbjct: 121 SEHLIGVPLLVLANKQDVPDCMGVREVKPIFNQ-SAHLIGRRDCMVMPVSAL 171

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

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	125
FB|FBgn0030088	200	CG7039 [Drosophila melanogaste	0.768	0.48	0.770	1.8e-48
UNIPROTKB|Q32LJ2	201	ARFRP1 "ADP-ribosylation facto	0.768	0.477	0.739	2.2e-42
ZFIN|ZDB-GENE-050227-14	201	arfrp1 "ADP-ribosylation facto	0.768	0.477	0.739	2.8e-42
UNIPROTKB|Q13795	201	ARFRP1 "ADP-ribosylation facto	0.768	0.477	0.729	7.5e-42
MGI|MGI:1923938	201	Arfrp1 "ADP-ribosylation facto	0.768	0.477	0.729	9.5e-42
RGD|621683	201	Arfrp1 "ADP-ribosylation facto	0.768	0.477	0.729	9.5e-42
UNIPROTKB|E1C1J0	201	ARFRP1 "Uncharacterized protei	0.768	0.477	0.718	2.8e-40
UNIPROTKB|J9P4D5	201	ARFRP1 "Uncharacterized protei	0.768	0.477	0.697	3.2e-39
WB|WBGene00021841	191	Y54E10BR.2 [Caenorhabditis ele	0.688	0.450	0.546	4.4e-25
SGD|S000005972	198	ARL3 "GTPase of the Ras superf	0.752	0.474	0.422	1.2e-24

FB|FBgn0030088 CG7039 [Drosophila melanogaster (taxid:7227)]

 Score = 403 (146.9 bits), Expect = 1.8e-48, Sum P(2) = 1.8e-48
 Identities = 74/96 (77%), Positives = 85/96 (88%)

Query:     1 MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
             MYTL+ GFYKYM +KD++CV+ILGLDNAGKTTYLE+AKT FT+NYKG+NPSKITTTVGLN
Sbjct:     1 MYTLMHGFYKYMTQKDDYCVVILGLDNAGKTTYLEAAKTTFTRNYKGLNPSKITTTVGLN 60

Query:    61 IGQIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGV 96
             IG ID+  VRLNFWDLGGQ ELQSLWDK  ++  GV
Sbjct:    61 IGTIDVQGVRLNFWDLGGQQELQSLWDKYYQESHGV 96

GO:0003924 "GTPase activity" evidence=ISS

GO:0005622 "intracellular" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

UNIPROTKB|Q32LJ2 ARFRP1 "ADP-ribosylation factor-related protein 1" [Bos taurus (taxid:9913)]

 Score = 385 (140.6 bits), Expect = 2.2e-42, Sum P(2) = 2.2e-42
 Identities = 71/96 (73%), Positives = 81/96 (84%)

Query:     1 MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
             MYTL+SG YKYM +KDE+CVLILGLDNAGKTT+LE +KT+F KNYKGM+ SKITTTVGLN
Sbjct:     1 MYTLLSGLYKYMFQKDEYCVLILGLDNAGKTTFLEQSKTRFNKNYKGMSLSKITTTVGLN 60

Query:    61 IGQIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGV 96
             IG +D+   RL FWDLGGQ ELQSLWDK   +C GV
Sbjct:    61 IGTVDVGKARLMFWDLGGQEELQSLWDKYYAECHGV 96

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0043001 "Golgi to plasma membrane protein transport" evidence=IEA

GO:0042147 "retrograde transport, endosome to Golgi" evidence=IEA

GO:0034067 "protein localization to Golgi apparatus" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0007369 "gastrulation" evidence=IEA

GO:0005802 "trans-Golgi network" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

ZFIN|ZDB-GENE-050227-14 arfrp1 "ADP-ribosylation factor related protein 1" [Danio rerio (taxid:7955)]

 Score = 380 (138.8 bits), Expect = 2.8e-42, Sum P(2) = 2.8e-42
 Identities = 71/96 (73%), Positives = 80/96 (83%)

Query:     1 MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
             MYTL+SG YKYM +KDE+C+LILGLDNAGKTT+LE  KT+F+KNYKGMN SKITTTVGLN
Sbjct:     1 MYTLLSGLYKYMFQKDEYCILILGLDNAGKTTFLEQTKTRFSKNYKGMNLSKITTTVGLN 60

Query:    61 IGQIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGV 96
             IG ID+   RL FWDLGGQ ELQSLWDK   +  GV
Sbjct:    61 IGTIDVGKARLMFWDLGGQEELQSLWDKYYAESHGV 96

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

UNIPROTKB|Q13795 ARFRP1 "ADP-ribosylation factor-related protein 1" [Homo sapiens (taxid:9606)]

 Score = 384 (140.2 bits), Expect = 7.5e-42, Sum P(2) = 7.5e-42
 Identities = 70/96 (72%), Positives = 81/96 (84%)

Query:     1 MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
             MYTL+SG YKYM +KDE+C+LILGLDNAGKTT+LE +KT+F KNYKGM+ SKITTTVGLN
Sbjct:     1 MYTLLSGLYKYMFQKDEYCILILGLDNAGKTTFLEQSKTRFNKNYKGMSLSKITTTVGLN 60

Query:    61 IGQIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGV 96
             IG +D+   RL FWDLGGQ ELQSLWDK   +C GV
Sbjct:    61 IGTVDVGKARLMFWDLGGQEELQSLWDKYYAECHGV 96

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

GO:0005525 "GTP binding" evidence=IEA

GO:0007369 "gastrulation" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0034067 "protein localization to Golgi apparatus" evidence=IMP

GO:0005794 "Golgi apparatus" evidence=IDA

GO:0043001 "Golgi to plasma membrane protein transport" evidence=IMP

GO:0005802 "trans-Golgi network" evidence=IDA

GO:0042147 "retrograde transport, endosome to Golgi" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

GO:0003924 "GTPase activity" evidence=TAS

GO:0007165 "signal transduction" evidence=TAS

GO:0006184 "GTP catabolic process" evidence=TAS

MGI|MGI:1923938 Arfrp1 "ADP-ribosylation factor related protein 1" [Mus musculus (taxid:10090)]

 Score = 384 (140.2 bits), Expect = 9.5e-42, Sum P(2) = 9.5e-42
 Identities = 70/96 (72%), Positives = 81/96 (84%)

Query:     1 MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
             MYTL+SG YKYM +KDE+C+LILGLDNAGKTT+LE +KT+F KNYKGM+ SKITTTVGLN
Sbjct:     1 MYTLLSGLYKYMFQKDEYCILILGLDNAGKTTFLEQSKTRFNKNYKGMSLSKITTTVGLN 60

Query:    61 IGQIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGV 96
             IG +D+   RL FWDLGGQ ELQSLWDK   +C GV
Sbjct:    61 IGTVDVGKARLMFWDLGGQEELQSLWDKYYAECHGV 96

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003924 "GTPase activity" evidence=ISO

GO:0005525 "GTP binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=ISO

GO:0005802 "trans-Golgi network" evidence=ISO

GO:0006184 "GTP catabolic process" evidence=ISO

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

GO:0007369 "gastrulation" evidence=IMP

GO:0016020 "membrane" evidence=IDA

GO:0034067 "protein localization to Golgi apparatus" evidence=ISO

GO:0042147 "retrograde transport, endosome to Golgi" evidence=ISO

GO:0043001 "Golgi to plasma membrane protein transport" evidence=ISO

RGD|621683 Arfrp1 "ADP-ribosylation factor related protein 1" [Rattus norvegicus (taxid:10116)]

 Score = 384 (140.2 bits), Expect = 9.5e-42, Sum P(2) = 9.5e-42
 Identities = 70/96 (72%), Positives = 81/96 (84%)

Query:     1 MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
             MYTL+SG YKYM +KDE+C+LILGLDNAGKTT+LE +KT+F KNYKGM+ SKITTTVGLN
Sbjct:     1 MYTLLSGLYKYMFQKDEYCILILGLDNAGKTTFLEQSKTRFNKNYKGMSLSKITTTVGLN 60

Query:    61 IGQIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGV 96
             IG +D+   RL FWDLGGQ ELQSLWDK   +C GV
Sbjct:    61 IGTVDVGKARLMFWDLGGQEELQSLWDKYYAECHGV 96

GO:0005525 "GTP binding" evidence=IEA

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

GO:0005802 "trans-Golgi network" evidence=ISO

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

GO:0007369 "gastrulation" evidence=ISO

GO:0016020 "membrane" evidence=ISO

GO:0034067 "protein localization to Golgi apparatus" evidence=ISO

GO:0042147 "retrograde transport, endosome to Golgi" evidence=ISO

GO:0043001 "Golgi to plasma membrane protein transport" evidence=ISO

UNIPROTKB|E1C1J0 ARFRP1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 371 (135.7 bits), Expect = 2.8e-40, Sum P(2) = 2.8e-40
 Identities = 69/96 (71%), Positives = 79/96 (82%)

Query:     1 MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
             MYTL+SG YKYM ++DE+C+LILGLDNAGKTT+LE  KT+F KNYKGM+ SKITTTVGLN
Sbjct:     1 MYTLLSGLYKYMFQRDEYCILILGLDNAGKTTFLEQTKTRFNKNYKGMSLSKITTTVGLN 60

Query:    61 IGQIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGV 96
             IG ID+   RL FWDLGGQ ELQSLWDK   +  GV
Sbjct:    61 IGTIDVGKTRLMFWDLGGQEELQSLWDKYYAESHGV 96

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

GO:0005525 "GTP binding" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0005802 "trans-Golgi network" evidence=IEA

GO:0007369 "gastrulation" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0034067 "protein localization to Golgi apparatus" evidence=IEA

GO:0042147 "retrograde transport, endosome to Golgi" evidence=IEA

GO:0043001 "Golgi to plasma membrane protein transport" evidence=IEA

UNIPROTKB|J9P4D5 ARFRP1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 359 (131.4 bits), Expect = 3.2e-39, Sum P(2) = 3.2e-39
 Identities = 67/96 (69%), Positives = 79/96 (82%)

Query:     1 MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
             MYTL+SG YKYM +KDE+CVLILGLDNAGKTT+LE +KT+F KNYKGM+ SKITTTVGLN
Sbjct:     1 MYTLLSGLYKYMFQKDEYCVLILGLDNAGKTTFLEQSKTRFNKNYKGMSLSKITTTVGLN 60

Query:    61 IGQIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGV 96
             I  +++    L FW+LGGQ ELQSLWDK   +C GV
Sbjct:    61 IRTVEVGKGPLMFWELGGQEELQSLWDKYYAECHGV 96

GO:0005525 "GTP binding" evidence=IEA

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

GO:0005622 "intracellular" evidence=IEA

WB|WBGene00021841 Y54E10BR.2 [Caenorhabditis elegans (taxid:6239)]

 Score = 263 (97.6 bits), Expect = 4.4e-25, Sum P(2) = 4.4e-25
 Identities = 47/86 (54%), Positives = 64/86 (74%)

Query:     1 MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
             MYTL +G ++   +K ++ V+I+GLDNAGKTT+LE  K+ F K+Y  +NPSKIT TVGLN
Sbjct:     1 MYTLSAGIWEKFFKKKDYYVVIVGLDNAGKTTFLEQTKSHFVKDYGVLNPSKITATVGLN 60

Query:    61 IGQIDINTVRLNFWDLGGQLELQSLW 86
              G +++N   L+FWDLGGQ  L+ LW
Sbjct:    61 TGNVELNNTCLHFWDLGGQESLRELW 86

GO:0003924 "GTPase activity" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

GO:0015031 "protein transport" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

SGD|S000005972 ARL3 "GTPase of the Ras superfamily required to recruit Arl1p to the Golgi" [Saccharomyces cerevisiae (taxid:4932)]

 Score = 210 (79.0 bits), Expect = 1.2e-24, Sum P(2) = 1.2e-24
 Identities = 41/97 (42%), Positives = 64/97 (65%)

Query:     1 MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
             M+ LV G Y    +K+++ +LILGLDNAGKTT+LE+ K +++  +K +   KI  TVG N
Sbjct:     1 MFHLVKGLYNNWNKKEQYSILILGLDNAGKTTFLETLKKEYSLAFKALE--KIQPTVGQN 58

Query:    61 IGQIDINTVR-LNFWDLGGQLELQSLWDKDIRDCMGV 96
             +  I +++ + L FWD+GGQ  L+S+W +    C G+
Sbjct:    59 VATIPVDSKQILKFWDVGGQESLRSMWSEYYSLCHGI 95

GO:0005794 "Golgi apparatus" evidence=IEA;IDA

GO:0006886 "intracellular protein transport" evidence=IMP

GO:0006810 "transport" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0043001 "Golgi to plasma membrane protein transport" evidence=IMP

GO:0005622 "intracellular" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0033365 "protein localization to organelle" evidence=IMP

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

GO:0015031 "protein transport" evidence=IEA

GO:0042175 "nuclear outer membrane-endoplasmic reticulum membrane network" evidence=IDA

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

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Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q63055	ARFRP_RAT	No assigned EC number	0.4682	0.992	0.6169	yes	N/A
Q02804	ARL3_YEAST	No assigned EC number	0.3275	0.976	0.6161	yes	N/A
Q5R579	ARFRP_PONAB	No assigned EC number	0.4682	0.992	0.6169	yes	N/A
Q8BXL7	ARFRP_MOUSE	No assigned EC number	0.4682	0.992	0.6169	yes	N/A
Q32LJ2	ARFRP_BOVIN	No assigned EC number	0.4797	0.992	0.6169	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	125
cd04160	168	cd04160, Arfrp1, Arf-related protein 1 (Arfrp1)	2e-53
cd00878	158	cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf	5e-18
pfam00025	174	pfam00025, Arf, ADP-ribosylation factor family	2e-15
cd04154	173	cd04154, Arl2, Arf-like 2 (Arl2) GTPase	2e-15
cd04153	174	cd04153, Arl5_Arl8, Arf-like 5 (Arl5) and 8 (Arl8)	3e-13
cd04155	174	cd04155, Arl3, Arf-like 3 (Arl3) GTPase	5e-12
cd04149	168	cd04149, Arf6, ADP ribosylation factor 6 (Arf6)	2e-10
cd04151	158	cd04151, Arl1, ADP ribosylation factor 1 (Arf1)	5e-10
cd04156	160	cd04156, ARLTS1, Arf-like tumor suppressor gene 1	1e-09
cd04157	162	cd04157, Arl6, Arf-like 6 (Arl6) GTPase	3e-09
smart00177	175	smart00177, ARF, ARF-like small GTPases; ARF, ADP-	6e-09
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	2e-08
cd04152	183	cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7)	2e-08
PLN00223	181	PLN00223, PLN00223, ADP-ribosylation factor; Provi	3e-08
PTZ00133	182	PTZ00133, PTZ00133, ADP-ribosylation factor; Provi	4e-08
cd04159	159	cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl	2e-07
cd00879	191	cd00879, Sar1, Sar1 is an essential component of C	2e-07
cd04150	159	cd04150, Arf1_5_like, ADP-ribosylation factor-1 (A	7e-07
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	1e-06
cd04158	169	cd04158, ARD1, (ADP-ribosylation factor domain pro	1e-06
cd04162	164	cd04162, Arl9_Arfrp2_like, Arf-like 9 (Arl9)/Arfrp	3e-06
smart00178	184	smart00178, SAR, Sar1p-like members of the Ras-fam	1e-05
cd04161	167	cd04161, Arl2l1_Arl13_like, Arl2-like protein 1 (A	2e-05
pfam08477	116	pfam08477, Miro, Miro-like protein	1e-04
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	5e-04
cd09914	161	cd09914, RocCOR, Ras of complex proteins (Roc) C-t	0.002
PLN03071	219	PLN03071, PLN03071, GTP-binding nuclear protein Ra	0.003
cd00877	166	cd00877, Ran, Ras-related nuclear proteins (Ran)/T	0.004
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	0.004

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

 Score =  165 bits (419), Expect = 2e-53
 Identities = 74/155 (47%), Positives = 86/155 (55%), Gaps = 49/155 (31%)

Query: 19  CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGG 78
           CVLILGLDNAGKTT+LE  KTKF+KNYKG+NPSKIT TVGLNIG I++   RL FWDLGG
Sbjct: 1   CVLILGLDNAGKTTFLEQTKTKFSKNYKGLNPSKITPTVGLNIGTIEVGKARLMFWDLGG 60

Query: 79  QLELQSLWDK------------------------------------------------DI 90
           Q EL+SLWDK                                                D+
Sbjct: 61  QEELRSLWDKYYAESHGVIYVIDSTDRERFNESKSAFEKVINNEALEGVPLLVLANKQDL 120

Query: 91  RDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT 125
            D + V E+K +F+     LIGRRDC+V PVSAL 
Sbjct: 121 PDALSVAEIKEVFDD-CIALIGRRDCLVQPVSALE 154

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

 Score = 74.5 bits (184), Expect = 5e-18
 Identities = 24/78 (30%), Positives = 37/78 (47%), Gaps = 8/78 (10%)

Query: 19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGG 78
           +L+LGLD AGKTT L   K                 T+G N+  ++   V+   WD+GG
Sbjct: 1  RILMLGLDGAGKTTILYKLKLGE--------VVTTIPTIGFNVETVEYKNVKFTVWDVGG 52

Query: 79 QLELQSLWDKDIRDCMGV 96
          Q +++ LW     +  G+
Sbjct: 53 QDKIRPLWKHYYENTDGL 70

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 = 68.0 bits (167), Expect = 2e-15
 Identities = 28/80 (35%), Positives = 35/80 (43%), Gaps = 8/80 (10%)

Query: 8  FYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDIN 67
            K      E  +LILGLDNAGKTT L           K         T+G N+  +   
Sbjct: 5  LAKLFGWNKEMRILILGLDNAGKTTIL--------YKLKLGEIVTTIPTIGFNVETVTYK 56

Query: 68 TVRLNFWDLGGQLELQSLWD 87
           V+   WD+GGQ  L+ LW 
Sbjct: 57 NVKFTVWDVGGQESLRPLWR 76

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

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

 Score = 68.1 bits (167), Expect = 2e-15
 Identities = 33/77 (42%), Positives = 46/77 (59%), Gaps = 8/77 (10%)

Query: 10 KYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTV 69
          K   ++ E  +L+LGLDNAGKTT L        K + G + S I+ T+G NI  ++ N  
Sbjct: 7  KTKQKEREMRILMLGLDNAGKTTIL--------KKFNGEDISTISPTLGFNIKTLEYNGY 58

Query: 70 RLNFWDLGGQLELQSLW 86
          +LN WD+GGQ  L+S W
Sbjct: 59 KLNIWDVGGQKSLRSYW 75

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

 Score = 62.4 bits (152), Expect = 3e-13
 Identities = 30/86 (34%), Positives = 44/86 (51%), Gaps = 12/86 (13%)

Query: 3  TLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLN 60
           L S  +     + E+ V+I+GLDNAGKTT L          Y+ +    + T  T+G N
Sbjct: 1  LLFSSLWSLFFPRKEYKVIIVGLDNAGKTTIL----------YQFLLGEVVHTSPTIGSN 50

Query: 61 IGQIDINTVRLNFWDLGGQLELQSLW 86
          + +I    +R   WD+GGQ  L+S W
Sbjct: 51 VEEIVYKNIRFLMWDIGGQESLRSSW 76

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

 Score = 59.3 bits (144), Expect = 5e-12
 Identities = 32/84 (38%), Positives = 44/84 (52%), Gaps = 9/84 (10%)

Query: 4  LVSGFYKYMLR-KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIG 62
          L+S   K     + E  +L+LGLDNAGKTT L        K     + S IT T G NI 
Sbjct: 1  LLSILRKLKPSSRQEVRILLLGLDNAGKTTIL--------KQLASEDISHITPTQGFNIK 52

Query: 63 QIDINTVRLNFWDLGGQLELQSLW 86
           +  +  +LN WD+GGQ +++  W
Sbjct: 53 NVQADGFKLNVWDIGGQRKIRPYW 76

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|206716 cd04149, Arf6, ADP ribosylation factor 6 (Arf6)

 Score = 55.2 bits (133), Expect = 2e-10
 Identities = 28/71 (39%), Positives = 38/71 (53%), Gaps = 10/71 (14%)

Query: 17 EFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT-TVGLNIGQIDINTVRLNFWD 75
          E  +L+LGLD AGKTT L   K         +  S  T  TVG N+  +    V+ N WD
Sbjct: 9  EMRILMLGLDAAGKTTILYKLK---------LGQSVTTIPTVGFNVETVTYKNVKFNVWD 59

Query: 76 LGGQLELQSLW 86
          +GGQ +++ LW
Sbjct: 60 VGGQDKIRPLW 70

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

 Score = 53.6 bits (129), Expect = 5e-10
 Identities = 25/69 (36%), Positives = 35/69 (50%), Gaps = 12/69 (17%)

Query: 20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNIGQIDINTVRLNFWDLG 77
          +LILGLD AGKTT L          Y+      +TT  T+G N+  +    ++   WDLG
Sbjct: 2  ILILGLDGAGKTTIL----------YRLQVGEVVTTIPTIGFNVETVTYKNLKFQVWDLG 51

Query: 78 GQLELQSLW 86
          GQ  ++  W
Sbjct: 52 GQTSIRPYW 60

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

 Score = 52.8 bits (127), Expect = 1e-09
 Identities = 27/80 (33%), Positives = 45/80 (56%), Gaps = 13/80 (16%)

Query: 20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNIGQIDINT-VRLNFWDL 76
          VL+LGLD+AGK+T L          YK  +   +TT  TVG N+  + +   + L  WD+
Sbjct: 2  VLLLGLDSAGKSTLL----------YKLKHAELVTTIPTVGFNVEMLQLEKHLSLTVWDV 51

Query: 77 GGQLELQSLWDKDIRDCMGV 96
          GGQ +++++W   + +  G+
Sbjct: 52 GGQEKMRTVWKCYLENTDGL 71

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

 Score = 51.7 bits (124), Expect = 3e-09
 Identities = 22/77 (28%), Positives = 38/77 (49%), Gaps = 6/77 (7%)

Query: 20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ 79
          +L+LGLDN+GKTT +   K    ++        I  TVG N+       +    +D+ GQ
Sbjct: 2  ILVLGLDNSGKTTIINQLKPSNAQS------QNIVPTVGFNVESFKKGNLSFTAFDMSGQ 55

Query: 80 LELQSLWDKDIRDCMGV 96
           + + LW+   ++  G+
Sbjct: 56 GKYRGLWEHYYKNIQGI 72

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 = 51.1 bits (122), Expect = 6e-09
 Identities = 26/93 (27%), Positives = 42/93 (45%), Gaps = 12/93 (12%)

Query: 6  SGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNIGQ 63
             +  +    E  +L++GLD AGKTT L          YK      +TT  T+G N+  
Sbjct: 2  GKLFSKLFGNKEMRILMVGLDAAGKTTIL----------YKLKLGESVTTIPTIGFNVET 51

Query: 64 IDINTVRLNFWDLGGQLELQSLWDKDIRDCMGV 96
          +    +    WD+GGQ +++ LW     +  G+
Sbjct: 52 VTYKNISFTVWDVGGQDKIRPLWRHYYTNTQGL 84

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|224025 COG1100, COG1100, GTPase SAR1 and related small G proteins [General function prediction only]

 Score = 50.0 bits (119), Expect = 2e-08
 Identities = 25/85 (29%), Positives = 36/85 (42%), Gaps = 5/85 (5%)

Query: 13 LRKDEFCVLILGLDNAGKTTYLESAKT-KFTKNYKGMNPSKITTTVGLNIGQIDINTVRL 71
          L   EF +++LG    GKTT L      +F + Y    P+         I     N ++L
Sbjct: 1  LFMKEFKIVVLGDGGVGKTTLLNRLVGDEFPEGYP---PTIGNLDPAKTIEPYRRN-IKL 56

Query: 72 NFWDLGGQLELQSLWDKDIRDCMGV 96
            WD  GQ E +SL  +  R   G+
Sbjct: 57 QLWDTAGQEEYRSLRPEYYRGANGI 81

Length = 219

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

 Score = 49.4 bits (118), Expect = 2e-08
 Identities = 29/70 (41%), Positives = 41/70 (58%), Gaps = 9/70 (12%)

Query: 20 VLILGLDNAGKTTYLESAK-TKF--TKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDL 76
          +++LGLD+AGKTT L   K  +F  T   KG N  KI  ++G      +   V  +FWD+
Sbjct: 6  IVMLGLDSAGKTTVLYRLKFNEFVNTVPTKGFNTEKIKVSLG------NAKGVTFHFWDV 59

Query: 77 GGQLELQSLW 86
          GGQ +L+ LW
Sbjct: 60 GGQEKLRPLW 69

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|165788 PLN00223, PLN00223, ADP-ribosylation factor; Provisional

 Score = 49.2 bits (117), Expect = 3e-08
 Identities = 27/88 (30%), Positives = 43/88 (48%), Gaps = 12/88 (13%)

Query: 1  MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVG 58
          M    +  +  +  K E  +L++GLD AGKTT L          YK      +TT  T+G
Sbjct: 1  MGLSFTKLFSRLFAKKEMRILMVGLDAAGKTTIL----------YKLKLGEIVTTIPTIG 50

Query: 59 LNIGQIDINTVRLNFWDLGGQLELQSLW 86
           N+  ++   +    WD+GGQ +++ LW
Sbjct: 51 FNVETVEYKNISFTVWDVGGQDKIRPLW 78

Length = 181

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

 Score = 48.7 bits (116), Expect = 4e-08
 Identities = 30/88 (34%), Positives = 46/88 (52%), Gaps = 12/88 (13%)

Query: 1  MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVG 58
          M   +S  +K +  K E  +L++GLD AGKTT L          YK      +TT  T+G
Sbjct: 1  MGLWLSSAFKSLFGKKEVRILMVGLDAAGKTTIL----------YKLKLGEVVTTIPTIG 50

Query: 59 LNIGQIDINTVRLNFWDLGGQLELQSLW 86
           N+  ++   ++   WD+GGQ +L+ LW
Sbjct: 51 FNVETVEYKNLKFTMWDVGGQDKLRPLW 78

Length = 182

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

 Score = 46.5 bits (111), Expect = 2e-07
 Identities = 27/76 (35%), Positives = 41/76 (53%), Gaps = 12/76 (15%)

Query: 22 ILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQL 80
          ++GL N+GKTT +   A  +F++      P     TVG N+ ++    V +  WDLGGQ 
Sbjct: 4  LVGLQNSGKTTLVNVIASGQFSE---DTIP-----TVGFNMRKVTKGNVTIKVWDLGGQP 55

Query: 81 ELQSLWDKDIRDCMGV 96
            +S+W+   R C GV
Sbjct: 56 RFRSMWE---RYCRGV 68

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

 Score = 46.9 bits (112), Expect = 2e-07
 Identities = 24/91 (26%), Positives = 38/91 (41%), Gaps = 8/91 (8%)

Query: 6  SGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQID 65
          +      L K E  ++ LGLDNAGKTT L   K      +          T+     ++ 
Sbjct: 8  NVLSSLGLYKKEAKIVFLGLDNAGKTTLLHMLKDDRLAQH--------VPTLHPTSEELT 59

Query: 66 INTVRLNFWDLGGQLELQSLWDKDIRDCMGV 96
          I  V+   +DLGG  + + +W     +  G+
Sbjct: 60 IGNVKFTTFDLGGHEQARRVWKDYFPEVDGI 90

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 = 45.1 bits (107), Expect = 7e-07
 Identities = 24/69 (34%), Positives = 37/69 (53%), Gaps = 12/69 (17%)

Query: 20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNIGQIDINTVRLNFWDLG 77
          +L++GLD AGKTT L          YK      +TT  T+G N+  ++   +    WD+G
Sbjct: 3  ILMVGLDAAGKTTIL----------YKLKLGEIVTTIPTIGFNVETVEYKNISFTVWDVG 52

Query: 78 GQLELQSLW 86
          GQ +++ LW
Sbjct: 53 GQDKIRPLW 61

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|232886 TIGR00231, small_GTP, small GTP-binding protein domain

 Score = 44.7 bits (106), Expect = 1e-06
 Identities = 19/82 (23%), Positives = 31/82 (37%), Gaps = 6/82 (7%)

Query: 20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDIN--TVRLNFWDLG 77
          ++I+G  N GK+T L     +   N   +   K  TT       I+ +  T + N  D  
Sbjct: 4  IVIVGDPNVGKSTLLN----RLLGNKISITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTA 59

Query: 78 GQLELQSLWDKDIRDCMGVREV 99
          GQ +  ++     R       V
Sbjct: 60 GQEDYDAIRRLYYRAVESSLRV 81

Proteins with a small GTP-binding domain recognized by this model include Ras, RhoA, Rab11, translation elongation factor G, translation initiation factor IF-2, tetratcycline resistance protein TetM, CDC42, Era, ADP-ribosylation factors, tdhF, and many others. In some proteins the domain occurs more than once.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 [Unknown function, General]. Length = 162

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

 Score = 45.0 bits (106), Expect = 1e-06
 Identities = 24/67 (35%), Positives = 36/67 (53%), Gaps = 8/67 (11%)

Query: 20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ 79
          V+ LGLD AGKTT L   K       + M P     T+G N+  ++   ++   WD+GG+
Sbjct: 2  VVTLGLDGAGKTTILFKLKQD-----EFMQP---IPTIGFNVETVEYKNLKFTIWDVGGK 53

Query: 80 LELQSLW 86
           +L+ LW
Sbjct: 54 HKLRPLW 60

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

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

 Score = 43.6 bits (103), Expect = 3e-06
 Identities = 19/67 (28%), Positives = 30/67 (44%), Gaps = 7/67 (10%)

Query: 20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ 79
          +L+LGLD AGKT+ L S  ++ +          +  T G N   I      +   ++GG 
Sbjct: 2  ILVLGLDGAGKTSLLHSLSSERS-------LESVVPTTGFNSVAIPTQDAIMELLEIGGS 54

Query: 80 LELQSLW 86
            L+  W
Sbjct: 55 QNLRKYW 61

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

 Score = 41.8 bits (98), Expect = 1e-05
 Identities = 26/67 (38%), Positives = 33/67 (49%), Gaps = 8/67 (11%)

Query: 20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ 79
          +L LGLDNAGKTT L   K           P++  T+  L IG I   T     +DLGG 
Sbjct: 20 ILFLGLDNAGKTTLLHMLK---NDRLAQHQPTQHPTSEELAIGNIKFTT-----FDLGGH 71

Query: 80 LELQSLW 86
           + + LW
Sbjct: 72 QQARRLW 78

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

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

 Score = 41.2 bits (97), Expect = 2e-05
 Identities = 22/77 (28%), Positives = 38/77 (49%), Gaps = 8/77 (10%)

Query: 20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ 79
          +L +GLDNAGKTT + +         +G  P K+  TVG    ++ ++   +  +DLGG 
Sbjct: 2  LLTVGLDNAGKTTLVSA--------LQGEIPKKVAPTVGFTPTKLRLDKYEVCIFDLGGG 53

Query: 80 LELQSLWDKDIRDCMGV 96
             + +W     +  G+
Sbjct: 54 ANFRGIWVNYYAEAHGL 70

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|219856 pfam08477, Miro, Miro-like protein

 Score = 38.2 bits (89), Expect = 1e-04
 Identities = 17/77 (22%), Positives = 33/77 (42%), Gaps = 9/77 (11%)

Query: 20 VLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGG 78
          V+++G   +GK++ L      +F      +       T+ ++  ++D +T  LN WD GG
Sbjct: 2  VVVIGDKGSGKSSLLSQLVGGEFPPEPLEIQG----DTLAVDTLEVDGDTGLLNIWDFGG 57

Query: 79 QLELQSLWDKDIRDCMG 95
          + E       +    M 
Sbjct: 58 REE----LKFEHIIFMK 70

Mitochondrial Rho proteins (Miro-1, and Miro-2), are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (pfam00036), 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. Length = 116

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

 Score = 37.4 bits (87), Expect = 5e-04
 Identities = 14/69 (20%), Positives = 25/69 (36%), Gaps = 6/69 (8%)

Query: 21 LILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIG--QIDINTVRLNFWDLGG 78
          +++G    GK++ L +          G       TT   ++   ++D   V+L   D  G
Sbjct: 1  VVVGRGGVGKSSLLNA----LLGGEVGEVSDVPGTTRDPDVYVKELDKGKVKLVLVDTPG 56

Query: 79 QLELQSLWD 87
            E   L  
Sbjct: 57 LDEFGGLGR 65

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|206741 cd09914, RocCOR, Ras of complex proteins (Roc) C-terminal of Roc (COR) domain family

 Score = 35.4 bits (82), Expect = 0.002
 Identities = 20/66 (30%), Positives = 29/66 (43%), Gaps = 14/66 (21%)

Query: 20 VLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDI-----NTVRLNF 73
          ++++G    GKT+  +     KF     G   S    T G+N+    I       +RLN 
Sbjct: 4  LMLVGQGGVGKTSLCKQLIGEKF----DGDESS----THGINVQDWKIPAPERKKIRLNV 55

Query: 74 WDLGGQ 79
          WD GGQ
Sbjct: 56 WDFGGQ 61

RocCOR (or Roco) protein family is characterized by a superdomain containing a Ras-like GTPase domain, called Roc (Ras of complex proteins), and a characteristic second domain called COR (C-terminal of Roc). A kinase domain and diverse regulatory domains are also often found in Roco proteins. Their functions are diverse; in Dictyostelium discoideum, which encodes 11 Roco proteins, they are involved in cell division, chemotaxis and development, while in human, where 4 Roco proteins (LRRK1, LRRK2, DAPK1, and MFHAS1) are encoded, these proteins are involved in epilepsy and cancer. Mutations in LRRK2 (leucine-rich repeat kinase 2) are known to cause familial Parkinson's disease. Length = 161

>gnl|CDD|178620 PLN03071, PLN03071, GTP-binding nuclear protein Ran; Provisional

 Score = 35.5 bits (82), Expect = 0.003
 Identities = 22/75 (29%), Positives = 36/75 (48%), Gaps = 13/75 (17%)

Query: 18 FCVLILGLDNAGKTTYLESAKT-KFTKNYKGMNPSKITTTVGLNIGQIDINT----VRLN 72
          F ++I+G    GKTT+++   T +F K Y+         T+G+ +  +D  T    +R  
Sbjct: 14 FKLVIVGDGGTGKTTFVKRHLTGEFEKKYE--------PTIGVEVHPLDFFTNCGKIRFY 65

Query: 73 FWDLGGQLELQSLWD 87
           WD  GQ +   L D
Sbjct: 66 CWDTAGQEKFGGLRD 80

Length = 219

>gnl|CDD|206643 cd00877, Ran, Ras-related nuclear proteins (Ran)/TC4 family of small GTPases

 Score = 34.6 bits (80), Expect = 0.004
 Identities = 20/67 (29%), Positives = 33/67 (49%), Gaps = 13/67 (19%)

Query: 18 FCVLILGLDNAGKTTYLESAKTK-FTKNYKGMNPSKITTTVGLNIGQIDINT----VRLN 72
          F ++++G    GKTT+++   T  F K Y          T+G+ +  +D +T    +R N
Sbjct: 1  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYV--------ATLGVEVHPLDFHTNRGKIRFN 52

Query: 73 FWDLGGQ 79
           WD  GQ
Sbjct: 53 VWDTAGQ 59

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 bound to chromatin and confined to the nucleus. Ran itself is mobile and is actively imported into the nucleus by a mechanism involving NTF-2. Together with the compartmentalization of its regulators, this is thought to produce a relatively high concentration of RanGTP in the nucleus. Length = 166

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

 Score = 34.8 bits (80), Expect = 0.004
 Identities = 31/101 (30%), Positives = 43/101 (42%), Gaps = 26/101 (25%)

Query: 9  YKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDI-- 66
          Y Y+++     +L LG    GKTT+L     ++T N    NP K  TTVG++  +  +  
Sbjct: 1  YDYLIK-----LLALGDSGVGKTTFLY----RYTDNK--FNP-KFITTVGIDFREKRVVY 48

Query: 67 ------------NTVRLNFWDLGGQLELQSLWDKDIRDCMG 95
                        V L  WD  GQ   +SL     RD MG
Sbjct: 49 NSQGPDGTSGKAFRVHLQLWDTAGQERFRSLTTAFFRDAMG 89

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	125
KOG0071|consensus	180		99.93
KOG0094|consensus	221		99.93
KOG0070|consensus	181		99.93
KOG0084|consensus	205		99.91
KOG0076|consensus	197		99.9
KOG0092|consensus	200		99.88
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.88
KOG0087|consensus	222		99.88
KOG0080|consensus	209		99.87
KOG0086|consensus	214		99.87
KOG0078|consensus	207		99.87
KOG0079|consensus	198		99.86
PLN00223	181	ADP-ribosylation factor; Provisional	99.86
KOG0098|consensus	216		99.86
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	99.85
PTZ00133	182	ADP-ribosylation factor; Provisional	99.85
KOG0073|consensus	185		99.85
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	99.84
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	99.84
KOG0095|consensus	213		99.84
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	99.84
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	99.83
KOG0394|consensus	210		99.83
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	99.83
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	99.82
KOG0091|consensus	213		99.82
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.82
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.82
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	99.81
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.81
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.81
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.81
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.81
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.8
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.8
PTZ00369	189	Ras-like protein; Provisional	99.8
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.79
KOG0393|consensus	198		99.79
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.79
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.79
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.79
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.79
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.78
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.78
PLN00023	334	GTP-binding protein; Provisional	99.78
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.78
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.78
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.78
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.78
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.78
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.78
KOG0093|consensus	193		99.78
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.77
KOG0075|consensus	186		99.77
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.77
KOG0081|consensus	219		99.77
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.77
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.77
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.77
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.77
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.77
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.77
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.76
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.76
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.76
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.76
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.76
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.75
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.75
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.75
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.75
KOG0088|consensus	218		99.75
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.75
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.75
PLN03110	216	Rab GTPase; Provisional	99.75
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.75
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.75
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.74
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.74
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.74
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.74
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.74
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.74
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.74
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.74
KOG0074|consensus	185		99.73
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.73
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.73
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.73
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.73
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.73
KOG0097|consensus	215		99.72
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.72
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.72
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.72
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.72
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.71
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.71
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.71
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.71
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.71
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.71
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.71
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.7
PLN03108	210	Rab family protein; Provisional	99.7
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.69
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.69
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.68
KOG0083|consensus	192		99.68
KOG0072|consensus	182		99.68
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.67
PLN03118	211	Rab family protein; Provisional	99.67
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.67
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.67
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.67
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.67
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.66
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.65
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.65
KOG0395|consensus	196		99.65
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.65
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.65
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.64
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.63
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.63
COG1100	219	GTPase SAR1 and related small G proteins [General	99.63
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.63
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.62
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.61
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.61
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.61
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.6
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.57
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.57
KOG4252|consensus	246		99.55
KOG0096|consensus	216		99.51
KOG1673|consensus	205		99.49
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.48
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.43
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.38
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.37
PRK15494	339	era GTPase Era; Provisional	99.37
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.36
KOG0077|consensus	193		99.34
COG2229	187	Predicted GTPase [General function prediction only	99.32
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.32
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.29
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.29
PRK04213	201	GTP-binding protein; Provisional	99.27
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.26
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.23
KOG4423|consensus	229		99.23
cd00881	189	GTP_translation_factor GTP translation factor fami	99.22
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.21
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.19
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.18
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.17
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.17
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.16
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.15
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.14
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.13
PRK03003	472	GTP-binding protein Der; Reviewed	99.13
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.11
KOG3883|consensus	198		99.08
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.08
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.08
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.06
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.05
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.05
PRK05306	787	infB translation initiation factor IF-2; Validated	99.04
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.04
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.04
PRK00093	435	GTP-binding protein Der; Reviewed	99.03
PRK03003	472	GTP-binding protein Der; Reviewed	99.02
PRK12299	335	obgE GTPase CgtA; Reviewed	99.02
PTZ00099	176	rab6; Provisional	99.01
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	98.99
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	98.99
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	98.99
KOG1707|consensus	625		98.98
PRK11058	426	GTPase HflX; Provisional	98.98
PRK12317	425	elongation factor 1-alpha; Reviewed	98.98
PRK10218	607	GTP-binding protein; Provisional	98.98
CHL00189	742	infB translation initiation factor 2; Provisional	98.98
cd01896	233	DRG The developmentally regulated GTP-binding prot	98.98
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	98.95
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	98.95
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	98.94
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	98.94
PRK00093	435	GTP-binding protein Der; Reviewed	98.93
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	98.93
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	98.92
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	98.9
PRK00089	292	era GTPase Era; Reviewed	98.88
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	98.87
COG1160	444	Predicted GTPases [General function prediction onl	98.87
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	98.85
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	98.84
PRK12297	424	obgE GTPase CgtA; Reviewed	98.84
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	98.83
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	98.82
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	98.82
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	98.81
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	98.81
PF09439	181	SRPRB: Signal recognition particle receptor beta s	98.8
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	98.79
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	98.79
PRK04000	411	translation initiation factor IF-2 subunit gamma;	98.78
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	98.77
PRK12296	500	obgE GTPase CgtA; Reviewed	98.76
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	98.75
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.75
TIGR00485	394	EF-Tu translation elongation factor TU. This align	98.74
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	98.74
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	98.72
KOG0090|consensus	238		98.7
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	98.69
PLN03126	478	Elongation factor Tu; Provisional	98.69
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.69
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	98.69
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	98.67
COG1159	298	Era GTPase [General function prediction only]	98.67
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	98.66
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	98.66
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	98.66
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	98.66
PRK12736	394	elongation factor Tu; Reviewed	98.66
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	98.65
COG0486	454	ThdF Predicted GTPase [General function prediction	98.65
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	98.65
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	98.64
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	98.64
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	98.63
PRK12735	396	elongation factor Tu; Reviewed	98.62
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	98.62
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	98.61
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	98.61
PRK13351	687	elongation factor G; Reviewed	98.6
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	98.6
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	98.59
COG1084	346	Predicted GTPase [General function prediction only	98.58
PRK04004	586	translation initiation factor IF-2; Validated	98.58
CHL00071	409	tufA elongation factor Tu	98.55
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.54
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	98.53
COG1160	444	Predicted GTPases [General function prediction onl	98.53
PRK00049	396	elongation factor Tu; Reviewed	98.52
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.52
PRK12298	390	obgE GTPase CgtA; Reviewed	98.51
PRK05433	600	GTP-binding protein LepA; Provisional	98.48
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	98.48
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.45
PTZ00141	446	elongation factor 1- alpha; Provisional	98.44
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	98.44
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.44
KOG1191|consensus	531		98.42
COG3596	296	Predicted GTPase [General function prediction only	98.42
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	98.4
PRK09602	396	translation-associated GTPase; Reviewed	98.38
KOG1423|consensus	379		98.36
PLN00043	447	elongation factor 1-alpha; Provisional	98.35
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	98.33
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	98.32
COG1161	322	Predicted GTPases [General function prediction onl	98.31
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.3
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	98.29
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	98.29
PLN03127	447	Elongation factor Tu; Provisional	98.29
PRK00741	526	prfC peptide chain release factor 3; Provisional	98.29
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	98.27
KOG0082|consensus	354		98.25
COG5019	373	CDC3 Septin family protein [Cell division and chro	98.23
COG0218	200	Predicted GTPase [General function prediction only	98.2
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.17
TIGR00503	527	prfC peptide chain release factor 3. This translat	98.16
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	98.13
PRK09601	364	GTP-binding protein YchF; Reviewed	98.13
PRK12289	352	GTPase RsgA; Reviewed	98.11
KOG2655|consensus	366		98.09
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	98.08
PTZ00258	390	GTP-binding protein; Provisional	98.08
KOG3905|consensus	473		98.08
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	98.08
PRK12288	347	GTPase RsgA; Reviewed	98.06
COG1163	365	DRG Predicted GTPase [General function prediction	98.0
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	98.0
KOG3886|consensus	295		97.99
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	97.92
KOG1547|consensus	336		97.88
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	97.88
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	97.87
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	97.86
PRK12739	691	elongation factor G; Reviewed	97.84
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	97.82
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	97.82
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	97.8
PRK13796	365	GTPase YqeH; Provisional	97.79
PRK12740	668	elongation factor G; Reviewed	97.74
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	97.73
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.7
KOG1145|consensus	683		97.67
PRK00098	298	GTPase RsgA; Reviewed	97.67
PRK00007	693	elongation factor G; Reviewed	97.63
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	97.62
PRK08118	167	topology modulation protein; Reviewed	97.59
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	97.59
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	97.58
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	97.57
KOG1707|consensus	625		97.52
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.51
PRK07261	171	topology modulation protein; Provisional	97.48
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	97.48
COG1162	301	Predicted GTPases [General function prediction onl	97.46
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	97.46
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.45
PRK06547	172	hypothetical protein; Provisional	97.43
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	97.36
cd03116	159	MobB Molybdenum is an essential trace element in t	97.35
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	97.34
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	97.34
PF00005	137	ABC_tran: ABC transporter This structure is on hol	97.28
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	97.27
PRK06217	183	hypothetical protein; Validated	97.26
KOG1486|consensus	364		97.25
COG0012	372	Predicted GTPase, probable translation factor [Tra	97.24
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	97.23
KOG3859|consensus	406		97.22
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	97.2
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.2
KOG1489|consensus	366		97.2
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.19
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	97.19
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	97.18
COG4525	259	TauB ABC-type taurine transport system, ATPase com	97.18
smart00382	148	AAA ATPases associated with a variety of cellular	97.17
COG1125	309	OpuBA ABC-type proline/glycine betaine transport s	97.17
TIGR00235	207	udk uridine kinase. Model contains a number of lon	97.16
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	97.15
PF00004	132	AAA: ATPase family associated with various cellula	97.15
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	97.12
COG2262	411	HflX GTPases [General function prediction only]	97.12
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	97.11
PRK05480	209	uridine/cytidine kinase; Provisional	97.11
PRK00300	205	gmk guanylate kinase; Provisional	97.09
PLN00116	843	translation elongation factor EF-2 subunit; Provis	97.07
COG3638	258	ABC-type phosphate/phosphonate transport system, A	97.07
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	97.07
PRK14530	215	adenylate kinase; Provisional	97.07
PRK03839	180	putative kinase; Provisional	97.07
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	97.06
PRK14737	186	gmk guanylate kinase; Provisional	97.06
PF13555	62	AAA_29: P-loop containing region of AAA domain	97.05
PRK14532	188	adenylate kinase; Provisional	97.05
TIGR00101	199	ureG urease accessory protein UreG. This model rep	97.04
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	97.04
PRK08233	182	hypothetical protein; Provisional	97.03
PHA00729	226	NTP-binding motif containing protein	97.02
KOG1532|consensus	366		97.02
PRK14531	183	adenylate kinase; Provisional	97.02
COG4107	258	PhnK ABC-type phosphonate transport system, ATPase	97.01
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	97.0
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.99
PRK14738	206	gmk guanylate kinase; Provisional	96.99
PRK02496	184	adk adenylate kinase; Provisional	96.98
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	96.98
COG4987	573	CydC ABC-type transport system involved in cytochr	96.98
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.98
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	96.96
PTZ00088	229	adenylate kinase 1; Provisional	96.96
KOG2484|consensus	435		96.94
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	96.94
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	96.93
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	96.93
KOG1491|consensus	391		96.92
PTZ00416	836	elongation factor 2; Provisional	96.92
PF01580	205	FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR00	96.91
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	96.91
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	96.91
KOG0099|consensus	379		96.91
PF05729	166	NACHT: NACHT domain	96.91
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	96.9
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.89
PRK13949	169	shikimate kinase; Provisional	96.89
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.89
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	96.88
PF13479	213	AAA_24: AAA domain	96.88
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	96.87
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	96.87
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	96.86
PLN02200	234	adenylate kinase family protein	96.86
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	96.85
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	96.85
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	96.84
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	96.83
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	96.83
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	96.83
PLN02674	244	adenylate kinase	96.83
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	96.83
PRK07560	731	elongation factor EF-2; Reviewed	96.82
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	96.82
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	96.82
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	96.82
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	96.82
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	96.81
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	96.81
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	96.81
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	96.81
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	96.81
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.8
TIGR03797	686	NHPM_micro_ABC2 NHPM bacteriocin system ABC transp	96.79
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	96.79
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	96.79
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	96.79
cd03269	210	ABC_putative_ATPase This subfamily is involved in	96.79
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	96.78
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	96.78
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	96.77
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	96.77
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	96.77
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	96.77
PRK13695	174	putative NTPase; Provisional	96.75
COG4559	259	ABC-type hemin transport system, ATPase component	96.75
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	96.75
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	96.74
KOG3887|consensus	347		96.74
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	96.74
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	96.74
PRK10908	222	cell division protein FtsE; Provisional	96.74
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	96.74
cd03216	163	ABC_Carb_Monos_I This family represents the domain	96.74
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	96.74
PRK05057	172	aroK shikimate kinase I; Reviewed	96.73
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	96.73
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	96.73
PRK14528	186	adenylate kinase; Provisional	96.73
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	96.73
PRK00279	215	adk adenylate kinase; Reviewed	96.72
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	96.72
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	96.72
PRK14529	223	adenylate kinase; Provisional	96.72
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	96.72
cd03215	182	ABC_Carb_Monos_II This family represents domain II	96.72
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	96.71
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	96.71
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	96.71
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	96.71
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	96.7
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	96.7
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	96.7
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	96.7
COG4619	223	ABC-type uncharacterized transport system, ATPase	96.7
PRK06762	166	hypothetical protein; Provisional	96.7
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	96.7
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	96.69
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	96.69
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.69
PRK10790	592	putative multidrug transporter membrane\ATP-bindin	96.69
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	96.68
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	96.68
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	96.67
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	96.67
PRK08099	399	bifunctional DNA-binding transcriptional repressor	96.67
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	96.67
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	96.67
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	96.66
KOG2485|consensus	335		96.66
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	96.66
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	96.66
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	96.66
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	96.65
TIGR02323	253	CP_lyasePhnK phosphonate C-P lyase system protein	96.65
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	96.65
PLN02459	261	probable adenylate kinase	96.65
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	96.65
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	96.64
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	96.64
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.64
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	96.64
cd03253	236	ABCC_ATM1_transporter ATM1 is an ABC transporter t	96.64
cd03246	173	ABCC_Protease_Secretion This family represents the	96.64
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	96.64
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	96.64
KOG3347|consensus	176		96.63
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	96.63
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	96.62
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	96.62
KOG1490|consensus	620		96.62
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	96.61
TIGR03796	710	NHPM_micro_ABC1 NHPM bacteriocin system ABC transp	96.61
PRK13638	271	cbiO cobalt transporter ATP-binding subunit; Provi	96.61
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	96.61
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.61
cd03298	211	ABC_ThiQ_thiamine_transporter ABC-type thiamine tr	96.6
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	96.6
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	96.6
PRK10418	254	nikD nickel transporter ATP-binding protein NikD;	96.6
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	96.59
PRK14242	253	phosphate transporter ATP-binding protein; Provisi	96.59
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	96.59

>KOG0071|consensus

Probab=99.93  E-value=9.2e-26  Score=142.82  Aligned_cols=114  Identities=33%  Similarity=0.555  Sum_probs=105.1

Q ss_pred             ChhhHHHHHhhhccCceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcc
Q psy9521           1 MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQL   80 (125)
Q Consensus         1 m~~~~~~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~   80 (125)
                      |++.++.++.++|.+++++|+++|..++||||++..++-+.+....        ||+|++++++..+++.|++||++||+
T Consensus         1 Mgn~~sk~~~k~f~~KE~~ilmlGLd~aGKTtiLyKLkl~~~~~~i--------pTvGFnvetVtykN~kfNvwdvGGqd   72 (180)
T KOG0071|consen    1 MGNYMSKLLSKIFGNKEMRILMLGLDAAGKTTILYKLKLGQSVTTI--------PTVGFNVETVTYKNVKFNVWDVGGQD   72 (180)
T ss_pred             CcchHHHHHHHHhCcccceEEEEecccCCceehhhHHhcCCCcccc--------cccceeEEEEEeeeeEEeeeeccCch
Confidence            8889999999999999999999999999999999997654444444        99999999999999999999999999


Q ss_pred             cccccccc------------------------------------------------cccCccCHHHHHHHHhhhcccccC
Q psy9521          81 ELQSLWDK------------------------------------------------DIRDCMGVREVKPIFNKNSAHLIG  112 (125)
Q Consensus        81 ~~~~~~~~------------------------------------------------Di~~~~s~~~i~~~l~~~~~~~~~  112 (125)
                      +.|.+|..                                                |++++.+..+|++++++-   .+.
T Consensus        73 ~iRplWrhYy~gtqglIFV~Dsa~~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~A~~pqei~d~leLe---~~r  149 (180)
T KOG0071|consen   73 KIRPLWRHYYTGTQGLIFVVDSADRDRIEEARNELHRIINDREMRDAIILILANKQDLPDAMKPQEIQDKLELE---RIR  149 (180)
T ss_pred             hhhHHHHhhccCCceEEEEEeccchhhHHHHHHHHHHHhCCHhhhcceEEEEecCcccccccCHHHHHHHhccc---ccc
Confidence            99999998                                                999999999999999986   689


Q ss_pred             CCCeEEEEeeccC
Q psy9521         113 RRDCMVMPVSALT  125 (125)
Q Consensus       113 ~~~~~i~~~sA~~  125 (125)
                      +++|.+++|||.+
T Consensus       150 ~~~W~vqp~~a~~  162 (180)
T KOG0071|consen  150 DRNWYVQPSCALS  162 (180)
T ss_pred             CCccEeecccccc
Confidence            9999999999974

>KOG0094|consensus

Probab=99.93  E-value=1.5e-25  Score=148.68  Aligned_cols=103  Identities=25%  Similarity=0.442  Sum_probs=87.9

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK   88 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~   88 (125)
                      .-+.+|++++|+.+||||||+.| +.+.|...|.        +|+|+++.  ++.+.+  +++++|||+|||+|+++.+.
T Consensus        19 ~~k~~KlVflGdqsVGKTslItRf~yd~fd~~Yq--------ATIGiDFlskt~~l~d~~vrLQlWDTAGQERFrslips   90 (221)
T KOG0094|consen   19 PLKKYKLVFLGDQSVGKTSLITRFMYDKFDNTYQ--------ATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPS   90 (221)
T ss_pred             cceEEEEEEEccCccchHHHHHHHHHhhhccccc--------ceeeeEEEEEEEEEcCcEEEEEEEecccHHHHhhhhhh
Confidence            34679999999999999999999 8999999998        99999986  455544  89999999999999999888


Q ss_pred             ------------cccCccCHHHHHHHHhhhcccccCCCCeEEEEeeccC
Q psy9521          89 ------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT  125 (125)
Q Consensus        89 ------------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~sA~~  125 (125)
                                  |+++..||++..+|++.. .++-....+.|+.+..++
T Consensus        91 Y~Rds~vaviVyDit~~~Sfe~t~kWi~dv-~~e~gs~~viI~LVGnKt  138 (221)
T KOG0094|consen   91 YIRDSSVAVIVYDITDRNSFENTSKWIEDV-RRERGSDDVIIFLVGNKT  138 (221)
T ss_pred             hccCCeEEEEEEeccccchHHHHHHHHHHH-HhccCCCceEEEEEcccc
Confidence                        999999999999999998 444444457777776553

>KOG0070|consensus

Probab=99.93  E-value=5.8e-26  Score=149.43  Aligned_cols=113  Identities=27%  Similarity=0.544  Sum_probs=102.8

Q ss_pred             ChhhHHHHHhhhccCceEEEEEEeCCCCcHHHHHHHHh-hccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCc
Q psy9521           1 MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAK-TKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ   79 (125)
Q Consensus         1 m~~~~~~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~-~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~   79 (125)
                      |+..++.++..++.+++.+|+++|.+++||||++++++ ++.... .        ||+|++++++..++++|++||.+||
T Consensus         1 MG~~~s~~~~~~~~~~e~~IlmlGLD~AGKTTILykLk~~E~vtt-v--------PTiGfnVE~v~ykn~~f~vWDvGGq   71 (181)
T KOG0070|consen    1 MGLIFSKLFSGLFGKKEMRILMVGLDAAGKTTILYKLKLGEIVTT-V--------PTIGFNVETVEYKNISFTVWDVGGQ   71 (181)
T ss_pred             CcchhhhhhhhccCcceEEEEEEeccCCCceeeeEeeccCCcccC-C--------CccccceeEEEEcceEEEEEecCCC
Confidence            88899999999999999999999999999999999965 333322 3        9999999999999999999999999


Q ss_pred             ccccccccc------------------------------------------------cccCccCHHHHHHHHhhhccccc
Q psy9521          80 LELQSLWDK------------------------------------------------DIRDCMGVREVKPIFNKNSAHLI  111 (125)
Q Consensus        80 ~~~~~~~~~------------------------------------------------Di~~~~s~~~i~~~l~~~~~~~~  111 (125)
                      +++|.+|..                                                |++++.+..++.+.+.+.   ++
T Consensus        72 ~k~R~lW~~Y~~~t~~lIfVvDS~Dr~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~als~~ei~~~L~l~---~l  148 (181)
T KOG0070|consen   72 EKLRPLWKHYFQNTQGLIFVVDSSDRERIEEAKEELHRMLAEPELRNAPLLVFANKQDLPGALSAAEITNKLGLH---SL  148 (181)
T ss_pred             cccccchhhhccCCcEEEEEEeCCcHHHHHHHHHHHHHHHcCcccCCceEEEEechhhccccCCHHHHHhHhhhh---cc
Confidence            999999998                                                999999999999999987   88


Q ss_pred             CCCCeEEEEeeccC
Q psy9521         112 GRRDCMVMPVSALT  125 (125)
Q Consensus       112 ~~~~~~i~~~sA~~  125 (125)
                      .+++|++++|||.+
T Consensus       149 ~~~~w~iq~~~a~~  162 (181)
T KOG0070|consen  149 RSRNWHIQSTCAIS  162 (181)
T ss_pred             CCCCcEEeeccccc
Confidence            88999999999975

>KOG0084|consensus

Probab=99.91  E-value=8.3e-25  Score=145.20  Aligned_cols=81  Identities=25%  Similarity=0.530  Sum_probs=73.1

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +||+++|++|||||+|+.| -.+.|++.|.        .|+|+++.  ++..++  +++++|||+|||||+++...    
T Consensus        10 FKiiliGds~VGKtCL~~Rf~~~~f~e~~~--------sTIGVDf~~rt~e~~gk~iKlQIWDTAGQERFrtit~syYR~   81 (205)
T KOG0084|consen   10 FKIILIGDSGVGKTCLLLRFKDDTFTESYI--------STIGVDFKIRTVELDGKTIKLQIWDTAGQERFRTITSSYYRG   81 (205)
T ss_pred             EEEEEECCCCcChhhhhhhhccCCcchhhc--------ceeeeEEEEEEeeecceEEEEEeeeccccHHHhhhhHhhccC
Confidence            4599999999999999999 5688888887        99999986  555554  89999999999999998777    


Q ss_pred             --------cccCccCHHHHHHHHhhh
Q psy9521          89 --------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~  106 (125)
                              |+++..||+++..|+.++
T Consensus        82 ahGii~vyDiT~~~SF~~v~~Wi~Ei  107 (205)
T KOG0084|consen   82 AHGIIFVYDITKQESFNNVKRWIQEI  107 (205)
T ss_pred             CCeEEEEEEcccHHHhhhHHHHHHHh
Confidence                    999999999999999998

>KOG0076|consensus

Probab=99.90  E-value=2.3e-24  Score=140.64  Aligned_cols=123  Identities=59%  Similarity=1.009  Sum_probs=114.5

Q ss_pred             ChhhHHHHHhhhccCceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcc
Q psy9521           1 MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQL   80 (125)
Q Consensus         1 m~~~~~~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~   80 (125)
                      ||++++++|++.|+|.++.++++|+.++|||||+.+.+..|...+.+.++..+.||+|.+..++.+.+..+.+||.+||+
T Consensus         1 m~tl~~gl~~~~~~Ke~y~vlIlgldnAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvgLnig~i~v~~~~l~fwdlgGQe   80 (197)
T KOG0076|consen    1 MFTLMSGLYKYMFKKEDYSVLILGLDNAGKTTFLEALKTDFSKAYGGLNPSKITPTVGLNIGTIEVCNAPLSFWDLGGQE   80 (197)
T ss_pred             ChhHHHHHHHHHhhhhhhhheeeccccCCchhHHHHHHHHHHhhhcCCCHHHeecccceeecceeeccceeEEEEcCChH
Confidence            99999999999999999999999999999999999999999988888889999999999999999999999999999999


Q ss_pred             cccccccc------------------------------------------------cccCccCHHHHHHHHhhhcccccC
Q psy9521          81 ELQSLWDK------------------------------------------------DIRDCMGVREVKPIFNKNSAHLIG  112 (125)
Q Consensus        81 ~~~~~~~~------------------------------------------------Di~~~~s~~~i~~~l~~~~~~~~~  112 (125)
                      ..+++|..                                                |..++.+-.+++..+.+.  ..++
T Consensus        81 ~lrSlw~~yY~~~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~~~~~~El~~~~~~~--e~~~  158 (197)
T KOG0076|consen   81 SLRSLWKKYYWLAHGIIYVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQNAMEAAELDGVFGLA--ELIP  158 (197)
T ss_pred             HHHHHHHHHHHHhceeEEeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhhhhhHHHHHHHhhhh--hhcC
Confidence            99999988                                                888999999998888864  4678


Q ss_pred             CCCeEEEEeeccC
Q psy9521         113 RRDCMVMPVSALT  125 (125)
Q Consensus       113 ~~~~~i~~~sA~~  125 (125)
                      .+++++++|||++
T Consensus       159 ~rd~~~~pvSal~  171 (197)
T KOG0076|consen  159 RRDNPFQPVSALT  171 (197)
T ss_pred             CccCccccchhhh
Confidence            8999999999974

>KOG0092|consensus

Probab=99.88  E-value=1.8e-22  Score=133.68  Aligned_cols=84  Identities=26%  Similarity=0.453  Sum_probs=75.5

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      ..++|++++|+.+||||||+.| ..+.|.+...        ||+|.-+.  ++..++  ++|.||||+|||+|+++-+. 
T Consensus         3 ~~~~KvvLLG~~~VGKSSlV~Rfvk~~F~e~~e--------~TIGaaF~tktv~~~~~~ikfeIWDTAGQERy~slapMY   74 (200)
T KOG0092|consen    3 TREFKVVLLGDSGVGKSSLVLRFVKDQFHENIE--------PTIGAAFLTKTVTVDDNTIKFEIWDTAGQERYHSLAPMY   74 (200)
T ss_pred             cceEEEEEECCCCCCchhhhhhhhhCccccccc--------cccccEEEEEEEEeCCcEEEEEEEEcCCcccccccccce
Confidence            4689999999999999999999 8899988665        99998875  455555  89999999999999999888 


Q ss_pred             -----------cccCccCHHHHHHHHhhh
Q psy9521          89 -----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~  106 (125)
                                 |+++..||+.++.|+.++
T Consensus        75 yRgA~AAivvYDit~~~SF~~aK~WvkeL  103 (200)
T KOG0092|consen   75 YRGANAAIVVYDITDEESFEKAKNWVKEL  103 (200)
T ss_pred             ecCCcEEEEEEecccHHHHHHHHHHHHHH
Confidence                       999999999999999998

>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=99.88  E-value=1.7e-21  Score=129.99  Aligned_cols=110  Identities=35%  Similarity=0.549  Sum_probs=93.5

Q ss_pred             HHHHHhhhcc-CceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccccc
Q psy9521           5 VSGFYKYMLR-KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQ   83 (125)
Q Consensus         5 ~~~~~~~~~~-~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~   83 (125)
                      |++++++++. ++++||+++|++|+||||+++++......+..        ||.|++...+..+++++.+||++|++.++
T Consensus         1 ~~~~~~~~~~~~~~~~ililGl~~sGKTtll~~l~~~~~~~~~--------pT~g~~~~~i~~~~~~~~~~d~gG~~~~~   72 (175)
T PF00025_consen    1 FSSVLSKLKSKKKEIKILILGLDGSGKTTLLNRLKNGEISETI--------PTIGFNIEEIKYKGYSLTIWDLGGQESFR   72 (175)
T ss_dssp             HHHHHHHCTTTTSEEEEEEEESTTSSHHHHHHHHHSSSEEEEE--------EESSEEEEEEEETTEEEEEEEESSSGGGG
T ss_pred             CHHHHHHhcccCcEEEEEEECCCccchHHHHHHhhhccccccC--------cccccccceeeeCcEEEEEEecccccccc
Confidence            5678888876 89999999999999999999997643333344        99999999999999999999999999999


Q ss_pred             ccccc------------------------------------------------cccCccCHHHHHHHHhhhcccccC-CC
Q psy9521          84 SLWDK------------------------------------------------DIRDCMGVREVKPIFNKNSAHLIG-RR  114 (125)
Q Consensus        84 ~~~~~------------------------------------------------Di~~~~s~~~i~~~l~~~~~~~~~-~~  114 (125)
                      .+|+.                                                |.+++.+.+++...+...   .+. ++
T Consensus        73 ~~w~~y~~~~~~iIfVvDssd~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~~~~~~i~~~l~l~---~l~~~~  149 (175)
T PF00025_consen   73 PLWKSYFQNADGIIFVVDSSDPERLQEAKEELKELLNDPELKDIPILILANKQDLPDAMSEEEIKEYLGLE---KLKNKR  149 (175)
T ss_dssp             GGGGGGHTTESEEEEEEETTGGGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTSSTHHHHHHHTTGG---GTTSSS
T ss_pred             ccceeeccccceeEEEEecccceeecccccchhhhcchhhcccceEEEEeccccccCcchhhHHHhhhhhh---hcccCC
Confidence            99988                                                888888888888777765   554 79


Q ss_pred             CeEEEEeeccC
Q psy9521         115 DCMVMPVSALT  125 (125)
Q Consensus       115 ~~~i~~~sA~~  125 (125)
                      +|.++.|||++
T Consensus       150 ~~~v~~~sa~~  160 (175)
T PF00025_consen  150 PWSVFSCSAKT  160 (175)
T ss_dssp             CEEEEEEBTTT
T ss_pred             ceEEEeeeccC
Confidence            99999999975

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 ....

>KOG0087|consensus

Probab=99.88  E-value=1.3e-22  Score=135.98  Aligned_cols=101  Identities=20%  Similarity=0.460  Sum_probs=87.0

Q ss_pred             HhhhccCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCccccc
Q psy9521           9 YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQ   83 (125)
Q Consensus         9 ~~~~~~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~   83 (125)
                      |+++|+     ++++|+++||||-|+.| ..++|..+..        +|+|+++.  .+.+++  ++.+||||+|||||+
T Consensus        11 ~dylFK-----iVliGDS~VGKsnLlsRftrnEF~~~Sk--------sTIGvef~t~t~~vd~k~vkaqIWDTAGQERyr   77 (222)
T KOG0087|consen   11 YDYLFK-----IVLIGDSAVGKSNLLSRFTRNEFSLESK--------STIGVEFATRTVNVDGKTVKAQIWDTAGQERYR   77 (222)
T ss_pred             cceEEE-----EEEeCCCccchhHHHHHhcccccCcccc--------cceeEEEEeeceeecCcEEEEeeecccchhhhc
Confidence            556655     99999999999999999 7899998887        99999986  445554  899999999999999


Q ss_pred             ccccc------------cccCccCHHHHHHHHhhhcccccCCCCeEEEEeecc
Q psy9521          84 SLWDK------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSAL  124 (125)
Q Consensus        84 ~~~~~------------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~sA~  124 (125)
                      .+...            |++.+.+|+++.+||.++  +...+.++.|+++-.|
T Consensus        78 AitSaYYrgAvGAllVYDITr~~Tfenv~rWL~EL--Rdhad~nivimLvGNK  128 (222)
T KOG0087|consen   78 AITSAYYRGAVGALLVYDITRRQTFENVERWLKEL--RDHADSNIVIMLVGNK  128 (222)
T ss_pred             cccchhhcccceeEEEEechhHHHHHHHHHHHHHH--HhcCCCCeEEEEeecc
Confidence            88777            999999999999999998  5666778888877544

>KOG0080|consensus

Probab=99.87  E-value=2.1e-22  Score=130.30  Aligned_cols=82  Identities=21%  Similarity=0.415  Sum_probs=74.1

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc---
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      .+||+++|++|||||||+.+ +.+.|.++.+        .|+|+++.  .+.+++  +++.+|||+|||+||.+.+.   
T Consensus        11 t~KiLlIGeSGVGKSSLllrFv~~~fd~~~~--------~tIGvDFkvk~m~vdg~~~KlaiWDTAGqErFRtLTpSyyR   82 (209)
T KOG0080|consen   11 TFKILLIGESGVGKSSLLLRFVSNTFDDLHP--------TTIGVDFKVKVMQVDGKRLKLAIWDTAGQERFRTLTPSYYR   82 (209)
T ss_pred             eEEEEEEccCCccHHHHHHHHHhcccCccCC--------ceeeeeEEEEEEEEcCceEEEEEEeccchHhhhccCHhHhc
Confidence            47899999999999999999 8889988876        78999986  455554  89999999999999999988   


Q ss_pred             ---------cccCccCHHHHHHHHhhh
Q psy9521          89 ---------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~  106 (125)
                               |++.+.+|.++..|+.++
T Consensus        83 gaqGiIlVYDVT~Rdtf~kLd~W~~El  109 (209)
T KOG0080|consen   83 GAQGIILVYDVTSRDTFVKLDIWLKEL  109 (209)
T ss_pred             cCceeEEEEEccchhhHHhHHHHHHHH
Confidence                     999999999999999998

>KOG0086|consensus

Probab=99.87  E-value=2.9e-22  Score=128.83  Aligned_cols=105  Identities=23%  Similarity=0.482  Sum_probs=89.4

Q ss_pred             HHHHHhhhccCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeC--CEEEEEEECCCc
Q psy9521           5 VSGFYKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDIN--TVRLNFWDLGGQ   79 (125)
Q Consensus         5 ~~~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~--~~~~~i~D~~G~   79 (125)
                      ++.-|+++|+     ++++|+.|.|||+|+++ +.++|..+..        .|+|+++.  .+.+.  .++++||||+||
T Consensus         2 msEtYDyLfK-----fl~iG~aGtGKSCLLh~Fie~kfkDdss--------HTiGveFgSrIinVGgK~vKLQIWDTAGQ   68 (214)
T KOG0086|consen    2 MSETYDYLFK-----FLVIGSAGTGKSCLLHQFIENKFKDDSS--------HTIGVEFGSRIVNVGGKTVKLQIWDTAGQ   68 (214)
T ss_pred             cchhhhhhhe-----eEEeccCCCChhHHHHHHHHhhhccccc--------ceeeeeecceeeeecCcEEEEEEeecccH
Confidence            3567899987     99999999999999999 8999998887        99999986  33443  389999999999


Q ss_pred             ccccccccc------------cccCccCHHHHHHHHhhhcccccCCCCeEEEEeecc
Q psy9521          80 LELQSLWDK------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSAL  124 (125)
Q Consensus        80 ~~~~~~~~~------------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~sA~  124 (125)
                      |+|++..+.            |++++.||+++..|+..+  +.+...++.|+.|..+
T Consensus        69 ErFRSVtRsYYRGAAGAlLVYD~TsrdsfnaLtnWL~Da--R~lAs~nIvviL~GnK  123 (214)
T KOG0086|consen   69 ERFRSVTRSYYRGAAGALLVYDITSRDSFNALTNWLTDA--RTLASPNIVVILCGNK  123 (214)
T ss_pred             HHHHHHHHHHhccccceEEEEeccchhhHHHHHHHHHHH--HhhCCCcEEEEEeCCh
Confidence            999998776            999999999999999998  5556677777777554

>KOG0078|consensus

Probab=99.87  E-value=5e-22  Score=133.33  Aligned_cols=97  Identities=21%  Similarity=0.428  Sum_probs=81.8

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      ..+||+++|++|||||+++.| ..+.|...+.        .|+|+++.  ++..++  +.+++|||+|||+|+.+.+.  
T Consensus        11 ~~~kvlliGDs~vGKt~~l~rf~d~~f~~~~~--------sTiGIDFk~kti~l~g~~i~lQiWDtaGQerf~ti~~sYy   82 (207)
T KOG0078|consen   11 YLFKLLLIGDSGVGKTCLLLRFSDDSFNTSFI--------STIGIDFKIKTIELDGKKIKLQIWDTAGQERFRTITTAYY   82 (207)
T ss_pred             eEEEEEEECCCCCchhHhhhhhhhccCcCCcc--------ceEEEEEEEEEEEeCCeEEEEEEEEcccchhHHHHHHHHH
Confidence            456799999999999999999 6788888887        99999986  666665  88999999999999998887  


Q ss_pred             ----------cccCccCHHHHHHHHhhhcccccCCCCeEEEEee
Q psy9521          89 ----------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                                |+++..||+++..|++.+  .+....+++++.+-
T Consensus        83 rgA~gi~LvyDitne~Sfeni~~W~~~I--~e~a~~~v~~~LvG  124 (207)
T KOG0078|consen   83 RGAMGILLVYDITNEKSFENIRNWIKNI--DEHASDDVVKILVG  124 (207)
T ss_pred             hhcCeeEEEEEccchHHHHHHHHHHHHH--HhhCCCCCcEEEee
Confidence                      999999999999999998  33333455555543

>KOG0079|consensus

Probab=99.86  E-value=2.5e-22  Score=128.40  Aligned_cols=85  Identities=29%  Similarity=0.581  Sum_probs=75.0

Q ss_pred             HhhhccCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCccccc
Q psy9521           9 YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQ   83 (125)
Q Consensus         9 ~~~~~~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~   83 (125)
                      |+.+|+     ++++|++|||||+|+.+ -.+.|.++|.        .|+|+++.  ++++++  ++++|||++|||+|+
T Consensus         5 ~dhLfk-----llIigDsgVGKssLl~rF~ddtFs~sYi--------tTiGvDfkirTv~i~G~~VkLqIwDtAGqErFr   71 (198)
T KOG0079|consen    5 YDHLFK-----LLIIGDSGVGKSSLLLRFADDTFSGSYI--------TTIGVDFKIRTVDINGDRVKLQIWDTAGQERFR   71 (198)
T ss_pred             HHHHHH-----HHeecCCcccHHHHHHHHhhcccccceE--------EEeeeeEEEEEeecCCcEEEEEEeecccHHHHH
Confidence            455655     89999999999999999 6788999988        99999985  566665  899999999999999


Q ss_pred             ccccc------------cccCccCHHHHHHHHhhh
Q psy9521          84 SLWDK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        84 ~~~~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      .+...            |+++.+||.++++|++++
T Consensus        72 titstyyrgthgv~vVYDVTn~ESF~Nv~rWLeei  106 (198)
T KOG0079|consen   72 TITSTYYRGTHGVIVVYDVTNGESFNNVKRWLEEI  106 (198)
T ss_pred             HHHHHHccCCceEEEEEECcchhhhHhHHHHHHHH
Confidence            87655            999999999999999998

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.86  E-value=2.1e-21  Score=130.18  Aligned_cols=97  Identities=28%  Similarity=0.521  Sum_probs=81.7

Q ss_pred             ChhhHHHHHhhhccCceEEEEEEeCCCCcHHHHHHHH-hhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCc
Q psy9521           1 MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESA-KTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ   79 (125)
Q Consensus         1 m~~~~~~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i-~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~   79 (125)
                      |+.+++.+++..+.++++||+++|+++||||||++++ .+.+. ++.        ||++.++..++.+++.+++||++|+
T Consensus         1 m~~~~~~~~~~~~~~~~~ki~ivG~~~~GKTsl~~~l~~~~~~-~~~--------pt~g~~~~~~~~~~~~~~i~D~~Gq   71 (181)
T PLN00223          1 MGLSFTKLFSRLFAKKEMRILMVGLDAAGKTTILYKLKLGEIV-TTI--------PTIGFNVETVEYKNISFTVWDVGGQ   71 (181)
T ss_pred             CchHHHHHHHHhcCCCccEEEEECCCCCCHHHHHHHHccCCCc-ccc--------CCcceeEEEEEECCEEEEEEECCCC
Confidence            7888888888778888899999999999999999995 45554 344        9999988878888899999999999


Q ss_pred             ccccccccc------------cccCccCHHHHHHHHhhh
Q psy9521          80 LELQSLWDK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        80 ~~~~~~~~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      ++++.+|..            |.+++.+++++..++..+
T Consensus        72 ~~~~~~~~~~~~~a~~iI~V~D~s~~~s~~~~~~~l~~~  110 (181)
T PLN00223         72 DKIRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRM  110 (181)
T ss_pred             HHHHHHHHHHhccCCEEEEEEeCCcHHHHHHHHHHHHHH
Confidence            999988766            888888898887766554

>KOG0098|consensus

Probab=99.86  E-value=1.4e-21  Score=129.05  Aligned_cols=98  Identities=20%  Similarity=0.395  Sum_probs=83.8

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeC--CEEEEEEECCCcccccccccc--
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDIN--TVRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~--~~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      ..+|++++|+.|||||+|+.| ..++|.+.+.        .|+|+++.  .++++  .+++++|||+|||.++++...  
T Consensus         5 ~~fKyIiiGd~gVGKSclllrf~~krF~~~hd--------~TiGvefg~r~~~id~k~IKlqiwDtaGqe~frsv~~syY   76 (216)
T KOG0098|consen    5 YLFKYIIIGDTGVGKSCLLLRFTDKRFQPVHD--------LTIGVEFGARMVTIDGKQIKLQIWDTAGQESFRSVTRSYY   76 (216)
T ss_pred             ceEEEEEECCCCccHHHHHHHHhccCcccccc--------ceeeeeeceeEEEEcCceEEEEEEecCCcHHHHHHHHHHh
Confidence            357799999999999999999 7899999888        99999985  45554  499999999999999998877  


Q ss_pred             ----------cccCccCHHHHHHHHhhhcccccCCCCeEEEEeec
Q psy9521          89 ----------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSA  123 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~sA  123 (125)
                                |++++.||..+..||.++  +.....+..|+.|-.
T Consensus        77 r~a~GalLVydit~r~sF~hL~~wL~D~--rq~~~~NmvImLiGN  119 (216)
T KOG0098|consen   77 RGAAGALLVYDITRRESFNHLTSWLEDA--RQHSNENMVIMLIGN  119 (216)
T ss_pred             ccCcceEEEEEccchhhHHHHHHHHHHH--HHhcCCCcEEEEEcc
Confidence                      999999999999999998  444456777777654

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=99.85  E-value=4e-21  Score=129.00  Aligned_cols=98  Identities=24%  Similarity=0.342  Sum_probs=79.1

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      ++.++||+++|++|||||||+.+ +.+.|.+++.        ||++..+. .+..++  +.+++|||+|+++|+.+++. 
T Consensus         2 ~~~~~KivvvGd~~vGKTsli~~~~~~~f~~~~~--------pT~~~~~~~~~~~~~~~~~l~iwDtaG~e~~~~~~~~~   73 (182)
T cd04172           2 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYV--------PTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLS   73 (182)
T ss_pred             CcceEEEEEECCCCCCHHHHHHHHHhCCCCCccC--------CceeeeeEEEEEECCEEEEEEEEECCCchhhHhhhhhh
Confidence            46789999999999999999999 7888888887        99987764 445554  88999999999999888765 


Q ss_pred             -----------cccCccCHHHH-HHHHhhhcccccCCCCeEEEEee
Q psy9521          89 -----------DIRDCMGVREV-KPIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 -----------Di~~~~s~~~i-~~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                                 |++++.||+++ ..|++++ ....  .+.+++.+.
T Consensus        74 ~~~ad~~ilvyDit~~~Sf~~~~~~w~~~i-~~~~--~~~piilVg  116 (182)
T cd04172          74 YPDSDAVLICFDISRPETLDSVLKKWKGEI-QEFC--PNTKMLLVG  116 (182)
T ss_pred             cCCCCEEEEEEECCCHHHHHHHHHHHHHHH-HHHC--CCCCEEEEe
Confidence                       99999999998 7899988 2222  345555544

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

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.85  E-value=4.2e-21  Score=128.78  Aligned_cols=97  Identities=29%  Similarity=0.541  Sum_probs=82.3

Q ss_pred             ChhhHHHHHhhhccCceEEEEEEeCCCCcHHHHHHHH-hhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCc
Q psy9521           1 MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESA-KTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ   79 (125)
Q Consensus         1 m~~~~~~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i-~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~   79 (125)
                      |+.++..+++.++.++++||+++|++|||||||++++ .+.+.. +.        ||++.++..++..++.+++||++|+
T Consensus         1 ~~~~~~~~~~~~~~~~~~kv~lvG~~~vGKTsli~~~~~~~~~~-~~--------~T~~~~~~~~~~~~~~~~l~D~~G~   71 (182)
T PTZ00133          1 MGLWLSSAFKSLFGKKEVRILMVGLDAAGKTTILYKLKLGEVVT-TI--------PTIGFNVETVEYKNLKFTMWDVGGQ   71 (182)
T ss_pred             CchHHHHHHHHhcCCCccEEEEEcCCCCCHHHHHHHHhcCCccc-cC--------CccccceEEEEECCEEEEEEECCCC
Confidence            7777888899888888999999999999999999995 566653 44        8999888877788899999999999


Q ss_pred             ccccccccc------------cccCccCHHHHHHHHhhh
Q psy9521          80 LELQSLWDK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        80 ~~~~~~~~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      ++++.+|..            |.+++.+|+++..++..+
T Consensus        72 ~~~~~~~~~~~~~ad~iI~v~D~t~~~s~~~~~~~l~~~  110 (182)
T PTZ00133         72 DKLRPLWRHYYQNTNGLIFVVDSNDRERIGDAREELERM  110 (182)
T ss_pred             HhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHH
Confidence            999887666            888888998888766654

>KOG0073|consensus

Probab=99.85  E-value=7.7e-21  Score=123.11  Aligned_cols=110  Identities=29%  Similarity=0.526  Sum_probs=92.5

Q ss_pred             HHHHHhhhc-cCceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccccc
Q psy9521           5 VSGFYKYML-RKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQ   83 (125)
Q Consensus         5 ~~~~~~~~~-~~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~   83 (125)
                      +.++.+... +.++++|+++|+.|+|||++++++.++-...        +.||.|+++.++..+++++++||++||...+
T Consensus         3 ~lsilrk~k~kerE~riLiLGLdNsGKTti~~kl~~~~~~~--------i~pt~gf~Iktl~~~~~~L~iwDvGGq~~lr   74 (185)
T KOG0073|consen    3 LLSILRKQKLKEREVRILILGLDNSGKTTIVKKLLGEDTDT--------ISPTLGFQIKTLEYKGYTLNIWDVGGQKTLR   74 (185)
T ss_pred             HHHHHHHHHhhhheeEEEEEecCCCCchhHHHHhcCCCccc--------cCCccceeeEEEEecceEEEEEEcCCcchhH
Confidence            345556654 5689999999999999999999987654444        4499999999999999999999999999999


Q ss_pred             ccccc------------------------------------------------cccCccCHHHHHHHHhhhccccc-CCC
Q psy9521          84 SLWDK------------------------------------------------DIRDCMGVREVKPIFNKNSAHLI-GRR  114 (125)
Q Consensus        84 ~~~~~------------------------------------------------Di~~~~s~~~i~~~l~~~~~~~~-~~~  114 (125)
                      .+|++                                                |++.+.+.++|...+++-   ++ +.+
T Consensus        75 ~~W~nYfestdglIwvvDssD~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~~l~~~~i~~~~~L~---~l~ks~  151 (185)
T KOG0073|consen   75 SYWKNYFESTDGLIWVVDSSDRMRMQECKQELTELLVEERLAGAPLLVLANKQDLPGALSLEEISKALDLE---ELAKSH  151 (185)
T ss_pred             HHHHHhhhccCeEEEEEECchHHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCccccCHHHHHHhhCHH---Hhcccc
Confidence            99999                                                777777888887777764   55 889


Q ss_pred             CeEEEEeeccC
Q psy9521         115 DCMVMPVSALT  125 (125)
Q Consensus       115 ~~~i~~~sA~~  125 (125)
                      .|+++.|||.+
T Consensus       152 ~~~l~~cs~~t  162 (185)
T KOG0073|consen  152 HWRLVKCSAVT  162 (185)
T ss_pred             CceEEEEeccc
Confidence            99999999975

>cd04133 Rop_like Rop subfamily

Probab=99.84  E-value=1.3e-20  Score=125.93  Aligned_cols=94  Identities=22%  Similarity=0.311  Sum_probs=76.6

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc-----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK-----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~-----   88 (125)
                      +||+++|++|||||||+.+ +.+.|..++.        ||++..+. .+..++  +++.+||++|+++|+.+++.     
T Consensus         2 ~kivv~G~~~vGKTsli~~~~~~~f~~~~~--------~Ti~~~~~~~~~~~~~~v~l~i~Dt~G~~~~~~~~~~~~~~a   73 (176)
T cd04133           2 IKCVTVGDGAVGKTCMLICYTSNKFPTDYI--------PTVFDNFSANVSVDGNTVNLGLWDTAGQEDYNRLRPLSYRGA   73 (176)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCCC--------CcceeeeEEEEEECCEEEEEEEEECCCCccccccchhhcCCC
Confidence            6899999999999999999 7889988887        99987764 344444  88999999999999988766     


Q ss_pred             -------cccCccCHHHH-HHHHhhhcccccCCCCeEEEEee
Q psy9521          89 -------DIRDCMGVREV-KPIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 -------Di~~~~s~~~i-~~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                             |++++.||+++ +.|+.++  ... ..+++++.+.
T Consensus        74 ~~~ilvyd~~~~~Sf~~~~~~w~~~i--~~~-~~~~piilvg  112 (176)
T cd04133          74 DVFVLAFSLISRASYENVLKKWVPEL--RHY-APNVPIVLVG  112 (176)
T ss_pred             cEEEEEEEcCCHHHHHHHHHHHHHHH--HHh-CCCCCEEEEE
Confidence                   99999999999 6899988  222 2345665554

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,

>cd01875 RhoG RhoG subfamily

Probab=99.84  E-value=1.1e-20  Score=127.55  Aligned_cols=96  Identities=26%  Similarity=0.347  Sum_probs=77.0

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      .+||+++|++|||||||+.+ +.+.|.+++.        ||++.++. .+..++  +.+++||++|+++|+.+++.    
T Consensus         3 ~~ki~~vG~~~vGKTsli~~~~~~~f~~~~~--------~t~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~l~~~~~~~   74 (191)
T cd01875           3 SIKCVVVGDGAVGKTCLLICYTTNAFPKEYI--------PTVFDNYSAQTAVDGRTVSLNLWDTAGQEEYDRLRTLSYPQ   74 (191)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCcCCC--------CceEeeeEEEEEECCEEEEEEEEECCCchhhhhhhhhhccC
Confidence            58999999999999999999 7888888887        99987765 344444  88999999999999988866    


Q ss_pred             --------cccCccCHHHHH-HHHhhhcccccCCCCeEEEEeec
Q psy9521          89 --------DIRDCMGVREVK-PIFNKNSAHLIGRRDCMVMPVSA  123 (125)
Q Consensus        89 --------Di~~~~s~~~i~-~~l~~~~~~~~~~~~~~i~~~sA  123 (125)
                              |++++.||+++. .|+.++ ....  .++|++.+..
T Consensus        75 a~~~ilvydit~~~Sf~~~~~~w~~~i-~~~~--~~~piilvgN  115 (191)
T cd01875          75 TNVFIICFSIASPSSYENVRHKWHPEV-CHHC--PNVPILLVGT  115 (191)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHH-HhhC--CCCCEEEEEe
Confidence                    999999999997 588876 2222  3456555543

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

>KOG0095|consensus

Probab=99.84  E-value=4e-21  Score=123.21  Aligned_cols=94  Identities=19%  Similarity=0.371  Sum_probs=76.7

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +||+++|..|||||+|+.| .++-|++-..        .|+|+++-  ++++.+  +++++|||+|||+|+++...    
T Consensus         8 fkivlvgnagvgktclvrrftqglfppgqg--------atigvdfmiktvev~gekiklqiwdtagqerfrsitqsyyrs   79 (213)
T KOG0095|consen    8 FKIVLVGNAGVGKTCLVRRFTQGLFPPGQG--------ATIGVDFMIKTVEVNGEKIKLQIWDTAGQERFRSITQSYYRS   79 (213)
T ss_pred             EEEEEEccCCcCcchhhhhhhccCCCCCCC--------ceeeeeEEEEEEEECCeEEEEEEeeccchHHHHHHHHHHhhh
Confidence            3499999999999999999 7788887765        89998874  566654  99999999999999998766    


Q ss_pred             --------cccCccCHHHHHHHHhhhcccccCCCCeEEEEe
Q psy9521          89 --------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPV  121 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~  121 (125)
                              |+++..||+-+.+|+.++  ....++.+--+.+
T Consensus        80 ahalilvydiscqpsfdclpewlrei--e~yan~kvlkilv  118 (213)
T KOG0095|consen   80 AHALILVYDISCQPSFDCLPEWLREI--EQYANNKVLKILV  118 (213)
T ss_pred             cceEEEEEecccCcchhhhHHHHHHH--HHHhhcceEEEee
Confidence                    999999999999999998  3333444444433

>cd04131 Rnd Rnd subfamily

Probab=99.84  E-value=2.6e-20  Score=124.58  Aligned_cols=95  Identities=23%  Similarity=0.324  Sum_probs=75.5

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      ++||+++|++|||||||+++ +.+.|+.++.        ||++.++. .+..++  +.+++||++|+++|+.+++.    
T Consensus         1 ~~Kiv~vG~~~vGKTsli~~~~~~~f~~~~~--------~t~~~~~~~~~~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~   72 (178)
T cd04131           1 RCKIVVVGDVQCGKTALLQVFAKDCYPETYV--------PTVFENYTASFEIDEQRIELSLWDTSGSPYYDNVRPLCYPD   72 (178)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCcCCCCcC--------CceEEEEEEEEEECCEEEEEEEEECCCchhhhhcchhhcCC
Confidence            47899999999999999999 7788888887        99987764 444544  88999999999999877665    


Q ss_pred             --------cccCccCHHHH-HHHHhhhcccccCCCCeEEEEee
Q psy9521          89 --------DIRDCMGVREV-KPIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 --------Di~~~~s~~~i-~~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                              |++++.||+++ ..|++++ ....  ...+++.+.
T Consensus        73 a~~~ilvfdit~~~Sf~~~~~~w~~~i-~~~~--~~~~iilVg  112 (178)
T cd04131          73 SDAVLICFDISRPETLDSVLKKWRGEI-QEFC--PNTKVLLVG  112 (178)
T ss_pred             CCEEEEEEECCChhhHHHHHHHHHHHH-HHHC--CCCCEEEEE
Confidence                    99999999996 7899987 2222  344555443

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.

>cd04120 Rab12 Rab12 subfamily

Probab=99.83  E-value=1.8e-20  Score=127.78  Aligned_cols=80  Identities=24%  Similarity=0.463  Sum_probs=70.9

Q ss_pred             EEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-----
Q psy9521          19 CVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-----   88 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-----   88 (125)
                      .|+++|+.|||||||++| +.+.|..++.        +|++.++.  .+..++  +.+++||++|+++|+.+|..     
T Consensus         2 ~vvvlG~~gVGKTSli~r~~~~~f~~~~~--------~Ti~~~~~~~~i~~~~~~v~l~iwDtaGqe~~~~l~~~y~~~a   73 (202)
T cd04120           2 QVIIIGSRGVGKTSLMRRFTDDTFCEACK--------SGVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSA   73 (202)
T ss_pred             EEEEECcCCCCHHHHHHHHHhCCCCCcCC--------CcceeEEEEEEEEECCEEEEEEEEeCCCchhhHHHHHHHhcCC
Confidence            599999999999999999 7788888887        99887764  566665  88999999999999998876     


Q ss_pred             -------cccCccCHHHHHHHHhhh
Q psy9521          89 -------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -------Di~~~~s~~~i~~~l~~~  106 (125)
                             |++++.||++++.|++.+
T Consensus        74 d~iIlVfDvtd~~Sf~~l~~w~~~i   98 (202)
T cd04120          74 KGIILVYDITKKETFDDLPKWMKMI   98 (202)
T ss_pred             CEEEEEEECcCHHHHHHHHHHHHHH
Confidence                   999999999999999877

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

>KOG0394|consensus

Probab=99.83  E-value=9.6e-21  Score=124.82  Aligned_cols=86  Identities=27%  Similarity=0.480  Sum_probs=77.2

Q ss_pred             ccCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCccccccccc
Q psy9521          13 LRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWD   87 (125)
Q Consensus        13 ~~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~   87 (125)
                      .++.-+||+++|++|||||||+++ .+++|..+|.        .|+|.++.  .+.+++  +.++||||+|||+|+++..
T Consensus         5 ~K~~lLKViiLGDsGVGKtSLmn~yv~~kF~~qyk--------aTIgadFltKev~Vd~~~vtlQiWDTAGQERFqsLg~   76 (210)
T KOG0394|consen    5 RKRTLLKVIILGDSGVGKTSLMNQYVNKKFSQQYK--------ATIGADFLTKEVQVDDRSVTLQIWDTAGQERFQSLGV   76 (210)
T ss_pred             CcccceEEEEeCCCCccHHHHHHHHHHHHHHHHhc--------cccchhheeeEEEEcCeEEEEEEEecccHHHhhhccc
Confidence            356679999999999999999999 8999999998        99999985  555555  8899999999999999876


Q ss_pred             c------------cccCccCHHHHHHHHhhh
Q psy9521          88 K------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        88 ~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      .            |++++.||+.+..|-+++
T Consensus        77 aFYRgaDcCvlvydv~~~~Sfe~L~~Wr~EF  107 (210)
T KOG0394|consen   77 AFYRGADCCVLVYDVNNPKSFENLENWRKEF  107 (210)
T ss_pred             ceecCCceEEEEeecCChhhhccHHHHHHHH
Confidence            6            999999999999999987

>cd04121 Rab40 Rab40 subfamily

Probab=99.83  E-value=4.6e-20  Score=124.55  Aligned_cols=83  Identities=20%  Similarity=0.363  Sum_probs=71.3

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      ..+||+++|+.|||||||+.+ ..+.|..++.        ||++.++.  .+..++  +.+++||++|+++|+.++..  
T Consensus         5 ~~~KivviG~~~vGKTsll~~~~~~~~~~~~~--------~t~~~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~l~~~~~   76 (189)
T cd04121           5 YLLKFLLVGDSDVGKGEILASLQDGSTESPYG--------YNMGIDYKTTTILLDGRRVKLQLWDTSGQGRFCTIFRSYS   76 (189)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCCCC--------CcceeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHh
Confidence            468999999999999999999 6677777666        78777764  455555  88999999999999988766  


Q ss_pred             ----------cccCccCHHHHHHHHhhh
Q psy9521          89 ----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~  106 (125)
                                |++++.||++++.|++++
T Consensus        77 ~~ad~illVfD~t~~~Sf~~~~~w~~~i  104 (189)
T cd04121          77 RGAQGIILVYDITNRWSFDGIDRWIKEI  104 (189)
T ss_pred             cCCCEEEEEEECcCHHHHHHHHHHHHHH
Confidence                      999999999999999998

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

>cd01874 Cdc42 Cdc42 subfamily

Probab=99.82  E-value=8e-20  Score=121.83  Aligned_cols=81  Identities=25%  Similarity=0.283  Sum_probs=70.3

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc-----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK-----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~-----   88 (125)
                      +||+++|++|||||||+++ +.+.|..++.        ||++.++. .+..++  +++++||++|+++|..++..     
T Consensus         2 ~ki~vvG~~~vGKTsl~~~~~~~~f~~~~~--------pt~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a   73 (175)
T cd01874           2 IKCVVVGDGAVGKTCLLISYTTNKFPSEYV--------PTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQT   73 (175)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCC--------CceeeeeEEEEEECCEEEEEEEEECCCccchhhhhhhhcccC
Confidence            6899999999999999999 7788888877        99988775 555555  88999999999999887765     


Q ss_pred             -------cccCccCHHHHH-HHHhhh
Q psy9521          89 -------DIRDCMGVREVK-PIFNKN  106 (125)
Q Consensus        89 -------Di~~~~s~~~i~-~~l~~~  106 (125)
                             |++++.||+++. .|+.++
T Consensus        74 ~~~ilv~d~~~~~s~~~~~~~w~~~i   99 (175)
T cd01874          74 DVFLVCFSVVSPSSFENVKEKWVPEI   99 (175)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHH
Confidence                   999999999997 598887

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

>KOG0091|consensus

Probab=99.82  E-value=1.2e-20  Score=122.41  Aligned_cols=82  Identities=24%  Similarity=0.482  Sum_probs=72.1

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeC-C--EEEEEEECCCcccccccccc--
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDIN-T--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~-~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      +++++++|++-||||+|+++ ..++|.+-..        ||+|+++.  -+++. +  +++++|||+|||+|+++...  
T Consensus         8 qfrlivigdstvgkssll~~ft~gkfaelsd--------ptvgvdffarlie~~pg~riklqlwdtagqerfrsitksyy   79 (213)
T KOG0091|consen    8 QFRLIVIGDSTVGKSSLLRYFTEGKFAELSD--------PTVGVDFFARLIELRPGYRIKLQLWDTAGQERFRSITKSYY   79 (213)
T ss_pred             EEEEEEEcCCcccHHHHHHHHhcCcccccCC--------CccchHHHHHHHhcCCCcEEEEEEeeccchHHHHHHHHHHh
Confidence            67899999999999999999 6788887766        99999974  23443 2  89999999999999998777  


Q ss_pred             ----------cccCccCHHHHHHHHhhh
Q psy9521          89 ----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~  106 (125)
                                |++|+.|||+++.|+.+.
T Consensus        80 rnsvgvllvyditnr~sfehv~~w~~ea  107 (213)
T KOG0091|consen   80 RNSVGVLLVYDITNRESFEHVENWVKEA  107 (213)
T ss_pred             hcccceEEEEeccchhhHHHHHHHHHHH
Confidence                      999999999999999997

>cd04149 Arf6 Arf6 subfamily

Probab=99.82  E-value=8.9e-20  Score=120.84  Aligned_cols=86  Identities=33%  Similarity=0.578  Sum_probs=70.5

Q ss_pred             hccCceEEEEEEeCCCCcHHHHHHHH-hhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc--
Q psy9521          12 MLRKDEFCVLILGLDNAGKTTYLESA-KTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        12 ~~~~~~~ki~v~G~~~~GKTsl~~~i-~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      ++.++++||+++|++|||||||++++ .+.+. .+.        ||++.++..+..+++.+++||++|+++++.+|+.  
T Consensus         4 ~~~~~~~kv~i~G~~~~GKTsli~~l~~~~~~-~~~--------~t~g~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~   74 (168)
T cd04149           4 LFGNKEMRILMLGLDAAGKTTILYKLKLGQSV-TTI--------PTVGFNVETVTYKNVKFNVWDVGGQDKIRPLWRHYY   74 (168)
T ss_pred             ccCCCccEEEEECcCCCCHHHHHHHHccCCCc-ccc--------CCcccceEEEEECCEEEEEEECCCCHHHHHHHHHHh
Confidence            35567899999999999999999995 45543 334        8999888777777899999999999999887765  


Q ss_pred             ----------cccCccCHHHHHHHHhhh
Q psy9521          89 ----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~  106 (125)
                                |.+++.+|+++..|+.++
T Consensus        75 ~~a~~ii~v~D~t~~~s~~~~~~~~~~~  102 (168)
T cd04149          75 TGTQGLIFVVDSADRDRIDEARQELHRI  102 (168)
T ss_pred             ccCCEEEEEEeCCchhhHHHHHHHHHHH
Confidence                      888888998888776544

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

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.82  E-value=6.4e-20  Score=125.02  Aligned_cols=81  Identities=20%  Similarity=0.321  Sum_probs=69.7

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEe-------CCEEEEEEECCCccccccccc
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDI-------NTVRLNFWDLGGQLELQSLWD   87 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~-------~~~~~~i~D~~G~~~~~~~~~   87 (125)
                      +||+++|++|||||||+++ +.+.|.+++.        ||++.++.  .+..       ..+.+++||++|+++|+.+++
T Consensus         1 vKIvlvGd~gVGKTSLi~~~~~~~f~~~~~--------~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~e~~~~l~~   72 (202)
T cd04102           1 VRVLVVGDSGVGKSSLVHLICKNQVLGRPS--------WTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGSESVKSTRA   72 (202)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCC--------cceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCchhHHHHHH
Confidence            5899999999999999999 7788887776        99987654  3333       237899999999999988776


Q ss_pred             c------------cccCccCHHHHHHHHhhh
Q psy9521          88 K------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        88 ~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      .            |++++.||+++..|++++
T Consensus        73 ~~yr~ad~iIlVyDvtn~~Sf~~l~~W~~ei  103 (202)
T cd04102          73 VFYNQVNGIILVHDLTNRKSSQNLQRWSLEA  103 (202)
T ss_pred             HHhCcCCEEEEEEECcChHHHHHHHHHHHHH
Confidence            5            999999999999999998

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.

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=99.81  E-value=1e-19  Score=126.35  Aligned_cols=83  Identities=24%  Similarity=0.289  Sum_probs=72.2

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc---
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      ..+||+++|++|||||||+.+ +.+.|..+|.        ||++.++. .+..++  +.+.+|||+|+++|+.+++.   
T Consensus        12 ~~~KIvvvGd~~VGKTsLi~r~~~~~F~~~y~--------pTi~~~~~~~i~~~~~~v~l~iwDTaG~e~~~~~~~~~~~   83 (232)
T cd04174          12 MRCKLVLVGDVQCGKTAMLQVLAKDCYPETYV--------PTVFENYTAGLETEEQRVELSLWDTSGSPYYDNVRPLCYS   83 (232)
T ss_pred             eeEEEEEECCCCCcHHHHHHHHhcCCCCCCcC--------CceeeeeEEEEEECCEEEEEEEEeCCCchhhHHHHHHHcC
Confidence            578999999999999999999 7788888887        99987775 445554  88999999999999887765   


Q ss_pred             ---------cccCccCHHHH-HHHHhhh
Q psy9521          89 ---------DIRDCMGVREV-KPIFNKN  106 (125)
Q Consensus        89 ---------Di~~~~s~~~i-~~~l~~~  106 (125)
                               |++++.||+++ ..|++++
T Consensus        84 ~ad~vIlVyDit~~~Sf~~~~~~w~~~i  111 (232)
T cd04174          84 DSDAVLLCFDISRPETVDSALKKWKAEI  111 (232)
T ss_pred             CCcEEEEEEECCChHHHHHHHHHHHHHH
Confidence                     99999999985 7899988

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.

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.81  E-value=1.5e-19  Score=120.13  Aligned_cols=82  Identities=21%  Similarity=0.309  Sum_probs=70.9

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      .+||+++|++|||||||+++ +.+.|+.++.        ||++..+. .+..++  +.+++||++|+++++.+|..    
T Consensus         2 ~~ki~vvG~~~vGKTsL~~~~~~~~f~~~~~--------~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~   73 (172)
T cd04141           2 EYKIVMLGAGGVGKSAVTMQFISHSFPDYHD--------PTIEDAYKQQARIDNEPALLDILDTAGQAEFTAMRDQYMRC   73 (172)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCCCcC--------CcccceEEEEEEECCEEEEEEEEeCCCchhhHHHhHHHhhc
Confidence            57999999999999999999 7788887777        89887665 455555  78999999999999888876    


Q ss_pred             --------cccCccCHHHHHHHHhhh
Q psy9521          89 --------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~  106 (125)
                              |++++.||+.+..|+..+
T Consensus        74 ~d~~ilv~d~~~~~Sf~~~~~~~~~i   99 (172)
T cd04141          74 GEGFIICYSVTDRHSFQEASEFKKLI   99 (172)
T ss_pred             CCEEEEEEECCchhHHHHHHHHHHHH
Confidence                    999999999999887766

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

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=99.81  E-value=1.1e-19  Score=125.52  Aligned_cols=96  Identities=23%  Similarity=0.294  Sum_probs=76.1

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      ++||+++|++|||||||+.+ +.+.|+++|.        ||++.++. .+..++  +.+.+||++|+++|..+++.    
T Consensus         1 ~~KIvvvGd~~vGKTsLi~~~~~~~f~~~y~--------pTi~~~~~~~~~~~~~~v~L~iwDt~G~e~~~~l~~~~~~~   72 (222)
T cd04173           1 RCKIVVVGDAECGKTALLQVFAKDAYPGSYV--------PTVFENYTASFEIDKRRIELNMWDTSGSSYYDNVRPLAYPD   72 (222)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCccC--------CccccceEEEEEECCEEEEEEEEeCCCcHHHHHHhHHhccC
Confidence            37999999999999999999 7788888887        99988775 455554  88999999999999887776    


Q ss_pred             --------cccCccCHHHHH-HHHhhhcccccCCCCeEEEEeec
Q psy9521          89 --------DIRDCMGVREVK-PIFNKNSAHLIGRRDCMVMPVSA  123 (125)
Q Consensus        89 --------Di~~~~s~~~i~-~~l~~~~~~~~~~~~~~i~~~sA  123 (125)
                              |++++.||+++. .|..++   .......+++.+..
T Consensus        73 ~d~illvfdis~~~Sf~~i~~~w~~~~---~~~~~~~piiLVgn  113 (222)
T cd04173          73 SDAVLICFDISRPETLDSVLKKWQGET---QEFCPNAKVVLVGC  113 (222)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHH---HhhCCCCCEEEEEE
Confidence                    999999999996 577766   22223455555543

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

>cd04128 Spg1 Spg1p

Probab=99.81  E-value=1.4e-19  Score=121.37  Aligned_cols=81  Identities=26%  Similarity=0.506  Sum_probs=71.6

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +||+++|++|||||||+++ +.+.|.++|.        ||+|.++.  .+..++  +.+.+||++|+++|+.+++.    
T Consensus         1 ~Ki~vlG~~~vGKTsLi~~~~~~~f~~~~~--------~T~g~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~   72 (182)
T cd04128           1 LKIGLLGDAQIGKTSLMVKYVEGEFDEDYI--------QTLGVNFMEKTISIRGTEITFSIWDLGGQREFINMLPLVCND   72 (182)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCC--------CccceEEEEEEEEECCEEEEEEEEeCCCchhHHHhhHHHCcC
Confidence            5899999999999999999 7888888887        99998874  566665  78999999999999887766    


Q ss_pred             --------cccCccCHHHHHHHHhhh
Q psy9521          89 --------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~  106 (125)
                              |++++.||+++..|++++
T Consensus        73 a~~iilv~D~t~~~s~~~i~~~~~~~   98 (182)
T cd04128          73 AVAILFMFDLTRKSTLNSIKEWYRQA   98 (182)
T ss_pred             CCEEEEEEECcCHHHHHHHHHHHHHH
Confidence                    999999999999999987

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

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.81  E-value=2e-19  Score=123.95  Aligned_cols=84  Identities=27%  Similarity=0.527  Sum_probs=73.1

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEE--eC--CEEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQID--IN--TVRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~--~~--~~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      ...+||+++|++|||||||+++ +.+.|..++.        ||++.++....  .+  .+.+.+||++|+++|+.++.. 
T Consensus        11 ~~~~Ki~vvG~~gvGKTsli~~~~~~~f~~~~~--------~tig~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~   82 (219)
T PLN03071         11 YPSFKLVIVGDGGTGKTTFVKRHLTGEFEKKYE--------PTIGVEVHPLDFFTNCGKIRFYCWDTAGQEKFGGLRDGY   82 (219)
T ss_pred             CCceEEEEECcCCCCHHHHHHHHhhCCCCCccC--------CccceeEEEEEEEECCeEEEEEEEECCCchhhhhhhHHH
Confidence            5789999999999999999999 7888888877        99998876433  33  389999999999999888764 


Q ss_pred             -----------cccCccCHHHHHHHHhhh
Q psy9521          89 -----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~  106 (125)
                                 |++++.||+++..|++++
T Consensus        83 ~~~~~~~ilvfD~~~~~s~~~i~~w~~~i  111 (219)
T PLN03071         83 YIHGQCAIIMFDVTARLTYKNVPTWHRDL  111 (219)
T ss_pred             cccccEEEEEEeCCCHHHHHHHHHHHHHH
Confidence                       999999999999999987

>cd04122 Rab14 Rab14 subfamily

Probab=99.80  E-value=3e-19  Score=117.56  Aligned_cols=82  Identities=24%  Similarity=0.473  Sum_probs=69.6

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc---
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      .+||+++|++|||||||+++ +.++|..+++        +|++.++.  .+..++  +++.+||++|+++++.++..   
T Consensus         2 ~~ki~iiG~~~vGKTsli~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~   73 (166)
T cd04122           2 IFKYIIIGDMGVGKSCLLHQFTEKKFMADCP--------HTIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRAVTRSYYR   73 (166)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCCCCC--------cccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhc
Confidence            37899999999999999999 6777877776        88887764  344544  78999999999998877655   


Q ss_pred             ---------cccCccCHHHHHHHHhhh
Q psy9521          89 ---------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~  106 (125)
                               |++++.||+++..|++.+
T Consensus        74 ~~~~~ilv~d~~~~~s~~~~~~~~~~~  100 (166)
T cd04122          74 GAAGALMVYDITRRSTYNHLSSWLTDA  100 (166)
T ss_pred             CCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                     999999999999999876

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

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

Probab=99.80  E-value=3e-19  Score=118.93  Aligned_cols=89  Identities=27%  Similarity=0.540  Sum_probs=72.7

Q ss_pred             HhhhccCceEEEEEEeCCCCcHHHHHHHH-hhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccccccccc
Q psy9521           9 YKYMLRKDEFCVLILGLDNAGKTTYLESA-KTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWD   87 (125)
Q Consensus         9 ~~~~~~~~~~ki~v~G~~~~GKTsl~~~i-~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~   87 (125)
                      ++.+..++++||+++|++|||||||++++ .+.+. .+.        ||++.++..+..+++.+.+||++|+++++.+|.
T Consensus         5 ~~~~~~~~~~ki~l~G~~~~GKTsL~~~~~~~~~~-~~~--------~t~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~   75 (175)
T smart00177        5 FSKLFGNKEMRILMVGLDAAGKTTILYKLKLGESV-TTI--------PTIGFNVETVTYKNISFTVWDVGGQDKIRPLWR   75 (175)
T ss_pred             hhhhcCCCccEEEEEcCCCCCHHHHHHHHhcCCCC-CcC--------CccccceEEEEECCEEEEEEECCCChhhHHHHH
Confidence            34344456899999999999999999995 56653 344        899988877777889999999999999988776


Q ss_pred             c------------cccCccCHHHHHHHHhhh
Q psy9521          88 K------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        88 ~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      .            |.+++.+++++..|+..+
T Consensus        76 ~~~~~ad~ii~v~D~t~~~s~~~~~~~l~~~  106 (175)
T smart00177       76 HYYTNTQGLIFVVDSNDRDRIDEAREELHRM  106 (175)
T ss_pred             HHhCCCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence            6            999999999888777654

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).

>PTZ00369 Ras-like protein; Provisional

Probab=99.80  E-value=5.1e-19  Score=119.09  Aligned_cols=84  Identities=20%  Similarity=0.324  Sum_probs=71.2

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      ..++||+++|++|||||||+++ +.+.|..++.        ||++..+. .+..++  +.+++||++|++++..+|..  
T Consensus         3 ~~~~Ki~iiG~~~~GKTsLi~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~   74 (189)
T PTZ00369          3 STEYKLVVVGGGGVGKSALTIQFIQNHFIDEYD--------PTIEDSYRKQCVIDEETCLLDILDTAGQEEYSAMRDQYM   74 (189)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcCCCCcCcC--------CchhhEEEEEEEECCEEEEEEEEeCCCCccchhhHHHHh
Confidence            3578999999999999999999 6777777776        88887764 444544  77999999999999988776  


Q ss_pred             ----------cccCccCHHHHHHHHhhh
Q psy9521          89 ----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~  106 (125)
                                |++++.||+++..|+..+
T Consensus        75 ~~~d~iilv~D~s~~~s~~~~~~~~~~i  102 (189)
T PTZ00369         75 RTGQGFLCVYSITSRSSFEEIASFREQI  102 (189)
T ss_pred             hcCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                      999999999999999876

>cd04117 Rab15 Rab15 subfamily

Probab=99.79  E-value=6.2e-19  Score=115.82  Aligned_cols=95  Identities=21%  Similarity=0.395  Sum_probs=74.5

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +||+++|++|||||||+++ +.+.|.+++.        ||++.++.  .+..++  +.+.+||++|++++..++..    
T Consensus         1 ~ki~vvG~~~~GKTsli~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~   72 (161)
T cd04117           1 FRLLLIGDSGVGKTCLLCRFTDNEFHSSHI--------STIGVDFKMKTIEVDGIKVRIQIWDTAGQERYQTITKQYYRR   72 (161)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCC--------CceeeEEEEEEEEECCEEEEEEEEeCCCcHhHHhhHHHHhcC
Confidence            4799999999999999999 6777877776        99987764  555555  78999999999998877654    


Q ss_pred             --------cccCccCHHHHHHHHhhhcccccCCCCeEEEEee
Q psy9521          89 --------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                              |++++.||+++..|++.+  ........+++.+.
T Consensus        73 ~~~~i~v~d~~~~~sf~~~~~~~~~~--~~~~~~~~~iilvg  112 (161)
T cd04117          73 AQGIFLVYDISSERSYQHIMKWVSDV--DEYAPEGVQKILIG  112 (161)
T ss_pred             CcEEEEEEECCCHHHHHHHHHHHHHH--HHhCCCCCeEEEEE
Confidence                    999999999999999987  11222345555443

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

>KOG0393|consensus

Probab=99.79  E-value=8.6e-20  Score=122.67  Aligned_cols=97  Identities=22%  Similarity=0.305  Sum_probs=82.3

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeC-C--EEEEEEECCCcccccccccc--
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDIN-T--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~-~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      ..+||+++|++++|||+|+.. ..+.|+++|.        ||+-.+|. .+.++ +  +.+.+|||+|||.|..+|+.  
T Consensus         3 ~~~K~VvVGDga~GKT~ll~~~t~~~fp~~yv--------PTVFdnys~~v~V~dg~~v~L~LwDTAGqedYDrlRplsY   74 (198)
T KOG0393|consen    3 RRIKCVVVGDGAVGKTCLLISYTTNAFPEEYV--------PTVFDNYSANVTVDDGKPVELGLWDTAGQEDYDRLRPLSY   74 (198)
T ss_pred             eeeEEEEECCCCcCceEEEEEeccCcCccccc--------CeEEccceEEEEecCCCEEEEeeeecCCCcccccccccCC
Confidence            468999999999999999999 8899999998        99987775 56663 4  88999999999999998876  


Q ss_pred             ----------cccCccCHHHHH-HHHhhhcccccCCCCeEEEEe
Q psy9521          89 ----------DIRDCMGVREVK-PIFNKNSAHLIGRRDCMVMPV  121 (125)
Q Consensus        89 ----------Di~~~~s~~~i~-~~l~~~~~~~~~~~~~~i~~~  121 (125)
                                ++.++.||+++. +|+.++ .+..+..++.++++
T Consensus        75 ~~tdvfl~cfsv~~p~S~~nv~~kW~pEi-~~~cp~vpiiLVGt  117 (198)
T KOG0393|consen   75 PQTDVFLLCFSVVSPESFENVKSKWIPEI-KHHCPNVPIILVGT  117 (198)
T ss_pred             CCCCEEEEEEEcCChhhHHHHHhhhhHHH-HhhCCCCCEEEEee
Confidence                      899999999998 699999 55555566666554

>cd04136 Rap_like Rap-like subfamily

Probab=99.79  E-value=7.1e-19  Score=114.95  Aligned_cols=82  Identities=20%  Similarity=0.358  Sum_probs=68.2

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      ++||+++|++|||||||+++ +.+.|...+.        ||++..+. .+..++  +.+++||++|+++++.++..    
T Consensus         1 ~~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~   72 (163)
T cd04136           1 EYKVVVLGSGGVGKSALTVQFVQGIFVEKYD--------PTIEDSYRKQIEVDGQQCMLEILDTAGTEQFTAMRDLYIKN   72 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCcccC--------CchhhhEEEEEEECCEEEEEEEEECCCccccchHHHHHhhc
Confidence            37999999999999999999 7777777766        77764443 455555  67899999999999888765    


Q ss_pred             --------cccCccCHHHHHHHHhhh
Q psy9521          89 --------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~  106 (125)
                              |++++.+|+++..|++++
T Consensus        73 ~~~~ilv~d~~~~~s~~~~~~~~~~i   98 (163)
T cd04136          73 GQGFVLVYSITSQSSFNDLQDLREQI   98 (163)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                    999999999999998877

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.

>cd04175 Rap1 Rap1 subgroup

Probab=99.79  E-value=7.6e-19  Score=115.28  Aligned_cols=82  Identities=17%  Similarity=0.338  Sum_probs=69.1

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      ++||+++|++|||||||+++ +.+.|...+.        ||++..+. .+..++  +.+++||++|+++++.++..    
T Consensus         1 ~~ki~~~G~~~~GKTsli~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~   72 (164)
T cd04175           1 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYD--------PTIEDSYRKQVEVDGQQCMLEILDTAGTEQFTAMRDLYMKN   72 (164)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhCCCCcccC--------CcchheEEEEEEECCEEEEEEEEECCCcccchhHHHHHHhh
Confidence            47899999999999999999 7777777776        88876654 455554  77889999999999988776    


Q ss_pred             --------cccCccCHHHHHHHHhhh
Q psy9521          89 --------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~  106 (125)
                              |+++..+|+++..|+..+
T Consensus        73 ~d~~ilv~d~~~~~s~~~~~~~~~~i   98 (164)
T cd04175          73 GQGFVLVYSITAQSTFNDLQDLREQI   98 (164)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                    999999999999998887

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

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.79  E-value=7.2e-19  Score=119.40  Aligned_cols=81  Identities=26%  Similarity=0.452  Sum_probs=69.4

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeC---CEEEEEEECCCcccccccccc---
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDIN---TVRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~---~~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      +||+++|++|||||||+++ +.+.|...+.        ||++.++.  .+..+   .+.+.+||++|+++++.++..   
T Consensus         1 ~KivivG~~~vGKTsli~~l~~~~~~~~~~--------~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~   72 (201)
T cd04107           1 LKVLVIGDLGVGKTSIIKRYVHGIFSQHYK--------ATIGVDFALKVIEWDPNTVVRLQLWDIAGQERFGGMTRVYYR   72 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCC--------CceeEEEEEEEEEECCCCEEEEEEEECCCchhhhhhHHHHhC
Confidence            5899999999999999999 7777777776        99987764  45554   378999999999999888765   


Q ss_pred             ---------cccCccCHHHHHHHHhhh
Q psy9521          89 ---------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~  106 (125)
                               |++++.||+++..|+..+
T Consensus        73 ~a~~~ilv~D~t~~~s~~~~~~~~~~i   99 (201)
T cd04107          73 GAVGAIIVFDVTRPSTFEAVLKWKADL   99 (201)
T ss_pred             CCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                     999999999999998876

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.

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.79  E-value=8e-19  Score=116.44  Aligned_cols=80  Identities=26%  Similarity=0.523  Sum_probs=69.5

Q ss_pred             EEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-----
Q psy9521          19 CVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-----   88 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-----   88 (125)
                      ||+++|++|||||||+++ +.+.|.++|.        ||++.++.  .+..++  +.+++||++|+++|..++..     
T Consensus         2 ki~ivG~~~vGKTsli~~~~~~~f~~~~~--------~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a   73 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKDVFDKNYK--------ATIGVDFEMERFEILGVPFSLQLWDTAGQERFKCIASTYYRGA   73 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCC--------CceeeEEEEEEEEECCEEEEEEEEeCCChHHHHhhHHHHhcCC
Confidence            799999999999999999 7788888887        99988764  444454  78999999999999877666     


Q ss_pred             -------cccCccCHHHHHHHHhhh
Q psy9521          89 -------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -------Di~~~~s~~~i~~~l~~~  106 (125)
                             |.+++.||+.+..|++++
T Consensus        74 d~~ilv~d~~~~~s~~~~~~~~~~~   98 (170)
T cd04108          74 QAIIIVFDLTDVASLEHTRQWLEDA   98 (170)
T ss_pred             CEEEEEEECcCHHHHHHHHHHHHHH
Confidence                   999999999999999976

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

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

Probab=99.78  E-value=9.1e-19  Score=114.53  Aligned_cols=94  Identities=26%  Similarity=0.465  Sum_probs=75.6

Q ss_pred             EEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-----
Q psy9521          19 CVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-----   88 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-----   88 (125)
                      ||+++|+++||||||+++ ..+.|++++.        ||++.+..  .+..++  +.+++||++|++++..++..     
T Consensus         1 Ki~vvG~~~vGKtsl~~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~   72 (162)
T PF00071_consen    1 KIVVVGDSGVGKTSLINRLINGEFPENYI--------PTIGIDSYSKEVSIDGKPVNLEIWDTSGQERFDSLRDIFYRNS   72 (162)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSTTSSSE--------TTSSEEEEEEEEEETTEEEEEEEEEETTSGGGHHHHHHHHTTE
T ss_pred             CEEEECCCCCCHHHHHHHHHhhccccccc--------ccccccccccccccccccccccccccccccccccccccccccc
Confidence            799999999999999999 7788888887        99887765  444544  78999999999998776555     


Q ss_pred             -------cccCccCHHHHHHHHhhhcccccCCCCeEEEEee
Q psy9521          89 -------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 -------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                             |++++.||+++..|++.+  ......+.+++.+.
T Consensus        73 ~~~ii~fd~~~~~S~~~~~~~~~~i--~~~~~~~~~iivvg  111 (162)
T PF00071_consen   73 DAIIIVFDVTDEESFENLKKWLEEI--QKYKPEDIPIIVVG  111 (162)
T ss_dssp             SEEEEEEETTBHHHHHTHHHHHHHH--HHHSTTTSEEEEEE
T ss_pred             ccccccccccccccccccccccccc--cccccccccceeee
Confidence                   999999999999999998  22333445655553

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 ....

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

Probab=99.78  E-value=1.2e-18  Score=113.42  Aligned_cols=82  Identities=20%  Similarity=0.351  Sum_probs=67.7

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      ++||+++|++|||||||+++ +.+.|..++.        ||.+..+. .+..++  +.+.+||++|+++++.++..    
T Consensus         1 ~~ki~iiG~~~vGKTsl~~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~   72 (162)
T cd04138           1 EYKLVVVGAGGVGKSALTIQLIQNHFVDEYD--------PTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT   72 (162)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCcCCcC--------CcchheEEEEEEECCEEEEEEEEECCCCcchHHHHHHHHhc
Confidence            47899999999999999999 6677777776        78776553 444554  67889999999999887775    


Q ss_pred             --------cccCccCHHHHHHHHhhh
Q psy9521          89 --------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~  106 (125)
                              |++++.+|+++..|+..+
T Consensus        73 ~~~~i~v~~~~~~~s~~~~~~~~~~i   98 (162)
T cd04138          73 GEGFLCVFAINSRKSFEDIHTYREQI   98 (162)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                    899999999999888876

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.

>PLN00023 GTP-binding protein; Provisional

Probab=99.78  E-value=1e-18  Score=125.67  Aligned_cols=85  Identities=16%  Similarity=0.280  Sum_probs=73.0

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeC---------------CEEEEEEE
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDIN---------------TVRLNFWD   75 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~---------------~~~~~i~D   75 (125)
                      ...++||+++|+.|||||||+++ +.+.|..++.        ||+|.++.  .+..+               .+.++|||
T Consensus        18 ~~~~iKIVLLGdsGVGKTSLI~rf~~g~F~~~~~--------pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWD   89 (334)
T PLN00023         18 PCGQVRVLVVGDSGVGKSSLVHLIVKGSSIARPP--------QTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWD   89 (334)
T ss_pred             CccceEEEEECCCCCcHHHHHHHHhcCCcccccC--------CceeeeEEEEEEEECCcccccccccccCCceEEEEEEE
Confidence            34679999999999999999999 6777877776        99998763  34432               37899999


Q ss_pred             CCCcccccccccc------------cccCccCHHHHHHHHhhh
Q psy9521          76 LGGQLELQSLWDK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        76 ~~G~~~~~~~~~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      ++|+++|+.+++.            |++++.||+++..|++++
T Consensus        90 TAGqErfrsL~~~yyr~AdgiILVyDITdr~SFenL~kWl~eI  132 (334)
T PLN00023         90 VSGHERYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEV  132 (334)
T ss_pred             CCCChhhhhhhHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHH
Confidence            9999999998877            999999999999999998

>cd04176 Rap2 Rap2 subgroup

Probab=99.78  E-value=1.5e-18  Score=113.63  Aligned_cols=82  Identities=21%  Similarity=0.392  Sum_probs=68.0

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceee-EEEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNI-GQIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~-~~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      ++||+++|++|||||||+++ +.+.+.+++.        ||++..+ ..+..++  +.+++||++|++++..++..    
T Consensus         1 ~~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~   72 (163)
T cd04176           1 EYKVVVLGSGGVGKSALTVQFVSGTFIEKYD--------PTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKN   72 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCC--------CchhheEEEEEEECCEEEEEEEEECCCcccccchHHHHHhh
Confidence            47999999999999999999 7788877766        7775333 2455554  67899999999999988877    


Q ss_pred             --------cccCccCHHHHHHHHhhh
Q psy9521          89 --------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~  106 (125)
                              |++++.||+++..|+..+
T Consensus        73 ad~~i~v~d~~~~~s~~~~~~~~~~~   98 (163)
T cd04176          73 GQGFIVVYSLVNQQTFQDIKPMRDQI   98 (163)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                    999999999999998876

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

>cd04154 Arl2 Arl2 subfamily

Probab=99.78  E-value=2.2e-18  Score=114.32  Aligned_cols=86  Identities=35%  Similarity=0.609  Sum_probs=69.1

Q ss_pred             ccCceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc----
Q psy9521          13 LRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        13 ~~~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      .+.+++||+++|++|||||||++++.+.+...+.        ||+++.+..+..+++.+.+||++|++.++.+|..    
T Consensus        10 ~~~~~~kv~ivG~~~~GKTsL~~~l~~~~~~~~~--------~t~g~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~   81 (173)
T cd04154          10 LKEREMRILILGLDNAGKTTILKKLLGEDIDTIS--------PTLGFQIKTLEYEGYKLNIWDVGGQKTLRPYWRNYFES   81 (173)
T ss_pred             cCCCccEEEEECCCCCCHHHHHHHHccCCCCCcC--------CccccceEEEEECCEEEEEEECCCCHHHHHHHHHHhCC
Confidence            4457899999999999999999996554444444        8888777777778899999999999988777655    


Q ss_pred             --------cccCccCHHHHHHHHhhh
Q psy9521          89 --------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~  106 (125)
                              |.++..+|+++..|+..+
T Consensus        82 ~d~~i~v~d~~~~~s~~~~~~~~~~~  107 (173)
T cd04154          82 TDALIWVVDSSDRLRLDDCKRELKEL  107 (173)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                    888888888887666554

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.

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.78  E-value=1.2e-18  Score=114.03  Aligned_cols=97  Identities=22%  Similarity=0.471  Sum_probs=75.5

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +||+++|++|||||||+++ +.++|..++.        ||++.++.  .+..++  +.+++||++|++++..+++.    
T Consensus         1 ~ki~~vG~~~vGKTsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~   72 (168)
T cd04119           1 IKVISMGNSGVGKSCIIKRYCEGRFVSKYL--------PTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEVRNEFYKD   72 (168)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCC--------CccceeEEEEEEEECCeEEEEEEEECCccHHHHHHHHHHhcc
Confidence            5899999999999999999 6777777776        99988864  444444  88999999999988877665    


Q ss_pred             --------cccCccCHHHHHHHHhhhcccccCC----CCeEEEEeec
Q psy9521          89 --------DIRDCMGVREVKPIFNKNSAHLIGR----RDCMVMPVSA  123 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~~~~~~~~----~~~~i~~~sA  123 (125)
                              |.+++.+|+++..|+.++ ......    .+.+++.+..
T Consensus        73 ~d~~ilv~D~~~~~s~~~~~~~~~~~-~~~~~~~~~~~~~piilv~n  118 (168)
T cd04119          73 TQGVLLVYDVTDRQSFEALDSWLKEM-KQEGGPHGNMENIVVVVCAN  118 (168)
T ss_pred             CCEEEEEEECCCHHHHHhHHHHHHHH-HHhccccccCCCceEEEEEE
Confidence                    999999999999999987 222221    3456655543

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.

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.78  E-value=1.8e-18  Score=115.23  Aligned_cols=94  Identities=22%  Similarity=0.332  Sum_probs=74.0

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc-----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK-----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~-----   88 (125)
                      +||+++|++|||||||+.+ +.+.|.+++.        ||++..+. .+..++  +.+.+||++|++++..++..     
T Consensus         2 ~ki~iiG~~~vGKSsli~~~~~~~f~~~~~--------~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~   73 (174)
T cd01871           2 IKCVVVGDGAVGKTCLLISYTTNAFPGEYI--------PTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQT   73 (174)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCcCC--------CcceeeeEEEEEECCEEEEEEEEECCCchhhhhhhhhhcCCC
Confidence            6899999999999999999 7788888887        88875553 444554  78999999999999887765     


Q ss_pred             -------cccCccCHHHHH-HHHhhhcccccCCCCeEEEEee
Q psy9521          89 -------DIRDCMGVREVK-PIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 -------Di~~~~s~~~i~-~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                             |++++.||+++. .|+..+ ..  ...+.|++.+.
T Consensus        74 d~~ilv~d~~~~~sf~~~~~~~~~~~-~~--~~~~~piilvg  112 (174)
T cd01871          74 DVFLICFSLVSPASFENVRAKWYPEV-RH--HCPNTPIILVG  112 (174)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHH-HH--hCCCCCEEEEe
Confidence                   999999999996 588876 22  22345655553

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

>cd01865 Rab3 Rab3 subfamily

Probab=99.78  E-value=1.5e-18  Score=114.25  Aligned_cols=81  Identities=30%  Similarity=0.492  Sum_probs=68.5

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +||+++|++|||||||+++ +.++|...+.        ||++.++.  .+..++  +.+.+||++|++++..++..    
T Consensus         2 ~ki~i~G~~~~GKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~l~Dt~g~~~~~~~~~~~~~~   73 (165)
T cd01865           2 FKLLIIGNSSVGKTSFLFRYADDSFTSAFV--------STVGIDFKVKTVFRNDKRVKLQIWDTAGQERYRTITTAYYRG   73 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCC--------CceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHccC
Confidence            6899999999999999999 6777777776        88887664  444443  78999999999998887665    


Q ss_pred             --------cccCccCHHHHHHHHhhh
Q psy9521          89 --------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~  106 (125)
                              |.+++.+|+++..|++.+
T Consensus        74 ~~~~l~v~d~~~~~s~~~~~~~~~~i   99 (165)
T cd01865          74 AMGFILMYDITNEESFNAVQDWSTQI   99 (165)
T ss_pred             CcEEEEEEECCCHHHHHHHHHHHHHH
Confidence                    999999999999999887

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

>cd04127 Rab27A Rab27a subfamily

Probab=99.78  E-value=1.4e-18  Score=115.54  Aligned_cols=83  Identities=28%  Similarity=0.460  Sum_probs=69.8

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeC------------CEEEEEEECCCcc
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDIN------------TVRLNFWDLGGQL   80 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~------------~~~~~i~D~~G~~   80 (125)
                      ..+||+++|++|||||||+++ ..+.|.+++.        ||++.++.  .+...            .+.+.+||++|++
T Consensus         3 ~~~ki~ivG~~~vGKTsli~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~   74 (180)
T cd04127           3 YLIKFLALGDSGVGKTSFLYQYTDNKFNPKFI--------TTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQE   74 (180)
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCccCC--------CccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCChH
Confidence            468999999999999999999 6778877776        89987764  23322            3789999999999


Q ss_pred             cccccccc------------cccCccCHHHHHHHHhhh
Q psy9521          81 ELQSLWDK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        81 ~~~~~~~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      +++.++..            |++++.||++++.|+.++
T Consensus        75 ~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i  112 (180)
T cd04127          75 RFRSLTTAFFRDAMGFLLIFDLTNEQSFLNVRNWMSQL  112 (180)
T ss_pred             HHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence            98877665            999999999999999887

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

>KOG0093|consensus

Probab=99.78  E-value=1.2e-18  Score=111.51  Aligned_cols=96  Identities=24%  Similarity=0.412  Sum_probs=79.7

Q ss_pred             EEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEe--CCEEEEEEECCCcccccccccc-----
Q psy9521          19 CVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDI--NTVRLNFWDLGGQLELQSLWDK-----   88 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~--~~~~~~i~D~~G~~~~~~~~~~-----   88 (125)
                      |++++|.+.||||||+.| +...|...+.        .|+|+++.  ++-.  +.+++++|||+|||+|+.+...     
T Consensus        23 KlliiGnssvGKTSfl~ry~ddSFt~afv--------sTvGidFKvKTvyr~~kRiklQiwDTagqEryrtiTTayyRga   94 (193)
T KOG0093|consen   23 KLLIIGNSSVGKTSFLFRYADDSFTSAFV--------STVGIDFKVKTVYRSDKRIKLQIWDTAGQERYRTITTAYYRGA   94 (193)
T ss_pred             eEEEEccCCccchhhhHHhhcccccccee--------eeeeeeEEEeEeeecccEEEEEEEecccchhhhHHHHHHhhcc
Confidence            699999999999999999 8888888777        99999986  3222  2389999999999999998776     


Q ss_pred             -------cccCccCHHHHHHHHhhhcccccCCCCeEEEEeecc
Q psy9521          89 -------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSAL  124 (125)
Q Consensus        89 -------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~sA~  124 (125)
                             |++|..||..+++|..++  +...--+.+++.++.+
T Consensus        95 mgfiLmyDitNeeSf~svqdw~tqI--ktysw~naqvilvgnK  135 (193)
T KOG0093|consen   95 MGFILMYDITNEESFNSVQDWITQI--KTYSWDNAQVILVGNK  135 (193)
T ss_pred             ceEEEEEecCCHHHHHHHHHHHHHh--eeeeccCceEEEEecc
Confidence                   999999999999999998  3334556666666543

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

Probab=99.77  E-value=3.9e-18  Score=114.43  Aligned_cols=93  Identities=28%  Similarity=0.399  Sum_probs=68.0

Q ss_pred             hHHHHHhhh-ccCceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccc
Q psy9521           4 LVSGFYKYM-LRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLEL   82 (125)
Q Consensus         4 ~~~~~~~~~-~~~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~   82 (125)
                      -+..+++.+ ..++++||+++|++|||||||++++.+.....+.        ||.+.....+..+++++.+||++|++++
T Consensus         3 ~~~~~~~~~~~~~~~~~i~ivG~~~~GKTsli~~l~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~D~~G~~~~   74 (184)
T smart00178        3 WFYDILASLGLWNKHAKILFLGLDNAGKTTLLHMLKNDRLAQHQ--------PTQHPTSEELAIGNIKFTTFDLGGHQQA   74 (184)
T ss_pred             HHHHHHHHhccccccCEEEEECCCCCCHHHHHHHHhcCCCcccC--------CccccceEEEEECCEEEEEEECCCCHHH
Confidence            456778844 2378999999999999999999996543222333        7777777777778899999999999988


Q ss_pred             cccccc------------cccCccCHHHHHHHHh
Q psy9521          83 QSLWDK------------DIRDCMGVREVKPIFN  104 (125)
Q Consensus        83 ~~~~~~------------Di~~~~s~~~i~~~l~  104 (125)
                      +.+|..            |.+++.++++...++.
T Consensus        75 ~~~~~~~~~~ad~ii~vvD~~~~~~~~~~~~~l~  108 (184)
T smart00178       75 RRLWKDYFPEVNGIVYLVDAYDKERFAESKRELD  108 (184)
T ss_pred             HHHHHHHhCCCCEEEEEEECCcHHHHHHHHHHHH
Confidence            877666            5555555555544433

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

>KOG0075|consensus

Probab=99.77  E-value=4.3e-19  Score=113.41  Aligned_cols=106  Identities=25%  Similarity=0.515  Sum_probs=94.7

Q ss_pred             HhhhccCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccccccccc
Q psy9521           9 YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWD   87 (125)
Q Consensus         9 ~~~~~~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~   87 (125)
                      +..+|.+.++.+.++|.+++|||||++. ..+.+.+...        ||+|++...++..++.+.+||++||.+++++|.
T Consensus        12 i~~~f~k~emel~lvGLq~sGKtt~Vn~ia~g~~~edmi--------ptvGfnmrk~tkgnvtiklwD~gGq~rfrsmWe   83 (186)
T KOG0075|consen   12 ICNSFWKEEMELSLVGLQNSGKTTLVNVIARGQYLEDMI--------PTVGFNMRKVTKGNVTIKLWDLGGQPRFRSMWE   83 (186)
T ss_pred             HHHHHHHheeeEEEEeeccCCcceEEEEEeeccchhhhc--------ccccceeEEeccCceEEEEEecCCCccHHHHHH
Confidence            4455778999999999999999999999 6778888777        999999999988889999999999999999998


Q ss_pred             c------------------------------------------------cccCccCHHHHHHHHhhhcccccCCCCeEEE
Q psy9521          88 K------------------------------------------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVM  119 (125)
Q Consensus        88 ~------------------------------------------------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~  119 (125)
                      .                                                |.+++.+-+++-..+.+.   .+.+|.+.++
T Consensus        84 rycR~v~aivY~VDaad~~k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~AL~~~~li~rmgL~---sitdREvcC~  160 (186)
T KOG0075|consen   84 RYCRGVSAIVYVVDAADPDKLEASRSELHDLLDKPSLTGIPLLVLGNKIDLPGALSKIALIERMGLS---SITDREVCCF  160 (186)
T ss_pred             HHhhcCcEEEEEeecCCcccchhhHHHHHHHhcchhhcCCcEEEecccccCcccccHHHHHHHhCcc---ccccceEEEE
Confidence            7                                                888888888888888876   8999999999


Q ss_pred             EeeccC
Q psy9521         120 PVSALT  125 (125)
Q Consensus       120 ~~sA~~  125 (125)
                      .+||+.
T Consensus       161 siScke  166 (186)
T KOG0075|consen  161 SISCKE  166 (186)
T ss_pred             EEEEcC
Confidence            999873

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

Probab=99.77  E-value=2e-18  Score=114.02  Aligned_cols=81  Identities=28%  Similarity=0.562  Sum_probs=68.8

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEe--C--CEEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDI--N--TVRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~--~--~~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +||+++|++|||||||+++ +.+.+..++.        ||++.++..+..  +  .+.+.+||++|++++..++..    
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~   72 (166)
T cd00877           1 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYV--------ATLGVEVHPLDFHTNRGKIRFNVWDTAGQEKFGGLRDGYYIG   72 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCC--------CceeeEEEEEEEEECCEEEEEEEEECCCChhhccccHHHhcC
Confidence            4899999999999999999 6777777776        999888764433  2  388999999999998877654    


Q ss_pred             --------cccCccCHHHHHHHHhhh
Q psy9521          89 --------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~  106 (125)
                              |++++.||++++.|+..+
T Consensus        73 ~d~~i~v~d~~~~~s~~~~~~~~~~i   98 (166)
T cd00877          73 GQCAIIMFDVTSRVTYKNVPNWHRDL   98 (166)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                    999999999999999988

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

>KOG0081|consensus

Probab=99.77  E-value=2.4e-20  Score=120.65  Aligned_cols=90  Identities=28%  Similarity=0.548  Sum_probs=75.6

Q ss_pred             HhhhccCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEE--EEeC-----------CEEEEEE
Q psy9521           9 YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQ--IDIN-----------TVRLNFW   74 (125)
Q Consensus         9 ~~~~~~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~--~~~~-----------~~~~~i~   74 (125)
                      |+++.+     .+.+|++|||||+++++ ..++|..+..        .|+|+++.+  +..+           .+.+++|
T Consensus         6 ydylik-----fLaLGDSGVGKTs~Ly~YTD~~F~~qFI--------sTVGIDFreKrvvY~s~gp~g~gr~~rihLQlW   72 (219)
T KOG0081|consen    6 YDYLIK-----FLALGDSGVGKTSFLYQYTDGKFNTQFI--------STVGIDFREKRVVYNSSGPGGGGRGQRIHLQLW   72 (219)
T ss_pred             HHHHHH-----HHhhccCCCCceEEEEEecCCcccceeE--------EEeecccccceEEEeccCCCCCCcceEEEEeee
Confidence            555544     89999999999999999 8899998887        999999862  2221           1789999


Q ss_pred             ECCCcccccccccc------------cccCccCHHHHHHHHhhhccccc
Q psy9521          75 DLGGQLELQSLWDK------------DIRDCMGVREVKPIFNKNSAHLI  111 (125)
Q Consensus        75 D~~G~~~~~~~~~~------------Di~~~~s~~~i~~~l~~~~~~~~  111 (125)
                      ||+|||+|+++...            |+++..||-+++.|+.++..|..
T Consensus        73 DTAGQERFRSLTTAFfRDAMGFlLiFDlT~eqSFLnvrnWlSQL~~hAY  121 (219)
T KOG0081|consen   73 DTAGQERFRSLTTAFFRDAMGFLLIFDLTSEQSFLNVRNWLSQLQTHAY  121 (219)
T ss_pred             ccccHHHHHHHHHHHHHhhccceEEEeccchHHHHHHHHHHHHHHHhhc
Confidence            99999999998776            99999999999999999854444

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.77  E-value=3.3e-18  Score=113.76  Aligned_cols=94  Identities=34%  Similarity=0.552  Sum_probs=76.0

Q ss_pred             hHHHHHhhhccCceEEEEEEeCCCCcHHHHHHHH-hhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccc
Q psy9521           4 LVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESA-KTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLEL   82 (125)
Q Consensus         4 ~~~~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i-~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~   82 (125)
                      ++.++++.++.++.+||+++|++|||||||++++ .+.+.. +.        ||++.++..+..+++.+.+||++|++++
T Consensus         2 ~~~~~~~~~~~~~~~kv~~~G~~~~GKTsl~~~l~~~~~~~-~~--------~t~~~~~~~~~~~~~~~~l~D~~G~~~~   72 (174)
T cd04153           2 LFSSLWSLFFPRKEYKVIIVGLDNAGKTTILYQFLLGEVVH-TS--------PTIGSNVEEIVYKNIRFLMWDIGGQESL   72 (174)
T ss_pred             chhHHHHHhcCCCccEEEEECCCCCCHHHHHHHHccCCCCC-cC--------CccccceEEEEECCeEEEEEECCCCHHH
Confidence            4567888887777899999999999999999995 555543 33        8888888878888899999999999988


Q ss_pred             cccccc------------cccCccCHHHHHHHHhhh
Q psy9521          83 QSLWDK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        83 ~~~~~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      +..|..            |.++..+|.+++.++..+
T Consensus        73 ~~~~~~~~~~~d~vi~V~D~s~~~~~~~~~~~l~~~  108 (174)
T cd04153          73 RSSWNTYYTNTDAVILVIDSTDRERLPLTKEELYKM  108 (174)
T ss_pred             HHHHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence            777665            888888887776655543

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.

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.77  E-value=2.7e-18  Score=112.81  Aligned_cols=81  Identities=14%  Similarity=0.115  Sum_probs=64.2

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEeCC--EEEEEEECCCcccccccccc------
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINT--VRLNFWDLGGQLELQSLWDK------   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~i~D~~G~~~~~~~~~~------   88 (125)
                      +||+++|++|||||||+.+ +.+.|.+++.        |+.+.....+..++  +.+.+||++|++........      
T Consensus         1 ~ki~vvG~~gvGKTsli~~~~~~~f~~~~~--------~~~~~~~~~i~~~~~~~~l~i~D~~g~~~~~~~~~~~~~ilv   72 (158)
T cd04103           1 LKLGIVGNLQSGKSALVHRYLTGSYVQLES--------PEGGRFKKEVLVDGQSHLLLIRDEGGAPDAQFASWVDAVIFV   72 (158)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhCCCCCCCC--------CCccceEEEEEECCEEEEEEEEECCCCCchhHHhcCCEEEEE
Confidence            4899999999999999999 7788877665        55444334566666  77999999999864333222      


Q ss_pred             -cccCccCHHHHHHHHhhh
Q psy9521          89 -DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -Di~~~~s~~~i~~~l~~~  106 (125)
                       |++++.||+++..|++++
T Consensus        73 ~d~~~~~sf~~~~~~~~~i   91 (158)
T cd04103          73 FSLENEASFQTVYNLYHQL   91 (158)
T ss_pred             EECCCHHHHHHHHHHHHHH
Confidence             999999999999999987

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.

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.77  E-value=1.6e-18  Score=113.74  Aligned_cols=80  Identities=29%  Similarity=0.578  Sum_probs=66.9

Q ss_pred             EEEEEEeCCCCcHHHHHHHH-hhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc--------
Q psy9521          18 FCVLILGLDNAGKTTYLESA-KTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK--------   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i-~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~--------   88 (125)
                      +||+++|++|||||||++++ .+.|. .+.        ||++.++..+...++.+.+||++|+++++.+|..        
T Consensus         1 ~kv~~~G~~~~GKTsli~~l~~~~~~-~~~--------pt~g~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~ad~~   71 (159)
T cd04150           1 MRILMVGLDAAGKTTILYKLKLGEIV-TTI--------PTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGL   71 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCc-ccC--------CCCCcceEEEEECCEEEEEEECCCCHhHHHHHHHHhcCCCEE
Confidence            48999999999999999994 66665 344        8999888777777899999999999998887766        


Q ss_pred             ----cccCccCHHHHHHHHhhh
Q psy9521          89 ----DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----Di~~~~s~~~i~~~l~~~  106 (125)
                          |.+++.+|+++..|+..+
T Consensus        72 i~v~D~~~~~s~~~~~~~~~~~   93 (159)
T cd04150          72 IFVVDSNDRERIGEAREELQRM   93 (159)
T ss_pred             EEEEeCCCHHHHHHHHHHHHHH
Confidence                888888898888766554

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

>cd04134 Rho3 Rho3 subfamily

Probab=99.77  E-value=3.5e-18  Score=115.06  Aligned_cols=93  Identities=24%  Similarity=0.340  Sum_probs=73.1

Q ss_pred             EEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc------
Q psy9521          19 CVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK------   88 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~------   88 (125)
                      ||+++|++|||||||+++ +.+.|..++.        ||++.++. .+..++  +.+++||++|+++++.++..      
T Consensus         2 kivivG~~~vGKTsli~~~~~~~~~~~~~--------~t~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~a~   73 (189)
T cd04134           2 KVVVLGDGACGKTSLLNVFTRGYFPQVYE--------PTVFENYVHDIFVDGLHIELSLWDTAGQEEFDRLRSLSYADTD   73 (189)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCccC--------CcceeeeEEEEEECCEEEEEEEEECCCChhccccccccccCCC
Confidence            799999999999999999 6778877776        88887764 344444  78999999999999888765      


Q ss_pred             ------cccCccCHHHHH-HHHhhhcccccCCCCeEEEEee
Q psy9521          89 ------DIRDCMGVREVK-PIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 ------Di~~~~s~~~i~-~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                            |++++.||+++. .|+..+ ....  ...|++.+.
T Consensus        74 ~~ilv~dv~~~~sf~~~~~~~~~~i-~~~~--~~~piilvg  111 (189)
T cd04134          74 VIMLCFSVDSPDSLENVESKWLGEI-REHC--PGVKLVLVA  111 (189)
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHH-HHhC--CCCCEEEEE
Confidence                  999999999997 599887 2222  345555544

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.

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.77  E-value=2.8e-18  Score=113.19  Aligned_cols=79  Identities=27%  Similarity=0.476  Sum_probs=67.9

Q ss_pred             EEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc----------
Q psy9521          20 VLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK----------   88 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~----------   88 (125)
                      |+++|++|||||||+++ ..+.+..++.        ||++.+...+...++++.+||++|+++++.+|..          
T Consensus         2 i~ivG~~~vGKTsli~~~~~~~~~~~~~--------pt~g~~~~~i~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~   73 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSERSLESVV--------PTTGFNSVAIPTQDAIMELLEIGGSQNLRKYWKRYLSGSQGLIF   73 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCccccc--------ccCCcceEEEeeCCeEEEEEECCCCcchhHHHHHHHhhCCEEEE
Confidence            79999999999999999 5566766666        9998877667777899999999999999988876          


Q ss_pred             --cccCccCHHHHHHHHhhh
Q psy9521          89 --DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --Di~~~~s~~~i~~~l~~~  106 (125)
                        |.+++.+|++++.|+..+
T Consensus        74 V~D~t~~~s~~~~~~~l~~~   93 (164)
T cd04162          74 VVDSADSERLPLARQELHQL   93 (164)
T ss_pred             EEECCCHHHHHHHHHHHHHH
Confidence              888888999888887766

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.

>cd04110 Rab35 Rab35 subfamily

Probab=99.77  E-value=4e-18  Score=115.68  Aligned_cols=83  Identities=29%  Similarity=0.532  Sum_probs=70.0

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      ..+||+++|++|||||||+++ +.+.|..++.        ||++.++.  .+..++  +.+.+||++|+++++.++..  
T Consensus         5 ~~~kivvvG~~~vGKTsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~   76 (199)
T cd04110           5 HLFKLLIIGDSGVGKSSLLLRFADNTFSGSYI--------TTIGVDFKIRTVEINGERVKLQIWDTAGQERFRTITSTYY   76 (199)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhcCCCCCCcC--------ccccceeEEEEEEECCEEEEEEEEeCCCchhHHHHHHHHh
Confidence            468999999999999999999 6677776666        89887764  455554  68999999999998877664  


Q ss_pred             ----------cccCccCHHHHHHHHhhh
Q psy9521          89 ----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~  106 (125)
                                |++++.||+++..|++.+
T Consensus        77 ~~a~~iilv~D~~~~~s~~~~~~~~~~i  104 (199)
T cd04110          77 RGTHGVIVVYDVTNGESFVNVKRWLQEI  104 (199)
T ss_pred             CCCcEEEEEEECCCHHHHHHHHHHHHHH
Confidence                      999999999999999887

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

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.76  E-value=5e-18  Score=111.58  Aligned_cols=82  Identities=26%  Similarity=0.535  Sum_probs=67.9

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc---
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      .+||+++|++|||||||+++ +.+.|...+.        ||.+.++.  .+..++  +.+.+||++|++++..++..   
T Consensus         2 ~~ki~i~G~~~vGKSsli~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~   73 (166)
T cd01869           2 LFKLLLIGDSGVGKSCLLLRFADDTYTESYI--------STIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYR   73 (166)
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCCCCC--------CccceeEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhC
Confidence            37899999999999999999 6667766665        88876654  455554  68999999999998877654   


Q ss_pred             ---------cccCccCHHHHHHHHhhh
Q psy9521          89 ---------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~  106 (125)
                               |.+++.||+++..|+..+
T Consensus        74 ~~~~ii~v~d~~~~~s~~~l~~~~~~~  100 (166)
T cd01869          74 GAHGIIIVYDVTDQESFNNVKQWLQEI  100 (166)
T ss_pred             cCCEEEEEEECcCHHHHHhHHHHHHHH
Confidence                     999999999999999886

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

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.76  E-value=6.7e-18  Score=111.68  Aligned_cols=82  Identities=20%  Similarity=0.483  Sum_probs=67.6

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCccccc-ccccc--
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQ-SLWDK--   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~-~~~~~--   88 (125)
                      .+||+++|++|||||||+++ +.+.++.++.        +|++.++.  .+..++  +.+++||++|+++++ .++..  
T Consensus         2 ~~ki~vvG~~~vGKTsli~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~   73 (170)
T cd04115           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPERTE--------ATIGVDFRERTVEIDGERIKVQLWDTAGQERFRKSMVQHYY   73 (170)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCCccc--------cceeEEEEEEEEEECCeEEEEEEEeCCChHHHHHhhHHHhh
Confidence            57999999999999999999 6677776666        88887764  455555  789999999999886 34333  


Q ss_pred             ----------cccCccCHHHHHHHHhhh
Q psy9521          89 ----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~  106 (125)
                                |++++.||+++..|+.++
T Consensus        74 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~  101 (170)
T cd04115          74 RNVHAVVFVYDVTNMASFHSLPSWIEEC  101 (170)
T ss_pred             cCCCEEEEEEECCCHHHHHhHHHHHHHH
Confidence                      999999999999999876

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

>cd04111 Rab39 Rab39 subfamily

Probab=99.76  E-value=5.7e-18  Score=116.06  Aligned_cols=82  Identities=24%  Similarity=0.508  Sum_probs=68.9

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeC---CEEEEEEECCCcccccccccc--
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDIN---TVRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~---~~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      ++||+++|++|||||||+++ +.+.+...+.        ||++.++.  .+...   .+.+++||++|++++..++..  
T Consensus         2 ~~KIvvvG~~~vGKTsLi~~l~~~~~~~~~~--------~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~   73 (211)
T cd04111           2 QFRLIVIGDSTVGKSSLLKRFTEGRFAEVSD--------PTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSITRSYY   73 (211)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCCCC--------ceeceEEEEEEEEECCCCEEEEEEEeCCcchhHHHHHHHHh
Confidence            58999999999999999999 6677777666        88887764  34432   278999999999998877654  


Q ss_pred             ----------cccCccCHHHHHHHHhhh
Q psy9521          89 ----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~  106 (125)
                                |++++.||+++..|+.++
T Consensus        74 ~~~d~iilv~D~~~~~Sf~~l~~~~~~i  101 (211)
T cd04111          74 RNSVGVLLVFDITNRESFEHVHDWLEEA  101 (211)
T ss_pred             cCCcEEEEEEECCCHHHHHHHHHHHHHH
Confidence                      999999999999999987

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.

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.76  E-value=5.4e-18  Score=111.74  Aligned_cols=82  Identities=22%  Similarity=0.507  Sum_probs=69.7

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc---
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      .+||+++|++|||||||+++ ..+.|..++.        ||++.++.  .+..++  +.+.+||++|++++..++..   
T Consensus         3 ~~ki~vvG~~~~GKSsl~~~~~~~~f~~~~~--------~t~~~~~~~~~~~~~~~~~~l~l~D~~g~~~~~~~~~~~~~   74 (167)
T cd01867           3 LFKLLLIGDSGVGKSCLLLRFSEDSFNPSFI--------STIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTITTAYYR   74 (167)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhCcCCcccc--------cCccceEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhC
Confidence            47899999999999999999 6677877776        88887764  455554  78999999999998877654   


Q ss_pred             ---------cccCccCHHHHHHHHhhh
Q psy9521          89 ---------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~  106 (125)
                               |++++.||+++..|+..+
T Consensus        75 ~ad~~i~v~d~~~~~s~~~~~~~~~~i  101 (167)
T cd01867          75 GAMGIILVYDITDEKSFENIRNWMRNI  101 (167)
T ss_pred             CCCEEEEEEECcCHHHHHhHHHHHHHH
Confidence                     999999999999999987

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.76  E-value=3.4e-18  Score=111.69  Aligned_cols=81  Identities=31%  Similarity=0.512  Sum_probs=68.0

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeC----CEEEEEEECCCcccccccccc--
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDIN----TVRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~----~~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      +||+++|++|||||||+++ ..+.|.+++.        ||++.++.  .+..+    .+.+++||++|+++++.++..  
T Consensus         1 ~kv~~vG~~~~GKTsl~~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   72 (162)
T cd04106           1 IKVIVVGNGNVGKSSMIQRFVKGIFTKDYK--------KTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAITKAYY   72 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCC--------CcEEEEEEEEEEEEcCCCCEEEEEEeeCCchHHHHHhHHHHh
Confidence            4899999999999999999 6677776666        89888874  34433    488999999999999887765  


Q ss_pred             ----------cccCccCHHHHHHHHhhh
Q psy9521          89 ----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~  106 (125)
                                |++++.||+++..|+.++
T Consensus        73 ~~~~~~v~v~d~~~~~s~~~l~~~~~~~  100 (162)
T cd04106          73 RGAQACILVFSTTDRESFEAIESWKEKV  100 (162)
T ss_pred             cCCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                      999999999999999876

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

>cd01864 Rab19 Rab19 subfamily

Probab=99.75  E-value=6.1e-18  Score=111.18  Aligned_cols=83  Identities=23%  Similarity=0.442  Sum_probs=68.8

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      ..+||+++|++|||||||+++ +.+.+..++.        +|.+.++.  .+..++  +.+.+||++|++++..++..  
T Consensus         2 ~~~kv~vvG~~~~GKTsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~   73 (165)
T cd01864           2 FLFKIILIGDSNVGKTCVVQRFKSGTFSERQG--------NTIGVDFTMKTLEIEGKRVKLQIWDTAGQERFRTITQSYY   73 (165)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhhCCCcccCC--------CccceEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHh
Confidence            357899999999999999999 6677777665        78776553  555555  68999999999988776544  


Q ss_pred             ----------cccCccCHHHHHHHHhhh
Q psy9521          89 ----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~  106 (125)
                                |.+++.||++++.|+..+
T Consensus        74 ~~~d~~llv~d~~~~~s~~~~~~~~~~i  101 (165)
T cd01864          74 RSANGAIIAYDITRRSSFESVPHWIEEV  101 (165)
T ss_pred             ccCCEEEEEEECcCHHHHHhHHHHHHHH
Confidence                      999999999999999987

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.

>cd04124 RabL2 RabL2 subfamily

Probab=99.75  E-value=6.3e-18  Score=110.97  Aligned_cols=81  Identities=19%  Similarity=0.395  Sum_probs=66.4

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeC--CEEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDIN--TVRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~--~~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +||+++|++|||||||+++ +.+.|.+.+.        +|.+.++.  .+..+  .+.+++||++|+++++.++..    
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~   72 (161)
T cd04124           1 VKIILLGDSAVGKSKLVERFLMDGYEPQQL--------STYALTLYKHNAKFEGKTILVDFWDTAGQERFQTMHASYYHK   72 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcC--------CceeeEEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhCC
Confidence            5899999999999999999 7777776665        67665543  23333  378999999999999888776    


Q ss_pred             --------cccCccCHHHHHHHHhhh
Q psy9521          89 --------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~  106 (125)
                              |.+++.+|+++..|+..+
T Consensus        73 ~d~~i~v~d~~~~~s~~~~~~~~~~i   98 (161)
T cd04124          73 AHACILVFDVTRKITYKNLSKWYEEL   98 (161)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                    999999999999999877

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

>cd04126 Rab20 Rab20 subfamily

Probab=99.75  E-value=5.3e-18  Score=116.96  Aligned_cols=95  Identities=23%  Similarity=0.369  Sum_probs=74.7

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc--------
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK--------   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~--------   88 (125)
                      +||+++|++|||||||+++ +.++|.. +.        ||++.++.......+.+.+||++|+++|+.++..        
T Consensus         1 ~KIvivG~~~vGKTSLi~r~~~~~f~~-~~--------~Tig~~~~~~~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~   71 (220)
T cd04126           1 LKVVLLGDMNVGKTSLLHRYMERRFKD-TV--------STVGGAFYLKQWGPYNISIWDTAGREQFHGLGSMYCRGAAAV   71 (220)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCCCC-CC--------CccceEEEEEEeeEEEEEEEeCCCcccchhhHHHHhccCCEE
Confidence            5899999999999999999 6677753 44        8898877655556688999999999999888775        


Q ss_pred             ----cccCccCHHHHHHHHhhhcccccCCCCeEEEEeec
Q psy9521          89 ----DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSA  123 (125)
Q Consensus        89 ----Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~sA  123 (125)
                          |++++.||+++..|+..+  ......+++++.+..
T Consensus        72 IlV~Dvt~~~Sf~~l~~~~~~l--~~~~~~~~piIlVgN  108 (220)
T cd04126          72 ILTYDVSNVQSLEELEDRFLGL--TDTANEDCLFAVVGN  108 (220)
T ss_pred             EEEEECCCHHHHHHHHHHHHHH--HHhcCCCCcEEEEEE
Confidence                999999999999877765  122334566655543

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

>cd04116 Rab9 Rab9 subfamily

Probab=99.75  E-value=8.3e-18  Score=110.93  Aligned_cols=84  Identities=21%  Similarity=0.418  Sum_probs=69.9

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      ...+||+++|++|||||||+++ +.+.|.+++.        +|++.++.  .+..++  +.+.+||++|+++++.++.. 
T Consensus         3 ~~~~ki~vvG~~~~GKTsli~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~   74 (170)
T cd04116           3 SSLLKVILLGDGGVGKSSLMNRYVTNKFDTQLF--------HTIGVEFLNKDLEVDGHFVTLQIWDTAGQERFRSLRTPF   74 (170)
T ss_pred             ceEEEEEEECCCCCCHHHHHHHHHcCCCCcCcC--------CceeeEEEEEEEEECCeEEEEEEEeCCChHHHHHhHHHH
Confidence            3568999999999999999999 6777777666        88887753  444444  78999999999999887765 


Q ss_pred             -----------cccCccCHHHHHHHHhhh
Q psy9521          89 -----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~  106 (125)
                                 |++++.||+++..|+.++
T Consensus        75 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~  103 (170)
T cd04116          75 YRGSDCCLLTFAVDDSQSFQNLSNWKKEF  103 (170)
T ss_pred             hcCCCEEEEEEECCCHHHHHhHHHHHHHH
Confidence                       999999999999998866

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

>KOG0088|consensus

Probab=99.75  E-value=1.2e-18  Score=112.70  Aligned_cols=97  Identities=22%  Similarity=0.314  Sum_probs=77.3

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEe--CCEEEEEEECCCcccccccccc--
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDI--NTVRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~--~~~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      -++|++++|++.||||||+-| +.++|.....        .|+-..+.  .+.+  ....++||||+|||+|..+-+.  
T Consensus        12 ~~FK~VLLGEGCVGKtSLVLRy~EnkFn~kHl--------sTlQASF~~kk~n~ed~ra~L~IWDTAGQErfHALGPIYY   83 (218)
T KOG0088|consen   12 FKFKIVLLGEGCVGKTSLVLRYVENKFNCKHL--------STLQASFQNKKVNVEDCRADLHIWDTAGQERFHALGPIYY   83 (218)
T ss_pred             eeeEEEEEcCCccchhHHHHHHHHhhcchhhH--------HHHHHHHhhcccccccceeeeeeeeccchHhhhccCceEE
Confidence            468899999999999999999 8899988776        66644332  3333  3488999999999999998776  


Q ss_pred             ----------cccCccCHHHHHHHHhhhcccccCCCCeEEEEee
Q psy9521          89 ----------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                                |++++.||+.++.|..++  +..-...+.++.+.
T Consensus        84 RgSnGalLVyDITDrdSFqKVKnWV~El--r~mlGnei~l~IVG  125 (218)
T KOG0088|consen   84 RGSNGALLVYDITDRDSFQKVKNWVLEL--RTMLGNEIELLIVG  125 (218)
T ss_pred             eCCCceEEEEeccchHHHHHHHHHHHHH--HHHhCCeeEEEEec
Confidence                      999999999999999997  44445555555543

>cd04158 ARD1 ARD1 subfamily

Probab=99.75  E-value=8.1e-18  Score=111.32  Aligned_cols=79  Identities=33%  Similarity=0.595  Sum_probs=66.3

Q ss_pred             EEEEEeCCCCcHHHHHHHH-hhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc---------
Q psy9521          19 CVLILGLDNAGKTTYLESA-KTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK---------   88 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i-~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~---------   88 (125)
                      ||+++|++|||||||++++ .+.+. ++.        ||++.++..++.+++.+.+||++|+++++.+|..         
T Consensus         1 ~vvlvG~~~~GKTsl~~~l~~~~~~-~~~--------~T~~~~~~~~~~~~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii   71 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQDEFM-QPI--------PTIGFNVETVEYKNLKFTIWDVGGKHKLRPLWKHYYLNTQAVV   71 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCC-CcC--------CcCceeEEEEEECCEEEEEEECCCChhcchHHHHHhccCCEEE
Confidence            5899999999999999995 44443 344        8999888777788899999999999998877755         


Q ss_pred             ---cccCccCHHHHHHHHhhh
Q psy9521          89 ---DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ---Di~~~~s~~~i~~~l~~~  106 (125)
                         |.+++.+|+++..|+..+
T Consensus        72 ~V~D~s~~~s~~~~~~~~~~~   92 (169)
T cd04158          72 FVVDSSHRDRVSEAHSELAKL   92 (169)
T ss_pred             EEEeCCcHHHHHHHHHHHHHH
Confidence               888889999998887776

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

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.75  E-value=6.9e-18  Score=111.58  Aligned_cols=80  Identities=33%  Similarity=0.555  Sum_probs=68.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc----------
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK----------   88 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~----------   88 (125)
                      +|+++|++|||||||++++.+.+..++.        ||+|.+...+..+++.+++||++|+++++.+|..          
T Consensus         1 ~i~~~G~~~~GKTsl~~~l~~~~~~~~~--------~t~g~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~   72 (167)
T cd04161           1 TLLTVGLDNAGKTTLVSALQGEIPKKVA--------PTVGFTPTKLRLDKYEVCIFDLGGGANFRGIWVNYYAEAHGLVF   72 (167)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCCcccc--------CcccceEEEEEECCEEEEEEECCCcHHHHHHHHHHHcCCCEEEE
Confidence            4899999999999999997666776666        9999887777888899999999999999888766          


Q ss_pred             --cccCccCHHHHHHHHhhh
Q psy9521          89 --DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --Di~~~~s~~~i~~~l~~~  106 (125)
                        |.++..+|++++.|+..+
T Consensus        73 V~D~s~~~s~~~~~~~l~~l   92 (167)
T cd04161          73 VVDSSDDDRVQEVKEILREL   92 (167)
T ss_pred             EEECCchhHHHHHHHHHHHH
Confidence              888888999988887754

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.

>PLN03110 Rab GTPase; Provisional

Probab=99.75  E-value=1.2e-17  Score=114.87  Aligned_cols=83  Identities=20%  Similarity=0.425  Sum_probs=70.4

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      ..+||+++|++|||||||+++ +.+.+..++.        ||++.++.  .+..++  +.+.+||++|++++..++..  
T Consensus        11 ~~~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~--------~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~~~~~~~~~~~~   82 (216)
T PLN03110         11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESK--------STIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYY   82 (216)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhcCCCCCCCC--------CceeEEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHh
Confidence            458999999999999999999 6677776666        99988874  455554  78999999999999887665  


Q ss_pred             ----------cccCccCHHHHHHHHhhh
Q psy9521          89 ----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~  106 (125)
                                |++++.+|+++..|+..+
T Consensus        83 ~~~~~~ilv~d~~~~~s~~~~~~~~~~~  110 (216)
T PLN03110         83 RGAVGALLVYDITKRQTFDNVQRWLREL  110 (216)
T ss_pred             CCCCEEEEEEECCChHHHHHHHHHHHHH
Confidence                      899999999999999876

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.75  E-value=7.9e-18  Score=112.74  Aligned_cols=81  Identities=26%  Similarity=0.354  Sum_probs=67.3

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeC---CEEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDIN---TVRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~---~~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +||+++|++|||||||+++ +.+.|..++.        ||++.++. .+...   .+.+.+||++|++++..+++.    
T Consensus         1 ~ki~vvG~~~vGKTsli~~l~~~~~~~~~~--------~t~~~~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~   72 (187)
T cd04132           1 KKIVVVGDGGCGKTCLLIVYSQGKFPEEYV--------PTVFENYVTNIQGPNGKIIELALWDTAGQEEYDRLRPLSYPD   72 (187)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCCCC--------CeeeeeeEEEEEecCCcEEEEEEEECCCchhHHHHHHHhCCC
Confidence            4899999999999999999 7777877776        88887764 44443   378999999999998877665    


Q ss_pred             --------cccCccCHHHHH-HHHhhh
Q psy9521          89 --------DIRDCMGVREVK-PIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~-~~l~~~  106 (125)
                              |+++..||+++. .|+..+
T Consensus        73 ad~ii~v~d~~~~~s~~~~~~~~~~~~   99 (187)
T cd04132          73 VDVLLICYAVDNPTSLDNVEDKWFPEV   99 (187)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHH
Confidence                    999999999997 488776

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.

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

Probab=99.75  E-value=1.3e-17  Score=109.07  Aligned_cols=83  Identities=19%  Similarity=0.344  Sum_probs=68.0

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc---
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      +.+||+++|++|||||||+++ +.+.+..++.        ||.+..+. ....++  +.+++||++|++++..++..   
T Consensus         1 ~~~ki~i~G~~~~GKtsl~~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~   72 (164)
T cd04145           1 PTYKLVVVGGGGVGKSALTIQFIQSYFVTDYD--------PTIEDSYTKQCEIDGQWAILDILDTAGQEEFSAMREQYMR   72 (164)
T ss_pred             CceEEEEECCCCCcHHHHHHHHHhCCCCcccC--------CCccceEEEEEEECCEEEEEEEEECCCCcchhHHHHHHHh
Confidence            358999999999999999999 7777666665        77765543 344444  78999999999999887765   


Q ss_pred             ---------cccCccCHHHHHHHHhhh
Q psy9521          89 ---------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~  106 (125)
                               |++++.+|+++..|+..+
T Consensus        73 ~~~~~ilv~d~~~~~s~~~~~~~~~~~   99 (164)
T cd04145          73 TGEGFLLVFSVTDRGSFEEVDKFHTQI   99 (164)
T ss_pred             hCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                     999999999999998876

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

>cd01868 Rab11_like Rab11-like

Probab=99.74  E-value=1.1e-17  Score=109.75  Aligned_cols=96  Identities=21%  Similarity=0.421  Sum_probs=73.7

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc---
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      .+||+++|++|||||||+++ +.+.+..++.        ||.+.++.  .+..++  +.+.+||++|++++..++..   
T Consensus         3 ~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~   74 (165)
T cd01868           3 LFKIVLIGDSGVGKSNLLSRFTRNEFNLDSK--------STIGVEFATRSIQIDGKTIKAQIWDTAGQERYRAITSAYYR   74 (165)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCCCCC--------CccceEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHC
Confidence            47899999999999999999 6666766665        88887664  444554  68999999999998877665   


Q ss_pred             ---------cccCccCHHHHHHHHhhhcccccCCCCeEEEEee
Q psy9521          89 ---------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                               |++++.+|+++..|+..+  ........+++.+.
T Consensus        75 ~~~~~i~v~d~~~~~s~~~~~~~~~~~--~~~~~~~~pi~vv~  115 (165)
T cd01868          75 GAVGALLVYDITKKQTFENVERWLKEL--RDHADSNIVIMLVG  115 (165)
T ss_pred             CCCEEEEEEECcCHHHHHHHHHHHHHH--HHhCCCCCeEEEEE
Confidence                     999999999999999987  22222335555544

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

>cd04140 ARHI_like ARHI subfamily

Probab=99.74  E-value=1.4e-17  Score=109.52  Aligned_cols=82  Identities=20%  Similarity=0.358  Sum_probs=66.7

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeC--CEEEEEEECCCcccccccccc----
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDIN--TVRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~--~~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      .+||+++|++|||||||+++ +.+.|..++.        ||.+..+. .+..+  .+.+++||++|++++..++..    
T Consensus         1 ~~kv~~vG~~~vGKTsli~~~~~~~f~~~~~--------~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~   72 (165)
T cd04140           1 DYRVVVFGAGGVGKSSLVLRFVKGTFRESYI--------PTIEDTYRQVISCSKNICTLQITDTTGSHQFPAMQRLSISK   72 (165)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCCCcC--------CcchheEEEEEEECCEEEEEEEEECCCCCcchHHHHHHhhc
Confidence            37899999999999999999 7777877766        77775554 23332  378999999999999877654    


Q ss_pred             --------cccCccCHHHHHHHHhhh
Q psy9521          89 --------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~  106 (125)
                              |+++..||++++.|++.+
T Consensus        73 ~~~~ilv~d~~~~~s~~~~~~~~~~i   98 (165)
T cd04140          73 GHAFILVYSVTSKQSLEELKPIYELI   98 (165)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                    999999999999988766

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

>cd04118 Rab24 Rab24 subfamily

Probab=99.74  E-value=1.6e-17  Score=111.82  Aligned_cols=81  Identities=23%  Similarity=0.433  Sum_probs=66.8

Q ss_pred             EEEEEEeCCCCcHHHHHHH-Hhhcccc-ccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc---
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTK-NYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~-~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      +||+++|++|||||||+++ +.++|.. ++.        +|++.++.  .+..++  +.+.+||++|+++++.++..   
T Consensus         1 ~ki~vvG~~~vGKSsLi~~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~   72 (193)
T cd04118           1 VKVVMLGKESVGKTSLVERYVHHRFLVGPYQ--------NTIGAAFVAKRMVVGERVVTLGIWDTAGSERYEAMSRIYYR   72 (193)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCcCCcCcc--------cceeeEEEEEEEEECCEEEEEEEEECCCchhhhhhhHhhcC
Confidence            4899999999999999999 6677763 455        88887663  455555  67889999999998877654   


Q ss_pred             ---------cccCccCHHHHHHHHhhh
Q psy9521          89 ---------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~  106 (125)
                               |++++.||+++..|++.+
T Consensus        73 ~~d~iilv~d~~~~~s~~~~~~~~~~i   99 (193)
T cd04118          73 GAKAAIVCYDLTDSSSFERAKFWVKEL   99 (193)
T ss_pred             CCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                     999999999999999876

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

>cd04109 Rab28 Rab28 subfamily

Probab=99.74  E-value=1.1e-17  Score=114.74  Aligned_cols=81  Identities=31%  Similarity=0.564  Sum_probs=69.1

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeC---CEEEEEEECCCcccccccccc---
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDIN---TVRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~---~~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      +||+++|++|||||||+++ +.+.|..++.        ||++.++.  .+..+   .+.+.+||++|++.+..++..   
T Consensus         1 ~Ki~ivG~~~vGKSsLi~~l~~~~~~~~~~--------~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~   72 (215)
T cd04109           1 FKIVVLGDGAVGKTSLCRRFAKEGFGKSYK--------QTIGLDFFSKRVTLPGNLNVTLQVWDIGGQSIGGKMLDKYIY   72 (215)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCC--------CceeEEEEEEEEEeCCCCEEEEEEEECCCcHHHHHHHHHHhh
Confidence            4899999999999999999 6677877777        99998764  45543   388999999999988777665   


Q ss_pred             ---------cccCccCHHHHHHHHhhh
Q psy9521          89 ---------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~  106 (125)
                               |++++.||+++..|+..+
T Consensus        73 ~ad~iilV~D~t~~~s~~~~~~w~~~l   99 (215)
T cd04109          73 GAHAVFLVYDVTNSQSFENLEDWYSMV   99 (215)
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                     999999999999999887

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

>cd04125 RabA_like RabA-like subfamily

Probab=99.74  E-value=1.4e-17  Score=111.84  Aligned_cols=81  Identities=28%  Similarity=0.534  Sum_probs=67.7

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +||+++|++|||||||+++ +.+.|..++.        ||++.++.  .+..++  +.+.+||++|++++..++..    
T Consensus         1 ~ki~v~G~~~vGKSsli~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~i~Dt~g~~~~~~~~~~~~~~   72 (188)
T cd04125           1 FKVVIIGDYGVGKSSLLKRFTEDEFSESTK--------STIGVDFKIKTVYIENKIIKLQIWDTNGQERFRSLNNSYYRG   72 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCC--------CceeeEEEEEEEEECCEEEEEEEEECCCcHHHHhhHHHHccC
Confidence            4899999999999999999 6677776666        88887654  455544  78899999999988876655    


Q ss_pred             --------cccCccCHHHHHHHHhhh
Q psy9521          89 --------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~  106 (125)
                              |++++.||+++..|+..+
T Consensus        73 ~d~iilv~d~~~~~s~~~i~~~~~~i   98 (188)
T cd04125          73 AHGYLLVYDVTDQESFENLKFWINEI   98 (188)
T ss_pred             CCEEEEEEECcCHHHHHHHHHHHHHH
Confidence                    999999999999999887

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.

>cd04113 Rab4 Rab4 subfamily

Probab=99.74  E-value=1.5e-17  Score=108.76  Aligned_cols=94  Identities=24%  Similarity=0.496  Sum_probs=71.8

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +||+++|++|||||||+++ +.+.+...+.        +|.+.++.  .+..++  +.+.+||++|++++...+..    
T Consensus         1 ~ki~v~G~~~vGKTsli~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~   72 (161)
T cd04113           1 FKFIIIGSSGTGKSCLLHRFVENKFKEDSQ--------HTIGVEFGSKIIRVGGKRVKLQIWDTAGQERFRSVTRSYYRG   72 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCC--------CceeeeEEEEEEEECCEEEEEEEEECcchHHHHHhHHHHhcC
Confidence            5899999999999999999 6677766665        77776654  344444  78999999999988776555    


Q ss_pred             --------cccCccCHHHHHHHHhhhcccccCCCCeEEEEe
Q psy9521          89 --------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPV  121 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~  121 (125)
                              |+++..+|+++..|+.++  ......+.+++.+
T Consensus        73 ~~~~i~v~d~~~~~s~~~~~~~~~~~--~~~~~~~~~iivv  111 (161)
T cd04113          73 AAGALLVYDITNRTSFEALPTWLSDA--RALASPNIVVILV  111 (161)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHH--HHhCCCCCeEEEE
Confidence                    999999999999999876  2223344455444

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

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.74  E-value=1.4e-17  Score=109.12  Aligned_cols=81  Identities=25%  Similarity=0.422  Sum_probs=65.3

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc-----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK-----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~-----   88 (125)
                      +||+++|++|||||||+++ +.+.+...+.        ||.+..+. .+..++  +.+++||++|++++..++..     
T Consensus         1 ~ki~v~G~~~~GKTsli~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~   72 (164)
T smart00173        1 YKLVVLGSGGVGKSALTIQFVQGHFVDDYD--------PTIEDSYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTG   72 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCcccC--------CchhhhEEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhC
Confidence            4899999999999999999 6677776665        66654443 344443  78999999999999887765     


Q ss_pred             -------cccCccCHHHHHHHHhhh
Q psy9521          89 -------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -------Di~~~~s~~~i~~~l~~~  106 (125)
                             |.+++.+|+++..|...+
T Consensus        73 ~~~i~v~d~~~~~s~~~~~~~~~~i   97 (164)
T smart00173       73 EGFLLVYSITDRQSFEEIKKFREQI   97 (164)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHH
Confidence                   899999999999988776

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

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.74  E-value=2.9e-17  Score=107.86  Aligned_cols=86  Identities=64%  Similarity=1.008  Sum_probs=63.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc----------
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK----------   88 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~----------   88 (125)
                      +|+++|++|||||||++++.+.+.. ..+.....+.||++.++..+..++..+.+||++|++.+..++..          
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~~~~-~~~~~~~~~~~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~v~   79 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTLFSK-YKGLPPSKITPTVGLNIGTIEVGNARLKFWDLGGQESLRSLWDKYYAECHAIIY   79 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhhccc-ccCCcccccCCccccceEEEEECCEEEEEEECCCChhhHHHHHHHhCCCCEEEE
Confidence            4899999999999999996554432 11233455568999988888888899999999999988776544          


Q ss_pred             --cccCccCHHHHHHHHhh
Q psy9521          89 --DIRDCMGVREVKPIFNK  105 (125)
Q Consensus        89 --Di~~~~s~~~i~~~l~~  105 (125)
                        |..+..+++++..|+..
T Consensus        80 vvd~~~~~~~~~~~~~~~~   98 (167)
T cd04160          80 VIDSTDRERFEESKSALEK   98 (167)
T ss_pred             EEECchHHHHHHHHHHHHH
Confidence              66666666666555544

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.

>KOG0074|consensus

Probab=99.73  E-value=4.6e-17  Score=103.59  Aligned_cols=103  Identities=31%  Similarity=0.540  Sum_probs=85.1

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCC-EEEEEEECCCcccccccccc-----
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINT-VRLNFWDLGGQLELQSLWDK-----   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~i~D~~G~~~~~~~~~~-----   88 (125)
                      ++++||+++|..++|||||++++..+-+....        ||-|++...+..++ .++++||.+||...|.+|.+     
T Consensus        15 ~rEirilllGldnAGKTT~LKqL~sED~~hlt--------pT~GFn~k~v~~~g~f~LnvwDiGGqr~IRpyWsNYyenv   86 (185)
T KOG0074|consen   15 RREIRILLLGLDNAGKTTFLKQLKSEDPRHLT--------PTNGFNTKKVEYDGTFHLNVWDIGGQRGIRPYWSNYYENV   86 (185)
T ss_pred             cceEEEEEEecCCCcchhHHHHHccCChhhcc--------ccCCcceEEEeecCcEEEEEEecCCccccchhhhhhhhcc
Confidence            68999999999999999999999876665555        99999999888887 99999999999999999998     


Q ss_pred             -------cccCccCHHHHHHHHhhh---------------------------------cccccCCCCeEEEEeeccC
Q psy9521          89 -------DIRDCMGVREVKPIFNKN---------------------------------SAHLIGRRDCMVMPVSALT  125 (125)
Q Consensus        89 -------Di~~~~s~~~i~~~l~~~---------------------------------~~~~~~~~~~~i~~~sA~~  125 (125)
                             |-++..-|+++..-+.++                                 +++.+.+|-|+|.+|||++
T Consensus        87 d~lIyVIDS~D~krfeE~~~el~ELleeeKl~~vpvlIfankQdlltaa~~eeia~klnl~~lrdRswhIq~csals  163 (185)
T KOG0074|consen   87 DGLIYVIDSTDEKRFEEISEELVELLEEEKLAEVPVLIFANKQDLLTAAKVEEIALKLNLAGLRDRSWHIQECSALS  163 (185)
T ss_pred             ceEEEEEeCCchHhHHHHHHHHHHHhhhhhhhccceeehhhhhHHHhhcchHHHHHhcchhhhhhceEEeeeCcccc
Confidence                   777777777776433222                                 2445677889999999874

>cd01892 Miro2 Miro2 subfamily

Probab=99.73  E-value=5.3e-17  Score=107.55  Aligned_cols=84  Identities=19%  Similarity=0.320  Sum_probs=70.7

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-Hhhccc-cccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFT-KNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~-~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~   88 (125)
                      ++-+||+++|++|||||||+++ +.+.|. .+|.        ||++..+.  .+..++  +.+.+||++|+++++.++..
T Consensus         2 ~~~~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~--------~T~~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~   73 (169)
T cd01892           2 RNVFLCFVLGAKGSGKSALLRAFLGRSFSLNAYS--------PTIKPRYAVNTVEVYGQEKYLILREVGEDEVAILLNDA   73 (169)
T ss_pred             CeEEEEEEECCCCCcHHHHHHHHhCCCCCcccCC--------CccCcceEEEEEEECCeEEEEEEEecCCcccccccchh
Confidence            5678999999999999999999 677887 7777        99887653  455555  78999999999998777664


Q ss_pred             ------------cccCccCHHHHHHHHhhh
Q psy9521          89 ------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ------------Di~~~~s~~~i~~~l~~~  106 (125)
                                  |.+++.+|+++..|++.+
T Consensus        74 ~~~~~d~~llv~d~~~~~s~~~~~~~~~~~  103 (169)
T cd01892          74 ELAACDVACLVYDSSDPKSFSYCAEVYKKY  103 (169)
T ss_pred             hhhcCCEEEEEEeCCCHHHHHHHHHHHHHh
Confidence                        999999999999999865

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.

>cd04144 Ras2 Ras2 subfamily

Probab=99.73  E-value=1.4e-17  Score=112.20  Aligned_cols=80  Identities=23%  Similarity=0.303  Sum_probs=66.9

Q ss_pred             EEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc------
Q psy9521          19 CVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK------   88 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~------   88 (125)
                      ||+++|++|||||||+++ +.+.|...+.        ||++..+. .+..++  +.+++||++|+++|+.++..      
T Consensus         1 ki~ivG~~~vGKTsli~~l~~~~f~~~~~--------~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad   72 (190)
T cd04144           1 KLVVLGDGGVGKTALTIQLCLNHFVETYD--------PTIEDSYRKQVVVDGQPCMLEVLDTAGQEEYTALRDQWIREGE   72 (190)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCC--------CchHhhEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHHhCC
Confidence            589999999999999999 6777877776        88876653 444554  67999999999999887765      


Q ss_pred             ------cccCccCHHHHHHHHhhh
Q psy9521          89 ------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ------Di~~~~s~~~i~~~l~~~  106 (125)
                            |+++..||+++..|+..+
T Consensus        73 ~~ilv~d~~~~~s~~~~~~~~~~i   96 (190)
T cd04144          73 GFILVYSITSRSTFERVERFREQI   96 (190)
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHH
Confidence                  999999999999998876

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.

>cd01866 Rab2 Rab2 subfamily

Probab=99.73  E-value=2.7e-17  Score=108.55  Aligned_cols=81  Identities=25%  Similarity=0.462  Sum_probs=66.7

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +||+++|++|||||||+++ +.+.+...+.        +|.+.++.  .+..++  +.+.+||++|++++..++..    
T Consensus         5 ~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~   76 (168)
T cd01866           5 FKYIIIGDTGVGKSCLLLQFTDKRFQPVHD--------LTIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSYYRG   76 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCC--------CccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcc
Confidence            6899999999999999999 6666666665        77777653  344444  78999999999988776553    


Q ss_pred             --------cccCccCHHHHHHHHhhh
Q psy9521          89 --------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~  106 (125)
                              |.+++.||+.+..|+..+
T Consensus        77 ~d~il~v~d~~~~~s~~~~~~~~~~~  102 (168)
T cd01866          77 AAGALLVYDITRRETFNHLTSWLEDA  102 (168)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                    999999999999999987

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

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

Probab=99.73  E-value=2.8e-17  Score=108.73  Aligned_cols=92  Identities=24%  Similarity=0.418  Sum_probs=70.9

Q ss_pred             EEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc-------
Q psy9521          20 VLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK-------   88 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~-------   88 (125)
                      |+++|++|||||||+++ +.+.|..++.        ||....+. .+..++  +.+.+||++|+++|..++..       
T Consensus         1 i~i~G~~~vGKTsli~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   72 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNAFPEDYV--------PTVFENYSADVEVDGKPVELGLWDTAGQEDYDRLRPLSYPDTDV   72 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhCCCCCCCC--------CcEEeeeeEEEEECCEEEEEEEEECCCCcccchhchhhcCCCCE
Confidence            58999999999999999 7777777776        77766654 445554  67999999999999877765       


Q ss_pred             -----cccCccCHHHHH-HHHhhhcccccCCCCeEEEEee
Q psy9521          89 -----DIRDCMGVREVK-PIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 -----Di~~~~s~~~i~-~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                           |++++.||+++. .|+..+ ....  ...|++.+.
T Consensus        73 ~ilv~d~~~~~s~~~~~~~~~~~i-~~~~--~~~piilv~  109 (174)
T smart00174       73 FLICFSVDSPASFENVKEKWYPEV-KHFC--PNTPIILVG  109 (174)
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHH-HhhC--CCCCEEEEe
Confidence                 999999999997 599887 2222  345555544

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

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.73  E-value=3.8e-17  Score=108.32  Aligned_cols=81  Identities=20%  Similarity=0.284  Sum_probs=66.7

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc-----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK-----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~-----   88 (125)
                      +||+++|++|||||||+.+ +.+.|..++.        ||....+. .+..++  +.+++||++|++++..+++.     
T Consensus         1 ~k~~i~G~~~~GKtsl~~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~a   72 (173)
T cd04130           1 LKCVLVGDGAVGKTSLIVSYTTNGYPTEYV--------PTAFDNFSVVVLVDGKPVRLQLCDTAGQDEFDKLRPLCYPDT   72 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCC--------CceeeeeeEEEEECCEEEEEEEEECCCChhhccccccccCCC
Confidence            5899999999999999999 6788888877        77643332 344444  78899999999999888765     


Q ss_pred             -------cccCccCHHHHH-HHHhhh
Q psy9521          89 -------DIRDCMGVREVK-PIFNKN  106 (125)
Q Consensus        89 -------Di~~~~s~~~i~-~~l~~~  106 (125)
                             |++++.||+++. .|+..+
T Consensus        73 ~~~i~v~d~~~~~sf~~~~~~~~~~~   98 (173)
T cd04130          73 DVFLLCFSVVNPSSFQNISEKWIPEI   98 (173)
T ss_pred             cEEEEEEECCCHHHHHHHHHHHHHHH
Confidence                   999999999996 688877

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,

>KOG0097|consensus

Probab=99.72  E-value=1.9e-17  Score=105.60  Aligned_cols=95  Identities=20%  Similarity=0.439  Sum_probs=78.9

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeC--CEEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDIN--TVRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~--~~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +|.+++|+-|||||+|+.+ ...+|..+.+        .|+|+++.  .+++.  ++++++||++|||+|+...+.    
T Consensus        12 fkyiiigdmgvgkscllhqftekkfmadcp--------htigvefgtriievsgqkiklqiwdtagqerfravtrsyyrg   83 (215)
T KOG0097|consen   12 FKYIIIGDMGVGKSCLLHQFTEKKFMADCP--------HTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRG   83 (215)
T ss_pred             EEEEEEccccccHHHHHHHHHHHHHhhcCC--------cccceecceeEEEecCcEEEEEEeecccHHHHHHHHHHHhcc
Confidence            3499999999999999999 6789999988        99999986  34554  489999999999999988776    


Q ss_pred             --------cccCccCHHHHHHHHhhhcccccCCCCeEEEEee
Q psy9521          89 --------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                              |++.+..+..+..|+...  +.+.+.+-.|+.+.
T Consensus        84 aagalmvyditrrstynhlsswl~da--r~ltnpnt~i~lig  123 (215)
T KOG0097|consen   84 AAGALMVYDITRRSTYNHLSSWLTDA--RNLTNPNTVIFLIG  123 (215)
T ss_pred             ccceeEEEEehhhhhhhhHHHHHhhh--hccCCCceEEEEec
Confidence                    999999999999999987  45555555555443

>cd04177 RSR1 RSR1 subgroup

Probab=99.72  E-value=4.1e-17  Score=107.65  Aligned_cols=82  Identities=16%  Similarity=0.360  Sum_probs=68.3

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      ++||+++|++|||||||+++ .++.+..++.        ||++..+. .+..++  +.+++||++|+++|+.++..    
T Consensus         1 ~~ki~liG~~~~GKTsli~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~   72 (168)
T cd04177           1 DYKIVVLGAGGVGKSALTVQFVQNVFIESYD--------PTIEDSYRKQVEIDGRQCDLEILDTAGTEQFTAMRELYIKS   72 (168)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCcccC--------CcchheEEEEEEECCEEEEEEEEeCCCcccchhhhHHHHhh
Confidence            47899999999999999999 6777776666        77776553 445554  78999999999999888777    


Q ss_pred             --------cccCccCHHHHHHHHhhh
Q psy9521          89 --------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~  106 (125)
                              |++++.+|+.+..|.+.+
T Consensus        73 ~~~~vlv~~~~~~~s~~~~~~~~~~i   98 (168)
T cd04177          73 GQGFLLVYSVTSEASLNELGELREQV   98 (168)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                    889999999999988876

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

>cd04112 Rab26 Rab26 subfamily

Probab=99.72  E-value=2.7e-17  Score=110.85  Aligned_cols=94  Identities=26%  Similarity=0.488  Sum_probs=71.0

Q ss_pred             EEEEEEeCCCCcHHHHHHH-Hhhcccc-ccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc---
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTK-NYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~-~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      +||+++|++|||||||+++ +.+.+.. ++.        +|++.++.  .+..++  +.+++||++|++++..++..   
T Consensus         1 ~Ki~vvG~~~vGKTSli~~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~   72 (191)
T cd04112           1 FKVMLLGDSGVGKTCLLVRFKDGAFLNGNFI--------ATVGIDFRNKVVTVDGVKVKLQIWDTAGQERFRSVTHAYYR   72 (191)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccCcC--------CcccceeEEEEEEECCEEEEEEEEeCCCcHHHHHhhHHHcc
Confidence            4899999999999999999 5666643 444        78877764  344554  78999999999988776554   


Q ss_pred             ---------cccCccCHHHHHHHHhhhcccccCCCCeEEEEe
Q psy9521          89 ---------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPV  121 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~  121 (125)
                               |++++.||+++..|+..+  ........|++.+
T Consensus        73 ~ad~~i~v~D~~~~~s~~~~~~~~~~i--~~~~~~~~piiiv  112 (191)
T cd04112          73 DAHALLLLYDITNKASFDNIRAWLTEI--KEYAQEDVVIMLL  112 (191)
T ss_pred             CCCEEEEEEECCCHHHHHHHHHHHHHH--HHhCCCCCcEEEE
Confidence                     999999999999999887  2222234455444

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.

>cd00879 Sar1 Sar1 subfamily

Probab=99.72  E-value=5.3e-17  Score=108.98  Aligned_cols=96  Identities=28%  Similarity=0.395  Sum_probs=73.9

Q ss_pred             hhHHHHHhhh-ccCceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccc
Q psy9521           3 TLVSGFYKYM-LRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLE   81 (125)
Q Consensus         3 ~~~~~~~~~~-~~~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~   81 (125)
                      ..+..+++.+ +..++.||+++|++|||||||++++.+.....+.        ||.+.....+..++..+.+||++|+++
T Consensus         4 ~~~~~~~~~~~~~~~~~ki~ilG~~~~GKStLi~~l~~~~~~~~~--------~T~~~~~~~i~~~~~~~~l~D~~G~~~   75 (190)
T cd00879           4 DWFYNVLSSLGLYNKEAKILFLGLDNAGKTTLLHMLKDDRLAQHV--------PTLHPTSEELTIGNIKFKTFDLGGHEQ   75 (190)
T ss_pred             HHHHHHHHHhhcccCCCEEEEECCCCCCHHHHHHHHhcCCCcccC--------CccCcceEEEEECCEEEEEEECCCCHH
Confidence            3344444444 3467899999999999999999996543333444        788777777778889999999999998


Q ss_pred             ccccccc------------cccCccCHHHHHHHHhhh
Q psy9521          82 LQSLWDK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        82 ~~~~~~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      ++.+|..            |..+..+|++...|+..+
T Consensus        76 ~~~~~~~~~~~ad~iilV~D~~~~~s~~~~~~~~~~i  112 (190)
T cd00879          76 ARRLWKDYFPEVDGIVFLVDAADPERFQESKEELDSL  112 (190)
T ss_pred             HHHHHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHH
Confidence            8766544            999999999888888776

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.

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.72  E-value=2.8e-17  Score=107.63  Aligned_cols=81  Identities=23%  Similarity=0.370  Sum_probs=66.8

Q ss_pred             EEEEEEeCCCCcHHHHHHHHh-h--ccccccCCCCCCccccccceeeE--EEEeC---CEEEEEEECCCcccccccccc-
Q psy9521          18 FCVLILGLDNAGKTTYLESAK-T--KFTKNYKGMNPSKITTTVGLNIG--QIDIN---TVRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~-~--~~~~~~~~~~~~~~~~t~~~~~~--~~~~~---~~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      +||+++|++|||||||++++. +  .|.+++.        ||.+.++.  .+..+   .+.+.+||++|++++..++.. 
T Consensus         1 ~ki~vvG~~~~GKtsl~~~l~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~   72 (164)
T cd04101           1 LRCAVVGDPAVGKTAFVQMFHSNGAVFPKNYL--------MTTGCDFVVKEVPVDTDNTVELFIFDSAGQELYSDMVSNY   72 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCccCC--------CceEEEEEEEEEEeCCCCEEEEEEEECCCHHHHHHHHHHH
Confidence            589999999999999999953 3  5777777        99987764  33332   389999999999988776655 


Q ss_pred             -----------cccCccCHHHHHHHHhhh
Q psy9521          89 -----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~  106 (125)
                                 |+++..+|+++..|++.+
T Consensus        73 ~~~~d~ii~v~d~~~~~s~~~~~~~~~~~  101 (164)
T cd04101          73 WESPSVFILVYDVSNKASFENCSRWVNKV  101 (164)
T ss_pred             hCCCCEEEEEEECcCHHHHHHHHHHHHHH
Confidence                       999999999999999886

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.

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

Probab=99.71  E-value=2.8e-17  Score=111.91  Aligned_cols=76  Identities=28%  Similarity=0.516  Sum_probs=65.5

Q ss_pred             EeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEE--EEeC--CEEEEEEECCCcccccccccc---------
Q psy9521          23 LGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQ--IDIN--TVRLNFWDLGGQLELQSLWDK---------   88 (125)
Q Consensus        23 ~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~--~~~~--~~~~~i~D~~G~~~~~~~~~~---------   88 (125)
                      +|++|||||||+++ +.+.|..++.        ||+|.++..  +..+  .+++++||++|+++|+.+++.         
T Consensus         1 vG~~~vGKTsLi~r~~~~~f~~~~~--------~Tig~~~~~~~~~~~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~i   72 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGEFEKKYV--------ATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGLRDGYYIQGQCAI   72 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCCCCCCCC--------CceeEEEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhcCCCEEE
Confidence            69999999999999 6777877777        999988753  3333  489999999999999988765         


Q ss_pred             ---cccCccCHHHHHHHHhhh
Q psy9521          89 ---DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ---Di~~~~s~~~i~~~l~~~  106 (125)
                         |++++.||++++.|+.++
T Consensus        73 lV~D~t~~~S~~~i~~w~~~i   93 (200)
T smart00176       73 IMFDVTARVTYKNVPNWHRDL   93 (200)
T ss_pred             EEEECCChHHHHHHHHHHHHH
Confidence               999999999999999987

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

>cd01861 Rab6 Rab6 subfamily

Probab=99.71  E-value=5.7e-17  Score=105.81  Aligned_cols=95  Identities=23%  Similarity=0.427  Sum_probs=72.1

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +||+++|++|||||||+++ +.+.+...+.        |+.+.++.  .+..++  +.+.+||++|+++++.++..    
T Consensus         1 ~ki~liG~~~~GKSsli~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~l~~~D~~G~~~~~~~~~~~~~~   72 (161)
T cd01861           1 HKLVFLGDQSVGKTSIITRFMYDTFDNQYQ--------ATIGIDFLSKTMYLEDKTVRLQLWDTAGQERFRSLIPSYIRD   72 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCccCC--------CceeeeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcc
Confidence            3799999999999999999 6666665555        88877664  455555  67999999999998776655    


Q ss_pred             --------cccCccCHHHHHHHHhhhcccccCCCCeEEEEee
Q psy9521          89 --------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                              |..++.+|+++..|+.++ .... ....+++.+.
T Consensus        73 ~~~ii~v~d~~~~~s~~~~~~~~~~~-~~~~-~~~~~iilv~  112 (161)
T cd01861          73 SSVAVVVYDITNRQSFDNTDKWIDDV-RDER-GNDVIIVLVG  112 (161)
T ss_pred             CCEEEEEEECcCHHHHHHHHHHHHHH-HHhC-CCCCEEEEEE
Confidence                    999999999999999987 2222 2245555543

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

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.71  E-value=7.1e-17  Score=106.84  Aligned_cols=94  Identities=23%  Similarity=0.269  Sum_probs=71.2

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc-----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK-----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~-----   88 (125)
                      .||+++|++|||||||+++ +.+.|...+.        ||++..+. .+..++  +.+.+||++|+++++.++..     
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~   73 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQFPEVYV--------PTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDT   73 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCCCCC--------CccccceEEEEEECCEEEEEEEEeCCCchhhhhccccccCCC
Confidence            5899999999999999999 6677777776        88876653 455544  68999999999998877654     


Q ss_pred             -------cccCccCHHHHH-HHHhhhcccccCCCCeEEEEee
Q psy9521          89 -------DIRDCMGVREVK-PIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 -------Di~~~~s~~~i~-~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                             |+.++.||+++. .|+..+   .....+.|++.+.
T Consensus        74 d~~i~v~~~~~~~s~~~~~~~~~~~~---~~~~~~~piilv~  112 (175)
T cd01870          74 DVILMCFSIDSPDSLENIPEKWTPEV---KHFCPNVPIILVG  112 (175)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHH---HhhCCCCCEEEEe
Confidence                   889999999996 588876   2212344555443

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

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.71  E-value=4e-17  Score=114.39  Aligned_cols=81  Identities=17%  Similarity=0.281  Sum_probs=67.0

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceee-EEEEeCC--EEEEEEECCCcccccccccc-----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNI-GQIDINT--VRLNFWDLGGQLELQSLWDK-----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~-~~~~~~~--~~~~i~D~~G~~~~~~~~~~-----   88 (125)
                      +||+++|++|||||||+++ +.+.|..++.        ||++..+ ..+..++  +.+++||++|++.|..++..     
T Consensus         1 ~KVvvlG~~gvGKTSLi~r~~~~~f~~~y~--------pTi~d~~~k~~~i~~~~~~l~I~Dt~G~~~~~~~~~~~~~~a   72 (247)
T cd04143           1 YRMVVLGASKVGKTAIVSRFLGGRFEEQYT--------PTIEDFHRKLYSIRGEVYQLDILDTSGNHPFPAMRRLSILTG   72 (247)
T ss_pred             CEEEEECcCCCCHHHHHHHHHcCCCCCCCC--------CChhHhEEEEEEECCEEEEEEEEECCCChhhhHHHHHHhccC
Confidence            4899999999999999999 6788887776        8886332 3455555  78999999999988776554     


Q ss_pred             -------cccCccCHHHHHHHHhhh
Q psy9521          89 -------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -------Di~~~~s~~~i~~~l~~~  106 (125)
                             |++++.||+++..|++++
T Consensus        73 d~iIlVfdv~~~~Sf~~i~~~~~~I   97 (247)
T cd04143          73 DVFILVFSLDNRESFEEVCRLREQI   97 (247)
T ss_pred             CEEEEEEeCCCHHHHHHHHHHHHHH
Confidence                   999999999999988887

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

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.71  E-value=5.2e-17  Score=108.87  Aligned_cols=82  Identities=35%  Similarity=0.639  Sum_probs=63.6

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEe-----CCEEEEEEECCCcccccccccc-
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDI-----NTVRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~-----~~~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      +.+||+++|++|||||||+++ ..+.+... .        ||.+.+...+..     .++.+.+||++|+++++.+|.. 
T Consensus         2 ~~~kv~~vG~~~~GKTsli~~~~~~~~~~~-~--------~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~   72 (183)
T cd04152           2 QSLHIVMLGLDSAGKTTVLYRLKFNEFVNT-V--------PTKGFNTEKIKVSLGNSKGITFHFWDVGGQEKLRPLWKSY   72 (183)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCcCCc-C--------CccccceeEEEeeccCCCceEEEEEECCCcHhHHHHHHHH
Confidence            468999999999999999999 55555533 3        787766654333     3489999999999998877665 


Q ss_pred             -----------cccCccCHHHHHHHHhhh
Q psy9521          89 -----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~  106 (125)
                                 |.++..+++++..|+.++
T Consensus        73 ~~~~d~ii~v~D~~~~~~~~~~~~~~~~i  101 (183)
T cd04152          73 TRCTDGIVFVVDSVDVERMEEAKTELHKI  101 (183)
T ss_pred             hccCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                       888888888887776554

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.

>cd04155 Arl3 Arl3 subfamily

Probab=99.71  E-value=1.6e-16  Score=105.00  Aligned_cols=81  Identities=36%  Similarity=0.596  Sum_probs=62.2

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc------
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK------   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~------   88 (125)
                      .+.+||+++|++|||||||++++.+.....+.        ||.|.++..+..++..+.+||++|++++...|..      
T Consensus        12 ~~~~~v~i~G~~g~GKStLl~~l~~~~~~~~~--------~t~g~~~~~i~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~   83 (173)
T cd04155          12 SEEPRILILGLDNAGKTTILKQLASEDISHIT--------PTQGFNIKTVQSDGFKLNVWDIGGQRAIRPYWRNYFENTD   83 (173)
T ss_pred             CCccEEEEEccCCCCHHHHHHHHhcCCCcccC--------CCCCcceEEEEECCEEEEEEECCCCHHHHHHHHHHhcCCC
Confidence            45899999999999999999997654333344        8888888788888899999999999877555443      


Q ss_pred             ------cccCccCHHHHHHHH
Q psy9521          89 ------DIRDCMGVREVKPIF  103 (125)
Q Consensus        89 ------Di~~~~s~~~i~~~l  103 (125)
                            |.++..++++...|+
T Consensus        84 ~ii~v~D~~~~~~~~~~~~~~  104 (173)
T cd04155          84 CLIYVIDSADKKRLEEAGAEL  104 (173)
T ss_pred             EEEEEEeCCCHHHHHHHHHHH
Confidence                  666666666555443

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.

>cd04157 Arl6 Arl6 subfamily

Probab=99.71  E-value=6.4e-17  Score=105.58  Aligned_cols=80  Identities=29%  Similarity=0.495  Sum_probs=65.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh-c-cccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc--------
Q psy9521          19 CVLILGLDNAGKTTYLESAKT-K-FTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK--------   88 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~-~-~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~--------   88 (125)
                      +|+++|++|||||||++++.+ . +...+.        ||++.....+...++.+++||++|+++++.+|..        
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~~~~~~~~~--------~t~g~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~i   72 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPENAQSQIIV--------PTVGFNVESFEKGNLSFTAFDMSGQGKYRGLWEHYYKNIQGI   72 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHcccCCCcceec--------CccccceEEEEECCEEEEEEECCCCHhhHHHHHHHHccCCEE
Confidence            489999999999999999554 3 344444        8998877666677899999999999998887766        


Q ss_pred             ----cccCccCHHHHHHHHhhh
Q psy9521          89 ----DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----Di~~~~s~~~i~~~l~~~  106 (125)
                          |.++..+|+.+..|+..+
T Consensus        73 i~v~D~~~~~~~~~~~~~~~~~   94 (162)
T cd04157          73 IFVIDSSDRLRLVVVKDELELL   94 (162)
T ss_pred             EEEEeCCcHHHHHHHHHHHHHH
Confidence                999989998887777654

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

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.70  E-value=1.2e-16  Score=104.49  Aligned_cols=82  Identities=24%  Similarity=0.461  Sum_probs=66.9

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc---
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      ++||+++|++|||||||+++ +.+.+...+.        ||.+..+.  .+..++  +.+.+||++|++++...+..   
T Consensus         1 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~v~~~~~~~~~~i~D~~G~~~~~~~~~~~~~   72 (163)
T cd01860           1 QFKLVLLGDSSVGKSSLVLRFVKNEFSENQE--------STIGAAFLTQTVNLDDTTVKFEIWDTAGQERYRSLAPMYYR   72 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCC--------CccceeEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhc
Confidence            47999999999999999999 6666666555        78776543  444444  78999999999988776655   


Q ss_pred             ---------cccCccCHHHHHHHHhhh
Q psy9521          89 ---------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~  106 (125)
                               |.++..+|+.+..|+..+
T Consensus        73 ~~~~~i~v~d~~~~~s~~~~~~~~~~~   99 (163)
T cd01860          73 GAAAAIVVYDITSEESFEKAKSWVKEL   99 (163)
T ss_pred             cCCEEEEEEECcCHHHHHHHHHHHHHH
Confidence                     999999999999999887

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

>PLN03108 Rab family protein; Provisional

Probab=99.70  E-value=1e-16  Score=109.68  Aligned_cols=83  Identities=24%  Similarity=0.433  Sum_probs=68.3

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      ..+||+++|++|||||||+++ +.++|...+.        ||++.++.  .+..++  +.+.+||++|++++..++..  
T Consensus         5 ~~~kivivG~~gvGKStLi~~l~~~~~~~~~~--------~ti~~~~~~~~i~~~~~~i~l~l~Dt~G~~~~~~~~~~~~   76 (210)
T PLN03108          5 YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHD--------LTIGVEFGARMITIDNKPIKLQIWDTAGQESFRSITRSYY   76 (210)
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCCCCCCCC--------CCccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHh
Confidence            358999999999999999999 5566776666        88887764  445554  77999999999988776654  


Q ss_pred             ----------cccCccCHHHHHHHHhhh
Q psy9521          89 ----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~  106 (125)
                                |+++..+|+.+..|+..+
T Consensus        77 ~~ad~~vlv~D~~~~~s~~~l~~~~~~~  104 (210)
T PLN03108         77 RGAAGALLVYDITRRETFNHLASWLEDA  104 (210)
T ss_pred             ccCCEEEEEEECCcHHHHHHHHHHHHHH
Confidence                      999999999999998865

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.69  E-value=1.6e-16  Score=103.77  Aligned_cols=95  Identities=25%  Similarity=0.535  Sum_probs=71.2

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +||+++|++|||||||+++ +...+...+.        +|++.++.  .+..++  +.+.+||++|++++...+..    
T Consensus         1 ~kv~v~G~~~~GKTtli~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~   72 (164)
T smart00175        1 FKIILIGDSGVGKSSLLSRFTDGKFSEQYK--------STIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSITSSYYRG   72 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCC--------CceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhCC
Confidence            5899999999999999999 5566655554        77777654  455555  78999999999888766554    


Q ss_pred             --------cccCccCHHHHHHHHhhhcccccCCCCeEEEEee
Q psy9521          89 --------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                              |..++.+++.+..|+..+  ........|++.+.
T Consensus        73 ~d~~ilv~d~~~~~s~~~~~~~l~~~--~~~~~~~~pivvv~  112 (164)
T smart00175       73 AVGALLVYDITNRESFENLKNWLKEL--REYADPNVVIMLVG  112 (164)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHH--HHhCCCCCeEEEEE
Confidence                    999999999999999886  11122345555544

Rab GTPases are implicated in vesicle trafficking.

>cd04135 Tc10 TC10 subfamily

Probab=99.69  E-value=2.9e-16  Score=103.80  Aligned_cols=81  Identities=22%  Similarity=0.295  Sum_probs=65.5

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc-----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK-----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~-----   88 (125)
                      +||+++|++|+|||||+++ ..+.|..++.        ||.+..+. .+..++  +.+.+||++|++.|..++..     
T Consensus         1 ~ki~i~G~~~~GKTsl~~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~   72 (174)
T cd04135           1 LKCVVVGDGAVGKTCLLMSYANDAFPEEYV--------PTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMT   72 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCC--------CceeeeeEEEEEECCEEEEEEEEeCCCcccccccccccCCCC
Confidence            4899999999999999999 6777777666        77765543 444444  67889999999998877765     


Q ss_pred             -------cccCccCHHHHH-HHHhhh
Q psy9521          89 -------DIRDCMGVREVK-PIFNKN  106 (125)
Q Consensus        89 -------Di~~~~s~~~i~-~~l~~~  106 (125)
                             |+.++.+|+++. .|+..+
T Consensus        73 ~~~ilv~~~~~~~s~~~~~~~~~~~l   98 (174)
T cd04135          73 DVFLICFSVVNPASFQNVKEEWVPEL   98 (174)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHH
Confidence                   899999999997 588776

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

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.68  E-value=1.7e-16  Score=108.75  Aligned_cols=84  Identities=26%  Similarity=0.506  Sum_probs=71.0

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEe--C--CEEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDI--N--TVRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~--~--~~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      ...+|++++|++|||||||+++ +.+.+..++.        ||++.++.....  +  ++.+.+||++|++++..++.. 
T Consensus         7 ~~~~kv~liG~~g~GKTtLi~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~~~~~~~~~~~   78 (215)
T PTZ00132          7 VPEFKLILVGDGGVGKTTFVKRHLTGEFEKKYI--------PTLGVEVHPLKFYTNCGPICFNVWDTAGQEKFGGLRDGY   78 (215)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHhCCCCCCCC--------CccceEEEEEEEEECCeEEEEEEEECCCchhhhhhhHHH
Confidence            3578999999999999999988 7888887777        999988764333  2  489999999999988777644 


Q ss_pred             -----------cccCccCHHHHHHHHhhh
Q psy9521          89 -----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~  106 (125)
                                 |+++..||.++..|+..+
T Consensus        79 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~i  107 (215)
T PTZ00132         79 YIKGQCAIIMFDVTSRITYKNVPNWHRDI  107 (215)
T ss_pred             hccCCEEEEEEECcCHHHHHHHHHHHHHH
Confidence                       999999999999998876

>KOG0083|consensus

Probab=99.68  E-value=1.5e-18  Score=109.55  Aligned_cols=79  Identities=27%  Similarity=0.451  Sum_probs=64.7

Q ss_pred             EEEeCCCCcHHHHHHHH-hhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-------
Q psy9521          21 LILGLDNAGKTTYLESA-KTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-------   88 (125)
Q Consensus        21 ~v~G~~~~GKTsl~~~i-~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-------   88 (125)
                      +++|++++|||+|+.|. .+.|-...       ..+|+|+++.  -+++++  +++++|||+|||+|++....       
T Consensus         1 mllgds~~gktcllir~kdgafl~~~-------fistvgid~rnkli~~~~~kvklqiwdtagqerfrsvt~ayyrda~a   73 (192)
T KOG0083|consen    1 MLLGDSCTGKTCLLIRFKDGAFLAGN-------FISTVGIDFRNKLIDMDDKKVKLQIWDTAGQERFRSVTHAYYRDADA   73 (192)
T ss_pred             CccccCccCceEEEEEeccCceecCc-------eeeeeeeccccceeccCCcEEEEEEeeccchHHHhhhhHhhhcccce
Confidence            36899999999999994 45443321       2289999986  345544  89999999999999998766       


Q ss_pred             -----cccCccCHHHHHHHHhhh
Q psy9521          89 -----DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----Di~~~~s~~~i~~~l~~~  106 (125)
                           |+.+..||++++.|+.++
T Consensus        74 llllydiankasfdn~~~wlsei   96 (192)
T KOG0083|consen   74 LLLLYDIANKASFDNCQAWLSEI   96 (192)
T ss_pred             eeeeeecccchhHHHHHHHHHHH
Confidence                 999999999999999998

>KOG0072|consensus

Probab=99.68  E-value=1.9e-17  Score=105.55  Aligned_cols=114  Identities=28%  Similarity=0.463  Sum_probs=99.0

Q ss_pred             ChhhHHHHHhhhccC-ceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCc
Q psy9521           1 MYTLVSGFYKYMLRK-DEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ   79 (125)
Q Consensus         1 m~~~~~~~~~~~~~~-~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~   79 (125)
                      |...++++|+.++.. ++.+++++|..|+|||+++.|++-.        +...+.||+|++.+++..++.++++||++||
T Consensus         1 m~~g~~s~f~~L~g~e~e~rililgldGaGkttIlyrlqvg--------evvttkPtigfnve~v~yKNLk~~vwdLggq   72 (182)
T KOG0072|consen    1 MGGGFSSLFKALQGPEREMRILILGLDGAGKTTILYRLQVG--------EVVTTKPTIGFNVETVPYKNLKFQVWDLGGQ   72 (182)
T ss_pred             CCchHHHHHHHhcCCccceEEEEeeccCCCeeEEEEEcccC--------cccccCCCCCcCccccccccccceeeEccCc
Confidence            677889999999875 9999999999999999999997632        2333449999999999999999999999999


Q ss_pred             ccccccccc------------------------------------------------cccCccCHHHHHHHHhhhccccc
Q psy9521          80 LELQSLWDK------------------------------------------------DIRDCMGVREVKPIFNKNSAHLI  111 (125)
Q Consensus        80 ~~~~~~~~~------------------------------------------------Di~~~~s~~~i~~~l~~~~~~~~  111 (125)
                      -..+.+|+-                                                |.+.+.+-.|+...+.+.   ++
T Consensus        73 tSirPyWRcYy~dt~avIyVVDssd~dris~a~~el~~mL~E~eLq~a~llv~anKqD~~~~~t~~E~~~~L~l~---~L  149 (182)
T KOG0072|consen   73 TSIRPYWRCYYADTDAVIYVVDSSDRDRISIAGVELYSMLQEEELQHAKLLVFANKQDYSGALTRSEVLKMLGLQ---KL  149 (182)
T ss_pred             ccccHHHHHHhcccceEEEEEeccchhhhhhhHHHHHHHhccHhhcCceEEEEeccccchhhhhHHHHHHHhChH---HH
Confidence            998888887                                                888888888888888876   88


Q ss_pred             CCCCeEEEEeeccC
Q psy9521         112 GRRDCMVMPVSALT  125 (125)
Q Consensus       112 ~~~~~~i~~~sA~~  125 (125)
                      .++-|.|+..||.+
T Consensus       150 k~r~~~Iv~tSA~k  163 (182)
T KOG0072|consen  150 KDRIWQIVKTSAVK  163 (182)
T ss_pred             hhheeEEEeecccc
Confidence            89999999999964

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

Probab=99.67  E-value=3.3e-16  Score=102.06  Aligned_cols=80  Identities=36%  Similarity=0.585  Sum_probs=66.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc----------
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK----------   88 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~----------   88 (125)
                      ||+++|.+|||||||++++.+....++.        +|.+.++..+..+++.+.+||++|+++++..|..          
T Consensus         1 ki~iiG~~~~GKssli~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~   72 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLGEVVTTI--------PTIGFNVETVEYKNVSFTVWDVGGQDKIRPLWKHYYENTNGIIF   72 (158)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCCCCCC--------CCcCcceEEEEECCEEEEEEECCCChhhHHHHHHHhccCCEEEE
Confidence            6899999999999999995443344444        8888888878888899999999999998777665          


Q ss_pred             --cccCccCHHHHHHHHhhh
Q psy9521          89 --DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --Di~~~~s~~~i~~~l~~~  106 (125)
                        |..++.+++++..|+..+
T Consensus        73 v~D~~~~~~~~~~~~~~~~~   92 (158)
T cd00878          73 VVDSSDRERIEEAKEELHKL   92 (158)
T ss_pred             EEECCCHHHHHHHHHHHHHH
Confidence              888888899888877665

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

>PLN03118 Rab family protein; Provisional

Probab=99.67  E-value=5.4e-16  Score=106.07  Aligned_cols=84  Identities=20%  Similarity=0.373  Sum_probs=65.5

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      +..+||+++|++|||||||++++.+....++.        ||.+.++.  .+..++  +.+.+||++|++++..++..  
T Consensus        12 ~~~~kv~ivG~~~vGKTsli~~l~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~   83 (211)
T PLN03118         12 DLSFKILLIGDSGVGKSSLLVSFISSSVEDLA--------PTIGVDFKIKQLTVGGKRLKLTIWDTAGQERFRTLTSSYY   83 (211)
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHhCCCCCcC--------CCceeEEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHH
Confidence            46789999999999999999995433334444        88887664  455554  78999999999998887665  


Q ss_pred             ----------cccCccCHHHHHH-HHhhh
Q psy9521          89 ----------DIRDCMGVREVKP-IFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~-~l~~~  106 (125)
                                |.+++.+|+++.. |..++
T Consensus        84 ~~~d~~vlv~D~~~~~sf~~~~~~~~~~~  112 (211)
T PLN03118         84 RNAQGIILVYDVTRRETFTNLSDVWGKEV  112 (211)
T ss_pred             hcCCEEEEEEECCCHHHHHHHHHHHHHHH
Confidence                      9999999999986 65544

>cd04151 Arl1 Arl1 subfamily

Probab=99.67  E-value=2.6e-16  Score=102.75  Aligned_cols=77  Identities=34%  Similarity=0.577  Sum_probs=60.9

Q ss_pred             EEEEEeCCCCcHHHHHHHH-hhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc---------
Q psy9521          19 CVLILGLDNAGKTTYLESA-KTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK---------   88 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i-~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~---------   88 (125)
                      ||+++|+++||||||++++ .+.+. .+.        ||++.++..++..++++++||++|+++++.+|..         
T Consensus         1 kv~lvG~~~~GKTsl~~~l~~~~~~-~~~--------~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii   71 (158)
T cd04151           1 RILILGLDNAGKTTILYRLQLGEVV-TTI--------PTIGFNVETVTYKNLKFQVWDLGGQTSIRPYWRCYYSNTDAII   71 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHccCCCc-CcC--------CccCcCeEEEEECCEEEEEEECCCCHHHHHHHHHHhcCCCEEE
Confidence            6899999999999999996 44443 233        8888887777778899999999999998887665         


Q ss_pred             ---cccCccCHHHHHHHHh
Q psy9521          89 ---DIRDCMGVREVKPIFN  104 (125)
Q Consensus        89 ---Di~~~~s~~~i~~~l~  104 (125)
                         |.+++.++.....++.
T Consensus        72 ~v~d~~~~~~~~~~~~~~~   90 (158)
T cd04151          72 YVVDSTDRDRLGTAKEELH   90 (158)
T ss_pred             EEEECCCHHHHHHHHHHHH
Confidence               8888777766655443

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.

>cd01862 Rab7 Rab7 subfamily

Probab=99.67  E-value=4.8e-16  Score=102.33  Aligned_cols=81  Identities=28%  Similarity=0.504  Sum_probs=65.3

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +||+++|++|||||||+++ +.+.+...+.        +|++.++.  .+..++  +.+.+||++|++.+..++..    
T Consensus         1 ~ki~viG~~~~GKSsl~~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~   72 (172)
T cd01862           1 LKVIILGDSGVGKTSLMNQYVNKKFSNQYK--------ATIGADFLTKEVTVDDKLVTLQIWDTAGQERFQSLGVAFYRG   72 (172)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCcC--------CccceEEEEEEEEECCEEEEEEEEeCCChHHHHhHHHHHhcC
Confidence            4899999999999999999 6676666655        77776653  344544  77889999999988877764    


Q ss_pred             --------cccCccCHHHHHHHHhhh
Q psy9521          89 --------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~  106 (125)
                              |+.++.+|+++..|.+.+
T Consensus        73 ~d~~i~v~d~~~~~~~~~~~~~~~~~   98 (172)
T cd01862          73 ADCCVLVYDVTNPKSFESLDSWRDEF   98 (172)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                    999999999998887764

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-

>cd01863 Rab18 Rab18 subfamily

Probab=99.67  E-value=6e-16  Score=101.03  Aligned_cols=81  Identities=21%  Similarity=0.459  Sum_probs=64.8

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +||+++|++|||||||+++ +.+.+...+.        ||.+.++.  .+...+  +.+.+||++|++++..++..    
T Consensus         1 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~   72 (161)
T cd01863           1 LKILLIGDSGVGKSSLLLRFTDDTFDPDLA--------ATIGVDFKVKTLTVDGKKVKLAIWDTAGQERFRTLTSSYYRG   72 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCcccC--------CcccceEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhCC
Confidence            5899999999999999999 5555555454        77777654  334443  78999999999988776654    


Q ss_pred             --------cccCccCHHHHHHHHhhh
Q psy9521          89 --------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~  106 (125)
                              |.+++.+|+.+..|+..+
T Consensus        73 ~d~~i~v~d~~~~~s~~~~~~~~~~i   98 (161)
T cd01863          73 AQGVILVYDVTRRDTFTNLETWLNEL   98 (161)
T ss_pred             CCEEEEEEECCCHHHHHhHHHHHHHH
Confidence                    999999999999998866

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

>cd04142 RRP22 RRP22 subfamily

Probab=99.67  E-value=4.8e-16  Score=105.62  Aligned_cols=81  Identities=20%  Similarity=0.228  Sum_probs=63.0

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccc--------
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQS--------   84 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~--------   84 (125)
                      +||+++|++|||||||+++ +.+.|..++.        ||.+.++.  .+..++  +.+++||++|++++..        
T Consensus         1 ~kI~ivG~~~vGKTsLi~~~~~~~f~~~~~--------pt~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~~~~~e~~~   72 (198)
T cd04142           1 VRVAVLGAPGVGKTAIVRQFLAQEFPEEYI--------PTEHRRLYRPAVVLSGRVYDLHILDVPNMQRYPGTAGQEWMD   72 (198)
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCCCcccC--------CccccccceeEEEECCEEEEEEEEeCCCcccCCccchhHHHH
Confidence            4899999999999999999 7788877776        88875542  445555  7899999999765421        


Q ss_pred             -----cccc-------cccCccCHHHHHHHHhhh
Q psy9521          85 -----LWDK-------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        85 -----~~~~-------Di~~~~s~~~i~~~l~~~  106 (125)
                           +...       |++++.||+++..|++.+
T Consensus        73 ~~~~~~~~ad~iilv~D~~~~~S~~~~~~~~~~i  106 (198)
T cd04142          73 PRFRGLRNSRAFILVYDICSPDSFHYVKLLRQQI  106 (198)
T ss_pred             HHHhhhccCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                 1111       999999999999998776

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.

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.66  E-value=8e-16  Score=104.37  Aligned_cols=82  Identities=20%  Similarity=0.218  Sum_probs=57.6

Q ss_pred             eEEEEEEeCCCCcHHHHHH-HHh-hc-----cccccCCCCCCccccccce-e-eE-E--------EEeC--CEEEEEEEC
Q psy9521          17 EFCVLILGLDNAGKTTYLE-SAK-TK-----FTKNYKGMNPSKITTTVGL-N-IG-Q--------IDIN--TVRLNFWDL   76 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~-~i~-~~-----~~~~~~~~~~~~~~~t~~~-~-~~-~--------~~~~--~~~~~i~D~   76 (125)
                      .+||+++|++|||||||+. +.. +.     |..++.        ||++. + +. .        +..+  .+.+++|||
T Consensus         2 ~~Kiv~vG~~~vGKTsLi~~~~~~~~~~~~~f~~~~~--------pTi~~~~~~~~~~~~~~~~~~~~~~~~v~l~iwDT   73 (195)
T cd01873           2 TIKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHV--------PTVWAIDQYRVCQEVLERSRDVVDGVSVSLRLWDT   73 (195)
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCcccccCccccC--------CceecccceeEEeeeccccceeeCCEEEEEEEEeC
Confidence            5799999999999999996 543 32     334444        88863 2 22 1        1233  389999999


Q ss_pred             CCccccc-c--cccc-------cccCccCHHHHH-HHHhhh
Q psy9521          77 GGQLELQ-S--LWDK-------DIRDCMGVREVK-PIFNKN  106 (125)
Q Consensus        77 ~G~~~~~-~--~~~~-------Di~~~~s~~~i~-~~l~~~  106 (125)
                      +|++++. .  +...       |++++.||++++ .|++++
T Consensus        74 aG~~~~~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i  114 (195)
T cd01873          74 FGDHDKDRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEI  114 (195)
T ss_pred             CCChhhhhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHH
Confidence            9997421 1  1111       999999999997 598887

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.

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.65  E-value=5.1e-16  Score=101.27  Aligned_cols=79  Identities=32%  Similarity=0.583  Sum_probs=62.1

Q ss_pred             EEEEEeCCCCcHHHHHHHH-hhccccccCCCCCCccccccceeeEEEEeC-CEEEEEEECCCcccccccccc--------
Q psy9521          19 CVLILGLDNAGKTTYLESA-KTKFTKNYKGMNPSKITTTVGLNIGQIDIN-TVRLNFWDLGGQLELQSLWDK--------   88 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i-~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~i~D~~G~~~~~~~~~~--------   88 (125)
                      ||+++|++|||||||++++ .+.+.. +.        ||.+.++..+... ++.+.+||++|+++++..|..        
T Consensus         1 ~i~i~G~~~~GKTsl~~~~~~~~~~~-~~--------~t~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~~~i   71 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKLKHAELVT-TI--------PTVGFNVEMLQLEKHLSLTVWDVGGQEKMRTVWKCYLENTDGL   71 (160)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCccc-cc--------CccCcceEEEEeCCceEEEEEECCCCHhHHHHHHHHhccCCEE
Confidence            5899999999999999994 454432 23        8888777666554 489999999999988776655        


Q ss_pred             ----cccCccCHHHHHHHHhhh
Q psy9521          89 ----DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----Di~~~~s~~~i~~~l~~~  106 (125)
                          |.+++.+++++..|+..+
T Consensus        72 v~v~D~~~~~~~~~~~~~~~~~   93 (160)
T cd04156          72 VYVVDSSDEARLDESQKELKHI   93 (160)
T ss_pred             EEEEECCcHHHHHHHHHHHHHH
Confidence                888888888888777664

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

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.65  E-value=5.6e-16  Score=101.79  Aligned_cols=80  Identities=20%  Similarity=0.330  Sum_probs=61.4

Q ss_pred             EEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccc-cccccc-----
Q psy9521          19 CVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLEL-QSLWDK-----   88 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~-~~~~~~-----   88 (125)
                      ||+++|++|||||||+++ +.+.|.+++.        ||.+..+. .+..++  +.+++||++|++++ ...+..     
T Consensus         1 ki~vvG~~~~GKtsli~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~   72 (165)
T cd04146           1 KIAVLGASGVGKSALVVRFLTKRFIGEYD--------PNLESLYSRQVTIDGEQVSLEILDTAGQQQADTEQLERSIRWA   72 (165)
T ss_pred             CEEEECCCCCcHHHHHHHHHhCccccccC--------CChHHhceEEEEECCEEEEEEEEECCCCcccccchHHHHHHhC
Confidence            589999999999999999 7777777776        76654443 344443  67999999999853 222222     


Q ss_pred             -------cccCccCHHHHHHHHhhh
Q psy9521          89 -------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -------Di~~~~s~~~i~~~l~~~  106 (125)
                             |+++..||++++.|+..+
T Consensus        73 d~~i~v~d~~~~~s~~~~~~~~~~~   97 (165)
T cd04146          73 DGFVLVYSITDRSSFDEISQLKQLI   97 (165)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHH
Confidence                   999999999999998877

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

>KOG0395|consensus

Probab=99.65  E-value=3e-16  Score=106.48  Aligned_cols=100  Identities=23%  Similarity=0.381  Sum_probs=83.4

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc---
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      ..+|++++|.+|||||+|+.+ +.+.|.++|.        ||++..|. .+.+++  +.+.|+|++|++.+..+...   
T Consensus         2 ~~~kvvvlG~~gVGKSal~~qf~~~~f~~~y~--------ptied~y~k~~~v~~~~~~l~ilDt~g~~~~~~~~~~~~~   73 (196)
T KOG0395|consen    2 REYKVVVLGAGGVGKSALTIQFLTGRFVEDYD--------PTIEDSYRKELTVDGEVCMLEILDTAGQEEFSAMRDLYIR   73 (196)
T ss_pred             CceEEEEECCCCCCcchheeeecccccccccC--------CCccccceEEEEECCEEEEEEEEcCCCcccChHHHHHhhc
Confidence            468999999999999999999 8999999998        99987665 555555  78999999999988877666   


Q ss_pred             ---------cccCccCHHHHHHHHhhhcccccCCCCeEEEEeecc
Q psy9521          89 ---------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSAL  124 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~sA~  124 (125)
                               +++++.||+++..+++++ .+.....++|++.|-.|
T Consensus        74 ~~~gF~lVysitd~~SF~~~~~l~~~I-~r~~~~~~~PivlVGNK  117 (196)
T KOG0395|consen   74 NGDGFLLVYSITDRSSFEEAKQLREQI-LRVKGRDDVPIILVGNK  117 (196)
T ss_pred             cCcEEEEEEECCCHHHHHHHHHHHHHH-HHhhCcCCCCEEEEEEc
Confidence                     999999999999999998 44444456777776543

>cd04114 Rab30 Rab30 subfamily

Probab=99.65  E-value=1.5e-15  Score=99.84  Aligned_cols=84  Identities=21%  Similarity=0.386  Sum_probs=66.2

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      +..+||+++|++|||||||+++ +.+.+...+.        +|++.++.  .+..++  +.+.+||++|++.+...+.. 
T Consensus         5 ~~~~~v~v~G~~~~GKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~   76 (169)
T cd04114           5 DFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQG--------ATIGVDFMIKTVEIKGEKIKLQIWDTAGQERFRSITQSY   76 (169)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHhCCCCCCCC--------CceeeEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHH
Confidence            3568999999999999999999 5566655554        77775543  455555  77999999999888776544 


Q ss_pred             -----------cccCccCHHHHHHHHhhh
Q psy9521          89 -----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~  106 (125)
                                 |.++..+|+++..|+.++
T Consensus        77 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~l  105 (169)
T cd04114          77 YRSANALILTYDITCEESFRCLPEWLREI  105 (169)
T ss_pred             hcCCCEEEEEEECcCHHHHHHHHHHHHHH
Confidence                       999999999999998776

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.

>cd01893 Miro1 Miro1 subfamily

Probab=99.65  E-value=9.9e-16  Score=100.91  Aligned_cols=81  Identities=10%  Similarity=0.134  Sum_probs=59.1

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCCEEEEEEECCCcccccccccc------
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINTVRLNFWDLGGQLELQSLWDK------   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~~~~~i~D~~G~~~~~~~~~~------   88 (125)
                      +||+++|++|||||||+++ +.+.|+.+++        ++......  .+...++++.+||++|++.++..+..      
T Consensus         1 ~kv~ivG~~~vGKTsl~~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad   72 (166)
T cd01893           1 VRIVLIGDEGVGKSSLIMSLVSEEFPENVP--------RVLPEITIPADVTPERVPTTIVDTSSRPQDRANLAAEIRKAN   72 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCccCC--------CcccceEeeeeecCCeEEEEEEeCCCchhhhHHHhhhcccCC
Confidence            4899999999999999999 6777766543        22211111  12224588999999999877654433      


Q ss_pred             ------cccCccCHHHHH-HHHhhh
Q psy9521          89 ------DIRDCMGVREVK-PIFNKN  106 (125)
Q Consensus        89 ------Di~~~~s~~~i~-~~l~~~  106 (125)
                            |++++.+|+++. .|++.+
T Consensus        73 ~~ilv~d~~~~~s~~~~~~~~~~~i   97 (166)
T cd01893          73 VICLVYSVDRPSTLERIRTKWLPLI   97 (166)
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHH
Confidence                  999999999986 587766

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.

>cd04123 Rab21 Rab21 subfamily

Probab=99.64  E-value=1.7e-15  Score=98.50  Aligned_cols=81  Identities=27%  Similarity=0.428  Sum_probs=63.4

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +||+++|++|||||||+++ +.+.+...+.        ++....+.  .+...+  +.+.+||++|++.+..+++.    
T Consensus         1 ~ki~i~G~~~~GKStli~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~   72 (162)
T cd04123           1 FKVVLLGEGRVGKTSLVLRYVENKFNEKHE--------STTQASFFQKTVNIGGKRIDLAIWDTAGQERYHALGPIYYRD   72 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcC--------CccceeEEEEEEEECCEEEEEEEEECCchHHHHHhhHHHhcc
Confidence            4899999999999999999 6666655544        55544432  333333  67999999999988877765    


Q ss_pred             --------cccCccCHHHHHHHHhhh
Q psy9521          89 --------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~  106 (125)
                              |+++..+++.+..|++.+
T Consensus        73 ~~~~i~v~d~~~~~s~~~~~~~~~~i   98 (162)
T cd04123          73 ADGAILVYDITDADSFQKVKKWIKEL   98 (162)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                    999999999999998876

The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.63  E-value=1.2e-15  Score=98.55  Aligned_cols=78  Identities=33%  Similarity=0.670  Sum_probs=63.6

Q ss_pred             EEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc----------
Q psy9521          20 VLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK----------   88 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~----------   88 (125)
                      |+++|++|||||||+++ ..+.+..++.        ||++.++..+...++.+.+||++|+++++..|..          
T Consensus         2 i~i~G~~~~GKssl~~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~   73 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGGQFSEDTI--------PTVGFNMRKVTKGNVTLKVWDLGGQPRFRSMWERYCRGVNAIVY   73 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccCCCCcCcc--------CCCCcceEEEEECCEEEEEEECCCCHhHHHHHHHHHhcCCEEEE
Confidence            79999999999999999 5566766666        9999888777777799999999999988876554          


Q ss_pred             --cccCccCHHHHHHHHhh
Q psy9521          89 --DIRDCMGVREVKPIFNK  105 (125)
Q Consensus        89 --Di~~~~s~~~i~~~l~~  105 (125)
                        |.++..++..+..|+..
T Consensus        74 v~d~~~~~~~~~~~~~~~~   92 (159)
T cd04159          74 VVDAADRTALEAAKNELHD   92 (159)
T ss_pred             EEECCCHHHHHHHHHHHHH
Confidence              77777778777665554

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

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.63  E-value=1.7e-15  Score=98.81  Aligned_cols=81  Identities=20%  Similarity=0.352  Sum_probs=64.8

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeC--CEEEEEEECCCcccccccccc-----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDIN--TVRLNFWDLGGQLELQSLWDK-----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~--~~~~~i~D~~G~~~~~~~~~~-----   88 (125)
                      +||+++|++|||||||+++ +.+.+...+.        ++.+..+. ....+  .+.+.+||++|++++..++..     
T Consensus         1 ~ki~~~G~~~~GKTsl~~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~   72 (164)
T cd04139           1 YKVIVVGAGGVGKSALTLQFMYDEFVEDYE--------PTKADSYRKKVVLDGEDVQLNILDTAGQEDYAAIRDNYHRSG   72 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCccccC--------CcchhhEEEEEEECCEEEEEEEEECCChhhhhHHHHHHhhcC
Confidence            4899999999999999999 6677776665        66655443 23334  378999999999988777665     


Q ss_pred             -------cccCccCHHHHHHHHhhh
Q psy9521          89 -------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -------Di~~~~s~~~i~~~l~~~  106 (125)
                             |+.++.+|+++..|+..+
T Consensus        73 ~~~i~v~d~~~~~s~~~~~~~~~~~   97 (164)
T cd04139          73 EGFLLVFSITDMESFTATAEFREQI   97 (164)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHH
Confidence                   889999999999988877

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

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

Probab=99.63  E-value=1e-15  Score=104.71  Aligned_cols=98  Identities=24%  Similarity=0.351  Sum_probs=73.3

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEE--EeC--CEEEEEEECCCcccccccccc--
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQI--DIN--TVRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~--~~~--~~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      ..+||+++|++|||||||+++ ..+.+..++.        ||++..+...  ...  .+++.+||++||++|+.+++.  
T Consensus         4 ~~~kivv~G~~g~GKTtl~~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~~~y~   75 (219)
T COG1100           4 KEFKIVVLGDGGVGKTTLLNRLVGDEFPEGYP--------PTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYY   75 (219)
T ss_pred             ceEEEEEEcCCCccHHHHHHHHhcCcCcccCC--------CceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHHHHHh
Confidence            348999999999999999999 6788888887        8888776522  222  478999999999999988877  


Q ss_pred             ----------cccC-ccCHHHHHHHHhhhcccccCCCCeEEEEeec
Q psy9521          89 ----------DIRD-CMGVREVKPIFNKNSAHLIGRRDCMVMPVSA  123 (125)
Q Consensus        89 ----------Di~~-~~s~~~i~~~l~~~~~~~~~~~~~~i~~~sA  123 (125)
                                |..+ ..+++..+.|..++  ........+++.|-.
T Consensus        76 ~~~~~~l~~~d~~~~~~~~~~~~~~~~~l--~~~~~~~~~iilv~n  119 (219)
T COG1100          76 RGANGILIVYDSTLRESSDELTEEWLEEL--RELAPDDVPILLVGN  119 (219)
T ss_pred             cCCCEEEEEEecccchhhhHHHHHHHHHH--HHhCCCCceEEEEec
Confidence                      7777 55555556799876  222223466666544

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.63  E-value=1.4e-15  Score=103.12  Aligned_cols=80  Identities=18%  Similarity=0.316  Sum_probs=63.8

Q ss_pred             EEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCcccccccee-eEEEEeCC--EEEEEEECCCcccccccccc------
Q psy9521          19 CVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLN-IGQIDINT--VRLNFWDLGGQLELQSLWDK------   88 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~-~~~~~~~~--~~~~i~D~~G~~~~~~~~~~------   88 (125)
                      ||+++|++|||||||+++ +.+.+..++.        +|.+.. ...+...+  +.+++||++|++++..++..      
T Consensus         1 kv~vvG~~~vGKTsll~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad   72 (198)
T cd04147           1 RLVFMGAAGVGKTALIQRFLYDTFEPKYR--------RTVEEMHRKEYEVGGVSLTLDILDTSGSYSFPAMRKLSIQNSD   72 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCC--------CchhhheeEEEEECCEEEEEEEEECCCchhhhHHHHHHhhcCC
Confidence            699999999999999999 6777766665        665422 23455555  78999999999988876654      


Q ss_pred             ------cccCccCHHHHHHHHhhh
Q psy9521          89 ------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ------Di~~~~s~~~i~~~l~~~  106 (125)
                            |++++.+|+++..|+..+
T Consensus        73 ~vilv~d~~~~~s~~~~~~~~~~i   96 (198)
T cd04147          73 AFALVYAVDDPESFEEVERLREEI   96 (198)
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHH
Confidence                  999999999999888765

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.

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

Probab=99.62  E-value=2.1e-15  Score=100.36  Aligned_cols=82  Identities=23%  Similarity=0.291  Sum_probs=64.2

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceee-EEEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNI-GQIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~-~~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +.||+++|++|||||||+++ +.+.+...+.        ||.+..+ ..+..++  +.+.+||++|+++++.++..    
T Consensus         1 ~~kv~l~G~~g~GKTtl~~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~   72 (180)
T cd04137           1 QRKIAVLGSRSVGKSSLTVQFVEGHFVESYY--------PTIENTFSKIIRYKGQDYHLEIVDTAGQDEYSILPQKYSIG   72 (180)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCccccC--------cchhhhEEEEEEECCEEEEEEEEECCChHhhHHHHHHHHhh
Confidence            36899999999999999999 5666666555        7765443 3444444  67899999999988877665    


Q ss_pred             --------cccCccCHHHHHHHHhhh
Q psy9521          89 --------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~  106 (125)
                              |.++..+|+++..|+..+
T Consensus        73 ~~~~i~v~d~~~~~~~~~~~~~~~~~   98 (180)
T cd04137          73 IHGYILVYSVTSRKSFEVVKVIYDKI   98 (180)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                    888999999998877665

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

>cd04129 Rho2 Rho2 subfamily

Probab=99.61  E-value=5.9e-15  Score=99.14  Aligned_cols=81  Identities=25%  Similarity=0.353  Sum_probs=64.3

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc-----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK-----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~-----   88 (125)
                      .|++++|+.|+|||||+++ ..+.+.+++.        +|+...+. .+..++  +.+.+||++|++.+...++.     
T Consensus         2 ~Ki~ivG~~g~GKStLl~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~a   73 (187)
T cd04129           2 RKLVIVGDGACGKTSLLSVFTLGEFPEEYH--------PTVFENYVTDCRVDGKPVQLALWDTAGQEEYERLRPLSYSKA   73 (187)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccC--------CcccceEEEEEEECCEEEEEEEEECCCChhccccchhhcCCC
Confidence            5899999999999999999 4577766655        77766554 444444  67899999999888765433     


Q ss_pred             -------cccCccCHHHHH-HHHhhh
Q psy9521          89 -------DIRDCMGVREVK-PIFNKN  106 (125)
Q Consensus        89 -------Di~~~~s~~~i~-~~l~~~  106 (125)
                             |+++..+|+++. .|+..+
T Consensus        74 ~~~llv~~i~~~~s~~~~~~~~~~~i   99 (187)
T cd04129          74 HVILIGFAVDTPDSLENVRTKWIEEV   99 (187)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHH
Confidence                   889999999997 599987

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).

>cd00154 Rab Rab family

Probab=99.61  E-value=3.9e-15  Score=95.99  Aligned_cols=81  Identities=31%  Similarity=0.587  Sum_probs=65.0

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEE--EEeC--CEEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQ--IDIN--TVRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~--~~~~--~~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +||+++|+++||||||+++ ..+.+...+.        +|.+.++..  +..+  ...+.+||++|++.+...+..    
T Consensus         1 ~~i~~~G~~~~GKStl~~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~   72 (159)
T cd00154           1 FKIVLIGDSGVGKTSLLLRFVDGKFDENYK--------STIGVDFKSKTIEIDGKTVKLQIWDTAGQERFRSITPSYYRG   72 (159)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCccC--------CceeeeeEEEEEEECCEEEEEEEEecCChHHHHHHHHHHhcC
Confidence            4899999999999999999 5566665555        788877653  3333  388999999999887776554    


Q ss_pred             --------cccCccCHHHHHHHHhhh
Q psy9521          89 --------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~  106 (125)
                              |..++.+++.+..|+..+
T Consensus        73 ~d~ii~v~d~~~~~~~~~~~~~~~~~   98 (159)
T cd00154          73 AHGAILVYDITNRESFENLDKWLKEL   98 (159)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                    888899999999999887

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

>cd00157 Rho Rho (Ras homology) family

Probab=99.61  E-value=7.1e-15  Score=96.64  Aligned_cols=81  Identities=27%  Similarity=0.388  Sum_probs=61.4

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeC--CEEEEEEECCCcccccccccc-----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDIN--TVRLNFWDLGGQLELQSLWDK-----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~--~~~~~i~D~~G~~~~~~~~~~-----   88 (125)
                      +||+++|++|||||||+++ +.+.+..++.        ||....+. .+..+  .+.+++||++|++++...+..     
T Consensus         1 iki~i~G~~~~GKSsli~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~l~~~D~~g~~~~~~~~~~~~~~~   72 (171)
T cd00157           1 IKIVVVGDGAVGKTCLLISYTTGKFPTEYV--------PTVFDNYSATVTVDGKQVNLGLWDTAGQEEYDRLRPLSYPNT   72 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCC--------CceeeeeEEEEEECCEEEEEEEEeCCCcccccccchhhcCCC
Confidence            5899999999999999999 6676655555        66554433 33333  378999999999987665444     


Q ss_pred             -------cccCccCHHHHH-HHHhhh
Q psy9521          89 -------DIRDCMGVREVK-PIFNKN  106 (125)
Q Consensus        89 -------Di~~~~s~~~i~-~~l~~~  106 (125)
                             |.+++.+|.++. .|+..+
T Consensus        73 ~~~i~v~d~~~~~s~~~~~~~~~~~~   98 (171)
T cd00157          73 DVFLICFSVDSPSSFENVKTKWIPEI   98 (171)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHH
Confidence                   999999999887 477766

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

>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=99.60  E-value=2.6e-15  Score=93.69  Aligned_cols=101  Identities=22%  Similarity=0.359  Sum_probs=63.6

Q ss_pred             EEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc---------
Q psy9521          19 CVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK---------   88 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~---------   88 (125)
                      ||+|+|+.|||||||+++ +.+.+....  .......+++..+...+..+...+.+||++|++.+...+..         
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~d~~i   78 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGEFPDNS--VPEETSEITIGVDVIVVDGDRQSLQFWDFGGQEEFYSQHQFFLKKADAVI   78 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS----------SSTTSCEEEEEEEETTEEEEEEEEEESSSHCHHCTSHHHHHHSCEEE
T ss_pred             CEEEECcCCCCHHHHHHHHhcCCCcccc--cccccCCCcEEEEEEEecCCceEEEEEecCccceecccccchhhcCcEEE
Confidence            799999999999999999 445444110  01111223444333333333456999999999888775444         


Q ss_pred             ---cccCccCHHHHHH---HHhhhcccccCCCCeEEEEeecc
Q psy9521          89 ---DIRDCMGVREVKP---IFNKNSAHLIGRRDCMVMPVSAL  124 (125)
Q Consensus        89 ---Di~~~~s~~~i~~---~l~~~~~~~~~~~~~~i~~~sA~  124 (125)
                         |.+++.||+++..   |+..+   .-..+++|++.+..+
T Consensus        79 lv~D~s~~~s~~~~~~~~~~l~~~---~~~~~~~piilv~nK  117 (119)
T PF08477_consen   79 LVYDLSDPESLEYLSQLLKWLKNI---RKRDKNIPIILVGNK  117 (119)
T ss_dssp             EEEECCGHHHHHHHHHHHHHHHHH---HHHSSCSEEEEEEE-
T ss_pred             EEEcCCChHHHHHHHHHHHHHHHH---HccCCCCCEEEEEec
Confidence               9999999999865   45554   323455777766543

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.

>cd00876 Ras Ras family

Probab=99.57  E-value=8.7e-15  Score=94.99  Aligned_cols=95  Identities=24%  Similarity=0.332  Sum_probs=68.7

Q ss_pred             EEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeC--CEEEEEEECCCcccccccccc------
Q psy9521          19 CVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDIN--TVRLNFWDLGGQLELQSLWDK------   88 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~--~~~~~i~D~~G~~~~~~~~~~------   88 (125)
                      ||+++|++|||||||+++ +.+.+..++.        |+.+..+. .+..+  .+.+++||++|++.+..++..      
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~   72 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKGTFVEEYD--------PTIEDSYRKTIVVDGETYTLDILDTAGQEEFSAMRDLYIRQGD   72 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCcCcC--------CChhHeEEEEEEECCEEEEEEEEECCChHHHHHHHHHHHhcCC
Confidence            699999999999999999 5666766665        66653333 34444  378999999999887776555      


Q ss_pred             ------cccCccCHHHHHHHHhhhcccccCCCCeEEEEee
Q psy9521          89 ------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 ------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                            |..++.+++++..|+..+ .........+++.+.
T Consensus        73 ~~i~v~d~~~~~s~~~~~~~~~~~-~~~~~~~~~p~ivv~  111 (160)
T cd00876          73 GFILVYSITDRESFEEIKGYREQI-LRVKDDEDIPIVLVG  111 (160)
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHH-HHhcCCCCCcEEEEE
Confidence                  999999999999988776 222222345555443

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

>cd04148 RGK RGK subfamily

Probab=99.57  E-value=1.8e-14  Score=99.43  Aligned_cols=81  Identities=12%  Similarity=0.190  Sum_probs=60.1

Q ss_pred             EEEEEEeCCCCcHHHHHHH-Hhhccc-cccCCCCCCccccccceee--EEEEeCC--EEEEEEECCCcccc-cc--cc-c
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFT-KNYKGMNPSKITTTVGLNI--GQIDINT--VRLNFWDLGGQLEL-QS--LW-D   87 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~-~~~~~~~~~~~~~t~~~~~--~~~~~~~--~~~~i~D~~G~~~~-~~--~~-~   87 (125)
                      +||+++|++|||||||+++ +.+.+. ..+.        ||.+.++  ..+..++  ..+.+||++|++.+ +.  +. .
T Consensus         1 ~KI~lvG~~gvGKTsLi~~~~~~~~~~~~~~--------~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~   72 (221)
T cd04148           1 YRVVMLGSPGVGKSSLASQFTSGEYDDHAYD--------ASGDDDTYERTVSVDGEESTLVVIDHWEQEMWTEDSCMQYQ   72 (221)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCcCccCcC--------CCccccceEEEEEECCEEEEEEEEeCCCcchHHHhHHhhcC
Confidence            4899999999999999999 467775 5555        6665232  3455543  78999999999822 11  11 1


Q ss_pred             c-------cccCccCHHHHHHHHhhh
Q psy9521          88 K-------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        88 ~-------Di~~~~s~~~i~~~l~~~  106 (125)
                      .       |++++.||+++..|+.++
T Consensus        73 ad~iilV~d~td~~S~~~~~~~~~~l   98 (221)
T cd04148          73 GDAFVVVYSVTDRSSFERASELRIQL   98 (221)
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHH
Confidence            1       999999999999998876

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

>KOG4252|consensus

Probab=99.55  E-value=2.7e-16  Score=103.77  Aligned_cols=95  Identities=27%  Similarity=0.398  Sum_probs=77.8

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EE--EeCCEEEEEEECCCcccccccccc--
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QI--DINTVRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~--~~~~~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      .-+|++++|..+|||+|+++| +++.|...|.        .|+|.++.  .+  ....++..+||++||+++..+...  
T Consensus        19 ~aiK~vivGng~VGKssmiqryCkgifTkdyk--------ktIgvdflerqi~v~~Edvr~mlWdtagqeEfDaItkAyy   90 (246)
T KOG4252|consen   19 RAIKFVIVGNGSVGKSSMIQRYCKGIFTKDYK--------KTIGVDFLERQIKVLIEDVRSMLWDTAGQEEFDAITKAYY   90 (246)
T ss_pred             hhEEEEEECCCccchHHHHHHHhccccccccc--------cccchhhhhHHHHhhHHHHHHHHHHhccchhHHHHHHHHh
Confidence            568999999999999999999 8999999998        99999985  23  333588999999999999888554  


Q ss_pred             ----------cccCccCHHHHHHHHhhhcccccCCCCeEEEEe
Q psy9521          89 ----------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPV  121 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~  121 (125)
                                .-+++.||+.+.+|.+.+   ...-..+|.+.+
T Consensus        91 rgaqa~vLVFSTTDr~SFea~~~w~~kv---~~e~~~IPtV~v  130 (246)
T KOG4252|consen   91 RGAQASVLVFSTTDRYSFEATLEWYNKV---QKETERIPTVFV  130 (246)
T ss_pred             ccccceEEEEecccHHHHHHHHHHHHHH---HHHhccCCeEEe
Confidence                      778999999999999998   333344454443

>KOG0096|consensus

Probab=99.51  E-value=3.2e-14  Score=94.55  Aligned_cols=97  Identities=23%  Similarity=0.407  Sum_probs=81.0

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEe---CC-EEEEEEECCCcccccccccc--
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDI---NT-VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~---~~-~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      ..+|++++|+.|.|||++++| +.++|...|.        +|+|+.......   .+ +++..||++|||.+..+...  
T Consensus         9 ~~fklvlvGdgg~gKtt~vkr~ltgeFe~~y~--------at~Gv~~~pl~f~tn~g~irf~~wdtagqEk~gglrdgyy   80 (216)
T KOG0096|consen    9 LTFKLVLVGDGGTGKTTFVKRHLTGEFEKTYP--------ATLGVEVHPLLFDTNRGQIRFNVWDTAGQEKKGGLRDGYY   80 (216)
T ss_pred             ceEEEEEecCCcccccchhhhhhcccceeccc--------CcceeEEeeeeeecccCcEEEEeeecccceeecccccccE
Confidence            468899999999999999999 9999999998        999999874433   24 89999999999998776665  


Q ss_pred             ----------cccCccCHHHHHHHHhhhcccccCCCCeEEEEeec
Q psy9521          89 ----------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSA  123 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~sA  123 (125)
                                |++.+..+.++..|.+..   .--..++||+.|-.
T Consensus        81 I~~qcAiimFdVtsr~t~~n~~rwhrd~---~rv~~NiPiv~cGN  122 (216)
T KOG0096|consen   81 IQGQCAIIMFDVTSRFTYKNVPRWHRDL---VRVRENIPIVLCGN  122 (216)
T ss_pred             EecceeEEEeeeeehhhhhcchHHHHHH---HHHhcCCCeeeecc
Confidence                      999999999999999987   22234478887754

>KOG1673|consensus

Probab=99.49  E-value=5e-14  Score=91.13  Aligned_cols=95  Identities=21%  Similarity=0.432  Sum_probs=79.8

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      .-.+||-++|++..|||||+.. +.+++.+++.        .+.|+++.  ++.+.+  +.+.+||++||+++..+.+. 
T Consensus        18 ~Vslkv~llGD~qiGKTs~mvkYV~~~~de~~~--------q~~GvN~mdkt~~i~~t~IsfSIwdlgG~~~~~n~lPia   89 (205)
T KOG1673|consen   18 LVSLKVGLLGDAQIGKTSLMVKYVQNEYDEEYT--------QTLGVNFMDKTVSIRGTDISFSIWDLGGQREFINMLPIA   89 (205)
T ss_pred             ceEEEEEeecccccCceeeehhhhcchhHHHHH--------HHhCccceeeEEEecceEEEEEEEecCCcHhhhccCcee
Confidence            4578999999999999999999 8988888877        89999985  555555  88999999999999988877 


Q ss_pred             -----------cccCccCHHHHHHHHhhhcccccCCCCeEEE
Q psy9521          89 -----------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVM  119 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~  119 (125)
                                 |++.+.++..+..|+.+.  +...+..+||.
T Consensus        90 c~dsvaIlFmFDLt~r~TLnSi~~WY~QA--r~~NktAiPil  129 (205)
T KOG1673|consen   90 CKDSVAILFMFDLTRRSTLNSIKEWYRQA--RGLNKTAIPIL  129 (205)
T ss_pred             ecCcEEEEEEEecCchHHHHHHHHHHHHH--hccCCccceEE
Confidence                       999999999999999997  33444455543

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.48  E-value=3.6e-13  Score=86.33  Aligned_cols=82  Identities=27%  Similarity=0.357  Sum_probs=59.6

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEE--EEeCC--EEEEEEECCCcccccccccc---
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQ--IDINT--VRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~--~~~~~--~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      .+||+++|.+|+|||||+++ +.+.++.++.        ++.+.++..  +..++  +.+.+||++|++++..++..   
T Consensus         1 ~~ki~~~G~~~~GKstl~~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~   72 (161)
T TIGR00231         1 EIKIVIVGDPNVGKSTLLNRLLGNKFITEYK--------PGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYRAIRRLYYR   72 (161)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCCCCcCcCC--------CCceeeeeEEEEEECCEEEEEEEEECCCcccchHHHHHHHh
Confidence            37899999999999999999 5555555544        677666643  55666  88999999999988766544   


Q ss_pred             ---------cccCc-cCHHHHH-HHHhhh
Q psy9521          89 ---------DIRDC-MGVREVK-PIFNKN  106 (125)
Q Consensus        89 ---------Di~~~-~s~~~i~-~~l~~~  106 (125)
                               |+... .++++.. .|...+
T Consensus        73 ~~~~~i~~~d~~~~v~~~~~~~~~~~~~~  101 (161)
T TIGR00231        73 AVESSLRVFDIVILVLDVEEILEKQTKEI  101 (161)
T ss_pred             hhhEEEEEEEEeeeehhhhhHhHHHHHHH
Confidence                     66555 5666555 555544

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.

>cd04171 SelB SelB subfamily

Probab=99.43  E-value=6.2e-13  Score=86.63  Aligned_cols=60  Identities=23%  Similarity=0.345  Sum_probs=42.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh----ccccccCCCCCCccccccceeeEEEEeC-CEEEEEEECCCcccccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKT----KFTKNYKGMNPSKITTTVGLNIGQIDIN-TVRLNFWDLGGQLELQS   84 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~----~~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~i~D~~G~~~~~~   84 (125)
                      .|+++|.+|||||||++++.+    .+..++.      ...|+...+..+... +..+.+|||+|++++..
T Consensus         2 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~~~------~~~t~~~~~~~~~~~~~~~~~~~DtpG~~~~~~   66 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTGIETDRLPEEKK------RGITIDLGFAYLDLPSGKRLGFIDVPGHEKFIK   66 (164)
T ss_pred             EEEEEecCCCCHHHHHHHHhCcccccchhhhc------cCceEEeeeEEEEecCCcEEEEEECCChHHHHH
Confidence            489999999999999999653    2222211      113555555555555 78999999999988754

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

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

Probab=99.38  E-value=1.6e-12  Score=88.72  Aligned_cols=97  Identities=15%  Similarity=0.239  Sum_probs=62.9

Q ss_pred             EEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEe----CCEEEEEEECCCcccccccccc-----
Q psy9521          19 CVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDI----NTVRLNFWDLGGQLELQSLWDK-----   88 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~----~~~~~~i~D~~G~~~~~~~~~~-----   88 (125)
                      +|+++|++|||||+|+++ ..+.+...+.        + ...++..+..    .+..+.+||+||+++++..+..     
T Consensus         2 ~vll~G~~~sGKTsL~~~l~~~~~~~t~~--------s-~~~~~~~~~~~~~~~~~~~~l~D~pG~~~~~~~~~~~~~~~   72 (203)
T cd04105           2 TVLLLGPSDSGKTALFTKLTTGKYRSTVT--------S-IEPNVATFILNSEGKGKKFRLVDVPGHPKLRDKLLETLKNS   72 (203)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCccC--------c-EeecceEEEeecCCCCceEEEEECCCCHHHHHHHHHHHhcc
Confidence            489999999999999999 4555554432        2 2223332222    3588999999999988776554     


Q ss_pred             --------cccCc-cCHHHHHHHHhhhccc-ccCCCCeEEEEeecc
Q psy9521          89 --------DIRDC-MGVREVKPIFNKNSAH-LIGRRDCMVMPVSAL  124 (125)
Q Consensus        89 --------Di~~~-~s~~~i~~~l~~~~~~-~~~~~~~~i~~~sA~  124 (125)
                              |..+. .++.++..|+..+... ....+.++++.++.|
T Consensus        73 ~~~vV~VvD~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK  118 (203)
T cd04105          73 AKGIVFVVDSATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNK  118 (203)
T ss_pred             CCEEEEEEECccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecc
Confidence                    66666 6788887776654111 112245666666543

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

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

Probab=99.37  E-value=7.4e-12  Score=82.15  Aligned_cols=56  Identities=27%  Similarity=0.318  Sum_probs=40.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHh-hccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcc
Q psy9521          19 CVLILGLDNAGKTTYLESAK-TKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQL   80 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~-~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~   80 (125)
                      +|+++|.+|||||||++++. +.+....      ...+|.......+..+++.+.+|||+|+.
T Consensus         2 ~i~~~G~~~~GKssli~~l~~~~~~~~~------~~~~t~~~~~~~~~~~~~~~~i~Dt~G~~   58 (168)
T cd01897           2 TLVIAGYPNVGKSSLVNKLTRAKPEVAP------YPFTTKSLFVGHFDYKYLRWQVIDTPGLL   58 (168)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCccCC------CCCcccceeEEEEccCceEEEEEECCCcC
Confidence            69999999999999999954 4332110      11145555555566667999999999984

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.

>PRK15494 era GTPase Era; Provisional

Probab=99.37  E-value=8.6e-12  Score=91.12  Aligned_cols=61  Identities=26%  Similarity=0.409  Sum_probs=44.1

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHh-hccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAK-TKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQL   80 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~-~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~   80 (125)
                      ++.++|+++|.+|||||||++++. +.+. .+    ....++|.......+..++.++.+|||+|+.
T Consensus        50 ~k~~kV~ivG~~nvGKSTLin~l~~~k~~-iv----s~k~~tTr~~~~~~~~~~~~qi~~~DTpG~~  111 (339)
T PRK15494         50 QKTVSVCIIGRPNSGKSTLLNRIIGEKLS-IV----TPKVQTTRSIITGIITLKDTQVILYDTPGIF  111 (339)
T ss_pred             cceeEEEEEcCCCCCHHHHHHHHhCCcee-ec----cCCCCCccCcEEEEEEeCCeEEEEEECCCcC
Confidence            567899999999999999999954 4332 11    1122355555445667778899999999984

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

Probab=99.36  E-value=4e-12  Score=85.85  Aligned_cols=70  Identities=20%  Similarity=0.368  Sum_probs=45.4

Q ss_pred             EEEEEeCCCCcHHHHHHH-Hh--hccccccCC----CCCCccccccceee----EEEEeCCEEEEEEECCCccccccccc
Q psy9521          19 CVLILGLDNAGKTTYLES-AK--TKFTKNYKG----MNPSKITTTVGLNI----GQIDINTVRLNFWDLGGQLELQSLWD   87 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~-i~--~~~~~~~~~----~~~~~~~~t~~~~~----~~~~~~~~~~~i~D~~G~~~~~~~~~   87 (125)
                      +|+++|..+||||||+++ +.  +.|...+..    ....+..++.|..+    ..+..++..+++||++|+++|...+.
T Consensus         4 ~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~   83 (194)
T cd01891           4 NIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTYKDTKINIVDTPGHADFGGEVE   83 (194)
T ss_pred             EEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEECCEEEEEEECCCcHHHHHHHH
Confidence            699999999999999999 54  445443210    00001112333332    24556679999999999998876554


Q ss_pred             c
Q psy9521          88 K   88 (125)
Q Consensus        88 ~   88 (125)
                      .
T Consensus        84 ~   84 (194)
T cd01891          84 R   84 (194)
T ss_pred             H
Confidence            4

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

>KOG0077|consensus

Probab=99.34  E-value=1.3e-12  Score=85.26  Aligned_cols=94  Identities=30%  Similarity=0.399  Sum_probs=77.0

Q ss_pred             HHHHHhhh-ccCceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccccc
Q psy9521           5 VSGFYKYM-LRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQ   83 (125)
Q Consensus         5 ~~~~~~~~-~~~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~   83 (125)
                      |++++.++ ..++.-|++++|..|+|||||++.+++.....+.        ||..-..+.+.+.+.+++.+|++|+...+
T Consensus         7 F~~VLq~LgL~kK~gKllFlGLDNAGKTTLLHMLKdDrl~qhv--------PTlHPTSE~l~Ig~m~ftt~DLGGH~qAr   78 (193)
T KOG0077|consen    7 FSSVLQFLGLYKKFGKLLFLGLDNAGKTTLLHMLKDDRLGQHV--------PTLHPTSEELSIGGMTFTTFDLGGHLQAR   78 (193)
T ss_pred             HHHHHHHHHHhccCceEEEEeecCCchhhHHHHHccccccccC--------CCcCCChHHheecCceEEEEccccHHHHH
Confidence            56666666 4467889999999999999999999877776666        88877777888899999999999998888


Q ss_pred             ccccc------------cccCccCHHHHHHHHhhh
Q psy9521          84 SLWDK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        84 ~~~~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      ..|..            |..|..-|.+.+.-++..
T Consensus        79 r~wkdyf~~v~~iv~lvda~d~er~~es~~eld~l  113 (193)
T KOG0077|consen   79 RVWKDYFPQVDAIVYLVDAYDQERFAESKKELDAL  113 (193)
T ss_pred             HHHHHHHhhhceeEeeeehhhHHHhHHHHHHHHHH
Confidence            88887            777777777777655554

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.32  E-value=1e-11  Score=82.33  Aligned_cols=76  Identities=22%  Similarity=0.361  Sum_probs=57.1

Q ss_pred             ccCceEEEEEEeCCCCcHHHHHHHHhhcccccc--C---CCCCCccccccceeeEEEEeCC-EEEEEEECCCcccccccc
Q psy9521          13 LRKDEFCVLILGLDNAGKTTYLESAKTKFTKNY--K---GMNPSKITTTVGLNIGQIDINT-VRLNFWDLGGQLELQSLW   86 (125)
Q Consensus        13 ~~~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~--~---~~~~~~~~~t~~~~~~~~~~~~-~~~~i~D~~G~~~~~~~~   86 (125)
                      ++-...||++.|+.++||||+++++..+.....  .   .........|+..++..+..++ ..++++|+|||+||+.+|
T Consensus         6 ~k~~~~KIvv~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~~~~~~~~~v~LfgtPGq~RF~fm~   85 (187)
T COG2229           6 NKMIETKIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIELDEDTGVHLFGTPGQERFKFMW   85 (187)
T ss_pred             ccccceeEEEEcccccchhhHHHHhhccccceeeccccccccccccceeEeecccceEEcCcceEEEecCCCcHHHHHHH
Confidence            445788999999999999999999665543111  0   0111122367888998877766 899999999999999999


Q ss_pred             cc
Q psy9521          87 DK   88 (125)
Q Consensus        87 ~~   88 (125)
                      ..
T Consensus        86 ~~   87 (187)
T COG2229          86 EI   87 (187)
T ss_pred             HH
Confidence            88

>cd01878 HflX HflX subfamily

Probab=99.32  E-value=7.5e-12  Score=84.96  Aligned_cols=86  Identities=15%  Similarity=0.176  Sum_probs=54.8

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhh-ccccccCCCCCCccccccceeeEEEEeCC-EEEEEEECCCccc---------cc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKT-KFTKNYKGMNPSKITTTVGLNIGQIDINT-VRLNFWDLGGQLE---------LQ   83 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~-~~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~i~D~~G~~~---------~~   83 (125)
                      +..++|+++|++|||||||++++.+ .+...      ....+|.......+...+ ..+.+||++|...         +.
T Consensus        39 ~~~~~I~iiG~~g~GKStLl~~l~~~~~~~~------~~~~~t~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~  112 (204)
T cd01878          39 SGIPTVALVGYTNAGKSTLFNALTGADVYAE------DQLFATLDPTTRRLRLPDGREVLLTDTVGFIRDLPHQLVEAFR  112 (204)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhcchhccC------CccceeccceeEEEEecCCceEEEeCCCccccCCCHHHHHHHH
Confidence            4467999999999999999999543 32211      111255555444555555 4899999999732         21


Q ss_pred             cccc----c-------cccCccCHHHHHHHHhhh
Q psy9521          84 SLWD----K-------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        84 ~~~~----~-------Di~~~~s~~~i~~~l~~~  106 (125)
                      ..+.    .       |..++.+++.+..|.+.+
T Consensus       113 ~~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~l  146 (204)
T cd01878         113 STLEEVAEADLLLHVVDASDPDYEEQIETVEKVL  146 (204)
T ss_pred             HHHHHHhcCCeEEEEEECCCCChhhHHHHHHHHH
Confidence            1111    1       888888888776555543

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.

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.29  E-value=3.2e-11  Score=90.83  Aligned_cols=83  Identities=20%  Similarity=0.321  Sum_probs=56.7

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhc---cccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccccccccc----
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTK---FTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWD----   87 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~---~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~----   87 (125)
                      +..+||+++|++|||||||++++.+.   +..+++       ..|.......+..++..+.+|||+|++++...+.    
T Consensus       201 ~~g~kVvIvG~~nvGKSSLiN~L~~~~~aivs~~p-------gtTrd~~~~~i~~~g~~v~l~DTaG~~~~~~~ie~~gi  273 (442)
T TIGR00450       201 DDGFKLAIVGSPNVGKSSLLNALLKQDRAIVSDIK-------GTTRDVVEGDFELNGILIKLLDTAGIREHADFVERLGI  273 (442)
T ss_pred             hcCCEEEEECCCCCcHHHHHHHHhCCCCcccCCCC-------CcEEEEEEEEEEECCEEEEEeeCCCcccchhHHHHHHH
Confidence            46789999999999999999995432   222322       1223333346777889999999999865443211    


Q ss_pred             ---------c-------cccCccCHHHHHHHHhhh
Q psy9521          88 ---------K-------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        88 ---------~-------Di~~~~s~~~i~~~l~~~  106 (125)
                               .       |.+++.++++.  |+...
T Consensus       274 ~~~~~~~~~aD~il~V~D~s~~~s~~~~--~l~~~  306 (442)
T TIGR00450       274 EKSFKAIKQADLVIYVLDASQPLTKDDF--LIIDL  306 (442)
T ss_pred             HHHHHHHhhCCEEEEEEECCCCCChhHH--HHHHH
Confidence                     0       88888888776  55544

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.

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

Probab=99.29  E-value=2.5e-11  Score=79.43  Aligned_cols=64  Identities=20%  Similarity=0.260  Sum_probs=43.4

Q ss_pred             EEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEeC---CEEEEEEECCCcccccccccc
Q psy9521          19 CVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDIN---TVRLNFWDLGGQLELQSLWDK   88 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~---~~~~~i~D~~G~~~~~~~~~~   88 (125)
                      .|+++|++|||||||+++ ..+++...+.      ..+|.......+..+   +..+.+|||+|++.+..++..
T Consensus         2 ~i~iiG~~~~GKtsli~~l~~~~~~~~~~------~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~~~~~~~~~   69 (168)
T cd01887           2 VVTVMGHVDHGKTTLLDKIRKTNVAAGEA------GGITQHIGAFEVPAEVLKIPGITFIDTPGHEAFTNMRAR   69 (168)
T ss_pred             EEEEEecCCCCHHHHHHHHHhcccccccC------CCeEEeeccEEEecccCCcceEEEEeCCCcHHHHHHHHH
Confidence            389999999999999999 4455443221      112333333344443   688999999999888766554

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.

>PRK04213 GTP-binding protein; Provisional

Probab=99.27  E-value=6.7e-12  Score=84.95  Aligned_cols=54  Identities=20%  Similarity=0.257  Sum_probs=36.8

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHh-hccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCC
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAK-TKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGG   78 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~-~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G   78 (125)
                      .+.++|+++|.+|||||||++++. +.+...+.        |+.......+...  .+.+||++|
T Consensus         7 ~~~~~i~i~G~~~~GKSsLin~l~~~~~~~~~~--------~~~t~~~~~~~~~--~~~l~Dt~G   61 (201)
T PRK04213          7 DRKPEIVFVGRSNVGKSTLVRELTGKKVRVGKR--------PGVTRKPNHYDWG--DFILTDLPG   61 (201)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCC--------CceeeCceEEeec--ceEEEeCCc
Confidence            357899999999999999999954 33332222        4333333333333  689999999

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

Probab=99.26  E-value=2.5e-11  Score=81.00  Aligned_cols=58  Identities=21%  Similarity=0.208  Sum_probs=38.6

Q ss_pred             ccCceEEEEEEeCCCCcHHHHHHHHhh-ccccccCCCCCCccccccceeeE--EEEeCCEEEEEEECCCc
Q psy9521          13 LRKDEFCVLILGLDNAGKTTYLESAKT-KFTKNYKGMNPSKITTTVGLNIG--QIDINTVRLNFWDLGGQ   79 (125)
Q Consensus        13 ~~~~~~ki~v~G~~~~GKTsl~~~i~~-~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~~~~~i~D~~G~   79 (125)
                      .+.+..+|+++|++|+|||||++++.+ .+...+.        ++.+.+..  .+..+ -.+.+||++|.
T Consensus        14 ~~~~~~~i~ivG~~~~GKStlin~l~~~~~~~~~~--------~~~~~t~~~~~~~~~-~~~~liDtpG~   74 (179)
T TIGR03598        14 PPDDGPEIAFAGRSNVGKSSLINALTNRKKLARTS--------KTPGRTQLINFFEVN-DGFRLVDLPGY   74 (179)
T ss_pred             CCCCCCEEEEEcCCCCCHHHHHHHHhCCCCccccc--------CCCCcceEEEEEEeC-CcEEEEeCCCC
Confidence            346788999999999999999999543 3444333        33332211  12223 36899999995

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.

>cd01898 Obg Obg subfamily

Probab=99.23  E-value=6.1e-11  Score=77.82  Aligned_cols=83  Identities=28%  Similarity=0.277  Sum_probs=52.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCE-EEEEEECCCccc----cccccc------
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTV-RLNFWDLGGQLE----LQSLWD------   87 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~i~D~~G~~~----~~~~~~------   87 (125)
                      .|+++|.+|||||||++++.+.... . +   ....+|....+..+..++. .+.+|||+|+..    .+.+..      
T Consensus         2 ~v~ivG~~~~GKStl~~~l~~~~~~-v-~---~~~~~t~~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~   76 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISNAKPK-I-A---DYPFTTLVPNLGVVRVDDGRSFVVADIPGLIEGASEGKGLGHRFLRHI   76 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHhcCCcc-c-c---CCCccccCCcceEEEcCCCCeEEEEecCcccCcccccCCchHHHHHHH
Confidence            4899999999999999996543211 0 0   0001233333334445554 899999999732    111111      


Q ss_pred             --c-------cccCc-cCHHHHHHHHhhh
Q psy9521          88 --K-------DIRDC-MGVREVKPIFNKN  106 (125)
Q Consensus        88 --~-------Di~~~-~s~~~i~~~l~~~  106 (125)
                        .       |.++. .+++.+..|++++
T Consensus        77 ~~~d~vi~v~D~~~~~~~~~~~~~~~~~l  105 (170)
T cd01898          77 ERTRLLLHVIDLSGDDDPVEDYKTIRNEL  105 (170)
T ss_pred             HhCCEEEEEEecCCCCCHHHHHHHHHHHH
Confidence              1       88888 7898888887765

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.

>KOG4423|consensus

Probab=99.23  E-value=2.3e-13  Score=90.33  Aligned_cols=97  Identities=22%  Similarity=0.424  Sum_probs=78.1

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC---EEEEEEECCCcccccccccc-
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT---VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~---~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      .-+|++|+|+-|+|||++++| +...|...|.        .|+|.++.  ....+.   +++++||.+||+++..+... 
T Consensus        24 hL~k~lVig~~~vgkts~i~ryv~~nfs~~yR--------AtIgvdfalkVl~wdd~t~vRlqLwdIagQerfg~mtrVy   95 (229)
T KOG4423|consen   24 HLFKVLVIGDLGVGKTSSIKRYVHQNFSYHYR--------ATIGVDFALKVLQWDDKTIVRLQLWDIAGQERFGNMTRVY   95 (229)
T ss_pred             hhhhhheeeeccccchhHHHHHHHHHHHHHHH--------HHHhHHHHHHHhccChHHHHHHHHhcchhhhhhcceEEEE
Confidence            345699999999999999999 8889999998        99998874  233333   78999999999999887766 


Q ss_pred             -----------cccCccCHHHHHHHHhhhcccc-c-CCCCeEEEE
Q psy9521          89 -----------DIRDCMGVREVKPIFNKNSAHL-I-GRRDCMVMP  120 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~~~~~-~-~~~~~~i~~  120 (125)
                                 |++++..|+.+..|.++.+... + .+.|++++.
T Consensus        96 ykea~~~~iVfdvt~s~tfe~~skwkqdldsk~qLpng~Pv~~vl  140 (229)
T KOG4423|consen   96 YKEAHGAFIVFDVTRSLTFEPVSKWKQDLDSKLQLPNGTPVPCVL  140 (229)
T ss_pred             ecCCcceEEEEEccccccccHHHHHHHhccCcccCCCCCcchhee
Confidence                       9999999999999999983111 2 346666654

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.22  E-value=1.2e-10  Score=77.43  Aligned_cols=70  Identities=23%  Similarity=0.181  Sum_probs=42.7

Q ss_pred             EEEEEeCCCCcHHHHHHHH-hhccccccCCCCC----------CccccccceeeEEEEeCCEEEEEEECCCccccccccc
Q psy9521          19 CVLILGLDNAGKTTYLESA-KTKFTKNYKGMNP----------SKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWD   87 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i-~~~~~~~~~~~~~----------~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~   87 (125)
                      +|+++|..|+|||||++++ .......+.....          .....|.......+...+..+.+||++|+..+...+.
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~   80 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEWPDRRVNFIDTPGHEDFSSEVI   80 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEeeCCEEEEEEeCCCcHHHHHHHH
Confidence            4899999999999999994 4444332210000          0011222333334555678999999999887655443


Q ss_pred             c
Q psy9521          88 K   88 (125)
Q Consensus        88 ~   88 (125)
                      .
T Consensus        81 ~   81 (189)
T cd00881          81 R   81 (189)
T ss_pred             H
Confidence            3

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.

>cd01890 LepA LepA subfamily

Probab=99.21  E-value=7.9e-11  Score=78.04  Aligned_cols=83  Identities=14%  Similarity=0.250  Sum_probs=50.7

Q ss_pred             EEEEEeCCCCcHHHHHHH-Hhhc-------cccccCCCCCCccccccceeeE----EE-----EeCCEEEEEEECCCccc
Q psy9521          19 CVLILGLDNAGKTTYLES-AKTK-------FTKNYKGMNPSKITTTVGLNIG----QI-----DINTVRLNFWDLGGQLE   81 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~-i~~~-------~~~~~~~~~~~~~~~t~~~~~~----~~-----~~~~~~~~i~D~~G~~~   81 (125)
                      +|+++|+.+||||||+++ +...       +...+.  .....+++.|..+.    .+     ...++.+.+|||+|+++
T Consensus         2 ni~~vG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~--~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~   79 (179)
T cd01890           2 NFSIIAHIDHGKSTLADRLLELTGTVSKREMKEQVL--DSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHVD   79 (179)
T ss_pred             cEEEEeecCCCHHHHHHHHHHHhCCCCcCCCceEec--cCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCChh
Confidence            489999999999999999 4421       211221  00001122233332    12     22358899999999998


Q ss_pred             ccccccc------------cccCccCHHHHHHHH
Q psy9521          82 LQSLWDK------------DIRDCMGVREVKPIF  103 (125)
Q Consensus        82 ~~~~~~~------------Di~~~~s~~~i~~~l  103 (125)
                      +...+..            |..+..+++.+..|.
T Consensus        80 ~~~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~  113 (179)
T cd01890          80 FSYEVSRSLAACEGALLLVDATQGVEAQTLANFY  113 (179)
T ss_pred             hHHHHHHHHHhcCeEEEEEECCCCccHhhHHHHH
Confidence            8776554            777766666655443

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.

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.19  E-value=9.7e-11  Score=85.97  Aligned_cols=81  Identities=16%  Similarity=0.232  Sum_probs=55.0

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhc-cc-cccCCCCCCccccccceeeEEEEe-CCEEEEEEECCCcc---------cccc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTK-FT-KNYKGMNPSKITTTVGLNIGQIDI-NTVRLNFWDLGGQL---------ELQS   84 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~-~~-~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~i~D~~G~~---------~~~~   84 (125)
                      -.+|+++|.+|||||||++++.+. +. .++       ..+|.......+.. ++..+.+|||+|..         .|+.
T Consensus       189 ~~~ValvG~~NvGKSSLln~L~~~~~~v~~~-------~~tT~d~~~~~i~~~~~~~i~l~DT~G~~~~l~~~lie~f~~  261 (351)
T TIGR03156       189 VPTVALVGYTNAGKSTLFNALTGADVYAADQ-------LFATLDPTTRRLDLPDGGEVLLTDTVGFIRDLPHELVAAFRA  261 (351)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCceeeccC-------CccccCCEEEEEEeCCCceEEEEecCcccccCCHHHHHHHHH
Confidence            488999999999999999995543 21 111       12566655566666 46899999999972         2222


Q ss_pred             cccc-----------cccCccCHHHHHHHHh
Q psy9521          85 LWDK-----------DIRDCMGVREVKPIFN  104 (125)
Q Consensus        85 ~~~~-----------Di~~~~s~~~i~~~l~  104 (125)
                      .+..           |.+++.+++++..|.+
T Consensus       262 tle~~~~ADlil~VvD~s~~~~~~~~~~~~~  292 (351)
T TIGR03156       262 TLEEVREADLLLHVVDASDPDREEQIEAVEK  292 (351)
T ss_pred             HHHHHHhCCEEEEEEECCCCchHHHHHHHHH
Confidence            2211           8888888887754443

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).

>cd01889 SelB_euk SelB subfamily

Probab=99.18  E-value=7.7e-11  Score=79.44  Aligned_cols=62  Identities=23%  Similarity=0.345  Sum_probs=39.3

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhc-----cccccCCCCCCccccccceeeEEEEeC--------------CEEEEEEECCC
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTK-----FTKNYKGMNPSKITTTVGLNIGQIDIN--------------TVRLNFWDLGG   78 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~-----~~~~~~~~~~~~~~~t~~~~~~~~~~~--------------~~~~~i~D~~G   78 (125)
                      ++|+++|..++|||||++++...     +...+.   ......|++..+..+...              +..+.+||++|
T Consensus         1 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~~~~---e~~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG   77 (192)
T cd01889           1 VNVGVLGHVDSGKTSLAKALSEIASTAAFDKNPQ---SQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPG   77 (192)
T ss_pred             CeEEEEecCCCCHHHHHHHHHhccchhhhccCHH---HHHcCCeeeecceEEEecccccccccccccccCceEEEEECCC
Confidence            47999999999999999995431     111100   001124555554444333              68899999999


Q ss_pred             cccc
Q psy9521          79 QLEL   82 (125)
Q Consensus        79 ~~~~   82 (125)
                      +..+
T Consensus        78 ~~~~   81 (192)
T cd01889          78 HASL   81 (192)
T ss_pred             cHHH
Confidence            8653

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

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.17  E-value=2.9e-10  Score=85.17  Aligned_cols=62  Identities=18%  Similarity=0.121  Sum_probs=41.2

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHh-hccc--cccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAK-TKFT--KNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQS   84 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~-~~~~--~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~   84 (125)
                      ..++++++|.+++|||||++++. +...  .+..       ..|.......+..++..+.+|||+|..++..
T Consensus       171 ~~~~v~ivG~~~~GKSsLin~l~~~~~~~~~~~~-------gtt~~~~~~~~~~~~~~~~liDT~G~~~~~~  235 (429)
T TIGR03594       171 GPIKIAIIGRPNVGKSTLVNALLGEERVIVSDIA-------GTTRDSIDIPFERNGKKYLLIDTAGIRRKGK  235 (429)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCCCeeecCCCC-------CceECcEeEEEEECCcEEEEEECCCcccccc
Confidence            35899999999999999999954 3221  1111       1222222234556778899999999865543

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.

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.17  E-value=1.1e-10  Score=78.40  Aligned_cols=58  Identities=21%  Similarity=0.188  Sum_probs=39.9

Q ss_pred             ccCceEEEEEEeCCCCcHHHHHHHHh-hccccccCCCCCCccccccceeeE--EEEeCCEEEEEEECCCc
Q psy9521          13 LRKDEFCVLILGLDNAGKTTYLESAK-TKFTKNYKGMNPSKITTTVGLNIG--QIDINTVRLNFWDLGGQ   79 (125)
Q Consensus        13 ~~~~~~ki~v~G~~~~GKTsl~~~i~-~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~~~~~i~D~~G~   79 (125)
                      +.....+|+++|++|+|||||++++. +++...+.        ++.+.+..  ... .+..+.+||++|.
T Consensus        20 ~~~~~~~v~ivG~~~~GKSsli~~l~~~~~~~~~~--------~~~~~t~~~~~~~-~~~~l~l~DtpG~   80 (196)
T PRK00454         20 PPDDGPEIAFAGRSNVGKSSLINALTNRKNLARTS--------KTPGRTQLINFFE-VNDKLRLVDLPGY   80 (196)
T ss_pred             CCCCCCEEEEEcCCCCCHHHHHHHHhCCCCccccc--------CCCCceeEEEEEe-cCCeEEEeCCCCC
Confidence            34567889999999999999999954 44454443        44443321  111 1478999999994

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.16  E-value=4.8e-11  Score=76.42  Aligned_cols=63  Identities=19%  Similarity=0.166  Sum_probs=41.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCc-----ccccccccc-----
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ-----LELQSLWDK-----   88 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~-----~~~~~~~~~-----   88 (125)
                      ||+++|++|||||||++++.+... .+.        +|.+.++..        .+||++|+     +.++.+...     
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~~-~~~--------~t~~~~~~~--------~~iDt~G~~~~~~~~~~~~~~~~~~ad   64 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEEI-LYK--------KTQAVEYND--------GAIDTPGEYVENRRLYSALIVTAADAD   64 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCcc-ccc--------cceeEEEcC--------eeecCchhhhhhHHHHHHHHHHhhcCC
Confidence            799999999999999999543322 223        666555431        68999998     233332211     


Q ss_pred             ------cccCccCHHH
Q psy9521          89 ------DIRDCMGVRE   98 (125)
Q Consensus        89 ------Di~~~~s~~~   98 (125)
                            |.+++.++..
T Consensus        65 ~vilv~d~~~~~s~~~   80 (142)
T TIGR02528        65 VIALVQSATDPESRFP   80 (142)
T ss_pred             EEEEEecCCCCCcCCC
Confidence                  7777777755

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.

>cd01895 EngA2 EngA2 subfamily

Probab=99.15  E-value=7.5e-10  Score=72.31  Aligned_cols=59  Identities=15%  Similarity=0.105  Sum_probs=37.5

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhh-ccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKT-KFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQL   80 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~-~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~   80 (125)
                      .++|+++|++|+|||||++++.+ .+.....     ....+.......+..++..+.+||++|..
T Consensus         2 ~~~i~i~G~~~~GKstli~~l~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~iiDtpG~~   61 (174)
T cd01895           2 PIRIAIIGRPNVGKSSLVNALLGEERVIVSD-----IAGTTRDSIDVPFEYDGKKYTLIDTAGIR   61 (174)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCccceeccC-----CCCCccCceeeEEEECCeeEEEEECCCCc
Confidence            57899999999999999999543 2211110     00112222223455567788999999964

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.

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.14  E-value=1.7e-10  Score=89.52  Aligned_cols=61  Identities=25%  Similarity=0.333  Sum_probs=43.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh----ccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccccccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKT----KFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSL   85 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~----~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~   85 (125)
                      .|+++|..++|||||++++.+    .+++++.      ...|+.+.+..+..++..+.+||++|+++|...
T Consensus         2 ~I~iiG~~d~GKTTLi~aLtg~~~d~~~eE~~------rGiTid~~~~~~~~~~~~v~~iDtPGhe~f~~~   66 (581)
T TIGR00475         2 IIATAGHVDHGKTTLLKALTGIAADRLPEEKK------RGMTIDLGFAYFPLPDYRLGFIDVPGHEKFISN   66 (581)
T ss_pred             EEEEECCCCCCHHHHHHHHhCccCcCChhHhc------CCceEEeEEEEEEeCCEEEEEEECCCHHHHHHH
Confidence            589999999999999999754    3333332      113333444456677799999999999987543

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.

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.13  E-value=4.4e-10  Score=87.25  Aligned_cols=68  Identities=25%  Similarity=0.360  Sum_probs=45.7

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHh-hccccccCCCCCCccccccceeeEEEEeCCE-EEEEEECCCcccccccccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAK-TKFTKNYKGMNPSKITTTVGLNIGQIDINTV-RLNFWDLGGQLELQSLWDK   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~-~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~i~D~~G~~~~~~~~~~   88 (125)
                      .+..+|+++|+.++|||||++++. .++...+.    ..+.++++  ...+..++. .+.+|||||++.|..++..
T Consensus        85 ~r~p~V~I~Ghvd~GKTSLl~~l~~~~v~~~e~----~GIT~~ig--~~~v~~~~~~~i~~iDTPGhe~F~~~r~r  154 (587)
T TIGR00487        85 ERPPVVTIMGHVDHGKTSLLDSIRKTKVAQGEA----GGITQHIG--AYHVENEDGKMITFLDTPGHEAFTSMRAR  154 (587)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhCCcccccC----Cceeecce--EEEEEECCCcEEEEEECCCCcchhhHHHh
Confidence            356789999999999999999954 44433222    11112222  234444443 8999999999999777654

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.13  E-value=3.7e-10  Score=85.85  Aligned_cols=56  Identities=23%  Similarity=0.254  Sum_probs=38.6

Q ss_pred             eEEEEEEeCCCCcHHHHHHHH-hhccc--cccCCCCCCccccccceeeEEEEeCCEEEEEEECCCc
Q psy9521          17 EFCVLILGLDNAGKTTYLESA-KTKFT--KNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ   79 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i-~~~~~--~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~   79 (125)
                      .+||+++|.+|||||||++++ .+.+.  ..++       ..|.......+..++..+.+|||+|.
T Consensus       211 ~~kI~iiG~~nvGKSSLin~l~~~~~~~~s~~~-------gtT~d~~~~~~~~~~~~~~l~DTaG~  269 (472)
T PRK03003        211 PRRVALVGKPNVGKSSLLNKLAGEERSVVDDVA-------GTTVDPVDSLIELGGKTWRFVDTAGL  269 (472)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCcccccCCC-------CccCCcceEEEEECCEEEEEEECCCc
Confidence            589999999999999999994 44321  1111       12222222356667888899999995

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

Probab=99.11  E-value=2e-09  Score=69.34  Aligned_cols=82  Identities=20%  Similarity=0.212  Sum_probs=51.3

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccc-----------
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLW-----------   86 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~-----------   86 (125)
                      ++|+++|++|+|||||++++.+........    ....|.......+..++..+.+||++|...+....           
T Consensus         2 ~~i~l~G~~~~GKstli~~l~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~   77 (157)
T cd04164           2 IKVVIVGKPNVGKSSLLNALAGRDRAIVSD----IAGTTRDVIEESIDIGGIPVRLIDTAGIRETEDEIEKIGIERAREA   77 (157)
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCceEeccC----CCCCccceEEEEEEeCCEEEEEEECCCcCCCcchHHHHHHHHHHHH
Confidence            579999999999999999965432111100    00122222233455567899999999976553210           


Q ss_pred             --cc-------cccCccCHHHHHHHH
Q psy9521          87 --DK-------DIRDCMGVREVKPIF  103 (125)
Q Consensus        87 --~~-------Di~~~~s~~~i~~~l  103 (125)
                        ..       |..++.+..+.+.+.
T Consensus        78 ~~~~~~~v~v~d~~~~~~~~~~~~~~  103 (157)
T cd04164          78 IEEADLVLFVIDASRGLDEEDLEILE  103 (157)
T ss_pred             HhhCCEEEEEEECCCCCCHHHHHHHH
Confidence              00       888778887776543

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.

>KOG3883|consensus

Probab=99.08  E-value=1.2e-09  Score=70.84  Aligned_cols=100  Identities=14%  Similarity=0.179  Sum_probs=68.5

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeC-C--EEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDIN-T--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~-~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      .+-.|++++|.-+||||+++.+ +.++...+      .+..||+...|. .++.+ +  -.+.+|||+|-..+..-.+. 
T Consensus         7 Gk~~kVvVcG~k~VGKTaileQl~yg~~~~~------~e~~pTiEDiY~~svet~rgarE~l~lyDTaGlq~~~~eLprh   80 (198)
T KOG3883|consen    7 GKVCKVVVCGMKSVGKTAILEQLLYGNHVPG------TELHPTIEDIYVASVETDRGAREQLRLYDTAGLQGGQQELPRH   80 (198)
T ss_pred             CcceEEEEECCccccHHHHHHHHHhccCCCC------CccccchhhheeEeeecCCChhheEEEeecccccCchhhhhHh
Confidence            4678999999999999999999 67654432      224488877664 44443 2  67999999998766221121 


Q ss_pred             ------------cccCccCHHHHHHHHhhhcccccCCCCeEEEEe
Q psy9521          89 ------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPV  121 (125)
Q Consensus        89 ------------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~  121 (125)
                                  +..++.||+.+.....+| +.......++|+..
T Consensus        81 y~q~aDafVLVYs~~d~eSf~rv~llKk~I-dk~KdKKEvpiVVL  124 (198)
T KOG3883|consen   81 YFQFADAFVLVYSPMDPESFQRVELLKKEI-DKHKDKKEVPIVVL  124 (198)
T ss_pred             HhccCceEEEEecCCCHHHHHHHHHHHHHH-hhccccccccEEEE
Confidence                        788899999887766666 22233455666543

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

Probab=99.08  E-value=3.9e-10  Score=74.22  Aligned_cols=78  Identities=24%  Similarity=0.367  Sum_probs=50.1

Q ss_pred             EEeCCCCcHHHHHHHHhhcc--ccccCCCCCCccccccceeeEEEEeC-CEEEEEEECCCccc----cccccc----c--
Q psy9521          22 ILGLDNAGKTTYLESAKTKF--TKNYKGMNPSKITTTVGLNIGQIDIN-TVRLNFWDLGGQLE----LQSLWD----K--   88 (125)
Q Consensus        22 v~G~~~~GKTsl~~~i~~~~--~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~i~D~~G~~~----~~~~~~----~--   88 (125)
                      ++|++|||||||++++.+..  ..++.       .+|...+...+..+ +..+.+||++|...    .+.++.    .  
T Consensus         1 iiG~~~~GKStll~~l~~~~~~~~~~~-------~~t~~~~~~~~~~~~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~   73 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAKPKVANYP-------FTTLEPNLGVVEVPDGARIQVADIPGLIEGASEGRGLGNQFLAHIR   73 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCCccccCCC-------ceeecCcceEEEcCCCCeEEEEeccccchhhhcCCCccHHHHHHHh
Confidence            58999999999999965432  12221       14444444456666 78999999999732    222211    1  


Q ss_pred             ---------cccCc------cCHHHHHHHHhhh
Q psy9521          89 ---------DIRDC------MGVREVKPIFNKN  106 (125)
Q Consensus        89 ---------Di~~~------~s~~~i~~~l~~~  106 (125)
                               |..+.      .+++++..|...+
T Consensus        74 ~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~  106 (176)
T cd01881          74 RADAILHVVDASEDDDIGGVDPLEDYEILNAEL  106 (176)
T ss_pred             ccCEEEEEEeccCCccccccCHHHHHHHHHHHH
Confidence                     77776      5677777666665

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

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.08  E-value=2.5e-10  Score=72.13  Aligned_cols=72  Identities=29%  Similarity=0.447  Sum_probs=50.6

Q ss_pred             EEeCCCCcHHHHHHHHhhccc--cccCCCCCCccccccceeeEEEEeC----CEEEEEEECCCcccccccccc-------
Q psy9521          22 ILGLDNAGKTTYLESAKTKFT--KNYKGMNPSKITTTVGLNIGQIDIN----TVRLNFWDLGGQLELQSLWDK-------   88 (125)
Q Consensus        22 v~G~~~~GKTsl~~~i~~~~~--~~~~~~~~~~~~~t~~~~~~~~~~~----~~~~~i~D~~G~~~~~~~~~~-------   88 (125)
                      ++|++|+|||||++++.+...  ....        +|. .++......    +..+.+||++|+..+...+..       
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~~~~~~--------~t~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~   71 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFVPEEYE--------TTI-IDFYSKTIEVDGKKVKLQIWDTAGQERFRSLRRLYYRGADG   71 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcCCcccc--------cch-hheeeEEEEECCEEEEEEEEecCChHHHHhHHHHHhcCCCE
Confidence            589999999999999543322  3332        555 554433332    588999999998877654322       


Q ss_pred             -----cccCccCHHHHHHH
Q psy9521          89 -----DIRDCMGVREVKPI  102 (125)
Q Consensus        89 -----Di~~~~s~~~i~~~  102 (125)
                           |..+..+++....|
T Consensus        72 ~i~v~d~~~~~~~~~~~~~   90 (157)
T cd00882          72 IILVYDVTDRESFENVKEW   90 (157)
T ss_pred             EEEEEECcCHHHHHHHHHH
Confidence                 88888888888876

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

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.06  E-value=1.8e-09  Score=81.71  Aligned_cols=83  Identities=18%  Similarity=0.236  Sum_probs=56.5

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhh-cc--ccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccccccc------
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKT-KF--TKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSL------   85 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~-~~--~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~------   85 (125)
                      +..++|+++|.+|||||||++++.+ ..  ..+++       ..|.......+..++..+.+|||+|.+.+...      
T Consensus       213 ~~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~-------gtT~d~~~~~i~~~g~~i~l~DT~G~~~~~~~ie~~gi  285 (449)
T PRK05291        213 REGLKVVIAGRPNVGKSSLLNALLGEERAIVTDIA-------GTTRDVIEEHINLDGIPLRLIDTAGIRETDDEVEKIGI  285 (449)
T ss_pred             hcCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCC-------CcccccEEEEEEECCeEEEEEeCCCCCCCccHHHHHHH
Confidence            3568999999999999999999543 22  22221       13444444466778899999999998754321      


Q ss_pred             ---ccc-----------cccCccCHHHHHHHHh
Q psy9521          86 ---WDK-----------DIRDCMGVREVKPIFN  104 (125)
Q Consensus        86 ---~~~-----------Di~~~~s~~~i~~~l~  104 (125)
                         +..           |.+++.++++...|..
T Consensus       286 ~~~~~~~~~aD~il~VvD~s~~~s~~~~~~l~~  318 (449)
T PRK05291        286 ERSREAIEEADLVLLVLDASEPLTEEDDEILEE  318 (449)
T ss_pred             HHHHHHHHhCCEEEEEecCCCCCChhHHHHHHh
Confidence               111           8888888887665543

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.05  E-value=3.9e-10  Score=74.04  Aligned_cols=45  Identities=22%  Similarity=0.343  Sum_probs=31.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ   79 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~   79 (125)
                      +|+++|.+|+|||||++++.+.+... .        +|.+..+..   .    .+||+||+
T Consensus         3 ~i~~iG~~~~GKstl~~~l~~~~~~~-~--------~~~~v~~~~---~----~~iDtpG~   47 (158)
T PRK15467          3 RIAFVGAVGAGKTTLFNALQGNYTLA-R--------KTQAVEFND---K----GDIDTPGE   47 (158)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCccC-c--------cceEEEECC---C----CcccCCcc
Confidence            69999999999999999987654321 1        444433321   1    26999997

>cd04163 Era Era subfamily

Probab=99.05  E-value=4.2e-09  Score=68.08  Aligned_cols=62  Identities=24%  Similarity=0.170  Sum_probs=37.7

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLE   81 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~   81 (125)
                      ...+|+++|++|+|||||++++.+.......    .....+...........+..+.+||++|...
T Consensus         2 ~~~~i~~~G~~g~GKttl~~~l~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~   63 (168)
T cd04163           2 KSGFVAIVGRPNVGKSTLLNALVGQKISIVS----PKPQTTRNRIRGIYTDDDAQIIFVDTPGIHK   63 (168)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhCCceEecc----CCCCceeceEEEEEEcCCeEEEEEECCCCCc
Confidence            3578999999999999999996543221110    0001111111122333458899999999754

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.

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.04  E-value=2e-09  Score=85.80  Aligned_cols=68  Identities=24%  Similarity=0.368  Sum_probs=47.0

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHh-hccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAK-TKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~-~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   88 (125)
                      .+.-.|+++|..++|||||+.++. ..+.....    ..+..+++  ...+..++..+++|||+|++.|..++..
T Consensus       288 ~R~pvV~ImGhvd~GKTSLl~~Lr~~~v~~~e~----~GIT~~ig--a~~v~~~~~~ItfiDTPGhe~F~~m~~r  356 (787)
T PRK05306        288 PRPPVVTIMGHVDHGKTSLLDAIRKTNVAAGEA----GGITQHIG--AYQVETNGGKITFLDTPGHEAFTAMRAR  356 (787)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhCCcccccc----Cceeeecc--EEEEEECCEEEEEEECCCCccchhHHHh
Confidence            456679999999999999999964 33332211    11112223  2345566789999999999999877765

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

Probab=99.04  E-value=2.6e-09  Score=69.08  Aligned_cols=57  Identities=23%  Similarity=0.278  Sum_probs=39.5

Q ss_pred             EEeCCCCcHHHHHHHHhhc-cccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccc
Q psy9521          22 ILGLDNAGKTTYLESAKTK-FTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQS   84 (125)
Q Consensus        22 v~G~~~~GKTsl~~~i~~~-~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~   84 (125)
                      ++|.+|||||||++++.+. +.....      ...|+......+..++..+.+|||+|++.+..
T Consensus         1 l~G~~~~GKssl~~~~~~~~~~~~~~------~~~t~~~~~~~~~~~~~~~~liDtpG~~~~~~   58 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGARQKVGNW------PGVTVEKKEGRFKLGGKEIEIVDLPGTYSLSP   58 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCcccccCC------CCcccccceEEEeeCCeEEEEEECCCccccCC
Confidence            5899999999999996543 222211      11344444456667788999999999987654

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.

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.04  E-value=9e-10  Score=75.31  Aligned_cols=65  Identities=14%  Similarity=0.073  Sum_probs=38.6

Q ss_pred             EEEEEeCCCCcHHHHHHH-Hhhc-cccc-c--------CC-------------CCCC--ccccccceeeEEEEeCCEEEE
Q psy9521          19 CVLILGLDNAGKTTYLES-AKTK-FTKN-Y--------KG-------------MNPS--KITTTVGLNIGQIDINTVRLN   72 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~-i~~~-~~~~-~--------~~-------------~~~~--~~~~t~~~~~~~~~~~~~~~~   72 (125)
                      +|+++|..++|||||+++ +... .... .        .+             ....  ....|+......+..++..+.
T Consensus         1 ~i~iiG~~~~GKStL~~~Ll~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~   80 (208)
T cd04166           1 RFLTCGSVDDGKSTLIGRLLYDSKSIFEDQLAALESKSCGTGGEPLDLALLVDGLQAEREQGITIDVAYRYFSTPKRKFI   80 (208)
T ss_pred             CEEEEECCCCCHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCCcceeeeccCChhhhcCCcCeecceeEEecCCceEE
Confidence            589999999999999999 4321 1100 0        00             0000  011233332334555678999


Q ss_pred             EEECCCccccc
Q psy9521          73 FWDLGGQLELQ   83 (125)
Q Consensus        73 i~D~~G~~~~~   83 (125)
                      +|||+|+++|.
T Consensus        81 liDTpG~~~~~   91 (208)
T cd04166          81 IADTPGHEQYT   91 (208)
T ss_pred             EEECCcHHHHH
Confidence            99999998764

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.03  E-value=3e-09  Score=79.90  Aligned_cols=59  Identities=15%  Similarity=0.199  Sum_probs=39.0

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhh-c-cc-cccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKT-K-FT-KNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLE   81 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~-~-~~-~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~   81 (125)
                      ..++|+++|.+|+|||||++++.+ . .. ....       ..|.......+..++..+.+|||+|..+
T Consensus       172 ~~~~v~ivG~~n~GKStlin~ll~~~~~~~~~~~-------gtt~~~~~~~~~~~~~~~~lvDT~G~~~  233 (435)
T PRK00093        172 EPIKIAIIGRPNVGKSSLINALLGEERVIVSDIA-------GTTRDSIDTPFERDGQKYTLIDTAGIRR  233 (435)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCceeecCCC-------CceEEEEEEEEEECCeeEEEEECCCCCC
Confidence            569999999999999999999543 2 11 1111       1222222234556778899999999643

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.02  E-value=3.6e-09  Score=80.49  Aligned_cols=62  Identities=19%  Similarity=0.105  Sum_probs=40.2

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLE   81 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~   81 (125)
                      ...+|+++|.+|||||||++++.+.......    .....|....+..+..++..+.+|||+|++.
T Consensus        37 ~~~~V~IvG~~nvGKSSL~nrl~~~~~~~v~----~~~gvT~d~~~~~~~~~~~~~~l~DT~G~~~   98 (472)
T PRK03003         37 PLPVVAVVGRPNVGKSTLVNRILGRREAVVE----DVPGVTRDRVSYDAEWNGRRFTVVDTGGWEP   98 (472)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCcCccccc----CCCCCCEeeEEEEEEECCcEEEEEeCCCcCC
Confidence            3468999999999999999995543211111    0011222223335566778899999999863

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.02  E-value=3.8e-09  Score=77.14  Aligned_cols=81  Identities=30%  Similarity=0.362  Sum_probs=55.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcccc--ccCCCCCCccccccceeeEEEEe-CCEEEEEEECCCcccc----ccccc----
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFTK--NYKGMNPSKITTTVGLNIGQIDI-NTVRLNFWDLGGQLEL----QSLWD----   87 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~~--~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~i~D~~G~~~~----~~~~~----   87 (125)
                      .|.++|.++||||||++++.+..+.  +|+       .+|+..+...+.. ++.++.+||++|..+-    +.+..    
T Consensus       160 dVglVG~PNaGKSTLln~ls~a~~~va~yp-------fTT~~p~~G~v~~~~~~~~~i~D~PGli~ga~~~~gLg~~flr  232 (335)
T PRK12299        160 DVGLVGLPNAGKSTLISAVSAAKPKIADYP-------FTTLHPNLGVVRVDDYKSFVIADIPGLIEGASEGAGLGHRFLK  232 (335)
T ss_pred             CEEEEcCCCCCHHHHHHHHHcCCCccCCCC-------CceeCceEEEEEeCCCcEEEEEeCCCccCCCCccccHHHHHHH
Confidence            4899999999999999997643221  221       2455555555666 4578999999997321    11111    


Q ss_pred             ----c-------cccCccCHHHHHHHHhhh
Q psy9521          88 ----K-------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        88 ----~-------Di~~~~s~~~i~~~l~~~  106 (125)
                          .       |+++..++++++.|.+++
T Consensus       233 hie~a~vlI~ViD~s~~~s~e~~~~~~~EL  262 (335)
T PRK12299        233 HIERTRLLLHLVDIEAVDPVEDYKTIRNEL  262 (335)
T ss_pred             HhhhcCEEEEEEcCCCCCCHHHHHHHHHHH
Confidence                1       988877899998887766

>PTZ00099 rab6; Provisional

Probab=99.01  E-value=1.1e-09  Score=73.13  Aligned_cols=60  Identities=27%  Similarity=0.527  Sum_probs=49.8

Q ss_pred             hccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc------------cccCccCHHHHHHH
Q psy9521          39 TKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK------------DIRDCMGVREVKPI  102 (125)
Q Consensus        39 ~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~------------Di~~~~s~~~i~~~  102 (125)
                      +.|.++|.        ||+|.++.  .+..++  +.+.+|||+|+++++.++..            |++++.||+++..|
T Consensus         3 ~~F~~~~~--------~Tig~~~~~~~~~~~~~~v~l~iwDt~G~e~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w   74 (176)
T PTZ00099          3 DTFDNNYQ--------STIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKW   74 (176)
T ss_pred             CCcCCCCC--------CccceEEEEEEEEECCEEEEEEEEECCChHHhhhccHHHhCCCcEEEEEEECCCHHHHHHHHHH
Confidence            45666666        99998885  345544  88999999999999888776            99999999999999


Q ss_pred             Hhhh
Q psy9521         103 FNKN  106 (125)
Q Consensus       103 l~~~  106 (125)
                      +..+
T Consensus        75 ~~~i   78 (176)
T PTZ00099         75 IQDI   78 (176)
T ss_pred             HHHH
Confidence            9887

>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=98.99  E-value=9.3e-09  Score=67.46  Aligned_cols=58  Identities=26%  Similarity=0.391  Sum_probs=40.6

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhccc--cccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKFT--KNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLEL   82 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~~--~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~   82 (125)
                      ++|+++|.++||||||++++.+...  .++++       .|+......+...+..+.+.|+||.-..
T Consensus         1 i~ialvG~PNvGKStLfN~Ltg~~~~v~n~pG-------~Tv~~~~g~~~~~~~~~~lvDlPG~ysl   60 (156)
T PF02421_consen    1 IRIALVGNPNVGKSTLFNALTGAKQKVGNWPG-------TTVEKKEGIFKLGDQQVELVDLPGIYSL   60 (156)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHTTSEEEEESTT-------SSSEEEEEEEEETTEEEEEEE----SSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCceecCCCC-------CCeeeeeEEEEecCceEEEEECCCcccC
Confidence            5899999999999999999765432  34432       5666666677888899999999996433

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 ....

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

Probab=98.99  E-value=3.7e-09  Score=79.43  Aligned_cols=70  Identities=16%  Similarity=0.214  Sum_probs=44.9

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-Hh--hcccccc----------CCC-----------CCCc--cccccceeeEEEEeC
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AK--TKFTKNY----------KGM-----------NPSK--ITTTVGLNIGQIDIN   67 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~--~~~~~~~----------~~~-----------~~~~--~~~t~~~~~~~~~~~   67 (125)
                      .++.++|+++|..++|||||+.+ +.  +.....+          .+.           ..++  ...|+...+..+..+
T Consensus         4 ~~~~~~v~i~Ghvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~~~~~~~~   83 (426)
T TIGR00483         4 EKEHINVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVAHWKFETD   83 (426)
T ss_pred             CCceeEEEEEeccCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEEEEEEccC
Confidence            46789999999999999999999 43  2111100          000           0011  113333334456667


Q ss_pred             CEEEEEEECCCccccc
Q psy9521          68 TVRLNFWDLGGQLELQ   83 (125)
Q Consensus        68 ~~~~~i~D~~G~~~~~   83 (125)
                      +..+.+||++|+++|.
T Consensus        84 ~~~i~iiDtpGh~~f~   99 (426)
T TIGR00483        84 KYEVTIVDCPGHRDFI   99 (426)
T ss_pred             CeEEEEEECCCHHHHH
Confidence            8999999999998764

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.

>TIGR00436 era GTP-binding protein Era

Probab=98.99  E-value=6.2e-09  Score=73.85  Aligned_cols=58  Identities=28%  Similarity=0.255  Sum_probs=36.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEE-EEeCCEEEEEEECCCccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQ-IDINTVRLNFWDLGGQLE   81 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~-~~~~~~~~~i~D~~G~~~   81 (125)
                      +|+++|.+|||||||++++.+......    .... .|....+.. ....+.++.+|||||...
T Consensus         2 ~V~liG~pnvGKSTLln~L~~~~~~~v----s~~~-~TTr~~i~~i~~~~~~qii~vDTPG~~~   60 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHGQKISIT----SPKA-QTTRNRISGIHTTGASQIIFIDTPGFHE   60 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcEeec----CCCC-CcccCcEEEEEEcCCcEEEEEECcCCCC
Confidence            689999999999999999654322111    0111 222222222 233457899999999754

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

>KOG1707|consensus

Probab=98.98  E-value=1.2e-09  Score=83.16  Aligned_cols=102  Identities=13%  Similarity=0.165  Sum_probs=70.1

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccccccc-----ccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSL-----WDK   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-----~~~   88 (125)
                      .+.+||+++|+.|||||||+-. +.++|+++.+...+...-|   .+   +.=+.+...+.|++..+.-+..     +..
T Consensus         7 ~kdVRIvliGD~G~GKtSLImSL~~eef~~~VP~rl~~i~IP---ad---vtPe~vpt~ivD~ss~~~~~~~l~~EirkA   80 (625)
T KOG1707|consen    7 LKDVRIVLIGDEGVGKTSLIMSLLEEEFVDAVPRRLPRILIP---AD---VTPENVPTSIVDTSSDSDDRLCLRKEIRKA   80 (625)
T ss_pred             ccceEEEEECCCCccHHHHHHHHHhhhccccccccCCccccC---Cc---cCcCcCceEEEecccccchhHHHHHHHhhc
Confidence            5789999999999999999999 8899998876322222222   11   1123466889999755442222     111


Q ss_pred             -------cccCccCHHHHH-HHHhhhccccc--CCCCeEEEEeecc
Q psy9521          89 -------DIRDCMGVREVK-PIFNKNSAHLI--GRRDCMVMPVSAL  124 (125)
Q Consensus        89 -------Di~~~~s~~~i~-~~l~~~~~~~~--~~~~~~i~~~sA~  124 (125)
                             +.+++.+.+.+. .|+.++  +..  .....||+.|-.+
T Consensus        81 ~vi~lvyavd~~~T~D~ist~WLPli--r~~~~~~~~~PVILvGNK  124 (625)
T KOG1707|consen   81 DVICLVYAVDDESTVDRISTKWLPLI--RQLFGDYHETPVILVGNK  124 (625)
T ss_pred             CEEEEEEecCChHHhhhhhhhhhhhh--hcccCCCccCCEEEEeec
Confidence                   788999999999 699998  333  2377788877554

>PRK11058 GTPase HflX; Provisional

Probab=98.98  E-value=3e-09  Score=79.91  Aligned_cols=77  Identities=21%  Similarity=0.256  Sum_probs=49.9

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhh-ccc-cccCCCCCCccccccceeeEEEEeCCE-EEEEEECCCcccc--cccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLESAKT-KFT-KNYKGMNPSKITTTVGLNIGQIDINTV-RLNFWDLGGQLEL--QSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~-~~~-~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~i~D~~G~~~~--~~~~~~----   88 (125)
                      .+|+++|.+|||||||++++.+ .+. .+..       ..|+......+...+. .+.+|||+|..+.  ..++..    
T Consensus       198 p~ValVG~~NaGKSSLlN~Lt~~~~~v~~~~-------~tTld~~~~~i~l~~~~~~~l~DTaG~~r~lp~~lve~f~~t  270 (426)
T PRK11058        198 PTVSLVGYTNAGKSTLFNRITEARVYAADQL-------FATLDPTLRRIDVADVGETVLADTVGFIRHLPHDLVAAFKAT  270 (426)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCceeeccCC-------CCCcCCceEEEEeCCCCeEEEEecCcccccCCHHHHHHHHHH
Confidence            4799999999999999999653 221 1111       1444444445556553 7899999998432  111111    


Q ss_pred             --------------cccCccCHHHHHH
Q psy9521          89 --------------DIRDCMGVREVKP  101 (125)
Q Consensus        89 --------------Di~~~~s~~~i~~  101 (125)
                                    |.+++.+++.+..
T Consensus       271 l~~~~~ADlIL~VvDaS~~~~~e~l~~  297 (426)
T PRK11058        271 LQETRQATLLLHVVDAADVRVQENIEA  297 (426)
T ss_pred             HHHhhcCCEEEEEEeCCCccHHHHHHH
Confidence                          8888888887643

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=98.98  E-value=5e-09  Score=78.68  Aligned_cols=70  Identities=16%  Similarity=0.233  Sum_probs=46.2

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-Hhhc-ccccc-----------CCC-------------CCCccccccceeeEEEEeC
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTK-FTKNY-----------KGM-------------NPSKITTTVGLNIGQIDIN   67 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~-~~~~~-----------~~~-------------~~~~~~~t~~~~~~~~~~~   67 (125)
                      .++.++|+++|..++|||||+.+ +... .....           .+.             .......|+...+..++.+
T Consensus         3 ~k~~~~v~iiGh~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~~~   82 (425)
T PRK12317          3 EKPHLNLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHKKFETD   82 (425)
T ss_pred             CCCEEEEEEECCCCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeEEEecC
Confidence            46889999999999999999999 4211 10000           000             0011224555555566677


Q ss_pred             CEEEEEEECCCccccc
Q psy9521          68 TVRLNFWDLGGQLELQ   83 (125)
Q Consensus        68 ~~~~~i~D~~G~~~~~   83 (125)
                      +..+.+||++|+++|.
T Consensus        83 ~~~i~liDtpG~~~~~   98 (425)
T PRK12317         83 KYYFTIVDCPGHRDFV   98 (425)
T ss_pred             CeEEEEEECCCcccch
Confidence            8999999999998774

>PRK10218 GTP-binding protein; Provisional

Probab=98.98  E-value=4.8e-09  Score=81.76  Aligned_cols=71  Identities=21%  Similarity=0.333  Sum_probs=47.2

Q ss_pred             EEEEEEeCCCCcHHHHHHH-Hh--hccccccCC----CCCCccccccceeeE----EEEeCCEEEEEEECCCcccccccc
Q psy9521          18 FCVLILGLDNAGKTTYLES-AK--TKFTKNYKG----MNPSKITTTVGLNIG----QIDINTVRLNFWDLGGQLELQSLW   86 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~--~~~~~~~~~----~~~~~~~~t~~~~~~----~~~~~~~~~~i~D~~G~~~~~~~~   86 (125)
                      -+|+++|..++|||||+.+ +.  +.|...+..    ....+.+.+.|+.+.    .+..+++.+++||++|+..|...+
T Consensus         6 RnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~~~~~~inliDTPG~~df~~~v   85 (607)
T PRK10218          6 RNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWNDYRINIVDTPGHADFGGEV   85 (607)
T ss_pred             eEEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEecCCEEEEEEECCCcchhHHHH
Confidence            4699999999999999999 54  334332110    111222344555543    455667999999999999887655


Q ss_pred             cc
Q psy9521          87 DK   88 (125)
Q Consensus        87 ~~   88 (125)
                      ..
T Consensus        86 ~~   87 (607)
T PRK10218         86 ER   87 (607)
T ss_pred             HH
Confidence            44

>CHL00189 infB translation initiation factor 2; Provisional

Probab=98.98  E-value=4.3e-09  Score=83.43  Aligned_cols=70  Identities=24%  Similarity=0.351  Sum_probs=45.6

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHh-hccccccCCCCCCccccccceeeEEEEe--CCEEEEEEECCCcccccccccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAK-TKFTKNYKGMNPSKITTTVGLNIGQIDI--NTVRLNFWDLGGQLELQSLWDK   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~-~~~~~~~~~~~~~~~~~t~~~~~~~~~~--~~~~~~i~D~~G~~~~~~~~~~   88 (125)
                      .+...|+++|..++|||||+.++. ..+.....    ..+...++.....+..  .+..+.+|||||++.|..++..
T Consensus       242 ~r~p~V~IvGhvdvGKTSLld~L~~~~~~~~e~----~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe~F~~mr~r  314 (742)
T CHL00189        242 NRPPIVTILGHVDHGKTTLLDKIRKTQIAQKEA----GGITQKIGAYEVEFEYKDENQKIVFLDTPGHEAFSSMRSR  314 (742)
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHhccCccccC----CccccccceEEEEEEecCCceEEEEEECCcHHHHHHHHHH
Confidence            456689999999999999999954 33332211    1111222322222333  3489999999999998877664

>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=98.98  E-value=7.9e-09  Score=71.97  Aligned_cols=57  Identities=25%  Similarity=0.386  Sum_probs=41.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccc--cccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFT--KNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLEL   82 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~--~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~   82 (125)
                      +++++|.+|||||||++++.+...  .+++       .+|.......+..++..+++||++|+.+.
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~~~v~~~~-------~tT~~~~~g~~~~~~~~i~l~DtpG~~~~   60 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTKSEVAAYE-------FTTLTCVPGVLEYKGAKIQLLDLPGIIEG   60 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCccccCCC-------CccccceEEEEEECCeEEEEEECCCcccc
Confidence            689999999999999999765432  1111       13444444456678899999999998543

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.

>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=98.95  E-value=7.3e-09  Score=64.35  Aligned_cols=58  Identities=26%  Similarity=0.242  Sum_probs=39.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQL   80 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~   80 (125)
                      +|+++|.+|+|||||++.+.+......    ......|....+..+..++..+.++|++|-.
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~~~~~~~----~~~~~~T~~~~~~~~~~~~~~~~~vDtpG~~   58 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTGKKLAKV----SNIPGTTRDPVYGQFEYNNKKFILVDTPGIN   58 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSTSSEE----SSSTTSSSSEEEEEEEETTEEEEEEESSSCS
T ss_pred             CEEEECCCCCCHHHHHHHHhccccccc----cccccceeeeeeeeeeeceeeEEEEeCCCCc
Confidence            689999999999999999654311111    0111144444455667788888999999964

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 ....

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=98.95  E-value=3.9e-09  Score=83.79  Aligned_cols=57  Identities=21%  Similarity=0.187  Sum_probs=39.1

Q ss_pred             eEEEEEEeCCCCcHHHHHHHH-hhcc--ccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcc
Q psy9521          17 EFCVLILGLDNAGKTTYLESA-KTKF--TKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQL   80 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i-~~~~--~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~   80 (125)
                      ..||+++|.+|||||||++++ .+..  ..+++       ..|.......+..++..+.+|||+|..
T Consensus       450 ~~kI~ivG~~nvGKSSLin~l~~~~~~~v~~~~-------gtT~d~~~~~~~~~~~~~~liDTaG~~  509 (712)
T PRK09518        450 LRRVALVGRPNVGKSSLLNQLTHEERAVVNDLA-------GTTRDPVDEIVEIDGEDWLFIDTAGIK  509 (712)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCccccccCCCC-------CCCcCcceeEEEECCCEEEEEECCCcc
Confidence            479999999999999999995 4332  22222       123332223456677888899999963

>cd01850 CDC_Septin CDC/Septin

Probab=98.94  E-value=9.6e-09  Score=73.23  Aligned_cols=84  Identities=19%  Similarity=0.279  Sum_probs=51.2

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCC--CCCCccccccceeeE--EEEeCC--EEEEEEECCCccccccccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKG--MNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWD   87 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~--~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~   87 (125)
                      .-.++|+++|.+|+|||||+++ +...+......  .......+|+.....  .+..++  +++.+|||+|-...     
T Consensus         2 g~~f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpGfgd~-----   76 (276)
T cd01850           2 GFQFNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPGFGDN-----   76 (276)
T ss_pred             CcEEEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCCcccc-----
Confidence            3478999999999999999999 55444322110  011223466665543  334455  68999999996532     


Q ss_pred             ccccCccCHHHHHHHHhh
Q psy9521          88 KDIRDCMGVREVKPIFNK  105 (125)
Q Consensus        88 ~Di~~~~s~~~i~~~l~~  105 (125)
                        +.+...++.+..|++.
T Consensus        77 --~~~~~~~~~i~~yi~~   92 (276)
T cd01850          77 --INNSDCWKPIVDYIDD   92 (276)
T ss_pred             --ccchhhHHHHHHHHHH
Confidence              2234455555554443

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.

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=98.94  E-value=2.6e-09  Score=79.87  Aligned_cols=28  Identities=25%  Similarity=0.322  Sum_probs=24.3

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      +++++|+++|..++|||||+.++.+.+.
T Consensus         2 ~~~~~i~iiG~~~~GKSTL~~~Lt~~~~   29 (406)
T TIGR03680         2 QPEVNIGMVGHVDHGKTTLTKALTGVWT   29 (406)
T ss_pred             CceEEEEEEccCCCCHHHHHHHHhCeec
Confidence            5789999999999999999999865443

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

>PRK00093 GTP-binding protein Der; Reviewed

Probab=98.93  E-value=9.4e-09  Score=77.27  Aligned_cols=57  Identities=23%  Similarity=0.193  Sum_probs=41.4

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc---ccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF---TKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLE   81 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~---~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~   81 (125)
                      .+|+++|.+|||||||++++.+..   ..+++       ..|....+..+..++..+.+|||+|++.
T Consensus         2 ~~I~ivG~~~vGKStL~n~l~~~~~~~v~~~~-------~~t~d~~~~~~~~~~~~~~liDT~G~~~   61 (435)
T PRK00093          2 PVVAIVGRPNVGKSTLFNRLTGKRDAIVADTP-------GVTRDRIYGEAEWLGREFILIDTGGIEP   61 (435)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeCCCC-------CCcccceEEEEEECCcEEEEEECCCCCC
Confidence            379999999999999999954332   12221       1333444556677789999999999986

>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=98.93  E-value=7.5e-09  Score=69.59  Aligned_cols=70  Identities=20%  Similarity=0.248  Sum_probs=43.5

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-Hhhccc-ccc---------CCCCC--CccccccceeeEEEE--eCCEEEEEEECCCc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFT-KNY---------KGMNP--SKITTTVGLNIGQID--INTVRLNFWDLGGQ   79 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~-~~~---------~~~~~--~~~~~t~~~~~~~~~--~~~~~~~i~D~~G~   79 (125)
                      |+-.+|+++|..++|||||+.+ +..... ...         .....  ....-|+......+.  ..+..++++|+||+
T Consensus         1 k~~~~I~i~G~~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~~~~~~~~~~~~~~~i~~iDtPG~   80 (188)
T PF00009_consen    1 KNIRNIAIIGHVDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITIDLSFISFEKNENNRKITLIDTPGH   80 (188)
T ss_dssp             STEEEEEEEESTTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSSSEEEEEEBTESSEEEEEEEESSS
T ss_pred             CCEEEEEEECCCCCCcEeechhhhhhccccccccccccccccccccchhhhcccccccccccccccccccceeecccccc
Confidence            3567899999999999999999 432211 000         00000  001134444444555  66799999999999


Q ss_pred             ccccc
Q psy9521          80 LELQS   84 (125)
Q Consensus        80 ~~~~~   84 (125)
                      ..|..
T Consensus        81 ~~f~~   85 (188)
T PF00009_consen   81 EDFIK   85 (188)
T ss_dssp             HHHHH
T ss_pred             cceee
Confidence            87644

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 ....

>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=98.92  E-value=3.8e-09  Score=73.43  Aligned_cols=62  Identities=21%  Similarity=0.390  Sum_probs=39.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeC-CEEEEEEECCCcccccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDIN-TVRLNFWDLGGQLELQS   84 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~i~D~~G~~~~~~   84 (125)
                      ||+++|+.++||||+...+-.++++...    ...++|...+...+... ++.+++||.|||..+-.
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~~~~p~dT----~~L~~T~~ve~~~v~~~~~~~l~iwD~pGq~~~~~   63 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFHKYSPRDT----LRLEPTIDVEKSHVRFLSFLPLNIWDCPGQDDFME   63 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS---GGGG----GG-----SEEEEEEECTTSCEEEEEEE-SSCSTTH
T ss_pred             CEEEEcCCCCChhhHHHHHHcCCCchhc----cccCCcCCceEEEEecCCCcEEEEEEcCCcccccc
Confidence            7999999999999999996554432211    22347777776666544 58999999999976544

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.

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

Probab=98.90  E-value=4.8e-09  Score=71.49  Aligned_cols=23  Identities=17%  Similarity=0.216  Sum_probs=19.9

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ++|.++|..|+|||||+..+.+.
T Consensus         1 ~~i~~~g~~~~GKttL~~~l~~~   23 (203)
T cd01888           1 INIGTIGHVAHGKSTLVKALSGV   23 (203)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46899999999999999997543

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

>PRK00089 era GTPase Era; Reviewed

Probab=98.88  E-value=2.2e-08  Score=71.62  Aligned_cols=61  Identities=25%  Similarity=0.211  Sum_probs=37.8

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEE-EeCCEEEEEEECCCccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQI-DINTVRLNFWDLGGQLE   81 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~-~~~~~~~~i~D~~G~~~   81 (125)
                      +.-.|+++|.+|||||||++++.+.......    ... .|.......+ ..++.++.+|||+|...
T Consensus         4 ~~g~V~iiG~pn~GKSTLin~L~g~~~~~vs----~~~-~tt~~~i~~i~~~~~~qi~~iDTPG~~~   65 (292)
T PRK00089          4 KSGFVAIVGRPNVGKSTLLNALVGQKISIVS----PKP-QTTRHRIRGIVTEDDAQIIFVDTPGIHK   65 (292)
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhCCceeecC----CCC-CcccccEEEEEEcCCceEEEEECCCCCC
Confidence            4556999999999999999995443221111    011 2222222222 33458999999999744

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=98.87  E-value=2.6e-08  Score=72.70  Aligned_cols=82  Identities=26%  Similarity=0.302  Sum_probs=52.6

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhccc--cccCCCCCCccccccceeeEEEEeCC-EEEEEEECCCccccc----ccc----
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKFT--KNYKGMNPSKITTTVGLNIGQIDINT-VRLNFWDLGGQLELQ----SLW----   86 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~~--~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~i~D~~G~~~~~----~~~----   86 (125)
                      ..|+++|.++||||||++++.+..+  .+|+       .+|...+...+..++ .++.+||+||..+-.    .+.    
T Consensus       158 adV~lvG~pnaGKSTLl~~lt~~~~~va~y~-------fTT~~p~ig~v~~~~~~~~~i~D~PGli~~a~~~~gLg~~fl  230 (329)
T TIGR02729       158 ADVGLVGLPNAGKSTLISAVSAAKPKIADYP-------FTTLVPNLGVVRVDDGRSFVIADIPGLIEGASEGAGLGHRFL  230 (329)
T ss_pred             ccEEEEcCCCCCHHHHHHHHhcCCccccCCC-------CCccCCEEEEEEeCCceEEEEEeCCCcccCCcccccHHHHHH
Confidence            4589999999999999999654322  1221       134444444555666 899999999984321    111    


Q ss_pred             c----c-------cccCc---cCHHHHHHHHhhh
Q psy9521          87 D----K-------DIRDC---MGVREVKPIFNKN  106 (125)
Q Consensus        87 ~----~-------Di~~~---~s~~~i~~~l~~~  106 (125)
                      .    .       |+++.   .+++++..|.+++
T Consensus       231 rhierad~ll~VvD~s~~~~~~~~e~l~~l~~EL  264 (329)
T TIGR02729       231 KHIERTRVLLHLIDISPLDGRDPIEDYEIIRNEL  264 (329)
T ss_pred             HHHHhhCEEEEEEcCccccccCHHHHHHHHHHHH
Confidence            1    1       77765   6777777776654

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.

>COG1160 Predicted GTPases [General function prediction only]

Probab=98.87  E-value=2.7e-08  Score=74.25  Aligned_cols=68  Identities=13%  Similarity=0.094  Sum_probs=46.9

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   88 (125)
                      .+|++++|-++||||||+|++.++-.-    ...+.-..|.......++.++.++.+.||+|..+-..+...
T Consensus       178 ~ikiaiiGrPNvGKSsLiN~ilgeeR~----Iv~~~aGTTRD~I~~~~e~~~~~~~liDTAGiRrk~ki~e~  245 (444)
T COG1160         178 PIKIAIIGRPNVGKSSLINAILGEERV----IVSDIAGTTRDSIDIEFERDGRKYVLIDTAGIRRKGKITES  245 (444)
T ss_pred             ceEEEEEeCCCCCchHHHHHhccCceE----EecCCCCccccceeeeEEECCeEEEEEECCCCCcccccccc
Confidence            599999999999999999995432111    11112224554444567788999999999998766555443

>TIGR01393 lepA GTP-binding protein LepA

Probab=98.85  E-value=1.7e-08  Score=78.71  Aligned_cols=84  Identities=14%  Similarity=0.264  Sum_probs=50.6

Q ss_pred             EEEEEeCCCCcHHHHHHH-Hhhc-------cccccCCCCCCccccccceeeE----EEEe---C--CEEEEEEECCCccc
Q psy9521          19 CVLILGLDNAGKTTYLES-AKTK-------FTKNYKGMNPSKITTTVGLNIG----QIDI---N--TVRLNFWDLGGQLE   81 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~-i~~~-------~~~~~~~~~~~~~~~t~~~~~~----~~~~---~--~~~~~i~D~~G~~~   81 (125)
                      +++++|+.++|||||+.+ +...       +...+.  ...+.+.+.|.++.    .+..   +  .+.+++|||+|+++
T Consensus         5 Ni~IIGh~d~GKTTL~~rLl~~~g~i~~~~~~~~~~--D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~d   82 (595)
T TIGR01393         5 NFSIIAHIDHGKSTLADRLLEYTGAISEREMREQVL--DSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVD   82 (595)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcCCCcccccccccc--CCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcHH
Confidence            599999999999999999 5431       111111  00111122344432    2222   2  28899999999999


Q ss_pred             ccccccc------------cccCccCHHHHHHHHh
Q psy9521          82 LQSLWDK------------DIRDCMGVREVKPIFN  104 (125)
Q Consensus        82 ~~~~~~~------------Di~~~~s~~~i~~~l~  104 (125)
                      |...+..            |.++..+++....|..
T Consensus        83 F~~~v~~~l~~aD~aILVvDat~g~~~qt~~~~~~  117 (595)
T TIGR01393        83 FSYEVSRSLAACEGALLLVDAAQGIEAQTLANVYL  117 (595)
T ss_pred             HHHHHHHHHHhCCEEEEEecCCCCCCHhHHHHHHH
Confidence            8765544            7666656655554443

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.

>cd01894 EngA1 EngA1 subfamily

Probab=98.84  E-value=8e-09  Score=66.58  Aligned_cols=57  Identities=19%  Similarity=0.205  Sum_probs=39.2

Q ss_pred             EEEeCCCCcHHHHHHHHhhcc---ccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccc
Q psy9521          21 LILGLDNAGKTTYLESAKTKF---TKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQS   84 (125)
Q Consensus        21 ~v~G~~~~GKTsl~~~i~~~~---~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~   84 (125)
                      +++|.+|||||||++++.+..   ...++       ..|....+.....++..+.+||++|...+..
T Consensus         1 ~l~G~~~~GKssl~~~l~~~~~~~~~~~~-------~~t~~~~~~~~~~~~~~~~i~DtpG~~~~~~   60 (157)
T cd01894           1 AIVGRPNVGKSTLFNRLTGRRDAIVEDTP-------GVTRDRIYGEAEWGGREFILIDTGGIEPDDE   60 (157)
T ss_pred             CccCCCCCCHHHHHHHHhCCcEEeecCCC-------CceeCceeEEEEECCeEEEEEECCCCCCchh
Confidence            479999999999999965432   22221       1233334445666788999999999987544

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.

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=98.84  E-value=4.5e-08  Score=73.50  Aligned_cols=55  Identities=29%  Similarity=0.413  Sum_probs=39.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcccc--ccCCCCCCccccccceeeEEEEeC-CEEEEEEECCCcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFTK--NYKGMNPSKITTTVGLNIGQIDIN-TVRLNFWDLGGQL   80 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~~--~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~i~D~~G~~   80 (125)
                      .|+++|.++||||||++++.+..+.  +|+       .+|...++..+..+ +.++.+||+||..
T Consensus       160 dVglVG~pNaGKSTLLn~Lt~ak~kIa~yp-------fTTl~PnlG~v~~~~~~~~~laD~PGli  217 (424)
T PRK12297        160 DVGLVGFPNVGKSTLLSVVSNAKPKIANYH-------FTTLVPNLGVVETDDGRSFVMADIPGLI  217 (424)
T ss_pred             cEEEEcCCCCCHHHHHHHHHcCCCccccCC-------cceeceEEEEEEEeCCceEEEEECCCCc
Confidence            6999999999999999997643321  221       14555555555555 6889999999973

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=98.83  E-value=1.6e-08  Score=79.08  Aligned_cols=59  Identities=22%  Similarity=0.272  Sum_probs=40.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh----ccccccCCCCCCccccccceeeEEEEe-CCEEEEEEECCCccccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKT----KFTKNYKGMNPSKITTTVGLNIGQIDI-NTVRLNFWDLGGQLELQ   83 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~----~~~~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~i~D~~G~~~~~   83 (125)
                      -|.++|..++|||||++++.+    .++++..      ...|+...+..+.. ++..+.+||+||+++|.
T Consensus         2 ii~~~GhvdhGKTtLi~aLtg~~~dr~~eE~~------rGiTI~l~~~~~~~~~g~~i~~IDtPGhe~fi   65 (614)
T PRK10512          2 IIATAGHVDHGKTTLLQAITGVNADRLPEEKK------RGMTIDLGYAYWPQPDGRVLGFIDVPGHEKFL   65 (614)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCccchhccc------CCceEEeeeEEEecCCCcEEEEEECCCHHHHH
Confidence            378999999999999999764    2333321      12555555444433 35778999999999873

>cd01884 EF_Tu EF-Tu subfamily

Probab=98.82  E-value=2.2e-08  Score=68.03  Aligned_cols=66  Identities=18%  Similarity=0.207  Sum_probs=39.1

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhccccc-------cC--CCCCC--ccccccceeeEEEEeCCEEEEEEECCCcccc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKFTKN-------YK--GMNPS--KITTTVGLNIGQIDINTVRLNFWDLGGQLEL   82 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~~~~-------~~--~~~~~--~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~   82 (125)
                      .++|+++|..++|||||+.++.......       +.  .....  ....|+......++.++.++.+.||+|+..|
T Consensus         2 ~~ni~iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~~~   78 (195)
T cd01884           2 HVNVGTIGHVDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTAHVEYETANRHYAHVDCPGHADY   78 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEeeeeEecCCCeEEEEEECcCHHHH
Confidence            5789999999999999999943221000       00  00000  1112222222344456788999999998765

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.

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=98.82  E-value=4.4e-08  Score=78.33  Aligned_cols=64  Identities=22%  Similarity=0.292  Sum_probs=43.1

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQS   84 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~   84 (125)
                      ++++|+++|.+|||||||++++.+.... ..    +....|+......+..++.++++||+||+..+..
T Consensus         2 ~~~~IaLvG~pNvGKSTLfN~Ltg~~~~-vg----n~pGvTve~k~g~~~~~~~~i~lvDtPG~ysl~~   65 (772)
T PRK09554          2 KKLTIGLIGNPNSGKTTLFNQLTGARQR-VG----NWAGVTVERKEGQFSTTDHQVTLVDLPGTYSLTT   65 (772)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhCCCCc-cC----CCCCceEeeEEEEEEcCceEEEEEECCCcccccc
Confidence            4678999999999999999997643221 10    0011333332334566678999999999976643

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

Probab=98.81  E-value=2.6e-08  Score=64.32  Aligned_cols=23  Identities=22%  Similarity=0.404  Sum_probs=20.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      ||+++|+.|||||||++++.+..
T Consensus         3 rimliG~~g~GKTTL~q~L~~~~   25 (143)
T PF10662_consen    3 RIMLIGPSGSGKTTLAQALNGEE   25 (143)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCC
Confidence            69999999999999999987643

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

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=98.81  E-value=5.7e-08  Score=72.89  Aligned_cols=55  Identities=24%  Similarity=0.267  Sum_probs=38.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccc---cccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFT---KNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQL   80 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~---~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~   80 (125)
                      +|+++|.+|||||||++++.+...   .+++       ..|....+..+..++..+.+|||+|..
T Consensus         1 ~i~ivG~~nvGKStL~n~l~~~~~~~v~~~~-------g~t~d~~~~~~~~~~~~~~liDTpG~~   58 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRLTGKRDAIVSDTP-------GVTRDRKYGDAEWGGREFILIDTGGIE   58 (429)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCcceecCCC-------CcccCceEEEEEECCeEEEEEECCCCC
Confidence            589999999999999999554321   1211       123334445666778899999999963

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.

>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=98.80  E-value=4.6e-09  Score=70.38  Aligned_cols=96  Identities=21%  Similarity=0.262  Sum_probs=52.1

Q ss_pred             EEEEEeCCCCcHHHHHHHH-hhccccccCCCCCCccccccceeeEEEEe---CCEEEEEEECCCcccccccccc------
Q psy9521          19 CVLILGLDNAGKTTYLESA-KTKFTKNYKGMNPSKITTTVGLNIGQIDI---NTVRLNFWDLGGQLELQSLWDK------   88 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i-~~~~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~~i~D~~G~~~~~~~~~~------   88 (125)
                      .++++|+.|+|||+|+.++ .+.+.+.+         +.+.-+. ....   .+..+.+.|+||+++.+.....      
T Consensus         5 ~vlL~Gps~SGKTaLf~~L~~~~~~~T~---------tS~e~n~-~~~~~~~~~~~~~lvD~PGH~rlr~~~~~~~~~~~   74 (181)
T PF09439_consen    5 TVLLVGPSGSGKTALFSQLVNGKTVPTV---------TSMENNI-AYNVNNSKGKKLRLVDIPGHPRLRSKLLDELKYLS   74 (181)
T ss_dssp             EEEEE-STTSSHHHHHHHHHHSS---B------------SSEEE-ECCGSSTCGTCECEEEETT-HCCCHHHHHHHHHHG
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCcCCee---------ccccCCc-eEEeecCCCCEEEEEECCCcHHHHHHHHHhhhchh
Confidence            5899999999999999994 55433222         2221111 1222   2367899999999988762111      


Q ss_pred             ---------ccc-CccCHHHHHHHHhhh-cccccCCCCeEEEEeecc
Q psy9521          89 ---------DIR-DCMGVREVKPIFNKN-SAHLIGRRDCMVMPVSAL  124 (125)
Q Consensus        89 ---------Di~-~~~s~~~i~~~l~~~-~~~~~~~~~~~i~~~sA~  124 (125)
                               |-. ......++.+++..+ .......+.+++...|.|
T Consensus        75 ~~k~IIfvvDSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK  121 (181)
T PF09439_consen   75 NAKGIIFVVDSSTDQKELRDVAEYLYDILSDTEVQKNKPPILIACNK  121 (181)
T ss_dssp             GEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-
T ss_pred             hCCEEEEEEeCccchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeC
Confidence                     432 334456666655554 111224567787777765

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.

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

Probab=98.79  E-value=3.4e-08  Score=69.44  Aligned_cols=64  Identities=20%  Similarity=0.225  Sum_probs=42.2

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLEL   82 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~   82 (125)
                      ...++|+++|.+|||||||++.+.+.......    .....|..........++..+.++||+|-...
T Consensus        29 ~~~~~IllvG~tGvGKSSliNaLlg~~~~~v~----~~~~~T~~~~~~~~~~~g~~i~vIDTPGl~~~   92 (249)
T cd01853          29 DFSLTILVLGKTGVGKSSTINSIFGERKAATS----AFQSETLRVREVSGTVDGFKLNIIDTPGLLES   92 (249)
T ss_pred             cCCeEEEEECCCCCcHHHHHHHHhCCCCcccC----CCCCceEEEEEEEEEECCeEEEEEECCCcCcc
Confidence            46799999999999999999995543211110    00013333333344567789999999997543

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

>cd00880 Era_like Era (E

Probab=98.79  E-value=4.9e-08  Score=62.27  Aligned_cols=60  Identities=20%  Similarity=0.098  Sum_probs=35.7

Q ss_pred             EEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeC-CEEEEEEECCCccccccc
Q psy9521          22 ILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDIN-TVRLNFWDLGGQLELQSL   85 (125)
Q Consensus        22 v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~i~D~~G~~~~~~~   85 (125)
                      ++|..|+|||||++++.+.......    .....|........... ...+.+||++|.......
T Consensus         1 i~G~~gsGKstl~~~l~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~Dt~g~~~~~~~   61 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVAIVS----PVPGTTTDPVEYVWELGPLGPVVLIDTPGIDEAGGL   61 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCccccccC----CCCCcEECCeEEEEEecCCCcEEEEECCCCCccccc
Confidence            5899999999999996543222110    00112222222233333 578999999998766443

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

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

Probab=98.78  E-value=2e-08  Score=75.22  Aligned_cols=28  Identities=21%  Similarity=0.311  Sum_probs=24.3

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      +++.++|+++|..++|||||+.++.+.+
T Consensus         6 ~~~~~ni~v~Gh~d~GKSTL~~~L~~~~   33 (411)
T PRK04000          6 VQPEVNIGMVGHVDHGKTTLVQALTGVW   33 (411)
T ss_pred             CCCcEEEEEEccCCCCHHHHHHHhhCee
Confidence            4688999999999999999998886543

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

Probab=98.77  E-value=2.9e-08  Score=68.43  Aligned_cols=65  Identities=18%  Similarity=0.317  Sum_probs=38.4

Q ss_pred             EEEEEeCCCCcHHHHHHH-Hhh--cccc----cc------CCC-----------C--CCccccccceeeEEEEeCCEEEE
Q psy9521          19 CVLILGLDNAGKTTYLES-AKT--KFTK----NY------KGM-----------N--PSKITTTVGLNIGQIDINTVRLN   72 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~-i~~--~~~~----~~------~~~-----------~--~~~~~~t~~~~~~~~~~~~~~~~   72 (125)
                      .|+++|..++|||||+.+ +..  ....    ++      .+.           .  ......|+......+..++.++.
T Consensus         1 nv~i~Gh~~~GKttL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~d~~~~~~~~~~~~i~   80 (219)
T cd01883           1 NLVVIGHVDAGKSTTTGHLLYLLGGVDKRTIEKYEKEAKEMGKGSFKYAWVLDTLKEERERGVTIDVGLAKFETEKYRFT   80 (219)
T ss_pred             CEEEecCCCCChHHHHHHHHHHhcCcCHHHHHHHHHHHHhcCCcchhHHhhhcCCHHHhhCccCeecceEEEeeCCeEEE
Confidence            379999999999999999 431  1000    00      000           0  00111233333345666789999


Q ss_pred             EEECCCccccc
Q psy9521          73 FWDLGGQLELQ   83 (125)
Q Consensus        73 i~D~~G~~~~~   83 (125)
                      +||++|+..|.
T Consensus        81 liDtpG~~~~~   91 (219)
T cd01883          81 ILDAPGHRDFV   91 (219)
T ss_pred             EEECCChHHHH
Confidence            99999986553

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

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=98.76  E-value=6.8e-08  Score=73.74  Aligned_cols=58  Identities=22%  Similarity=0.258  Sum_probs=42.7

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ   79 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~   79 (125)
                      -..|+++|.++||||||++++.+..+.     ..+...+|+..+...+...+.++.+||++|.
T Consensus       159 ~adV~LVG~PNAGKSTLln~Ls~akpk-----IadypfTTl~P~lGvv~~~~~~f~laDtPGl  216 (500)
T PRK12296        159 VADVGLVGFPSAGKSSLISALSAAKPK-----IADYPFTTLVPNLGVVQAGDTRFTVADVPGL  216 (500)
T ss_pred             cceEEEEEcCCCCHHHHHHHHhcCCcc-----ccccCcccccceEEEEEECCeEEEEEECCCC
Confidence            456999999999999999997643221     1111235666666677778899999999995

>cd04168 TetM_like Tet(M)-like subfamily

Probab=98.75  E-value=9.9e-08  Score=66.64  Aligned_cols=70  Identities=21%  Similarity=0.249  Sum_probs=42.4

Q ss_pred             EEEEEeCCCCcHHHHHHH-Hhhc-cc---cccC-C-CCCC------ccccccceeeEEEEeCCEEEEEEECCCccccccc
Q psy9521          19 CVLILGLDNAGKTTYLES-AKTK-FT---KNYK-G-MNPS------KITTTVGLNIGQIDINTVRLNFWDLGGQLELQSL   85 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~-i~~~-~~---~~~~-~-~~~~------~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~   85 (125)
                      +|+++|..|+|||||+++ +... ..   .... + ...+      ....|+...+..+..++.++.+||++|+.+|...
T Consensus         1 ni~i~G~~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~~~~~~~i~liDTPG~~~f~~~   80 (237)
T cd04168           1 NIGILAHVDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASFQWEDTKVNLIDTPGHMDFIAE   80 (237)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEEEECCEEEEEEeCCCccchHHH
Confidence            378999999999999999 4421 10   0000 0 0000      1112333334456677899999999999887554


Q ss_pred             ccc
Q psy9521          86 WDK   88 (125)
Q Consensus        86 ~~~   88 (125)
                      +..
T Consensus        81 ~~~   83 (237)
T cd04168          81 VER   83 (237)
T ss_pred             HHH
Confidence            333

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.

>cd01859 MJ1464 MJ1464

Probab=98.75  E-value=3.3e-08  Score=64.47  Aligned_cols=55  Identities=24%  Similarity=0.334  Sum_probs=38.1

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeE-EEEeCCEEEEEEECCC
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIG-QIDINTVRLNFWDLGG   78 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~i~D~~G   78 (125)
                      ...+++++|.+++||||+++++.+.....+.        ++.|.+.. .+...+..+.+|||+|
T Consensus       100 ~~~~~~~ig~~~~Gkssl~~~l~~~~~~~~~--------~~~~~t~~~~~~~~~~~~~~~DtpG  155 (156)
T cd01859         100 KEGKVGVVGYPNVGKSSIINALKGRHSASTS--------PSPGYTKGEQLVKITSKIYLLDTPG  155 (156)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCccccC--------CCCCeeeeeEEEEcCCCEEEEECcC
Confidence            5678999999999999999996554433333        55555432 2111234789999998

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.

>TIGR00485 EF-Tu translation elongation factor TU

Probab=98.74  E-value=5.3e-08  Score=72.58  Aligned_cols=70  Identities=17%  Similarity=0.152  Sum_probs=42.8

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHhhcccc--c-------cCCCCCC--ccccccceeeEEEEeCCEEEEEEECCCcccc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAKTKFTK--N-------YKGMNPS--KITTTVGLNIGQIDINTVRLNFWDLGGQLEL   82 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~~~~~~--~-------~~~~~~~--~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~   82 (125)
                      .++.++|+++|..++|||||+.++.+....  +       .......  ....|+......+..++.++.+||+||+++|
T Consensus         9 ~~~~~~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~~~~~~~~~~~~~~liDtpGh~~f   88 (394)
T TIGR00485         9 TKPHVNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINTAHVEYETENRHYAHVDCPGHADY   88 (394)
T ss_pred             CCceEEEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceeeEEEEEcCCCEEEEEEECCchHHH
Confidence            468899999999999999999995321000  0       0000000  0113333323334445688999999999877


Q ss_pred             c
Q psy9521          83 Q   83 (125)
Q Consensus        83 ~   83 (125)
                      .
T Consensus        89 ~   89 (394)
T TIGR00485        89 V   89 (394)
T ss_pred             H
Confidence            4

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.

>cd04167 Snu114p Snu114p subfamily

Probab=98.74  E-value=6.2e-08  Score=66.39  Aligned_cols=87  Identities=16%  Similarity=0.165  Sum_probs=48.5

Q ss_pred             EEEEEeCCCCcHHHHHHH-HhhccccccC----C-----CCCCccccccceeeE----EEE-----eCCEEEEEEECCCc
Q psy9521          19 CVLILGLDNAGKTTYLES-AKTKFTKNYK----G-----MNPSKITTTVGLNIG----QID-----INTVRLNFWDLGGQ   79 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~-i~~~~~~~~~----~-----~~~~~~~~t~~~~~~----~~~-----~~~~~~~i~D~~G~   79 (125)
                      +|+++|..++|||||+.+ +...+.....    .     ....+.+...+..+.    .+.     ..++.+.+||++|+
T Consensus         2 nv~iiG~~~~GKTtL~~~l~~~~~~~~~~~~~~~~~~~~~d~~~~e~~~giti~~~~~~~~~~~~~~~~~~i~iiDtpG~   81 (213)
T cd04167           2 NVAIAGHLHHGKTSLLDMLIEQTHDLTPSGKDGWKPLRYTDIRKDEQERGISIKSSPISLVLPDSKGKSYLFNIIDTPGH   81 (213)
T ss_pred             cEEEEcCCCCCHHHHHHHHHHhcCCCcccccccCCceeECCCCHHHHHcCccccccceeEEEEcCCCCEEEEEEEECCCC
Confidence            489999999999999999 5543322100    0     000000111222221    121     12388999999999


Q ss_pred             ccccccccc------------cccCccCHHHHHHHHhhh
Q psy9521          80 LELQSLWDK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        80 ~~~~~~~~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      ++|...+..            |..+..++.. +.++...
T Consensus        82 ~~f~~~~~~~~~~aD~~llVvD~~~~~~~~~-~~~~~~~  119 (213)
T cd04167          82 VNFMDEVAAALRLSDGVVLVVDVVEGVTSNT-ERLIRHA  119 (213)
T ss_pred             cchHHHHHHHHHhCCEEEEEEECCCCCCHHH-HHHHHHH
Confidence            988544332            7766666543 3444443

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.

>smart00275 G_alpha G protein alpha subunit

Probab=98.72  E-value=9.1e-08  Score=70.17  Aligned_cols=34  Identities=21%  Similarity=0.434  Sum_probs=30.2

Q ss_pred             cccceeeEEEEeCCEEEEEEECCCcccccccccc
Q psy9521          55 TTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK   88 (125)
Q Consensus        55 ~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   88 (125)
                      ||.|+....+..++..+.+||++||...|..|..
T Consensus       170 ~T~Gi~~~~f~~~~~~~~~~DvgGqr~~R~kW~~  203 (342)
T smart00275      170 PTTGIQETAFIVKKLFFRMFDVGGQRSERKKWIH  203 (342)
T ss_pred             CccceEEEEEEECCeEEEEEecCCchhhhhhHHH
Confidence            6778887788888999999999999999999977

Subunit of G proteins that contains the guanine nucleotide binding site

>KOG0090|consensus

Probab=98.70  E-value=2.6e-08  Score=67.85  Aligned_cols=99  Identities=17%  Similarity=0.204  Sum_probs=61.6

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc--------
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK--------   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~--------   88 (125)
                      -.++++|+.++|||+|+.+ +++.+.+.+         +.+.-+...+......+++.|.||+.+.|.....        
T Consensus        39 ~~Vll~Gl~dSGKT~LF~qL~~gs~~~Tv---------tSiepn~a~~r~gs~~~~LVD~PGH~rlR~kl~e~~~~~~~a  109 (238)
T KOG0090|consen   39 NAVLLVGLSDSGKTSLFTQLITGSHRGTV---------TSIEPNEATYRLGSENVTLVDLPGHSRLRRKLLEYLKHNYSA  109 (238)
T ss_pred             CcEEEEecCCCCceeeeeehhcCCccCee---------eeeccceeeEeecCcceEEEeCCCcHHHHHHHHHHccccccc
Confidence            3599999999999999999 666544333         2222222233344456899999999877653322        


Q ss_pred             --------cccCccCHHHHHHHHhhhc-ccccCCCCeEEEEeeccC
Q psy9521          89 --------DIRDCMGVREVKPIFNKNS-AHLIGRRDCMVMPVSALT  125 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~~-~~~~~~~~~~i~~~sA~~  125 (125)
                              .........++.+++-++- ......+.+++..+|.++
T Consensus       110 kaiVFVVDSa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKq  155 (238)
T KOG0090|consen  110 KAIVFVVDSATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQ  155 (238)
T ss_pred             eeEEEEEeccccchhhHHHHHHHHHHHHhhccccCCCCEEEEecch
Confidence                    3334445556666665551 111245778888888653

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=98.69  E-value=1.1e-07  Score=74.26  Aligned_cols=54  Identities=20%  Similarity=0.279  Sum_probs=37.0

Q ss_pred             eCCCCcHHHHHHHHhhccc-cccCCCCCCcccccccee--eEEEEeCCEEEEEEECCCccccccc
Q psy9521          24 GLDNAGKTTYLESAKTKFT-KNYKGMNPSKITTTVGLN--IGQIDINTVRLNFWDLGGQLELQSL   85 (125)
Q Consensus        24 G~~~~GKTsl~~~i~~~~~-~~~~~~~~~~~~~t~~~~--~~~~~~~~~~~~i~D~~G~~~~~~~   85 (125)
                      |.+|||||||++++.+... ...        .|+...+  ...++.++.++++||++|++.+...
T Consensus         1 G~pNvGKSSL~N~Ltg~~~~v~n--------~pG~Tv~~~~~~i~~~~~~i~lvDtPG~~~~~~~   57 (591)
T TIGR00437         1 GNPNVGKSTLFNALTGANQTVGN--------WPGVTVEKKEGKLGFQGEDIEIVDLPGIYSLTTF   57 (591)
T ss_pred             CCCCCCHHHHHHHHhCCCCeecC--------CCCeEEEEEEEEEEECCeEEEEEECCCccccCcc
Confidence            8899999999999654321 111        1333333  3356667888999999999887654

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.

>PLN03126 Elongation factor Tu; Provisional

Probab=98.69  E-value=1.4e-07  Score=71.92  Aligned_cols=69  Identities=17%  Similarity=0.248  Sum_probs=42.1

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHhhc-------cccccCCCC--CCc--cccccceeeEEEEeCCEEEEEEECCCcccc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAKTK-------FTKNYKGMN--PSK--ITTTVGLNIGQIDINTVRLNFWDLGGQLEL   82 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~~~-------~~~~~~~~~--~~~--~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~   82 (125)
                      .++.++++++|..++|||||+.++...       ....+....  .++  ..-|+......+..++.++.++|++|+++|
T Consensus        78 ~k~~~ni~iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~~~i~liDtPGh~~f  157 (478)
T PLN03126         78 KKPHVNIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYETENRHYAHVDCPGHADY  157 (478)
T ss_pred             cCCeeEEEEECCCCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEecCCcEEEEEECCCHHHH
Confidence            467899999999999999999994321       111000000  000  112222222244556789999999999877

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.69  E-value=4.8e-08  Score=62.88  Aligned_cols=55  Identities=15%  Similarity=0.197  Sum_probs=34.0

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ   79 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~   79 (125)
                      -+++++|.+|||||||++++.+.......    ..  +........+..++ .+.+|||||-
T Consensus        84 ~~~~~~G~~~vGKstlin~l~~~~~~~~~----~~--~~~~~~~~~~~~~~-~~~i~DtpG~  138 (141)
T cd01857          84 ATIGLVGYPNVGKSSLINALVGKKKVSVS----AT--PGKTKHFQTIFLTP-TITLCDCPGL  138 (141)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCceeeC----CC--CCcccceEEEEeCC-CEEEEECCCc
Confidence            38999999999999999995432221111    00  11122223344443 6799999995

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.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=98.69  E-value=2e-07  Score=74.16  Aligned_cols=62  Identities=18%  Similarity=0.095  Sum_probs=39.1

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLE   81 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~   81 (125)
                      ...+|+++|.++||||||++++.+.......    .....|....+.....++..+.+|||+|.+.
T Consensus       274 ~~~~V~IvG~~nvGKSSL~n~l~~~~~~iv~----~~pGvT~d~~~~~~~~~~~~~~liDT~G~~~  335 (712)
T PRK09518        274 AVGVVAIVGRPNVGKSTLVNRILGRREAVVE----DTPGVTRDRVSYDAEWAGTDFKLVDTGGWEA  335 (712)
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhCCCceeec----CCCCeeEEEEEEEEEECCEEEEEEeCCCcCC
Confidence            3467999999999999999996543221111    0000122222223455678999999999864

>cd00066 G-alpha G protein alpha subunit

Probab=98.67  E-value=2.1e-07  Score=67.61  Aligned_cols=34  Identities=24%  Similarity=0.529  Sum_probs=29.7

Q ss_pred             cccceeeEEEEeCCEEEEEEECCCcccccccccc
Q psy9521          55 TTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK   88 (125)
Q Consensus        55 ~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   88 (125)
                      ||.|+....+..+++.+.+||++||...+..|..
T Consensus       147 ~T~Gi~~~~f~~~~~~~~~~DvgGq~~~R~kW~~  180 (317)
T cd00066         147 KTTGIVETKFTIKNLKFRMFDVGGQRSERKKWIH  180 (317)
T ss_pred             ccCCeeEEEEEecceEEEEECCCCCcccchhHHH
Confidence            6777777778888899999999999999999877

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.

>COG1159 Era GTPase [General function prediction only]

Probab=98.67  E-value=2.6e-07  Score=65.80  Aligned_cols=62  Identities=24%  Similarity=0.239  Sum_probs=40.9

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLE   81 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~   81 (125)
                      +.-.++++|.++||||||+|++-+....    +-++..+.|..---..++.++.++.+.||||--+
T Consensus         5 ksGfVaIiGrPNvGKSTLlN~l~G~Kis----IvS~k~QTTR~~I~GI~t~~~~QiIfvDTPGih~   66 (298)
T COG1159           5 KSGFVAIIGRPNVGKSTLLNALVGQKIS----IVSPKPQTTRNRIRGIVTTDNAQIIFVDTPGIHK   66 (298)
T ss_pred             eEEEEEEEcCCCCcHHHHHHHHhcCceE----eecCCcchhhhheeEEEEcCCceEEEEeCCCCCC
Confidence            3456999999999999999996543321    1222222343332334555679999999999643

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=98.66  E-value=1.5e-07  Score=73.42  Aligned_cols=66  Identities=23%  Similarity=0.316  Sum_probs=42.5

Q ss_pred             EEEEEeCCCCcHHHHHHH-Hh--hccccccCC----CCCCccc----cccceeeEEEEeCCEEEEEEECCCcccccc
Q psy9521          19 CVLILGLDNAGKTTYLES-AK--TKFTKNYKG----MNPSKIT----TTVGLNIGQIDINTVRLNFWDLGGQLELQS   84 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~-i~--~~~~~~~~~----~~~~~~~----~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~   84 (125)
                      +|+++|..++|||||+.+ +.  +.+......    ....+.+    .|+......+..+++++++|||+|++.|..
T Consensus         3 NIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~~~~kinlIDTPGh~DF~~   79 (594)
T TIGR01394         3 NIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRYNGTKINIVDTPGHADFGG   79 (594)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEECCEEEEEEECCCHHHHHH
Confidence            589999999999999999 54  333322100    0011111    233333335677789999999999988753

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.

>cd04169 RF3 RF3 subfamily

Probab=98.66  E-value=2.4e-07  Score=65.82  Aligned_cols=66  Identities=18%  Similarity=0.209  Sum_probs=40.2

Q ss_pred             EEEEEeCCCCcHHHHHHH-Hhh-cccccc--------CCCC-CC------ccccccceeeEEEEeCCEEEEEEECCCccc
Q psy9521          19 CVLILGLDNAGKTTYLES-AKT-KFTKNY--------KGMN-PS------KITTTVGLNIGQIDINTVRLNFWDLGGQLE   81 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~-i~~-~~~~~~--------~~~~-~~------~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~   81 (125)
                      +|+++|..|+|||||+++ +.. ......        .+.. .+      ....++......+..++.++.+|||+|+++
T Consensus         4 ni~ivGh~~~GKTTL~e~ll~~~g~i~~~g~v~~~~~~~~t~~D~~~~e~~rg~si~~~~~~~~~~~~~i~liDTPG~~d   83 (267)
T cd04169           4 TFAIISHPDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQFEYRDCVINLLDTPGHED   83 (267)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhcCCcccCceecccccCCCccCCCcHHHHhCCCCeEEEEEEEeeCCEEEEEEECCCchH
Confidence            499999999999999999 432 111100        0000 00      001222223335667789999999999987


Q ss_pred             ccc
Q psy9521          82 LQS   84 (125)
Q Consensus        82 ~~~   84 (125)
                      |..
T Consensus        84 f~~   86 (267)
T cd04169          84 FSE   86 (267)
T ss_pred             HHH
Confidence            654

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.

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=98.66  E-value=3.2e-08  Score=67.11  Aligned_cols=23  Identities=17%  Similarity=0.488  Sum_probs=20.3

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .+||+++|++|+|||||++.+.+
T Consensus         1 ~~kI~i~G~~g~GKSSLin~L~g   23 (197)
T cd04104           1 PLNIAVTGESGAGKSSFINALRG   23 (197)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhc
Confidence            37899999999999999999543

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

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

Probab=98.66  E-value=5.9e-08  Score=75.57  Aligned_cols=66  Identities=27%  Similarity=0.371  Sum_probs=42.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHh-hccccccCCCCCCccccccceeeEEEEe----------------CCEEEEEEECCCccc
Q psy9521          19 CVLILGLDNAGKTTYLESAK-TKFTKNYKGMNPSKITTTVGLNIGQIDI----------------NTVRLNFWDLGGQLE   81 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~-~~~~~~~~~~~~~~~~~t~~~~~~~~~~----------------~~~~~~i~D~~G~~~   81 (125)
                      -|+++|..++|||||++++. ..+....    +..+.+++|..+...+.                +...+.+|||+|++.
T Consensus         6 iV~IiG~~d~GKTSLln~l~~~~v~~~e----~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~e~   81 (590)
T TIGR00491         6 IVSVLGHVDHGKTTLLDKIRGSAVAKRE----AGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGHEA   81 (590)
T ss_pred             EEEEECCCCCCHHHHHHHHhcccccccc----CCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCcHh
Confidence            48999999999999999954 3333221    12233455544322111                012388999999999


Q ss_pred             ccccccc
Q psy9521          82 LQSLWDK   88 (125)
Q Consensus        82 ~~~~~~~   88 (125)
                      |..++..
T Consensus        82 f~~l~~~   88 (590)
T TIGR00491        82 FTNLRKR   88 (590)
T ss_pred             HHHHHHH
Confidence            8877655

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.

>PRK12736 elongation factor Tu; Reviewed

Probab=98.66  E-value=1.2e-07  Score=70.65  Aligned_cols=70  Identities=14%  Similarity=0.133  Sum_probs=42.3

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHhhccccccCCC---------CCC--ccccccceeeEEEEeCCEEEEEEECCCcccc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGM---------NPS--KITTTVGLNIGQIDINTVRLNFWDLGGQLEL   82 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~---------~~~--~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~   82 (125)
                      .++.++|+++|..++|||||+.++.+.......+.         ..+  ....|+......+..++..+.++|+||+++|
T Consensus         9 ~k~~~ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~~~~~~~~~~~~i~~iDtPGh~~f   88 (394)
T PRK12736          9 SKPHVNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINTAHVEYETEKRHYAHVDCPGHADY   88 (394)
T ss_pred             CCCeeEEEEEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEEEeeEecCCCcEEEEEECCCHHHH
Confidence            47889999999999999999999543111000000         000  1112332222233345678899999999876


Q ss_pred             c
Q psy9521          83 Q   83 (125)
Q Consensus        83 ~   83 (125)
                      .
T Consensus        89 ~   89 (394)
T PRK12736         89 V   89 (394)
T ss_pred             H
Confidence            3

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=98.65  E-value=7e-08  Score=71.21  Aligned_cols=65  Identities=14%  Similarity=0.254  Sum_probs=34.0

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCC-EEEEEEECCCccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINT-VRLNFWDLGGQLE   81 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~i~D~~G~~~   81 (125)
                      +..++|+|+|++|+|||||+|.+.+--.++...-+...++.|....  .+...+ -++.+||+||...
T Consensus        33 ~~~l~IaV~G~sGsGKSSfINalrGl~~~d~~aA~tGv~etT~~~~--~Y~~p~~pnv~lWDlPG~gt   98 (376)
T PF05049_consen   33 NAPLNIAVTGESGSGKSSFINALRGLGHEDEGAAPTGVVETTMEPT--PYPHPKFPNVTLWDLPGIGT   98 (376)
T ss_dssp             H--EEEEEEESTTSSHHHHHHHHTT--TTSTTS--SSSHSCCTS-E--EEE-SS-TTEEEEEE--GGG
T ss_pred             cCceEEEEECCCCCCHHHHHHHHhCCCCCCcCcCCCCCCcCCCCCe--eCCCCCCCCCeEEeCCCCCC
Confidence            4688999999999999999999875433221110111111222211  222333 3588999999643

IIGP is predominantly associated with the Golgi apparatus and also localizes to the endoplasmic reticulum and exerts a distinct role in IFN-induced intracellular membrane trafficking or processing [].; GO: 0005525 GTP binding, 0016817 hydrolase activity, acting on acid anhydrides, 0016020 membrane; PDB: 1TPZ_A 1TQD_A 1TQ6_A 1TQ2_B 1TQ4_A.

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=98.65  E-value=1.1e-07  Score=71.33  Aligned_cols=67  Identities=21%  Similarity=0.300  Sum_probs=48.5

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccccccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSL   85 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~   85 (125)
                      +.-+|++++|.+|||||||+|.+.++-.    .+..+....|..+--+.+.++|+.+.+.||+|-.+....
T Consensus       215 r~G~kvvIiG~PNvGKSSLLNaL~~~d~----AIVTdI~GTTRDviee~i~i~G~pv~l~DTAGiRet~d~  281 (454)
T COG0486         215 REGLKVVIIGRPNVGKSSLLNALLGRDR----AIVTDIAGTTRDVIEEDINLNGIPVRLVDTAGIRETDDV  281 (454)
T ss_pred             hcCceEEEECCCCCcHHHHHHHHhcCCc----eEecCCCCCccceEEEEEEECCEEEEEEecCCcccCccH
Confidence            4678999999999999999999543321    122222235555555688999999999999998654443

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

Probab=98.65  E-value=1.9e-07  Score=73.45  Aligned_cols=72  Identities=14%  Similarity=0.122  Sum_probs=44.1

Q ss_pred             hccCceEEEEEEeCCCCcHHHHHHH-Hhhc-cccc-----------cCCC--C-------------CCccccccceeeEE
Q psy9521          12 MLRKDEFCVLILGLDNAGKTTYLES-AKTK-FTKN-----------YKGM--N-------------PSKITTTVGLNIGQ   63 (125)
Q Consensus        12 ~~~~~~~ki~v~G~~~~GKTsl~~~-i~~~-~~~~-----------~~~~--~-------------~~~~~~t~~~~~~~   63 (125)
                      ...++.++|+++|..++|||||+.+ +... ...+           ..+.  .             .....-|+...+..
T Consensus        19 ~~~~~~~~i~iiGh~~~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~tr~~~~~~~~~d~~~~E~~rg~Tid~~~~~   98 (632)
T PRK05506         19 HERKSLLRFITCGSVDDGKSTLIGRLLYDSKMIFEDQLAALERDSKKVGTQGDEIDLALLVDGLAAEREQGITIDVAYRY   98 (632)
T ss_pred             ccCCCeeEEEEECCCCCChHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCCCCcceeeeeccCCHHHHhCCcCceeeeeE
Confidence            3456889999999999999999999 5421 1100           0010  0             00011233333334


Q ss_pred             EEeCCEEEEEEECCCccccc
Q psy9521          64 IDINTVRLNFWDLGGQLELQ   83 (125)
Q Consensus        64 ~~~~~~~~~i~D~~G~~~~~   83 (125)
                      +..++.++.++|+||+++|.
T Consensus        99 ~~~~~~~~~liDtPG~~~f~  118 (632)
T PRK05506         99 FATPKRKFIVADTPGHEQYT  118 (632)
T ss_pred             EccCCceEEEEECCChHHHH
Confidence            55567889999999998763

>cd04165 GTPBP1_like GTPBP1-like

Probab=98.64  E-value=1.3e-07  Score=65.54  Aligned_cols=24  Identities=29%  Similarity=0.423  Sum_probs=20.3

Q ss_pred             EEEEEeCCCCcHHHHHHH-Hhhccc
Q psy9521          19 CVLILGLDNAGKTTYLES-AKTKFT   42 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~-i~~~~~   42 (125)
                      |++++|+.++|||||+.+ ..+.|.
T Consensus         1 ~v~~~G~~~~GKttl~~~~~~~~~~   25 (224)
T cd04165           1 RVAVVGNVDAGKSTLLGVLTQGELD   25 (224)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCcC
Confidence            589999999999999999 555554

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

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=98.64  E-value=6.8e-08  Score=62.56  Aligned_cols=52  Identities=21%  Similarity=0.264  Sum_probs=35.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHh-hccccccCCCCCCccccccceeeE--EEEeCCEEEEEEECCCc
Q psy9521          19 CVLILGLDNAGKTTYLESAK-TKFTKNYKGMNPSKITTTVGLNIG--QIDINTVRLNFWDLGGQ   79 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~-~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~~~~~i~D~~G~   79 (125)
                      .|+++|++|+|||||++.+. +.+.....        ++.+.+..  .+..+ ..+.+||++|.
T Consensus         1 ~i~l~G~~g~GKTtL~~~l~~~~~~~~~~--------~~~~~t~~~~~~~~~-~~~~~~D~~g~   55 (170)
T cd01876           1 EIAFAGRSNVGKSSLINALTNRKKLARTS--------KTPGKTQLINFFNVN-DKFRLVDLPGY   55 (170)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCceeeec--------CCCCcceeEEEEEcc-CeEEEecCCCc
Confidence            38999999999999999954 44444433        44443322  22223 38999999994

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.

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=98.63  E-value=1.6e-07  Score=71.58  Aligned_cols=70  Identities=16%  Similarity=0.175  Sum_probs=43.9

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-Hhh-ccccc-----c------CCCC---------------CCccccccceeeEEEE
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKT-KFTKN-----Y------KGMN---------------PSKITTTVGLNIGQID   65 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~-~~~~~-----~------~~~~---------------~~~~~~t~~~~~~~~~   65 (125)
                      .+..++|+++|..++|||||+.+ +.. +....     +      .+..               .....-|+...+..+.
T Consensus        24 ~~~~~~i~iiGhvdaGKSTL~~~LL~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~a~~~D~~~eEr~rgiTid~~~~~~~  103 (474)
T PRK05124         24 HKSLLRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLASLHNDSKRHGTQGEKLDLALLVDGLQAEREQGITIDVAYRYFS  103 (474)
T ss_pred             ccCceEEEEECCCCCChHHHHHHHHHhcCCCcHHHHHHHHHHHHhcCCCccccchhhhccCChHHhhcCCCeEeeEEEec
Confidence            47889999999999999999999 532 11100     0      0100               0001123333333455


Q ss_pred             eCCEEEEEEECCCccccc
Q psy9521          66 INTVRLNFWDLGGQLELQ   83 (125)
Q Consensus        66 ~~~~~~~i~D~~G~~~~~   83 (125)
                      .++.++.++|+||+++|.
T Consensus       104 ~~~~~i~~iDTPGh~~f~  121 (474)
T PRK05124        104 TEKRKFIIADTPGHEQYT  121 (474)
T ss_pred             cCCcEEEEEECCCcHHHH
Confidence            567899999999998773

>PRK12735 elongation factor Tu; Reviewed

Probab=98.62  E-value=2.2e-07  Score=69.35  Aligned_cols=68  Identities=18%  Similarity=0.148  Sum_probs=40.8

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhccccccCC---------C--CCCccccccceeeEEEEeCCEEEEEEECCCcccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKG---------M--NPSKITTTVGLNIGQIDINTVRLNFWDLGGQLEL   82 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~---------~--~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~   82 (125)
                      ++.++|+++|..++|||||+.++.+.......+         .  ......-|+......+..++..+.++|+||+++|
T Consensus        10 ~~~~~i~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~~~~~~~~~~~~i~~iDtPGh~~f   88 (396)
T PRK12735         10 KPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINTSHVEYETANRHYAHVDCPGHADY   88 (396)
T ss_pred             CCeEEEEEECcCCCCHHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEEeeeEEcCCCcEEEEEECCCHHHH
Confidence            678999999999999999999953211000000         0  0001112222222234445678999999999766

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

Probab=98.62  E-value=3.1e-07  Score=65.08  Aligned_cols=65  Identities=17%  Similarity=0.256  Sum_probs=39.9

Q ss_pred             EEEEEeCCCCcHHHHHHHH-hhccccccCCCCCC------------ccccccceeeEEEEeCCEEEEEEECCCccccc
Q psy9521          19 CVLILGLDNAGKTTYLESA-KTKFTKNYKGMNPS------------KITTTVGLNIGQIDINTVRLNFWDLGGQLELQ   83 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i-~~~~~~~~~~~~~~------------~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~   83 (125)
                      +|+++|.+|+|||||++++ .........+....            ....++......+..++..+.+||++|+..+.
T Consensus         1 ni~ivG~~gsGKStL~~~Ll~~~g~~~~~g~v~~g~~~~d~~~~e~~r~~ti~~~~~~~~~~~~~i~liDtPG~~~f~   78 (268)
T cd04170           1 NIALVGHSGSGKTTLAEALLYATGAIDRLGSVEDGTTVSDYDPEEIKRKMSISTSVAPLEWKGHKINLIDTPGYADFV   78 (268)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhcCCCccCCeecCCcccCCCCHHHHhhcccccceeEEEEECCEEEEEEECcCHHHHH
Confidence            4899999999999999994 32111110000000            01133333344566678999999999997654

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

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=98.61  E-value=1.3e-07  Score=64.00  Aligned_cols=59  Identities=19%  Similarity=0.235  Sum_probs=40.0

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhc--cccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTK--FTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLE   81 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~--~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~   81 (125)
                      ++|+++|.+|||||||++.+.+.  +....     .....|..+.......++..+.+.||||-..
T Consensus         1 ~~i~lvG~~g~GKSsl~N~ilg~~~~~~~~-----~~~~~T~~~~~~~~~~~~~~i~viDTPG~~d   61 (196)
T cd01852           1 LRLVLVGKTGAGKSATGNTILGREVFESKL-----SASSVTKTCQKESAVWDGRRVNVIDTPGLFD   61 (196)
T ss_pred             CEEEEECCCCCCHHHHHHHhhCCCcccccc-----CCCCcccccceeeEEECCeEEEEEECcCCCC
Confidence            37999999999999999995433  21111     0111344444445556789999999999643

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).

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=98.61  E-value=2.3e-07  Score=66.93  Aligned_cols=64  Identities=16%  Similarity=0.180  Sum_probs=41.1

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLEL   82 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~   82 (125)
                      ...++|+++|.+||||||+++++.++..........    .+..........++.++.++||+|....
T Consensus        36 ~~~~rIllvGktGVGKSSliNsIlG~~v~~vs~f~s----~t~~~~~~~~~~~G~~l~VIDTPGL~d~   99 (313)
T TIGR00991        36 VSSLTILVMGKGGVGKSSTVNSIIGERIATVSAFQS----EGLRPMMVSRTRAGFTLNIIDTPGLIEG   99 (313)
T ss_pred             ccceEEEEECCCCCCHHHHHHHHhCCCcccccCCCC----cceeEEEEEEEECCeEEEEEECCCCCch
Confidence            468899999999999999999955543221111011    1111112233457899999999997643

>PRK13351 elongation factor G; Reviewed

Probab=98.60  E-value=3e-07  Score=72.99  Aligned_cols=87  Identities=18%  Similarity=0.123  Sum_probs=56.1

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-Hhhcc-c---cccC-CC-C------CCccccccceeeEEEEeCCEEEEEEECCCcccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKF-T---KNYK-GM-N------PSKITTTVGLNIGQIDINTVRLNFWDLGGQLEL   82 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~-~---~~~~-~~-~------~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~   82 (125)
                      +..+|+++|..++|||||+.+ +...- .   .+.. +. .      ......|+......+..++..+++|||+|+.+|
T Consensus         7 ~irni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~~~~~~~~~~i~liDtPG~~df   86 (687)
T PRK13351          7 QIRNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCDWDNHRINLIDTPGHIDF   86 (687)
T ss_pred             cccEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccceEEEEECCEEEEEEECCCcHHH
Confidence            456799999999999999999 43210 0   0000 00 0      012335666666667778899999999999877


Q ss_pred             cccccc------------cccCccCHHHHHHH
Q psy9521          83 QSLWDK------------DIRDCMGVREVKPI  102 (125)
Q Consensus        83 ~~~~~~------------Di~~~~s~~~i~~~  102 (125)
                      ...+..            |..+..+.+...-|
T Consensus        87 ~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~  118 (687)
T PRK13351         87 TGEVERSLRVLDGAVVVFDAVTGVQPQTETVW  118 (687)
T ss_pred             HHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHH
Confidence            554333            77666666655444

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

Probab=98.60  E-value=2.5e-07  Score=63.49  Aligned_cols=58  Identities=21%  Similarity=0.180  Sum_probs=35.9

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhccc-cccCCCCCCccccccceeeEEEEeCCEEEEEEECCCc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKFT-KNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ   79 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~~-~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~   79 (125)
                      ++|+++|..|+||||+++.+-+.-. ...    ......|..+.......++..+.++||||-
T Consensus         1 l~IlllG~tGsGKSs~~N~ilg~~~f~~~----~~~~~~t~~~~~~~~~~~g~~v~VIDTPGl   59 (212)
T PF04548_consen    1 LRILLLGKTGSGKSSLGNSILGKEVFKSG----SSAKSVTQECQKYSGEVDGRQVTVIDTPGL   59 (212)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSS-SS------TTTSS--SS-EEEEEEETTEEEEEEE--SS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcccceeec----cccCCcccccceeeeeecceEEEEEeCCCC
Confidence            5899999999999999999543221 111    011113444555555778999999999994

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

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=98.59  E-value=1.8e-07  Score=70.04  Aligned_cols=66  Identities=14%  Similarity=0.164  Sum_probs=40.0

Q ss_pred             EEEEEEeCCCCcHHHHHHH-Hhhc-cccc-----c------CCCC---------------CCccccccceeeEEEEeCCE
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTK-FTKN-----Y------KGMN---------------PSKITTTVGLNIGQIDINTV   69 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~-~~~~-----~------~~~~---------------~~~~~~t~~~~~~~~~~~~~   69 (125)
                      ++|+++|..++|||||+.+ +... ....     +      .+..               .....-|+...+..+..++.
T Consensus         1 ~~~~~vGhvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~D~~~eE~~rgiTid~~~~~~~~~~~   80 (406)
T TIGR02034         1 LRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLAALERDSKKHGTQGGEIDLALLVDGLQAEREQGITIDVAYRYFSTDKR   80 (406)
T ss_pred             CeEEEECCCCCCchhhhHHHHHHcCCcCHHHHHHHHHHHHhhCCCcCceeeeeeccCChHHhcCCcCeEeeeEEEccCCe
Confidence            4799999999999999999 4321 1000     0      0000               00011233333344555678


Q ss_pred             EEEEEECCCccccc
Q psy9521          70 RLNFWDLGGQLELQ   83 (125)
Q Consensus        70 ~~~i~D~~G~~~~~   83 (125)
                      ++.++|++|+++|.
T Consensus        81 ~~~liDtPGh~~f~   94 (406)
T TIGR02034        81 KFIVADTPGHEQYT   94 (406)
T ss_pred             EEEEEeCCCHHHHH
Confidence            99999999998773

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).

>COG1084 Predicted GTPase [General function prediction only]

Probab=98.58  E-value=6.9e-07  Score=64.49  Aligned_cols=56  Identities=23%  Similarity=0.402  Sum_probs=45.0

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhcccc--ccCCCCCCccccccceeeEEEEeCCEEEEEEECCCc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKFTK--NYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ   79 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~~~--~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~   79 (125)
                      --.|++.|.+|||||||++.+.+..++  .|+       -.|-++++..+..+..++++.||||-
T Consensus       168 ~pTivVaG~PNVGKSSlv~~lT~AkpEvA~YP-------FTTK~i~vGhfe~~~~R~QvIDTPGl  225 (346)
T COG1084         168 LPTIVVAGYPNVGKSSLVRKLTTAKPEVAPYP-------FTTKGIHVGHFERGYLRIQVIDTPGL  225 (346)
T ss_pred             CCeEEEecCCCCcHHHHHHHHhcCCCccCCCC-------ccccceeEeeeecCCceEEEecCCcc
Confidence            345999999999999999997754332  222       26778888888888899999999996

>PRK04004 translation initiation factor IF-2; Validated

Probab=98.58  E-value=1.1e-07  Score=74.20  Aligned_cols=69  Identities=26%  Similarity=0.356  Sum_probs=44.2

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEe----CC-------E-----EEEEEECCCcc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDI----NT-------V-----RLNFWDLGGQL   80 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~----~~-------~-----~~~i~D~~G~~   80 (125)
                      .-.|+++|..++|||||++++.+.+.....   +..+.+++|..+.....    .+       .     .+.+|||||++
T Consensus         6 ~p~V~i~Gh~~~GKTSLl~~l~~~~v~~~~---~g~itq~ig~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDTPG~e   82 (586)
T PRK04004          6 QPIVVVLGHVDHGKTTLLDKIRGTAVAAKE---AGGITQHIGATEVPIDVIEKIAGPLKKPLPIKLKIPGLLFIDTPGHE   82 (586)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCcccccCC---CCceEEeeceeeccccccccccceeccccccccccCCEEEEECCChH
Confidence            345999999999999999998655433221   22233455544332111    00       1     26899999999


Q ss_pred             cccccccc
Q psy9521          81 ELQSLWDK   88 (125)
Q Consensus        81 ~~~~~~~~   88 (125)
                      .|..++..
T Consensus        83 ~f~~~~~~   90 (586)
T PRK04004         83 AFTNLRKR   90 (586)
T ss_pred             HHHHHHHH
Confidence            99877664

>CHL00071 tufA elongation factor Tu

Probab=98.55  E-value=4.4e-07  Score=68.04  Aligned_cols=69  Identities=14%  Similarity=0.171  Sum_probs=41.4

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHhhccccc--c-----CC--CCCCc--cccccceeeEEEEeCCEEEEEEECCCcccc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAKTKFTKN--Y-----KG--MNPSK--ITTTVGLNIGQIDINTVRLNFWDLGGQLEL   82 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~--~-----~~--~~~~~--~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~   82 (125)
                      .++.++|+++|..++|||||++++.+.....  .     ..  ....+  ...|+......+..++.++.+.|+||+++|
T Consensus         9 ~~~~~~i~i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~~iDtPGh~~~   88 (409)
T CHL00071          9 KKPHVNIGTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAHVEYETENRHYAHVDCPGHADY   88 (409)
T ss_pred             CCCeEEEEEECCCCCCHHHHHHHHHHHhCccccccccccccccCChhhhcCCEeEEccEEEEccCCeEEEEEECCChHHH
Confidence            4788999999999999999999954321100  0     00  00000  112222222234445688899999998765

>cd01858 NGP_1 NGP-1

Probab=98.54  E-value=3.7e-07  Score=59.67  Aligned_cols=24  Identities=21%  Similarity=0.504  Sum_probs=21.3

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +.++++++|.+|||||||++++.+
T Consensus       101 ~~~~v~~~G~~nvGKStliN~l~~  124 (157)
T cd01858         101 KQISVGFIGYPNVGKSSIINTLRS  124 (157)
T ss_pred             cceEEEEEeCCCCChHHHHHHHhc
Confidence            568899999999999999999654

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.

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=98.53  E-value=4.2e-07  Score=60.63  Aligned_cols=56  Identities=20%  Similarity=0.334  Sum_probs=34.9

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCC
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGG   78 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G   78 (125)
                      ..++++++|.+|||||||++++.+.......    .....|.+..  .+.. +..+.++|+||
T Consensus       116 ~~~~~~~vG~pnvGKSslin~l~~~~~~~~~----~~pg~T~~~~--~~~~-~~~~~l~DtPG  171 (172)
T cd04178         116 TSITVGVVGFPNVGKSSLINSLKRSRACNVG----ATPGVTKSMQ--EVHL-DKKVKLLDSPG  171 (172)
T ss_pred             cCcEEEEEcCCCCCHHHHHHHHhCcccceec----CCCCeEcceE--EEEe-CCCEEEEECcC
Confidence            4589999999999999999996643322111    0011222222  2233 24688999998

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

>COG1160 Predicted GTPases [General function prediction only]

Probab=98.53  E-value=5.5e-07  Score=67.37  Aligned_cols=59  Identities=20%  Similarity=0.168  Sum_probs=42.2

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQL   80 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~   80 (125)
                      -.|+++|.+|||||||+||+.++...    .-.+....|..-.|......+..|.+.||+|-+
T Consensus         4 ~~VAIVGRPNVGKSTLFNRL~g~r~A----IV~D~pGvTRDr~y~~~~~~~~~f~lIDTgGl~   62 (444)
T COG1160           4 PVVAIVGRPNVGKSTLFNRLTGRRIA----IVSDTPGVTRDRIYGDAEWLGREFILIDTGGLD   62 (444)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCeee----EeecCCCCccCCccceeEEcCceEEEEECCCCC
Confidence            35999999999999999996644321    111112255555566777778889999999986

>PRK00049 elongation factor Tu; Reviewed

Probab=98.52  E-value=4.6e-07  Score=67.68  Aligned_cols=69  Identities=17%  Similarity=0.151  Sum_probs=41.6

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHhhccccccCC---------CCCC--ccccccceeeEEEEeCCEEEEEEECCCcccc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKG---------MNPS--KITTTVGLNIGQIDINTVRLNFWDLGGQLEL   82 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~---------~~~~--~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~   82 (125)
                      .++.++|+++|..++|||||+.++.........+         ...+  ...-|+......+..++..+.+.|+||+++|
T Consensus         9 ~~~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~~f   88 (396)
T PRK00049          9 TKPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINTAHVEYETEKRHYAHVDCPGHADY   88 (396)
T ss_pred             CCCEEEEEEEeECCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhcCeEEeeeEEEEcCCCeEEEEEECCCHHHH
Confidence            3788999999999999999999954311110000         0000  1112322222234445688999999998765

>cd01856 YlqF YlqF

Probab=98.52  E-value=4.1e-07  Score=60.35  Aligned_cols=57  Identities=23%  Similarity=0.355  Sum_probs=35.2

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhh-ccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKT-KFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ   79 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~-~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~   79 (125)
                      ...++++++|.+|+|||||++++.+ .+. ...    .....|...  ..+..+ ..+.++||+|-
T Consensus       113 ~~~~~~~~~G~~~vGKstlin~l~~~~~~-~~~----~~~~~T~~~--~~~~~~-~~~~~iDtpG~  170 (171)
T cd01856         113 PRGIRAMVVGIPNVGKSTLINRLRGKKVA-KVG----NKPGVTKGI--QWIKIS-PGIYLLDTPGI  170 (171)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCce-eec----CCCCEEeee--EEEEec-CCEEEEECCCC
Confidence            3457899999999999999999543 332 111    000122222  223333 45789999994

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.

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=98.51  E-value=1.5e-06  Score=64.90  Aligned_cols=58  Identities=29%  Similarity=0.383  Sum_probs=39.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCC-EEEEEEECCCccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINT-VRLNFWDLGGQLE   81 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~i~D~~G~~~   81 (125)
                      .|.++|.+|||||||++++.+..+.     .......|....+..+...+ .++.++|+||..+
T Consensus       161 dValVG~PNaGKSTLln~Lt~~k~~-----vs~~p~TT~~p~~Giv~~~~~~~i~~vDtPGi~~  219 (390)
T PRK12298        161 DVGLLGLPNAGKSTFIRAVSAAKPK-----VADYPFTTLVPNLGVVRVDDERSFVVADIPGLIE  219 (390)
T ss_pred             cEEEEcCCCCCHHHHHHHHhCCccc-----ccCCCCCccCcEEEEEEeCCCcEEEEEeCCCccc
Confidence            5899999999999999997543321     11122355555555555554 5699999999753

>PRK05433 GTP-binding protein LepA; Provisional

Probab=98.48  E-value=8.4e-07  Score=69.44  Aligned_cols=70  Identities=16%  Similarity=0.273  Sum_probs=40.7

Q ss_pred             EEEEEeCCCCcHHHHHHH-Hhh--ccccccCC---CCCCccccccceeeE----EEEe-----CCEEEEEEECCCccccc
Q psy9521          19 CVLILGLDNAGKTTYLES-AKT--KFTKNYKG---MNPSKITTTVGLNIG----QIDI-----NTVRLNFWDLGGQLELQ   83 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~-i~~--~~~~~~~~---~~~~~~~~t~~~~~~----~~~~-----~~~~~~i~D~~G~~~~~   83 (125)
                      +++++|..++|||||+.+ +..  .......+   ....+.+.+.|..+.    .+..     +++.+++|||+|+++|.
T Consensus         9 Ni~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh~dF~   88 (600)
T PRK05433          9 NFSIIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGHVDFS   88 (600)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEECCCcHHHH
Confidence            599999999999999999 542  11110000   001111122333321    2222     25889999999999886


Q ss_pred             ccccc
Q psy9521          84 SLWDK   88 (125)
Q Consensus        84 ~~~~~   88 (125)
                      ..+..
T Consensus        89 ~~v~~   93 (600)
T PRK05433         89 YEVSR   93 (600)
T ss_pred             HHHHH
Confidence            55444

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=98.48  E-value=8.2e-07  Score=63.55  Aligned_cols=64  Identities=19%  Similarity=0.279  Sum_probs=35.2

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhccccccC-C--CCCCccccccceeeEE--EEeCC--EEEEEEECCCc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKFTKNYK-G--MNPSKITTTVGLNIGQ--IDINT--VRLNFWDLGGQ   79 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~-~--~~~~~~~~t~~~~~~~--~~~~~--~~~~i~D~~G~   79 (125)
                      -+++|+|+|+.|+|||||++.+-+....... .  .+.....++..+....  +.-++  ++++++||+|-
T Consensus         3 ~~fnImVvG~sG~GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~l~LtiiDTpGf   73 (281)
T PF00735_consen    3 FNFNIMVVGESGLGKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEERTVELEENGVKLNLTIIDTPGF   73 (281)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHTSS---------S------SCEEEEEEEEEEEETCEEEEEEEEEEC-C
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhcccccccccccccccccccccceeeEEEEeccCCcceEEEEEeCCCc
Confidence            4689999999999999999995432221110 0  0111222333333322  23233  78999999994

Members of the family were first identified by genetic screening for Saccharomyces cerevisiae (Baker's yeast) mutants defective in cytokinesis []. Temperature-sensitive mutations in four genes, CDC3, CDC10, CDC11 and CDC12, were found to cause cell-cycle arrest and defects in bud growth and cytokinesis. The protein products of these genes localise at the division plane between mother and daughter cells, indicating a role in mother-daughter separation during cytokinesis []. Members of the family were therefore termed septins to reflect their role in septation and cell division. The identification of septin homologues in higher eukaryotes, which localise to the cleavage furrow in dividing cells, supports an orthologous function in cytokinesis. Septins have since been identified in most eukaryotes, except plants []. Septins are approximately 40-50 kDa in molecular mass, and typically comprise a conserved central core domain (more than 35% sequence identity between mammalian and yeast homologues) flanked by more divergent N- and C-termini. Most septins possess a P-loop motif in their N-terminal domain (which is characteristic of GTP-binding proteins), and a predicted C-terminal coiled-coil domain []. A number of septin interaction partners have been identified in yeast, many of which are components of the budding site selection machinery, kinase cascades or of the ubiquitination pathway. It has been proposed that septins may act as a scaffold that provides an interaction matrix for other proteins [, ]. In mammals, septins have been shown to regulate vesicle dynamics []. Mammalian septins have also been implicated in a variety of other cellular processes, including apoptosis, carcinogenesis and neurodegeneration []. This entry represents a variety of septins and homologous sequences involved in the cell division process.; GO: 0005525 GTP binding, 0007049 cell cycle; PDB: 2QAG_B 3FTQ_D 2QA5_A 2QNR_B 3TW4_A 3T5D_C.

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.45  E-value=7.6e-07  Score=63.83  Aligned_cols=59  Identities=22%  Similarity=0.280  Sum_probs=37.2

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQL   80 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~   80 (125)
                      ...++++++|.+|||||||++++.+.......    .....|.+..  .+.. +..+.++||||-.
T Consensus       119 ~~~~~~~~~G~pnvGKSsliN~l~~~~~~~~~----~~~g~T~~~~--~~~~-~~~~~l~DtPGi~  177 (287)
T PRK09563        119 PRAIRAMIIGIPNVGKSTLINRLAGKKIAKTG----NRPGVTKAQQ--WIKL-GKGLELLDTPGIL  177 (287)
T ss_pred             cCceEEEEECCCCCCHHHHHHHHhcCCccccC----CCCCeEEEEE--EEEe-CCcEEEEECCCcC
Confidence            35689999999999999999996553322211    0111233322  2333 2457899999974

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=98.44  E-value=1.2e-06  Score=66.50  Aligned_cols=69  Identities=14%  Similarity=0.206  Sum_probs=43.2

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-Hhh-ccccc------------c-CC---------CCC--CccccccceeeEEEEeC
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKT-KFTKN------------Y-KG---------MNP--SKITTTVGLNIGQIDIN   67 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~-~~~~~------------~-~~---------~~~--~~~~~t~~~~~~~~~~~   67 (125)
                      .++.++++++|..++|||||+.+ +.. .....            . .+         ...  .....|+...+..+..+
T Consensus         4 ~k~~~nv~i~Ghvd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~s~~~a~~~D~~~~Er~rGiTid~~~~~~~~~   83 (446)
T PTZ00141          4 EKTHINLVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERGITIDIALWKFETP   83 (446)
T ss_pred             CCceEEEEEEecCCCCHHHHHHHHHHHcCCcChHHHHHHhhHHHhhCCcchhhhhhhcCChHHHhcCEeEEeeeEEEccC
Confidence            46789999999999999999998 431 10000            0 00         000  01112333333455666


Q ss_pred             CEEEEEEECCCcccc
Q psy9521          68 TVRLNFWDLGGQLEL   82 (125)
Q Consensus        68 ~~~~~i~D~~G~~~~   82 (125)
                      +..+.+.|+||+++|
T Consensus        84 ~~~i~lIDtPGh~~f   98 (446)
T PTZ00141         84 KYYFTIIDAPGHRDF   98 (446)
T ss_pred             CeEEEEEECCChHHH
Confidence            789999999999876

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

Probab=98.44  E-value=2.2e-06  Score=60.98  Aligned_cols=66  Identities=21%  Similarity=0.192  Sum_probs=39.7

Q ss_pred             EEEEEeCCCCcHHHHHHH-Hh--hcc--ccccC-C---C--CC--CccccccceeeEEEEeCCEEEEEEECCCcccccc
Q psy9521          19 CVLILGLDNAGKTTYLES-AK--TKF--TKNYK-G---M--NP--SKITTTVGLNIGQIDINTVRLNFWDLGGQLELQS   84 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~-i~--~~~--~~~~~-~---~--~~--~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~   84 (125)
                      +|+++|..++|||||+++ +.  +.-  ..... +   .  .+  .....|+......+..++.++.++||||+.++..
T Consensus         1 nv~ivGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~i~liDTPG~~df~~   79 (270)
T cd01886           1 NIGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCFWKDHRINIIDTPGHVDFTI   79 (270)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEEECCEEEEEEECCCcHHHHH
Confidence            378999999999999999 43  110  00000 0   0  00  0111233333345666789999999999876644

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

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.44  E-value=7.9e-07  Score=63.39  Aligned_cols=58  Identities=22%  Similarity=0.309  Sum_probs=36.4

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ   79 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~   79 (125)
                      .+.++++++|.+|||||||++++.+.......    .....|....  .+... -.+.++||||-
T Consensus       116 ~~~~~~~~vG~~nvGKSslin~l~~~~~~~~~----~~~g~T~~~~--~~~~~-~~~~l~DtPG~  173 (276)
T TIGR03596       116 NRPIRAMIVGIPNVGKSTLINRLAGKKVAKVG----NRPGVTKGQQ--WIKLS-DGLELLDTPGI  173 (276)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCccccC----CCCCeecceE--EEEeC-CCEEEEECCCc
Confidence            35689999999999999999996543221111    0111233322  23332 35789999998

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.

>KOG1191|consensus

Probab=98.42  E-value=1.5e-06  Score=65.65  Aligned_cols=82  Identities=20%  Similarity=0.248  Sum_probs=50.8

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccccccCcc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDKDIRDCM   94 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~Di~~~~   94 (125)
                      +..++|+++|.+|||||||+|.+.++-..    +..+....|...--..++.+|+.+.+.||+|-.+    -..|...+.
T Consensus       266 q~gl~iaIvGrPNvGKSSLlNaL~~~drs----IVSpv~GTTRDaiea~v~~~G~~v~L~DTAGiRe----~~~~~iE~~  337 (531)
T KOG1191|consen  266 QSGLQIAIVGRPNVGKSSLLNALSREDRS----IVSPVPGTTRDAIEAQVTVNGVPVRLSDTAGIRE----ESNDGIEAL  337 (531)
T ss_pred             hcCCeEEEEcCCCCCHHHHHHHHhcCCce----EeCCCCCcchhhheeEeecCCeEEEEEecccccc----ccCChhHHH
Confidence            46689999999999999999996533211    1111111333322236788999999999999765    111444444


Q ss_pred             CHHHHHHHHh
Q psy9521          95 GVREVKPIFN  104 (125)
Q Consensus        95 s~~~i~~~l~  104 (125)
                      +.+..+..+.
T Consensus       338 gI~rA~k~~~  347 (531)
T KOG1191|consen  338 GIERARKRIE  347 (531)
T ss_pred             hHHHHHHHHh
Confidence            4444444333

>COG3596 Predicted GTPase [General function prediction only]

Probab=98.42  E-value=2.9e-07  Score=65.08  Aligned_cols=61  Identities=25%  Similarity=0.425  Sum_probs=40.1

Q ss_pred             ccCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceee---EEEEeCCEEEEEEECCCccc
Q psy9521          13 LRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNI---GQIDINTVRLNFWDLGGQLE   81 (125)
Q Consensus        13 ~~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~---~~~~~~~~~~~i~D~~G~~~   81 (125)
                      ..++.++++++|..|+||||++|. +.+...+-..        --++.+.   .....++-.+.+||++|-+.
T Consensus        35 ~~~~pvnvLi~G~TG~GKSSliNALF~~~~~~v~~--------vg~~t~~~~~~~~~~~~~~l~lwDtPG~gd   99 (296)
T COG3596          35 TEKEPVNVLLMGATGAGKSSLINALFQGEVKEVSK--------VGVGTDITTRLRLSYDGENLVLWDTPGLGD   99 (296)
T ss_pred             cccCceeEEEecCCCCcHHHHHHHHHhccCceeee--------cccCCCchhhHHhhccccceEEecCCCccc
Confidence            356889999999999999999999 5433222110        0111111   12334567899999999765

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=98.40  E-value=6.2e-07  Score=55.64  Aligned_cols=25  Identities=24%  Similarity=0.287  Sum_probs=21.1

Q ss_pred             EEEEEEeCCCCcHHHHHHH-Hhhccc
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFT   42 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~   42 (125)
                      +|++++|+.|+|||+|+.| ..+.|.
T Consensus         1 ~kvv~~G~~gvGKt~l~~~~~~~~~~   26 (124)
T smart00010        1 FKVVGIGDSGVGKVGKSARFVQFPFD   26 (124)
T ss_pred             CEEEEECCCChhHHHHHHHHhcCCcc
Confidence            4899999999999999999 455554

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=98.38  E-value=9.1e-07  Score=66.10  Aligned_cols=22  Identities=27%  Similarity=0.540  Sum_probs=19.9

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhh
Q psy9521          18 FCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +||.++|.++||||||++++.+
T Consensus         2 ~kigivG~pnvGKSTlfn~Lt~   23 (396)
T PRK09602          2 ITIGLVGKPNVGKSTFFNAATL   23 (396)
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            5799999999999999999654

>KOG1423|consensus

Probab=98.36  E-value=1.5e-06  Score=62.46  Aligned_cols=61  Identities=26%  Similarity=0.384  Sum_probs=42.6

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQL   80 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~   80 (125)
                      ++.+.|+++|.+|||||||.|+ +..+...     ....+..|..-....++-+..++.++||+|--
T Consensus        70 ~k~L~vavIG~PNvGKStLtN~mig~kv~~-----vS~K~~TTr~~ilgi~ts~eTQlvf~DTPGlv  131 (379)
T KOG1423|consen   70 QKSLYVAVIGAPNVGKSTLTNQMIGQKVSA-----VSRKVHTTRHRILGIITSGETQLVFYDTPGLV  131 (379)
T ss_pred             ceEEEEEEEcCCCcchhhhhhHhhCCcccc-----ccccccceeeeeeEEEecCceEEEEecCCccc
Confidence            5678899999999999999999 5433221     11222244444444566667999999999964

>PLN00043 elongation factor 1-alpha; Provisional

Probab=98.35  E-value=2.4e-06  Score=64.82  Aligned_cols=70  Identities=11%  Similarity=0.146  Sum_probs=43.3

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-Hhhc-ccc-----cc-----CC--------------CCCCccccccceeeEEEEeC
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTK-FTK-----NY-----KG--------------MNPSKITTTVGLNIGQIDIN   67 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~-~~~-----~~-----~~--------------~~~~~~~~t~~~~~~~~~~~   67 (125)
                      .++.++++++|..++|||||+-+ +..- ...     .+     .+              .......-|+...+..+..+
T Consensus         4 ~k~~~ni~i~Ghvd~GKSTL~g~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~a~~~D~~~~Er~rGiTi~~~~~~~~~~   83 (447)
T PLN00043          4 EKVHINIVVIGHVDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDKLKAERERGITIDIALWKFETT   83 (447)
T ss_pred             CCceEEEEEEecCCCCHHHHHHHHHHHhCCCcHHHHHHHhhhhhhhcccchhhhhhhcCCHhHHhcCceEEEEEEEecCC
Confidence            36788999999999999999998 4311 000     00     00              00001112333333345556


Q ss_pred             CEEEEEEECCCccccc
Q psy9521          68 TVRLNFWDLGGQLELQ   83 (125)
Q Consensus        68 ~~~~~i~D~~G~~~~~   83 (125)
                      +..+++.|++|+++|.
T Consensus        84 ~~~i~liDtPGh~df~   99 (447)
T PLN00043         84 KYYCTVIDAPGHRDFI   99 (447)
T ss_pred             CEEEEEEECCCHHHHH
Confidence            7899999999998874

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

Probab=98.33  E-value=7e-06  Score=64.19  Aligned_cols=62  Identities=26%  Similarity=0.407  Sum_probs=44.6

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhh--ccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKT--KFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQS   84 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~--~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~   84 (125)
                      ++.+++++|.+|||||||+|++++  ....+++|       -|+.-....+..++.++++.|+||--....
T Consensus         2 ~~~~valvGNPNvGKTtlFN~LTG~~q~VgNwpG-------vTVEkkeg~~~~~~~~i~ivDLPG~YSL~~   65 (653)
T COG0370           2 KKLTVALVGNPNVGKTTLFNALTGANQKVGNWPG-------VTVEKKEGKLKYKGHEIEIVDLPGTYSLTA   65 (653)
T ss_pred             CcceEEEecCCCccHHHHHHHHhccCceecCCCC-------eeEEEEEEEEEecCceEEEEeCCCcCCCCC
Confidence            456799999999999999999764  44455542       344333335667788899999999754333

>cd01899 Ygr210 Ygr210 subfamily

Probab=98.32  E-value=1.1e-06  Score=63.95  Aligned_cols=59  Identities=24%  Similarity=0.349  Sum_probs=36.5

Q ss_pred             EEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEE-----------------Ee---CCEEEEEEECCCc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQI-----------------DI---NTVRLNFWDLGGQ   79 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~-----------------~~---~~~~~~i~D~~G~   79 (125)
                      |.++|.++||||||++++.+..... ..-+...+.|++|..+...                 ..   ..+.+++||++|.
T Consensus         1 i~ivG~pnvGKStLfn~lt~~~~~~-~~~pftT~~p~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~v~i~l~D~aGl   79 (318)
T cd01899           1 IGLVGKPNAGKSTFFNAATLADVEI-ANYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVPVELIDVAGL   79 (318)
T ss_pred             CEEECCCCCCHHHHHHHHhCCCCcc-cCCCCccccceeEEEEEecCCCchhhhhhhcccccccccCcCcceEEEEECCCC
Confidence            5789999999999999965432110 0011222346666554311                 01   2378999999998

Ygr210 is a member of Obg-like family and present in archaea and fungi. They are characterized by a distinct glycine-rich motif immediately following the Walker B motif. The Ygr210 and YyaF/YchF subfamilies appear to form one major branch of the Obg-like family. Among eukaryotes, the Ygr210 subfamily is represented only in fungi. These fungal proteins form a tight cluster with their archaeal orthologs, which suggests the possibility of horizontal transfer from archaea to fungi.

>COG1161 Predicted GTPases [General function prediction only]

Probab=98.31  E-value=2.6e-06  Score=62.09  Aligned_cols=58  Identities=22%  Similarity=0.286  Sum_probs=38.6

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeE--EEEeCCEEEEEEECCCcc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIG--QIDINTVRLNFWDLGGQL   80 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~~~~~i~D~~G~~   80 (125)
                      .++.+++.++|-++||||||++++.++......        +.-|.+-.  .+..+ -.+.++||||--
T Consensus       129 ~~~~~~v~vvG~PNVGKSslIN~L~~k~~~~~s--------~~PG~Tk~~q~i~~~-~~i~LlDtPGii  188 (322)
T COG1161         129 LKRKIRVGVVGYPNVGKSTLINRLLGKKVAKTS--------NRPGTTKGIQWIKLD-DGIYLLDTPGII  188 (322)
T ss_pred             CccceEEEEEcCCCCcHHHHHHHHhcccceeeC--------CCCceecceEEEEcC-CCeEEecCCCcC
Confidence            346788999999999999999997665543222        22233322  22222 348899999963

>cd01855 YqeH YqeH

Probab=98.30  E-value=2.7e-06  Score=57.23  Aligned_cols=23  Identities=26%  Similarity=0.346  Sum_probs=20.2

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ...++++|.+|||||||++.+.+
T Consensus       127 ~~~~~~~G~~nvGKStliN~l~~  149 (190)
T cd01855         127 GGDVYVVGATNVGKSTLINALLK  149 (190)
T ss_pred             CCcEEEEcCCCCCHHHHHHHHHH
Confidence            46799999999999999999543

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.

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=98.29  E-value=3.3e-06  Score=64.33  Aligned_cols=81  Identities=25%  Similarity=0.387  Sum_probs=57.4

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeC------CEEEEEEECCCcccccccccc-
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDIN------TVRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~------~~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      ..-.|+|+|..++|||||+.++.+.  +++.        ++.+..|..+++.      ..++.+|-+.|...+..+... 
T Consensus        24 ~~k~vlvlG~~~~GKttli~~L~~~--e~~~--------~~~aLeYty~~v~d~~~dd~~rl~vw~L~g~~~~~~LLk~~   93 (472)
T PF05783_consen   24 SEKSVLVLGDKGSGKTTLIARLQGI--EDPK--------KGLALEYTYLDVKDEDRDDLARLNVWELDGDPSHSDLLKFA   93 (472)
T ss_pred             CCceEEEEeCCCCchHHHHHHhhcc--CCCC--------CCcccceEEEeeccCcCCcCceeeEEEcCCCcchHhHhccc
Confidence            3457999999999999999998753  2333        7777777654442      167999999887666555444 


Q ss_pred             ---------------cccCccCHH-HHHHHHhhh
Q psy9521          89 ---------------DIRDCMGVR-EVKPIFNKN  106 (125)
Q Consensus        89 ---------------Di~~~~s~~-~i~~~l~~~  106 (125)
                                     |++.+..+- .++.|+..+
T Consensus        94 lt~~~l~~t~vvIvlDlS~PW~~~esL~~W~~vl  127 (472)
T PF05783_consen   94 LTPENLPNTLVVIVLDLSKPWNIMESLEKWLSVL  127 (472)
T ss_pred             CCcccccceEEEEEecCCChHHHHHHHHHHHHHH
Confidence                           777776653 666677655

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 [].

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=98.29  E-value=5.9e-06  Score=57.25  Aligned_cols=19  Identities=32%  Similarity=0.354  Sum_probs=17.5

Q ss_pred             EEEEEeCCCCcHHHHHHHH
Q psy9521          19 CVLILGLDNAGKTTYLESA   37 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i   37 (125)
                      .|+++|..++|||||+.++
T Consensus         2 NvaiiGhvd~GKTTL~d~L   20 (222)
T cd01885           2 NICIIAHVDHGKTTLSDSL   20 (222)
T ss_pred             eEEEECCCCCCHHHHHHHH
Confidence            4899999999999999993

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

>PLN03127 Elongation factor Tu; Provisional

Probab=98.29  E-value=5e-06  Score=63.09  Aligned_cols=69  Identities=16%  Similarity=0.181  Sum_probs=43.1

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHhhcccc--c-----c--CCCCCCc--cccccceeeEEEEeCCEEEEEEECCCcccc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAKTKFTK--N-----Y--KGMNPSK--ITTTVGLNIGQIDINTVRLNFWDLGGQLEL   82 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~~~~~~--~-----~--~~~~~~~--~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~   82 (125)
                      .++.++|+++|..++|||||+.++.+....  +     +  .....++  ...|+......++.++.++.+.|+||+++|
T Consensus        58 ~k~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~~~i~~iDtPGh~~f  137 (447)
T PLN03127         58 TKPHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIATAHVEYETAKRHYAHVDCPGHADY  137 (447)
T ss_pred             CCceEEEEEECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhcCceeeeeEEEEcCCCeEEEEEECCCccch
Confidence            468899999999999999999996421100  0     0  0000011  113333333345556688999999999766

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=98.29  E-value=5.7e-06  Score=63.94  Aligned_cols=68  Identities=21%  Similarity=0.222  Sum_probs=41.3

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-Hh-hcccccc---C----C----CCCCccccccc----eeeEEEEeCCEEEEEEECCCc
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AK-TKFTKNY---K----G----MNPSKITTTVG----LNIGQIDINTVRLNFWDLGGQ   79 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~-~~~~~~~---~----~----~~~~~~~~t~~----~~~~~~~~~~~~~~i~D~~G~   79 (125)
                      .-+|+++|..++|||||+.+ +. .......   .    +    ....+.+...|    .....+..+++.+++|||+|+
T Consensus        10 ~Rni~IiGh~daGKTTL~e~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rgiSi~~~~~~~~~~~~~inliDTPG~   89 (526)
T PRK00741         10 RRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGISVTSSVMQFPYRDCLINLLDTPGH   89 (526)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhCCCccccceeeccccCccccCCCcHHHHhhCCceeeeeEEEEECCEEEEEEECCCc
Confidence            44799999999999999999 43 2111000   0    0    00011111222    222356667899999999999


Q ss_pred             ccccc
Q psy9521          80 LELQS   84 (125)
Q Consensus        80 ~~~~~   84 (125)
                      +.|..
T Consensus        90 ~df~~   94 (526)
T PRK00741         90 EDFSE   94 (526)
T ss_pred             hhhHH
Confidence            87754

>TIGR00484 EF-G translation elongation factor EF-G

Probab=98.27  E-value=8.5e-06  Score=64.86  Aligned_cols=67  Identities=18%  Similarity=0.071  Sum_probs=41.8

Q ss_pred             EEEEEEeCCCCcHHHHHHHH-hh-ccc---cccCC--CCCC------ccccccceeeEEEEeCCEEEEEEECCCcccccc
Q psy9521          18 FCVLILGLDNAGKTTYLESA-KT-KFT---KNYKG--MNPS------KITTTVGLNIGQIDINTVRLNFWDLGGQLELQS   84 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i-~~-~~~---~~~~~--~~~~------~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~   84 (125)
                      -+|+++|..++|||||++++ .. ...   .+...  ...+      ....|+......+..++.++.+|||+|+.++..
T Consensus        11 rni~iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~~~~~i~liDTPG~~~~~~   90 (689)
T TIGR00484        11 RNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFWKGHRINIIDTPGHVDFTV   90 (689)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEECCeEEEEEECCCCcchhH
Confidence            46999999999999999994 31 111   00000  0000      111233333446667789999999999987654

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.

>KOG0082|consensus

Probab=98.25  E-value=5.8e-06  Score=60.63  Aligned_cols=34  Identities=24%  Similarity=0.494  Sum_probs=29.3

Q ss_pred             cccceeeEEEEeCCEEEEEEECCCcccccccccc
Q psy9521          55 TTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK   88 (125)
Q Consensus        55 ~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   88 (125)
                      ||.|+.-..+..++..+.++|++||.--|..|..
T Consensus       181 ~T~GI~e~~F~~k~~~f~~~DvGGQRseRrKWih  214 (354)
T KOG0082|consen  181 PTTGIVEVEFTIKGLKFRMFDVGGQRSERKKWIH  214 (354)
T ss_pred             CcCCeeEEEEEeCCCceEEEeCCCcHHHhhhHHH
Confidence            6888887788889999999999999877777777

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=98.23  E-value=1.5e-05  Score=58.37  Aligned_cols=86  Identities=15%  Similarity=0.304  Sum_probs=56.9

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHH-hhcccccc--CCCCCCccccccceeeEEEEe--CC--EEEEEEECCCcccccccc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESA-KTKFTKNY--KGMNPSKITTTVGLNIGQIDI--NT--VRLNFWDLGGQLELQSLW   86 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i-~~~~~~~~--~~~~~~~~~~t~~~~~~~~~~--~~--~~~~i~D~~G~~~~~~~~   86 (125)
                      +..++.|+++|++|.|||||++.+ ......+.  .+..+..+.||+.+......+  ++  +++++.||+|--.     
T Consensus        20 ~Gi~f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~~~l~vIDtpGfGD-----   94 (373)
T COG5019          20 KGIDFTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTPGFGD-----   94 (373)
T ss_pred             cCCceEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecCCeEEEEEEeccCCccc-----
Confidence            368899999999999999999994 43222221  122333356777777654333  34  7899999998542     


Q ss_pred             cccccCccCHHHHHHHHhhh
Q psy9521          87 DKDIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        87 ~~Di~~~~s~~~i~~~l~~~  106 (125)
                        -+.+..+++-|..+++.-
T Consensus        95 --~idNs~~we~I~~yI~~q  112 (373)
T COG5019          95 --FIDNSKCWEPIVDYIDDQ  112 (373)
T ss_pred             --cccccccHHHHHHHHHHH
Confidence              345567777776666553

>COG0218 Predicted GTPase [General function prediction only]

Probab=98.20  E-value=5.1e-06  Score=56.30  Aligned_cols=56  Identities=20%  Similarity=0.237  Sum_probs=35.1

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhccc-cccCCCCCCccccccceeeEEEEeCCEEEEEEECCC
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKFT-KNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGG   78 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~~-~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G   78 (125)
                      ...-|+++|.+|||||||++.+.++.. ....    .....|.-.++..+  ++ .+.+.|+||
T Consensus        23 ~~~EIaF~GRSNVGKSSlIN~l~~~k~LArtS----ktPGrTq~iNff~~--~~-~~~lVDlPG   79 (200)
T COG0218          23 DLPEIAFAGRSNVGKSSLINALTNQKNLARTS----KTPGRTQLINFFEV--DD-ELRLVDLPG   79 (200)
T ss_pred             CCcEEEEEccCcccHHHHHHHHhCCcceeecC----CCCCccceeEEEEe--cC-cEEEEeCCC
Confidence            445699999999999999999655321 1111    11114444555433  22 278999998

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.17  E-value=6.1e-06  Score=53.81  Aligned_cols=57  Identities=19%  Similarity=0.306  Sum_probs=35.2

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCC
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGG   78 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G   78 (125)
                      ....+++++|.+|+|||||++.+.+.......    .....|.....  +.. +..+.+.||||
T Consensus        98 ~~~~~~~~~G~~~~GKstlin~l~~~~~~~~~----~~~~~t~~~~~--~~~-~~~~~liDtPG  154 (155)
T cd01849          98 KKSITVGVIGYPNVGKSSVINALLNKLKLKVG----NVPGTTTSQQE--VKL-DNKIKLLDTPG  154 (155)
T ss_pred             ccCcEEEEEccCCCCHHHHHHHHHcccccccc----CCCCcccceEE--EEe-cCCEEEEECCC
Confidence            45688999999999999999996543321110    00113333322  222 24588999998

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.

>TIGR00503 prfC peptide chain release factor 3

Probab=98.16  E-value=1.8e-05  Score=61.25  Aligned_cols=69  Identities=20%  Similarity=0.202  Sum_probs=42.5

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-Hh-hcccccc---C--------CCCCCccccccceee----EEEEeCCEEEEEEECCC
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AK-TKFTKNY---K--------GMNPSKITTTVGLNI----GQIDINTVRLNFWDLGG   78 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~-~~~~~~~---~--------~~~~~~~~~t~~~~~----~~~~~~~~~~~i~D~~G   78 (125)
                      +..+|+++|..++|||||+.+ +. .......   .        -....+.+...|+.+    ..+..++..+.+|||+|
T Consensus        10 ~~RniaiiGh~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E~~rgisi~~~~~~~~~~~~~inliDTPG   89 (527)
T TIGR00503        10 KRRTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQFPYRDCLVNLLDTPG   89 (527)
T ss_pred             cCCEEEEEcCCCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHHHhcCCcEEEEEEEEeeCCeEEEEEECCC
Confidence            455799999999999999999 43 2222110   0        001111122233333    24566789999999999


Q ss_pred             cccccc
Q psy9521          79 QLELQS   84 (125)
Q Consensus        79 ~~~~~~   84 (125)
                      ++.|..
T Consensus        90 ~~df~~   95 (527)
T TIGR00503        90 HEDFSE   95 (527)
T ss_pred             hhhHHH
Confidence            987654

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.

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=98.13  E-value=6.1e-06  Score=65.98  Aligned_cols=68  Identities=15%  Similarity=0.132  Sum_probs=40.9

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-Hhhc-ccc----------ccCCCCCCccccccceeeE----EEEeCCEEEEEEECCCc
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTK-FTK----------NYKGMNPSKITTTVGLNIG----QIDINTVRLNFWDLGGQ   79 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~-~~~----------~~~~~~~~~~~~t~~~~~~----~~~~~~~~~~i~D~~G~   79 (125)
                      ...+|+++|..++|||||+.+ +... ...          .+. ....+...|+.....    .++.+++.+.+|||+|+
T Consensus        18 ~irnI~ivGh~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~-~~e~~rg~Ti~~~~~~~~~~~~~~~~~i~liDTPG~   96 (720)
T TIGR00490        18 FIRNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFD-EQEQERGITINAANVSMVHEYEGNEYLINLIDTPGH   96 (720)
T ss_pred             cccEEEEEEeCCCCHHHHHHHHHHHcCCCchhcCCceeecCCC-HHHHhhcchhhcccceeEEeecCCceEEEEEeCCCc
Confidence            345799999999999999999 5420 000          000 000011234443322    23445689999999999


Q ss_pred             ccccc
Q psy9521          80 LELQS   84 (125)
Q Consensus        80 ~~~~~   84 (125)
                      .+|..
T Consensus        97 ~~f~~  101 (720)
T TIGR00490        97 VDFGG  101 (720)
T ss_pred             cccHH
Confidence            88753

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

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=98.13  E-value=9.5e-06  Score=59.94  Aligned_cols=23  Identities=30%  Similarity=0.447  Sum_probs=20.5

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ++|.++|.++||||||++++.+.
T Consensus         3 ~~vgIVG~PNvGKSTLfnaLt~~   25 (364)
T PRK09601          3 LKCGIVGLPNVGKSTLFNALTKA   25 (364)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCC
Confidence            68999999999999999997643

>PRK12289 GTPase RsgA; Reviewed

Probab=98.11  E-value=1.9e-05  Score=58.21  Aligned_cols=31  Identities=13%  Similarity=0.295  Sum_probs=22.8

Q ss_pred             HHHHhhhccCceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521           6 SGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus         6 ~~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ..+++.+..+   .++++|.+|||||||+|.+.+
T Consensus       164 ~eL~~~L~~k---i~v~iG~SgVGKSSLIN~L~~  194 (352)
T PRK12289        164 EALLEQLRNK---ITVVAGPSGVGKSSLINRLIP  194 (352)
T ss_pred             HHHhhhhccc---eEEEEeCCCCCHHHHHHHHcC
Confidence            3445555332   289999999999999999653

>KOG2655|consensus

Probab=98.09  E-value=4.4e-05  Score=56.18  Aligned_cols=92  Identities=18%  Similarity=0.300  Sum_probs=54.6

Q ss_pred             HHHhhhc-cCceEEEEEEeCCCCcHHHHHHH-HhhccccccC-CCCCCccccccceeeEEEEe--CC--EEEEEEECCCc
Q psy9521           7 GFYKYML-RKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYK-GMNPSKITTTVGLNIGQIDI--NT--VRLNFWDLGGQ   79 (125)
Q Consensus         7 ~~~~~~~-~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~-~~~~~~~~~t~~~~~~~~~~--~~--~~~~i~D~~G~   79 (125)
                      .+++..- +.-++.++++|++|.|||||++. +...+..+.. ..+......|+.+.......  ++  +++++.||+|-
T Consensus        10 q~~r~~~KkG~~ftlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee~g~~l~LtvidtPGf   89 (366)
T KOG2655|consen   10 QVHRKSVKKGFDFTLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVKLNLTVIDTPGF   89 (366)
T ss_pred             HHHHHHHhcCCceEEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecCCCeEEeeEEeccCCC
Confidence            3444443 35789999999999999999999 4444433211 11222222355555544333  34  77899999985


Q ss_pred             ccccccccccccCccCHHHHHHHHhh
Q psy9521          80 LELQSLWDKDIRDCMGVREVKPIFNK  105 (125)
Q Consensus        80 ~~~~~~~~~Di~~~~s~~~i~~~l~~  105 (125)
                      -.       -+.|..+|+-+..+++.
T Consensus        90 GD-------~vdns~~w~pi~~yi~~  108 (366)
T KOG2655|consen   90 GD-------AVDNSNCWRPIVNYIDS  108 (366)
T ss_pred             cc-------cccccccchhhhHHHHH
Confidence            42       33445566555554443

>cd01900 YchF YchF subfamily

Probab=98.08  E-value=7.6e-06  Score=58.37  Aligned_cols=21  Identities=33%  Similarity=0.551  Sum_probs=18.2

Q ss_pred             EEEEeCCCCcHHHHHHHHhhc
Q psy9521          20 VLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~   40 (125)
                      |.++|.++||||||++++.+.
T Consensus         1 igivG~PN~GKSTLfn~Lt~~   21 (274)
T cd01900           1 IGIVGLPNVGKSTLFNALTKA   21 (274)
T ss_pred             CeEeCCCCCcHHHHHHHHhCC
Confidence            468999999999999997653

YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated with the ribosome. Several members of the family, including YchF, possess the TGS domain related to the RNA-binding proteins. Experimental data and genomic analysis suggest that YchF may be part of a nucleoprotein complex and may function as a GTP-dependent translational factor.

>PTZ00258 GTP-binding protein; Provisional

Probab=98.08  E-value=1.3e-05  Score=59.83  Aligned_cols=26  Identities=27%  Similarity=0.405  Sum_probs=22.3

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ...++|.++|.+|||||||++.+.+.
T Consensus        19 ~~~~kvgIVG~PNvGKSTLfnaLt~~   44 (390)
T PTZ00258         19 GNNLKMGIVGLPNVGKSTTFNALCKQ   44 (390)
T ss_pred             CCCcEEEEECCCCCChHHHHHHHhcC
Confidence            35678999999999999999997643

>KOG3905|consensus

Probab=98.08  E-value=8.5e-06  Score=59.23  Aligned_cols=80  Identities=21%  Similarity=0.267  Sum_probs=56.8

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeC------CEEEEEEECCCcccccccccc--
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDIN------TVRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~------~~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      .-.|+|+|+.++|||||+.++++.-  .+.        +..|..|..+.+.      -.++.+|-+.|......+...  
T Consensus        52 gk~VlvlGdn~sGKtsLi~klqg~e--~~K--------kgsgLeY~yl~V~de~RDd~tr~~VWiLDGd~~h~~LLk~al  121 (473)
T KOG3905|consen   52 GKNVLVLGDNGSGKTSLISKLQGSE--TVK--------KGSGLEYLYLHVHDEDRDDLTRCNVWILDGDLYHKGLLKFAL  121 (473)
T ss_pred             CCeEEEEccCCCchhHHHHHhhccc--ccC--------CCCCcceEEEecccccchhhhhcceEEecCchhhhhHHhhcc
Confidence            3459999999999999999998642  333        5666666544442      278999998887655554444  


Q ss_pred             --------------cccCc-cCHHHHHHHHhhh
Q psy9521          89 --------------DIRDC-MGVREVKPIFNKN  106 (125)
Q Consensus        89 --------------Di~~~-~s~~~i~~~l~~~  106 (125)
                                    |++++ .-++.++.|....
T Consensus       122 ~ats~aetlviltasms~Pw~~lesLqkWa~Vl  154 (473)
T KOG3905|consen  122 PATSLAETLVILTASMSNPWTLLESLQKWASVL  154 (473)
T ss_pred             cccCccceEEEEEEecCCcHHHHHHHHHHHHHH
Confidence                          88888 5567777887755

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=98.08  E-value=2.3e-05  Score=55.06  Aligned_cols=69  Identities=13%  Similarity=0.099  Sum_probs=38.9

Q ss_pred             HHHHhhhccCceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCC----ccccccceeeEEEEeCCEEEEEEECCCccc
Q psy9521           6 SGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPS----KITTTVGLNIGQIDINTVRLNFWDLGGQLE   81 (125)
Q Consensus         6 ~~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~----~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~   81 (125)
                      ..++..+.+   -.++++|.+|||||||++++.+...... +..+.    -...|.......+  .+  -.++||||-..
T Consensus       112 ~eLf~~l~~---~~~~~~G~sgvGKStLiN~L~~~~~~~t-~~i~~~~~~G~hTT~~~~l~~l--~~--~~liDtPG~~~  183 (245)
T TIGR00157       112 KELIEALQN---RISVFAGQSGVGKSSLINALDPSVKQQV-NDISSKLGLGKHTTTHVELFHF--HG--GLIADTPGFNE  183 (245)
T ss_pred             HHHHhhhcC---CEEEEECCCCCCHHHHHHHHhhhhhccc-cceeccCCCCCCcCCceEEEEc--CC--cEEEeCCCccc
Confidence            345555433   2589999999999999999654322111 10000    0113444433333  22  26999999754


Q ss_pred             c
Q psy9521          82 L   82 (125)
Q Consensus        82 ~   82 (125)
                      +
T Consensus       184 ~  184 (245)
T TIGR00157       184 F  184 (245)
T ss_pred             c
Confidence            4

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

>PRK12288 GTPase RsgA; Reviewed

Probab=98.06  E-value=2.1e-05  Score=57.95  Aligned_cols=72  Identities=13%  Similarity=0.108  Sum_probs=38.8

Q ss_pred             HHHHhhhccCceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCcc----ccccceeeEEEEeCCEEEEEEECCCccc
Q psy9521           6 SGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKI----TTTVGLNIGQIDINTVRLNFWDLGGQLE   81 (125)
Q Consensus         6 ~~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~----~~t~~~~~~~~~~~~~~~~i~D~~G~~~   81 (125)
                      ..++..+..+   -++++|.+|||||||+|++.+...... +..+...    ..|....+..+.. +  ..+.||||-..
T Consensus       197 deL~~~L~~k---i~~~vG~sgVGKSTLiN~Ll~~~~~~t-~~is~~~~rGrHTT~~~~l~~l~~-~--~~liDTPGir~  269 (347)
T PRK12288        197 EELEAALTGR---ISIFVGQSGVGKSSLINALLPEAEILV-GDVSDNSGLGQHTTTAARLYHFPH-G--GDLIDSPGVRE  269 (347)
T ss_pred             HHHHHHHhhC---CEEEECCCCCCHHHHHHHhccccceee-ccccCcCCCCcCceeeEEEEEecC-C--CEEEECCCCCc
Confidence            4455555432   279999999999999999654322111 1001100    1233333322211 2  24899999876


Q ss_pred             ccc
Q psy9521          82 LQS   84 (125)
Q Consensus        82 ~~~   84 (125)
                      +.-
T Consensus       270 ~~l  272 (347)
T PRK12288        270 FGL  272 (347)
T ss_pred             ccC
Confidence            553

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=98.00  E-value=1.6e-05  Score=57.65  Aligned_cols=57  Identities=23%  Similarity=0.398  Sum_probs=40.9

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhcccc--ccCCCCCCccccccceeeEEEEeCCEEEEEEECCCc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKFTK--NYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ   79 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~~~--~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~   79 (125)
                      -...++++|.++||||||++.+++-.++  +|+       -.|+...-.-+..++.++++.|+||-
T Consensus        62 Gda~v~lVGfPsvGKStLL~~LTnt~seva~y~-------FTTl~~VPG~l~Y~ga~IQild~Pgi  120 (365)
T COG1163          62 GDATVALVGFPSVGKSTLLNKLTNTKSEVADYP-------FTTLEPVPGMLEYKGAQIQLLDLPGI  120 (365)
T ss_pred             CCeEEEEEcCCCccHHHHHHHHhCCCccccccC-------ceecccccceEeecCceEEEEcCccc
Confidence            4678999999999999999997764332  221       12333333356778999999999975

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=98.00  E-value=2.6e-05  Score=61.50  Aligned_cols=59  Identities=19%  Similarity=0.236  Sum_probs=37.9

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhc--cccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTK--FTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLE   81 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~--~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~   81 (125)
                      .++|+++|.+|+||||++|.|.++  +....     .. ..|..........++..+.++||+|-..
T Consensus       118 slrIvLVGKTGVGKSSLINSILGekvf~vss-----~~-~~TTr~~ei~~~idG~~L~VIDTPGL~d  178 (763)
T TIGR00993       118 SLNILVLGKSGVGKSATINSIFGEVKFSTDA-----FG-MGTTSVQEIEGLVQGVKIRVIDTPGLKS  178 (763)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhccccccccC-----CC-CCceEEEEEEEEECCceEEEEECCCCCc
Confidence            468999999999999999995443  22110     00 0222222122344678999999999754

The long precursor of the 86K protein originally described is proposed to have three domains. The N-terminal A-domain is acidic, repetitive, weakly conserved, readily removed by proteolysis during chloroplast isolation, and not required for protein translocation. The other domains are designated G (GTPase) and M (membrane anchor); this family includes most of the G domain and all of M.

>KOG3886|consensus

Probab=97.99  E-value=2.1e-06  Score=59.57  Aligned_cols=59  Identities=24%  Similarity=0.396  Sum_probs=39.8

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-Hhhc--cccccCCCCCCccccccceeeEEEEeCC-EEEEEEECCCcccc
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTK--FTKNYKGMNPSKITTTVGLNIGQIDINT-VRLNFWDLGGQLEL   82 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~--~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~i~D~~G~~~~   82 (125)
                      .-||+++|.+|+|||++--. ..+.  +....       ..+|+.+....+..-| ..+++||.+||+.+
T Consensus         4 ~kKvlLMGrsGsGKsSmrsiiF~ny~a~D~~r-------lg~tidveHsh~RflGnl~LnlwDcGgqe~f   66 (295)
T KOG3886|consen    4 KKKVLLMGRSGSGKSSMRSIIFANYIARDTRR-------LGATIDVEHSHVRFLGNLVLNLWDCGGQEEF   66 (295)
T ss_pred             cceEEEeccCCCCccccchhhhhhhhhhhhhc-------cCCcceeeehhhhhhhhheeehhccCCcHHH
Confidence            34799999999999998665 3221  11111       1266666655554444 89999999999843

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

Probab=97.92  E-value=4.9e-05  Score=58.07  Aligned_cols=101  Identities=20%  Similarity=0.217  Sum_probs=66.1

Q ss_pred             EEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeC---CEEEEEEECCCcccccccccc--------
Q psy9521          20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDIN---TVRLNFWDLGGQLELQSLWDK--------   88 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~---~~~~~i~D~~G~~~~~~~~~~--------   88 (125)
                      |+++|.-.-|||||+-.+.+......  .+...+ .-+|-.  .+..+   ...+.+.|||||+.|..++..        
T Consensus         8 VtimGHVDHGKTtLLD~IR~t~Va~~--EaGGIT-QhIGA~--~v~~~~~~~~~itFiDTPGHeAFt~mRaRGa~vtDIa   82 (509)
T COG0532           8 VTIMGHVDHGKTTLLDKIRKTNVAAG--EAGGIT-QHIGAY--QVPLDVIKIPGITFIDTPGHEAFTAMRARGASVTDIA   82 (509)
T ss_pred             EEEeCcccCCccchhhhHhcCccccc--cCCcee-eEeeeE--EEEeccCCCceEEEEcCCcHHHHHHHHhcCCccccEE
Confidence            88999999999999999875443321  122222 223322  33332   368999999999999988877        


Q ss_pred             -----------------------------------cccCccCHHHHHHHHhhhcccccCCCCeEEEEeeccC
Q psy9521          89 -----------------------------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT  125 (125)
Q Consensus        89 -----------------------------------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~sA~~  125 (125)
                                                         |.++...+....+..+.-...+..++...++++||++
T Consensus        83 ILVVa~dDGv~pQTiEAI~hak~a~vP~iVAiNKiDk~~~np~~v~~el~~~gl~~E~~gg~v~~VpvSA~t  154 (509)
T COG0532          83 ILVVAADDGVMPQTIEAINHAKAAGVPIVVAINKIDKPEANPDKVKQELQEYGLVPEEWGGDVIFVPVSAKT  154 (509)
T ss_pred             EEEEEccCCcchhHHHHHHHHHHCCCCEEEEEecccCCCCCHHHHHHHHHHcCCCHhhcCCceEEEEeeccC
Confidence                                               7775554443333333221344566889999999986

>KOG1547|consensus

Probab=97.88  E-value=0.00011  Score=51.45  Aligned_cols=66  Identities=18%  Similarity=0.295  Sum_probs=43.2

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-Hhhccccc-cCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTKN-YKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQ   79 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~-~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~   79 (125)
                      ..-+++|+|+|.+|.|||||++. ........ .......++..|+.+...  .+.-++  .++++.||+|=
T Consensus        43 ~GF~FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTPGf  114 (336)
T KOG1547|consen   43 TGFDFNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTPGF  114 (336)
T ss_pred             ccCceEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCCCc
Confidence            35789999999999999999998 55443332 112333344455555443  334455  56888999984

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

Probab=97.88  E-value=5.9e-05  Score=56.16  Aligned_cols=69  Identities=16%  Similarity=0.308  Sum_probs=43.1

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-Hh--hcccc----ccC------CCC-------------CCccccccceeeEEEEeC
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AK--TKFTK----NYK------GMN-------------PSKITTTVGLNIGQIDIN   67 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~--~~~~~----~~~------~~~-------------~~~~~~t~~~~~~~~~~~   67 (125)
                      .++.++++++|+..+|||||+-| +.  +...+    ++.      +..             ..+..-|+...+..++.+
T Consensus         4 ~Kph~nl~~iGHVD~GKSTl~GrLly~~G~id~~tmeK~~~ea~~~gK~sf~fawvlD~tkeERerGvTi~~~~~~fet~   83 (428)
T COG5256           4 EKPHLNLVFIGHVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEERERGVTIDVAHSKFETD   83 (428)
T ss_pred             CCCceEEEEEcCCCCCchhhhhhhHHHhCCCCHHHHHHHHHHHHhcCCCceEEEEEecCChhHHhcceEEEEEEEEeecC
Confidence            46889999999999999999999 54  22211    010      000             000112333333355666


Q ss_pred             CEEEEEEECCCcccc
Q psy9521          68 TVRLNFWDLGGQLEL   82 (125)
Q Consensus        68 ~~~~~i~D~~G~~~~   82 (125)
                      .+.+++.|++|+..|
T Consensus        84 k~~~tIiDaPGHrdF   98 (428)
T COG5256          84 KYNFTIIDAPGHRDF   98 (428)
T ss_pred             CceEEEeeCCchHHH
Confidence            789999999998665

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=97.87  E-value=3.7e-05  Score=58.56  Aligned_cols=30  Identities=17%  Similarity=0.243  Sum_probs=25.9

Q ss_pred             hhhccCceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          10 KYMLRKDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        10 ~~~~~~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +...++..+.|.++|.-..|||||+..+.+
T Consensus        27 ~~~~~~~~~~ig~~GHVDhGKTtLv~aLtg   56 (460)
T PTZ00327         27 EVISRQATINIGTIGHVAHGKSTVVKALSG   56 (460)
T ss_pred             HHccCCCcEEEEEEccCCCCHHHHHHHHhC
Confidence            334667899999999999999999999764

>cd01854 YjeQ_engC YjeQ/EngC

Probab=97.86  E-value=6.9e-05  Score=53.81  Aligned_cols=23  Identities=17%  Similarity=0.342  Sum_probs=19.8

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      -.++++|.+|||||||++.+.+.
T Consensus       162 k~~~~~G~sg~GKSTlin~l~~~  184 (287)
T cd01854         162 KTSVLVGQSGVGKSTLINALLPD  184 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHhch
Confidence            46999999999999999996543

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.

>PRK12739 elongation factor G; Reviewed

Probab=97.84  E-value=6.9e-05  Score=59.79  Aligned_cols=69  Identities=19%  Similarity=0.090  Sum_probs=42.0

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-Hhh--cc--ccccCC------CCC--CccccccceeeEEEEeCCEEEEEEECCCcccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKT--KF--TKNYKG------MNP--SKITTTVGLNIGQIDINTVRLNFWDLGGQLEL   82 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~--~~--~~~~~~------~~~--~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~   82 (125)
                      +-.+|+++|..++|||||+++ +..  .-  ......      ...  ....-|+......+..++.++.++||+|+..+
T Consensus         7 ~irni~iiGh~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~i~liDTPG~~~f   86 (691)
T PRK12739          7 KTRNIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKGHRINIIDTPGHVDF   86 (691)
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEEECCEEEEEEcCCCHHHH
Confidence            345699999999999999999 431  10  000000      000  01113333334456678899999999998765


Q ss_pred             cc
Q psy9521          83 QS   84 (125)
Q Consensus        83 ~~   84 (125)
                      ..
T Consensus        87 ~~   88 (691)
T PRK12739         87 TI   88 (691)
T ss_pred             HH
Confidence            33

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=97.82  E-value=4.1e-05  Score=56.66  Aligned_cols=62  Identities=18%  Similarity=0.248  Sum_probs=34.6

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhccccccC-CCCCCccccccceeeEEEEeCCEEEEEEECCCccc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKFTKNYK-GMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLE   81 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~-~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~   81 (125)
                      ..+++++|.+|||||||++++.+....... .........|.+..  .+..+ -.+.++||||-..
T Consensus       154 ~~~v~~vG~~nvGKStliN~l~~~~~~~~~~~~~s~~pgtT~~~~--~~~~~-~~~~l~DtPG~~~  216 (360)
T TIGR03597       154 KKDVYVVGVTNVGKSSLINKLLKQNNGDKDVITTSPFPGTTLDLI--EIPLD-DGHSLYDTPGIIN  216 (360)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHhhccCCcceeeecCCCCeEeeEE--EEEeC-CCCEEEECCCCCC
Confidence            358999999999999999995432211000 00111111233322  33332 2356999999753

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.

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=97.82  E-value=7.7e-05  Score=49.57  Aligned_cols=53  Identities=25%  Similarity=0.372  Sum_probs=32.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCC--EEEEEEEC-CCc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINT--VRLNFWDL-GGQ   79 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~i~D~-~G~   79 (125)
                      ||++.|++|+||||+++++-.....+..        +.-|+....+.-++  +-+.+.|. .|.
T Consensus         1 ~i~iTG~pG~GKTTll~k~i~~l~~~~~--------~v~Gf~t~evr~~g~r~GF~iv~l~~g~   56 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKVIEELKKKGL--------PVGGFYTEEVRENGRRIGFDIVDLNSGE   56 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHHHHHHTCG--------GEEEEEEEEEETTSSEEEEEEEET-TS-
T ss_pred             CEEEECcCCCCHHHHHHHHHHHhhccCC--------ccceEEeecccCCCceEEEEEEECcCCC
Confidence            6899999999999999994444433222        44455444444333  44667777 444

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.80  E-value=0.00011  Score=48.43  Aligned_cols=55  Identities=20%  Similarity=0.235  Sum_probs=37.0

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCC--EEEEEEECC
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINT--VRLNFWDLG   77 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~i~D~~   77 (125)
                      +..+||.+.|.+||||||++.++.+....+..        .--|+-..++...+  +-|.+.|++
T Consensus         3 ~~~mki~ITG~PGvGKtTl~~ki~e~L~~~g~--------kvgGf~t~EVR~gGkR~GF~Ivdl~   59 (179)
T COG1618           3 KMAMKIFITGRPGVGKTTLVLKIAEKLREKGY--------KVGGFITPEVREGGKRIGFKIVDLA   59 (179)
T ss_pred             CcceEEEEeCCCCccHHHHHHHHHHHHHhcCc--------eeeeEEeeeeecCCeEeeeEEEEcc
Confidence            35689999999999999999997655544421        22233333444444  557788877

>PRK13796 GTPase YqeH; Provisional

Probab=97.79  E-value=7.5e-05  Score=55.38  Aligned_cols=22  Identities=27%  Similarity=0.422  Sum_probs=19.5

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHh
Q psy9521          17 EFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      ..++.++|.+|||||||+|++.
T Consensus       160 ~~~v~vvG~~NvGKSTLiN~L~  181 (365)
T PRK13796        160 GRDVYVVGVTNVGKSTLINRII  181 (365)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHH
Confidence            4579999999999999999954

>PRK12740 elongation factor G; Reviewed

Probab=97.74  E-value=0.00018  Score=57.18  Aligned_cols=62  Identities=16%  Similarity=0.221  Sum_probs=39.0

Q ss_pred             EeCCCCcHHHHHHHH-hh-ccc-c--ccCC--CC------CCccccccceeeEEEEeCCEEEEEEECCCcccccc
Q psy9521          23 LGLDNAGKTTYLESA-KT-KFT-K--NYKG--MN------PSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQS   84 (125)
Q Consensus        23 ~G~~~~GKTsl~~~i-~~-~~~-~--~~~~--~~------~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~   84 (125)
                      +|..++|||||+.++ .. ... .  +..+  ..      ......|++.....+..+++.+.+||++|+..+..
T Consensus         1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~~~~~i~liDtPG~~~~~~   75 (668)
T PRK12740          1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEWKGHKINLIDTPGHVDFTG   75 (668)
T ss_pred             CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEECCEEEEEEECCCcHHHHH
Confidence            589999999999994 32 110 0  0000  00      01122455555566777889999999999976543

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=97.73  E-value=0.00011  Score=50.90  Aligned_cols=60  Identities=20%  Similarity=0.202  Sum_probs=38.7

Q ss_pred             eEEEEEEeCCCCcHHHHHHHH-hh--ccccccCCCCCCccccccceeeEEEEe---CCEEEEEEECCCccc
Q psy9521          17 EFCVLILGLDNAGKTTYLESA-KT--KFTKNYKGMNPSKITTTVGLNIGQIDI---NTVRLNFWDLGGQLE   81 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i-~~--~~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~~i~D~~G~~~   81 (125)
                      -.-|.++|+.++|||+|+|++ ..  .|.-..     .....|.|+-......   .+..+.+.||+|-..
T Consensus         7 v~vvsv~G~~~sGKS~llN~l~~~~~~f~~~~-----~~~~~T~gi~~~~~~~~~~~~~~v~~lDteG~~~   72 (224)
T cd01851           7 VAVVSVFGPQSSGKSFLLNHLFGTLSGFDVMD-----TSQQTTKGIWMWSVPFKLGKEHAVLLLDTEGTDG   72 (224)
T ss_pred             EEEEEEECCCCCCHHHHHHHHhCCCCCeEecC-----CCCCCccceEEEeccccCCCcceEEEEecCCcCc
Confidence            344889999999999999995 44  443211     1112455655433222   357899999999753

Guanylate-binding proteins (GBPs) define a group of proteins that are synthesized after activation of the cell by interferons. The biochemical properties of GBPs are clearly different from those of Ras-like and heterotrimeric GTP-binding proteins. They bind guanine nucleotides with low affinity (micromolar range), are stable in their absence and have a high turnover GTPase. In addition to binding GDP/GTP, they have the unique ability to bind GMP with equal affinity and hydrolyze GTP not only to GDP, but also to GMP. Furthermore, two unique regions around the base and the phosphate-binding areas, the guanine and the phosphate caps, respectively, give the nucleotide-binding site a unique appearance not found in the canonical GTP-binding proteins. The phosphate cap, which constitutes the region analogous to switch I, completely shields the phosphate-binding site from solvent such that a potential GTPase-activating protein

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=97.70  E-value=4e-05  Score=47.60  Aligned_cols=22  Identities=23%  Similarity=0.424  Sum_probs=19.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .|++.|.+||||||+.+.+.+.
T Consensus         1 vI~I~G~~gsGKST~a~~La~~   22 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAER   22 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999997654

...

>KOG1145|consensus

Probab=97.67  E-value=0.00018  Score=55.48  Aligned_cols=65  Identities=18%  Similarity=0.252  Sum_probs=44.4

Q ss_pred             EEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK   88 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   88 (125)
                      |.++|.-.=|||||+-.+.+......  .....+ .-+|-..-++. +|-++++.||||+..|..|+..
T Consensus       156 VTiMGHVDHGKTTLLD~lRks~VAA~--E~GGIT-QhIGAF~V~~p-~G~~iTFLDTPGHaAF~aMRaR  220 (683)
T KOG1145|consen  156 VTIMGHVDHGKTTLLDALRKSSVAAG--EAGGIT-QHIGAFTVTLP-SGKSITFLDTPGHAAFSAMRAR  220 (683)
T ss_pred             EEEeecccCChhhHHHHHhhCceehh--hcCCcc-ceeceEEEecC-CCCEEEEecCCcHHHHHHHHhc
Confidence            78999999999999999875433221  111111 22333222333 5789999999999999988776

>PRK00098 GTPase RsgA; Reviewed

Probab=97.67  E-value=0.00013  Score=52.61  Aligned_cols=22  Identities=23%  Similarity=0.428  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .++++|.+|||||||++.+.+.
T Consensus       166 ~~~~~G~sgvGKStlin~l~~~  187 (298)
T PRK00098        166 VTVLAGQSGVGKSTLLNALAPD  187 (298)
T ss_pred             eEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999996543

>PRK00007 elongation factor G; Reviewed

Probab=97.63  E-value=0.0002  Score=57.20  Aligned_cols=66  Identities=20%  Similarity=0.114  Sum_probs=39.7

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-Hh--hcc--ccccCC----CC--C--CccccccceeeEEEEeCCEEEEEEECCCcccc
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AK--TKF--TKNYKG----MN--P--SKITTTVGLNIGQIDINTVRLNFWDLGGQLEL   82 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~--~~~--~~~~~~----~~--~--~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~   82 (125)
                      -.+|+++|..++|||||+++ +.  +.-  ......    ..  .  .....|+......+..++..+.+.||+|+..|
T Consensus        10 Irni~iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~~~~~~~liDTPG~~~f   88 (693)
T PRK00007         10 YRNIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKDHRINIIDTPGHVDF   88 (693)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEECCeEEEEEeCCCcHHH
Confidence            44799999999999999999 43  211  000000    00  0  01112332223356667899999999998765

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

Probab=97.62  E-value=9.6e-05  Score=46.76  Aligned_cols=24  Identities=29%  Similarity=0.288  Sum_probs=20.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      |++++|..|+|||+|++.+.+...
T Consensus         3 ri~~vG~~gcGKTtL~q~L~G~~~   26 (148)
T COG4917           3 RIAFVGQVGCGKTTLFQSLYGNDT   26 (148)
T ss_pred             eeEEecccccCchhHHHHhhcchh
Confidence            699999999999999999876543

>PRK08118 topology modulation protein; Reviewed

Probab=97.59  E-value=6.3e-05  Score=49.88  Aligned_cols=23  Identities=22%  Similarity=0.447  Sum_probs=20.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      ||+|+|++|||||||...+.+..
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l   25 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKL   25 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            69999999999999999976543

>cd01882 BMS1 Bms1

Probab=97.59  E-value=0.00026  Score=49.09  Aligned_cols=26  Identities=27%  Similarity=0.391  Sum_probs=21.5

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .....|+++|.+|+|||+|++.+.+.
T Consensus        37 ~~~~~i~ivG~~~~GKstl~~~l~~~   62 (225)
T cd01882          37 PPPLVVAVVGPPGVGKTTLIKSLVKN   62 (225)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            45667999999999999999985543

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.

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

Probab=97.58  E-value=0.00025  Score=52.17  Aligned_cols=110  Identities=16%  Similarity=0.195  Sum_probs=73.4

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-Hhhccc--cc------c----CCCC---------------CCccccccceeeEEEE
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFT--KN------Y----KGMN---------------PSKITTTVGLNIGQID   65 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~--~~------~----~~~~---------------~~~~~~t~~~~~~~~~   65 (125)
                      .+..++++.+|.-.=|||||+-| +.+...  +.      .    .+..               ..+-.-|+.+-|..+.
T Consensus         3 ~k~lLRfiTcGSVDDGKSTLIGRLL~Dtk~i~eDQla~l~~dS~~~~t~g~~~D~ALLvDGL~AEREQGITIDVAYRyFs   82 (431)
T COG2895           3 HKSLLRFITCGSVDDGKSTLIGRLLYDTKAIYEDQLASLERDSKRKGTQGEKIDLALLVDGLEAEREQGITIDVAYRYFS   82 (431)
T ss_pred             cccceeEEEeccccCcchhhhhhhhhcchhhhHHHHHHHhcccccccCCCCccchhhhhhhhHHHHhcCceEEEEeeecc
Confidence            35678999999999999999999 553111  00      0    0000               1111246666666666


Q ss_pred             eCCEEEEEEECCCccccc-ccccc-------------------------------------------ccc--CccCHHHH
Q psy9521          66 INTVRLNFWDLGGQLELQ-SLWDK-------------------------------------------DIR--DCMGVREV   99 (125)
Q Consensus        66 ~~~~~~~i~D~~G~~~~~-~~~~~-------------------------------------------Di~--~~~s~~~i   99 (125)
                      .++.+|-+-||||+|.|. .|..-                                           |+.  +..-|++|
T Consensus        83 T~KRkFIiADTPGHeQYTRNMaTGASTadlAIlLVDAR~Gvl~QTrRHs~I~sLLGIrhvvvAVNKmDLvdy~e~~F~~I  162 (431)
T COG2895          83 TEKRKFIIADTPGHEQYTRNMATGASTADLAILLVDARKGVLEQTRRHSFIASLLGIRHVVVAVNKMDLVDYSEEVFEAI  162 (431)
T ss_pred             cccceEEEecCCcHHHHhhhhhcccccccEEEEEEecchhhHHHhHHHHHHHHHhCCcEEEEEEeeecccccCHHHHHHH
Confidence            678999999999999873 33322                                           664  46789999


Q ss_pred             HHHHhhhcccccCCCCeEEEEeecc
Q psy9521         100 KPIFNKNSAHLIGRRDCMVMPVSAL  124 (125)
Q Consensus       100 ~~~l~~~~~~~~~~~~~~i~~~sA~  124 (125)
                      +.-+..+ ...+...+...+++||+
T Consensus       163 ~~dy~~f-a~~L~~~~~~~IPiSAl  186 (431)
T COG2895         163 VADYLAF-AAQLGLKDVRFIPISAL  186 (431)
T ss_pred             HHHHHHH-HHHcCCCcceEEechhc
Confidence            8544433 36677788899999996

>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=97.57  E-value=6.9e-05  Score=49.45  Aligned_cols=22  Identities=18%  Similarity=0.436  Sum_probs=19.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .++++|.+|||||||+|.+.+.
T Consensus        37 ~~vl~G~SGvGKSSLiN~L~~~   58 (161)
T PF03193_consen   37 TSVLLGQSGVGKSSLINALLPE   58 (161)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            5899999999999999996543

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.

>KOG1707|consensus

Probab=97.52  E-value=0.00051  Score=53.27  Aligned_cols=98  Identities=17%  Similarity=0.243  Sum_probs=57.1

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceee--EEEEeCC--EEEEEEECCCcccccccccc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNI--GQIDINT--VRLNFWDLGGQLELQSLWDK   88 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~--~~~~~~~--~~~~i~D~~G~~~~~~~~~~   88 (125)
                      .++-+.|.|+|+.++|||.+++. +...+..++.        .+....+  ..+...+  ..+.+-|.+-. ....+...
T Consensus       422 ~R~Vf~C~V~G~k~~GKs~lL~sflgr~~~~~~~--------~~~~~~~avn~v~~~g~~k~LiL~ei~~~-~~~~l~~k  492 (625)
T KOG1707|consen  422 DRKVFQCFVVGPKNCGKSALLQSFLGRSMSDNNT--------GTTKPRYAVNSVEVKGQQKYLILREIGED-DQDFLTSK  492 (625)
T ss_pred             cceeeeEEEEcCCcCchHHHHHHHhccccccccc--------cCCCCceeeeeeeeccccceEEEeecCcc-ccccccCc
Confidence            35667899999999999999999 5444444332        2222222  1222222  23334443322 11111111


Q ss_pred             -----------cccCccCHHHHHHHHhhhcccccCCCCeEEEEeecc
Q psy9521          89 -----------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSAL  124 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~sA~  124 (125)
                                 |.+++.||+-+...++..   ... ...||+.+.|+
T Consensus       493 e~~cDv~~~~YDsS~p~sf~~~a~v~~~~---~~~-~~~Pc~~va~K  535 (625)
T KOG1707|consen  493 EAACDVACLVYDSSNPRSFEYLAEVYNKY---FDL-YKIPCLMVATK  535 (625)
T ss_pred             cceeeeEEEecccCCchHHHHHHHHHHHh---hhc-cCCceEEEeec
Confidence                       999999999998877765   333 66677777665

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=97.51  E-value=9.2e-05  Score=49.68  Aligned_cols=23  Identities=39%  Similarity=0.535  Sum_probs=20.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      ||+++|++|+||||+..++.+.+
T Consensus         2 riiilG~pGaGK~T~A~~La~~~   24 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKL   24 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            79999999999999999976654

>PRK07261 topology modulation protein; Provisional

Probab=97.48  E-value=0.00011  Score=48.90  Aligned_cols=22  Identities=23%  Similarity=0.412  Sum_probs=19.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ||+++|.+|+|||||...+...
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~   23 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQH   23 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            6999999999999999986543

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=97.48  E-value=9.7e-05  Score=50.93  Aligned_cols=21  Identities=33%  Similarity=0.558  Sum_probs=19.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .++++|++|+|||||++.++.
T Consensus        30 vv~iiGpSGSGKSTlLRclN~   50 (240)
T COG1126          30 VVVIIGPSGSGKSTLLRCLNG   50 (240)
T ss_pred             EEEEECCCCCCHHHHHHHHHC
Confidence            489999999999999999874

>COG1162 Predicted GTPases [General function prediction only]

Probab=97.46  E-value=0.0005  Score=49.58  Aligned_cols=21  Identities=24%  Similarity=0.460  Sum_probs=18.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      -.+++|.+|||||||+|++..
T Consensus       166 ~svl~GqSGVGKSSLiN~L~p  186 (301)
T COG1162         166 ITVLLGQSGVGKSTLINALLP  186 (301)
T ss_pred             eEEEECCCCCcHHHHHHhhCc
Confidence            588999999999999999653

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=97.46  E-value=0.0043  Score=47.00  Aligned_cols=26  Identities=15%  Similarity=0.358  Sum_probs=22.2

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .-++.|.++|+.++|||||++++.+.
T Consensus        15 ~G~IyIGvvGpvrtGKSTfIn~fm~q   40 (492)
T TIGR02836        15 QGDIYIGVVGPVRTGKSTFIKKFMEL   40 (492)
T ss_pred             CCcEEEEEEcCCCCChHHHHHHHHhh
Confidence            34788999999999999999995443

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.

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=97.45  E-value=0.00012  Score=46.58  Aligned_cols=19  Identities=21%  Similarity=0.427  Sum_probs=17.4

Q ss_pred             EEEEeCCCCcHHHHHHHHh
Q psy9521          20 VLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~   38 (125)
                      |+++|++||||||++.++.
T Consensus         2 ii~~G~pgsGKSt~a~~l~   20 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLA   20 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            7899999999999999954

...

>PRK06547 hypothetical protein; Provisional

Probab=97.43  E-value=0.00029  Score=46.98  Aligned_cols=37  Identities=27%  Similarity=0.253  Sum_probs=30.2

Q ss_pred             hHHHHHhhhccCceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521           4 LVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus         4 ~~~~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +++.+-..+.......|++.|.+|+||||+...+...
T Consensus         2 ~~~~~~~~~~~~~~~~i~i~G~~GsGKTt~a~~l~~~   38 (172)
T PRK06547          2 LVALIAARLCGGGMITVLIDGRSGSGKTTLAGALAAR   38 (172)
T ss_pred             hHHHHHHHhhcCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            3566677777778888999999999999999997543

>TIGR00092 GTP-binding protein YchF

Probab=97.36  E-value=0.00066  Score=50.40  Aligned_cols=24  Identities=29%  Similarity=0.445  Sum_probs=21.0

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      +|+-++|.+++|||||++.+++..
T Consensus         3 lk~GivGlPn~GKSTlfnaLT~~~   26 (368)
T TIGR00092         3 LSGGIVGLPNVGKSTLFAATTNLL   26 (368)
T ss_pred             ceEEEECCCCCChHHHHHHHhCCC
Confidence            689999999999999999976543

This predicted GTP-binding protein is found in a single copy in every complete bacterial genome, and is found in Eukaryotes. A more distantly related protein, separated from this model, is found in the archaea. It is known to bind GTP and double-stranded nucleic acid. It is suggested to belong to a nucleoprotein complex and act as a translation factor.

>cd03116 MobB Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes

Probab=97.35  E-value=0.00021  Score=47.05  Aligned_cols=24  Identities=29%  Similarity=0.452  Sum_probs=19.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      -+.++|.+|+|||||+.++...+.
T Consensus         3 vi~i~G~~gsGKTTli~~L~~~l~   26 (159)
T cd03116           3 VIGFVGYSGSGKTTLLEKLIPALS   26 (159)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            488999999999999999654443

In E. coli, the synthesis of Moco involves genes from several loci: moa, mob, mod, moe and mog. The mob locus contains mobA and mobB genes. MobB catalyzes the attachment of the guanine dinucleotide to molybdopterin.

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.34  E-value=0.00017  Score=50.47  Aligned_cols=20  Identities=40%  Similarity=0.496  Sum_probs=18.4

Q ss_pred             EEEEeCCCCcHHHHHHHHhh
Q psy9521          20 VLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~   39 (125)
                      +.++|++|||||||++-+.+
T Consensus        32 vsilGpSGcGKSTLLriiAG   51 (248)
T COG1116          32 VAILGPSGCGKSTLLRLIAG   51 (248)
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            78999999999999999765

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=97.34  E-value=0.00016  Score=47.43  Aligned_cols=21  Identities=33%  Similarity=0.472  Sum_probs=16.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ||++.|.+++|||||++.+..
T Consensus         1 rI~i~G~~stGKTTL~~~L~~   21 (163)
T PF13521_consen    1 RIVITGGPSTGKTTLIEALAA   21 (163)
T ss_dssp             -EEEE--TTSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999999754

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=97.28  E-value=0.00029  Score=44.58  Aligned_cols=24  Identities=29%  Similarity=0.450  Sum_probs=20.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .++++|+.|+|||||++.+.+...
T Consensus        13 ~~~i~G~nGsGKStLl~~l~g~~~   36 (137)
T PF00005_consen   13 IVAIVGPNGSGKSTLLKALAGLLP   36 (137)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSSH
T ss_pred             EEEEEccCCCccccceeeeccccc
Confidence            589999999999999999876544

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=97.27  E-value=0.00027  Score=45.29  Aligned_cols=23  Identities=26%  Similarity=0.501  Sum_probs=19.8

Q ss_pred             EEEEeCCCCcHHHHHHHHhhccc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      ++++|++|+|||||++.+...++
T Consensus         2 i~i~GpsGsGKstl~~~L~~~~~   24 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEEFD   24 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhcCC
Confidence            68999999999999999766554

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>PRK06217 hypothetical protein; Validated

Probab=97.26  E-value=0.00029  Score=47.20  Aligned_cols=23  Identities=22%  Similarity=0.293  Sum_probs=20.1

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .+|+++|.+|+||||+..++...
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~~~   24 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALAER   24 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            36999999999999999997654

>KOG1486|consensus

Probab=97.25  E-value=0.00077  Score=47.74  Aligned_cols=59  Identities=24%  Similarity=0.363  Sum_probs=40.8

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccc-cccceeeEEEEeCCEEEEEEECCCc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKIT-TTVGLNIGQIDINTVRLNFWDLGGQ   79 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~-~t~~~~~~~~~~~~~~~~i~D~~G~   79 (125)
                      .-+-+++++|-+.||||||+..+....++.      ..++ .|+.+.-..+..++..+++.|+||-
T Consensus        60 sGdaRValIGfPSVGKStlLs~iT~T~Sea------A~yeFTTLtcIpGvi~y~ga~IQllDLPGI  119 (364)
T KOG1486|consen   60 SGDARVALIGFPSVGKSTLLSKITSTHSEA------ASYEFTTLTCIPGVIHYNGANIQLLDLPGI  119 (364)
T ss_pred             cCCeEEEEecCCCccHHHHHHHhhcchhhh------hceeeeEEEeecceEEecCceEEEecCccc
Confidence            356789999999999999999965432211      0111 3333333456778899999999986

>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

Probab=97.24  E-value=0.00087  Score=49.55  Aligned_cols=60  Identities=27%  Similarity=0.362  Sum_probs=37.7

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhh-cc-ccccCCCCCCccccccceeeEE---------EEe--C---CEEEEEEECCCc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKT-KF-TKNYKGMNPSKITTTVGLNIGQ---------IDI--N---TVRLNFWDLGGQ   79 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~-~~-~~~~~~~~~~~~~~t~~~~~~~---------~~~--~---~~~~~i~D~~G~   79 (125)
                      .+++-++|.++||||||++.++. .- ..+|+   --.+.|.+|..+-.         +..  +   ...+++.|++|-
T Consensus         2 ~l~~GIVGlPNVGKSTlFnAlT~~~a~~aNYP---F~TIePN~Giv~v~d~rl~~L~~~~~c~~k~~~~~ve~vDIAGL   77 (372)
T COG0012           2 SLKIGIVGLPNVGKSTLFNALTKAGAEIANYP---FCTIEPNVGVVYVPDCRLDELAEIVKCPPKIRPAPVEFVDIAGL   77 (372)
T ss_pred             CceeEEecCCCCcHHHHHHHHHcCCccccCCC---cccccCCeeEEecCchHHHHHHHhcCCCCcEEeeeeEEEEeccc
Confidence            46799999999999999999543 21 23332   33334555544321         111  1   267899999885

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=97.23  E-value=0.00039  Score=46.44  Aligned_cols=24  Identities=25%  Similarity=0.250  Sum_probs=19.7

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .-+.++|.+|+|||||+.++...+
T Consensus         7 ~ii~ivG~sgsGKTTLi~~li~~l   30 (173)
T PRK10751          7 PLLAIAAWSGTGKTTLLKKLIPAL   30 (173)
T ss_pred             eEEEEECCCCChHHHHHHHHHHHH
Confidence            358899999999999999955443

>KOG3859|consensus

Probab=97.22  E-value=0.0025  Score=45.77  Aligned_cols=68  Identities=22%  Similarity=0.324  Sum_probs=44.2

Q ss_pred             HHhhhccCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEe--CC--EEEEEEECCCc
Q psy9521           8 FYKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDI--NT--VRLNFWDLGGQ   79 (125)
Q Consensus         8 ~~~~~~~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~--~~--~~~~i~D~~G~   79 (125)
                      +-+.....-.++|+-+|+.|.|||||+.. ++..|..+    +..-..|++.....+.+.  .+  +++++.||.|=
T Consensus        33 V~ksv~~GF~FNilCvGETg~GKsTLmdtLFNt~f~~~----p~~H~~~~V~L~~~TyelqEsnvrlKLtiv~tvGf  105 (406)
T KOG3859|consen   33 VNKSVSQGFCFNILCVGETGLGKSTLMDTLFNTKFESE----PSTHTLPNVKLQANTYELQESNVRLKLTIVDTVGF  105 (406)
T ss_pred             HHHHHhcCceEEEEEeccCCccHHHHHHHHhccccCCC----CCccCCCCceeecchhhhhhcCeeEEEEEEeeccc
Confidence            33444555678899999999999999999 55555432    222233555544433333  23  67889999874

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=97.20  E-value=0.00036  Score=43.34  Aligned_cols=21  Identities=29%  Similarity=0.415  Sum_probs=18.7

Q ss_pred             EEEEeCCCCcHHHHHHHHhhc
Q psy9521          20 VLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~   40 (125)
                      |++.|.+||||||+++.+...
T Consensus         1 I~i~G~~GsGKtTia~~L~~~   21 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAER   21 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            689999999999999997655

...

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=97.20  E-value=0.0004  Score=39.25  Aligned_cols=22  Identities=23%  Similarity=0.356  Sum_probs=19.6

Q ss_pred             EEEEeCCCCcHHHHHHHHhhcc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      |++.|.+|+|||++.+.+...+
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6789999999999999987665

Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.

>KOG1489|consensus

Probab=97.20  E-value=0.0018  Score=47.12  Aligned_cols=55  Identities=22%  Similarity=0.413  Sum_probs=33.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccc--cccCCCCCCccccccceeeEEEEeCC-EEEEEEECCCcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFT--KNYKGMNPSKITTTVGLNIGQIDINT-VRLNFWDLGGQL   80 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~--~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~i~D~~G~~   80 (125)
                      .+=++|.+++|||||++.+....+  ..|.   .-...|.+|    ++..++ .++.+-|.||--
T Consensus       198 dvGLVG~PNAGKSTLL~als~AKpkVa~Ya---FTTL~P~iG----~v~yddf~q~tVADiPGiI  255 (366)
T KOG1489|consen  198 DVGLVGFPNAGKSTLLNALSRAKPKVAHYA---FTTLRPHIG----TVNYDDFSQITVADIPGII  255 (366)
T ss_pred             ccceecCCCCcHHHHHHHhhccCCcccccc---eeeeccccc----eeeccccceeEeccCcccc
Confidence            356899999999999999764333  2221   111124444    333444 448888888853

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=97.19  E-value=0.00071  Score=42.34  Aligned_cols=36  Identities=17%  Similarity=0.202  Sum_probs=25.7

Q ss_pred             HHHHhhhccCceEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521           6 SGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus         6 ~~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      ..+...+.....-.+++.|++|+|||++++.+.+..
T Consensus         8 ~~i~~~~~~~~~~~v~i~G~~G~GKT~l~~~i~~~~   43 (151)
T cd00009           8 EALREALELPPPKNLLLYGPPGTGKTTLARAIANEL   43 (151)
T ss_pred             HHHHHHHhCCCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence            344444444345569999999999999999965443

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=97.19  E-value=0.0003  Score=51.60  Aligned_cols=21  Identities=33%  Similarity=0.479  Sum_probs=19.0

Q ss_pred             EEEEeCCCCcHHHHHHHHhhc
Q psy9521          20 VLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ++++|++|||||||++.+.+-
T Consensus        32 ~vllGPSGcGKSTlLr~IAGL   52 (338)
T COG3839          32 VVLLGPSGCGKSTLLRMIAGL   52 (338)
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            899999999999999998753

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=97.18  E-value=0.00033  Score=48.64  Aligned_cols=21  Identities=33%  Similarity=0.425  Sum_probs=18.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      -++++|++|||||||++-+.+
T Consensus        33 ~vaI~GpSGSGKSTLLniig~   53 (226)
T COG1136          33 FVAIVGPSGSGKSTLLNLLGG   53 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            378999999999999999764

>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.18  E-value=0.00033  Score=47.92  Aligned_cols=21  Identities=38%  Similarity=0.506  Sum_probs=18.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      -++++|++|||||||+|-+.+
T Consensus        33 ~vv~lGpSGcGKTTLLnl~AG   53 (259)
T COG4525          33 LVVVLGPSGCGKTTLLNLIAG   53 (259)
T ss_pred             EEEEEcCCCccHHHHHHHHhc
Confidence            489999999999999998765

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.17  E-value=0.00047  Score=42.70  Aligned_cols=24  Identities=29%  Similarity=0.465  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .++++|++|+|||+++..+.....
T Consensus         4 ~~~l~G~~G~GKTtl~~~l~~~~~   27 (148)
T smart00382        4 VILIVGPPGSGKTTLARALARELG   27 (148)
T ss_pred             EEEEECCCCCcHHHHHHHHHhccC
Confidence            589999999999999999654433

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.

>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=97.17  E-value=0.00054  Score=48.54  Aligned_cols=20  Identities=30%  Similarity=0.534  Sum_probs=18.1

Q ss_pred             EEEEeCCCCcHHHHHHHHhh
Q psy9521          20 VLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~   39 (125)
                      ++++|++||||||+++.++.
T Consensus        30 ~vliGpSGsGKTTtLkMINr   49 (309)
T COG1125          30 LVLIGPSGSGKTTTLKMINR   49 (309)
T ss_pred             EEEECCCCCcHHHHHHHHhc
Confidence            78999999999999998874

>TIGR00235 udk uridine kinase

Probab=97.16  E-value=0.00054  Score=46.76  Aligned_cols=28  Identities=21%  Similarity=0.167  Sum_probs=22.6

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      ++..-|.++|++|+|||||++.+.+.+.
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            4556689999999999999999765443

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>TIGR03263 guanyl_kin guanylate kinase

Probab=97.15  E-value=0.00041  Score=46.04  Aligned_cols=23  Identities=22%  Similarity=0.317  Sum_probs=19.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|++|+|||||++.+.+.+
T Consensus         3 ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         3 LIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHccC
Confidence            48999999999999999976544

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=97.15  E-value=0.00043  Score=43.17  Aligned_cols=20  Identities=30%  Similarity=0.436  Sum_probs=17.7

Q ss_pred             EEEEeCCCCcHHHHHHHHhh
Q psy9521          20 VLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~   39 (125)
                      |++.|++|+|||++++.+..
T Consensus         1 ill~G~~G~GKT~l~~~la~   20 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQ   20 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHH
T ss_pred             CEEECcCCCCeeHHHHHHHh
Confidence            68999999999999999543

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

>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=97.12  E-value=0.00045  Score=51.57  Aligned_cols=34  Identities=21%  Similarity=0.429  Sum_probs=26.9

Q ss_pred             cccceeeEEEEe-CCEEEEEEECCCcccccccccc
Q psy9521          55 TTVGLNIGQIDI-NTVRLNFWDLGGQLELQSLWDK   88 (125)
Q Consensus        55 ~t~~~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~   88 (125)
                      +|.|+.-..+.. .+..+.++|++||..-|..|..
T Consensus       221 ~T~Gi~e~~f~~~~~~~~~~~DvGGqr~eRkKW~~  255 (389)
T PF00503_consen  221 KTTGITEIDFNFSGSRKFRLIDVGGQRSERKKWIH  255 (389)
T ss_dssp             --SSEEEEEEEE-TTEEEEEEEETSSGGGGGGGGG
T ss_pred             CCCCeeEEEEEeecccccceecCCCCchhhhhHHH
Confidence            466666666777 7899999999999888888887

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 ....

>COG2262 HflX GTPases [General function prediction only]

Probab=97.12  E-value=0.0049  Score=46.13  Aligned_cols=57  Identities=19%  Similarity=0.207  Sum_probs=37.7

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeC-CEEEEEEECCCc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDIN-TVRLNFWDLGGQ   79 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~i~D~~G~   79 (125)
                      ..|.++|-.|+|||||+|++.+.-....     +..-.|..-....+.+. +..+-+-||-|=
T Consensus       193 p~vaLvGYTNAGKSTL~N~LT~~~~~~~-----d~LFATLdpttR~~~l~~g~~vlLtDTVGF  250 (411)
T COG2262         193 PLVALVGYTNAGKSTLFNALTGADVYVA-----DQLFATLDPTTRRIELGDGRKVLLTDTVGF  250 (411)
T ss_pred             CeEEEEeeccccHHHHHHHHhccCeecc-----ccccccccCceeEEEeCCCceEEEecCccC
Confidence            4599999999999999999764322211     11114444444456665 478888999884

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=97.11  E-value=0.00044  Score=46.39  Aligned_cols=22  Identities=18%  Similarity=0.507  Sum_probs=19.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .++++|++|+|||||++.+.+.
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            5899999999999999997543

>PRK05480 uridine/cytidine kinase; Provisional

Probab=97.11  E-value=0.00059  Score=46.54  Aligned_cols=27  Identities=26%  Similarity=0.288  Sum_probs=23.0

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      ++...|.+.|++|||||||.+.+...+
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            356789999999999999999976655

>PRK00300 gmk guanylate kinase; Provisional

Probab=97.09  E-value=0.00069  Score=45.91  Aligned_cols=26  Identities=19%  Similarity=0.331  Sum_probs=21.4

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .--|+++|++|+|||||+..+.+.++
T Consensus         5 g~~i~i~G~sGsGKstl~~~l~~~~~   30 (205)
T PRK00300          5 GLLIVLSGPSGAGKSTLVKALLERDP   30 (205)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCc
Confidence            34589999999999999999765543

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=97.07  E-value=0.0013  Score=53.79  Aligned_cols=23  Identities=17%  Similarity=0.206  Sum_probs=19.6

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-Hh
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AK   38 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~   38 (125)
                      +--+|+++|..++|||||+.+ +.
T Consensus        18 ~Irni~iiGhvd~GKTTL~~~Ll~   41 (843)
T PLN00116         18 NIRNMSVIAHVDHGKSTLTDSLVA   41 (843)
T ss_pred             CccEEEEEcCCCCCHHHHHHHHHH
Confidence            334699999999999999999 54

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.07  E-value=0.00049  Score=48.06  Aligned_cols=21  Identities=43%  Similarity=0.550  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      -++++|++|+|||||++.+++
T Consensus        32 ~VaiIG~SGaGKSTLLR~lng   52 (258)
T COG3638          32 MVAIIGPSGAGKSTLLRSLNG   52 (258)
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            389999999999999999886

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=97.07  E-value=0.00047  Score=50.87  Aligned_cols=20  Identities=40%  Similarity=0.503  Sum_probs=18.4

Q ss_pred             EEEEeCCCCcHHHHHHHHhh
Q psy9521          20 VLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~   39 (125)
                      ++++|++||||||+++.|.+
T Consensus        34 ~~lLGPSGcGKTTlLR~IAG   53 (352)
T COG3842          34 VTLLGPSGCGKTTLLRMIAG   53 (352)
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            67999999999999999875

>PRK14530 adenylate kinase; Provisional

Probab=97.07  E-value=0.00055  Score=46.99  Aligned_cols=22  Identities=32%  Similarity=0.413  Sum_probs=19.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +|+++|++||||||+.+++...
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~   26 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEE   26 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6999999999999999986543

>PRK03839 putative kinase; Provisional

Probab=97.07  E-value=0.00057  Score=45.51  Aligned_cols=22  Identities=32%  Similarity=0.317  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +|+++|.+|+||||+..++...
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5999999999999999986543

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=97.06  E-value=0.00054  Score=45.49  Aligned_cols=22  Identities=32%  Similarity=0.600  Sum_probs=18.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .++++|++||||||+++.+...
T Consensus         3 ~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3789999999999999996543

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>PRK14737 gmk guanylate kinase; Provisional

Probab=97.06  E-value=0.00058  Score=46.09  Aligned_cols=23  Identities=17%  Similarity=0.328  Sum_probs=19.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      =|+++|++|||||||++++...+
T Consensus         6 ~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          6 LFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHHhcC
Confidence            38999999999999999964444

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=97.05  E-value=0.00073  Score=37.54  Aligned_cols=19  Identities=37%  Similarity=0.649  Sum_probs=17.2

Q ss_pred             EEEEeCCCCcHHHHHHHHh
Q psy9521          20 VLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~   38 (125)
                      .++.|+.|+|||||+..+.
T Consensus        26 tli~G~nGsGKSTllDAi~   44 (62)
T PF13555_consen   26 TLITGPNGSGKSTLLDAIQ   44 (62)
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            7899999999999998854

>PRK14532 adenylate kinase; Provisional

Probab=97.05  E-value=0.00055  Score=45.84  Aligned_cols=22  Identities=23%  Similarity=0.317  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +|+++|++|+||||+..++...
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~~   23 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVEE   23 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6999999999999999997543

>TIGR00101 ureG urease accessory protein UreG

Probab=97.04  E-value=0.00075  Score=45.99  Aligned_cols=22  Identities=23%  Similarity=0.332  Sum_probs=19.3

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhh
Q psy9521          18 FCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +++.++|+.|+|||||++++.+
T Consensus         2 ~~i~i~G~~GsGKTTll~~l~~   23 (199)
T TIGR00101         2 LKIGVAGPVGSGKTALIEALTR   23 (199)
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998443

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.

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=97.04  E-value=0.00054  Score=45.57  Aligned_cols=20  Identities=30%  Similarity=0.368  Sum_probs=17.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHh
Q psy9521          19 CVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~   38 (125)
                      .|+++|.+||||||++.++.
T Consensus         5 ii~i~G~~GsGKsTl~~~l~   24 (188)
T TIGR01360         5 IIFIVGGPGSGKGTQCEKIV   24 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            48899999999999999865

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>PRK08233 hypothetical protein; Provisional

Probab=97.03  E-value=0.0008  Score=44.52  Aligned_cols=25  Identities=28%  Similarity=0.331  Sum_probs=20.6

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .-|++.|.+|+|||||..++...+.
T Consensus         4 ~iI~I~G~~GsGKtTla~~L~~~l~   28 (182)
T PRK08233          4 KIITIAAVSGGGKTTLTERLTHKLK   28 (182)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhCC
Confidence            4578889999999999999765553

>PHA00729 NTP-binding motif containing protein

Probab=97.02  E-value=0.0015  Score=45.39  Aligned_cols=35  Identities=20%  Similarity=0.232  Sum_probs=25.9

Q ss_pred             HHHHHhhhccCceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521           5 VSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus         5 ~~~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .....+.+....-..|++.|.+|+|||+|..++..
T Consensus         5 ~k~~~~~l~~~~f~nIlItG~pGvGKT~LA~aLa~   39 (226)
T PHA00729          5 AKKIVSAYNNNGFVSAVIFGKQGSGKTTYALKVAR   39 (226)
T ss_pred             HHHHHHHHhcCCeEEEEEECCCCCCHHHHHHHHHH
Confidence            34444545444556899999999999999999644

>KOG1532|consensus

Probab=97.02  E-value=0.00078  Score=48.23  Aligned_cols=26  Identities=23%  Similarity=0.546  Sum_probs=23.0

Q ss_pred             ccCceEEEEEEeCCCCcHHHHHHHHh
Q psy9521          13 LRKDEFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        13 ~~~~~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      ..++.+-|+|+|..|+|||||++|+.
T Consensus        15 ~~~~p~~ilVvGMAGSGKTTF~QrL~   40 (366)
T KOG1532|consen   15 AIQRPVIILVVGMAGSGKTTFMQRLN   40 (366)
T ss_pred             cccCCcEEEEEecCCCCchhHHHHHH
Confidence            45678889999999999999999965

>PRK14531 adenylate kinase; Provisional

Probab=97.02  E-value=0.00069  Score=45.38  Aligned_cols=23  Identities=30%  Similarity=0.244  Sum_probs=19.8

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .+|+++|++|+||||+..++...
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~   25 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAA   25 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999986543

>COG4107 PhnK ABC-type phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.01  E-value=0.00071  Score=45.62  Aligned_cols=24  Identities=33%  Similarity=0.472  Sum_probs=20.7

Q ss_pred             EEEEeCCCCcHHHHHHHHhhcccc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKFTK   43 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~~~   43 (125)
                      +.++|++|+|||||++.+.++..+
T Consensus        35 LgiVGESGSGKtTLL~~is~rl~p   58 (258)
T COG4107          35 LGIVGESGSGKTTLLKCISGRLTP   58 (258)
T ss_pred             EEEEecCCCcHHhHHHHHhcccCC
Confidence            678999999999999998876653

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=97.00  E-value=0.00056  Score=47.29  Aligned_cols=19  Identities=26%  Similarity=0.492  Sum_probs=17.0

Q ss_pred             EEEEeCCCCcHHHHHHHHh
Q psy9521          20 VLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~   38 (125)
                      -+++|++|||||||++.++
T Consensus        36 TAlIGPSGcGKST~LR~lN   54 (253)
T COG1117          36 TALIGPSGCGKSTLLRCLN   54 (253)
T ss_pred             EEEECCCCcCHHHHHHHHH
Confidence            5789999999999999865

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=96.99  E-value=0.00072  Score=43.00  Aligned_cols=22  Identities=32%  Similarity=0.451  Sum_probs=18.9

Q ss_pred             EEEEeCCCCcHHHHHHHHhhcc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      |++.|++|+|||+|++.+....
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~   23 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALL   23 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7999999999999999865433

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>PRK14738 gmk guanylate kinase; Provisional

Probab=96.99  E-value=0.00084  Score=45.89  Aligned_cols=24  Identities=25%  Similarity=0.385  Sum_probs=20.1

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHh
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      .+..-|+++|++|||||||++.+.
T Consensus        11 ~~~~~ivi~GpsG~GK~tl~~~L~   34 (206)
T PRK14738         11 AKPLLVVISGPSGVGKDAVLARMR   34 (206)
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHH
Confidence            345568899999999999999964

>PRK02496 adk adenylate kinase; Provisional

Probab=96.98  E-value=0.00081  Score=44.91  Aligned_cols=23  Identities=26%  Similarity=0.232  Sum_probs=19.8

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .+++++|++|+||||+...+...
T Consensus         2 ~~i~i~G~pGsGKst~a~~la~~   24 (184)
T PRK02496          2 TRLIFLGPPGAGKGTQAVVLAEH   24 (184)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999986543

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=96.98  E-value=0.00072  Score=47.88  Aligned_cols=23  Identities=30%  Similarity=0.407  Sum_probs=19.8

Q ss_pred             EEEEeCCCCcHHHHHHHHhhccc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      ++++|+.|||||||++.+.+-..
T Consensus        31 ~~iiGpNG~GKSTLLk~l~g~l~   53 (258)
T COG1120          31 TGILGPNGSGKSTLLKCLAGLLK   53 (258)
T ss_pred             EEEECCCCCCHHHHHHHHhccCC
Confidence            78999999999999999776444

>COG4987 CydC ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]

Probab=96.98  E-value=0.0011  Score=51.06  Aligned_cols=27  Identities=30%  Similarity=0.327  Sum_probs=22.7

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhcccc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKFTK   43 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~~~   43 (125)
                      -=||.++|.+||||||+++-+.+.+..
T Consensus       364 GEkvAIlG~SGsGKSTllqLl~~~~~~  390 (573)
T COG4987         364 GEKVAILGRSGSGKSTLLQLLAGAWDP  390 (573)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHhccCC
Confidence            347999999999999999998766553

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=96.98  E-value=0.00077  Score=45.13  Aligned_cols=21  Identities=24%  Similarity=0.542  Sum_probs=18.5

Q ss_pred             eEEEEEEeCCCCcHHHHHHHH
Q psy9521          17 EFCVLILGLDNAGKTTYLESA   37 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i   37 (125)
                      --.++++|+.|+|||||++.+
T Consensus        21 G~~~~l~G~nG~GKSTLl~~i   41 (176)
T cd03238          21 NVLVVVTGVSGSGKSTLVNEG   41 (176)
T ss_pred             CCEEEEECCCCCCHHHHHHHH
Confidence            346899999999999999985

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=96.96  E-value=0.00063  Score=45.54  Aligned_cols=22  Identities=36%  Similarity=0.459  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +|+++|.+|+||||+...+...
T Consensus         1 ~I~i~G~pGsGKst~a~~La~~   22 (194)
T cd01428           1 RILLLGPPGSGKGTQAERLAKK   22 (194)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999997654

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>PTZ00088 adenylate kinase 1; Provisional

Probab=96.96  E-value=0.00081  Score=46.87  Aligned_cols=25  Identities=24%  Similarity=0.438  Sum_probs=21.2

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ..++|+++|++||||||+..++...
T Consensus         5 ~~mrIvl~G~PGsGK~T~a~~La~~   29 (229)
T PTZ00088          5 GPLKIVLFGAPGVGKGTFAEILSKK   29 (229)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHH
Confidence            3467999999999999999996543

>KOG2484|consensus

Probab=96.94  E-value=0.0014  Score=48.85  Aligned_cols=56  Identities=23%  Similarity=0.368  Sum_probs=37.6

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceee--EEEEeCCEEEEEEECCCc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNI--GQIDINTVRLNFWDLGGQ   79 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~--~~~~~~~~~~~i~D~~G~   79 (125)
                      +..+++-|+|-++|||||+++.+..+.....-        ++-|++-  ..+..+ -.+.+.|.+|-
T Consensus       250 k~sIrvGViG~PNVGKSSvINsL~~~k~C~vg--------~~pGvT~smqeV~Ld-k~i~llDsPgi  307 (435)
T KOG2484|consen  250 KTSIRVGIIGYPNVGKSSVINSLKRRKACNVG--------NVPGVTRSMQEVKLD-KKIRLLDSPGI  307 (435)
T ss_pred             CcceEeeeecCCCCChhHHHHHHHHhccccCC--------CCccchhhhhheecc-CCceeccCCce
Confidence            67899999999999999999997655443332        3333332  233332 45668887774

>TIGR01351 adk adenylate kinases

Probab=96.94  E-value=0.00068  Score=46.35  Aligned_cols=22  Identities=27%  Similarity=0.372  Sum_probs=19.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ||+++|++||||||+..++...
T Consensus         1 rI~i~G~pGsGKsT~a~~La~~   22 (210)
T TIGR01351         1 RLVLLGPPGSGKGTQAKRIAEK   22 (210)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999997543

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=96.93  E-value=0.00096  Score=46.83  Aligned_cols=23  Identities=43%  Similarity=0.706  Sum_probs=20.0

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHH
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESA   37 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i   37 (125)
                      ...++++|+|.+|+|||+|+..+
T Consensus        11 ~~~fr~viIG~sGSGKT~li~~l   33 (241)
T PF04665_consen   11 KDPFRMVIIGKSGSGKTTLIKSL   33 (241)
T ss_pred             CCCceEEEECCCCCCHHHHHHHH
Confidence            35678999999999999999883

This is thought to be an ATPase involved in viral DNA packaging [].

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=96.93  E-value=0.00096  Score=45.66  Aligned_cols=23  Identities=30%  Similarity=0.297  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        32 ~~~l~G~nGsGKSTLl~~i~Gl~   54 (218)
T cd03255          32 FVAIVGPSGSGKSTLLNILGGLD   54 (218)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCCc
Confidence            58999999999999999977653

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>KOG1491|consensus

Probab=96.92  E-value=0.0021  Score=47.19  Aligned_cols=24  Identities=29%  Similarity=0.591  Sum_probs=21.3

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ..+|+-++|.++||||||++.+++
T Consensus        19 ~~lkiGIVGlPNvGKST~fnalT~   42 (391)
T KOG1491|consen   19 NNLKIGIVGLPNVGKSTFFNALTK   42 (391)
T ss_pred             CcceeeEeeCCCCchHHHHHHHhc
Confidence            567999999999999999999653

>PTZ00416 elongation factor 2; Provisional

Probab=96.92  E-value=0.0022  Score=52.42  Aligned_cols=23  Identities=17%  Similarity=0.153  Sum_probs=19.8

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-Hh
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AK   38 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~   38 (125)
                      +.-+|+++|..++|||||+.+ +.
T Consensus        18 ~irni~iiGh~d~GKTTL~~~Ll~   41 (836)
T PTZ00416         18 QIRNMSVIAHVDHGKSTLTDSLVC   41 (836)
T ss_pred             CcCEEEEECCCCCCHHHHHHHHHH
Confidence            344799999999999999999 54

>PF01580 FtsK_SpoIIIE: FtsK/SpoIIIE family; InterPro: IPR002543 The FtsK/SpoIIIE domain is found extensively in a wide variety of proteins from prokaryotes and plasmids [] some of which contain up to three copies

Probab=96.91  E-value=0.0065  Score=41.21  Aligned_cols=68  Identities=24%  Similarity=0.348  Sum_probs=36.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc----cccCcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK----DIRDCM   94 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~----Di~~~~   94 (125)
                      .+++.|.+|+|||+++..+-......+.        |           +.+.+.+.|..|. .+..+...    ......
T Consensus        40 h~li~G~tgsGKS~~l~~ll~~l~~~~~--------p-----------~~~~l~iiD~k~~-~l~~~~~~~~~~~~~~~~   99 (205)
T PF01580_consen   40 HLLIAGATGSGKSTLLRTLLLSLALTYS--------P-----------DDVQLYIIDPKGS-DLAPLADLPHVAAVAVAT   99 (205)
T ss_dssp             SEEEE--TTSSHHHHHHHHHHHHHTT----------T-----------TTEEEEEE-TTSS-CCGGGTT-TTBSS-S-B-
T ss_pred             eEEEEcCCCCCccHHHHHHHHHHHHHhc--------C-----------CccEEEEEcCCcc-ccchhhhhhhhccccccc
Confidence            7999999999999999983322222211        1           3467778888765 33333222    222455


Q ss_pred             CHHHHHHHHhhh
Q psy9521          95 GVREVKPIFNKN  106 (125)
Q Consensus        95 s~~~i~~~l~~~  106 (125)
                      +.+++...++.+
T Consensus       100 ~~~~~~~~l~~l  111 (205)
T PF01580_consen  100 DPEEILRLLEEL  111 (205)
T ss_dssp             SHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHH
Confidence            666666555544

The domain contains a putative ATP binding P-loop motif. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification []. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer []. ; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0005524 ATP binding, 0007049 cell cycle, 0007059 chromosome segregation, 0051301 cell division, 0016021 integral to membrane; PDB: 2IUS_E 2IUU_A 2IUT_A.

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=96.91  E-value=0.00076  Score=44.55  Aligned_cols=24  Identities=25%  Similarity=0.336  Sum_probs=15.8

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ..--+++.|++|+|||+|++++..
T Consensus        23 ~~~~~ll~G~~G~GKT~ll~~~~~   46 (185)
T PF13191_consen   23 SPRNLLLTGESGSGKTSLLRALLD   46 (185)
T ss_dssp             ----EEE-B-TTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            344589999999999999998443

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

Probab=96.91  E-value=0.00092  Score=43.67  Aligned_cols=20  Identities=25%  Similarity=0.398  Sum_probs=17.7

Q ss_pred             EEEEeCCCCcHHHHHHHHhh
Q psy9521          20 VLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~   39 (125)
                      |+|+|..++|||||++.+-+
T Consensus         1 V~v~G~~ssGKSTliNaLlG   20 (168)
T PF00350_consen    1 VAVVGQFSSGKSTLINALLG   20 (168)
T ss_dssp             EEEEEBTTSSHHHHHHHHHT
T ss_pred             CEEEcCCCCCHHHHHHHHHh
Confidence            68999999999999999443

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

>KOG0099|consensus

Probab=96.91  E-value=0.00046  Score=49.09  Aligned_cols=33  Identities=24%  Similarity=0.567  Sum_probs=23.9

Q ss_pred             ccceeeEEEEeCCEEEEEEECCCcccccccccc
Q psy9521          56 TVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK   88 (125)
Q Consensus        56 t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   88 (125)
                      |.|+--..+.++.++|+++|++||..-+..|-.
T Consensus       189 TsGIfet~FqVdkv~FhMfDVGGQRDeRrKWIQ  221 (379)
T KOG0099|consen  189 TSGIFETKFQVDKVNFHMFDVGGQRDERRKWIQ  221 (379)
T ss_pred             ccceeeEEEeccccceeeeccCCchhhhhhHHH
Confidence            334333356677899999999999877777665

>PF05729 NACHT: NACHT domain

Probab=96.91  E-value=0.00083  Score=43.43  Aligned_cols=25  Identities=24%  Similarity=0.408  Sum_probs=20.1

Q ss_pred             EEEEeCCCCcHHHHHHHHhhccccc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKFTKN   44 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~~~~   44 (125)
                      +++.|++|+|||+++.++......+
T Consensus         3 l~I~G~~G~GKStll~~~~~~~~~~   27 (166)
T PF05729_consen    3 LWISGEPGSGKSTLLRKLAQQLAEE   27 (166)
T ss_pred             EEEECCCCCChHHHHHHHHHHHHhc
Confidence            7899999999999999955444443

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=96.90  E-value=0.00081  Score=41.47  Aligned_cols=20  Identities=35%  Similarity=0.303  Sum_probs=18.0

Q ss_pred             EEEEEEeCCCCcHHHHHHHH
Q psy9521          18 FCVLILGLDNAGKTTYLESA   37 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i   37 (125)
                      -.++++|++|+|||||+..+
T Consensus        16 e~v~I~GpSGsGKSTLl~~l   35 (107)
T cd00820          16 VGVLITGDSGIGKTELALEL   35 (107)
T ss_pred             EEEEEEcCCCCCHHHHHHHh
Confidence            45899999999999999994

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.89  E-value=0.0009  Score=45.21  Aligned_cols=22  Identities=32%  Similarity=0.342  Sum_probs=19.2

Q ss_pred             EEEEeCCCCcHHHHHHHHhhcc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      |.+.|++|||||||.+.+.+.+
T Consensus         2 igi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6799999999999999976654

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>PRK13949 shikimate kinase; Provisional

Probab=96.89  E-value=0.001  Score=44.13  Aligned_cols=21  Identities=29%  Similarity=0.395  Sum_probs=18.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +|+++|.+|+||||+...+..
T Consensus         3 ~I~liG~~GsGKstl~~~La~   23 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALAR   23 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999998654

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.89  E-value=0.00091  Score=44.46  Aligned_cols=21  Identities=29%  Similarity=0.347  Sum_probs=18.3

Q ss_pred             EEEEeCCCCcHHHHHHHHhhc
Q psy9521          20 VLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~   40 (125)
                      |+++|++||||||+..++..+
T Consensus         2 i~i~G~pGsGKst~a~~la~~   22 (183)
T TIGR01359         2 VFVLGGPGSGKGTQCAKIVEN   22 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999986543

This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=96.88  E-value=0.0011  Score=44.44  Aligned_cols=24  Identities=25%  Similarity=0.317  Sum_probs=20.6

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      =.++++|+.|+|||||++.+.+..
T Consensus        26 e~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          26 EVIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             CEEEEECCCCChHHHHHHHHHcCC
Confidence            368899999999999999977643

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PF13479 AAA_24: AAA domain

Probab=96.88  E-value=0.001  Score=45.69  Aligned_cols=24  Identities=38%  Similarity=0.440  Sum_probs=21.7

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHh
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      ++.+|+++.|++|+|||+++..+.
T Consensus         1 ~~~~~~lIyG~~G~GKTt~a~~~~   24 (213)
T PF13479_consen    1 KKPIKILIYGPPGSGKTTLAASLP   24 (213)
T ss_pred             CCceEEEEECCCCCCHHHHHHhCC
Confidence            467899999999999999999874

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=96.87  E-value=0.001  Score=44.85  Aligned_cols=23  Identities=17%  Similarity=0.290  Sum_probs=19.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      -+++.|++|||||||++.+...+
T Consensus         6 l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           6 LIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhc
Confidence            48899999999999999955443

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=96.87  E-value=0.0011  Score=41.41  Aligned_cols=24  Identities=25%  Similarity=0.371  Sum_probs=17.7

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      --+++.|++|+|||++++++....
T Consensus         5 ~~~~i~G~~G~GKT~~~~~~~~~~   28 (131)
T PF13401_consen    5 RILVISGPPGSGKTTLIKRLARQL   28 (131)
T ss_dssp             --EEEEE-TTSSHHHHHHHHHHHH
T ss_pred             cccEEEcCCCCCHHHHHHHHHHHh
Confidence            348899999999999999954433

>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=96.86  E-value=0.00096  Score=46.75  Aligned_cols=21  Identities=24%  Similarity=0.455  Sum_probs=16.9

Q ss_pred             EEeCCCCcHHHHHHHHhhccc
Q psy9521          22 ILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        22 v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      |+|++||||||+++.+.+-..
T Consensus         1 ViGpaGSGKTT~~~~~~~~~~   21 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWLE   21 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHHT
T ss_pred             CCCCCCCCHHHHHHHHHHHHH
Confidence            689999999999999765443

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PLN02200 adenylate kinase family protein

Probab=96.86  E-value=0.0012  Score=46.04  Aligned_cols=25  Identities=32%  Similarity=0.399  Sum_probs=21.0

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +....|+++|.+||||||+..++..
T Consensus        41 ~~~~ii~I~G~PGSGKsT~a~~La~   65 (234)
T PLN02200         41 KTPFITFVLGGPGSGKGTQCEKIVE   65 (234)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3557799999999999999998653

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=96.85  E-value=0.0012  Score=44.97  Aligned_cols=23  Identities=30%  Similarity=0.410  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~~   51 (214)
T cd03292          29 FVFLVGPSGAGKSTLLKLIYKEE   51 (214)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            58899999999999999987643

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=96.85  E-value=0.0012  Score=45.14  Aligned_cols=23  Identities=30%  Similarity=0.423  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~Gl~   53 (216)
T TIGR00960        31 MVFLVGHSGAGKSTFLKLILGIE   53 (216)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999977643

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=96.84  E-value=0.0011  Score=45.20  Aligned_cols=23  Identities=35%  Similarity=0.327  Sum_probs=20.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~Gl~   49 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILATLT   49 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhCCC
Confidence            78999999999999999987644

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=96.83  E-value=0.0013  Score=44.57  Aligned_cols=23  Identities=26%  Similarity=0.249  Sum_probs=20.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .+.++|+.|+|||||++.+.+..
T Consensus        26 ~~~i~G~nGsGKSTLl~~l~G~~   48 (206)
T TIGR03608        26 MYAIIGESGSGKSTLLNIIGLLE   48 (206)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            48999999999999999987643

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=96.83  E-value=0.0013  Score=44.67  Aligned_cols=23  Identities=26%  Similarity=0.306  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .+.++|+.|+|||||++.+.+..
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~Gl~   50 (205)
T cd03226          28 IIALTGKNGAGKTTLAKILAGLI   50 (205)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            58999999999999999977643

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=96.83  E-value=0.0013  Score=45.82  Aligned_cols=23  Identities=35%  Similarity=0.463  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        30 ~~~l~G~nGsGKSTLl~~l~Gl~   52 (243)
T TIGR02315        30 FVAIIGPSGAGKSTLLRCINRLV   52 (243)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            58899999999999999977644

Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.

>PLN02674 adenylate kinase

Probab=96.83  E-value=0.002  Score=45.33  Aligned_cols=27  Identities=22%  Similarity=0.357  Sum_probs=22.5

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      +...+|+++|++|+||+|+..++...+
T Consensus        29 ~~~~~i~l~G~PGsGKgT~a~~La~~~   55 (244)
T PLN02674         29 KPDKRLILIGPPGSGKGTQSPIIKDEY   55 (244)
T ss_pred             ccCceEEEECCCCCCHHHHHHHHHHHc
Confidence            445789999999999999999976544

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=96.83  E-value=0.0012  Score=52.87  Aligned_cols=25  Identities=28%  Similarity=0.312  Sum_probs=21.5

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      =+|+++|.+|||||||++-+.+-+.
T Consensus       500 e~vaIvG~SGsGKSTL~KLL~gly~  524 (709)
T COG2274         500 EKVAIVGRSGSGKSTLLKLLLGLYK  524 (709)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCC
Confidence            3599999999999999999876544

>PRK07560 elongation factor EF-2; Reviewed

Probab=96.82  E-value=0.0031  Score=50.85  Aligned_cols=19  Identities=26%  Similarity=0.265  Sum_probs=17.7

Q ss_pred             EEEEEeCCCCcHHHHHHHH
Q psy9521          19 CVLILGLDNAGKTTYLESA   37 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i   37 (125)
                      +|+++|..++|||||+.++
T Consensus        22 ni~iigh~d~GKTTL~e~l   40 (731)
T PRK07560         22 NIGIIAHIDHGKTTLSDNL   40 (731)
T ss_pred             EEEEEEeCCCCHHHHHHHH
Confidence            4999999999999999993

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=96.82  E-value=0.0013  Score=44.75  Aligned_cols=23  Identities=30%  Similarity=0.426  Sum_probs=20.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03262          28 VVVIIGPSGSGKSTLLRCINLLE   50 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999987654

Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=96.82  E-value=0.0009  Score=43.75  Aligned_cols=21  Identities=19%  Similarity=0.495  Sum_probs=18.0

Q ss_pred             EEEEeCCCCcHHHHHHHHhhc
Q psy9521          20 VLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~   40 (125)
                      |+++|++|+||||+...+...
T Consensus         1 i~l~G~~GsGKSTla~~l~~~   21 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHR   21 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHh
Confidence            578999999999999986543

This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=96.82  E-value=0.0014  Score=44.71  Aligned_cols=23  Identities=35%  Similarity=0.507  Sum_probs=19.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .+.++|+.|+|||||++.+.+..
T Consensus        29 ~~~l~G~nGsGKSTLl~~l~G~~   51 (211)
T cd03225          29 FVLIVGPNGSGKSTLLRLLNGLL   51 (211)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            48899999999999999977643

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=96.82  E-value=0.0012  Score=44.17  Aligned_cols=23  Identities=22%  Similarity=0.499  Sum_probs=19.2

Q ss_pred             EEEEeCCCCcHHHHHHHHhhccc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      ++++|++|+||++|.+++-..++
T Consensus         5 ivl~Gpsg~GK~~l~~~L~~~~~   27 (183)
T PF00625_consen    5 IVLVGPSGSGKSTLAKRLIQEFP   27 (183)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHST
T ss_pred             EEEECCCCCCHHHHHHHHHHhcc
Confidence            78999999999999999644443

7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=96.81  E-value=0.0014  Score=44.56  Aligned_cols=32  Identities=19%  Similarity=0.257  Sum_probs=22.3

Q ss_pred             HHHhhhccCceEEEEEEeCCCCcHHHHHHHHh
Q psy9521           7 GFYKYMLRKDEFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus         7 ~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      .+.+.+.....--+++.|+.|+|||+|++.+.
T Consensus        10 ~l~~~l~~~~~~~~~l~G~rg~GKTsLl~~~~   41 (234)
T PF01637_consen   10 KLKELLESGPSQHILLYGPRGSGKTSLLKEFI   41 (234)
T ss_dssp             HHHHCHHH--SSEEEEEESTTSSHHHHHHHHH
T ss_pred             HHHHHHHhhcCcEEEEEcCCcCCHHHHHHHHH
Confidence            34444444345568899999999999999943

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=96.81  E-value=0.0014  Score=44.75  Aligned_cols=23  Identities=30%  Similarity=0.395  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .+.++|+.|+|||||++.+.+..
T Consensus        30 ~~~l~G~nGsGKSTLl~~i~Gl~   52 (214)
T TIGR02673        30 FLFLTGPSGAGKTTLLKLLYGAL   52 (214)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58899999999999999977643

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=96.81  E-value=0.0014  Score=45.01  Aligned_cols=24  Identities=33%  Similarity=0.329  Sum_probs=20.5

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      =.++++|+.|+|||||++.+.+..
T Consensus        27 e~~~i~G~nGsGKSTLl~~i~G~~   50 (220)
T cd03265          27 EIFGLLGPNGAGKTTTIKMLTTLL   50 (220)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            358899999999999999987643

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=96.81  E-value=0.0013  Score=44.19  Aligned_cols=23  Identities=30%  Similarity=0.450  Sum_probs=19.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        20 ~~~i~G~nGsGKSTLl~~i~G~~   42 (190)
T TIGR01166        20 VLALLGANGAGKSTLLLHLNGLL   42 (190)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            48999999999999999977543

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=96.81  E-value=0.0014  Score=45.48  Aligned_cols=23  Identities=26%  Similarity=0.364  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .+.++|+.|+|||||++.+.+..
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~   50 (235)
T cd03261          28 ILAIIGPSGSGKSTLLRLIVGLL   50 (235)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            48999999999999999977643

The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=96.80  E-value=0.0014  Score=42.25  Aligned_cols=23  Identities=30%  Similarity=0.507  Sum_probs=18.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .|+++|..++|||||+..+-+..
T Consensus         2 vv~VvG~~~sGKTTl~~~Li~~l   24 (140)
T PF03205_consen    2 VVQVVGPKNSGKTTLIRKLINEL   24 (140)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            48899999999999999944333

>TIGR03797 NHPM_micro_ABC2 NHPM bacteriocin system ABC transporter, ATP-binding protein

Probab=96.79  E-value=0.0019  Score=51.58  Aligned_cols=27  Identities=30%  Similarity=0.188  Sum_probs=22.1

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      +-=+++++|++|+|||||++-+.+-+.
T Consensus       478 ~Ge~vaIvG~sGsGKSTLlklL~gl~~  504 (686)
T TIGR03797       478 PGEFVAIVGPSGSGKSTLLRLLLGFET  504 (686)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            344689999999999999999776544

Members of this protein family are ABC transporter ATP-binding subunits, part of a three-gene putative bacteriocin transport operon. The other subunits include another ATP-binding subunit (TIGR03796), which has an N-terminal propeptide cleavage domain, and an HlyD homolog (TIGR03794). In a number of genomes, a conserved propeptide sequence with a classic Gly-Gly motif

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=96.79  E-value=0.0014  Score=44.91  Aligned_cols=24  Identities=38%  Similarity=0.439  Sum_probs=20.4

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      =.++++|+.|+|||||++.+.+..
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~Gl~   50 (222)
T cd03224          27 EIVALLGRNGAGKTTLLKTIMGLL   50 (222)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCC
Confidence            358999999999999999976543

The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=96.79  E-value=0.0014  Score=45.04  Aligned_cols=23  Identities=17%  Similarity=0.252  Sum_probs=20.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~G~~   55 (228)
T cd03257          33 TLGLVGESGSGKSTLARAILGLL   55 (228)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999977643

The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=96.79  E-value=0.0015  Score=44.82  Aligned_cols=23  Identities=30%  Similarity=0.284  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        33 ~~~i~G~nGsGKSTLl~~i~G~~   55 (221)
T TIGR02211        33 IVAIVGSSGSGKSTLLHLLGGLD   55 (221)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58899999999999999987653

This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=96.79  E-value=0.0015  Score=44.49  Aligned_cols=23  Identities=30%  Similarity=0.296  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~   50 (210)
T cd03269          28 IFGLLGPNGAGKTTTIRMILGII   50 (210)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            48899999999999999977643

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids

Probab=96.78  E-value=0.0015  Score=45.15  Aligned_cols=23  Identities=35%  Similarity=0.280  Sum_probs=20.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~Gl~   50 (232)
T cd03218          28 IVGLLGPNGAGKTTTFYMIVGLV   50 (232)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58899999999999999987643

The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=96.78  E-value=0.0015  Score=44.55  Aligned_cols=23  Identities=30%  Similarity=0.307  Sum_probs=19.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03259          28 FLALLGPSGCGKTTLLRLIAGLE   50 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            48899999999999999977643

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=96.77  E-value=0.0028  Score=43.93  Aligned_cols=28  Identities=29%  Similarity=0.245  Sum_probs=23.2

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .+..-+.+.|++|+|||||++.+.+.+.
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~l~   58 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEALLQ   58 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            4677899999999999999998765444

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor

Probab=96.77  E-value=0.0012  Score=44.07  Aligned_cols=23  Identities=35%  Similarity=0.609  Sum_probs=20.0

Q ss_pred             EEEEeCCCCcHHHHHHHHhhccc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      |++.|..||||||+++++.+.+.
T Consensus         3 I~ieG~~GsGKtT~~~~L~~~l~   25 (200)
T cd01672           3 IVFEGIDGAGKTTLIELLAERLE   25 (200)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            78999999999999999776553

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=96.77  E-value=0.0016  Score=44.03  Aligned_cols=24  Identities=25%  Similarity=0.270  Sum_probs=20.7

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      =.++++|+.|+|||||++.+.+..
T Consensus        27 e~~~i~G~nGsGKSTLl~~l~G~~   50 (198)
T TIGR01189        27 EALQVTGPNGIGKTTLLRILAGLL   50 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            358999999999999999977643

This model describes the cyt c biogenesis protein encoded by ccmA in bacteria. An exception is, an arabidopsis protein. Quite likely this is encoded by an organelle. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c.

>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine

Probab=96.77  E-value=0.0015  Score=45.28  Aligned_cols=23  Identities=26%  Similarity=0.290  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~Gl~   50 (236)
T cd03219          28 IHGLIGPNGAGKTTLFNLISGFL   50 (236)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCC
Confidence            48999999999999999977643

MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).

>PRK13695 putative NTPase; Provisional

Probab=96.75  E-value=0.0014  Score=43.49  Aligned_cols=23  Identities=26%  Similarity=0.216  Sum_probs=19.6

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .|+++.|++|+|||||+..+.+.
T Consensus         1 ~~i~ltG~~G~GKTTll~~i~~~   23 (174)
T PRK13695          1 MKIGITGPPGVGKTTLVLKIAEL   23 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            37999999999999999995433

>COG4559 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.75  E-value=0.0017  Score=45.02  Aligned_cols=23  Identities=35%  Similarity=0.588  Sum_probs=20.9

Q ss_pred             EEEEeCCCCcHHHHHHHHhhccc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      +.++|+.|+|||||++.+.+++.
T Consensus        30 ~ailGPNGAGKSTlLk~LsGel~   52 (259)
T COG4559          30 LAILGPNGAGKSTLLKALSGELS   52 (259)
T ss_pred             EEEECCCCccHHHHHHHhhCccC
Confidence            68999999999999999988766

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.75  E-value=0.0017  Score=43.83  Aligned_cols=23  Identities=22%  Similarity=0.325  Sum_probs=20.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~   50 (195)
T PRK13541         28 ITYIKGANGCGKSSLLRMIAGIM   50 (195)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            68999999999999999977643

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=96.74  E-value=0.0058  Score=43.65  Aligned_cols=35  Identities=26%  Similarity=0.485  Sum_probs=24.9

Q ss_pred             HHhhhccCce-EEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521           8 FYKYMLRKDE-FCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus         8 ~~~~~~~~~~-~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      +...+....+ ..++++|++|+|||||++.+.+...
T Consensus       101 ~l~~l~~~~~~~~~~i~g~~g~GKttl~~~l~~~~~  136 (270)
T TIGR02858       101 LLPYLVRNNRVLNTLIISPPQCGKTTLLRDLARILS  136 (270)
T ss_pred             HHHHHHhCCCeeEEEEEcCCCCCHHHHHHHHhCccC
Confidence            3444443322 4699999999999999999765443

Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.

>KOG3887|consensus

Probab=96.74  E-value=0.00097  Score=46.97  Aligned_cols=61  Identities=21%  Similarity=0.420  Sum_probs=34.4

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLEL   82 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~   82 (125)
                      -+|+++|...+||||+.+-+-.+-++...    .-.++|.......+...-+.+++||.|||..+
T Consensus        28 p~ilLMG~rRsGKsSI~KVVFhkMsPneT----lflESTski~~d~is~sfinf~v~dfPGQ~~~   88 (347)
T KOG3887|consen   28 PRILLMGLRRSGKSSIQKVVFHKMSPNET----LFLESTSKITRDHISNSFINFQVWDFPGQMDF   88 (347)
T ss_pred             ceEEEEeecccCcchhhheeeeccCCCce----eEeeccCcccHhhhhhhhcceEEeecCCcccc
Confidence            34999999999999998873322222100    00001111111112112278999999999755

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=96.74  E-value=0.0016  Score=44.46  Aligned_cols=23  Identities=30%  Similarity=0.449  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .+.++|+.|+|||||++.+.+..
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~G~~   49 (213)
T cd03235          27 FLAIVGPNGAGKSTLLKAILGLL   49 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCC
Confidence            48999999999999999987643

This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.74  E-value=0.0017  Score=43.98  Aligned_cols=24  Identities=29%  Similarity=0.264  Sum_probs=20.5

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      =.++++|+.|+|||||++.+.+..
T Consensus        28 e~~~l~G~nGsGKSTLl~~i~G~~   51 (200)
T PRK13540         28 GLLHLKGSNGAGKTTLLKLIAGLL   51 (200)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            358999999999999999976643

>PRK10908 cell division protein FtsE; Provisional

Probab=96.74  E-value=0.0017  Score=44.64  Aligned_cols=24  Identities=25%  Similarity=0.182  Sum_probs=20.5

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      =.++++|+.|+|||||++.+.+..
T Consensus        29 e~~~i~G~nGsGKSTLl~~l~G~~   52 (222)
T PRK10908         29 EMAFLTGHSGAGKSTLLKLICGIE   52 (222)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            358899999999999999977644

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=96.74  E-value=0.0017  Score=44.95  Aligned_cols=24  Identities=25%  Similarity=0.213  Sum_probs=20.6

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      =.++++|+.|+|||||++.+.+..
T Consensus        32 e~~~l~G~nGsGKSTLl~~l~G~~   55 (233)
T cd03258          32 EIFGIIGRSGAGKSTLIRCINGLE   55 (233)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            358899999999999999987654

Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=96.74  E-value=0.0018  Score=42.56  Aligned_cols=23  Identities=26%  Similarity=0.424  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        28 ~~~l~G~nGsGKSTLl~~i~G~~   50 (163)
T cd03216          28 VHALLGENGAGKSTLMKILSGLY   50 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58899999999999999977643

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=96.74  E-value=0.0018  Score=43.11  Aligned_cols=23  Identities=30%  Similarity=0.352  Sum_probs=19.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .+.++|+.|+|||||++.+.+..
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~   50 (178)
T cd03229          28 IVALLGPSGSGKSTLLRCIAGLE   50 (178)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999976543

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=96.73  E-value=0.0016  Score=43.31  Aligned_cols=23  Identities=22%  Similarity=0.262  Sum_probs=19.8

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      -+|+++|+.|+||||+.+.+.+.
T Consensus         5 ~~I~liG~~GaGKStl~~~La~~   27 (172)
T PRK05057          5 RNIFLVGPMGAGKSTIGRQLAQQ   27 (172)
T ss_pred             CEEEEECCCCcCHHHHHHHHHHH
Confidence            36999999999999999996543

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=96.73  E-value=0.0017  Score=44.54  Aligned_cols=23  Identities=26%  Similarity=0.288  Sum_probs=19.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .+.++|+.|+|||||++.+.+..
T Consensus        32 ~~~i~G~nGsGKSTLl~~l~Gl~   54 (220)
T cd03293          32 FVALVGPSGCGKSTLLRIIAGLE   54 (220)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            48899999999999999977643

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=96.73  E-value=0.0017  Score=44.40  Aligned_cols=24  Identities=33%  Similarity=0.292  Sum_probs=20.4

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      =.++++|+.|+|||||++.+.+..
T Consensus        32 e~~~i~G~nGsGKSTLl~~l~Gl~   55 (218)
T cd03266          32 EVTGLLGPNGAGKTTTLRMLAGLL   55 (218)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCc
Confidence            358899999999999999987643

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.

>PRK14528 adenylate kinase; Provisional

Probab=96.73  E-value=0.0016  Score=43.84  Aligned_cols=22  Identities=23%  Similarity=0.314  Sum_probs=19.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +|+++|++|+||||+.+++...
T Consensus         3 ~i~i~G~pGsGKtt~a~~la~~   24 (186)
T PRK14528          3 NIIFMGPPGAGKGTQAKILCER   24 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999987543

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=96.73  E-value=0.0016  Score=44.16  Aligned_cols=21  Identities=43%  Similarity=0.493  Sum_probs=18.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .+.++|++|+|||||++-+.+
T Consensus        27 ~vAi~GpSGaGKSTLLnLIAG   47 (231)
T COG3840          27 IVAILGPSGAGKSTLLNLIAG   47 (231)
T ss_pred             EEEEECCCCccHHHHHHHHHh
Confidence            589999999999999999764

>PRK00279 adk adenylate kinase; Reviewed

Probab=96.72  E-value=0.0016  Score=44.71  Aligned_cols=22  Identities=32%  Similarity=0.368  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +|+|+|++|+||||+...+...
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~   23 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEK   23 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6999999999999999986543

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=96.72  E-value=0.0018  Score=44.17  Aligned_cols=23  Identities=35%  Similarity=0.356  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        28 ~~~l~G~nGsGKSTLl~~l~G~~   50 (213)
T cd03301          28 FVVLLGPSGCGKTTTLRMIAGLE   50 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            48899999999999999977643

ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.72  E-value=0.0018  Score=44.40  Aligned_cols=24  Identities=33%  Similarity=0.425  Sum_probs=20.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .++++|+.|+|||||++.+.+..+
T Consensus        39 ~~~i~G~nGsGKSTLl~~i~G~~~   62 (214)
T PRK13543         39 ALLVQGDNGAGKTTLLRVLAGLLH   62 (214)
T ss_pred             EEEEEcCCCCCHHHHHHHHhCCCC
Confidence            488999999999999999876543

>PRK14529 adenylate kinase; Provisional

Probab=96.72  E-value=0.0014  Score=45.51  Aligned_cols=23  Identities=35%  Similarity=0.494  Sum_probs=19.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      +|+++|++||||||+..++...+
T Consensus         2 ~I~l~G~PGsGK~T~a~~La~~~   24 (223)
T PRK14529          2 NILIFGPNGSGKGTQGALVKKKY   24 (223)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            69999999999999999866544

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=96.72  E-value=0.0022  Score=50.12  Aligned_cols=26  Identities=19%  Similarity=0.255  Sum_probs=22.0

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .=+++++|++|+|||||++-+.+..+
T Consensus       369 G~~~aIvG~sGsGKSTLl~ll~gl~~  394 (582)
T PRK11176        369 GKTVALVGRSGSGKSTIANLLTRFYD  394 (582)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccC
Confidence            34689999999999999999876554

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=96.72  E-value=0.0018  Score=43.22  Aligned_cols=23  Identities=30%  Similarity=0.170  Sum_probs=20.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~G~~   50 (182)
T cd03215          28 IVGIAGLVGNGQTELAEALFGLR   50 (182)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999977654

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=96.71  E-value=0.0017  Score=41.90  Aligned_cols=23  Identities=26%  Similarity=0.411  Sum_probs=19.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        28 ~~~i~G~nGsGKStLl~~l~G~~   50 (144)
T cd03221          28 RIGLVGRNGAGKSTLLKLIAGEL   50 (144)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCC
Confidence            47899999999999999977643

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=96.71  E-value=0.0018  Score=44.37  Aligned_cols=23  Identities=35%  Similarity=0.419  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl~   52 (220)
T cd03263          30 IFGLLGHNGAGKTTTLKMLTGEL   52 (220)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            48899999999999999987643

Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=96.71  E-value=0.0018  Score=45.08  Aligned_cols=23  Identities=35%  Similarity=0.293  Sum_probs=20.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        31 ~~~l~G~nGsGKSTLl~~l~G~~   53 (241)
T PRK10895         31 IVGLLGPNGAGKTTTFYMVVGIV   53 (241)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999987654

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=96.71  E-value=0.0019  Score=42.55  Aligned_cols=24  Identities=21%  Similarity=0.317  Sum_probs=20.6

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      =.++++|+.|+|||||++.+.+..
T Consensus        28 e~~~i~G~nGsGKSTLl~~l~G~~   51 (166)
T cd03223          28 DRLLITGPSGTGKSSLFRALAGLW   51 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCC
Confidence            358999999999999999977643

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>smart00072 GuKc Guanylate kinase homologues

Probab=96.70  E-value=0.0017  Score=43.48  Aligned_cols=22  Identities=23%  Similarity=0.383  Sum_probs=19.2

Q ss_pred             EEEEeCCCCcHHHHHHHHhhcc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      ++++|++||||+|+..++...+
T Consensus         5 ivl~Gpsg~GK~tl~~~L~~~~   26 (184)
T smart00072        5 IVLSGPSGVGKGTLLAELIQEI   26 (184)
T ss_pred             EEEECCCCCCHHHHHHHHHhcC
Confidence            8999999999999999965444

Active enzymes catalyze ATP-dependent phosphorylation of GMP to GDP. Structure resembles that of adenylate kinase. So-called membrane-associated guanylate kinase homologues (MAGUKs) do not possess guanylate kinase activities; instead at least some possess protein-binding functions.

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

Probab=96.70  E-value=0.0019  Score=43.89  Aligned_cols=25  Identities=20%  Similarity=0.291  Sum_probs=20.5

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      ++|-+.|++|||||+|+.++-....
T Consensus        14 ~~i~v~Gp~GSGKTaLie~~~~~L~   38 (202)
T COG0378          14 LRIGVGGPPGSGKTALIEKTLRALK   38 (202)
T ss_pred             EEEEecCCCCcCHHHHHHHHHHHHH
Confidence            7899999999999999998443333

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=96.70  E-value=0.0019  Score=44.80  Aligned_cols=23  Identities=26%  Similarity=0.261  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        37 ~~~l~G~nGsGKSTLl~~l~Gl~   59 (233)
T PRK11629         37 MMAIVGSSGSGKSTLLHLLGGLD   59 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            58999999999999999977643

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=96.70  E-value=0.002  Score=42.98  Aligned_cols=24  Identities=38%  Similarity=0.404  Sum_probs=20.5

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      =.++++|+.|+|||||++.+.+..
T Consensus        26 ~~~~l~G~nGsGKStLl~~i~G~~   49 (180)
T cd03214          26 EIVGILGPNGAGKSTLLKTLAGLL   49 (180)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            358899999999999999977643

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=96.70  E-value=0.0026  Score=42.71  Aligned_cols=21  Identities=29%  Similarity=0.444  Sum_probs=18.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .+++.|++|||||+|++.+..
T Consensus        31 ~iaitGPSG~GKStllk~va~   51 (223)
T COG4619          31 FIAITGPSGCGKSTLLKIVAS   51 (223)
T ss_pred             eEEEeCCCCccHHHHHHHHHh
Confidence            488999999999999999543

>PRK06762 hypothetical protein; Provisional

Probab=96.70  E-value=0.0016  Score=42.70  Aligned_cols=23  Identities=26%  Similarity=0.450  Sum_probs=19.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      -|++.|.+|+||||+.+.+...+
T Consensus         4 li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          4 LIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48899999999999999876543

>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient

Probab=96.70  E-value=0.0017  Score=44.71  Aligned_cols=23  Identities=22%  Similarity=0.281  Sum_probs=20.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .+.++|+.|+|||||++.+.+..
T Consensus        28 ~~~i~G~nGsGKSTLl~~i~G~~   50 (227)
T cd03260          28 ITALIGPSGCGKSTLLRLLNRLN   50 (227)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhc
Confidence            58899999999999999977654

The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=96.69  E-value=0.0018  Score=43.74  Aligned_cols=25  Identities=28%  Similarity=0.331  Sum_probs=20.8

Q ss_pred             EEEEeCCCCcHHHHHHHHhhccccc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKFTKN   44 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~~~~   44 (125)
                      |.+.|++|||||||.+++...+...
T Consensus         2 IgI~G~sgSGKTTla~~L~~~L~~~   26 (194)
T PF00485_consen    2 IGIAGPSGSGKTTLAKRLAQILNKR   26 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCcc
Confidence            6789999999999999987666543

7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=96.69  E-value=0.0019  Score=44.32  Aligned_cols=23  Identities=26%  Similarity=0.083  Sum_probs=19.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        15 ~~~l~G~NGsGKSTLlk~i~Gl~   37 (213)
T PRK15177         15 HIGILAAPGSGKTTLTRLLCGLD   37 (213)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            48899999999999999977643

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.69  E-value=0.002  Score=43.27  Aligned_cols=25  Identities=32%  Similarity=0.319  Sum_probs=20.7

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .-.++++|+.|+||||+++.+.+..
T Consensus        25 g~~i~I~G~tGSGKTTll~aL~~~i   49 (186)
T cd01130          25 RKNILISGGTGSGKTTLLNALLAFI   49 (186)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhc
Confidence            4469999999999999999865443

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>PRK10790 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=96.69  E-value=0.0022  Score=50.23  Aligned_cols=27  Identities=19%  Similarity=0.224  Sum_probs=22.4

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      +-=+++++|++|+|||||++-+.+.+.
T Consensus       366 ~Ge~iaIvG~SGsGKSTLl~lL~gl~~  392 (592)
T PRK10790        366 SRGFVALVGHTGSGKSTLASLLMGYYP  392 (592)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcccC
Confidence            344689999999999999999876554

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=96.68  E-value=0.002  Score=44.77  Aligned_cols=23  Identities=30%  Similarity=0.481  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~~   51 (236)
T TIGR03864        29 FVALLGPNGAGKSTLFSLLTRLY   51 (236)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            47899999999999999977643

Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=96.68  E-value=0.002  Score=43.81  Aligned_cols=24  Identities=29%  Similarity=0.194  Sum_probs=20.3

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      =.++++|+.|+|||||++.+.+..
T Consensus        27 ~~~~i~G~nGsGKSTLl~~l~Gl~   50 (208)
T cd03268          27 EIYGFLGPNGAGKTTTMKIILGLI   50 (208)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCc
Confidence            357899999999999999977643

Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.67  E-value=0.002  Score=43.76  Aligned_cols=23  Identities=35%  Similarity=0.293  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        29 ~~~l~G~nGsGKSTLl~~l~G~~   51 (204)
T PRK13538         29 LVQIEGPNGAGKTSLLRILAGLA   51 (204)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999977643

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=96.67  E-value=0.002  Score=44.76  Aligned_cols=23  Identities=30%  Similarity=0.427  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~Gl~   51 (241)
T cd03256          29 FVALIGPSGAGKSTLLRCLNGLV   51 (241)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            48999999999999999976543

Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional

Probab=96.67  E-value=0.0017  Score=48.85  Aligned_cols=24  Identities=29%  Similarity=0.347  Sum_probs=20.4

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ..+|+++|.+|+|||||++.|...
T Consensus       219 ~~~IvI~G~~gsGKTTL~~~La~~  242 (399)
T PRK08099        219 VRTVAILGGESSGKSTLVNKLANI  242 (399)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHH
Confidence            346999999999999999996644

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=96.67  E-value=0.002  Score=45.44  Aligned_cols=23  Identities=30%  Similarity=0.392  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~Gl~   51 (255)
T PRK11248         29 LLVVLGPSGCGKTTLLNLIAGFV   51 (255)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999977643

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=96.67  E-value=0.0034  Score=45.24  Aligned_cols=30  Identities=17%  Similarity=0.253  Sum_probs=23.1

Q ss_pred             HhhhccCceEEEEEEeCCCCcHHHHHHHHh
Q psy9521           9 YKYMLRKDEFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus         9 ~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      ...+..+.-.-+-++|.+|+|||||++++.
T Consensus        96 r~~~~~~~~~~v~l~G~pGsGKTTLl~~l~  125 (290)
T PRK10463         96 RARFAARKQLVLNLVSSPGSGKTTLLTETL  125 (290)
T ss_pred             HHHHHhcCCeEEEEECCCCCCHHHHHHHHH
Confidence            334444566779999999999999998843

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=96.66  E-value=0.002  Score=44.84  Aligned_cols=23  Identities=26%  Similarity=0.378  Sum_probs=20.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .+.++|+.|+|||||++.+.+..
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~G~~   52 (242)
T PRK11124         30 TLVLLGPSGAGKSSLLRVLNLLE   52 (242)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            48999999999999999987653

>KOG2485|consensus

Probab=96.66  E-value=0.0048  Score=44.75  Aligned_cols=24  Identities=25%  Similarity=0.695  Sum_probs=21.5

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHh
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      ...+.+.|+|-+|||||||++.+.
T Consensus       141 ~~~~~vmVvGvPNVGKSsLINa~r  164 (335)
T KOG2485|consen  141 NSEYNVMVVGVPNVGKSSLINALR  164 (335)
T ss_pred             CCceeEEEEcCCCCChHHHHHHHH
Confidence            478999999999999999999843

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=96.66  E-value=0.002  Score=45.54  Aligned_cols=23  Identities=26%  Similarity=0.284  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        40 ~~~I~G~NGsGKSTLlk~l~Gl~   62 (257)
T PRK11247         40 FVAVVGRSGCGKSTLLRLLAGLE   62 (257)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            58999999999999999977643

>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter

Probab=96.66  E-value=0.0021  Score=43.58  Aligned_cols=25  Identities=24%  Similarity=0.210  Sum_probs=21.0

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      -=.+.++|+.|+|||||++.+.+..
T Consensus        26 Ge~~~i~G~nGsGKSTLl~~l~G~~   50 (201)
T cd03231          26 GEALQVTGPNGSGKTTLLRILAGLS   50 (201)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3458999999999999999977644

The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=96.66  E-value=0.0022  Score=42.47  Aligned_cols=24  Identities=29%  Similarity=0.259  Sum_probs=20.5

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      =.++++|+.|+|||||++.+.+..
T Consensus        27 e~~~i~G~nGsGKStLl~~l~G~~   50 (173)
T cd03230          27 EIYGLLGPNGAGKTTLIKIILGLL   50 (173)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCC
Confidence            358899999999999999987644

In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB

Probab=96.65  E-value=0.0021  Score=43.96  Aligned_cols=24  Identities=29%  Similarity=0.229  Sum_probs=20.6

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      =.++++|+.|+|||||++.+.+..
T Consensus        24 e~~~i~G~nGsGKSTLl~~l~G~~   47 (214)
T cd03297          24 EVTGIFGASGAGKSTLLRCIAGLE   47 (214)
T ss_pred             eeEEEECCCCCCHHHHHHHHhCCC
Confidence            458999999999999999977643

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR02323 CP_lyasePhnK phosphonate C-P lyase system protein PhnK

Probab=96.65  E-value=0.002  Score=45.10  Aligned_cols=25  Identities=24%  Similarity=0.332  Sum_probs=21.0

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      =.++++|+.|+|||||++.+.+..+
T Consensus        30 e~~~i~G~nGsGKSTLl~~l~G~~~   54 (253)
T TIGR02323        30 EVLGIVGESGSGKSTLLGCLAGRLA   54 (253)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCC
Confidence            3589999999999999999776543

Members of this family are the PhnK protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated complex. This protein (PhnK) and the adjacent-encoded PhnL resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this complex rather than part of a transporter per se.

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=96.65  E-value=0.0019  Score=41.56  Aligned_cols=21  Identities=19%  Similarity=0.521  Sum_probs=18.2

Q ss_pred             EEEEeCCCCcHHHHHHHHhhc
Q psy9521          20 VLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +++.|.+|+||||+.+.+...
T Consensus         2 i~l~G~~GsGKST~a~~l~~~   22 (150)
T cd02021           2 IVVMGVSGSGKSTVGKALAER   22 (150)
T ss_pred             EEEEcCCCCCHHHHHHHHHhh
Confidence            688999999999999996543

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PLN02459 probable adenylate kinase

Probab=96.65  E-value=0.0019  Score=45.82  Aligned_cols=26  Identities=23%  Similarity=0.340  Sum_probs=21.8

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ..+.++++++|++|+||+|+..++..
T Consensus        26 ~~~~~~ii~~G~PGsGK~T~a~~la~   51 (261)
T PLN02459         26 KGRNVNWVFLGCPGVGKGTYASRLSK   51 (261)
T ss_pred             ccCccEEEEECCCCCCHHHHHHHHHH
Confidence            34567899999999999999988654

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=96.65  E-value=0.0022  Score=42.60  Aligned_cols=23  Identities=26%  Similarity=0.436  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        30 ~~~i~G~nGsGKStLl~~l~G~~   52 (178)
T cd03247          30 KIALLGRSGSGKSTLLQLLTGDL   52 (178)
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            48899999999999999977653

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=96.64  E-value=0.0019  Score=45.45  Aligned_cols=24  Identities=38%  Similarity=0.411  Sum_probs=20.0

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .--+++.|++|+|||++++.+.+.
T Consensus        43 ~~~~~l~G~~G~GKTtl~~~l~~~   66 (269)
T TIGR03015        43 EGFILITGEVGAGKTTLIRNLLKR   66 (269)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHh
Confidence            335899999999999999996544

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=96.64  E-value=0.0019  Score=44.89  Aligned_cols=22  Identities=23%  Similarity=0.353  Sum_probs=19.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .++++|+.|+|||||++.+.+.
T Consensus        28 ~~~i~G~nGsGKSTLl~~l~Gl   49 (243)
T TIGR01978        28 IHAIMGPNGSGKSTLSKTIAGH   49 (243)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5899999999999999998764

SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.64  E-value=0.0018  Score=43.96  Aligned_cols=20  Identities=35%  Similarity=0.488  Sum_probs=17.5

Q ss_pred             EEEEeCCCCcHHHHHHHHhh
Q psy9521          20 VLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~   39 (125)
                      ++++|++|+||||+++.+-.
T Consensus         4 ilI~GptGSGKTTll~~ll~   23 (198)
T cd01131           4 VLVTGPTGSGKSTTLAAMID   23 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999998443

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=96.64  E-value=0.0022  Score=44.26  Aligned_cols=23  Identities=35%  Similarity=0.436  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~G~~   53 (229)
T cd03254          31 TVAIVGPTGAGKTTLINLLMRFY   53 (229)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCc
Confidence            48999999999999999977654

In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria

Probab=96.64  E-value=0.0021  Score=44.47  Aligned_cols=23  Identities=30%  Similarity=0.349  Sum_probs=20.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        29 ~~~l~G~nGsGKSTLl~~i~Gl~   51 (236)
T cd03253          29 KVAIVGPSGSGKSTILRLLFRFY   51 (236)
T ss_pred             EEEEECCCCCCHHHHHHHHhccc
Confidence            57999999999999999987654

Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=96.64  E-value=0.0023  Score=42.35  Aligned_cols=23  Identities=22%  Similarity=0.300  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        30 ~~~i~G~nGsGKStLl~~l~G~~   52 (173)
T cd03246          30 SLAIIGPSGSGKSTLARLILGLL   52 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHhcc
Confidence            47899999999999999977643

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=96.64  E-value=0.0021  Score=44.65  Aligned_cols=23  Identities=35%  Similarity=0.329  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .+.++|+.|+|||||++.+.+..
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl~   52 (239)
T cd03296          30 LVALLGPSGSGKTTLLRLIAGLE   52 (239)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            48899999999999999977643

Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=96.64  E-value=0.0021  Score=44.33  Aligned_cols=25  Identities=28%  Similarity=0.344  Sum_probs=21.1

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      -=.++++|+.|+|||||++.+.+..
T Consensus        26 Ge~~~l~G~nGsGKSTLl~~l~G~~   50 (230)
T TIGR03410        26 GEVTCVLGRNGVGKTTLLKTLMGLL   50 (230)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC
Confidence            3458999999999999999977643

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>KOG3347|consensus

Probab=96.63  E-value=0.0015  Score=42.67  Aligned_cols=24  Identities=29%  Similarity=0.374  Sum_probs=20.5

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .-+|++.|-+|+|||||..++...
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~   30 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEK   30 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHH
Confidence            346999999999999999997643

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=96.63  E-value=0.0022  Score=45.06  Aligned_cols=23  Identities=30%  Similarity=0.478  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        27 ~~~i~G~NGsGKSTLlk~L~G~~   49 (246)
T cd03237          27 VIGILGPNGIGKTTFIKMLAGVL   49 (246)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999977643

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=96.62  E-value=0.002  Score=49.86  Aligned_cols=27  Identities=30%  Similarity=0.252  Sum_probs=21.9

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      +-=+++++|++|+|||||++-+.+-+.
T Consensus       360 ~G~~vaIvG~SGsGKSTLl~lL~g~~~  386 (529)
T TIGR02868       360 PGERVAILGPSGSGKSTLLMLLTGLLD  386 (529)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            344689999999999999999765443

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>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=96.62  E-value=0.0028  Score=44.94  Aligned_cols=29  Identities=21%  Similarity=0.316  Sum_probs=22.0

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhcccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFTK   43 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~~   43 (125)
                      .+.+.|-+.|++|+|||||+..+-..+..
T Consensus        27 g~a~~iGiTG~PGaGKSTli~~l~~~~~~   55 (266)
T PF03308_consen   27 GRAHVIGITGPPGAGKSTLIDALIRELRE   55 (266)
T ss_dssp             T-SEEEEEEE-TTSSHHHHHHHHHHHHHH
T ss_pred             CCceEEEeeCCCCCcHHHHHHHHHHHHhh
Confidence            46788999999999999999995544443

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.

>KOG1490|consensus

Probab=96.62  E-value=0.0033  Score=48.39  Aligned_cols=56  Identities=25%  Similarity=0.347  Sum_probs=36.8

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhccc--cccCCCCCCccccccceeeEEEEeCCEEEEEEECCCc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKFT--KNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ   79 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~~--~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~   79 (125)
                      .-.++++|-++||||||++.+...-.  ..|.       -+|.++-+..++.+-..+++.||||-
T Consensus       168 trTlllcG~PNVGKSSf~~~vtradvevqpYa-------FTTksL~vGH~dykYlrwQViDTPGI  225 (620)
T KOG1490|consen  168 TRTLLVCGYPNVGKSSFNNKVTRADDEVQPYA-------FTTKLLLVGHLDYKYLRWQVIDTPGI  225 (620)
T ss_pred             cCeEEEecCCCCCcHhhcccccccccccCCcc-------cccchhhhhhhhhheeeeeecCCccc
Confidence            34599999999999998888542211  1111       13444444555555578889999985

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=96.61  E-value=0.002  Score=42.78  Aligned_cols=22  Identities=18%  Similarity=0.398  Sum_probs=19.2

Q ss_pred             EEEEeCCCCcHHHHHHHHhhcc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      |++.|.+|+||||+.+.+...+
T Consensus         5 i~l~G~~gsGKst~a~~l~~~~   26 (175)
T cd00227           5 IILNGGSSAGKSSIARALQSVL   26 (175)
T ss_pred             EEEECCCCCCHHHHHHHHHHhh
Confidence            8999999999999999976544

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>TIGR03796 NHPM_micro_ABC1 NHPM bacteriocin system ABC transporter, peptidase/ATP-binding protein

Probab=96.61  E-value=0.002  Score=51.61  Aligned_cols=26  Identities=19%  Similarity=0.233  Sum_probs=21.7

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      -=+++++|++|+|||||++-+.+-+.
T Consensus       505 Ge~vaIvG~sGsGKSTLlklL~gl~~  530 (710)
T TIGR03796       505 GQRVALVGGSGSGKSTIAKLVAGLYQ  530 (710)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            33789999999999999999776544

This protein describes an multidomain ABC transporter subunit that is one of three protein families associated with some regularity with a distinctive family of putative bacteriocins. It includes a bacteriocin-processing peptidase domain at the N-terminus. Model TIGR03793 describes a conserved propeptide region for this bacteriocin family, unusual because it shows obvious homology a region of the enzyme nitrile hydratase up to the classic Gly-Gly cleavage motif. This family is therefore predicted to be a subunit of a bacteriocin processing and export system characteristic to this system that we designate NHPM, Nitrile Hydratase Propeptide Microcin.

>PRK13638 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=96.61  E-value=0.0022  Score=45.55  Aligned_cols=23  Identities=17%  Similarity=0.307  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~Gl~   51 (271)
T PRK13638         29 VTGLVGANGCGKSTLFMNLSGLL   51 (271)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCC
Confidence            58899999999999999977643

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=96.61  E-value=0.0023  Score=44.71  Aligned_cols=23  Identities=35%  Similarity=0.397  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~G~~   53 (250)
T PRK11264         31 VVAIIGPSGSGKTTLLRCINLLE   53 (250)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            48899999999999999977643

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=96.61  E-value=0.0018  Score=44.85  Aligned_cols=23  Identities=22%  Similarity=0.224  Sum_probs=19.3

Q ss_pred             EEEEeCCCCcHHHHHHHHhhccc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      |.+.|++|||||||++.+.+.+.
T Consensus         2 igI~G~sGSGKTTla~~L~~~l~   24 (220)
T cd02025           2 IGIAGSVAVGKSTTARVLQALLS   24 (220)
T ss_pred             EEeeCCCCCCHHHHHHHHHHHHh
Confidence            56899999999999999766553

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>cd03298 ABC_ThiQ_thiamine_transporter ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP

Probab=96.60  E-value=0.0024  Score=43.53  Aligned_cols=24  Identities=25%  Similarity=0.182  Sum_probs=20.4

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      =.+.++|+.|+|||||++.+.+..
T Consensus        25 e~~~l~G~nGsGKSTLl~~l~gl~   48 (211)
T cd03298          25 EITAIVGPSGSGKSTLLNLIAGFE   48 (211)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC
Confidence            358999999999999999976543

Probably responsible for the translocation of thiamine across the membrane. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=96.60  E-value=0.0025  Score=43.47  Aligned_cols=23  Identities=26%  Similarity=0.411  Sum_probs=19.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~G~~   52 (207)
T PRK13539         30 ALVLTGPNGSGKTTLLRLIAGLL   52 (207)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999977643

>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment

Probab=96.60  E-value=0.0024  Score=44.49  Aligned_cols=23  Identities=22%  Similarity=0.420  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~~   51 (242)
T cd03295          29 FLVLIGPSGSGKTTTMKMINRLI   51 (242)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999987643

ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition, to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK10418 nikD nickel transporter ATP-binding protein NikD; Provisional

Probab=96.60  E-value=0.0028  Score=44.51  Aligned_cols=24  Identities=17%  Similarity=0.228  Sum_probs=20.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .++++|+.|+|||||++.+.+...
T Consensus        31 ~~~l~G~nGsGKSTLl~~l~Gl~~   54 (254)
T PRK10418         31 VLALVGGSGSGKSLTCAAALGILP   54 (254)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            588999999999999999876543

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=96.59  E-value=0.0022  Score=42.81  Aligned_cols=20  Identities=30%  Similarity=0.351  Sum_probs=18.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHh
Q psy9521          19 CVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~   38 (125)
                      +|++.|.+|+||||+..++.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            69999999999999999976

>PRK14242 phosphate transporter ATP-binding protein; Provisional

Probab=96.59  E-value=0.0022  Score=44.93  Aligned_cols=22  Identities=23%  Similarity=0.478  Sum_probs=19.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .++++|+.|+|||||++.+.+.
T Consensus        34 ~~~i~G~nGsGKSTLl~~l~Gl   55 (253)
T PRK14242         34 VTALIGPSGCGKSTFLRCLNRM   55 (253)
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            4899999999999999997653

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=96.59  E-value=0.0024  Score=44.51  Aligned_cols=23  Identities=26%  Similarity=0.354  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        31 ~~~i~G~nGsGKSTLl~~l~Gl~   53 (241)
T PRK14250         31 IYTIVGPSGAGKSTLIKLINRLI   53 (241)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            48899999999999999977654

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	125
1ksh_A	186	Complex Of Arl2 And Pde Delta, Crystal Form 2 (Nati		3e-09
1ksg_A	186	Complex Of Arl2 And Pde Delta, Crystal Form 1 Lengt		3e-09
3doe_A	192	Complex Of Arl2 And Bart, Crystal Form 1 Length = 1		3e-09
4goj_A	189	The Crystal Structure Of Full Length Arl3gppnhp In		3e-08
1fzq_A	181	Crystal Structure Of Murine Arl3-Gdp Length = 181		3e-08
3bh7_A	164	Crystal Structure Of The Rp2-Arl3 Complex Bound To		5e-08
1z6y_A	179	Structure Of Human Adp-Ribosylation Factor-Like 5 L		7e-08
1zj6_A	187	Crystal Structure Of Human Arl5 Length = 187		7e-08
2h16_A	183	Structure Of Human Adp-Ribosylation Factor-Like 5 (		8e-08
3lvr_E	497	The Crystal Structure Of Asap3 In Complex With Arf6		9e-08
2h17_A	181	Structure Of Human Adp-Ribosylation Factor-Like 5 (		9e-08
4gok_B	169	The Crystal Structure Of Arl2gppnhp In Complex With		1e-07
3bh6_A	164	Crystal Structure Of The Rp2-Arl3 Complex Bound To		4e-07
2k5u_A	181	Solution Structure Of Myirstoylated Yeast Arf1 Prot		7e-07
1mr3_F	181	Saccharomyces Cerevisiae Adp-Ribosylation Factor 2		8e-07
1rrg_A	181	Non-Myristoylated Rat Adp-Ribosylation Factor-1 Com		1e-06
1moz_A	183	Adp-Ribosylation Factor-Like 1 (Arl1) From Saccharo		1e-06
2h18_A	193	Structure Of Human Adp-Ribosylation Factor-Like 10b		1e-06
2a5d_A	175	Structural Basis For The Activation Of Cholera Toxi		1e-06
1e0s_A	174	Small G Protein Arf6-Gdp Length = 174		1e-06
3lrp_A	181	Crystal Structure Of Plasmodium Falciparum Adp-Ribo		1e-06
1hur_A	180	Human Adp-Ribosylation Factor 1 Complexed With Gdp,		2e-06
1ksj_A	186	Complex Of Arl2 And Pde Delta, Crystal Form 2 (Seme		2e-06
3n5c_A	162	Crystal Structure Of Arf6delta13 Complexed With Gdp		3e-06
4fme_C	160	Espg-Rab1-Arf6 Complex Length = 160		3e-06
3tjz_A	164	Crystal Structure Of Arf1 Bound To The GammaZETA-Co		3e-06
3aq4_A	184	Molecular Insights Into Plant Cell Proliferation Di		4e-06
3pcr_B	162	Structure Of Espg-Arf6 Complex Length = 162		6e-06
1yzg_A	179	Structure Of Human Adp-ribosylation Factor-like 8 L		7e-06
2al7_A	186	Structure Of Human Adp-Ribosylation Factor-Like 10c		8e-06
1z6x_A	180	Structure Of Human Adp-Ribosylation Factor 4 Length		8e-06
1zd9_A	188	Structure Of Human Adp-Ribosylation Factor-Like 10b		8e-06
1r4a_A	165	Crystal Structure Of Gtp-Bound Adp-Ribosylation Fac		1e-05
3o47_A	329	Crystal Structure Of Arfgap1-Arf1 Fusion Protein Le		1e-05
3vhx_A	172	The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesi		1e-05
2a5g_A	175	Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length		1e-05
2w83_A	165	Crystal Structure Of The Arf6 Gtpase In Complex Wit		1e-05
2ksq_A	181	The Myristoylated Yeast Arf1 In A Gtp And Bicelle B		3e-05
3rd1_A	178	Structure Of An Adp Ribosylation Factor From Entamo		3e-05
2b6h_A	192	Structure Of Human Adp-Ribosylation Factor 5 Length		5e-05
1re0_A	164	Structure Of Arf1-Gdp Bound To Sec7 Domain Complexe		7e-05
4bas_A	199	Structure Of The Arl6 Bbs3 Small Gtpase From Trypan		8e-05
4dcn_A	166	Crystal Structure Analysis Of The Arfaptin2 Bar Dom		1e-04
1upt_A	171	Structure Of A Complex Of The Golgin-245 Grip Domai		2e-04
2qtv_B	167	Structure Of Sec23-Sar1 Complexed With The Active F		2e-04
1m2o_B	190	Crystal Structure Of The Sec23-Sar1 Complex Length		3e-04
2h57_A	190	Crystal Structure Of Human Adp-Ribosylation Factor-		3e-04
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		5e-04
1j2j_A	166	Crystal Structure Of Gga1 Gat N-terminal Region In		7e-04

>pdb|1KSH|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 2 (Native) Length = 186

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 32/83 (38%), Positives = 47/83 (56%), Gaps = 8/83 (9%)
Query: 4  LVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQ 63
          L++   K   ++ E  +L+LGLDNAGKTT L        K + G +   I+ T+G NI  
Sbjct: 5  LLTILKKMKQKERELRLLMLGLDNAGKTTIL--------KKFNGEDVDTISPTLGFNIKT 56
Query: 64 IDINTVRLNFWDLGGQLELQSLW 86
          ++    +LN WD+GGQ  L+S W
Sbjct: 57 LEHRGFKLNIWDVGGQKSLRSYW 79

>pdb|1KSG|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 1 Length = 186

Iteration: 1
 Score = 57.0 bits (136), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 32/83 (38%), Positives = 47/83 (56%), Gaps = 8/83 (9%)
Query: 4  LVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQ 63
          L++   K   ++ E  +L+LGLDNAGKTT L        K + G +   I+ T+G NI  
Sbjct: 5  LLTILKKMKQKERELRLLMLGLDNAGKTTIL--------KKFNGEDVDTISPTLGFNIKT 56
Query: 64 IDINTVRLNFWDLGGQLELQSLW 86
          ++    +LN WD+GGQ  L+S W
Sbjct: 57 LEHRGFKLNIWDVGGQKSLRSYW 79

>pdb|3DOE|A Chain A, Complex Of Arl2 And Bart, Crystal Form 1 Length = 192

Iteration: 1
 Score = 56.6 bits (135), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 32/83 (38%), Positives = 47/83 (56%), Gaps = 8/83 (9%)
Query: 4  LVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQ 63
          L++   K   ++ E  +L+LGLDNAGKTT L        K + G +   I+ T+G NI  
Sbjct: 3  LLTILKKMKQKERELRLLMLGLDNAGKTTIL--------KKFNGEDIDTISPTLGFNIKT 54
Query: 64 IDINTVRLNFWDLGGQLELQSLW 86
          ++    +LN WD+GGQ  L+S W
Sbjct: 55 LEHRGFKLNIWDVGGQKSLRSYW 77

>pdb|4GOJ|A Chain A, The Crystal Structure Of Full Length Arl3gppnhp In Complex With Unc119a Length = 189

Iteration: 1
 Score = 53.5 bits (127), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 29/70 (41%), Positives = 38/70 (54%), Gaps = 8/70 (11%)
Query: 17 EFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDL 76
          E  +L+LGLDNAGKTT L        K     + S IT T G NI  +     +LN WD+
Sbjct: 17 EVRILLLGLDNAGKTTLL--------KQLASEDISHITPTQGFNIKSVQSQGFKLNVWDI 68
Query: 77 GGQLELQSLW 86
          GGQ +++  W
Sbjct: 69 GGQRKIRPYW 78

>pdb|1FZQ|A Chain A, Crystal Structure Of Murine Arl3-Gdp Length = 181

Iteration: 1
 Score = 53.5 bits (127), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 29/70 (41%), Positives = 38/70 (54%), Gaps = 8/70 (11%)
Query: 17 EFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDL 76
          E  +L+LGLDNAGKTT L        K     + S IT T G NI  +     +LN WD+
Sbjct: 16 EVRILLLGLDNAGKTTLL--------KQLASEDISHITPTQGFNIKSVQSQGFKLNVWDI 67
Query: 77 GGQLELQSLW 86
          GGQ +++  W
Sbjct: 68 GGQRKIRPYW 77

>pdb|3BH7|A Chain A, Crystal Structure Of The Rp2-Arl3 Complex Bound To Gdp-Alf4 Length = 164

Iteration: 1
 Score = 52.8 bits (125), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 29/70 (41%), Positives = 38/70 (54%), Gaps = 8/70 (11%)
Query: 17 EFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDL 76
          E  +L+LGLDNAGKTT L        K     + S IT T G NI  +     +LN WD+
Sbjct: 4  EVRILLLGLDNAGKTTLL--------KQLASEDISHITPTQGFNIKSVQSQGFKLNVWDI 55
Query: 77 GGQLELQSLW 86
          GGQ +++  W
Sbjct: 56 GGQRKIRPYW 65

>pdb|1Z6Y|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 Length = 179

Iteration: 1
 Score = 52.4 bits (124), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 30/76 (39%), Positives = 42/76 (55%), Gaps = 8/76 (10%)
Query: 12 MLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRL 71
          +    E  V+I+GLDNAGKTT L     +F+ N         + T+G N+ +I IN  R 
Sbjct: 11 LFNHQEHKVIIVGLDNAGKTTIL----YQFSMN----EVVHTSPTIGSNVEEIVINNTRF 62
Query: 72 NFWDLGGQLELQSLWD 87
            WD+GGQ  L+S W+
Sbjct: 63 LMWDIGGQESLRSSWN 78

>pdb|1ZJ6|A Chain A, Crystal Structure Of Human Arl5 Length = 187

Iteration: 1
 Score = 52.4 bits (124), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 30/76 (39%), Positives = 42/76 (55%), Gaps = 8/76 (10%)
Query: 12 MLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRL 71
          +    E  V+I+GLDNAGKTT L     +F+ N         + T+G N+ +I IN  R 
Sbjct: 11 LFNHQEHKVIIVGLDNAGKTTIL----YQFSMN----EVVHTSPTIGSNVEEIVINNTRF 62
Query: 72 NFWDLGGQLELQSLWD 87
            WD+GGQ  L+S W+
Sbjct: 63 LMWDIGGQESLRSSWN 78

>pdb|2H16|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 (Arl5) Length = 183

Iteration: 1
 Score = 52.0 bits (123), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 30/72 (41%), Positives = 41/72 (56%), Gaps = 8/72 (11%)
Query: 16 DEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWD 75
           E  V+I+GLDNAGKTT L     +F+ N         + T+G N+ +I IN  R   WD
Sbjct: 21 QEHKVIIVGLDNAGKTTIL----YQFSMN----EVVHTSPTIGSNVEEIVINNTRFLMWD 72
Query: 76 LGGQLELQSLWD 87
          +GGQ  L+S W+
Sbjct: 73 IGGQESLRSSWN 84

>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 = 52.0 bits (123), Expect = 9e-08,   Method: Composition-based stats.
 Identities = 30/76 (39%), Positives = 40/76 (52%), Gaps = 12/76 (15%)
Query: 13  LRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNIGQIDINTVR 70
           L   E  +L+LGLD AGKTT L          YK      +TT  TVG N+  +    V+
Sbjct: 318 LSNKEMRILMLGLDAAGKTTIL----------YKLKLGQSVTTIPTVGFNVETVTYKNVK 367
Query: 71  LNFWDLGGQLELQSLW 86
            N WD+GGQ +++ LW
Sbjct: 368 FNVWDVGGQDKIRPLW 383

>pdb|2H17|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 (Arl5) (Casp Target) Length = 181

Iteration: 1
 Score = 52.0 bits (123), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 30/72 (41%), Positives = 41/72 (56%), Gaps = 8/72 (11%)
Query: 16 DEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWD 75
           E  V+I+GLDNAGKTT L     +F+ N         + T+G N+ +I IN  R   WD
Sbjct: 20 QEHKVIIVGLDNAGKTTIL----YQFSMN----EVVHTSPTIGSNVEEIVINNTRFLMWD 71
Query: 76 LGGQLELQSLWD 87
          +GGQ  L+S W+
Sbjct: 72 IGGQESLRSSWN 83

>pdb|4GOK|B Chain B, The Crystal Structure Of Arl2gppnhp In Complex With Unc119a Length = 169

Iteration: 1
 Score = 51.6 bits (122), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 28/67 (41%), Positives = 39/67 (58%), Gaps = 8/67 (11%)
Query: 20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ 79
          +L+LGLDNAGKTT L        K + G +   I+ T+G NI  ++    +LN WD+GG 
Sbjct: 4  LLMLGLDNAGKTTIL--------KKFNGEDVDTISPTLGFNIKTLEHRGFKLNIWDVGGL 55
Query: 80 LELQSLW 86
            L+S W
Sbjct: 56 KSLRSYW 62

>pdb|3BH6|A Chain A, Crystal Structure Of The Rp2-Arl3 Complex Bound To Gppnhp Length = 164

Iteration: 1
 Score = 49.7 bits (117), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 28/70 (40%), Positives = 37/70 (52%), Gaps = 8/70 (11%)
Query: 17 EFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDL 76
          E  +L+LGLDNAGKTT L        K     + S IT T G NI  +     +LN WD+
Sbjct: 4  EVRILLLGLDNAGKTTLL--------KQLASEDISHITPTQGFNIKSVQSQGFKLNVWDI 55
Query: 77 GGQLELQSLW 86
          GG  +++  W
Sbjct: 56 GGLRKIRPYW 65

>pdb|2K5U|A Chain A, Solution Structure Of Myirstoylated Yeast Arf1 Protein, Gdp- Bound Length = 181

Iteration: 1
 Score = 48.9 bits (115), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 31/95 (32%), Positives = 44/95 (46%), Gaps = 12/95 (12%)
Query: 4  LVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNI 61
            S  +  +    E  +L++GLD AGKTT L          YK      ITT  T+G N+
Sbjct: 4  FASKLFSNLFGNKEMRILMVGLDGAGKTTVL----------YKLKLGEVITTIPTIGFNV 53
Query: 62 GQIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGV 96
            +    +    WD+GGQ  ++SLW    R+  GV
Sbjct: 54 ETVQYKNISFTVWDVGGQDRIRSLWRHYYRNTEGV 88

>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 = 48.5 bits (114), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 31/94 (32%), Positives = 44/94 (46%), Gaps = 12/94 (12%)
Query: 5  VSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNIG 62
           S  +  +    E  +L++GLD AGKTT L          YK      ITT  T+G N+ 
Sbjct: 5  ASKLFSNLFGNKEMRILMVGLDGAGKTTVL----------YKLKLGEVITTIPTIGFNVE 54
Query: 63 QIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGV 96
           +    +    WD+GGQ  ++SLW    R+  GV
Sbjct: 55 TVQYKNISFTVWDVGGQDRIRSLWRHYYRNTEGV 88

>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 = 29/98 (29%), Positives = 49/98 (50%), Gaps = 12/98 (12%)
Query: 1  MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVG 58
          M  + +  +K +  K E  +L++GLD AGKTT L          YK      +TT  T+G
Sbjct: 1  MGNIFANLFKGLFGKKEMRILMVGLDAAGKTTIL----------YKLKLGEIVTTIPTIG 50
Query: 59 LNIGQIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGV 96
           N+  ++   +    WD+GGQ +++ LW    ++  G+
Sbjct: 51 FNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGL 88

>pdb|1MOZ|A Chain A, Adp-Ribosylation Factor-Like 1 (Arl1) From Saccharomyces Cerevisiae Length = 183

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 31/83 (37%), Positives = 41/83 (49%), Gaps = 12/83 (14%)
Query: 6  SGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNIGQ 63
          S F K      E  +LILGLD AGKTT L          Y+      +TT  T+G N+  
Sbjct: 7  SMFDKLWGSNKELRILILGLDGAGKTTIL----------YRLQIGEVVTTKPTIGFNVET 56
Query: 64 IDINTVRLNFWDLGGQLELQSLW 86
          +    ++LN WDLGGQ  ++  W
Sbjct: 57 LSYKNLKLNVWDLGGQTSIRPYW 79

>pdb|2H18|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b (Arl10b) Length = 193

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 28/93 (30%), Positives = 50/93 (53%), Gaps = 12/93 (12%)
Query: 8   FYKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDI 66
           ++K +  K+E  + ++GL  +GKTT++   A  +F ++        +  TVG N+ +I  
Sbjct: 22  WFKALFWKEEMELTLVGLQYSGKTTFVNVIASGQFNED--------MIPTVGFNMRKITK 73
Query: 67  NTVRLNFWDLGGQLELQSLWDKDIRDCMGVREV 99
             V +  WD+GGQ   +S+W+   R C GV  +
Sbjct: 74  GNVTIKLWDIGGQPRFRSMWE---RYCRGVSAI 103

>pdb|2A5D|A Chain A, Structural Basis For The Activation Of Cholera Toxin By Human Arf6-Gtp Length = 175

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 29/72 (40%), Positives = 39/72 (54%), Gaps = 12/72 (16%)
Query: 17 EFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNIGQIDINTVRLNFW 74
          E  +L+LGLD AGKTT L          YK      +TT  TVG N+  +    V+ N W
Sbjct: 13 EMRILMLGLDAAGKTTIL----------YKLKLGQSVTTIPTVGFNVETVTYKNVKFNVW 62
Query: 75 DLGGQLELQSLW 86
          D+GGQ +++ LW
Sbjct: 63 DVGGQDKIRPLW 74

>pdb|1E0S|A Chain A, Small G Protein Arf6-Gdp Length = 174

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 29/72 (40%), Positives = 39/72 (54%), Gaps = 12/72 (16%)
Query: 17 EFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNIGQIDINTVRLNFW 74
          E  +L+LGLD AGKTT L          YK      +TT  TVG N+  +    V+ N W
Sbjct: 12 EMRILMLGLDAAGKTTIL----------YKLKLGQSVTTIPTVGFNVETVTYKNVKFNVW 61
Query: 75 DLGGQLELQSLW 86
          D+GGQ +++ LW
Sbjct: 62 DVGGQDKIRPLW 73

>pdb|3LRP|A Chain A, Crystal Structure Of Plasmodium Falciparum Adp-Ribosylation Factor 1 Length = 181

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 27/84 (32%), Positives = 44/84 (52%), Gaps = 12/84 (14%)
Query: 5  VSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNIG 62
          VS  +  + +K +  +L++GLD AGKTT L          YK      +TT  T+G N+ 
Sbjct: 5  VSRLFNRLFQKKDVRILMVGLDAAGKTTIL----------YKVKLGEVVTTIPTIGFNVE 54
Query: 63 QIDINTVRLNFWDLGGQLELQSLW 86
           ++   +    WD+GGQ +++ LW
Sbjct: 55 TVEFRNISFTVWDVGGQDKIRPLW 78

>pdb|1HUR|A Chain A, Human Adp-Ribosylation Factor 1 Complexed With Gdp, Full Length = 180

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 28/95 (29%), Positives = 48/95 (50%), Gaps = 12/95 (12%)
Query: 4  LVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNI 61
          + +  +K +  K E  +L++GLD AGKTT L          YK      +TT  T+G N+
Sbjct: 3  IFANLFKGLFGKKEMRILMVGLDAAGKTTIL----------YKLKLGEIVTTIPTIGFNV 52
Query: 62 GQIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGV 96
            ++   +    WD+GGQ +++ LW    ++  G+
Sbjct: 53 ETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGL 87

>pdb|1KSJ|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 2 (Semet) Length = 186

Iteration: 1
 Score = 47.0 bits (110), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 25/61 (40%), Positives = 34/61 (55%), Gaps = 8/61 (13%)
Query: 26 DNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSL 85
          DNAGKTT L        K + G +   I+ T+G NI  ++    +LN WD+GGQ  L+S 
Sbjct: 27 DNAGKTTIL--------KKFNGEDVDTISPTLGFNIKTLEHRGFKLNIWDVGGQKSLRSY 78
Query: 86 W 86
          W
Sbjct: 79 W 79

>pdb|3N5C|A Chain A, Crystal Structure Of Arf6delta13 Complexed With Gdp Length = 162

Iteration: 1
 Score = 47.0 bits (110), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 28/69 (40%), Positives = 38/69 (55%), Gaps = 12/69 (17%)
Query: 20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNIGQIDINTVRLNFWDLG 77
          +L+LGLD AGKTT L          YK      +TT  TVG N+  +    V+ N WD+G
Sbjct: 3  ILMLGLDAAGKTTIL----------YKLKLGQSVTTIPTVGFNVETVTYKNVKFNVWDVG 52
Query: 78 GQLELQSLW 86
          GQ +++ LW
Sbjct: 53 GQDKIRPLW 61

>pdb|4FME|C Chain C, Espg-Rab1-Arf6 Complex Length = 160

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 28/69 (40%), Positives = 38/69 (55%), Gaps = 12/69 (17%)
Query: 20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNIGQIDINTVRLNFWDLG 77
          +L+LGLD AGKTT L          YK      +TT  TVG N+  +    V+ N WD+G
Sbjct: 3  ILMLGLDAAGKTTIL----------YKLKLGQSVTTIPTVGFNVETVTYKNVKFNVWDVG 52
Query: 78 GQLELQSLW 86
          GQ +++ LW
Sbjct: 53 GQDKIRPLW 61

>pdb|3TJZ|A Chain A, Crystal Structure Of Arf1 Bound To The GammaZETA-Cop Core Complex Length = 164

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 29/79 (36%), Positives = 40/79 (50%), Gaps = 12/79 (15%)
Query: 20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNIGQIDINTVRLNFWDLG 77
          +L++GLD AGKTT L          YK      ITT  T+G N+  +    +    WD+G
Sbjct: 3  ILMVGLDGAGKTTVL----------YKLKLGEVITTIPTIGFNVETVQYKNISFTVWDVG 52
Query: 78 GQLELQSLWDKDIRDCMGV 96
          GQ  ++SLW    R+  GV
Sbjct: 53 GQDRIRSLWRHYYRNTEGV 71

>pdb|3AQ4|A Chain A, Molecular Insights Into Plant Cell Proliferation Disturbance By Agrobacterium Protein 6b Length = 184

Iteration: 1
 Score = 46.2 bits (108), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 27/91 (29%), Positives = 45/91 (49%), Gaps = 12/91 (13%)
Query: 8  FYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNIGQID 65
           +  +  K E  +L++GLD AGKTT L          YK      +TT  T+G N+  ++
Sbjct: 11 LFSRLFAKKEMRILMVGLDAAGKTTIL----------YKLKLGEIVTTIPTIGFNVETVE 60
Query: 66 INTVRLNFWDLGGQLELQSLWDKDIRDCMGV 96
             +    WD+GGQ +++ LW    ++  G+
Sbjct: 61 YKNISFTVWDVGGQDKIRPLWRHYFQNTQGL 91

>pdb|3PCR|B Chain B, Structure Of Espg-Arf6 Complex Length = 162

Iteration: 1
 Score = 45.8 bits (107), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 28/69 (40%), Positives = 37/69 (53%), Gaps = 12/69 (17%)
Query: 20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNIGQIDINTVRLNFWDLG 77
          +L LGLD AGKTT L          YK      +TT  TVG N+  +    V+ N WD+G
Sbjct: 3  ILXLGLDAAGKTTIL----------YKLKLGQSVTTIPTVGFNVETVTYKNVKFNVWDVG 52
Query: 78 GQLELQSLW 86
          GQ +++ LW
Sbjct: 53 GQDKIRPLW 61

>pdb|1YZG|A Chain A, Structure Of Human Adp-ribosylation Factor-like 8 Length = 179

Iteration: 1
 Score = 45.8 bits (107), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 27/72 (37%), Positives = 38/72 (52%), Gaps = 8/72 (11%)
Query: 16 DEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWD 75
           E  V+I+GLDNAGKTT L     +F  N         + T+G N+ +I +       WD
Sbjct: 15 QEHKVIIVGLDNAGKTTIL----YQFLMN----EVVHTSPTIGSNVEEIVVKNTHFLMWD 66
Query: 76 LGGQLELQSLWD 87
          +GGQ  L+S W+
Sbjct: 67 IGGQESLRSSWN 78

>pdb|2AL7|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10c Length = 186

Iteration: 1
 Score = 45.4 bits (106), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 26/86 (30%), Positives = 47/86 (54%), Gaps = 12/86 (13%)
Query: 15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNF 73
          K+E  + ++GL  +GKTT++   A  +F+++        +  TVG N+ ++    V +  
Sbjct: 20 KEEMELTLVGLQYSGKTTFVNVIASGQFSED--------MIPTVGFNMRKVTKGNVTIKI 71
Query: 74 WDLGGQLELQSLWDKDIRDCMGVREV 99
          WD+GGQ   +S+W+   R C GV  +
Sbjct: 72 WDIGGQPRFRSMWE---RYCRGVNAI 94

>pdb|1Z6X|A Chain A, Structure Of Human Adp-Ribosylation Factor 4 Length = 180

Iteration: 1
 Score = 45.4 bits (106), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 27/94 (28%), Positives = 46/94 (48%), Gaps = 12/94 (12%)
Query: 5  VSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNIG 62
          +S  +  +  K +  +L++GLD AGKTT L          YK      +TT  T+G N+ 
Sbjct: 5  ISSLFSRLFGKKQMRILMVGLDAAGKTTIL----------YKLKLGEIVTTIPTIGFNVE 54
Query: 63 QIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGV 96
           ++   +    WD+GGQ  ++ LW    ++  G+
Sbjct: 55 TVEYKNICFTVWDVGGQDRIRPLWKHYFQNTQGL 88

>pdb|1ZD9|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b Length = 188

Iteration: 1
 Score = 45.4 bits (106), Expect = 8e-06,   Method: Compositional matrix adjust.
 Identities = 27/86 (31%), Positives = 46/86 (53%), Gaps = 12/86 (13%)
Query: 15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNF 73
          K+E  + ++GL  +GKTT++   A  +F ++        +  TVG N+ +I    V +  
Sbjct: 20 KEEMELTLVGLQYSGKTTFVNVIASGQFNED--------MIPTVGFNMRKITKGNVTIKL 71
Query: 74 WDLGGQLELQSLWDKDIRDCMGVREV 99
          WD+GGQ   +S+W+   R C GV  +
Sbjct: 72 WDIGGQPRFRSMWE---RYCRGVSAI 94

>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 = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 26/72 (36%), Positives = 36/72 (50%), Gaps = 12/72 (16%)
Query: 17 EFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNIGQIDINTVRLNFW 74
          E  +LILGLD AGKTT L          Y+      +TT  T+G N+  +    ++   W
Sbjct: 2  EMRILILGLDGAGKTTIL----------YRLQVGEVVTTIPTIGFNVETVTYKNLKFQVW 51
Query: 75 DLGGQLELQSLW 86
          DLGGQ  ++  W
Sbjct: 52 DLGGQTSIRPYW 63

>pdb|3O47|A Chain A, Crystal Structure Of Arfgap1-Arf1 Fusion Protein Length = 329

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 27/84 (32%), Positives = 43/84 (51%), Gaps = 12/84 (14%)
Query: 15  KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNIGQIDINTVRLN 72
           K E  +L++GLD AGKTT L          YK      +TT  T+G N+  ++   +   
Sbjct: 163 KKEMRILMVGLDAAGKTTIL----------YKLKLGEIVTTIPTIGFNVETVEYKNISFT 212
Query: 73  FWDLGGQLELQSLWDKDIRDCMGV 96
            WD+GGQ +++ LW    ++  G+
Sbjct: 213 VWDVGGQDKIRPLWRHYFQNTQGL 236

>pdb|3VHX|A Chain A, The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesin-Like Protein 1) Complex Length = 172

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 28/72 (38%), Positives = 38/72 (52%), Gaps = 12/72 (16%)
Query: 17 EFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNIGQIDINTVRLNFW 74
          E  +L+LGLD AGKTT L          YK      +TT  TVG N+  +    V+ N W
Sbjct: 2  EMRILMLGLDAAGKTTIL----------YKLKLGQSVTTIPTVGFNVETVTYKNVKFNVW 51
Query: 75 DLGGQLELQSLW 86
          D+GG  +++ LW
Sbjct: 52 DVGGLDKIRPLW 63

>pdb|2A5G|A Chain A, Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length = 175

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 28/72 (38%), Positives = 38/72 (52%), Gaps = 12/72 (16%)
Query: 17 EFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNIGQIDINTVRLNFW 74
          E  +L+LGLD AGKTT L          YK      +TT  TVG N+  +    V+ N W
Sbjct: 13 EMRILMLGLDAAGKTTIL----------YKLKLGQSVTTIPTVGFNVETVTYKNVKFNVW 62
Query: 75 DLGGQLELQSLW 86
          D+GG  +++ LW
Sbjct: 63 DVGGLDKIRPLW 74

>pdb|2W83|A Chain A, Crystal Structure Of The Arf6 Gtpase In Complex With A Specific Effector, Jip4 Length = 165

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 28/72 (38%), Positives = 38/72 (52%), Gaps = 12/72 (16%)
Query: 17 EFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNIGQIDINTVRLNFW 74
          E  +L+LGLD AGKTT L          YK      +TT  TVG N+  +    V+ N W
Sbjct: 3  EMRILMLGLDAAGKTTIL----------YKLKLGQSVTTIPTVGFNVETVTYKNVKFNVW 52
Query: 75 DLGGQLELQSLW 86
          D+GG  +++ LW
Sbjct: 53 DVGGLDKIRPLW 64

>pdb|2KSQ|A Chain A, The Myristoylated Yeast Arf1 In A Gtp And Bicelle Bound Conformation Length = 181

Iteration: 1
 Score = 43.9 bits (102), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 28/85 (32%), Positives = 40/85 (47%), Gaps = 12/85 (14%)
Query: 4  LVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNI 61
            S  +  +    E  +L++GLD AGKTT L          YK      ITT  T+G N+
Sbjct: 4  FASKLFSNLFGNKEMRILMVGLDGAGKTTVL----------YKLKLGEVITTIPTIGFNV 53
Query: 62 GQIDINTVRLNFWDLGGQLELQSLW 86
            +    +    WD+GGQ  ++SLW
Sbjct: 54 ECVQYCNISFTVWDVGGQDRIRSLW 78

>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 = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 26/77 (33%), Positives = 41/77 (53%), Gaps = 12/77 (15%)
Query: 12 MLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNIGQIDINTV 69
          +L K E  +L++GLD AGKT+ L          YK      +TT  T+G N+  ++   +
Sbjct: 12 LLGKKEMRILMVGLDAAGKTSIL----------YKLKLGEIVTTIPTIGFNVETVEYKNI 61
Query: 70 RLNFWDLGGQLELQSLW 86
              WD+GGQ +++ LW
Sbjct: 62 SFTVWDVGGQDKIRPLW 78

>pdb|2B6H|A Chain A, Structure Of Human Adp-Ribosylation Factor 5 Length = 192

Iteration: 1
 Score = 42.7 bits (99), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 26/91 (28%), Positives = 45/91 (49%), Gaps = 12/91 (13%)
Query: 8   FYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNIGQID 65
            +  +  K +  +L++GLD AGKTT L          YK      +TT  T+G N+  ++
Sbjct: 20  LFSRIFGKKQMRILMVGLDAAGKTTIL----------YKLKLGEIVTTIPTIGFNVETVE 69
Query: 66  INTVRLNFWDLGGQLELQSLWDKDIRDCMGV 96
              +    WD+GGQ +++ LW    ++  G+
Sbjct: 70  YKNICFTVWDVGGQDKIRPLWRHYFQNTQGL 100

>pdb|1RE0|A Chain A, Structure Of Arf1-Gdp Bound To Sec7 Domain Complexed With Brefeldin A Length = 164

Iteration: 1
 Score = 42.4 bits (98), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 25/79 (31%), Positives = 41/79 (51%), Gaps = 12/79 (15%)
Query: 20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNIGQIDINTVRLNFWDLG 77
          +L++GLD AGKTT L          YK      +TT  T+G N+  ++   +    WD+G
Sbjct: 3  ILMVGLDAAGKTTIL----------YKLKLGEIVTTIPTIGFNVETVEYKNISFTVWDVG 52
Query: 78 GQLELQSLWDKDIRDCMGV 96
          GQ +++ LW    ++  G+
Sbjct: 53 GQDKIRPLWRHYFQNTQGL 71

>pdb|4BAS|A Chain A, Structure Of The Arl6 Bbs3 Small Gtpase From Trypanosoma Brucei With Bound Nucleotide Analogue Gppnp Length = 199

Iteration: 1
 Score = 42.0 bits (97), Expect = 8e-05,   Method: Compositional matrix adjust.
 Identities = 23/73 (31%), Positives = 37/73 (50%), Gaps = 6/73 (8%)
Query: 15 KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFW 74
          K +  V++ GLDN+GKTT +   K   +      +   IT TVG N+   +   V    +
Sbjct: 15 KTKLQVVMCGLDNSGKTTIINQVKPAQS------SSKHITATVGYNVETFEKGRVAFTVF 68
Query: 75 DLGGQLELQSLWD 87
          D+GG  + + LW+
Sbjct: 69 DMGGAKKFRGLWE 81

>pdb|4DCN|A Chain A, Crystal Structure Analysis Of The Arfaptin2 Bar Domain In Complex With Arl1 Length = 166

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 25/72 (34%), Positives = 35/72 (48%), Gaps = 12/72 (16%)
Query: 17 EFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNIGQIDINTVRLNFW 74
          E  +LILGLD AGKTT L          Y+      +TT  T+G N+  +    ++   W
Sbjct: 4  EMRILILGLDGAGKTTIL----------YRLQVGEVVTTIPTIGFNVETVTYKNLKFQVW 53
Query: 75 DLGGQLELQSLW 86
          DLGG   ++  W
Sbjct: 54 DLGGLTSIRPYW 65

>pdb|1UPT|A Chain A, Structure Of A Complex Of The Golgin-245 Grip Domain With Arl1 Length = 171

Iteration: 1
 Score = 40.8 bits (94), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 25/72 (34%), Positives = 35/72 (48%), Gaps = 12/72 (16%)
Query: 17 EFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNIGQIDINTVRLNFW 74
          E  +LILGLD AGKTT L          Y+      +TT  T+G N+  +    ++   W
Sbjct: 7  EXRILILGLDGAGKTTIL----------YRLQVGEVVTTIPTIGFNVETVTYKNLKFQVW 56
Query: 75 DLGGQLELQSLW 86
          DLGG   ++  W
Sbjct: 57 DLGGLTSIRPYW 68

>pdb|2QTV|B Chain B, Structure Of Sec23-Sar1 Complexed With The Active Fragment Of Sec31 Length = 167

Iteration: 1
 Score = 40.8 bits (94), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 27/77 (35%), Positives = 37/77 (48%), Gaps = 8/77 (10%)
Query: 20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ 79
          +L LGLDNAGKTT L   K         + P+   T+  L IG I   T     +DLGG 
Sbjct: 4  LLFLGLDNAGKTTLLHMLK---NDRLATLQPTWHPTSEELAIGNIKFTT-----FDLGGH 55
Query: 80 LELQSLWDKDIRDCMGV 96
          ++ + LW     +  G+
Sbjct: 56 IQARRLWKDYFPEVNGI 72

>pdb|1M2O|B Chain B, Crystal Structure Of The Sec23-Sar1 Complex Length = 190

Iteration: 1
 Score = 40.4 bits (93), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 27/77 (35%), Positives = 37/77 (48%), Gaps = 8/77 (10%)
Query: 20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ 79
          +L LGLDNAGKTT L   K         + P+   T+  L IG I   T     +DLGG 
Sbjct: 26 LLFLGLDNAGKTTLLHMLK---NDRLATLQPTWHPTSEELAIGNIKFTT-----FDLGGH 77
Query: 80 LELQSLWDKDIRDCMGV 96
          ++ + LW     +  G+
Sbjct: 78 IQARRLWKDYFPEVNGI 94

>pdb|2H57|A Chain A, Crystal Structure Of Human Adp-Ribosylation Factor-Like 6 Length = 190

Iteration: 1
 Score = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 38/71 (53%), Gaps = 6/71 (8%)
Query: 17 EFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDL 76
          E  VL LGLDN+GKTT +   K     N +  N   I  T+G +I +   +++    +D+
Sbjct: 21 EVHVLCLGLDNSGKTTIINKLK---PSNAQSQN---ILPTIGFSIEKFKSSSLSFTVFDM 74
Query: 77 GGQLELQSLWD 87
           GQ   ++LW+
Sbjct: 75 SGQGRYRNLWE 85

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score = 39.7 bits (91), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 36/111 (32%), Positives = 52/111 (46%), Gaps = 13/111 (11%)
Query: 3   TLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIG 62
           T+ SG +   LRK  F ++ LG  + GKT+ +    T+F   Y   + +    T+G++  
Sbjct: 2   TMSSGDFGNPLRK--FKLVFLGEQSVGKTSLI----TRFM--YDSFDNT-YQATIGIDFL 52
Query: 63  Q----IDINTVRLNFWDLGGQLELQSLWDKDIRDCMGVREVKPIFNKNSAH 109
                ++  TVRL  WD  GQ   +SL    IRD      V  I N NS H
Sbjct: 53  SKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFH 103

>pdb|1J2J|A Chain A, Crystal Structure Of Gga1 Gat N-terminal Region In Complex With Arf1 Gtp Form Length = 166

Iteration: 1
 Score = 38.9 bits (89), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 24/79 (30%), Positives = 40/79 (50%), Gaps = 12/79 (15%)
Query: 20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNIGQIDINTVRLNFWDLG 77
          +L++GLD AGKTT L          YK      +TT  T+G N+  ++   +    WD+G
Sbjct: 5  ILMVGLDAAGKTTIL----------YKLKLGEIVTTIPTIGFNVETVEYKNISFTVWDVG 54
Query: 78 GQLELQSLWDKDIRDCMGV 96
          G  +++ LW    ++  G+
Sbjct: 55 GLDKIRPLWRHYFQNTQGL 73

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	125
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	3e-26
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	2e-24
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	3e-24
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	4e-24
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	1e-23
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	5e-23
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	5e-23
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	4e-21
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	8e-21
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	3e-20
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	5e-20
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	4e-19
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	8e-19
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	7e-18
2fh5_B	214	SR-beta, signal recognition particle receptor beta	3e-12
2ged_A	193	SR-beta, signal recognition particle receptor beta	4e-11
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	5e-11
1nrj_B	218	SR-beta, signal recognition particle receptor beta	9e-11
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	3e-10
3llu_A	196	RAS-related GTP-binding protein C; structural geno	5e-09
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	5e-08
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	8e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-04
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	4e-04

>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 = 95.4 bits (238), Expect = 3e-26
 Identities = 38/170 (22%), Positives = 60/170 (35%), Gaps = 59/170 (34%)

Query: 4   LVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQ 63
           L++   K   ++ E  +L+LGLDNAGKTT L        K + G +   I+ T+G NI  
Sbjct: 5   LLTILKKMKQKERELRLLMLGLDNAGKTTIL--------KKFNGEDVDTISPTLGFNIKT 56

Query: 64  IDINTVRLNFWDLGGQLELQSLWDK----------------------------------- 88
           ++    +LN WD+GGQ  L+S W                                     
Sbjct: 57  LEHRGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEER 116

Query: 89  -------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT 125
                        D+   +    ++     +S   I      +   SA+T
Sbjct: 117 LAGATLLIFANKQDLPGALSCNAIQEALELDS---IRSHHWRIQGCSAVT 163

>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 = 90.7 bits (226), Expect = 2e-24
 Identities = 42/171 (24%), Positives = 55/171 (32%), Gaps = 60/171 (35%)

Query: 4   LVSGFYKYM-LRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIG 62
           L+S   K       E  +L+LGLDNAGKTT L        K     + S IT T G NI 
Sbjct: 2   LLSILRKLKSAPDQEVRILLLGLDNAGKTTLL--------KQLASEDISHITPTQGFNIK 53

Query: 63  QIDINTVRLNFWDLGGQLELQSLWDK---------------------------------- 88
            +     +LN WD+GGQ +++  W                                    
Sbjct: 54  SVQSQGFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEE 113

Query: 89  --------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT 125
                         D+       E+    N    H I  R   +   SALT
Sbjct: 114 KLSCVPVLIFANKQDLLTAAPASEIAEGLN---LHTIRDRVWQIQSCSALT 161

>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 = 90.4 bits (225), Expect = 3e-24
 Identities = 40/173 (23%), Positives = 58/173 (33%), Gaps = 60/173 (34%)

Query: 1   MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
           M  L +  ++ +    E  V+I+GLDNAGKTT L                   + T+G N
Sbjct: 1   MGILFTRIWR-LFNHQEHKVIIVGLDNAGKTTILYQFSMN--------EVVHTSPTIGSN 51

Query: 61  IGQIDINTVRLNFWDLGGQLELQSLWDK-------------------------------- 88
           + +I IN  R   WD+GGQ  L+S W+                                 
Sbjct: 52  VEEIVINNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLA 111

Query: 89  ----------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT 125
                           D+++CM V E+       S   I      +    ALT
Sbjct: 112 HEDLRKAGLLIFANKQDVKECMTVAEISQFLKLTS---IKDHQWHIQACCALT 161

>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 = 90.3 bits (225), Expect = 4e-24
 Identities = 30/172 (17%), Positives = 54/172 (31%), Gaps = 59/172 (34%)

Query: 2   YTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNI 61
           +   SG       K+E  + ++GL  +GKTT++    +       G     +  TVG N+
Sbjct: 8   HHHSSGLVP-RGSKEEMELTLVGLQYSGKTTFVNVIAS-------GQFNEDMIPTVGFNM 59

Query: 62  GQIDINTVRLNFWDLGGQLELQSLWDK--------------------------------- 88
            +I    V +  WD+GGQ   +S+W++                                 
Sbjct: 60  RKITKGNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDK 119

Query: 89  ---------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT 125
                          D+   +  +E+    N      I  R+     +S   
Sbjct: 120 PQLQGIPVLVLGNKRDLPGALDEKELIEKMN---LSAIQDREICCYSISCKE 168

>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 = 88.8 bits (221), Expect = 1e-23
 Identities = 40/173 (23%), Positives = 56/173 (32%), Gaps = 61/173 (35%)

Query: 1   MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN 60
            +   SG         E  V+I+GLDNAGKTT L          +        + T+G N
Sbjct: 7   HHHHSSGLVP--RGSQEHKVIIVGLDNAGKTTIL--------YQFSMNEVVHTSPTIGSN 56

Query: 61  IGQIDINTVRLNFWDLGGQLELQSLWDK-------------------------------- 88
           + +I IN  R   WD+GGQ  L+S W+                                 
Sbjct: 57  VEEIVINNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLA 116

Query: 89  ----------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT 125
                           D+++CM V E+       S   I      +    ALT
Sbjct: 117 HEDLRKAGLLIFANKQDVKECMTVAEISQFLKLTS---IKDHQWHIQACCALT 166

>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 = 87.3 bits (217), Expect = 5e-23
 Identities = 29/97 (29%), Positives = 41/97 (42%), Gaps = 9/97 (9%)

Query: 1  MYTLVSGFYKYML-RKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGL 59
          M  + S  +  +     E  +LILGLD AGKTT L           +         T+G 
Sbjct: 1  MGNIFSSMFDKLWGSNKELRILILGLDGAGKTTIL--------YRLQIGEVVTTKPTIGF 52

Query: 60 NIGQIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGV 96
          N+  +    ++LN WDLGGQ  ++  W     D   V
Sbjct: 53 NVETLSYKNLKLNVWDLGGQTSIRPYWRCYYADTAAV 89

>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 = 87.3 bits (217), Expect = 5e-23
 Identities = 30/172 (17%), Positives = 50/172 (29%), Gaps = 61/172 (35%)

Query: 4   LVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQ 63
             SG         E  VL LGLDN+GKTT +   K              I  T+G +I +
Sbjct: 10  HSSGLVP--RGSKEVHVLCLGLDNSGKTTIINKLKPS------NAQSQNILPTIGFSIEK 61

Query: 64  IDINTVRLNFWDLGGQLELQSLWDK----------------------------------- 88
              +++    +D+ GQ   ++LW+                                    
Sbjct: 62  FKSSSLSFTVFDMSGQGRYRNLWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPD 121

Query: 89  ---------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT 125
                          D+RD +   +V  +        I  +   +    A+ 
Sbjct: 122 IKHRRIPILFFANKMDLRDAVTSVKVSQLLC---LENIKDKPWHICASDAIK 170

>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 = 82.7 bits (205), Expect = 4e-21
 Identities = 23/89 (25%), Positives = 41/89 (46%), Gaps = 8/89 (8%)

Query: 8   FYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDIN 67
            +  +  K +  +L++GLD AGKTT L           K         T+G N+  ++  
Sbjct: 20  LFSRIFGKKQMRILMVGLDAAGKTTIL--------YKLKLGEIVTTIPTIGFNVETVEYK 71

Query: 68  TVRLNFWDLGGQLELQSLWDKDIRDCMGV 96
            +    WD+GGQ +++ LW    ++  G+
Sbjct: 72  NICFTVWDVGGQDKIRPLWRHYFQNTQGL 100

>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 = 81.9 bits (203), Expect = 8e-21
 Identities = 24/97 (24%), Positives = 43/97 (44%), Gaps = 9/97 (9%)

Query: 1  MYTLVSGFYKYM-LRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGL 59
          +Y+  S   +++ L K    ++ LGLDNAGKTT L           K     +   T+  
Sbjct: 8  IYSGFSSVLQFLGLYKKTGKLVFLGLDNAGKTTLL--------HMLKDDRLGQHVPTLHP 59

Query: 60 NIGQIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGV 96
             ++ I  +    +DLGG ++ + +W   +    G+
Sbjct: 60 TSEELTIAGMTFTTFDLGGHIQARRVWKNYLPAINGI 96

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major} Length = 189

 Score = 80.4 bits (199), Expect = 3e-20
 Identities = 26/99 (26%), Positives = 40/99 (40%), Gaps = 11/99 (11%)

Query: 1  MYTLVSGFYKYMLR---KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTV 57
          M   ++   + +       +  VL+LGLDNAGKT+ L              +      TV
Sbjct: 3  MGAWLASLKQTLGLLPADRKIRVLMLGLDNAGKTSIL--------YRLHLGDVVTTVPTV 54

Query: 58 GLNIGQIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGV 96
          G+N+  +    +    WDLGGQ  ++  W     D   V
Sbjct: 55 GVNLETLQYKNISFEVWDLGGQTGVRPYWRCYFSDTDAV 93

>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 = 80.2 bits (198), Expect = 5e-20
 Identities = 20/98 (20%), Positives = 40/98 (40%), Gaps = 8/98 (8%)

Query: 7   GFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGM---NPSKITTTVGLNIGQ 63
               +  R+  F ++  G   +GKTT L+   +K  +  KG      ++   T+  +   
Sbjct: 4   STINFANREINFKIVYYGPGLSGKTTNLKWIYSKVPEGRKGEMVSLATEDERTLFFDFLP 63

Query: 64  IDINTV-----RLNFWDLGGQLELQSLWDKDIRDCMGV 96
           +DI  V     R + + + GQ+   +     +R   G+
Sbjct: 64  LDIGEVKGFKTRFHLYTVPGQVFYNASRKLILRGVDGI 101

>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 = 76.8 bits (190), Expect = 4e-19
 Identities = 27/154 (17%), Positives = 46/154 (29%), Gaps = 59/154 (38%)

Query: 20  VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ 79
           +L++GLD AGKTT L           K         T+G N+  ++   +    WD+GGQ
Sbjct: 3   ILMVGLDAAGKTTIL--------YKLKLGEIVTTIPTIGFNVETVEYKNISFTVWDVGGQ 54

Query: 80  LELQSLWDK------------------------------------------------DIR 91
            +++ LW                                                  D+ 
Sbjct: 55  DKIRPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLP 114

Query: 92  DCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT 125
           + M   E+         H +  R+  +    A +
Sbjct: 115 NAMNAAEITDKLG---LHSLRHRNWYIQATCATS 145

>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 = 76.1 bits (188), Expect = 8e-19
 Identities = 23/84 (27%), Positives = 33/84 (39%), Gaps = 8/84 (9%)

Query: 13 LRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLN 72
              E  +LILGLD AGKTT L           +         T+G N+  +    ++  
Sbjct: 3  HMTREMRILILGLDGAGKTTIL--------YRLQVGEVVTTIPTIGFNVETVTYKNLKFQ 54

Query: 73 FWDLGGQLELQSLWDKDIRDCMGV 96
           WDLGG   ++  W     +   V
Sbjct: 55 VWDLGGLTSIRPYWRCYYSNTDAV 78

>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 = 74.1 bits (183), Expect = 7e-18
 Identities = 22/83 (26%), Positives = 33/83 (39%), Gaps = 8/83 (9%)

Query: 4  LVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQ 63
                   L      +L LGLDNAGKTT L           K    + +  T      +
Sbjct: 10 FRDVLASLGLWNKHGKLLFLGLDNAGKTTLL--------HMLKNDRLATLQPTWHPTSEE 61

Query: 64 IDINTVRLNFWDLGGQLELQSLW 86
          + I  ++   +DLGG ++ + LW
Sbjct: 62 LAIGNIKFTTFDLGGHIQARRLW 84

>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 = 59.8 bits (145), Expect = 3e-12
 Identities = 17/87 (19%), Positives = 28/87 (32%), Gaps = 12/87 (13%)

Query: 14 RKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINT---VR 70
          +  +  VL +GL ++GKT        +              T++  +     +N      
Sbjct: 4  KSSQRAVLFVGLCDSGKTLLF----VRLLTG----QYRDTQTSITDSSAIYKVNNNRGNS 55

Query: 71 LNFWDLGGQLEL-QSLWDKDIRDCMGV 96
          L   DL G   L   L D+       V
Sbjct: 56 LTLIDLPGHESLRFQLLDRFKSSARAV 82

>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 = 4e-11
 Identities = 13/75 (17%), Positives = 27/75 (36%), Gaps = 9/75 (12%)

Query: 14  RKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNF 73
              +  ++I G  N+GKT+ L    T  T +    +      +    +   D +   +  
Sbjct: 45  GSYQPSIIIAGPQNSGKTSLL----TLLTTD----SVRPTVVSQE-PLSAADYDGSGVTL 95

Query: 74  WDLGGQLELQSLWDK 88
            D  G ++L+     
Sbjct: 96  VDFPGHVKLRYKLSD 110

>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 = 55.9 bits (135), Expect = 9e-11
 Identities = 13/69 (18%), Positives = 26/69 (37%), Gaps = 9/69 (13%)

Query: 20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ 79
          ++I G  N+GKT+ L    T  T +    +      +    +   D +   +   D  G 
Sbjct: 15 IIIAGPQNSGKTSLL----TLLTTD----SVRPTVVSQE-PLSAADYDGSGVTLVDFPGH 65

Query: 80 LELQSLWDK 88
          ++L+     
Sbjct: 66 VKLRYKLSD 74

>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 = 54.9 bits (132), Expect = 3e-10
 Identities = 23/79 (29%), Positives = 37/79 (46%), Gaps = 8/79 (10%)

Query: 8   FYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDIN 67
             + +  K E  +L++GLD AGKTT L           K         T+G N+  ++  
Sbjct: 156 QPRGLFGKKEMRILMVGLDAAGKTTIL--------YKLKLGEIVTTIPTIGFNVETVEYK 207

Query: 68  TVRLNFWDLGGQLELQSLW 86
            +    WD+GGQ +++ LW
Sbjct: 208 NISFTVWDVGGQDKIRPLW 226

>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* Length = 196

 Score = 51.1 bits (122), Expect = 5e-09
 Identities = 14/82 (17%), Positives = 30/82 (36%), Gaps = 5/82 (6%)

Query: 6  SGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQID 65
          SG      +  +  +L++GL  +GK++  +                 + +T  +    I 
Sbjct: 9  SGRENLYFQGSKPRILLMGLRRSGKSSIQK----VVFHKMSPNETLFLESTNKIYKDDIS 64

Query: 66 INT-VRLNFWDLGGQLELQSLW 86
           ++ V    WD  GQ++     
Sbjct: 65 NSSFVNFQIWDFPGQMDFFDPT 86

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 307

 Score = 48.8 bits (116), Expect = 5e-08
 Identities = 16/76 (21%), Positives = 33/76 (43%), Gaps = 5/76 (6%)

Query: 20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQID-INTVRLNFWDLGG 78
          +L++G   +GK++        F  NY   +  ++  T+ +    +  +  + LN WD GG
Sbjct: 6  LLLMGRSGSGKSSMR---SIIF-SNYSAFDTRRLGATIDVEHSHLRFLGNMTLNLWDCGG 61

Query: 79 QLELQSLWDKDIRDCM 94
          Q      +    +D +
Sbjct: 62 QDVFMENYFTKQKDHI 77

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 331

 Score = 39.7 bits (92), Expect = 8e-05
 Identities = 14/67 (20%), Positives = 28/67 (41%), Gaps = 5/67 (7%)

Query: 20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ 79
          VL++G+   GK++     K  F  N + ++   + +T   ++       + L   +L GQ
Sbjct: 2  VLLMGVRRCGKSSIC---KVVF-HNMQPLDTLYLESTSNPSLEHFS-TLIDLAVMELPGQ 56

Query: 80 LELQSLW 86
          L      
Sbjct: 57 LNYFEPS 63

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 39.1 bits (90), Expect = 1e-04
 Identities = 18/83 (21%), Positives = 32/83 (38%), Gaps = 14/83 (16%)

Query: 43  KNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLG---------GQLELQSLWDKDIRDC 93
            N+K +N  K+TT +  ++  ++    R  F  L            L L  +W   I+  
Sbjct: 345 DNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTIL-LSLIWFDVIKSD 403

Query: 94  MGVREVKPIFNKNSAHLIGRRDC 116
             V  V    +K S  L+ ++  
Sbjct: 404 --VMVVVNKLHKYS--LVEKQPK 422

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 1qg4_A* 3ea5_A* 1qg2_A* 1byu_A* 3ran_A* 3gjx_C* ... Length = 221

 Score = 37.3 bits (87), Expect = 4e-04
 Identities = 20/101 (19%), Positives = 37/101 (36%), Gaps = 18/101 (17%)

Query: 1  MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGL 59
          M +   G  +       F ++++G    GKTT+++     +F K Y          T+G+
Sbjct: 4  MASAAQGEPQVQ-----FKLVLVGDGGTGKTTFVKRHLTGEFEKKYV--------ATLGV 50

Query: 60 NIG----QIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGV 96
           +       +   ++ N WD  GQ +   L D         
Sbjct: 51 EVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCA 91

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	125
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	99.89
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.87
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.87
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.85
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.84
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.83
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.83
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.82
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.81
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.79
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.78
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.76
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.76
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.76
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.76
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.76
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.76
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.75
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.75
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.75
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.74
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.74
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.74
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.74
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.74
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.74
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.74
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.74
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.74
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.74
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.73
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.73
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.73
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.73
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.73
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.73
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.73
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.73
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.73
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.73
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.73
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.73
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.73
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.73
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.73
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.73
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.72
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.72
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.72
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.72
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.72
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.72
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.72
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.72
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.72
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.72
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.72
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.72
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.72
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.72
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.72
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.71
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.71
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.71
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.71
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.71
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.71
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.71
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.71
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.71
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.71
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.7
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.7
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.7
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.7
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.7
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.7
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.7
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.7
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.7
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.69
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.69
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.69
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.68
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.68
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.68
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.68
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.68
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.67
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.67
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.66
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.66
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.66
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.66
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.65
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.64
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.64
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.64
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.64
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.64
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.43
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.62
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.61
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.6
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.59
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.58
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.53
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.5
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.49
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.47
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.46
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.46
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.44
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.44
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.43
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.41
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.41
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.4
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.38
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.36
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.35
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.34
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.32
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.28
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.27
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.27
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.25
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.25
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.24
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.24
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.23
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.23
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.22
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.21
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.19
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.17
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.17
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.17
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.17
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.16
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.16
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.16
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.15
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.15
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.13
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.13
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.12
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.12
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.11
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.09
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.09
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.08
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.08
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.07
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.06
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.06
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.05
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.05
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.05
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.05
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.03
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.02
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.0
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	98.98
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	98.93
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	98.93
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	98.91
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	98.91
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	98.91
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	98.9
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	98.89
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	98.85
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	98.82
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	98.82
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	98.81
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	98.76
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	98.73
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	98.73
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	98.73
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	98.73
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	98.71
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	98.7
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	98.7
1wxq_A	397	GTP-binding protein; structural genomics, riken st	98.69
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	98.65
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	98.6
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.56
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	98.55
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	98.53
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	98.53
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	98.51
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	98.5
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	98.48
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.45
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	98.45
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	98.43
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	98.41
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	98.29
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	98.28
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	98.27
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	98.27
2hf9_A	226	Probable hydrogenase nickel incorporation protein	98.18
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	97.99
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	97.89
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	97.73
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	97.6
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	97.58
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.48
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	97.45
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	97.45
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	97.42
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	97.4
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	97.37
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	97.31
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	97.31
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	97.3
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.29
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	97.27
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.26
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	97.26
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	97.24
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	97.23
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	97.21
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	97.2
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	97.2
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	97.18
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.17
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.13
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	97.12
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	97.1
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	97.09
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	97.08
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.07
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	97.07
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.06
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	97.06
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	97.05
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	97.05
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	97.04
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	97.04
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	97.04
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	97.03
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	97.03
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.03
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.01
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	97.01
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.01
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.01
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.0
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	97.0
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	97.0
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	97.0
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.0
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	96.99
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.98
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.98
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.97
1b0u_A	262	Histidine permease; ABC transporter, transport pro	96.97
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	96.95
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	96.95
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.95
1g6h_A	257	High-affinity branched-chain amino acid transport	96.95
1sgw_A	214	Putative ABC transporter; structural genomics, P p	96.94
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	96.94
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.94
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.93
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.93
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.92
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.92
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.92
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	96.91
1ji0_A	240	ABC transporter; ATP binding protein, structural g	96.91
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	96.9
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.89
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	96.89
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.89
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	96.89
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	96.88
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	96.88
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	96.87
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.87
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	96.87
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	96.86
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.85
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	96.85
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	96.85
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.84
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.84
2ghi_A	260	Transport protein; multidrug resistance protein, M	96.84
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	96.84
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.83
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.83
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.83
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	96.83
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.81
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.81
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.81
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.81
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	96.79
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	96.78
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.78
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.77
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.77
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.77
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	96.76
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.75
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	96.75
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.75
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.74
1via_A	175	Shikimate kinase; structural genomics, transferase	96.74
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.73
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	96.73
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.72
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.71
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	96.71
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.71
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.71
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.7
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.69
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	96.69
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.68
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.68
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	96.68
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	96.67
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.67
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	96.66
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	96.66
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	96.66
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.66
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	96.66
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	96.65
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.65
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.65
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.65
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.65
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	96.64
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.63
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.63
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	96.63
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.63
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	96.63
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.62
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.61
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	96.61
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.59
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	96.59
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.59
3bos_A	242	Putative DNA replication factor; P-loop containing	96.58
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.58
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	96.58
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.58
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.57
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	96.57
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.55
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	96.55
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	96.54
2chg_A	226	Replication factor C small subunit; DNA-binding pr	96.54
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.53
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.52
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	96.52
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	96.51
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	96.51
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.51
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	96.51
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.5
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	96.49
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.49
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.47
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.46
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.46
3kta_A	182	Chromosome segregation protein SMC; structural mai	96.46
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	96.46
2og2_A	359	Putative signal recognition particle receptor; nuc	96.45
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.45
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.44
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.44
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.43
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.43
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	96.4
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.39
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.39
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	96.38
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	96.36
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.36
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	96.34
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.33
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.32
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	96.32
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	96.31
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.3
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.29
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.27
1p9r_A	418	General secretion pathway protein E; bacterial typ	96.27
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	96.25
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	96.24
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.23
2ewv_A	372	Twitching motility protein PILT; pilus retraction	96.23
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.2
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	96.19
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	96.19
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	96.18
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	96.18
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.17
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	96.16
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	96.16
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	96.16
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	96.16
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	96.15
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	96.12
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	96.11
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	96.09
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	96.08
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	96.08
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	96.07
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	96.07
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	96.07
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	96.06
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	96.04
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	96.02
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	96.02
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	96.02
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	96.01
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	96.0
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.98
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	95.97
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	95.97
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.96
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.96
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.95
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	95.94
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	95.93
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	95.92
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	95.92
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	95.91
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	95.9
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	95.89
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	95.88
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	95.88
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	95.87
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	95.86
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	95.86
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	95.85
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	95.84
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	95.84
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.83
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	95.82
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.82
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	95.81
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	95.8
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	95.8
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	95.79
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	95.79
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	95.78
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	95.74
3co5_A	143	Putative two-component system transcriptional RES	95.74
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	95.71
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	95.69
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.69
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	95.69
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	95.68
2fna_A	357	Conserved hypothetical protein; structural genomic	95.67
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	95.66
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	95.64
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	95.64
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	95.63
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	95.62
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	95.62
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.6
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	95.6
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.6
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	95.58
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	95.58
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	95.57
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	95.57
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	95.55
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	95.55
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	95.51
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	95.51
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	95.5
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	95.46
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	95.43
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	95.42
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	95.41
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	95.41
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	95.4
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	95.4
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	95.39
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	95.38
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	95.35
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	95.34
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	95.34
1tue_A	212	Replication protein E1; helicase, replication, E1E	95.33
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	95.32
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	95.31
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	95.3
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	95.3
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	95.3
2qgz_A	308	Helicase loader, putative primosome component; str	95.28
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	95.25
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.24

>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=99.89  E-value=3.8e-23  Score=141.16  Aligned_cols=98  Identities=22%  Similarity=0.446  Sum_probs=70.8

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      -+++||+++|++|||||||++| +.+.|..++.        ||++.++.  .+..++  +++++|||+||++|+.+++. 
T Consensus        11 ~k~~KivlvGd~~VGKTsLi~r~~~~~f~~~~~--------~Tig~d~~~k~~~~~~~~v~l~iwDtaGqe~~~~l~~~~   82 (216)
T 4dkx_A           11 LRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQ--------ATIGIDFLSKTMYLEDRTIRLQLWDTAGLERFRSLIPSY   82 (216)
T ss_dssp             --CEEEEEECSTTSSHHHHHHHHHHSCCC------------------CEEEEEECSSCEEEEEEECCSCTTTCGGGHHHH
T ss_pred             CCcEEEEEECcCCcCHHHHHHHHHhCCCCCCcC--------CccceEEEEEEEEecceEEEEEEEECCCchhhhhHHHHH
Confidence            4679999999999999999999 7899998887        99998875  344444  88999999999999998876 


Q ss_pred             -----------cccCccCHHHHHHHHhhhcccccCCCCeEEEEee
Q psy9521          89 -----------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                                 |++++.||+++..|+..+  ......+++++.+-
T Consensus        83 ~~~a~~~ilv~di~~~~Sf~~i~~~~~~i--~~~~~~~~piilVg  125 (216)
T 4dkx_A           83 IRDSAAAVVVYDITNVNSFQQTTKWIDDV--RTERGSDVIIMLVG  125 (216)
T ss_dssp             HTTCSEEEEEEETTCHHHHHTHHHHHHHH--HHHHTTSSEEEEEE
T ss_pred             hccccEEEEEeecchhHHHHHHHHHHHHH--HHhcCCCCeEEEEe
Confidence                       999999999999999987  22233455555554

>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=99.87  E-value=1e-21  Score=130.13  Aligned_cols=96  Identities=34%  Similarity=0.568  Sum_probs=79.6

Q ss_pred             ChhhHHHHHhhhccCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCc
Q psy9521           1 MYTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ   79 (125)
Q Consensus         1 m~~~~~~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~   79 (125)
                      |+++++++++ +++++.+||+++|++|||||||+++ +.+.+. ++.        ||++.....+..+++.+.+||++|+
T Consensus         1 m~~~~~~~~~-~~~~~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~--------~t~~~~~~~~~~~~~~~~i~Dt~G~   70 (187)
T 1zj6_A            1 MGILFTRIWR-LFNHQEHKVIIVGLDNAGKTTILYQFSMNEVV-HTS--------PTIGSNVEEIVINNTRFLMWDIGGQ   70 (187)
T ss_dssp             -CHHHHHHHH-HHTTSCEEEEEEESTTSSHHHHHHHHHTTSCE-EEE--------CCSCSSCEEEEETTEEEEEEECCC-
T ss_pred             CchHHHHHHH-hcCCCccEEEEECCCCCCHHHHHHHHhcCCCC-cCc--------CCCccceEEEEECCEEEEEEECCCC
Confidence            8889999999 8888999999999999999999999 556655 444        8888887788888999999999999


Q ss_pred             ccccccccc------------cccCccCHHHHHHHHhhh
Q psy9521          80 LELQSLWDK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        80 ~~~~~~~~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      ++++.++..            |.++..||+++..|+..+
T Consensus        71 ~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~  109 (187)
T 1zj6_A           71 ESLRSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKM  109 (187)
T ss_dssp             ---CGGGHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHH
T ss_pred             HhHHHHHHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHH
Confidence            999888765            999999999999888776

>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=99.87  E-value=2.9e-21  Score=127.01  Aligned_cols=97  Identities=31%  Similarity=0.518  Sum_probs=80.4

Q ss_pred             ChhhHHHHHhhhcc-CceEEEEEEeCCCCcHHHHHHHH-hhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCC
Q psy9521           1 MYTLVSGFYKYMLR-KDEFCVLILGLDNAGKTTYLESA-KTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGG   78 (125)
Q Consensus         1 m~~~~~~~~~~~~~-~~~~ki~v~G~~~~GKTsl~~~i-~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G   78 (125)
                      |+++++++++.+|. ++.+||+++|++|||||||++++ .+.+ ..+.        ||++.....+..++..+.+||++|
T Consensus         1 mg~~~~~~~~~~~~~~~~~~i~v~G~~~~GKssli~~l~~~~~-~~~~--------~t~~~~~~~~~~~~~~~~i~Dt~G   71 (183)
T 1moz_A            1 MGNIFSSMFDKLWGSNKELRILILGLDGAGKTTILYRLQIGEV-VTTK--------PTIGFNVETLSYKNLKLNVWDLGG   71 (183)
T ss_dssp             -CHHHHHHHGGGTTCSSCEEEEEEEETTSSHHHHHHHTCCSEE-EEEC--------SSTTCCEEEEEETTEEEEEEEEC-
T ss_pred             CchHHHHHHHHhcCCCCccEEEEECCCCCCHHHHHHHHhcCCc-CccC--------CcCccceEEEEECCEEEEEEECCC
Confidence            88999999999998 89999999999999999999994 4555 4554        899888778888889999999999


Q ss_pred             cccccccccc------------cccCccCHHHHHHHHhhh
Q psy9521          79 QLELQSLWDK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        79 ~~~~~~~~~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      +++++..+..            |.++..+|+++..|+..+
T Consensus        72 ~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~  111 (183)
T 1moz_A           72 QTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLM  111 (183)
T ss_dssp             ---CCTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHH
T ss_pred             CHhHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence            9998887766            889999999999888776

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.85  E-value=5e-21  Score=126.83  Aligned_cols=97  Identities=29%  Similarity=0.440  Sum_probs=79.7

Q ss_pred             ChhhHHHHHh--hhcc-CceEEEEEEeCCCCcHHHHHHHH-hhccccccCCCCCCccccccceeeEEEEeCCEEEEEEEC
Q psy9521           1 MYTLVSGFYK--YMLR-KDEFCVLILGLDNAGKTTYLESA-KTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDL   76 (125)
Q Consensus         1 m~~~~~~~~~--~~~~-~~~~ki~v~G~~~~GKTsl~~~i-~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~   76 (125)
                      |+++++++++  .+|. ++.+||+++|++|||||||++++ .+.+.. +.        ||++.....+..++..+.+||+
T Consensus         3 m~~~~~~~~~~l~~f~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~-~~--------~t~~~~~~~~~~~~~~~~~~Dt   73 (189)
T 2x77_A            3 MGAWLASLKQTLGLLPADRKIRVLMLGLDNAGKTSILYRLHLGDVVT-TV--------PTVGVNLETLQYKNISFEVWDL   73 (189)
T ss_dssp             ---CCSCHHHHHHTSCTTSCEEEEEEEETTSSHHHHHHHTCCSCCEE-EC--------SSTTCCEEEEEETTEEEEEEEE
T ss_pred             hHHHHHHHHHHhhhccCCCceEEEEECCCCCCHHHHHHHHHcCCCCC-cC--------CCCceEEEEEEECCEEEEEEEC
Confidence            7777888888  6677 88999999999999999999995 555543 34        8888887788888999999999


Q ss_pred             CCcccccccccc------------cccCccCHHHHHHHHhhh
Q psy9521          77 GGQLELQSLWDK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        77 ~G~~~~~~~~~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      +|+++++.++..            |.+++.+|+++..|+..+
T Consensus        74 ~G~~~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~  115 (189)
T 2x77_A           74 GGQTGVRPYWRCYFSDTDAVIYVVDSTDRDRMGVAKHELYAL  115 (189)
T ss_dssp             CCSSSSCCCCSSSSTTCCEEEEEEETTCCTTHHHHHHHHHHH
T ss_pred             CCCHhHHHHHHHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHH
Confidence            999999887765            999999999998887765

>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=99.84  E-value=2.5e-20  Score=123.04  Aligned_cols=96  Identities=33%  Similarity=0.560  Sum_probs=70.6

Q ss_pred             hhhHHHHHhhhcc-CceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcc
Q psy9521           2 YTLVSGFYKYMLR-KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQL   80 (125)
Q Consensus         2 ~~~~~~~~~~~~~-~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~   80 (125)
                      .++++ +++.++. ++.+||+++|++|||||||++++.+.....+.        ||++.....+..++..+.+||++|++
T Consensus         3 mg~~~-~~~~~~~~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~Dt~G~~   73 (186)
T 1ksh_A            3 MGLLT-ILKKMKQKERELRLLMLGLDNAGKTTILKKFNGEDVDTIS--------PTLGFNIKTLEHRGFKLNIWDVGGQK   73 (186)
T ss_dssp             ---------------CCEEEEEECSTTSSHHHHHHHHTTCCCSSCC--------CCSSEEEEEEEETTEEEEEEEECCSH
T ss_pred             cchhH-HHHhhcccCCeeEEEEECCCCCCHHHHHHHHhcCCCCccc--------ccCccceEEEEECCEEEEEEECCCCH
Confidence            33444 6777776 78999999999999999999995433244444        89998888888889999999999999


Q ss_pred             cccccccc------------cccCccCHHHHHHHHhhh
Q psy9521          81 ELQSLWDK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        81 ~~~~~~~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      +++..+..            |++++.+|+++..|+..+
T Consensus        74 ~~~~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~  111 (186)
T 1ksh_A           74 SLRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSL  111 (186)
T ss_dssp             HHHTTGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHH
T ss_pred             hHHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHH
Confidence            98877766            999999999998887765

>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=99.83  E-value=5.8e-20  Score=122.33  Aligned_cols=112  Identities=22%  Similarity=0.379  Sum_probs=75.2

Q ss_pred             ChhhHHHHHhhh-ccCceEEEEEEeCCCCcHHHHHHHH-hhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCC
Q psy9521           1 MYTLVSGFYKYM-LRKDEFCVLILGLDNAGKTTYLESA-KTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGG   78 (125)
Q Consensus         1 m~~~~~~~~~~~-~~~~~~ki~v~G~~~~GKTsl~~~i-~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G   78 (125)
                      |+.++.++.+.+ +..+.+||+++|++|||||||++++ .+.+ .++.        ||++.+...+..+++.+.+||++|
T Consensus         6 ~~~~~~~~l~~~~~~~~~~ki~~vG~~~vGKSsli~~l~~~~~-~~~~--------~t~~~~~~~~~~~~~~~~i~Dt~G   76 (190)
T 1m2o_B            6 IFGWFRDVLASLGLWNKHGKLLFLGLDNAGKTTLLHMLKNDRL-ATLQ--------PTWHPTSEELAIGNIKFTTFDLGG   76 (190)
T ss_dssp             ------------------CEEEEEESTTSSHHHHHHHHHHSCC-CCCC--------CCCSCEEEEEEETTEEEEEEECCC
T ss_pred             HHHHHHHHHHHhhccCCccEEEEECCCCCCHHHHHHHHhcCCC-Cccc--------cCCCCCeEEEEECCEEEEEEECCC
Confidence            455666666666 4567899999999999999999995 4444 3444        888888778888899999999999


Q ss_pred             cccccccccc------------cccCccCHHHHHHHHhhhcccccCCCCeEEEEee
Q psy9521          79 QLELQSLWDK------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        79 ~~~~~~~~~~------------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                      +++++.++..            |++++.||+++..|+.++ .......+.|++.+.
T Consensus        77 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~-~~~~~~~~~piilv~  131 (190)
T 1m2o_B           77 HIQARRLWKDYFPEVNGIVFLVDAADPERFDEARVELDAL-FNIAELKDVPFVILG  131 (190)
T ss_dssp             SGGGTTSGGGGCTTCCEEEEEEETTCGGGHHHHHHHHHHH-HTCGGGTTCCEEEEE
T ss_pred             CHHHHHHHHHHHhcCCEEEEEEECCChHHHHHHHHHHHHH-HcchhhcCCCEEEEE
Confidence            9999887765            999999999999998877 222222344555443

>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=99.83  E-value=1.6e-20  Score=125.28  Aligned_cols=96  Identities=27%  Similarity=0.508  Sum_probs=75.0

Q ss_pred             hhhHHHHHhhhccCceEEEEEEeCCCCcHHHHHHHH-hhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcc
Q psy9521           2 YTLVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESA-KTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQL   80 (125)
Q Consensus         2 ~~~~~~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i-~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~   80 (125)
                      |+++..+++.++.++.+||+++|++|||||||++++ .+.+. ++.        ||++.....+..+++.+.+||++|++
T Consensus        14 ~~~~~~~~~~~~~~~~~ki~v~G~~~vGKSsLi~~l~~~~~~-~~~--------~t~~~~~~~~~~~~~~~~i~Dt~G~~   84 (192)
T 2b6h_A           14 LVPRGSLFSRIFGKKQMRILMVGLDAAGKTTILYKLKLGEIV-TTI--------PTIGFNVETVEYKNICFTVWDVGGQD   84 (192)
T ss_dssp             ---CCCGGGGTTTTSCEEEEEEESTTSSHHHHHHHHCSSCCE-EEE--------EETTEEEEEEEETTEEEEEEECC---
T ss_pred             cchHHHHHHHhccCCccEEEEECCCCCCHHHHHHHHHhCCcc-ccC--------CcCceeEEEEEECCEEEEEEECCCCH
Confidence            345567888888999999999999999999999995 55554 333        89998777788888999999999999


Q ss_pred             cccccccc------------cccCccCHHHHHHHHhhh
Q psy9521          81 ELQSLWDK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        81 ~~~~~~~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      +++.++..            |++++.+|+++..|+..+
T Consensus        85 ~~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~l~~~  122 (192)
T 2b6h_A           85 KIRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKM  122 (192)
T ss_dssp             --CTTHHHHHHTCCEEEEEEETTCGGGHHHHHHHHHHH
T ss_pred             hHHHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence            99887765            999999999999888765

>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=99.82  E-value=6.5e-20  Score=122.91  Aligned_cols=94  Identities=28%  Similarity=0.407  Sum_probs=70.3

Q ss_pred             HHHHHhhh-ccCceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccccc
Q psy9521           5 VSGFYKYM-LRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQ   83 (125)
Q Consensus         5 ~~~~~~~~-~~~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~   83 (125)
                      +.++++.+ +..+.+||+++|++|||||||++++.+.....+.        ||++.+...+..+++.+.+||++|+++++
T Consensus        12 ~~~~l~~~~~~~~~~ki~lvG~~~vGKSsLi~~l~~~~~~~~~--------~t~~~~~~~~~~~~~~l~i~Dt~G~~~~~   83 (198)
T 1f6b_A           12 FSSVLQFLGLYKKTGKLVFLGLDNAGKTTLLHMLKDDRLGQHV--------PTLHPTSEELTIAGMTFTTFDLGGHIQAR   83 (198)
T ss_dssp             -CHHHHHHTCTTCCEEEEEEEETTSSHHHHHHHHSCC--------------CCCCCSCEEEEETTEEEEEEEECC----C
T ss_pred             HHHHHHHhhccCCCcEEEEECCCCCCHHHHHHHHhcCCCCccC--------CCCCceeEEEEECCEEEEEEECCCcHhhH
Confidence            33455555 5578899999999999999999995433223444        88888777888889999999999999998


Q ss_pred             ccccc------------cccCccCHHHHHHHHhhh
Q psy9521          84 SLWDK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        84 ~~~~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      .++..            |++++.+|+++..|+..+
T Consensus        84 ~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~~  118 (198)
T 1f6b_A           84 RVWKNYLPAINGIVFLVDCADHERLLESKEELDSL  118 (198)
T ss_dssp             CGGGGGGGGCSEEEEEEETTCGGGHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence            88765            999999999999998876

>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=99.81  E-value=1.9e-19  Score=118.89  Aligned_cols=91  Identities=31%  Similarity=0.532  Sum_probs=74.8

Q ss_pred             HHhhhcc--CceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccccccc
Q psy9521           8 FYKYMLR--KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSL   85 (125)
Q Consensus         8 ~~~~~~~--~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~   85 (125)
                      +++.++.  .+.+||+++|++|||||||++++.+.....+.        ||.|.+...+..+++.+.+||++|+++++..
T Consensus         5 ~~~~~~~~~~~~~ki~ivG~~~vGKSsL~~~l~~~~~~~~~--------~t~g~~~~~~~~~~~~l~i~Dt~G~~~~~~~   76 (181)
T 1fzq_A            5 ILRKLKSAPDQEVRILLLGLDNAGKTTLLKQLASEDISHIT--------PTQGFNIKSVQSQGFKLNVWDIGGQRKIRPY   76 (181)
T ss_dssp             HHHHCSSCCSSCEEEEEEESTTSSHHHHHHHHCCSCCEEEE--------EETTEEEEEEEETTEEEEEEECSSCGGGHHH
T ss_pred             HHHHHhccCCCceEEEEECCCCCCHHHHHHHHhcCCCCccc--------CcCCeEEEEEEECCEEEEEEECCCCHHHHHH
Confidence            4445555  67899999999999999999996554444444        8999887788888999999999999999877


Q ss_pred             ccc------------cccCccCHHHHHHHHhhh
Q psy9521          86 WDK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        86 ~~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      |..            |++++.+|+++..|+..+
T Consensus        77 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~  109 (181)
T 1fzq_A           77 WRSYFENTDILIYVIDSADRKRFEETGQELTEL  109 (181)
T ss_dssp             HHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHH
T ss_pred             HHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHH
Confidence            654            999999999998887754

>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=99.79  E-value=9.3e-19  Score=116.04  Aligned_cols=87  Identities=30%  Similarity=0.589  Sum_probs=74.1

Q ss_pred             hccCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc--
Q psy9521          12 MLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        12 ~~~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      .+.++.+||+++|++|||||||+++ +.+.+...+.        ||++.++..+...++.+.+||++|+++++.++..  
T Consensus        17 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~   88 (188)
T 1zd9_A           17 RGSKEEMELTLVGLQYSGKTTFVNVIASGQFNEDMI--------PTVGFNMRKITKGNVTIKLWDIGGQPRFRSMWERYC   88 (188)
T ss_dssp             --CCEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCC--------CCCSEEEEEEEETTEEEEEEEECCSHHHHTTHHHHH
T ss_pred             cCCCCccEEEEECCCCCCHHHHHHHHHcCCCCCccC--------CCCceeEEEEEeCCEEEEEEECCCCHhHHHHHHHHH
Confidence            3557899999999999999999999 5666666665        9999998888888899999999999998877655  


Q ss_pred             ----------cccCccCHHHHHHHHhhh
Q psy9521          89 ----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~  106 (125)
                                |+++..+|+++..|+..+
T Consensus        89 ~~~d~ii~v~D~~~~~s~~~~~~~~~~~  116 (188)
T 1zd9_A           89 RGVSAIVYMVDAADQEKIEASKNELHNL  116 (188)
T ss_dssp             TTCSEEEEEEETTCGGGHHHHHHHHHHH
T ss_pred             ccCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                      999999999999888765

>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=99.78  E-value=5.2e-18  Score=110.05  Aligned_cols=83  Identities=30%  Similarity=0.488  Sum_probs=70.4

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHH-hhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc-----
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESA-KTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK-----   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i-~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~-----   88 (125)
                      ++.+||+++|++|||||||++++ .+.+. ++.        ||++.....+..++..+.+||++|+++++.++..     
T Consensus         5 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~--------~t~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~   75 (171)
T 1upt_A            5 TREMRILILGLDGAGKTTILYRLQVGEVV-TTI--------PTIGFNVETVTYKNLKFQVWDLGGLTSIRPYWRCYYSNT   75 (171)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHSSCC-CCC--------CCSSEEEEEEEETTEEEEEEEECCCGGGGGGGGGGCTTC
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-CcC--------CcCccceEEEEECCEEEEEEECCCChhhhHHHHHHhccC
Confidence            46799999999999999999995 55543 333        8889888888888999999999999999888765     


Q ss_pred             -------cccCccCHHHHHHHHhhh
Q psy9521          89 -------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -------Di~~~~s~~~i~~~l~~~  106 (125)
                             |.+++.+|+++..|+..+
T Consensus        76 d~ii~v~d~~~~~s~~~~~~~~~~~  100 (171)
T 1upt_A           76 DAVIYVVDSCDRDRIGISKSELVAM  100 (171)
T ss_dssp             SEEEEEEETTCCTTHHHHHHHHHHH
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHH
Confidence                   999999999998887765

>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=99.76  E-value=3e-18  Score=110.58  Aligned_cols=80  Identities=30%  Similarity=0.574  Sum_probs=67.5

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc--------
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK--------   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~--------   88 (125)
                      +||+++|++|||||||+++ +.+.+.. +.        ||++.....+..+++.+.+||++|+++++.++..        
T Consensus         1 ~ki~~~G~~~~GKssl~~~l~~~~~~~-~~--------~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~   71 (164)
T 1r8s_A            1 MRILMVGLDAAGKTTILYKLKLGEIVT-TI--------PTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGL   71 (164)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSC-CC--------CCSSCCEEEEECSSCEEEEEECCCCGGGHHHHHHHTTTCSEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCcCc-cc--------CcCceeEEEEEECCEEEEEEEcCCChhhHHHHHHHhccCCEE
Confidence            5899999999999999999 5566543 33        8888777777778899999999999998877655        


Q ss_pred             ----cccCccCHHHHHHHHhhh
Q psy9521          89 ----DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----Di~~~~s~~~i~~~l~~~  106 (125)
                          |++++.+|+++..|+..+
T Consensus        72 i~v~d~~~~~s~~~~~~~~~~~   93 (164)
T 1r8s_A           72 IFVVDSNDRERVNEAREELMRM   93 (164)
T ss_dssp             EEEEETTCGGGHHHHHHHHHHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHH
Confidence                999999999999888765

>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=99.76  E-value=3.7e-18  Score=112.45  Aligned_cols=84  Identities=37%  Similarity=0.569  Sum_probs=69.9

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc----
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      ..+.+||+++|++|||||||+++ +.+.+ ..+.        +|.+..+..+..++..+.+||++|+++++.++..    
T Consensus        18 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~--------~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~   88 (181)
T 2h17_A           18 GSQEHKVIIVGLDNAGKTTILYQFSMNEV-VHTS--------PTIGSNVEEIVINNTRFLMWDIGGQESLRSSWNTYYTN   88 (181)
T ss_dssp             ---CEEEEEEEETTSSHHHHHHHHHTTSC-EEEE--------CCSSSSCEEEEETTEEEEEEEESSSGGGTCGGGGGGTT
T ss_pred             CCceeEEEEECCCCCCHHHHHHHHhcCCC-CccC--------CcCceeeEEEEECCEEEEEEECCCCHhHHHHHHHHhcc
Confidence            35789999999999999999999 55555 4444        8888888888888999999999999999887766    


Q ss_pred             --------cccCccCHHHHHHHHhhh
Q psy9521          89 --------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~  106 (125)
                              |.++..+|+++..|+..+
T Consensus        89 ~d~ii~v~D~~~~~s~~~~~~~~~~~  114 (181)
T 2h17_A           89 TEFVIVVVDSTDRERISVTREELYKM  114 (181)
T ss_dssp             CCEEEEEEETTCTTTHHHHHHHHHHH
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                    999999999998887765

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.76  E-value=3.8e-18  Score=113.36  Aligned_cols=85  Identities=28%  Similarity=0.519  Sum_probs=71.6

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-Hhhcccc-ccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc---
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTK-NYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~-~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      .....||+++|++|||||||+++ +.+.+.. ++.        ||++..+..+...++.+.+||++|+++++.++..   
T Consensus        14 ~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~   85 (199)
T 4bas_A           14 SKTKLQVVMCGLDNSGKTTIINQVKPAQSSSKHIT--------ATVGYNVETFEKGRVAFTVFDMGGAKKFRGLWETYYD   85 (199)
T ss_dssp             --CEEEEEEECCTTSCHHHHHHHHSCCC----CCC--------CCSSEEEEEEEETTEEEEEEEECCSGGGGGGGGGGCT
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHhcCCCcccccc--------cccceeEEEEEeCCEEEEEEECCCCHhHHHHHHHHHh
Confidence            35788999999999999999999 5666666 555        9999888888888899999999999999888776   


Q ss_pred             ---------cccCccCHHHHHHHHhhh
Q psy9521          89 ---------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~  106 (125)
                               |+++..+|+++..|+..+
T Consensus        86 ~~d~ii~v~D~~~~~s~~~~~~~~~~~  112 (199)
T 4bas_A           86 NIDAVIFVVDSSDHLRLCVVKSEIQAM  112 (199)
T ss_dssp             TCSEEEEEEETTCGGGHHHHHHHHHHH
T ss_pred             cCCEEEEEEECCcHHHHHHHHHHHHHH
Confidence                     999999999999888876

>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=99.76  E-value=4.2e-18  Score=115.36  Aligned_cols=98  Identities=22%  Similarity=0.250  Sum_probs=76.3

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeC--CEEEEEEECCCcccccccccc--
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDIN--TVRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~--~~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      .+.+||+++|++|||||||+++ +.+.+...+.        ||++.++. .+..+  .+.+.+||++|+++++.++..  
T Consensus        25 ~~~~ki~vvG~~~vGKSsL~~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~   96 (214)
T 3q3j_B           25 VARCKLVLVGDVQCGKTAMLQVLAKDCYPETYV--------PTVFENYTACLETEEQRVELSLWDTSGSPYYDNVRPLCY   96 (214)
T ss_dssp             --CEEEEEECSTTSSHHHHHHHHHHSCCCSSCC--------CCSEEEEEEEEEC--CEEEEEEEEECCSGGGTTTGGGGC
T ss_pred             cceEEEEEECcCCCCHHHHHHHHhcCCCCCCcC--------CeeeeeEEEEEEECCEEEEEEEEECCCCHhHHHHHHHHc
Confidence            4689999999999999999999 6777777776        89988875 33333  388999999999999888876  


Q ss_pred             ----------cccCccCHHH-HHHHHhhhcccccCCCCeEEEEeec
Q psy9521          89 ----------DIRDCMGVRE-VKPIFNKNSAHLIGRRDCMVMPVSA  123 (125)
Q Consensus        89 ----------Di~~~~s~~~-i~~~l~~~~~~~~~~~~~~i~~~sA  123 (125)
                                |++++.||++ +..|+..+   .....+.+++.+..
T Consensus        97 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~i---~~~~~~~piilv~n  139 (214)
T 3q3j_B           97 SDSDAVLLCFDISRPETVDSALKKWRTEI---LDYCPSTRVLLIGC  139 (214)
T ss_dssp             TTCSEEEEEEETTCTHHHHHHHTHHHHHH---HHHCTTSEEEEEEE
T ss_pred             CCCeEEEEEEECcCHHHHHHHHHHHHHHH---HHhCCCCCEEEEEE
Confidence                      9999999999 68899988   22224556555543

>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=99.76  E-value=7.4e-18  Score=110.58  Aligned_cols=84  Identities=21%  Similarity=0.288  Sum_probs=70.6

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      .+.+||+++|++|||||||+++ +.+.+...+.        ||.+..+. .+..++  +.+.+||++|+++++.++..  
T Consensus         4 ~~~~ki~~~G~~~~GKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~   75 (181)
T 3t5g_A            4 SKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYD--------PTIENTFTKLITVNGQEYHLQLVDTAGQDEYSIFPQTYS   75 (181)
T ss_dssp             EEEEEEEEEESTTSSHHHHHHHHHHSSCCSCCC--------TTCCEEEEEEEEETTEEEEEEEEECCCCCTTCCCCGGGT
T ss_pred             CceEEEEEECcCCCCHHHHHHHHHcCCCCCCCC--------CCccccEEEEEEECCEEEEEEEEeCCCchhhhHHHHHHH
Confidence            4689999999999999999999 6677777776        88887764 445555  78899999999998877665  


Q ss_pred             ----------cccCccCHHHHHHHHhhh
Q psy9521          89 ----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~  106 (125)
                                |++++.+|+.+..|+..+
T Consensus        76 ~~~~~~i~v~d~~~~~s~~~~~~~~~~~  103 (181)
T 3t5g_A           76 IDINGYILVYSVTSIKSFEVIKVIHGKL  103 (181)
T ss_dssp             TTCSEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             hcCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                      999999999999998876

>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=99.76  E-value=6.6e-18  Score=111.48  Aligned_cols=85  Identities=27%  Similarity=0.369  Sum_probs=69.4

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      ....+||+++|++|||||||+++ +.+.+...+.        ||++..+. .+..++  +.+.+||++|+++|+.++.. 
T Consensus         4 ~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~   75 (184)
T 1m7b_A            4 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYV--------PTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLS   75 (184)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCC--------CCSEEEEEEEEECSSCEEEEEEEEECCSGGGTTTGGGG
T ss_pred             CceEEEEEEECCCCCCHHHHHHHHhcCCCCCCCC--------CccceeEEEEEEECCEEEEEEEEECCCChhhhhhHHhh
Confidence            35689999999999999999999 6677766666        88877764 444443  78999999999999887765 


Q ss_pred             -----------cccCccCHHHH-HHHHhhh
Q psy9521          89 -----------DIRDCMGVREV-KPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i-~~~l~~~  106 (125)
                                 |++++.+|+++ ..|+.++
T Consensus        76 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i  105 (184)
T 1m7b_A           76 YPDSDAVLICFDISRPETLDSVLKKWKGEI  105 (184)
T ss_dssp             CTTCSEEEEEEETTCHHHHHHHHHTHHHHH
T ss_pred             cCCCcEEEEEEECCCHHHHHHHHHHHHHHH
Confidence                       99999999999 6798877

>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=99.75  E-value=6.9e-18  Score=111.80  Aligned_cols=85  Identities=28%  Similarity=0.492  Sum_probs=70.1

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHH-hhc-cccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc---
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESA-KTK-FTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i-~~~-~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      ..+.+||+++|++|||||||++++ .+. +..++.        +|++.....+..++..+.+||++|+++++.++..   
T Consensus        18 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~   89 (190)
T 2h57_A           18 GSKEVHVLCLGLDNSGKTTIINKLKPSNAQSQNIL--------PTIGFSIEKFKSSSLSFTVFDMSGQGRYRNLWEHYYK   89 (190)
T ss_dssp             ---CEEEEEEECTTSSHHHHHHHTSCGGGCCSSCC--------CCSSEEEEEEECSSCEEEEEEECCSTTTGGGGGGGGG
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHhcCCCCCCCcC--------CccceeEEEEEECCEEEEEEECCCCHHHHHHHHHHHh
Confidence            357899999999999999999995 444 455555        8999887788888899999999999999887765   


Q ss_pred             ---------cccCccCHHHHHHHHhhh
Q psy9521          89 ---------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~  106 (125)
                               |.++..+|+++..|+..+
T Consensus        90 ~~d~ii~v~d~~~~~s~~~~~~~~~~~  116 (190)
T 2h57_A           90 EGQAIIFVIDSSDRLRMVVAKEELDTL  116 (190)
T ss_dssp             GCSEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                     889999999998887765

>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=6.3e-18  Score=111.99  Aligned_cols=85  Identities=21%  Similarity=0.183  Sum_probs=68.7

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      ..+++||+++|++|||||||+++ +.+.|...+.        ||.+.....+..++  +.+.+||++|+++++.+...  
T Consensus        17 ~~~~~ki~ivG~~~vGKSsL~~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~   88 (184)
T 3ihw_A           17 QGPELKVGIVGNLSSGKSALVHRYLTGTYVQEES--------PEGGRFKKEIVVDGQSYLLLIRDEGGPPELQFAAWVDA   88 (184)
T ss_dssp             CCCEEEEEEECCTTSCHHHHHHHHHHSSCCCCCC--------TTCEEEEEEEEETTEEEEEEEEECSSSCCHHHHHHCSE
T ss_pred             CCCeeEEEEECCCCCCHHHHHHHHhcCCCCCCcC--------CCcceEEEEEEECCEEEEEEEEECCCChhhheecCCCE
Confidence            45789999999999999999999 7777777665        77543334566666  78899999999987733322  


Q ss_pred             -----cccCccCHHHHHHHHhhh
Q psy9521          89 -----DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----Di~~~~s~~~i~~~l~~~  106 (125)
                           |++++.||+++..|+.++
T Consensus        89 ~i~v~d~~~~~s~~~~~~~~~~i  111 (184)
T 3ihw_A           89 VVFVFSLEDEISFQTVYNYFLRL  111 (184)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHH
Confidence                 999999999999999987

>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=99.75  E-value=1.1e-17  Score=111.17  Aligned_cols=85  Identities=21%  Similarity=0.301  Sum_probs=70.4

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      .++.+||+++|++|||||||+++ +.+.+...+.        ||++..+. .+..++  +.+.+||++|+++++.++.. 
T Consensus        20 ~~~~~ki~~vG~~~~GKSsl~~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~   91 (194)
T 3reg_A           20 GKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYV--------PTVFENFSHVMKYKNEEFILHLWDTAGQEEYDRLRPLS   91 (194)
T ss_dssp             -CEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCC--------CCSEEEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGG
T ss_pred             cceeeEEEEECcCCCCHHHHHHHHhcCCCCCccC--------CeeeeeeEEEEEECCEEEEEEEEECCCcHHHHHHhHhh
Confidence            35789999999999999999999 6677766666        88888875 344454  67899999999999888776 


Q ss_pred             -----------cccCccCHHHH-HHHHhhh
Q psy9521          89 -----------DIRDCMGVREV-KPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i-~~~l~~~  106 (125)
                                 |++++.+|+++ ..|+..+
T Consensus        92 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~  121 (194)
T 3reg_A           92 YADSDVVLLCFAVNNRTSFDNISTKWEPEI  121 (194)
T ss_dssp             CTTCSEEEEEEETTCHHHHHHHHHTHHHHH
T ss_pred             ccCCcEEEEEEECCCHHHHHHHHHHHHHHH
Confidence                       99999999998 5788877

>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=99.74  E-value=1.6e-17  Score=107.42  Aligned_cols=83  Identities=22%  Similarity=0.386  Sum_probs=68.5

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      +.+||+++|++|||||||+++ +.+.+...+.        ||.+.++.  .+..++  +.+.+||++|+++++.++..  
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~   73 (170)
T 1ek0_A            2 TSIKLVLLGEAAVGKSSIVLRFVSNDFAENKE--------PTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPXYY   73 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCC--------CCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHH
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCCCCC--------CccceeEEEEEEEECCEEEEEEEEECCCChhhhhhhhhhh
Confidence            468999999999999999999 6666666655        88887653  445544  78999999999998887665  


Q ss_pred             ----------cccCccCHHHHHHHHhhh
Q psy9521          89 ----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~  106 (125)
                                |++++.+++++..|+..+
T Consensus        74 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~  101 (170)
T 1ek0_A           74 RNAQAALVVYDVTKPQSFIKARHWVKEL  101 (170)
T ss_dssp             TTCSEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             ccCcEEEEEEecCChHHHHHHHHHHHHH
Confidence                      999999999999999877

>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=99.74  E-value=1.1e-17  Score=112.49  Aligned_cols=97  Identities=22%  Similarity=0.361  Sum_probs=75.2

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      ...+||+++|++|||||||+++ +.+.+...+.        +|++.++.  .+..++  +.+.+||++|+++++.++.. 
T Consensus        24 ~~~~ki~lvG~~~vGKSsLi~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~   95 (201)
T 2ew1_A           24 DFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQG--------ATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSY   95 (201)
T ss_dssp             SEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCC--------CCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGG
T ss_pred             ccceEEEEECcCCCCHHHHHHHHHhCCCCCCCC--------CccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHH
Confidence            4578999999999999999999 6677666655        88887764  455555  78999999999998876655 


Q ss_pred             -----------cccCccCHHHHHHHHhhhcccccCCCCeEEEEe
Q psy9521          89 -----------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPV  121 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~  121 (125)
                                 |+++..+|+++..|+..+  ........+++.+
T Consensus        96 ~~~~d~~i~v~D~~~~~s~~~~~~~~~~i--~~~~~~~~piilv  137 (201)
T 2ew1_A           96 YRSANALILTYDITCEESFRCLPEWLREI--EQYASNKVITVLV  137 (201)
T ss_dssp             STTCSEEEEEEETTCHHHHHTHHHHHHHH--HHHSCTTCEEEEE
T ss_pred             HhcCCEEEEEEECCCHHHHHHHHHHHHHH--HHhcCCCCCEEEE
Confidence                       999999999999999887  2222334454444

>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=99.74  E-value=9.3e-18  Score=108.33  Aligned_cols=83  Identities=17%  Similarity=0.338  Sum_probs=68.3

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeC--CEEEEEEECCCcccccccccc---
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDIN--TVRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~--~~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      +++||+++|++|||||||+++ +.+.+..++.        ||.+..+. .+..+  ++.+.+||++|++++..++..   
T Consensus         2 ~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~   73 (167)
T 1c1y_A            2 REYKLVVLGSGGVGKSALTVQFVQGIFVEKYD--------PTIEDSYRKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMK   73 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCSCC--------CCSEEEEEEEEESSSCEEEEEEEEECSSCSSTTHHHHHHH
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCCCC--------CCccceEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhc
Confidence            468999999999999999999 6666666665        88877664 33444  378999999999999887765   


Q ss_pred             ---------cccCccCHHHHHHHHhhh
Q psy9521          89 ---------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~  106 (125)
                               |++++.+|+++..|+..+
T Consensus        74 ~~d~~i~v~d~~~~~s~~~~~~~~~~i  100 (167)
T 1c1y_A           74 NGQGFALVYSITAQSTFNDLQDLREQI  100 (167)
T ss_dssp             HCSEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                     999999999999988776

>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=99.74  E-value=1.7e-17  Score=110.02  Aligned_cols=86  Identities=14%  Similarity=0.132  Sum_probs=66.1

Q ss_pred             ccCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc
Q psy9521          13 LRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK   88 (125)
Q Consensus        13 ~~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~   88 (125)
                      ...+.+||+++|++|||||||+++ +.+.|..++.        ||++..+. .+..++  +.+.+||++|+++++.+...
T Consensus        17 ~~~~~~ki~vvG~~~vGKTsLi~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~   88 (187)
T 3c5c_A           17 QGPLEVNLAILGRRGAGKSALTVKFLTKRFISEYD--------PNLEDTYSSEETVDHQPVHLRVMDTADLDTPRNCERY   88 (187)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHHHHHHSSCCSCCC--------TTCCEEEEEEEEETTEEEEEEEEECCC---CCCTHHH
T ss_pred             CCCceEEEEEECCCCCcHHHHHHHHHhCCCCcccC--------CCccceeeEEEEECCEEEEEEEEECCCCCcchhHHHH
Confidence            345789999999999999999999 6677777776        88887764 344444  78999999999988764222


Q ss_pred             -----------cccCccCHHHHHHHHhhh
Q psy9521          89 -----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~  106 (125)
                                 |++++.+|+++..|+.++
T Consensus        89 ~~~~~~~ilv~d~~~~~s~~~~~~~~~~i  117 (187)
T 3c5c_A           89 LNWAHAFLVVYSVDSRQSFDSSSSYLELL  117 (187)
T ss_dssp             HTTCSEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             HhhCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                       999999999999999887

>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=99.74  E-value=2.1e-17  Score=107.91  Aligned_cols=84  Identities=20%  Similarity=0.366  Sum_probs=70.3

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      .+.+||+++|++|||||||+++ +.+.+..++.        +|.+..+. .+..++  +.+.+||++|++++..++..  
T Consensus         7 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~   78 (181)
T 2fn4_A            7 SETHKLVVVGGGGVGKSALTIQFIQSYFVSDYD--------PTIEDSYTKICSVDGIPARLDILDTAGQEEFGAMREQYM   78 (181)
T ss_dssp             SCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCC--------TTCCEEEEEEEEETTEEEEEEEEECCCTTTTSCCHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCcCccccC--------CCcCceEEEEEEECCEEEEEEEEECCCchhhHHHHHHHH
Confidence            4679999999999999999999 6666666665        88887765 455555  68999999999999887765  


Q ss_pred             ----------cccCccCHHHHHHHHhhh
Q psy9521          89 ----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~  106 (125)
                                |+++..+|+++..|+..+
T Consensus        79 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~  106 (181)
T 2fn4_A           79 RAGHGFLLVFAINDRQSFNEVGKLFTQI  106 (181)
T ss_dssp             HHCSEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             hhCCEEEEEEeCCCHHHHHHHHHHHHHH
Confidence                      999999999999998876

>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=99.74  E-value=1.8e-17  Score=107.11  Aligned_cols=97  Identities=21%  Similarity=0.316  Sum_probs=74.1

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeC--CEEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDIN--TVRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~--~~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      .+.+||+++|++|||||||+++ +.+.+...+.        +|.+.++.  .+..+  ++.+.+||++|+++++.++.. 
T Consensus         4 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~   75 (170)
T 1r2q_A            4 ICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQE--------STIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMY   75 (170)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCC--------CCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHH
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHcCCCCCCCC--------CccceEEEEEEEEECCEEEEEEEEeCCCcHHhhhhhHHh
Confidence            4689999999999999999999 5666666555        78777654  44444  478999999999998877665 


Q ss_pred             -----------cccCccCHHHHHHHHhhhcccccCCCCeEEEEe
Q psy9521          89 -----------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPV  121 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~  121 (125)
                                 |++++.+|+++..|+..+  ......+++++.+
T Consensus        76 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~--~~~~~~~~~iilv  117 (170)
T 1r2q_A           76 YRGAQAAIVVYDITNEESFARAKNWVKEL--QRQASPNIVIALS  117 (170)
T ss_dssp             HTTCSEEEEEEETTCHHHHHHHHHHHHHH--HHHSCTTCEEEEE
T ss_pred             ccCCCEEEEEEECCCHHHHHHHHHHHHHH--HHhcCCCCcEEEE
Confidence                       999999999999998876  1222344555443

>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=99.74  E-value=1.5e-17  Score=109.25  Aligned_cols=85  Identities=16%  Similarity=0.288  Sum_probs=70.3

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      ..+.+||+++|++|||||||+++ +.+.+...+.        +|.+..+. .+..++  +.+.+||++|+++++.++.. 
T Consensus        15 ~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~   86 (183)
T 3kkq_A           15 NLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYD--------PTIEDSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQY   86 (183)
T ss_dssp             CCCEEEEEEECSTTSSHHHHHHHHHHSCCCSCCC--------TTCCEEEEEEEEETTEEEEEEEEECCSCGGGCSSHHHH
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCC--------CCccceeEEEEEeCCcEEEEEEEECCCchhhHHHHHHH
Confidence            45789999999999999999999 6666666666        78776664 444554  67888999999999887766 


Q ss_pred             -----------cccCccCHHHHHHHHhhh
Q psy9521          89 -----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~  106 (125)
                                 |++++.+|+++..|+..+
T Consensus        87 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~  115 (183)
T 3kkq_A           87 MRTGDGFLIVYSVTDKASFEHVDRFHQLI  115 (183)
T ss_dssp             HHHCSEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             HhcCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                       999999999999998877

>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=99.74  E-value=1.5e-17  Score=112.06  Aligned_cols=97  Identities=25%  Similarity=0.341  Sum_probs=74.7

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      ...+||+++|++|||||||+++ +.+.+..++.        ||++..+. .+..++  +.+.+||++|+++|+.++..  
T Consensus        26 ~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~   97 (205)
T 1gwn_A           26 NVKCKIVVVGDSQCGKTALLHVFAKDCFPENYV--------PTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSY   97 (205)
T ss_dssp             -CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCC--------CCSEEEEEEEEESSSSEEEEEEEEECCSGGGTTTGGGGC
T ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcC--------CccceeEEEEEEECCEEEEEEEEeCCCcHhhhHHHHhhc
Confidence            5689999999999999999999 6677766666        88887764 444443  88999999999999887765  


Q ss_pred             ----------cccCccCHHHH-HHHHhhhcccccCCCCeEEEEee
Q psy9521          89 ----------DIRDCMGVREV-KPIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 ----------Di~~~~s~~~i-~~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                                |++++.+|+++ ..|+.++ ....  .+.+++.+.
T Consensus        98 ~~~d~~ilv~D~~~~~s~~~~~~~~~~~i-~~~~--~~~piilv~  139 (205)
T 1gwn_A           98 PDSDAVLICFDISRPETLDSVLKKWKGEI-QEFC--PNTKMLLVG  139 (205)
T ss_dssp             TTCSEEEEEEETTCHHHHHHHHHTHHHHH-HHHC--TTCEEEEEE
T ss_pred             cCCCEEEEEEECCCHHHHHHHHHHHHHHH-HHHC--CCCCEEEEE
Confidence                      99999999999 6898887 2222  345555543

>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=99.74  E-value=8.2e-18  Score=112.77  Aligned_cols=84  Identities=21%  Similarity=0.402  Sum_probs=63.2

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      ...+||+++|++|||||||+++ +.+.+..++.        +|++.++.  .+..++  +.+.+||++|+++++.++.. 
T Consensus        27 ~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~   98 (201)
T 2hup_A           27 DFLFKLVLVGDASVGKTCVVQRFKTGAFSERQG--------STIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQSY   98 (201)
T ss_dssp             CEEEEEEEEECTTSSHHHHHHHHHHSCC------------------CEEEEEEEETTEEEEEEEECCTTCGGGHHHHHHH
T ss_pred             ccceEEEEECcCCCCHHHHHHHHhhCCCCCCCC--------CCcceEEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHH
Confidence            4578999999999999999999 5667766665        88876653  556665  79999999999999887665 


Q ss_pred             -----------cccCccCHHHHHHHHhhh
Q psy9521          89 -----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~  106 (125)
                                 |++++.+|+++..|+..+
T Consensus        99 ~~~~d~iilv~D~~~~~s~~~~~~~~~~i  127 (201)
T 2hup_A           99 YRSANGAILAYDITKRSSFLSVPHWIEDV  127 (201)
T ss_dssp             HTTCSEEEEEEETTBHHHHHTHHHHHHHH
T ss_pred             HhhCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                       999999999999999887

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.74  E-value=1.2e-17  Score=112.37  Aligned_cols=84  Identities=23%  Similarity=0.303  Sum_probs=69.0

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      .+.+||+++|++|||||||+++ +.+.+..++.        ||++..+. .+..++  +.+.+||++|+++++.++..  
T Consensus         7 ~~~~ki~i~G~~~~GKTsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~   78 (212)
T 2j0v_A            7 SKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYI--------PTVFDNFSANVAVDGQIVNLGLWDTAGQEDYSRLRPLSY   78 (212)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHSCCCSSCC--------CSSCCCEEEEEECSSCEEEEEEECCCCCCCCCC--CGGG
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCccCC--------CccceeEEEEEEECCEEEEEEEEECCCcHHHHHHHHhhc
Confidence            4689999999999999999999 6677776666        88877664 444544  79999999999999888765  


Q ss_pred             ----------cccCccCHHHHH-HHHhhh
Q psy9521          89 ----------DIRDCMGVREVK-PIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~-~~l~~~  106 (125)
                                |++++.+|+++. .|+..+
T Consensus        79 ~~~d~~ilv~d~~~~~s~~~~~~~~~~~~  107 (212)
T 2j0v_A           79 RGADIFVLAFSLISKASYENVLKKWMPEL  107 (212)
T ss_dssp             TTCSEEEEEEETTCHHHHHHHHHTHHHHH
T ss_pred             cCCCEEEEEEECCCHHHHHHHHHHHHHHH
Confidence                      999999999997 798887

>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=99.73  E-value=1.3e-17  Score=108.01  Aligned_cols=84  Identities=30%  Similarity=0.421  Sum_probs=63.1

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      .+.+||+++|++|||||||+++ +.+.+...+.        ||++.++.  .+..++  +.+.+||++|+++++.++.. 
T Consensus         4 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~   75 (170)
T 1z08_A            4 AYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHI--------TTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIY   75 (170)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHHHCCCCSSCC--------CCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCS
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHcCCCCcCCC--------CccceEEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHH
Confidence            4678999999999999999999 5566666555        88887764  444444  78999999999988877665 


Q ss_pred             -----------cccCccCHHHHHHHHhhh
Q psy9521          89 -----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~  106 (125)
                                 |+++..+++++..|+..+
T Consensus        76 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~  104 (170)
T 1z08_A           76 YRDSNGAILVYDITDEDSFQKVKNWVKEL  104 (170)
T ss_dssp             STTCSEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             hccCCEEEEEEECcCHHHHHHHHHHHHHH
Confidence                       999999999999998876

>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=99.73  E-value=5.2e-18  Score=111.47  Aligned_cols=84  Identities=21%  Similarity=0.466  Sum_probs=49.9

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      ...+||+++|++|||||||+++ +.+.+..++.        ||++.++.  .+..++  +.+.+||++|+++++.++.. 
T Consensus         6 ~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~   77 (183)
T 2fu5_C            6 DYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFI--------STIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAY   77 (183)
T ss_dssp             SEEEEEEEECCCCC----------------CHH--------HHHCEEEEEEEEEETTEEEEEEEEEC---------CCTT
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCCCCC--------CcccceeEEEEEEECCEEEEEEEEcCCCChhhhhhHHHH
Confidence            3578999999999999999999 5566665555        88887764  456666  88999999999998887665 


Q ss_pred             -----------cccCccCHHHHHHHHhhh
Q psy9521          89 -----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~  106 (125)
                                 |++++.+|+++..|+..+
T Consensus        78 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i  106 (183)
T 2fu5_C           78 YRGAMGIMLVYDITNEKSFDNIRNWIRNI  106 (183)
T ss_dssp             TTTCSEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             HhcCCEEEEEEECcCHHHHHHHHHHHHHH
Confidence                       999999999999999887

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

Probab=99.73  E-value=2.6e-17  Score=107.51  Aligned_cols=84  Identities=29%  Similarity=0.533  Sum_probs=68.3

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      .+.+||+++|++|||||||+++ +.+.+...+.        +|.+.++.  .+..++  +.+.+||++|++++..++.. 
T Consensus         7 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~   78 (181)
T 3tw8_B            7 DHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYI--------TTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTY   78 (181)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHCSCC---CCT--------TTBSEEEEEEEEEETTEEEEEEEEEETTGGGCSSCCGGG
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcCCCCCccC--------CCceeEEEEEEEEECCEEEEEEEEcCCCchhhhhhHHHH
Confidence            4678999999999999999999 5566665555        77776654  556666  88999999999999887766 


Q ss_pred             -----------cccCccCHHHHHHHHhhh
Q psy9521          89 -----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~  106 (125)
                                 |++++.+++++..|+..+
T Consensus        79 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~  107 (181)
T 3tw8_B           79 YRGTHGVIVVYDVTSAESFVNVKRWLHEI  107 (181)
T ss_dssp             GTTCSEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             hccCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                       999999999999999887

>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=99.73  E-value=2.1e-17  Score=108.69  Aligned_cols=84  Identities=25%  Similarity=0.453  Sum_probs=69.3

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      .+.+||+++|++|||||||+++ +.+.+...+.        +|++.++.  .+..++  +.+.+||++|+++++.++.. 
T Consensus         8 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~   79 (186)
T 2bme_A            8 DFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSN--------HTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSY   79 (186)
T ss_dssp             SEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCC--------CCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTT
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHcCCCCCCCC--------CccceEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHH
Confidence            4579999999999999999999 5666666655        78876654  455555  78999999999998776655 


Q ss_pred             -----------cccCccCHHHHHHHHhhh
Q psy9521          89 -----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~  106 (125)
                                 |++++.+|+++..|+..+
T Consensus        80 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~  108 (186)
T 2bme_A           80 YRGAAGALLVYDITSRETYNALTNWLTDA  108 (186)
T ss_dssp             STTCSEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             HhcCCEEEEEEECcCHHHHHHHHHHHHHH
Confidence                       999999999999998776

>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=99.73  E-value=2.6e-17  Score=106.01  Aligned_cols=83  Identities=20%  Similarity=0.392  Sum_probs=67.3

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc---
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      +++||+++|++|||||||+++ +.+.+...+.        +|.+..+. .+..++  +.+.+||++|++++..++..   
T Consensus         2 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~   73 (167)
T 1kao_A            2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYD--------PTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIK   73 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCCC--------TTCCEEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHH
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHcCCCcccCC--------CCcceeEEEEEEECCEEEEEEEEECCCchhhHHHHHHHhc
Confidence            468999999999999999999 6677666655        77665543 455554  67999999999998877665   


Q ss_pred             ---------cccCccCHHHHHHHHhhh
Q psy9521          89 ---------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~  106 (125)
                               |+.++.+++++..|+..+
T Consensus        74 ~~~~~i~v~d~~~~~s~~~~~~~~~~i  100 (167)
T 1kao_A           74 NGQGFILVYSLVNQQSFQDIKPMRDQI  100 (167)
T ss_dssp             HCSEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             cCCEEEEEEeCCCHHHHHHHHHHHHHH
Confidence                     999999999999988776

>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=99.73  E-value=3.5e-17  Score=108.23  Aligned_cols=99  Identities=22%  Similarity=0.390  Sum_probs=75.6

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      .+.+||+++|++|||||||+++ +.+.+...+.        +|.+.++.  .+..++  +.+.+||++|+++++.++.. 
T Consensus        13 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~   84 (195)
T 1x3s_A           13 LTTLKILIIGESGVGKSSLLLRFTDDTFDPELA--------ATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSY   84 (195)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCC--------CCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcCCCCccCC--------CccceEEEEEEEEECCeEEEEEEEeCCCchhhhhhhHHH
Confidence            3679999999999999999999 5666666665        88877664  444544  78999999999998887665 


Q ss_pred             -----------cccCccCHHHHHHHHhhhcccccCCCCeEEEEee
Q psy9521          89 -----------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                                 |++++.+++++..|+..+ .......+.+++.+.
T Consensus        85 ~~~~d~ii~v~d~~~~~s~~~~~~~~~~i-~~~~~~~~~p~ilv~  128 (195)
T 1x3s_A           85 YRGAQGVILVYDVTRRDTFVKLDNWLNEL-ETYCTRNDIVNMLVG  128 (195)
T ss_dssp             HTTCCEEEEEEETTCHHHHHTHHHHHHHH-TTCCSCSCCEEEEEE
T ss_pred             hccCCEEEEEEECcCHHHHHHHHHHHHHH-HHhcCcCCCcEEEEE
Confidence                       999999999999999887 222223445554443

>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=99.73  E-value=1.6e-17  Score=109.96  Aligned_cols=100  Identities=20%  Similarity=0.416  Sum_probs=74.2

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCccccc-cccc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQ-SLWD   87 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~-~~~~   87 (125)
                      ..+.+||+++|++|||||||+++ +.+.+...+.        +|++.++.  .+..++  +.+.+||++|+++++ .++.
T Consensus        17 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~   88 (189)
T 1z06_A           17 RSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTE--------ATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQ   88 (189)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCC--------CCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHH
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHcCCCCCCCC--------CCcceEEEEEEEEECCEEEEEEEEECCCchhhhhhhhH
Confidence            35789999999999999999999 5666666655        78776654  455555  789999999999887 5554


Q ss_pred             c------------cccCccCHHHHHHHHhhhcccccCCCCeEEEEee
Q psy9521          88 K------------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        88 ~------------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                      .            |+++..+|+++..|+..+ .......+.+++.+.
T Consensus        89 ~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i-~~~~~~~~~piilv~  134 (189)
T 1z06_A           89 HYYRNVHAVVFVYDMTNMASFHSLPAWIEEC-KQHLLANDIPRILVG  134 (189)
T ss_dssp             HHHTTCCEEEEEEETTCHHHHHTHHHHHHHH-HHHCCCSCCCEEEEE
T ss_pred             HHhcCCCEEEEEEECcCHHHHHHHHHHHHHH-HHhcCCCCCCEEEEE
Confidence            4            999999999999999887 222223344444443

>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=99.73  E-value=4.1e-17  Score=108.42  Aligned_cols=85  Identities=22%  Similarity=0.309  Sum_probs=69.7

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeC--CEEEEEEECCCcccccccccc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDIN--TVRLNFWDLGGQLELQSLWDK   88 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~--~~~~~i~D~~G~~~~~~~~~~   88 (125)
                      ..+.+||+++|++|||||||+++ +.+.+...+.        ||.+.++.  .+..+  .+.+.+||++|+++++.++..
T Consensus        20 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~   91 (192)
T 2fg5_A           20 AIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNIS--------PTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPM   91 (192)
T ss_dssp             -CEEEEEEEEECTTSSHHHHHHHHHHCCCCTTCC--------CCSSEEEEEEEEECSSSEEEEEEEEECCSGGGGGGTHH
T ss_pred             cCCceEEEEECcCCCCHHHHHHHHhcCCCCCCcC--------CCcceeEEEEEEEeCCEEEEEEEEcCCCchhhHhhhHH
Confidence            45789999999999999999999 5666665655        88887764  33333  488999999999999887765


Q ss_pred             ------------cccCccCHHHHHHHHhhh
Q psy9521          89 ------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ------------Di~~~~s~~~i~~~l~~~  106 (125)
                                  |++++.+|+++..|+..+
T Consensus        92 ~~~~~d~iilV~d~~~~~s~~~~~~~~~~i  121 (192)
T 2fg5_A           92 YYRGSAAAVIVYDITKQDSFYTLKKWVKEL  121 (192)
T ss_dssp             HHTTCSEEEEEEETTCTHHHHHHHHHHHHH
T ss_pred             hhccCCEEEEEEeCCCHHHHHHHHHHHHHH
Confidence                        999999999999999876

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.73  E-value=1.2e-17  Score=109.12  Aligned_cols=85  Identities=29%  Similarity=0.540  Sum_probs=70.8

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceee--EEEEeCC---EEEEEEECCCccccccccc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNI--GQIDINT---VRLNFWDLGGQLELQSLWD   87 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~--~~~~~~~---~~~~i~D~~G~~~~~~~~~   87 (125)
                      ..+.+||+++|++|||||||+++ +.+.+..++.        ||++.++  ..+..++   +.+.+||++|+++++.++.
T Consensus         3 ~~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~   74 (178)
T 2hxs_A            3 HMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYK--------QTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGGKMLD   74 (178)
T ss_dssp             CCCEEEEEEECCTTSSHHHHHHHHHGGGTTHHHH--------HTTTSSEEEEEEEETTTEEEEEEEEECTTCCTTCTTHH
T ss_pred             CCceEEEEEECcCCCCHHHHHHHHHhCcCCCCCC--------CceeEEEEEEEEEeCCCCEEEEEEEECCCCccccchhh
Confidence            35789999999999999999999 5666666665        8887554  3566655   8999999999999988776


Q ss_pred             c------------cccCccCHHHHHHHHhhh
Q psy9521          88 K------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        88 ~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      .            |++++.+|+++..|+.++
T Consensus        75 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i  105 (178)
T 2hxs_A           75 KYIYGAQGVLLVYDITNYQSFENLEDWYTVV  105 (178)
T ss_dssp             HHHTTCSEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             HHHhhCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence            6            999999999999998876

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.73  E-value=2.1e-17  Score=110.50  Aligned_cols=86  Identities=21%  Similarity=0.279  Sum_probs=69.1

Q ss_pred             ccCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEe--CCEEEEEEECCCcccccccccc
Q psy9521          13 LRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDI--NTVRLNFWDLGGQLELQSLWDK   88 (125)
Q Consensus        13 ~~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~--~~~~~~i~D~~G~~~~~~~~~~   88 (125)
                      ...+.+||+++|++|||||||+++ +.+.+...+.        +|.+..+. .+..  .++.+.+||++|+++++.++..
T Consensus        20 ~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~   91 (201)
T 3oes_A           20 PLVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYD--------PTVENTYSKIVTLGKDEFHLHLVDTAGQDEYSILPYS   91 (201)
T ss_dssp             ---CEEEEEEEESTTSSHHHHHHHHHHSCCCSCCC--------CCSEEEEEEEEC----CEEEEEEEECCCCTTCCCCGG
T ss_pred             CCCCcEEEEEECCCCcCHHHHHHHHHhCCCCCCCC--------CccceEEEEEEEECCEEEEEEEEECCCccchHHHHHH
Confidence            345789999999999999999999 6677776665        88877664 2222  3588999999999999887766


Q ss_pred             ------------cccCccCHHHHHHHHhhh
Q psy9521          89 ------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ------------Di~~~~s~~~i~~~l~~~  106 (125)
                                  |+++..+|+++..|+..+
T Consensus        92 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i  121 (201)
T 3oes_A           92 FIIGVHGYVLVYSVTSLHSFQVIESLYQKL  121 (201)
T ss_dssp             GTTTCCEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             HHhcCCEEEEEEeCCCHHHHHHHHHHHHHH
Confidence                        999999999999999887

>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=99.73  E-value=3.9e-17  Score=106.90  Aligned_cols=85  Identities=22%  Similarity=0.357  Sum_probs=69.1

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK   88 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~   88 (125)
                      +.+.+||+++|++|||||||+++ +.+.+...+.        +|++.++.  .+..++  +.+.+||++|+++++.++..
T Consensus         9 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~   80 (181)
T 2efe_B            9 KSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQE--------STIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPM   80 (181)
T ss_dssp             -CEEEEEEEECCTTSCHHHHHHHHHHCCCTTTSC--------CCSCCSEEEEEEEETTEEEEEEEEECCCSGGGGGGTHH
T ss_pred             CccceEEEEECcCCCCHHHHHHHHHcCCCCCcCC--------CCceeEEEEEEEEECCEEEEEEEEeCCCChhhhhhhHH
Confidence            45789999999999999999999 6666665555        77776654  444443  78999999999999887765


Q ss_pred             ------------cccCccCHHHHHHHHhhh
Q psy9521          89 ------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ------------Di~~~~s~~~i~~~l~~~  106 (125)
                                  |+++..+|+++..|+..+
T Consensus        81 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~  110 (181)
T 2efe_B           81 YYRGAAAAIIVFDVTNQASFERAKKWVQEL  110 (181)
T ss_dssp             HHTTCSEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             HhccCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                        999999999999999887

>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=99.73  E-value=4.2e-17  Score=105.49  Aligned_cols=84  Identities=20%  Similarity=0.304  Sum_probs=69.1

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      .+.+||+++|++|||||||+++ +.+.+...+.        ||.+.++.  .+..++  ..+.+||++|+++++.++.. 
T Consensus         4 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~   75 (170)
T 1z0j_A            4 LRELKVCLLGDTGVGKSSIMWRFVEDSFDPNIN--------PTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMY   75 (170)
T ss_dssp             EEEEEEEEECCTTSSHHHHHHHHHHSCCCTTCC--------CCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHH
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHcCCCCCCCC--------CceeEEEEEEEEEECCeEEEEEEEcCCCchhhhcccHhh
Confidence            3579999999999999999999 5666666655        88887664  444444  78999999999998887655 


Q ss_pred             -----------cccCccCHHHHHHHHhhh
Q psy9521          89 -----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~  106 (125)
                                 |++++.+++++..|+..+
T Consensus        76 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~l  104 (170)
T 1z0j_A           76 YRGSAAAIIVYDITKEETFSTLKNWVREL  104 (170)
T ss_dssp             HTTCSEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             CcCCCEEEEEEECcCHHHHHHHHHHHHHH
Confidence                       999999999999998877

>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=99.73  E-value=3.6e-17  Score=107.58  Aligned_cols=84  Identities=20%  Similarity=0.370  Sum_probs=65.6

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      ++++||+++|++|||||||+++ +.+.+...+.        +|.+..+. .+..++  +.+.+||++|++++..++..  
T Consensus         2 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~   73 (189)
T 4dsu_A            2 STEYKLVVVGADGVGKSALTIQLIQNHFVDEYD--------PTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYM   73 (189)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHHSSCCCCCC--------TTCCEEEEEEEEETTEEEEEEEEECCCC---CTTHHHHH
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHhCCCCCCCC--------CCchheEEEEEEECCcEEEEEEEECCCcHHHHHHHHHHH
Confidence            4689999999999999999999 5666666655        66655543 445555  66889999999999888776  


Q ss_pred             ----------cccCccCHHHHHHHHhhh
Q psy9521          89 ----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~  106 (125)
                                |+.++.+|+++..|+..+
T Consensus        74 ~~~~~~i~v~d~~~~~s~~~~~~~~~~~  101 (189)
T 4dsu_A           74 RTGEGFLCVFAINNTKSFEDIHHYREQI  101 (189)
T ss_dssp             HHCSEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             hcCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                      999999999999998877

>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=99.73  E-value=2.3e-17  Score=109.87  Aligned_cols=89  Identities=25%  Similarity=0.347  Sum_probs=66.9

Q ss_pred             HhhhccCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccc
Q psy9521           9 YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQS   84 (125)
Q Consensus         9 ~~~~~~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~   84 (125)
                      ++.....+.+||+++|++|||||||+++ +.+.+...+.        ||.+..+. .+..++  +.+.+||++|+++ ..
T Consensus        20 ~~~~~~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~-~~   90 (196)
T 2atv_A           20 FQSMAKSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYD--------PTLESTYRHQATIDDEVVSMEILDTAGQED-TI   90 (196)
T ss_dssp             -------CCEEEEEECCTTSSHHHHHHHHHHSCCCSCCC--------TTCCEEEEEEEEETTEEEEEEEEECCCCCC-CH
T ss_pred             hhccCCCCceEEEEECCCCCCHHHHHHHHHhCCCCcccC--------CCCCceEEEEEEECCEEEEEEEEECCCCCc-cc
Confidence            4444556789999999999999999999 6677766666        88887764 355554  7899999999987 44


Q ss_pred             cccc------------cccCccCHHHHHHHHhhh
Q psy9521          85 LWDK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        85 ~~~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      ++..            |++++.+|+++..|+..+
T Consensus        91 ~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i  124 (196)
T 2atv_A           91 QREGHMRWGEGFVLVYDITDRGSFEEVLPLKNIL  124 (196)
T ss_dssp             HHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             chhhhhccCCEEEEEEECcCHHHHHHHHHHHHHH
Confidence            4333            999999999999998876

>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=99.73  E-value=1.6e-17  Score=108.73  Aligned_cols=83  Identities=11%  Similarity=0.103  Sum_probs=65.1

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      .+.+||+++|++|||||||+++ +.+.|.. +.        ||++..+. .+..++  +.+.+||++|++++..+...  
T Consensus         5 ~~~~ki~~vG~~~vGKTsli~~l~~~~~~~-~~--------~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~d~   75 (178)
T 2iwr_A            5 IPELRLGVLGDARSGKSSLIHRFLTGSYQV-LE--------KTESEQYKKEMLVDGQTHLVLIREEAGAPDAKFSGWADA   75 (178)
T ss_dssp             CCEEEEEEECCGGGCHHHHHHHHHHSCCCC-CS--------SCSSSEEEEEEEETTEEEEEEEEECSSSCCHHHHHHCSE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCC-cC--------CCcceeEEEEEEECCEEEEEEEEECCCCchhHHHHhCCE
Confidence            4689999999999999999999 5666654 54        78876654 455555  78999999999875444333  


Q ss_pred             -----cccCccCHHHHHHHHhhh
Q psy9521          89 -----DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----Di~~~~s~~~i~~~l~~~  106 (125)
                           |++++.||+++..|++.+
T Consensus        76 ~ilv~D~~~~~s~~~~~~~~~~i   98 (178)
T 2iwr_A           76 VIFVFSLEDENSFQAVSRLHGQL   98 (178)
T ss_dssp             EEEEEETTCHHHHHHHHHHHHHH
T ss_pred             EEEEEECcCHHHHHHHHHHHHHH
Confidence                 999999999999976554

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.73  E-value=3.7e-17  Score=108.35  Aligned_cols=97  Identities=23%  Similarity=0.446  Sum_probs=75.2

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      ...+||+++|++|||||||+++ +.+.+...+.        ++.+.++.  .+..++  +.+.+||++|+++++.++.. 
T Consensus        14 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~   85 (196)
T 3tkl_A           14 DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYI--------STIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSY   85 (196)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCSCCC--------CCSSEEEEEEEEEETTEEEEEEEEEECCSGGGCTTHHHH
T ss_pred             ccceEEEEECcCCCCHHHHHHHHHcCCCCCCCC--------CcccceEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHH
Confidence            4678999999999999999999 6666666665        77776654  556665  78999999999999887665 


Q ss_pred             -----------cccCccCHHHHHHHHhhhcccccCCCCeEEEEe
Q psy9521          89 -----------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPV  121 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~  121 (125)
                                 |+++..+|+++..|+..+  ......+.+++.+
T Consensus        86 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i--~~~~~~~~p~ilv  127 (196)
T 3tkl_A           86 YRGAHGIIVVYDVTDQESFNNVKQWLQEI--DRYASENVNKLLV  127 (196)
T ss_dssp             HTTCSEEEEEEETTCHHHHHTHHHHHHHH--HHHSCTTCEEEEE
T ss_pred             HhhCCEEEEEEECcCHHHHHHHHHHHHHH--HHhcCCCCCEEEE
Confidence                       999999999999999887  2222334444444

>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=99.72  E-value=2e-17  Score=109.77  Aligned_cols=84  Identities=21%  Similarity=0.259  Sum_probs=70.3

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      .+.+||+++|++|||||||+++ +.+.+..++.        ||++..+. .+..++  +.+.+||++|+++++.++..  
T Consensus        16 ~~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   87 (194)
T 2atx_A           16 ALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYV--------PTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSY   87 (194)
T ss_dssp             EEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCC--------CSSCCCEEEEEESSSCEEEEEEECCCCSSSSTTTGGGGC
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCCCCC--------CcccceeEEEEEECCEEEEEEEEECCCCcchhHHHHHhc
Confidence            4679999999999999999999 6677766666        88877664 455554  88999999999999887765  


Q ss_pred             ----------cccCccCHHHHH-HHHhhh
Q psy9521          89 ----------DIRDCMGVREVK-PIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~-~~l~~~  106 (125)
                                |++++.+|+++. .|+..+
T Consensus        88 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~  116 (194)
T 2atx_A           88 PMTDVFLICFSVVNPASFQNVKEEWVPEL  116 (194)
T ss_dssp             TTCSEEEEEEETTCHHHHHHHHHTHHHHH
T ss_pred             CCCCEEEEEEECCCHHHHHHHHHHHHHHH
Confidence                      999999999998 798887

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.72  E-value=2.4e-17  Score=110.00  Aligned_cols=85  Identities=20%  Similarity=0.259  Sum_probs=64.0

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      ..+.+||+++|++|||||||+++ +.+.+..++.        ||++..+. .+..++  +.+.+||++|+++++.++.. 
T Consensus        17 ~~~~~ki~~~G~~~~GKssl~~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~   88 (201)
T 2q3h_A           17 EGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYI--------PTAFDNFSAVVSVDGRPVRLQLCDTAGQDEFDKLRPLC   88 (201)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHC----------------CCSSEEEEEEEEETTEEEEEEEEECCCSTTCSSSGGGG
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCC--------CcccceeEEEEEECCEEEEEEEEECCCCHHHHHHhHhh
Confidence            35789999999999999999999 6667776666        88877664 455555  67889999999999887776 


Q ss_pred             -----------cccCccCHHHHH-HHHhhh
Q psy9521          89 -----------DIRDCMGVREVK-PIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~-~~l~~~  106 (125)
                                 |++++.+|+++. .|+..+
T Consensus        89 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~  118 (201)
T 2q3h_A           89 YTNTDIFLLCFSVVSPSSFQNVSEKWVPEI  118 (201)
T ss_dssp             GTTCSEEEEEEETTCHHHHHHHHHTHHHHH
T ss_pred             cCCCcEEEEEEECCCHHHHHHHHHHHHHHH
Confidence                       999999999997 698887

>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=99.72  E-value=2.8e-17  Score=105.89  Aligned_cols=83  Identities=16%  Similarity=0.278  Sum_probs=65.5

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc---
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      +.+||+++|++|||||||+++ +.+.+...+.        +|.+..+. .+..++  +.+.+||++|+++++.++..   
T Consensus         3 ~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~   74 (168)
T 1u8z_A            3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYE--------PTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFR   74 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCC--------TTCCEEEEEEEEETTEEEEEEEEECCC---CHHHHHHHHH
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCccCCCCC--------CCcceEEEEEEEECCEEEEEEEEECCCcchhHHHHHHHhh
Confidence            578999999999999999999 5666666655        77776664 445554  68999999999988877665   


Q ss_pred             ---------cccCccCHHHHHHHHhhh
Q psy9521          89 ---------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~  106 (125)
                               |+.++.+|+++..|+..+
T Consensus        75 ~~d~~i~v~d~~~~~s~~~~~~~~~~i  101 (168)
T 1u8z_A           75 SGEGFLCVFSITEMESFAATADFREQI  101 (168)
T ss_dssp             HCSEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                     999999999999998877

>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=99.72  E-value=6.3e-18  Score=111.88  Aligned_cols=94  Identities=18%  Similarity=0.246  Sum_probs=71.3

Q ss_pred             ccCceEEEEEEeCCCCcHHHHHHHHhhccccccCCCC---CCccccccceeeEEE---Ee--CCEEEEEEECCCcccccc
Q psy9521          13 LRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMN---PSKITTTVGLNIGQI---DI--NTVRLNFWDLGGQLELQS   84 (125)
Q Consensus        13 ~~~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~---~~~~~~t~~~~~~~~---~~--~~~~~~i~D~~G~~~~~~   84 (125)
                      ...+.+||+++|++|||||||++.+.+.+...+.+..   ...+.||++.++...   ..  ..+.+.+||++|+++++.
T Consensus        10 ~~~~~~ki~vvG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~   89 (198)
T 3t1o_A           10 NREINFKIVYYGPGLSGKTTNLKWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRFHLYTVPGQVFYNA   89 (198)
T ss_dssp             TTEEEEEEEEECSTTSSHHHHHHHHHHTSCGGGBCCCEEEECSSCEEEEEEECCSSCCCSSSCEEEEEEEECCSCCSCSH
T ss_pred             ccccccEEEEECCCCCCHHHHHHHHHhhccccccccccccccccccceeeeecccccccccCCceEEEEEeCCChHHHHH
Confidence            4457899999999999999999768888877653110   112337888776532   22  237899999999999988


Q ss_pred             cccc------------ccc------CccCHHHHHHHHhhh
Q psy9521          85 LWDK------------DIR------DCMGVREVKPIFNKN  106 (125)
Q Consensus        85 ~~~~------------Di~------~~~s~~~i~~~l~~~  106 (125)
                      ++..            |++      +..+|+++..|+.++
T Consensus        90 ~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~  129 (198)
T 3t1o_A           90 SRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEY  129 (198)
T ss_dssp             HHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhh
Confidence            8775            887      678888999999876

>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=99.72  E-value=2.5e-17  Score=110.62  Aligned_cols=88  Identities=20%  Similarity=0.322  Sum_probs=67.3

Q ss_pred             hhccCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccc
Q psy9521          11 YMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLW   86 (125)
Q Consensus        11 ~~~~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~   86 (125)
                      ..+..+.+||+++|++|||||||+++ +.+.+..++.        +|.+..+. .+..++  +.+.+||++|++++..++
T Consensus        24 ~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~   95 (204)
T 4gzl_A           24 LYFQGQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYI--------PTVFDNYSANVMVDGKPVNLGLWDTAGLEDYDRLR   95 (204)
T ss_dssp             ------CEEEEEEESTTSSHHHHHHHHHHSCCCC-CC--------CCSEEEEEEEEECC-CEEEEEEEEECCSGGGTTTG
T ss_pred             HhhcCCeEEEEEECcCCCCHHHHHHHHHhCCCCCCcC--------CeecceeEEEEEECCEEEEEEEEECCCchhhHHHH
Confidence            34456889999999999999999999 6677776666        77766654 344444  778899999999998887


Q ss_pred             cc------------cccCccCHHHHH-HHHhhh
Q psy9521          87 DK------------DIRDCMGVREVK-PIFNKN  106 (125)
Q Consensus        87 ~~------------Di~~~~s~~~i~-~~l~~~  106 (125)
                      ..            |++++.+|+++. .|+..+
T Consensus        96 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~  128 (204)
T 4gzl_A           96 PLSYPQTDVFLICFSLVSPASFENVRAKWYPEV  128 (204)
T ss_dssp             GGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHH
T ss_pred             HHHhccCCEEEEEEECCCHHHHHHHHHHHHHHH
Confidence            75            999999999998 788887

>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=99.72  E-value=5.2e-17  Score=106.18  Aligned_cols=86  Identities=23%  Similarity=0.461  Sum_probs=62.7

Q ss_pred             ccCceEEEEEEeCCCCcHHHHHHH-Hhhccc-cccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccc
Q psy9521          13 LRKDEFCVLILGLDNAGKTTYLES-AKTKFT-KNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLW   86 (125)
Q Consensus        13 ~~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~-~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~   86 (125)
                      +..+.+||+++|++|||||||+++ +.+.+. ..+.        ||++.++.  .+..++  +.+.+||++|+++++.++
T Consensus         6 ~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~   77 (180)
T 2g6b_A            6 FYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFI--------STVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVT   77 (180)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCC--------CCCSCEEEEEEEEETTEEEEEEEEECCCC-------
T ss_pred             cCCcceEEEEECcCCCCHHHHHHHHHhCCCCCCCcC--------CceeeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHH
Confidence            346789999999999999999999 555553 2333        88887765  334555  689999999999988776


Q ss_pred             cc------------cccCccCHHHHHHHHhhh
Q psy9521          87 DK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        87 ~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      ..            |++++.+++++..|+..+
T Consensus        78 ~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i  109 (180)
T 2g6b_A           78 HAYYRDAHALLLLYDVTNKASFDNIQAWLTEI  109 (180)
T ss_dssp             -CCGGGCSEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             HHHccCCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence            55            999999999999999876

>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=99.72  E-value=1.1e-17  Score=111.73  Aligned_cols=88  Identities=18%  Similarity=0.385  Sum_probs=61.4

Q ss_pred             hhccCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCccccccc
Q psy9521          11 YMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSL   85 (125)
Q Consensus        11 ~~~~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~   85 (125)
                      ....++.+||+++|++|||||||+++ +.+.+...+.        +|.+.++.  .+..++  +.+.+||++|+++++.+
T Consensus        22 ~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~   93 (199)
T 2p5s_A           22 SFSSQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENIS--------ATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRSI   93 (199)
T ss_dssp             ------CEEEEEESSTTSSHHHHHHHHHHCCCC------------------CEEEEEEETTEEEEEEEEECTTCTTCHHH
T ss_pred             CcCcCCCeEEEEECcCCCCHHHHHHHHHhCCCCccCC--------CCccceeEEEEEEECCEEEEEEEEECCCCcchhhh
Confidence            34456789999999999999999999 5666666555        78776653  455554  78999999999998877


Q ss_pred             ccc------------cccCccCHHHHHHHHhhh
Q psy9521          86 WDK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        86 ~~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      +..            |+++..+|+++..|++.+
T Consensus        94 ~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i  126 (199)
T 2p5s_A           94 AKSYFRKADGVLLLYDVTCEKSFLNIREWVDMI  126 (199)
T ss_dssp             HHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             HHHHHhhCCEEEEEEECCChHHHHHHHHHHHHH
Confidence            655            999999999999998876

>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=99.72  E-value=2.6e-17  Score=109.17  Aligned_cols=84  Identities=23%  Similarity=0.429  Sum_probs=66.5

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      .+.+||+++|++|||||||+++ +.+.+...+.        +|++.++.  .+..++  +.+.+||++|+++++.++.. 
T Consensus        19 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~   90 (191)
T 2a5j_A           19 SYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHD--------LTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSY   90 (191)
T ss_dssp             CEEEEEEEESSTTSSHHHHHHHHHHSCCCC-------------CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHH
T ss_pred             CcceEEEEECcCCCCHHHHHHHHhcCCCCCCCC--------CcccceeEEEEEEECCEEEEEEEEECCCchhhhhhHHHH
Confidence            5689999999999999999999 5666665555        77776553  455555  78999999999999887765 


Q ss_pred             -----------cccCccCHHHHHHHHhhh
Q psy9521          89 -----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~  106 (125)
                                 |+++..+|+++..|+..+
T Consensus        91 ~~~~d~ii~v~d~~~~~s~~~~~~~l~~i  119 (191)
T 2a5j_A           91 YRGAAGALLVYDITRRETFNHLTSWLEDA  119 (191)
T ss_dssp             HTTCSEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             hccCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                       999999999999999887

>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=99.72  E-value=5.3e-17  Score=108.74  Aligned_cols=84  Identities=24%  Similarity=0.498  Sum_probs=69.8

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      ...+||+++|++|||||||+++ +.+.+...+.        ||++.++.  .+..++  +.+.+||++|+++++.++.. 
T Consensus         6 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~   77 (206)
T 2bcg_Y            6 DYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYI--------STIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSY   77 (206)
T ss_dssp             SEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCC--------CSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGG
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcCCCCCCCC--------CcccceeEEEEEEECCEEEEEEEEeCCChHHHHHHHHHh
Confidence            4578999999999999999999 5666666655        78876664  455555  68999999999999887766 


Q ss_pred             -----------cccCccCHHHHHHHHhhh
Q psy9521          89 -----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~  106 (125)
                                 |+++..+|+++..|+..+
T Consensus        78 ~~~~d~vilv~d~~~~~s~~~~~~~~~~i  106 (206)
T 2bcg_Y           78 YRGSHGIIIVYDVTDQESFNGVKMWLQEI  106 (206)
T ss_dssp             GTTCSEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             ccCCCEEEEEEECcCHHHHHHHHHHHHHH
Confidence                       999999999999999876

>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=99.72  E-value=4e-17  Score=106.42  Aligned_cols=85  Identities=22%  Similarity=0.427  Sum_probs=69.2

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK   88 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~   88 (125)
                      ..+.+||+++|++|||||||+++ +.+.+...+.        +|.+.++.  .+..++  +.+.+||++|+++++.++..
T Consensus        12 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~   83 (179)
T 1z0f_A           12 YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCP--------HTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRS   83 (179)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCT--------TSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHH
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHcCCCCCCCC--------CccceEEEEEEEEECCeEEEEEEEECCCChHhhhhHHH
Confidence            45689999999999999999999 5666666555        77776653  444544  78999999999998877665


Q ss_pred             ------------cccCccCHHHHHHHHhhh
Q psy9521          89 ------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ------------Di~~~~s~~~i~~~l~~~  106 (125)
                                  |.++..+++++..|+..+
T Consensus        84 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~  113 (179)
T 1z0f_A           84 YYRGAAGALMVYDITRRSTYNHLSSWLTDA  113 (179)
T ss_dssp             HHHTCSEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             HhccCCEEEEEEeCcCHHHHHHHHHHHHHH
Confidence                        999999999999998876

>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=99.72  E-value=9.1e-18  Score=110.99  Aligned_cols=82  Identities=27%  Similarity=0.401  Sum_probs=59.4

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhh---ccccccCCCCCCccccccceeeEEEEe-------CCEEEEEEECCCcccccccc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKT---KFTKNYKGMNPSKITTTVGLNIGQIDI-------NTVRLNFWDLGGQLELQSLW   86 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~---~~~~~~~~~~~~~~~~t~~~~~~~~~~-------~~~~~~i~D~~G~~~~~~~~   86 (125)
                      ++||+++|++|||||||++++.+   .+..++.        ||++.++.....       ..+.+.+||++|+++|+.++
T Consensus         2 ~~kv~ivG~~gvGKStLl~~l~~~~~~~~~~~~--------~t~g~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~   73 (184)
T 2zej_A            2 RMKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQS--------ATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGREEFYSTH   73 (184)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHTCC-------------------CSEEEEEEEC---------CEEEEEEECSHHHHHTTS
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCccCCCcc--------eeccEEeEEeeeccccCCCCceEEEEEecCCCHHHHHhh
Confidence            57999999999999999999654   3444454        899888764332       35789999999999988876


Q ss_pred             cc------------cccCc-cCHHHHHHHHhhh
Q psy9521          87 DK------------DIRDC-MGVREVKPIFNKN  106 (125)
Q Consensus        87 ~~------------Di~~~-~s~~~i~~~l~~~  106 (125)
                      +.            |++++ .+|+++..|+..+
T Consensus        74 ~~~~~~~~~~i~v~d~~~~~~s~~~~~~~~~~~  106 (184)
T 2zej_A           74 PHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNI  106 (184)
T ss_dssp             HHHHHHSEEEEEEEEGGGCHHHHHTHHHHHHHH
T ss_pred             HHHccCCcEEEEEEeCCcchhHHHHHHHHHHHH
Confidence            65            88887 5899999999876

>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=99.72  E-value=3.7e-17  Score=105.60  Aligned_cols=84  Identities=29%  Similarity=0.493  Sum_probs=68.3

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      ...+||+++|++|||||||+++ +.+.+...+.        ||++.++.  .+..++  +.+.+||++|+++++.++.. 
T Consensus         3 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~   74 (168)
T 1z2a_A            3 EVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYK--------KTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAY   74 (168)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHHHHCCCCCCSS--------CCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHH
T ss_pred             ceeEEEEEECcCCCCHHHHHHHHHcCCCCCCCC--------CceEEEEEEEEEEECCEEEEEEEEcCCCcHhHHHHHHHH
Confidence            4679999999999999999999 5666666655        88776654  444444  78999999999998877665 


Q ss_pred             -----------cccCccCHHHHHHHHhhh
Q psy9521          89 -----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~  106 (125)
                                 |++++.+++++..|+..+
T Consensus        75 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i  103 (168)
T 1z2a_A           75 YRGAQACVLVFSTTDRESFEAISSWREKV  103 (168)
T ss_dssp             HTTCCEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             hcCCCEEEEEEECcCHHHHHHHHHHHHHH
Confidence                       999999999999998876

>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=99.72  E-value=4.6e-17  Score=106.11  Aligned_cols=84  Identities=25%  Similarity=0.491  Sum_probs=69.5

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      -+++||+++|++|||||||+++ +.+.+...+.        +|++.++.  .+..++  +.+.+||++|++++...+.. 
T Consensus        12 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~   83 (179)
T 2y8e_A           12 LRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQ--------ATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSY   83 (179)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSCCCSSCC--------CCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGSHHH
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHcCCCCCCCC--------CceeeEEEEEEEEECCeEEEEEEEECCCcHHHHHHHHHH
Confidence            3679999999999999999999 5666666655        88876654  455555  78999999999998887766 


Q ss_pred             -----------cccCccCHHHHHHHHhhh
Q psy9521          89 -----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~  106 (125)
                                 |++++.+|+++..|+..+
T Consensus        84 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i  112 (179)
T 2y8e_A           84 IRDSTVAVVVYDITNTNSFHQTSKWIDDV  112 (179)
T ss_dssp             HHTCSEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             hcCCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                       999999999999998876

>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=99.72  E-value=3.3e-17  Score=105.98  Aligned_cols=83  Identities=29%  Similarity=0.538  Sum_probs=63.2

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      ..+||+++|++|||||||+++ +.+.+...+.        ||++.++.  .+..++  +.+.+||++|++++..++..  
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~   73 (170)
T 1g16_A            2 SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFI--------TTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYY   73 (170)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHCCCCC---------------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHH
T ss_pred             CceEEEEECcCCCCHHHHHHHHHhCCCCCCCC--------CccceeEEEEEEEECCEEEEEEEEeCCCChhhhhhHHHHh
Confidence            468999999999999999999 5666655555        77776654  455554  78999999999998887665  


Q ss_pred             ----------cccCccCHHHHHHHHhhh
Q psy9521          89 ----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~  106 (125)
                                |+++..+++++..|+..+
T Consensus        74 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i  101 (170)
T 1g16_A           74 RGAMGIILVYDITDERTFTNIKQWFKTV  101 (170)
T ss_dssp             TTEEEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             ccCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                      999999999999999876

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.72  E-value=3.6e-17  Score=111.16  Aligned_cols=84  Identities=20%  Similarity=0.440  Sum_probs=65.3

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      ...+||+++|++|||||||+++ +.+.+...+.        ||++.++.  .+..++  +.+.+||++|+++++.++.. 
T Consensus        11 ~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~   82 (223)
T 3cpj_B           11 DLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSK--------STIGVEFATRTLEIEGKRIKAQIWDTAGQERYRAITSAY   82 (223)
T ss_dssp             CEEEEEEEESCTTSSHHHHHHHHHHCCCCC--------------CCSEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGG
T ss_pred             CeeeEEEEECcCCCCHHHHHHHHhcCCCCCCCC--------CcccceeEEEEEEECCEEEEEEEEECCCccchhhhHHHH
Confidence            4678999999999999999999 5666666655        78776654  455665  78999999999999887766 


Q ss_pred             -----------cccCccCHHHHHHHHhhh
Q psy9521          89 -----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~  106 (125)
                                 |+++..+|+++..|+..+
T Consensus        83 ~~~~d~vilV~D~~~~~s~~~~~~~l~~i  111 (223)
T 3cpj_B           83 YRGAVGALIVYDISKSSSYENCNHWLSEL  111 (223)
T ss_dssp             TTTCCEEEEEEC-CCHHHHHHHHHHHHHH
T ss_pred             hccCCEEEEEEeCCCHHHHHHHHHHHHHH
Confidence                       999999999999999887

>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=99.71  E-value=6.9e-17  Score=107.11  Aligned_cols=84  Identities=20%  Similarity=0.413  Sum_probs=69.0

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeC--CEEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDIN--TVRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~--~~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      .+.+||+++|++|||||||+++ +.+.+...+.        +|++.++.  .+...  ++.+.+||++|+++++.++.. 
T Consensus        23 ~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~   94 (193)
T 2oil_A           23 NFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSR--------TTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAY   94 (193)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHHSCCCSSCC--------CCSSEEEEEEEEEETTEEEEEEEEEESCCCTTCTTHHHH
T ss_pred             CcceEEEEECcCCCCHHHHHHHHhcCCCCCCCC--------CccceeEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHH
Confidence            4679999999999999999999 5666665555        88887764  34443  378999999999998887665 


Q ss_pred             -----------cccCccCHHHHHHHHhhh
Q psy9521          89 -----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~  106 (125)
                                 |++++.+|+++..|+..+
T Consensus        95 ~~~~d~vi~v~D~~~~~s~~~~~~~l~~i  123 (193)
T 2oil_A           95 YRGAVGALLVFDLTKHQTYAVVERWLKEL  123 (193)
T ss_dssp             HTTCCEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             hccCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                       999999999999998876

>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=99.71  E-value=3.3e-17  Score=105.87  Aligned_cols=82  Identities=16%  Similarity=0.100  Sum_probs=50.8

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc-----
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK-----   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~-----   88 (125)
                      .+||+++|++|||||||++++.+.......        ++.+..+. .+..++  +.+.+||++|+++++.++..     
T Consensus         2 ~~ki~~vG~~~~GKSsli~~l~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~   73 (166)
T 3q72_A            2 VYKVLLLGAPGVGKSALARIFGGVEDGPEA--------EAAGHTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMG   73 (166)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHCCC------------------CEEEEEEEETTEEEEEEEEECC---------------C
T ss_pred             eEEEEEECCCCCCHHHHHHHHcCccccCCC--------CccccceEEEEEECCEEEEEEEEECCCCccchhhhhhhhhhC
Confidence            578999999999999999996544433333        55555543 344444  78999999999998887765     


Q ss_pred             -------cccCccCHHHHHHHHhhh
Q psy9521          89 -------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -------Di~~~~s~~~i~~~l~~~  106 (125)
                             |++++.+|+++..|+..+
T Consensus        74 ~~~i~v~d~~~~~s~~~~~~~~~~~   98 (166)
T 3q72_A           74 DAYVIVYSVTDKGSFEKASELRVQL   98 (166)
T ss_dssp             CEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHH
Confidence                   999999999999998876

>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=99.71  E-value=1e-16  Score=106.05  Aligned_cols=84  Identities=25%  Similarity=0.444  Sum_probs=69.0

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeC--CEEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDIN--TVRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~--~~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      ...+||+++|++|||||||+++ +.+.+...+.        +|.+.++.  .+..+  ++.+.+||++|+++++.++.. 
T Consensus        20 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~   91 (189)
T 2gf9_A           20 DYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFV--------STVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAY   91 (189)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCC--------CCCCCEEEEEEEEETTEEEEEEEEECCSCCSSCCSGGGG
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHcCCCCCCcC--------CceeEEEEEEEEEECCeEEEEEEEeCCCcHHHhhhHHHh
Confidence            4578999999999999999999 5666666555        77776654  34444  378999999999999887765 


Q ss_pred             -----------cccCccCHHHHHHHHhhh
Q psy9521          89 -----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~  106 (125)
                                 |++++.+|+++..|+.++
T Consensus        92 ~~~~d~ii~v~d~~~~~s~~~~~~~~~~i  120 (189)
T 2gf9_A           92 YRGAMGFLLMYDIANQESFAAVQDWATQI  120 (189)
T ss_dssp             GTTCSEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             ccCCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                       999999999999999887

>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=99.71  E-value=6.7e-17  Score=107.83  Aligned_cols=85  Identities=15%  Similarity=0.262  Sum_probs=70.1

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      ..+.+||+++|++|||||||+++ +.+.+...+.        +|.+..+. .+..++  +.+.+||++|++++..++.. 
T Consensus        11 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~   82 (206)
T 2bov_A           11 SLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYE--------PTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNY   82 (206)
T ss_dssp             CCCEEEEEEECSTTSSHHHHHHHHHHSCCCTTCC--------TTCCEEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHH
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHhCCCCCCCC--------CccceEEEEEEEECCEEEEEEEEcCCChhhhHHHHHHH
Confidence            34679999999999999999999 5666666665        77776653 455555  68999999999998877665 


Q ss_pred             -----------cccCccCHHHHHHHHhhh
Q psy9521          89 -----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~  106 (125)
                                 |+++..+|+.+..|+..+
T Consensus        83 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~i  111 (206)
T 2bov_A           83 FRSGEGFLCVFSITEMESFAATADFREQI  111 (206)
T ss_dssp             HHHCSEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             HhhCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                       999999999999998887

>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=99.71  E-value=5.1e-17  Score=106.61  Aligned_cols=83  Identities=23%  Similarity=0.350  Sum_probs=68.3

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc---
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      +.+||+++|++|||||||+++ +.+.+..++.        +|.+..+. .+..++  +.+.+||++|+++++.++..   
T Consensus         4 ~~~~i~~~G~~~~GKssl~~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~   75 (186)
T 1mh1_A            4 QAIKCVVVGDGAVGKTCLLISYTTNAFPGEYI--------PTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYP   75 (186)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSSCCSSCC--------CCSCCEEEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCT
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHcCCCCCCcC--------CcccceeEEEEEECCEEEEEEEEECCCCHhHHHHHHHhcc
Confidence            578999999999999999999 5677776665        77776654 444554  77889999999999887765   


Q ss_pred             ---------cccCccCHHHHH-HHHhhh
Q psy9521          89 ---------DIRDCMGVREVK-PIFNKN  106 (125)
Q Consensus        89 ---------Di~~~~s~~~i~-~~l~~~  106 (125)
                               |++++.+|+++. .|+..+
T Consensus        76 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~  103 (186)
T 1mh1_A           76 QTDVSLICFSLVSPASFENVRAKWYPEV  103 (186)
T ss_dssp             TCSEEEEEEETTCHHHHHHHHHTHHHHH
T ss_pred             CCcEEEEEEECCChhhHHHHHHHHHHHH
Confidence                     999999999998 688877

>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=99.71  E-value=4.3e-17  Score=106.30  Aligned_cols=84  Identities=21%  Similarity=0.436  Sum_probs=67.0

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      .+.+||+++|++|||||||+++ +.+.+...+.        ||.+.++.  .+..++  +.+.+||++|+++++.++.. 
T Consensus         5 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~   76 (177)
T 1wms_A            5 SSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLF--------HTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPF   76 (177)
T ss_dssp             EEEEEEEEECCTTSSHHHHHHHHHHSCCCC------------CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGG
T ss_pred             cceeEEEEECCCCCCHHHHHHHHHcCCCCCCCC--------CceeeeEEEEEEEECCEEEEEEEEeCCCchhhhhhHHHH
Confidence            4678999999999999999999 5666666655        88887764  455555  78999999999998877665 


Q ss_pred             -----------cccCccCHHHHHHHHhhh
Q psy9521          89 -----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~  106 (125)
                                 |+++..+++++..|+..+
T Consensus        77 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~~  105 (177)
T 1wms_A           77 YRGSDCCLLTFSVDDSQSFQNLSNWKKEF  105 (177)
T ss_dssp             GTTCSEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             HhcCCEEEEEEECcCHHHHHHHHHHHHHH
Confidence                       999999999999998876

>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=99.71  E-value=4e-17  Score=110.35  Aligned_cols=85  Identities=22%  Similarity=0.328  Sum_probs=54.6

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      ..+.+||+++|++|||||||+++ +.+.+...+.        ||++..+. .+..++  +.+.+||++|+++++.++.. 
T Consensus        31 ~~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~  102 (214)
T 2j1l_A           31 GVRSVKVVLVGDGGCGKTSLLMVFADGAFPESYT--------PTVFERYMVNLQVKGKPVHLHIWDTAGQDDYDRLRPLF  102 (214)
T ss_dssp             -CCEEEEEEEECTTSSHHHHHHHHHC-------C--------CCCCEEEEEEEEETTEEEEEEEEEC-------------
T ss_pred             CcceEEEEEECcCCCCHHHHHHHHHcCCCCCCCC--------CccceeEEEEEEECCEEEEEEEEECCCchhhhHHHHHH
Confidence            35689999999999999999999 5666766665        77776654 445554  68999999999999887765 


Q ss_pred             -----------cccCccCHHHHH-HHHhhh
Q psy9521          89 -----------DIRDCMGVREVK-PIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~-~~l~~~  106 (125)
                                 |++++.+|+++. .|+..+
T Consensus       103 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~  132 (214)
T 2j1l_A          103 YPDASVLLLCFDVTSPNSFDNIFNRWYPEV  132 (214)
T ss_dssp             --CEEEEEEEEETTCHHHHHHHHHTHHHHH
T ss_pred             hccCCEEEEEEECcCHHHHHHHHHHHHHHH
Confidence                       999999999997 698887

>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=99.71  E-value=6.5e-17  Score=106.09  Aligned_cols=84  Identities=15%  Similarity=0.266  Sum_probs=68.9

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      .+.+||+++|++|||||||+++ +.+.+...+.        +|.+..+. .+..++  +.+.+||++|+++++.++..  
T Consensus        16 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~   87 (187)
T 2a9k_A           16 LALHKVIMVGSGGVGKSALTLQFMYDEFVEDYE--------PTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYF   87 (187)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHHHHSCCCCSCC--------TTCCEEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhhCCCCCcCC--------CccceEEEEEEEECCEEEEEEEEECCCCcccHHHHHHHh
Confidence            4679999999999999999999 5666666665        77776664 455555  68999999999998877665  


Q ss_pred             ----------cccCccCHHHHHHHHhhh
Q psy9521          89 ----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~  106 (125)
                                |+.+..+|+++..|+..+
T Consensus        88 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i  115 (187)
T 2a9k_A           88 RSGEGFLCVFSITEMESFAATADFREQI  115 (187)
T ss_dssp             HHCSEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             ccCCEEEEEEECcCHHHHHHHHHHHHHH
Confidence                      999999999999998887

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.71  E-value=3.8e-17  Score=108.62  Aligned_cols=84  Identities=25%  Similarity=0.465  Sum_probs=64.2

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      ...+||+++|++|||||||+++ +.+.+...+.        +|++.++.  .+..++  +.+.+||++|+++++.++.. 
T Consensus        24 ~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~   95 (192)
T 2il1_A           24 DFKLQVIIIGSRGVGKTSLMERFTDDTFCEACK--------STVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAY   95 (192)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHCC----------------CCTTEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcCCCCcCCC--------CccceeEEEEEEEECCeEEEEEEEeCCCcHHHHHHHHHH
Confidence            4689999999999999999999 5566665555        78876654  455555  78999999999998877655 


Q ss_pred             -----------cccCccCHHHHHHHHhhh
Q psy9521          89 -----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~  106 (125)
                                 |+++..+|+++..|++.+
T Consensus        96 ~~~~d~iilV~D~~~~~s~~~~~~~~~~i  124 (192)
T 2il1_A           96 YRSAKGIILVYDITKKETFDDLPKWMKMI  124 (192)
T ss_dssp             HHHCSEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             hcCCCEEEEEEECcCHHHHHHHHHHHHHH
Confidence                       999999999999998776

>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=99.71  E-value=2.9e-17  Score=109.94  Aligned_cols=84  Identities=24%  Similarity=0.463  Sum_probs=61.3

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      .+.+||+++|++|||||||+++ +.+.+...+.        +|++.++.  .+..++  +.+.+||++|+++++.++.. 
T Consensus        23 ~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~   94 (200)
T 2o52_A           23 DFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSN--------HTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRSVTRSY   94 (200)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHC--------------------CCEEEEEEEETTEEEEEEEECCTTHHHHSCCCHHH
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHhCCCCccCC--------CcccceeEEEEEEECCeeeEEEEEcCCCcHhHHHHHHHH
Confidence            4679999999999999999999 5666666655        77776653  455565  78999999999988877665 


Q ss_pred             -----------cccCccCHHHHHHHHhhh
Q psy9521          89 -----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~  106 (125)
                                 |+++..+|+++..|+..+
T Consensus        95 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~  123 (200)
T 2o52_A           95 YRGAAGALLVYDITSRETYNSLAAWLTDA  123 (200)
T ss_dssp             HTTCSEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             hccCCEEEEEEECcCHHHHHHHHHHHHHH
Confidence                       999999999999998876

>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=99.70  E-value=7.2e-17  Score=108.31  Aligned_cols=84  Identities=27%  Similarity=0.534  Sum_probs=68.4

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      ...+||+++|++|||||||+++ +.+.+...+.        ||++.++.  .+..++  +.+.+||++|+++++.++.. 
T Consensus        18 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~   89 (213)
T 3cph_A           18 DSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFI--------TTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAY   89 (213)
T ss_dssp             --CEEEEEECSTTSSHHHHHHHHHHCCCCCSSS--------CCCSCCEEEEEEEETTEEEEEEEECCTTGGGGTCCCHHH
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhCCCCcccC--------CcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHH
Confidence            4678999999999999999999 5566665555        77776654  556666  78999999999999887665 


Q ss_pred             -----------cccCccCHHHHHHHHhhh
Q psy9521          89 -----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~  106 (125)
                                 |+++..+|+++..|+..+
T Consensus        90 ~~~~d~ii~v~d~~~~~s~~~~~~~~~~i  118 (213)
T 3cph_A           90 YRGAMGIILVYDVTDERTFTNIKQWFKTV  118 (213)
T ss_dssp             HTTCSEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             hccCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                       999999999999999876

>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=99.70  E-value=9.9e-17  Score=107.10  Aligned_cols=83  Identities=28%  Similarity=0.455  Sum_probs=68.2

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      ..+||+++|++|||||||+++ +.+.+...+.        +|++.++.  .+..++  +.+.+||++|+++++.++..  
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~   78 (203)
T 1zbd_A            7 YMFKILIIGNSSVGKTSFLFRYADDSFTPAFV--------STVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTITTAYY   78 (203)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTCCCCSCCC--------CCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTG
T ss_pred             eeeEEEEECCCCCCHHHHHHHHhcCCCCCCcC--------CccceeEEEEEEEECCeEEEEEEEECCCchhhcchHHHhh
Confidence            468999999999999999999 5666666655        88887664  444443  78999999999998876655  


Q ss_pred             ----------cccCccCHHHHHHHHhhh
Q psy9521          89 ----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~  106 (125)
                                |+++..+|+++..|+..+
T Consensus        79 ~~~d~ii~v~d~~~~~s~~~~~~~~~~i  106 (203)
T 1zbd_A           79 RGAMGFILMYDITNEESFNAVQDWSTQI  106 (203)
T ss_dssp             GGCSEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             cCCCEEEEEEECcCHHHHHHHHHHHHHH
Confidence                      999999999999999887

>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=99.70  E-value=5.2e-17  Score=107.05  Aligned_cols=84  Identities=25%  Similarity=0.375  Sum_probs=68.8

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE---EEEeC-----------CEEEEEEECCCc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG---QIDIN-----------TVRLNFWDLGGQ   79 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~---~~~~~-----------~~~~~i~D~~G~   79 (125)
                      .+.+||+++|++|||||||+++ +.+.+...+.        +|++.++.   .+..+           .+.+.+||++|+
T Consensus         9 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~   80 (195)
T 3bc1_A            9 DYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFI--------TTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGL   80 (195)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCC--------CCCSEEEEEEEEEECTTSCCCSSCCCEEEEEEEEEECCS
T ss_pred             ceeEEEEEECCCCCCHHHHHHHHhcCCCCcCcc--------cccceeeeeEEEEEecCCcccccccCcEEEEEEEeCCCc
Confidence            4679999999999999999999 5566666655        88887765   33433           368999999999


Q ss_pred             ccccccccc------------cccCccCHHHHHHHHhhh
Q psy9521          80 LELQSLWDK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        80 ~~~~~~~~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      ++++.++..            |++++.+++++..|+..+
T Consensus        81 ~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i  119 (195)
T 3bc1_A           81 ERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQL  119 (195)
T ss_dssp             GGGHHHHHHTTTTCSEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence            998776555            999999999999999887

>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=99.70  E-value=1.1e-17  Score=109.66  Aligned_cols=85  Identities=25%  Similarity=0.311  Sum_probs=57.1

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeC--CEEEEEEECCCcccccccccc-
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDIN--TVRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~--~~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      ..+.+||+++|++|||||||+++ +.+.+..++.        ||++..+. .+..+  .+.+.+||++|+++++.++.. 
T Consensus         5 ~~~~~ki~v~G~~~~GKssl~~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~   76 (182)
T 3bwd_D            5 ASRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYV--------PTVFDNFSANVVVNGATVNLGLWDTAGQEDYNRLRPLS   76 (182)
T ss_dssp             --CCCEEEEECSTTSSHHHHHHHHHHSCCC------------------CBCCCC-------CEEECCCC-CTTTTTGGGG
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHhcCCCCCCCC--------CeeeeeEEEEEEECCEEEEEEEEECCCChhhhhhHHhh
Confidence            35689999999999999999999 6666766665        77765543 22223  477889999999999887765 


Q ss_pred             -----------cccCccCHHHHH-HHHhhh
Q psy9521          89 -----------DIRDCMGVREVK-PIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i~-~~l~~~  106 (125)
                                 |++++.+|+++. .|+..+
T Consensus        77 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~  106 (182)
T 3bwd_D           77 YRGADVFILAFSLISKASYENVSKKWIPEL  106 (182)
T ss_dssp             GTTCSEEEEEEETTCHHHHHHHHHTHHHHH
T ss_pred             ccCCCEEEEEEECCCHHHHHHHHHHHHHHH
Confidence                       999999999998 698887

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.70  E-value=8.3e-17  Score=115.77  Aligned_cols=85  Identities=31%  Similarity=0.582  Sum_probs=65.8

Q ss_pred             ccCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc---
Q psy9521          13 LRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        13 ~~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      +.++.+||+++|++|||||||+++ +.+.+... .        ||++..+..+..+++.+.+|||+|+++++.++..   
T Consensus       161 ~~~~~~kI~ivG~~~vGKSsLl~~l~~~~~~~~-~--------pT~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~  231 (329)
T 3o47_A          161 FGKKEMRILMVGLDAAGKTTILYKLKLGEIVTT-I--------PTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQ  231 (329)
T ss_dssp             --CCSEEEEEEESTTSSHHHHHHHTCSSCCEEE-E--------EETTEEEEEEEETTEEEEEEECC-----CCSHHHHHT
T ss_pred             cccCcceEEEECCCCccHHHHHHHHhCCCCCCc-c--------cccceEEEEEecCcEEEEEEECCCCHhHHHHHHHHhc
Confidence            446788999999999999999999 45555433 2        8999988888888999999999999999888665   


Q ss_pred             ---------cccCccCHHHHHHHHhhh
Q psy9521          89 ---------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~  106 (125)
                               |+++..+|+++..|+..+
T Consensus       232 ~ad~vilV~D~~~~~s~~~~~~~~~~~  258 (329)
T 3o47_A          232 NTQGLIFVVDSNDRERVNEAREELMRM  258 (329)
T ss_dssp             TEEEEEEEEETTCSSSHHHHHHHHHHH
T ss_pred             cCCEEEEEEECCchHHHHHHHHHHHHH
Confidence                     999999999998776654

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

Probab=99.70  E-value=9.9e-17  Score=106.30  Aligned_cols=85  Identities=25%  Similarity=0.475  Sum_probs=69.3

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC----------------------
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT----------------------   68 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~----------------------   68 (125)
                      +++.+||+++|++|||||||+++ +.+.+...+.        +|++.++.  .+..++                      
T Consensus         4 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   75 (208)
T 3clv_A            4 KKSSYKTVLLGESSVGKSSIVLRLTKDTFHENTN--------TTIGASFCTYVVNLNDINIKNNSNNEKNNNINSINDDN   75 (208)
T ss_dssp             CCSSEEEEEECCTTSSHHHHHHHHHHSCCCSSCC--------CCCSCEEEEEEEETTC----------------------
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCcCCCCcC--------ccccceeEEEEEEecCcccccccccccccccccccccc
Confidence            35689999999999999999999 6666666665        88876654  344433                      


Q ss_pred             -----------------EEEEEEECCCcccccccccc------------cccCccCHHHHHHHHhhh
Q psy9521          69 -----------------VRLNFWDLGGQLELQSLWDK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        69 -----------------~~~~i~D~~G~~~~~~~~~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                                       ..+.+||++|++++..++..            |..++.+++++..|+..+
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i  142 (208)
T 3clv_A           76 NVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQL  142 (208)
T ss_dssp             ---------CCCTTTCEEEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             ccccccccccccCccceeEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                             78999999999998887655            999999999999998876

>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=99.70  E-value=4.7e-17  Score=110.27  Aligned_cols=85  Identities=25%  Similarity=0.496  Sum_probs=72.4

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEE--EEeC--CEEEEEEECCCcccccccccc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQ--IDIN--TVRLNFWDLGGQLELQSLWDK   88 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~--~~~~--~~~~~i~D~~G~~~~~~~~~~   88 (125)
                      ....+||+++|++|||||||+++ +.+.+...+.        +|.+.++..  +..+  ++.+.+||++|++++..++..
T Consensus        12 ~~~~~ki~v~G~~~~GKSsli~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~   83 (221)
T 3gj0_A           12 PQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYV--------ATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDG   83 (221)
T ss_dssp             CCCEEEEEEEECTTSSHHHHHTTBHHHHHTCEEE--------TTTTEEEEEEEEEETTEEEEEEEEEECSGGGTSCCCHH
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHcCCCCCCCC--------CccceeEEEEEEEECCEEEEEEEEeCCChHHHhHHHHH
Confidence            35789999999999999999999 8888887776        888877653  3333  388999999999999887765


Q ss_pred             ------------cccCccCHHHHHHHHhhh
Q psy9521          89 ------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ------------Di~~~~s~~~i~~~l~~~  106 (125)
                                  |+++..+|+++..|+..+
T Consensus        84 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~  113 (221)
T 3gj0_A           84 YYIQAQCAIIMFDVTSRVTYKNVPNWHRDL  113 (221)
T ss_dssp             HHTTCCEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             HHhcCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                        999999999999999887

>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=99.70  E-value=1e-16  Score=107.66  Aligned_cols=85  Identities=22%  Similarity=0.308  Sum_probs=64.8

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      ..+++||+++|++|||||||+++ +.+.+...+.        ||.+..+. .+..++  +.+.+||++|++++..++.. 
T Consensus        22 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~   93 (207)
T 2fv8_A           22 SMIRKKLVVVGDGACGKTCLLIVFSKDEFPEVYV--------PTVFENYVADIEVDGKQVELALWDTAGQEDYDRLRPLS   93 (207)
T ss_dssp             GSEEEEEEEEECTTSSHHHHHHHHHHSSCC---------------CCEEEEEEEETTEEEEEEEEECTTCTTCTTTGGGG
T ss_pred             cccCcEEEEECcCCCCHHHHHHHHhcCCCCCcCC--------CcccceEEEEEEECCEEEEEEEEECCCcHHHHHHHHhh
Confidence            35689999999999999999999 5666666665        78877664 455555  78999999999999877665 


Q ss_pred             -----------cccCccCHHHH-HHHHhhh
Q psy9521          89 -----------DIRDCMGVREV-KPIFNKN  106 (125)
Q Consensus        89 -----------Di~~~~s~~~i-~~~l~~~  106 (125)
                                 |++++.+|+++ ..|+..+
T Consensus        94 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~  123 (207)
T 2fv8_A           94 YPDTDVILMCFSVDSPDSLENIPEKWVPEV  123 (207)
T ss_dssp             CTTCCEEEEEEETTCHHHHHHHHHTHHHHH
T ss_pred             cCCCCEEEEEEECCCHHHHHHHHHHHHHHH
Confidence                       99999999999 5788877

>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=99.70  E-value=1.6e-16  Score=102.02  Aligned_cols=83  Identities=18%  Similarity=0.326  Sum_probs=66.4

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc---
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      +++||+++|++|||||||+++ +.+.+...+.        +|.+..+. .+..++  +.+.+||++|++++..++..   
T Consensus         2 ~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~   73 (166)
T 2ce2_X            2 TEYKLVVVGAGGVGKSALTIQLIQNHFVDECD--------PTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMR   73 (166)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSSCCSCCC--------TTCCEEEEEEEEETTEEEEEEEEECCCCSSCCHHHHHHHH
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHhCcCccccC--------CccceEEEEEEEECCEEEEEEEEECCCchhhhHHHHHhhc
Confidence            368999999999999999999 5666655555        67665553 444444  67899999999998877665   


Q ss_pred             ---------cccCccCHHHHHHHHhhh
Q psy9521          89 ---------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~  106 (125)
                               |+.+..+++++..|+.++
T Consensus        74 ~~~~~i~v~d~~~~~~~~~~~~~~~~i  100 (166)
T 2ce2_X           74 TGEGFLCVFAINNTKSFEDIHQYREQI  100 (166)
T ss_dssp             HCSEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             cCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                     999999999999998876

>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=99.69  E-value=1e-16  Score=107.28  Aligned_cols=84  Identities=25%  Similarity=0.311  Sum_probs=69.3

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      ...+||+++|++|||||||+++ ..+.+...+.        ||++.++. .+..++  +.+.+||++|+++++.++..  
T Consensus        23 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~   94 (201)
T 2gco_A           23 AIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYV--------PTVFENYIADIEVDGKQVELALWDTAGQEDYDRLRPLSY   94 (201)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSSCCSSCC--------CSSCCCCEEEEEETTEEEEEEEECCCCSGGGTTTGGGGC
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCcCCcccC--------CcccceEEEEEEECCEEEEEEEEECCCchhHHHHHHHhc
Confidence            4679999999999999999999 5666666665        77777663 455555  68999999999999887776  


Q ss_pred             ----------cccCccCHHHH-HHHHhhh
Q psy9521          89 ----------DIRDCMGVREV-KPIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i-~~~l~~~  106 (125)
                                |++++.+|+++ ..|+..+
T Consensus        95 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~  123 (201)
T 2gco_A           95 PDTDVILMCFSIDSPDSLENIPEKWTPEV  123 (201)
T ss_dssp             TTCSEEEEEEETTCHHHHHHHHHTHHHHH
T ss_pred             CCCCEEEEEEECCCHHHHHHHHHHHHHHH
Confidence                      99999999999 5788877

>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=99.69  E-value=1.5e-17  Score=110.36  Aligned_cols=98  Identities=26%  Similarity=0.408  Sum_probs=74.6

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEe--CCEEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDI--NTVRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~--~~~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      ...+||+++|++|||||||+++ +.+.+...+.        +|.+.++.  .+..  .++.+.+||++|+++++.++.. 
T Consensus        21 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~   92 (191)
T 3dz8_A           21 DYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFV--------STVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRTITTAY   92 (191)
T ss_dssp             EECEEEEEEESTTSSHHHHHHHHHHHTTCCCEE--------EEETTTEEEEEEEETTTTEEEEEECHHHHHHCHHHHHHH
T ss_pred             CeeeEEEEECCCCcCHHHHHHHHhcCCCCcccC--------CCeeeEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHH
Confidence            3678999999999999999999 6666666665        77776654  3333  3589999999999998877665 


Q ss_pred             -----------cccCccCHHHHHHHHhhhcccccCCCCeEEEEee
Q psy9521          89 -----------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                                 |++++.+|+++..|+..+  ......+.+++.+.
T Consensus        93 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i--~~~~~~~~piilv~  135 (191)
T 3dz8_A           93 YRGAMGFILMYDITNEESFNAVQDWATQI--KTYSWDNAQVILVG  135 (191)
T ss_dssp             HTTCCEEEEEEETTCHHHHHTHHHHHHHH--HHHSCTTCEEEEEE
T ss_pred             HccCCEEEEEEECcCHHHHHHHHHHHHHH--HHhcCCCCCEEEEE
Confidence                       999999999999999987  22222344554443

>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=99.69  E-value=2.2e-16  Score=104.34  Aligned_cols=84  Identities=19%  Similarity=0.341  Sum_probs=59.8

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      -+.+||+++|++|||||||+++ +.+.+...+.        +|.+..+. .+..++  +.+.+||++|++++..++..  
T Consensus        19 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~   90 (190)
T 3con_A           19 MTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYD--------PTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYM   90 (190)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSCCC--------TTCCEEEEEEEEETTEEEEEEEEECCC-----------C
T ss_pred             cceeEEEEECcCCCCHHHHHHHHHcCCCccccC--------CccceEEEEEEEECCEEEEEEEEECCChHHHHHHHHHhh
Confidence            3679999999999999999999 5566655555        66666553 455554  67999999999988777665  


Q ss_pred             ----------cccCccCHHHHHHHHhhh
Q psy9521          89 ----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~  106 (125)
                                |+.+..+++++..|+..+
T Consensus        91 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i  118 (190)
T 3con_A           91 RTGEGFLCVFAINNSKSFADINLYREQI  118 (190)
T ss_dssp             TTCSEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             CcCCEEEEEEECcCHHHHHHHHHHHHHH
Confidence                      899999999999998876

>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=99.68  E-value=7.4e-17  Score=105.40  Aligned_cols=85  Identities=26%  Similarity=0.504  Sum_probs=57.6

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeC---CEEEEEEECCCccccccccc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDIN---TVRLNFWDLGGQLELQSLWD   87 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~---~~~~~i~D~~G~~~~~~~~~   87 (125)
                      .++.+||+++|++|||||||+++ +.+.+...+.        ||++.++.  .+..+   .+.+.+||++|+++++.++.
T Consensus         5 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~   76 (182)
T 1ky3_A            5 KKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYK--------ATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGV   76 (182)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSCCCTTC-----------CCCSCEEEEECCSSSCCEEEEEECCC----------
T ss_pred             cCceEEEEEECCCCCCHHHHHHHHHhCcCCcccC--------CccceEEEEEEEEEcCCcEEEEEEEECCCChHhhhhhH
Confidence            35789999999999999999999 5666666655        77776553  44444   37899999999999888766


Q ss_pred             c------------cccCccCHHHHHHHHhhh
Q psy9521          88 K------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        88 ~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      .            |+++..+|+++..|+.++
T Consensus        77 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~  107 (182)
T 1ky3_A           77 AFYRGADCCVLVYDVTNASSFENIKSWRDEF  107 (182)
T ss_dssp             CCSTTCCEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             HHhhcCCEEEEEEECCChHHHHHHHHHHHHH
Confidence            5            999999999999998876

>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=99.68  E-value=5e-17  Score=109.68  Aligned_cols=84  Identities=30%  Similarity=0.464  Sum_probs=68.6

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeC------------CEEEEEEECCCc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDIN------------TVRLNFWDLGGQ   79 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~------------~~~~~i~D~~G~   79 (125)
                      .+.+||+++|++|||||||+++ +.+.+...+.        +|++.++.  .+..+            .+.+.+||++|+
T Consensus        23 ~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G~   94 (217)
T 2f7s_A           23 DYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFI--------TTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQ   94 (217)
T ss_dssp             SEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEE--------EEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESH
T ss_pred             ceeEEEEEECcCCCCHHHHHHHHhcCCCCcCCC--------CceeEEEEEEEEEECCccccccccCceeEEEEEEECCCc
Confidence            4679999999999999999999 5566655555        88887764  33333            478999999999


Q ss_pred             ccccccccc------------cccCccCHHHHHHHHhhh
Q psy9521          80 LELQSLWDK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        80 ~~~~~~~~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      ++++.++..            |+++..+|+++..|+..+
T Consensus        95 ~~~~~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~l~~i  133 (217)
T 2f7s_A           95 ERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQL  133 (217)
T ss_dssp             HHHHHHHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTC
T ss_pred             HhHHhHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHH
Confidence            998776655            999999999999999987

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.68  E-value=1.8e-16  Score=102.58  Aligned_cols=83  Identities=22%  Similarity=0.380  Sum_probs=66.2

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc---
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      +.+||+++|++|||||||+++ +.+.+...+.        ||++..+. .+..++  +.+.+||++|+++++.++..   
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~   73 (172)
T 2erx_A            2 NDYRVAVFGAGGVGKSSLVLRFVKGTFRESYI--------PTVEDTYRQVISCDKSICTLQITDTTGSHQFPAMQRLSIS   73 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTCCCCSSCC--------CCSCEEEEEEEEETTEEEEEEEEECCSCSSCHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCCCCC--------CCccccEEEEEEECCEEEEEEEEECCCchhhHHHHHHhcc
Confidence            578999999999999999999 5566665555        77776664 333343  78999999999988876655   


Q ss_pred             ---------cccCccCHHHHHHHHhhh
Q psy9521          89 ---------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~  106 (125)
                               |++++.+++++..|+..+
T Consensus        74 ~~~~~i~v~d~~~~~~~~~~~~~~~~i  100 (172)
T 2erx_A           74 KGHAFILVYSITSRQSLEELKPIYEQI  100 (172)
T ss_dssp             HCSEEEEEEETTCHHHHHTTHHHHHHH
T ss_pred             cCCEEEEEEECcCHHHHHHHHHHHHHH
Confidence                     999999999998887765

>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=99.68  E-value=2.9e-16  Score=104.89  Aligned_cols=85  Identities=27%  Similarity=0.454  Sum_probs=68.7

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK   88 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~   88 (125)
                      .++.+||+++|++|||||||+++ +.+.+...+.        +|++.++.  .+..++  +.+.+||++|+++++.++..
T Consensus         5 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~   76 (207)
T 1vg8_A            5 KKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYK--------ATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVA   76 (207)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSCCCSSCC--------CCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCG
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCC--------CcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHhHHH
Confidence            35789999999999999999999 5666666665        88877764  444444  78999999999998887665


Q ss_pred             ------------cccCccCHHHHHHHHhhh
Q psy9521          89 ------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ------------Di~~~~s~~~i~~~l~~~  106 (125)
                                  |+++..+|+++..|+..+
T Consensus        77 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~  106 (207)
T 1vg8_A           77 FYRGADCCVLVFDVTAPNTFKTLDSWRDEF  106 (207)
T ss_dssp             GGTTCSEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             HHhCCcEEEEEEECCCHHHHHHHHHHHHHH
Confidence                        999999999999888865

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.67  E-value=3.1e-17  Score=109.54  Aligned_cols=84  Identities=21%  Similarity=0.328  Sum_probs=45.5

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-Hhh--ccccccCCCCCCccccccceee--EEEEeC----CEEEEEEECCCccccccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKT--KFTKNYKGMNPSKITTTVGLNI--GQIDIN----TVRLNFWDLGGQLELQSL   85 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~--~~~~~~~~~~~~~~~~t~~~~~--~~~~~~----~~~~~i~D~~G~~~~~~~   85 (125)
                      .+.+||+++|++|||||||+++ +.+  .+..++.        +|++.++  ..+..+    .+.+.+||++|+++++.+
T Consensus        18 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~   89 (208)
T 2yc2_C           18 TLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYA--------MTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDLYKEQ   89 (208)
T ss_dssp             EEEEEEEEC------------------------------------------CEEEECTTSSEEEEEEEEETTTTHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCCCcccCCCC--------CccceEEEEEEEEECCcccEEEEEEEECCCcHHHHHH
Confidence            4679999999999999999999 555  5666665        8887554  355555    478999999999988776


Q ss_pred             ccc------------cccCccCHHHHHHHHhhh
Q psy9521          86 WDK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        86 ~~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      +..            |++++.+|+++..|+..+
T Consensus        90 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i  122 (208)
T 2yc2_C           90 ISQYWNGVYYAILVFDVSSMESFESCKAWFELL  122 (208)
T ss_dssp             HSTTCCCCCEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhhCcEEEEEEECCCHHHHHHHHHHHHHH
Confidence            655            999999999999999887

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.67  E-value=3.3e-17  Score=109.40  Aligned_cols=98  Identities=22%  Similarity=0.443  Sum_probs=73.2

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      ...+||+++|++|||||||+++ +.+.+...+.        ++.+.++.  .+..++  +.+.+||++|+++++.++.. 
T Consensus        31 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~  102 (199)
T 3l0i_B           31 DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYI--------STIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSY  102 (199)
T ss_dssp             SEEEEEEEECCTTSCCTTTTTSSBCCCCCCHHH--------HHHCCSEEEEEEEETTEEEEEEEECCTTCTTCCCCSCC-
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcCCCCCCcC--------CcccceEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHH
Confidence            4579999999999999999999 5555555544        77765553  555665  78999999999999887766 


Q ss_pred             -----------cccCccCHHHHHHHHhhhcccccCCCCeEEEEee
Q psy9521          89 -----------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                                 |+++..+|+++..|+..+  ........+++.+.
T Consensus       103 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~i--~~~~~~~~p~ilv~  145 (199)
T 3l0i_B          103 YRGAHGIIVVYDVTDQESFNNVKQWLQEI--DRYASENVNKLLVG  145 (199)
T ss_dssp             -CCCSEEEECC-CCCSHHHHHHHHHHHHH--HSCC-CCSEEEEC-
T ss_pred             hhcCCEEEEEEECCCHHHHHHHHHHHHHH--HHhccCCCCEEEEE
Confidence                       999999999999999887  22223345555543

>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=99.66  E-value=2.2e-16  Score=105.43  Aligned_cols=84  Identities=18%  Similarity=0.185  Sum_probs=61.4

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHh-hccccccCCCCCCcccccccee--eEEEEeCC--EEEEEEECCCcccccc-cccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAK-TKFTKNYKGMNPSKITTTVGLN--IGQIDINT--VRLNFWDLGGQLELQS-LWDK   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~-~~~~~~~~~~~~~~~~~t~~~~--~~~~~~~~--~~~~i~D~~G~~~~~~-~~~~   88 (125)
                      ...+||+++|++|||||||++++. ..+...+.        |+.+.+  ...+..++  +.+.+||++|++++.. ++..
T Consensus        21 ~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~   92 (195)
T 3cbq_A           21 DGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHE--------PENPEDTYERRIMVDKEEVTLVVYDIWEQGDAGGWLRDH   92 (195)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHTCCEECCGGGT--------TTSCTTEEEEEEEETTEEEEEEEECCCCCSGGGHHHHHH
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHhccCCccCC--------CCcccceEEEEEEECCEEEEEEEEecCCCccchhhhHHH
Confidence            467999999999999999999964 33322222        333332  23455554  7889999999988765 4433


Q ss_pred             ------------cccCccCHHHHHHHHhhh
Q psy9521          89 ------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ------------Di~~~~s~~~i~~~l~~~  106 (125)
                                  |++++.||+++..|+.++
T Consensus        93 ~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i  122 (195)
T 3cbq_A           93 CLQTGDAFLIVFSVTDRRSFSKVPETLLRL  122 (195)
T ss_dssp             HHHHCSEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             hhccCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence                        999999999999999876

>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=99.66  E-value=1.1e-16  Score=107.97  Aligned_cols=84  Identities=25%  Similarity=0.457  Sum_probs=68.2

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEe--C-C--EEEEEEECCCcccccccccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDI--N-T--VRLNFWDLGGQLELQSLWDK   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~--~-~--~~~~i~D~~G~~~~~~~~~~   88 (125)
                      ...+||+++|++|||||||+++ +.+.+...+.        +|.+........  . +  +.+.+||++|++++..++..
T Consensus         9 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~   80 (218)
T 4djt_A            9 ELTYKICLIGDGGVGKTTYINRVLDGRFEKNYN--------ATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKAVLKDV   80 (218)
T ss_dssp             -CEEEEEEECCTTSSHHHHHCBCTTCSTTCEEE--------TTTTEEEEEEEEEBTTSCEEEEEEEEECSGGGTSCCCHH
T ss_pred             cCccEEEEECCCCCCHHHHHHHHhcCCCCCCCC--------CccceeeEEEEEEeCCCcEEEEEEEecCCchhhchHHHH
Confidence            4689999999999999999999 5566665555        888777653322  2 2  78999999999999877765


Q ss_pred             ------------cccCccCHHHHHHHHhhh
Q psy9521          89 ------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ------------Di~~~~s~~~i~~~l~~~  106 (125)
                                  |+++..+++++..|+..+
T Consensus        81 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~  110 (218)
T 4djt_A           81 YYIGASGAILFFDVTSRITCQNLARWVKEF  110 (218)
T ss_dssp             HHTTCSEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             HhhcCCEEEEEEeCCCHHHHHHHHHHHHHH
Confidence                        999999999999998887

>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=99.66  E-value=3.3e-16  Score=101.83  Aligned_cols=83  Identities=13%  Similarity=0.072  Sum_probs=55.3

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHH-hhccccccCCCCCCccccccceee--EEEEeCC--EEEEEEECCCccc--cccccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESA-KTKFTKNYKGMNPSKITTTVGLNI--GQIDINT--VRLNFWDLGGQLE--LQSLWD   87 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i-~~~~~~~~~~~~~~~~~~t~~~~~--~~~~~~~--~~~~i~D~~G~~~--~~~~~~   87 (125)
                      .+.+||+++|++|||||||++++ .+.+...+         ++.+.++  ..+..++  +.+.+||++|++.  +..++.
T Consensus         2 ~~~~ki~i~G~~~vGKSsl~~~l~~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~   72 (175)
T 2nzj_A            2 MALYRVVLLGDPGVGKTSLASLFAGKQERDLH---------EQLGEDVYERTLTVDGEDTTLVVVDTWEAEKLDKSWSQE   72 (175)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHCC-----C---------CCSSSSEEEEEEEETTEEEEEEEECCC-------CHHHH
T ss_pred             ceEEEEEEECCCCccHHHHHHHHhcCCCcccc---------CccccceeEEEEEECCEEEEEEEEecCCCCccchhhhHH
Confidence            35789999999999999999995 44444332         4444443  3455555  6899999999987  333332


Q ss_pred             c------------cccCccCHHHHHHHHhhh
Q psy9521          88 K------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        88 ~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      .            |++++.+|+++..|+..+
T Consensus        73 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l  103 (175)
T 2nzj_A           73 SCLQGGSAYVIVYSIADRGSFESASELRIQL  103 (175)
T ss_dssp             HTTTSCSEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             hhcccCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence            2            999999999999998876

>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=99.66  E-value=3.6e-16  Score=103.78  Aligned_cols=84  Identities=18%  Similarity=0.345  Sum_probs=67.3

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      ...+||+++|++|||||||+++ +.+.+...+.        ||++..+. .+..++  +.+.+||++|+++++.++..  
T Consensus         6 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~   77 (199)
T 2gf0_A            6 SNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYI--------PTIEDTYRQVISCDKSVCTLQITDTTGSHQFPAMQRLSI   77 (199)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHSCCCCTTS--------CCCCEEEEEEEEETTEEEEEEEEECCGGGSCHHHHHHHH
T ss_pred             CCeeEEEEECCCCCcHHHHHHHHHcCCCCCccc--------CccccceeEEEEECCEEEEEEEEeCCChHHhHHHHHHhh
Confidence            5679999999999999999999 5666666555        77776664 333443  78999999999998877655  


Q ss_pred             ----------cccCccCHHHHHHHHhhh
Q psy9521          89 ----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~  106 (125)
                                |++++.+|+++..|+..+
T Consensus        78 ~~~d~~i~v~d~~~~~s~~~~~~~~~~i  105 (199)
T 2gf0_A           78 SKGHAFILVFSVTSKQSLEELGPIYKLI  105 (199)
T ss_dssp             HHCSEEEEEEETTCHHHHHTTHHHHHHH
T ss_pred             ccCCEEEEEEECcCHHHHHHHHHHHHHH
Confidence                      999999999998887655

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.65  E-value=1.8e-16  Score=113.89  Aligned_cols=96  Identities=14%  Similarity=0.205  Sum_probs=63.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccc-cc--cc-------
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQS-LW--DK-------   88 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~-~~--~~-------   88 (125)
                      ||+++|++|||||||++++.+++.+...    ..+.||+|+++..+. ..+++++|||+|||+|+. .|  +.       
T Consensus         1 KIvllGdsgvGKTSLl~~~~~~~~~~~~----~~~~~Tig~~~~~v~-~~v~LqIWDTAGQErf~~~~l~~~~yyr~a~~   75 (331)
T 3r7w_B            1 MVLLMGVRRCGKSSICKVVFHNMQPLDT----LYLESTSNPSLEHFS-TLIDLAVMELPGQLNYFEPSYDSERLFKSVGA   75 (331)
T ss_dssp             CEEEECSTTSSTTHHHHHHHSCCCSGGG----TTCCCCCSCCCEEEC-SSSCEEEEECCSCSSSCCCSHHHHHHHTTCSE
T ss_pred             CEEEECCCCCCHHHHHHHHHcCCCCCcc----ceecCeeeeeeEEEc-cEEEEEEEECCCchhccchhhhhhhhccCCCE
Confidence            6999999999999999986555543211    123499999887653 348999999999999974 22  22       


Q ss_pred             -----cccCccCHHHHHHH---HhhhcccccCCCCeEEEEeec
Q psy9521          89 -----DIRDCMGVREVKPI---FNKNSAHLIGRRDCMVMPVSA  123 (125)
Q Consensus        89 -----Di~~~~s~~~i~~~---l~~~~~~~~~~~~~~i~~~sA  123 (125)
                           |++++ .++.+..|   +..+   .....+++++.+..
T Consensus        76 ~IlV~Ditd~-~~~~~~~l~~~l~~~---~~~~~~ipillvgN  114 (331)
T 3r7w_B           76 LVYVIDSQDE-YINAITNLAMIIEYA---YKVNPSINIEVLIH  114 (331)
T ss_dssp             EEEECCCSSC-TTHHHHHHHHHHHHH---HHHCTTCEEEEECC
T ss_pred             EEEEEECCch-HHHHHHHHHHHHHHH---hhcCCCCcEEEEEE
Confidence                 98887 44433333   4433   11234566665543

>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=99.64  E-value=5.5e-16  Score=100.31  Aligned_cols=84  Identities=18%  Similarity=0.198  Sum_probs=53.0

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHh-hccccccCCCCCCccccccceeeEEEEeCC--EEEEEEECCCcccccc-cccc----
Q psy9521          17 EFCVLILGLDNAGKTTYLESAK-TKFTKNYKGMNPSKITTTVGLNIGQIDINT--VRLNFWDLGGQLELQS-LWDK----   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~-~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~i~D~~G~~~~~~-~~~~----   88 (125)
                      .+||+++|++|||||||++++. ..+...+.      ..++.......+..++  +.+.+||++|++++.. ++..    
T Consensus         2 ~~ki~ivG~~~~GKSsli~~l~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~   75 (169)
T 3q85_A            2 VFKVMLVGESGVGKSTLAGTFGGLQGDHAHE------MENSEDTYERRIMVDKEEVTLIVYDIWEQGDAGGWLQDHCLQT   75 (169)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCC------------------CEEEEEEEETTEEEEEEEECCCCC--------CHHHHH
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhccCccccc------CCCcCCeeeEEEEECCeEEEEEEEECCCccccchhhhhhhhcc
Confidence            4789999999999999999954 44333322      1122233333455555  7899999999998876 4443    


Q ss_pred             --------cccCccCHHHHHHHHhhh
Q psy9521          89 --------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~  106 (125)
                              |++++.+|+++..|+..+
T Consensus        76 ~d~~i~v~d~~~~~s~~~~~~~~~~~  101 (169)
T 3q85_A           76 GDAFLIVFSVTDRRSFSKVPETLLRL  101 (169)
T ss_dssp             CSEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             CCEEEEEEECCChHHHHHHHHHHHHH
Confidence                    999999999999999887

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.64  E-value=1e-15  Score=109.15  Aligned_cols=84  Identities=18%  Similarity=0.349  Sum_probs=65.1

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-Hhh--ccccccCCCCCCccccccceeeEEEEe-CCEEEEEEECCCcccc-----cccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKT--KFTKNYKGMNPSKITTTVGLNIGQIDI-NTVRLNFWDLGGQLEL-----QSLW   86 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~--~~~~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~i~D~~G~~~~-----~~~~   86 (125)
                      ..+||+++|++|||||||+++ +.+  .+...       .+.+|++.++..+.. +++.+.+||++|++++     ..++
T Consensus         2 ~~~KI~lvG~~~vGKSSLi~~l~~~~~~~~~~-------~~~~Ti~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~   74 (307)
T 3r7w_A            2 LGSKLLLMGRSGSGKSSMRSIIFSNYSAFDTR-------RLGATIDVEHSHLRFLGNMTLNLWDCGGQDVFMENYFTKQK   74 (307)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHSCCCTGGGG-------GCCCCCSEEEEEEEETTTEEEEEEEECCSHHHHHHHHTTTH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCcccc-------CcCCccceEEEEEEeCCceEEEEEECCCcHHHhhhhhhhHH
Confidence            468999999999999999999 444  22221       223899998887766 4699999999999988     4544


Q ss_pred             cc------------cccCccCHHHHHHHHhhh
Q psy9521          87 DK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        87 ~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      ..            |+++..+|+++..|...+
T Consensus        75 ~~~~~~ad~vi~V~D~t~~~s~~~l~~~~~~l  106 (307)
T 3r7w_A           75 DHIFQMVQVLIHVFDVESTEVLKDIEIFAKAL  106 (307)
T ss_dssp             HHHHTTCSEEEEEEETTCSCHHHHHHHHHHHH
T ss_pred             HHHhccCCEEEEEEECCChhhHHHHHHHHHHH
Confidence            43            999999999998775443

>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=99.64  E-value=1.4e-15  Score=101.50  Aligned_cols=83  Identities=22%  Similarity=0.454  Sum_probs=64.9

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      ..+|++++|+.|||||||+++ +...+...+.        ||++.++.  .+..++  +.+.+||++|+++++.++..  
T Consensus         4 ~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~--------~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~   75 (199)
T 2f9l_A            4 YLFKVVLIGDSGVGKSNLLSRFTRNEFNLESK--------STIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYY   75 (199)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHSCCCC-----------CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHH
T ss_pred             ceEEEEEECcCCCCHHHHHHHHhcCCCCCCCC--------CccceeEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHH
Confidence            468999999999999999999 5556665555        88776653  566666  67889999999998876654  


Q ss_pred             ----------cccCccCHHHHHHHHhhh
Q psy9521          89 ----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~  106 (125)
                                |+.+..+|+++..|+..+
T Consensus        76 ~~~~~~i~v~d~~~~~s~~~~~~~~~~~  103 (199)
T 2f9l_A           76 RGAVGALLVYDIAKHLTYENVERWLKEL  103 (199)
T ss_dssp             TTCSEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             hcCCEEEEEEECcCHHHHHHHHHHHHHH
Confidence                      888888999998898765

>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=99.64  E-value=2.1e-15  Score=100.33  Aligned_cols=83  Identities=20%  Similarity=0.442  Sum_probs=66.5

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      ..+|++++|++|||||||+++ ....++..+.        ||++.++.  .+..++  +.+.+||++|+++++.++..  
T Consensus        28 ~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~--------~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~   99 (191)
T 1oix_A           28 YLFKVVLIGDSGVGKSNLLSRFTRNEFNLESK--------STIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAYY   99 (191)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHSCCCCSCC--------CCCSEEEEEEEEEETTEEEEEEEEEECSCCSSSCCCHHHH
T ss_pred             cceEEEEECcCCCCHHHHHHHHhcCCCCCCCC--------CccceEEEEEEEEECCEEEEEEEEECCCCcchhhhhHHHh
Confidence            468999999999999999999 5556665665        88887764  566666  56778999999988877654  


Q ss_pred             ----------cccCccCHHHHHHHHhhh
Q psy9521          89 ----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~  106 (125)
                                |+.+..+|+++..|+..+
T Consensus       100 ~~~~~~i~v~d~~~~~s~~~~~~~~~~~  127 (191)
T 1oix_A          100 RGAVGALLVYDIAKHLTYENVERWLKEL  127 (191)
T ss_dssp             TTCCEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             hcCCEEEEEEECcCHHHHHHHHHHHHHH
Confidence                      888888899998888765

>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=99.64  E-value=3.9e-16  Score=104.02  Aligned_cols=98  Identities=19%  Similarity=0.261  Sum_probs=64.3

Q ss_pred             ccCceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeE----EEE---eCCEEEEEEECCCccccccc
Q psy9521          13 LRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIG----QID---INTVRLNFWDLGGQLELQSL   85 (125)
Q Consensus        13 ~~~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~----~~~---~~~~~~~i~D~~G~~~~~~~   85 (125)
                      ..++.+||+++|++|||||||++++.+++...          +|.+.++.    ...   ...+.+.+||++|+++|...
T Consensus        16 ~~~~~~ki~~vG~~~vGKTsLi~~l~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~   85 (196)
T 3llu_A           16 FQGSKPRILLMGLRRSGKSSIQKVVFHKMSPN----------ETLFLESTNKIYKDDISNSSFVNFQIWDFPGQMDFFDP   85 (196)
T ss_dssp             ----CCEEEEEESTTSSHHHHHHHHHSCCCGG----------GGGGCCCCCSCEEEEECCTTSCCEEEEECCSSCCTTCT
T ss_pred             ccCcceEEEEECCCCCCHHHHHHHHHhcCCCc----------ceeeeccccceeeeeccCCCeeEEEEEECCCCHHHHhh
Confidence            34678999999999999999999977666544          23332221    222   23489999999999998665


Q ss_pred             c---cc------------cccCc--cCHHHHHHHHhhhcccccCCCCeEEEEeec
Q psy9521          86 W---DK------------DIRDC--MGVREVKPIFNKNSAHLIGRRDCMVMPVSA  123 (125)
Q Consensus        86 ~---~~------------Di~~~--~s~~~i~~~l~~~~~~~~~~~~~~i~~~sA  123 (125)
                      .   ..            |+++.  .+++.+..|+..+   .....+.+++.+..
T Consensus        86 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~l~~~---~~~~~~~piilv~n  137 (196)
T 3llu_A           86 TFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKA---YKVNPDMNFEVFIH  137 (196)
T ss_dssp             TCCHHHHHHTCSEEEEEEETTSCCHHHHHHHHHHHHHH---HHHCTTCEEEEEEE
T ss_pred             hhhcccccccCCEEEEEEECCCchHHHHHHHHHHHHHH---HhcCCCCcEEEEEe
Confidence            4   23            88887  6666777777765   22234556665543

>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=99.43  E-value=2e-17  Score=110.73  Aligned_cols=88  Identities=22%  Similarity=0.343  Sum_probs=70.1

Q ss_pred             hhccCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeC--CEEEEEEECCCcccccccc
Q psy9521          11 YMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDIN--TVRLNFWDLGGQLELQSLW   86 (125)
Q Consensus        11 ~~~~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~--~~~~~i~D~~G~~~~~~~~   86 (125)
                      .++.++.+||+++|++|||||||+++ +.+.+..++.        +|.+..+. .+..+  .+.+.+||++|++++..++
T Consensus        24 ~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~   95 (204)
T 3th5_A           24 LYFQGQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYI--------PTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLR   95 (204)
Confidence            34567899999999999999999999 6677766665        67665543 23333  4778899999999988777


Q ss_pred             cc------------cccCccCHHHHH-HHHhhh
Q psy9521          87 DK------------DIRDCMGVREVK-PIFNKN  106 (125)
Q Consensus        87 ~~------------Di~~~~s~~~i~-~~l~~~  106 (125)
                      ..            |++++.+|+++. .|+..+
T Consensus        96 ~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~~l  128 (204)
T 3th5_A           96 PLSYPQTDVFLICFSLVSPASFENVRAKWYPEV  128 (204)
Confidence            65            999999999997 788877

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

Probab=99.62  E-value=2.9e-15  Score=97.63  Aligned_cols=67  Identities=22%  Similarity=0.336  Sum_probs=51.1

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCcccccccee--eEEEEeCCEEEEEEECCCcccccccccc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLN--IGQIDINTVRLNFWDLGGQLELQSLWDK   88 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~--~~~~~~~~~~~~i~D~~G~~~~~~~~~~   88 (125)
                      .++.++|+++|++|||||||+++ +.+.+...+.        +++..+  ...+..++..+.+||++|+++++.++..
T Consensus         5 ~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~   74 (178)
T 2lkc_A            5 VERPPVVTIMGHVDHGKTTLLDAIRHSKVTEQEA--------GGITQHIGAYQVTVNDKKITFLDTPGHEAFTTMRAR   74 (178)
T ss_dssp             CCCCCEEEEESCTTTTHHHHHHHHHTTCSSCSSC--------CSSSTTCCCCEEEETTEEEEESCCCSSSSSSCSCCS
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCccccCCC--------CceeEeeeEEEEEeCCceEEEEECCCCHHHHHHHHH
Confidence            35788999999999999999999 5566655443        333322  3356778889999999999998877654

>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=99.61  E-value=3.6e-15  Score=99.32  Aligned_cols=83  Identities=13%  Similarity=0.185  Sum_probs=57.2

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhh---ccccccCCCCCCccccccceee--EEEEeCC--EEEEEEECCCccc-ccccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKT---KFTKNYKGMNPSKITTTVGLNI--GQIDINT--VRLNFWDLGGQLE-LQSLW   86 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~---~~~~~~~~~~~~~~~~t~~~~~--~~~~~~~--~~~~i~D~~G~~~-~~~~~   86 (125)
                      ...+||+++|++|||||||++++.+   .+...+         ++++.++  ..+..++  +.+.+||++|++. ++.++
T Consensus         4 ~~~~kv~lvG~~~vGKSsL~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~l~~~Dt~~~~~~~~~~~   74 (192)
T 2cjw_A            4 MTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDX---------EVLGEDTYERTLMVDGESATIILLDMWENKGENEWLH   74 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHSCCC-------------GGGCTTEEEEEEEETTEEEEEEEECCCCC----CTTG
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCcCCcCccc---------cccceeEEEEEEEECCeEEEEEEEEeccCcchhhhHH
Confidence            4679999999999999999999542   223332         3344443  3455665  6778999999876 44444


Q ss_pred             cc------------cccCccCHHHHHHHHhhh
Q psy9521          87 DK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        87 ~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      ..            |++++.||+++..|+..+
T Consensus        75 ~~~~~~~~~~i~v~dv~~~~s~~~~~~~~~~l  106 (192)
T 2cjw_A           75 DHCMQVGDAYLIVYSITDRASFEKASELRIQL  106 (192)
T ss_dssp             GGHHHHCSEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             HhhcccCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence            33            999999999999988765

>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=99.60  E-value=4.4e-15  Score=105.61  Aligned_cols=84  Identities=23%  Similarity=0.336  Sum_probs=69.2

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      +..+||+++|++|||||||+++ +.+.+..++.        +|++..+. .+..++  +.+.+||++|++++..++..  
T Consensus       153 ~~~~~i~i~G~~~~GKssli~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~  224 (332)
T 2wkq_A          153 KELIKCVVVGDGAVGKTCLLISYTTNAFPGEYI--------PTVFDNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSY  224 (332)
T ss_dssp             TTCEEEEEEESTTSSHHHHHHHHHHSCCCCSCC--------CCSEEEEEEEEEETTEEEEEEEEEECCCGGGTTTGGGGC
T ss_pred             cceeEEEEECCCCCChHHHHHHHHhCCCCcccC--------CcccceeEEEEEECCEEEEEEEEeCCCchhhhHHHHHhc
Confidence            4679999999999999999999 6677776666        78876664 455555  66779999999999877765  


Q ss_pred             ----------cccCccCHHHHH-HHHhhh
Q psy9521          89 ----------DIRDCMGVREVK-PIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~-~~l~~~  106 (125)
                                |++++.+|+++. .|+..+
T Consensus       225 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~  253 (332)
T 2wkq_A          225 PQTDVFLICFSLVSPASFHHVRAKWYPEV  253 (332)
T ss_dssp             TTCSEEEEEEETTCHHHHHHHHHTHHHHH
T ss_pred             cCCCEEEEEEeCCCHHHHHHHHHHHHHHH
Confidence                      999999999998 688877

>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=99.59  E-value=3.3e-15  Score=101.37  Aligned_cols=83  Identities=13%  Similarity=0.192  Sum_probs=58.9

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhh---ccccccCCCCCCccccccceee--EEEEeCC--EEEEEEECCCccc-ccccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKT---KFTKNYKGMNPSKITTTVGLNI--GQIDINT--VRLNFWDLGGQLE-LQSLW   86 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~---~~~~~~~~~~~~~~~~t~~~~~--~~~~~~~--~~~~i~D~~G~~~-~~~~~   86 (125)
                      ...+||+++|++|||||||++++.+   .|...+         ++++.++  ..+..++  +.+.+||++|++. ++.++
T Consensus        35 ~~~~kVvlvG~~~vGKSSLl~r~~~~~~~~~~~~---------~~~g~d~~~~~i~~~~~~~~l~~~Dt~g~~~~~~~l~  105 (211)
T 2g3y_A           35 NTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDC---------EVLGEDTYERTLMVDGESATIILLDMWENKGENEWLH  105 (211)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC------------CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCCCCcC---------CccceeeEEEEEEECCeeeEEEEeecCCCcchhhhHH
Confidence            4679999999999999999999542   223332         3344443  3455565  6788999999886 33332


Q ss_pred             cc------------cccCccCHHHHHHHHhhh
Q psy9521          87 DK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        87 ~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      ..            |++++.||+++..|+.++
T Consensus       106 ~~~~~~a~~~ilVydvt~~~sf~~~~~~~~~l  137 (211)
T 2g3y_A          106 DHCMQVGDAYLIVYSITDRASFEKASELRIQL  137 (211)
T ss_dssp             HCCCCCCSEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhCCEEEEEEECCCHHHHHHHHHHHHHH
Confidence            22            999999999999998765

>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=99.58  E-value=4.7e-15  Score=99.73  Aligned_cols=100  Identities=18%  Similarity=0.246  Sum_probs=65.3

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEeC---CEEEEEEECCCcccccc-cccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDIN---TVRLNFWDLGGQLELQS-LWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~---~~~~~i~D~~G~~~~~~-~~~~-   88 (125)
                      ++.+||+++|++|||||||+++ +.+.|...+.         +++.++..+..+   ++.+.+||++|+++++. ++.. 
T Consensus         5 ~~~~ki~vvG~~~~GKTsli~~l~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~   75 (214)
T 2fh5_B            5 SSQRAVLFVGLCDSGKTLLFVRLLTGQYRDTQT---------SITDSSAIYKVNNNRGNSLTLIDLPGHESLRFQLLDRF   75 (214)
T ss_dssp             ---CEEEEECSTTSSHHHHHHHHHHSCCCCBCC---------CCSCEEEEEECSSTTCCEEEEEECCCCHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCcccccC---------CcceeeEEEEecCCCccEEEEEECCCChhHHHHHHHHH
Confidence            5678999999999999999999 6667766653         344555556665   58999999999999887 5543 


Q ss_pred             -----------cccCcc-CHHHHHHHHhhhccc-ccCCCCeEEEEeec
Q psy9521          89 -----------DIRDCM-GVREVKPIFNKNSAH-LIGRRDCMVMPVSA  123 (125)
Q Consensus        89 -----------Di~~~~-s~~~i~~~l~~~~~~-~~~~~~~~i~~~sA  123 (125)
                                 |.++.. ++.++..|+...... .....+.+++.+..
T Consensus        76 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~n  123 (214)
T 2fh5_B           76 KSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACN  123 (214)
T ss_dssp             GGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEE
T ss_pred             HhhCCEEEEEEECCCcCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEE
Confidence                       877743 466666544432011 12234456665543

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.53  E-value=7.7e-14  Score=91.75  Aligned_cols=83  Identities=17%  Similarity=0.239  Sum_probs=59.3

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHh-hccccccCCCCCCccccccce--eeEEEEeCCEEEEEEECCCcccccc------cc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAK-TKFTKNYKGMNPSKITTTVGL--NIGQIDINTVRLNFWDLGGQLELQS------LW   86 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~-~~~~~~~~~~~~~~~~~t~~~--~~~~~~~~~~~~~i~D~~G~~~~~~------~~   86 (125)
                      +.+||+++|++|||||||++++. ..+.....        |++..  ....+..++..+.+||++|++++..      ++
T Consensus         6 ~~~~i~lvG~~gvGKStL~~~l~~~~~~~~~~--------~~~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~   77 (188)
T 2wjg_A            6 KSYEIALIGNPNVGKSTIFNALTGENVYIGNW--------PGVTVEKKEGEFEYNGEKFKVVDLPGVYSLTANSIDEIIA   77 (188)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHTTCEEEEEC--------TTSCCEEEEEEEEETTEEEEEEECCCCSCCSSSSHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCccccCC--------CCeeccceEEEEEeCCcEEEEEECCCcCccccccHHHHHH
Confidence            57899999999999999999954 44443333        44433  3346677789999999999998752      11


Q ss_pred             cc-----------cccCccCHHHHHHHHhhh
Q psy9521          87 DK-----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        87 ~~-----------Di~~~~s~~~i~~~l~~~  106 (125)
                      ..           .+.+..+++....|+.++
T Consensus        78 ~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~  108 (188)
T 2wjg_A           78 RDYIINEKPDLVVNIVDATALERNLYLTLQL  108 (188)
T ss_dssp             HHHHHHHCCSEEEEEEEGGGHHHHHHHHHHH
T ss_pred             HHHHhccCCCEEEEEecchhHHHHHHHHHHH
Confidence            11           445566788888888776

>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=99.50  E-value=2.5e-13  Score=88.09  Aligned_cols=60  Identities=20%  Similarity=0.304  Sum_probs=42.2

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHh-hccccccCCCCCCcccccc--ceeeEEEEeCCEEEEEEECCCccccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAK-TKFTKNYKGMNPSKITTTV--GLNIGQIDINTVRLNFWDLGGQLELQ   83 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~-~~~~~~~~~~~~~~~~~t~--~~~~~~~~~~~~~~~i~D~~G~~~~~   83 (125)
                      ++++|+++|++|||||||++++. ..+.....        |+.  ......+..++..+.+|||+|++++.
T Consensus         2 ~~~~v~lvG~~gvGKStL~~~l~~~~~~~~~~--------~~~t~~~~~~~~~~~~~~l~i~Dt~G~~~~~   64 (165)
T 2wji_A            2 KSYEIALIGNPNVGKSTIFNALTGENVYIGNW--------PGVTVEKKEGEFEYNGEKFKVVDLPGVYSLT   64 (165)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHCCSSSCC-------------CCCCCEEEEEETTEEEEEEECCCCSCSS
T ss_pred             CccEEEEECCCCCCHHHHHHHHhCCCeeccCC--------CCcceeeeEEEEEECCcEEEEEECCCcccCC
Confidence            35899999999999999999954 34332221        333  33334566678999999999999875

>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=99.49  E-value=2.5e-14  Score=96.43  Aligned_cols=83  Identities=14%  Similarity=0.188  Sum_probs=60.9

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc----
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      ..+.++|+++|++|||||||+++ +.+.+...     .....|+++.++     .+..+.+||++|+++++..+..    
T Consensus         9 ~~~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~-----~~~~~~~~~~~~-----~~~~~~l~Dt~G~~~~~~~~~~~~~~   78 (218)
T 1nrj_B            9 KSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPT-----VVSQEPLSAADY-----DGSGVTLVDFPGHVKLRYKLSDYLKT   78 (218)
T ss_dssp             -CCCCEEEEECSTTSSHHHHHHHHHHSSCCCB-----CCCSSCEEETTG-----GGSSCEEEECCCCGGGTHHHHHHHHH
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhcCCCCCe-----eeecCceEEEEe-----eCceEEEEECCCcHHHHHHHHHHHHh
Confidence            34678999999999999999999 44444321     011225554433     4578999999999988765443    


Q ss_pred             ------------ccc-CccCHHHHHHHHhhh
Q psy9521          89 ------------DIR-DCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ------------Di~-~~~s~~~i~~~l~~~  106 (125)
                                  |.+ ++.+|+++..|+..+
T Consensus        79 ~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~  109 (218)
T 1nrj_B           79 RAKFVKGLIFMVDSTVDPKKLTTTAEFLVDI  109 (218)
T ss_dssp             HGGGEEEEEEEEETTSCTTCCHHHHHHHHHH
T ss_pred             ccccCCEEEEEEECCCChHHHHHHHHHHHHH
Confidence                        888 889999999988876

>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=99.47  E-value=2.2e-14  Score=94.29  Aligned_cols=77  Identities=19%  Similarity=0.218  Sum_probs=54.9

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCC-----------ccccccc
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGG-----------QLELQSL   85 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G-----------~~~~~~~   85 (125)
                      +||+++|++|||||||+++ +.+.+...+.        |++......+...  .+.+||++|           +++++.+
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~--------~~~t~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~   71 (190)
T 2cxx_A            2 ATIIFAGRSNVGKSTLIYRLTGKKVRRGKR--------PGVTRKIIEIEWK--NHKIIDMPGFGFMMGLPKEVQERIKDE   71 (190)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHSCCCSSSSS--------TTCTTSCEEEEET--TEEEEECCCBSCCTTSCHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhCcCCccCCC--------CCccceeEEEecC--CEEEEECCCccccccCCHHHHHHHHHH
Confidence            5899999999999999999 5555554443        5444444444444  688999999           6666544


Q ss_pred             ccc-------------cccCccCHHHH-HHHHh
Q psy9521          86 WDK-------------DIRDCMGVREV-KPIFN  104 (125)
Q Consensus        86 ~~~-------------Di~~~~s~~~i-~~~l~  104 (125)
                      +..             |+.++.+|+++ ..|..
T Consensus        72 ~~~~~~~~~~~~~~v~~v~d~~s~~~~~~~~~~  104 (190)
T 2cxx_A           72 IVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEK  104 (190)
T ss_dssp             HHHHHHHHGGGCCEEEEEEETTHHHHHHHHHHH
T ss_pred             HHHHHHhhhccCCEEEEEEcchhhhhHHHhhhc
Confidence            321             88899999888 46765

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.46  E-value=1.7e-14  Score=95.36  Aligned_cols=82  Identities=15%  Similarity=0.172  Sum_probs=56.5

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHH-hhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc-----
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESA-KTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK-----   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i-~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~-----   88 (125)
                      .+.++|+++|++|||||||++++ .+.+...     .....|+.+.++     .+..+.+||++|++.++..+..     
T Consensus        46 ~~~~~i~vvG~~g~GKSsll~~l~~~~~~~~-----~~~~~~~~~~~~-----~~~~~~l~Dt~G~~~~~~~~~~~~~~~  115 (193)
T 2ged_A           46 SYQPSIIIAGPQNSGKTSLLTLLTTDSVRPT-----VVSQEPLSAADY-----DGSGVTLVDFPGHVKLRYKLSDYLKTR  115 (193)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHSSCC-----------------CC-----CCTTCSEEEETTCCBSSCCHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCcc-----cccCCCceeeee-----cCCeEEEEECCCCchHHHHHHHHHHhh
Confidence            56789999999999999999995 4443321     011124443332     4578899999999988665443     


Q ss_pred             -----------ccc-CccCHHHHHHHHhhh
Q psy9521          89 -----------DIR-DCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -----------Di~-~~~s~~~i~~~l~~~  106 (125)
                                 |.+ +..+|+++..|+..+
T Consensus       116 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~  145 (193)
T 2ged_A          116 AKFVKGLIFMVDSTVDPKKLTTTAEFLVDI  145 (193)
T ss_dssp             GGGEEEEEEEEETTCCHHHHHHHHHHHHHH
T ss_pred             cccCCEEEEEEECCCCchhHHHHHHHHHHH
Confidence                       888 888999999888776

>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=99.46  E-value=6.2e-13  Score=86.94  Aligned_cols=84  Identities=24%  Similarity=0.305  Sum_probs=54.8

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhc-cc--cccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccc-------
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTK-FT--KNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQS-------   84 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~-~~--~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~-------   84 (125)
                      ++..||+++|++|||||||++++.+. +.  ..++       ..|.......+..++..+.+||++|++++..       
T Consensus         2 ~~~~ki~ivG~~g~GKStLl~~l~~~~~~~~~~~~-------~~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~   74 (172)
T 2gj8_A            2 SHGMKVVIAGRPNAGKSSLLNALAGREAAIVTDIA-------GTTRDVLREHIHIDGMPLHIIDTAGLREASDEVERIGI   74 (172)
T ss_dssp             --CEEEEEEESTTSSHHHHHHHHHTSCCSCCCSST-------TCCCSCEEEEEEETTEEEEEEECCCCSCCSSHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCcceeeCCC-------CceeceeeEEEEECCeEEEEEECCCcccchhHHHHHHH
Confidence            35689999999999999999996543 21  1111       1233333346777888899999999975321       


Q ss_pred             --cccc-----------cccCccCHHHHHHHHhhh
Q psy9521          85 --LWDK-----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        85 --~~~~-----------Di~~~~s~~~i~~~l~~~  106 (125)
                        .+..           |.++..+++. ..|++++
T Consensus        75 ~~~~~~~~~ad~~i~v~D~~~~~s~~~-~~~~~~~  108 (172)
T 2gj8_A           75 ERAWQEIEQADRVLFMVDGTTTDAVDP-AEIWPEF  108 (172)
T ss_dssp             HHHHHHHHTCSEEEEEEETTTCCCCSH-HHHCHHH
T ss_pred             HHHHHHHHhCCEEEEEEECCCCCCHHH-HHHHHHH
Confidence              1111           8888888874 4565554

>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=99.44  E-value=3.1e-13  Score=97.56  Aligned_cols=69  Identities=14%  Similarity=0.222  Sum_probs=53.9

Q ss_pred             cccccceeeEEEEeCCEEEEEEECCCcccccccccc------------ccc----------CccCHHHHHHHHhhhcccc
Q psy9521          53 ITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK------------DIR----------DCMGVREVKPIFNKNSAHL  110 (125)
Q Consensus        53 ~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~------------Di~----------~~~s~~~i~~~l~~~~~~~  110 (125)
                      ..||+|+....+..+++++++||++||++++.+|..            |++          +..+|++...|++.+ .+.
T Consensus       145 ~~~TiGi~~~~~~~~~v~l~iwDtaGQe~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e~~~~nr~~es~~~~~~i-~~~  223 (340)
T 4fid_A          145 RTKTTGIHEYDFVVKDIPFHLIDVGGQRSERKXWVSFFSDVDCAIFVTSLAEYDMKLYEDGNTSRLTESIAVFKDI-MTN  223 (340)
T ss_dssp             CCCCCSCEEEEEESSSCEEEEEECCSCHHHHHHHHTTSCSCSEEEEEEEGGGTTCBCC--CCSBHHHHHHHHHHHH-HHC
T ss_pred             ccceeeeEEEEEEeeeeeeccccCCCcccccccHHHHhccCCEEEEEEECCccccccccccccchHHHHHHHHHHH-hhh
Confidence            346789888888888999999999999999999988            777          788999999988877 222


Q ss_pred             cCCCCeEEEEee
Q psy9521         111 IGRRDCMVMPVS  122 (125)
Q Consensus       111 ~~~~~~~i~~~s  122 (125)
                      ....+++++.+-
T Consensus       224 ~~~~~~piiLv~  235 (340)
T 4fid_A          224 EFLKGAVKLIFL  235 (340)
T ss_dssp             GGGTTSEEEEEE
T ss_pred             hccCCCeEEEEE
Confidence            222445666553

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.44  E-value=1.3e-13  Score=90.84  Aligned_cols=57  Identities=21%  Similarity=0.193  Sum_probs=37.2

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeE-EEEeCCEEEEEEECCC
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIG-QIDINTVRLNFWDLGG   78 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~i~D~~G   78 (125)
                      ....+||+++|++|||||||++++.+.....+.        ++.+.+.. .....+..+.+||++|
T Consensus        20 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~--------~~~~~t~~~~~~~~~~~~~i~Dt~G   77 (195)
T 3pqc_A           20 PPLKGEVAFVGRSNVGKSSLLNALFNRKIAFVS--------KTPGKTRSINFYLVNSKYYFVDLPG   77 (195)
T ss_dssp             CCTTCEEEEEEBTTSSHHHHHHHHHTSCCSCCC--------SSCCCCCCEEEEEETTTEEEEECCC
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHcCcccccc--------CCCCCccCeEEEEECCcEEEEECCC
Confidence            346689999999999999999995433232222        44433322 1112245688999999

>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=99.43  E-value=2.3e-13  Score=89.89  Aligned_cols=82  Identities=20%  Similarity=0.261  Sum_probs=47.9

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCCEEEEEEECCC----------cc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINTVRLNFWDLGG----------QL   80 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~~~~~i~D~~G----------~~   80 (125)
                      ....++|+++|++|||||||+++ +.+.|...+.        ++.+.+..  ....+ ..+.+||++|          ++
T Consensus        20 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~--------~~~~~t~~~~~~~~~-~~~~l~Dt~G~~~~~~~~~~~~   90 (195)
T 1svi_A           20 EGGLPEIALAGRSNVGKSSFINSLINRKNLARTS--------SKPGKTQTLNFYIIN-DELHFVDVPGYGFAKVSKSERE   90 (195)
T ss_dssp             CSCCCEEEEEEBTTSSHHHHHHHHHTC---------------------CCEEEEEET-TTEEEEECCCBCCCSSCHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCCCccccC--------CCCCceeeEEEEEEC-CcEEEEECCCCCccccCHHHHH
Confidence            34679999999999999999999 5554554443        44433321  22222 3689999999          66


Q ss_pred             cccccccc---------------cccCccCHHHHH--HHHh
Q psy9521          81 ELQSLWDK---------------DIRDCMGVREVK--PIFN  104 (125)
Q Consensus        81 ~~~~~~~~---------------Di~~~~s~~~i~--~~l~  104 (125)
                      .++.++..               |.++..++.+..  .|+.
T Consensus        91 ~~~~~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~  131 (195)
T 1svi_A           91 AWGRMIETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLK  131 (195)
T ss_dssp             HHHHHHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcCCEEEEEEECCCCCCHHHHHHHHHHH
Confidence            66544332               777777776643  4443

>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=99.41  E-value=1.3e-12  Score=88.85  Aligned_cols=59  Identities=19%  Similarity=0.317  Sum_probs=41.9

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ   79 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~   79 (125)
                      .+.+||+++|++|||||||+++ +.+.+.....      ...|....+..+..++..+.+||++|+
T Consensus        27 ~~~~kI~vvG~~~vGKSsLin~l~~~~~~~~~~------~~~t~~~~~~~~~~~~~~~~l~DtpG~   86 (228)
T 2qu8_A           27 PHKKTIILSGAPNVGKSSFMNIVSRANVDVQSY------SFTTKNLYVGHFDHKLNKYQIIDTPGL   86 (228)
T ss_dssp             TTSEEEEEECSTTSSHHHHHHHHTTTCEEEECC-----------CEEEEEEEETTEEEEEEECTTT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCC------CCcceeeeeeeeecCCCeEEEEECCCC
Confidence            4679999999999999999999 5555542211      012444555556667899999999999

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.41  E-value=3.4e-13  Score=102.34  Aligned_cols=84  Identities=24%  Similarity=0.293  Sum_probs=55.6

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEE--------e----CCEEEEEEECCCccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQID--------I----NTVRLNFWDLGGQLE   81 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~--------~----~~~~~~i~D~~G~~~   81 (125)
                      ...+||+++|.+|||||||+++ +.+.+...+.        ||++.++.+..        .    .++.+.+||++|++.
T Consensus        39 ~~~~kV~lvG~~~vGKSSLl~~l~~~~~~~~~~--------~t~g~~~~~~~~~~~~~v~~~~~~~~~~~~i~Dt~G~e~  110 (535)
T 3dpu_A           39 LQEIKVHLIGDGMAGKTSLLKQLIGETFDPKES--------QTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQEI  110 (535)
T ss_dssp             CCEEEEEEESSSCSSHHHHHHHHHC-------------------CCCEEEEEGGGSGGGTTCSTTTTCEEEEECCCSCCT
T ss_pred             ccceEEEEECCCCCCHHHHHHHHhcCCCCCCCC--------CccceEEEEeccccccceeecCCCceEEEEEEECCcHHH
Confidence            4679999999999999999999 5667766666        88888876431        1    148999999999999


Q ss_pred             ccccccc---------cccCccCHHHHHHHHhhh
Q psy9521          82 LQSLWDK---------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        82 ~~~~~~~---------Di~~~~s~~~i~~~l~~~  106 (125)
                      ++.++..         =+-|..+++.+..|+.++
T Consensus       111 ~~~~~~~~l~~~d~ii~V~D~s~~~~~~~~~~~l  144 (535)
T 3dpu_A          111 MHASHQFFMTRSSVYMLLLDSRTDSNKHYWLRHI  144 (535)
T ss_dssp             TTTTCHHHHHSSEEEEEEECGGGGGGHHHHHHHH
T ss_pred             HHHHHHHHccCCcEEEEEEeCCCchhHHHHHHHH
Confidence            9887765         112233457777787776

>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=99.40  E-value=3.9e-12  Score=91.41  Aligned_cols=68  Identities=19%  Similarity=0.247  Sum_probs=51.7

Q ss_pred             ccccceeeEEEEeCCEEEEEEECCCcccccccccc------------ccc----------CccCHHHHHHHHhhhccccc
Q psy9521          54 TTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK------------DIR----------DCMGVREVKPIFNKNSAHLI  111 (125)
Q Consensus        54 ~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~------------Di~----------~~~s~~~i~~~l~~~~~~~~  111 (125)
                      .||+|+....++.+++++++||++||++++.+|..            |++          +..+|++...|++.+ .+..
T Consensus       152 ~~TiGi~~~~~~~~~v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i-~~~~  230 (327)
T 3ohm_A          152 VPTTGIIEYPFDLQSVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTI-ITYP  230 (327)
T ss_dssp             CCCCSEEEEEEEETTEEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHH-HTSG
T ss_pred             CceeeEEEEEEEeeceeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHHHHHHH-hhhh
Confidence            47789888888889999999999999999999988            443          778888888888877 2222


Q ss_pred             CCCCeEEEEee
Q psy9521         112 GRRDCMVMPVS  122 (125)
Q Consensus       112 ~~~~~~i~~~s  122 (125)
                      ...+++++.+-
T Consensus       231 ~~~~~~iiL~~  241 (327)
T 3ohm_A          231 WFQNSSVILFL  241 (327)
T ss_dssp             GGTTCEEEEEE
T ss_pred             ccCCceEEEEE
Confidence            22445666553

>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=99.38  E-value=1.9e-13  Score=94.92  Aligned_cols=85  Identities=12%  Similarity=0.204  Sum_probs=55.2

Q ss_pred             cCceEEEEEEeCC---------CCcHHHHHHH-Hh---hccccccCCCCCCcccccc-ceeeE--E--------------
Q psy9521          14 RKDEFCVLILGLD---------NAGKTTYLES-AK---TKFTKNYKGMNPSKITTTV-GLNIG--Q--------------   63 (125)
Q Consensus        14 ~~~~~ki~v~G~~---------~~GKTsl~~~-i~---~~~~~~~~~~~~~~~~~t~-~~~~~--~--------------   63 (125)
                      ..+.+||+++|++         |||||||+++ +.   +.+..++.        ||+ +.++.  .              
T Consensus        16 ~~~~~ki~lvG~~~~~~~~~~~~vGKSsLi~~l~~~~~~~~~~~~~--------~t~~~~~~~~~~i~~~~~~~~~~~~~   87 (255)
T 3c5h_A           16 FQGTYNISVVGLSGTEKEKGQCGIGKSCLCNRFVRPSADEFHLDHT--------SVLSTSDFGGRVVNNDHFLYWGEVSR   87 (255)
T ss_dssp             CCSCEEEEEEESCCCTTTTTTCCCSHHHHHHHHHCCSTTTCCSCCC--------CEECHHHHTSTTTTTCSEEEEEEEC-
T ss_pred             CCceeEEEEECCCccccccCCCCcCHHHHHHHHHhccCCccccccC--------CcccccccceeEeecccccccccccc
Confidence            3567999999999         9999999999 55   34554444        443 33321  1              


Q ss_pred             --EEeCCEEEEEEE-----------------------CCCccccccccc--------------------------c----
Q psy9521          64 --IDINTVRLNFWD-----------------------LGGQLELQSLWD--------------------------K----   88 (125)
Q Consensus        64 --~~~~~~~~~i~D-----------------------~~G~~~~~~~~~--------------------------~----   88 (125)
                        ++...+.+++||                       ++|+++|+.++.                          .    
T Consensus        88 ~~~~~~~~~l~i~D~~~~~D~~~~~~~~~~~~~~~~~~~g~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ad~vi  167 (255)
T 3c5h_A           88 SLEDCVECKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFL  167 (255)
T ss_dssp             --------CEEEEEECCCEETTTCSBTTGGGCCCHHHHHTCSEEECTTCBCCCCGGGTTCGGGSCCCBCGGGEEECCEEE
T ss_pred             cccCCcEEEEEEEEccccccccccccccccccccccccchhhhhhhhhhhhhhccccccccccccccccccccccCCEEE
Confidence              122347899999                       666665544332                          1    


Q ss_pred             ---cccCc--cCHHHHHHHHhhh
Q psy9521          89 ---DIRDC--MGVREVKPIFNKN  106 (125)
Q Consensus        89 ---Di~~~--~s~~~i~~~l~~~  106 (125)
                         |++++  .||+++..|+.++
T Consensus       168 lV~D~t~~~~~s~~~~~~~l~~i  190 (255)
T 3c5h_A          168 LGIDVSRGMNRNFDDQLKFVSNL  190 (255)
T ss_dssp             EEEECBC----CHHHHHHHHHHH
T ss_pred             EEEECCCCchhhHHHHHHHHHHH
Confidence               88888  9999999999876

>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=99.36  E-value=6.6e-12  Score=87.43  Aligned_cols=64  Identities=27%  Similarity=0.283  Sum_probs=45.9

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHh-hccc-cccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccccccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAK-TKFT-KNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSL   85 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~-~~~~-~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~   85 (125)
                      .+.+||+++|.+|||||||++++. ..+. ..++       ..|+......+..++..+.+||++|++.+...
T Consensus         3 ~~~~kI~lvG~~nvGKTsL~n~l~g~~~~~~~~p-------g~tv~~~~~~~~~~~~~~~l~DtpG~~~~~~~   68 (258)
T 3a1s_A            3 LHMVKVALAGCPNVGKTSLFNALTGTKQYVANWP-------GVTVEKKEGVFTYKGYTINLIDLPGTYSLGYS   68 (258)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHTTCEEEEECT-------TSCCEEEEEEEEETTEEEEEEECCCCSSCCSS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHCCCCcccCCC-------CceEEEEEEEEEECCeEEEEEECCCcCccCCC
Confidence            467899999999999999999954 3433 2221       12333333456667899999999999887654

>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=99.35  E-value=5.7e-12  Score=91.47  Aligned_cols=69  Identities=16%  Similarity=0.275  Sum_probs=53.2

Q ss_pred             ccccceeeEEEEeCCEEEEEEECCCcccccccccc------------cccC----------ccCHHHHHHHHhhhccccc
Q psy9521          54 TTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK------------DIRD----------CMGVREVKPIFNKNSAHLI  111 (125)
Q Consensus        54 ~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~------------Di~~----------~~s~~~i~~~l~~~~~~~~  111 (125)
                      .||+|++...+..+++.+++||++||++++.+|..            |+++          ..++++...|++.+ .+..
T Consensus       178 ~~T~Gi~~~~~~~~~~~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i-~~~~  256 (353)
T 1cip_A          178 VKTTGIVETHFTFKDLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSI-CNNK  256 (353)
T ss_dssp             CCCCSEEEEEEEETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHH-HTCG
T ss_pred             CceeceEEEEEeeCCeeEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHH-HcCc
Confidence            36788887788888999999999999999999998            8887          57799999999887 2221


Q ss_pred             CCCCeEEEEeec
Q psy9521         112 GRRDCMVMPVSA  123 (125)
Q Consensus       112 ~~~~~~i~~~sA  123 (125)
                      ...+.+++.+..
T Consensus       257 ~~~~~piiLv~N  268 (353)
T 1cip_A          257 WFTDTSIILFLN  268 (353)
T ss_dssp             GGTTSEEEEEEE
T ss_pred             cccCCcEEEEEE
Confidence            124466665543

>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=99.34  E-value=1.1e-11  Score=91.18  Aligned_cols=68  Identities=18%  Similarity=0.250  Sum_probs=52.8

Q ss_pred             cccceeeEEEEeCCEEEEEEECCCcccccccccc------------cccC----------ccCHHHHHHHHhhhcccccC
Q psy9521          55 TTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK------------DIRD----------CMGVREVKPIFNKNSAHLIG  112 (125)
Q Consensus        55 ~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~------------Di~~----------~~s~~~i~~~l~~~~~~~~~  112 (125)
                      +|+|++...+..+++.+++||++||++++.+|..            |+++          ..+|+++..|++.+ .+...
T Consensus       203 ~TiGi~~~~~~~~~v~l~iwDtaGQe~~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i-~~~~~  281 (402)
T 1azs_C          203 LTSGIFETKFQVDKVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSI-WNNRW  281 (402)
T ss_dssp             CCCSEEEEEEEETTEEEEEEEECCSGGGGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHH-HTCTT
T ss_pred             ceeeeEEEEeecCCccceecccchhhhhhhhhHhhccCCCEEEEEEECcccccccccccccchHHHHHHHHHHH-Hhccc
Confidence            3667777777888899999999999999999988            8888          89999999999987 22212


Q ss_pred             CCCeEEEEeec
Q psy9521         113 RRDCMVMPVSA  123 (125)
Q Consensus       113 ~~~~~i~~~sA  123 (125)
                      ..+++++.+-.
T Consensus       282 ~~~~piiLvgN  292 (402)
T 1azs_C          282 LRTISVILFLN  292 (402)
T ss_dssp             CSSCCEEEEEE
T ss_pred             CCCCeEEEEEE
Confidence            24456655543

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.32  E-value=1.7e-11  Score=85.35  Aligned_cols=64  Identities=17%  Similarity=0.270  Sum_probs=45.5

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHh-hcc--ccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccccccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAK-TKF--TKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSL   85 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~-~~~--~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~   85 (125)
                      .++++|+++|..|+|||||++++. +.+  ...+.       ..|.......+..++..+.+|||+|++++...
T Consensus        34 ~~~~~I~lvG~~g~GKSSLin~l~~~~~~~~~~~~-------~~t~~~~~~~~~~~~~~l~liDTpG~~~~~~~  100 (262)
T 3def_A           34 MNSMTVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQ-------AEGLRPVMVSRTMGGFTINIIDTPGLVEAGYV  100 (262)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHTSCCSCCCSSC-------C-CCCCEEEEEEETTEEEEEEECCCSEETTEE
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCCCCcccCCCC-------CcceeeEEEEEEECCeeEEEEECCCCCCcccc
Confidence            368999999999999999999954 332  11111       12344444456778899999999999877543

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.28  E-value=3.6e-12  Score=85.94  Aligned_cols=62  Identities=18%  Similarity=0.070  Sum_probs=39.9

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHhhcc-ccccCCCCCCccccccceeeEEEE-eCCEEEEEEECCCc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAKTKF-TKNYKGMNPSKITTTVGLNIGQID-INTVRLNFWDLGGQ   79 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~~~~-~~~~~~~~~~~~~~t~~~~~~~~~-~~~~~~~i~D~~G~   79 (125)
                      ....++|+++|..|||||||++++.+.. .....    .....|....+..+. .++..+.+|||+|.
T Consensus        26 ~~~~~~i~v~G~~~~GKSslin~l~~~~~~~~~~----~~~~~t~~~~~~~~~~~~~~~~~l~DtpG~   89 (223)
T 4dhe_A           26 PTVQPEIAFAGRSNAGKSTAINVLCNQKRLAFAS----KTPGRTQHINYFSVGPAAEPVAHLVDLPGY   89 (223)
T ss_dssp             CCCSCEEEEEESCHHHHHHHHHHHTTCSSSSCTT----CCCCSCCCEEEEEESCTTSCSEEEEECCCC
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHhCCCcceeec----CCCCcccceEEEEecCCCCCcEEEEcCCCC
Confidence            3467899999999999999999954432 11111    011123344444443 34588999999994

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.27  E-value=4.7e-11  Score=76.19  Aligned_cols=58  Identities=22%  Similarity=0.303  Sum_probs=39.0

Q ss_pred             EEEEEEeCCCCcHHHHHHHHh-hccc--cccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccc
Q psy9521          18 FCVLILGLDNAGKTTYLESAK-TKFT--KNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLEL   82 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~-~~~~--~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~   82 (125)
                      .||+++|++|||||||++++. +.+.  ..+.       ..|.......+..++..+.+||++|++.+
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~   62 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKRSAVVADVP-------GVTRDLKEGVVETDRGRFLLVDTGGLWSG   62 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCCC------------------CCEEEEEEETTEEEEEEECGGGCSS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCeeeccCCC-------CceecceEEEEEeCCceEEEEECCCCCCc
Confidence            479999999999999999954 3322  1111       12333334456677889999999999874

>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=99.27  E-value=2.7e-11  Score=84.91  Aligned_cols=63  Identities=22%  Similarity=0.293  Sum_probs=44.4

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhh-ccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKT-KFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQS   84 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~-~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~   84 (125)
                      ++++|+++|.+|||||||++++.+ .+.....      ...|+......+...+..+.+||++|+..+..
T Consensus         2 ~~~~I~lvG~~n~GKSTLin~l~g~~~~v~~~------~g~t~~~~~~~~~~~~~~~~liDtpG~~~~~~   65 (274)
T 3i8s_A            2 KKLTIGLIGNPNSGKTTLFNQLTGSRQRVGNW------AGVTVERKEGQFSTTDHQVTLVDLPGTYSLTT   65 (274)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTTCEEEEEC------TTSSSEEEEEEEECSSCEEEEEECCCCSCSCC
T ss_pred             CccEEEEECCCCCCHHHHHHHHhCCCcccCCC------CCeeEEEEEEEEEeCCCceEEEECcCCCcccc
Confidence            468999999999999999999543 3322211      01233333445666778999999999988773

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.25  E-value=5.5e-12  Score=93.64  Aligned_cols=57  Identities=18%  Similarity=0.183  Sum_probs=38.5

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHH-hhccc--cccCCCCCCccccccceeeEEEEeCCEEEEEEECCCc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESA-KTKFT--KNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ   79 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i-~~~~~--~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~   79 (125)
                      ..+||+++|.+|||||||++++ .+.+.  ..+.       ..|.......+..++..+.+|||+|+
T Consensus       174 ~~~ki~lvG~~nvGKSSLin~l~~~~~~~~~~~~-------gtT~d~~~~~~~~~~~~~~l~DT~G~  233 (436)
T 2hjg_A          174 EVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVA-------GTTRDAVDTSFTYNQQEFVIVDTAGM  233 (436)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHTSTTEEEC----------------CCEEEEETTEEEEETTHHHH
T ss_pred             cCcEEEEEcCCCCCHHHHHHHHhCCCceeecCCC-------CceeeeeEEEEEECCeEEEEEECCCc
Confidence            4589999999999999999994 44432  2221       12333333466778889999999998

>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=99.25  E-value=1.9e-11  Score=91.86  Aligned_cols=84  Identities=18%  Similarity=0.121  Sum_probs=45.4

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhc-c--ccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc---
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTK-F--TKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~-~--~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      +..+||+++|.+|||||||++++.+. .  ...++       ..|.......+..++..+.+|||+|++++...+..   
T Consensus       231 r~~~kV~ivG~~nvGKSSLln~L~~~~~a~vs~~~-------gtT~d~~~~~i~~~g~~l~liDT~G~~~~~~~ve~~gi  303 (476)
T 3gee_A          231 SEGVSTVIAGKPNAGKSTLLNTLLGQERAIVSHMP-------GTTRDYIEECFIHDKTMFRLTDTAGLREAGEEIEHEGI  303 (476)
T ss_dssp             HHCEEEEEECCTTSSHHHHHHHCC-------------------------CEEEEETTEEEEEEC----------------
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCC-------CceEEEEEEEEEECCeEEEEEECCCCCcchhHHHHHHH
Confidence            46789999999999999999995432 2  22221       12333334567788999999999999776543211   


Q ss_pred             -----------------cccCccCHH---HHHHHHhh
Q psy9521          89 -----------------DIRDCMGVR---EVKPIFNK  105 (125)
Q Consensus        89 -----------------Di~~~~s~~---~i~~~l~~  105 (125)
                                       |.++..+++   +...|++.
T Consensus       304 ~~~~~~~~~aD~vl~VvD~s~~~s~~~~~~~~~~l~~  340 (476)
T 3gee_A          304 RRSRMKMAEADLILYLLDLGTERLDDELTEIRELKAA  340 (476)
T ss_dssp             ----CCCSSCSEEEEEEETTTCSSGGGHHHHHHHHHH
T ss_pred             HHHHhhcccCCEEEEEEECCCCcchhhhHHHHHHHHh
Confidence                             888888886   34445554

>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=99.24  E-value=6.6e-11  Score=82.63  Aligned_cols=61  Identities=21%  Similarity=0.204  Sum_probs=44.8

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHh-hccccccCCCCCCccccccceee--EEEEeCCEEEEEEECCCcccccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAK-TKFTKNYKGMNPSKITTTVGLNI--GQIDINTVRLNFWDLGGQLELQS   84 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~-~~~~~~~~~~~~~~~~~t~~~~~--~~~~~~~~~~~i~D~~G~~~~~~   84 (125)
                      +.++|+++|++|||||||++++. ..+.....        |++..+.  ..+..++..+.+||++|+..+..
T Consensus         2 ~~~~i~lvG~~g~GKTTL~n~l~g~~~~~~~~--------~~~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~   65 (271)
T 3k53_A            2 VLKTVALVGNPNVGKTTIFNALTGLRQHVGNW--------PGVTVEKKEGIMEYREKEFLVVDLPGIYSLTA   65 (271)
T ss_dssp             CCEEEEEEECSSSSHHHHHHHHHTTCEEEEEC--------TTSSCEEEEEEEEETTEEEEEEECCCCSCCCS
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhCCCcccCCC--------CCeEEEeeEEEEEECCceEEEEeCCCcccccc
Confidence            35789999999999999999954 33322222        4444443  35667788999999999987765

>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=99.24  E-value=4.7e-11  Score=83.05  Aligned_cols=60  Identities=23%  Similarity=0.253  Sum_probs=42.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc-cccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK-FTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQS   84 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~-~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~   84 (125)
                      +|+++|.+|||||||++++.+. +.....      ...|+......+..++..+.+||+||+..+..
T Consensus         3 kI~lvG~~n~GKSTL~n~L~g~~~~v~~~------pg~Tv~~~~~~~~~~~~~~~lvDtpG~~~~~~   63 (256)
T 3iby_A            3 HALLIGNPNCGKTTLFNALTNANQRVGNW------PGVTVEKKTGEFLLGEHLIEITDLPGVYSLVA   63 (256)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTTSEEEEEC------TTSSSEEEEEEEEETTEEEEEEECCCCSSCC-
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCCCccCC------CCceEEEEEEEEEECCeEEEEEeCCCcccccc
Confidence            6999999999999999996543 222111      01333344446777889999999999987764

>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=99.23  E-value=2.1e-11  Score=91.65  Aligned_cols=72  Identities=14%  Similarity=0.191  Sum_probs=46.2

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHH-hh--cccccc----------------------CC-CCCCccccccceeeEEEEeC
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESA-KT--KFTKNY----------------------KG-MNPSKITTTVGLNIGQIDIN   67 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i-~~--~~~~~~----------------------~~-~~~~~~~~t~~~~~~~~~~~   67 (125)
                      .++.+||+++|..++|||||++++ ..  .+...+                      .. ........|+...+..+..+
T Consensus        30 ~k~~~ki~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~  109 (483)
T 3p26_A           30 ALPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTH  109 (483)
T ss_dssp             SCCEEEEEEESCGGGTHHHHHHHHHHHTTSSCHHHHHHHCC------------------------CCSSCCCCEEEEECS
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHHhcCCccHHHHHHHHHHHHhcCCCcchhhhhhccchhHhhcCcceEeeeEEEecC
Confidence            467899999999999999999994 33  111000                      00 00001113444444456667


Q ss_pred             CEEEEEEECCCccccccc
Q psy9521          68 TVRLNFWDLGGQLELQSL   85 (125)
Q Consensus        68 ~~~~~i~D~~G~~~~~~~   85 (125)
                      +..+.+||++|+++|...
T Consensus       110 ~~~~~iiDTPG~~~f~~~  127 (483)
T 3p26_A          110 RANFTIVDAPGHRDFVPN  127 (483)
T ss_dssp             SCEEEEECCCCCGGGHHH
T ss_pred             CceEEEEECCCcHHHHHH
Confidence            899999999999987654

>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=9.6e-12  Score=92.82  Aligned_cols=66  Identities=17%  Similarity=0.174  Sum_probs=43.8

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhc--c-ccccCCCCCCccccccceeeEEEEeCCEEEEEEECCC----------ccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTK--F-TKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGG----------QLE   81 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~--~-~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G----------~~~   81 (125)
                      ...+||+++|.+|||||||++++.+.  . ...+.       ..|.......+..++..+.+|||+|          +|+
T Consensus       193 ~~~~ki~ivG~~~vGKSslin~l~~~~~~~~~~~~-------gtt~~~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~e~  265 (456)
T 4dcu_A          193 EEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVA-------GTTRDAVDTSFTYNQQEFVIVDTAGMRKKGKVYETTEK  265 (456)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHTSTTEEECC-------------CTTSEEEEETTEEEEETTGGGTTTBTTBCCCCSH
T ss_pred             cccceeEEecCCCCCHHHHHHHHhCCCccccCCCC-------CeEEEEEEEEEEECCceEEEEECCCCCcCcccchHHHH
Confidence            35689999999999999999995432  1 12221       1222222345677888999999999          677


Q ss_pred             cccccc
Q psy9521          82 LQSLWD   87 (125)
Q Consensus        82 ~~~~~~   87 (125)
                      |..++.
T Consensus       266 ~~~~~~  271 (456)
T 4dcu_A          266 YSVLRA  271 (456)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            765443

>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=99.22  E-value=4.8e-11  Score=88.58  Aligned_cols=73  Identities=15%  Similarity=0.193  Sum_probs=44.7

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHH-hhc---cccc---------cCCCCCC---------------ccccccceeeEEEE
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESA-KTK---FTKN---------YKGMNPS---------------KITTTVGLNIGQID   65 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i-~~~---~~~~---------~~~~~~~---------------~~~~t~~~~~~~~~   65 (125)
                      .++.++|+++|..++|||||++++ .+.   +..+         ..+....               ....|+...+..+.
T Consensus        21 ~~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~i~~~s~~~gt~~~~~~~~~~~d~~~~E~~rGiTi~~~~~~~~  100 (434)
T 1zun_B           21 RKEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYFS  100 (434)
T ss_dssp             SCEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEEE
T ss_pred             cCCceEEEEEECCCCCHHHHHHHHHhhcCCCchhhhhhhhhhhhccCccccchhhhhhhccChhHHHCCcEEEeeeeEee
Confidence            356799999999999999999994 432   1110         0000000               00123333344556


Q ss_pred             eCCEEEEEEECCCcccccccc
Q psy9521          66 INTVRLNFWDLGGQLELQSLW   86 (125)
Q Consensus        66 ~~~~~~~i~D~~G~~~~~~~~   86 (125)
                      .++..+.+||++|+++|...+
T Consensus       101 ~~~~~~~iiDtpGh~~f~~~~  121 (434)
T 1zun_B          101 TAKRKFIIADTPGHEQYTRNM  121 (434)
T ss_dssp             CSSEEEEEEECCCSGGGHHHH
T ss_pred             cCCceEEEEECCChHHHHHHH
Confidence            677899999999999885443

>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=99.21  E-value=3.1e-10  Score=80.81  Aligned_cols=88  Identities=24%  Similarity=0.187  Sum_probs=59.3

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHhh-ccccccCCCCCCccccccceeeEEEEeC-CEEEEEEECCCccccc--------
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAKT-KFTKNYKGMNPSKITTTVGLNIGQIDIN-TVRLNFWDLGGQLELQ--------   83 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~~-~~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~i~D~~G~~~~~--------   83 (125)
                      ..+.-.|+++|.+|||||||++++.+ ++..     .......|..........+ +.++.+|||+|+....        
T Consensus         7 ~~~~g~v~ivG~~nvGKSTLin~l~g~~~~i-----~s~~~~tT~~~~~~~~~~~~~~~i~lvDTPG~~~~~~~~~l~~~   81 (308)
T 3iev_A            7 HMKVGYVAIVGKPNVGKSTLLNNLLGTKVSI-----ISPKAGTTRMRVLGVKNIPNEAQIIFLDTPGIYEPKKSDVLGHS   81 (308)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHHHTSCCSC-----CCSSSCCCCSCEEEEEEETTTEEEEEEECCCCCCCCTTCHHHHH
T ss_pred             CCCCCEEEEECCCCCcHHHHHHHHhCCCccc-----cCCCCCceeeEEEEEEecCCCCeEEEEECcCCCccccchhHHHH
Confidence            34677899999999999999999543 3321     1112223444333455666 8999999999997654        


Q ss_pred             --ccccc------------cccCccCHHHHHHHHhhh
Q psy9521          84 --SLWDK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        84 --~~~~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                        ..+..            |.++..++++...|++.+
T Consensus        82 ~~~~~~~~l~~aD~il~VvD~~~~~~~~~~~~~~~~l  118 (308)
T 3iev_A           82 MVEIAKQSLEEADVILFMIDATEGWRPRDEEIYQNFI  118 (308)
T ss_dssp             HHHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHT
T ss_pred             HHHHHHHHhhcCCEEEEEEeCCCCCCchhHHHHHHHH
Confidence              11111            888888888877777765

>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=99.19  E-value=7e-11  Score=82.89  Aligned_cols=59  Identities=22%  Similarity=0.276  Sum_probs=40.4

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhc--cccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccccc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTK--FTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQ   83 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~--~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~   83 (125)
                      .+||+++|++|||||||++++.+.  +..+++       ..|+......+.. +..+.+||++|++.+.
T Consensus         3 ~~kI~lvG~~nvGKSTL~n~L~g~~~~v~~~p-------g~tv~~~~~~~~~-~~~l~l~DtpG~~~~~   63 (272)
T 3b1v_A            3 MTEIALIGNPNSGKTSLFNLITGHNQRVGNWP-------GVTVERKSGLVKK-NKDLEIQDLPGIYSMS   63 (272)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHCCCCCCCSSS-------CCCCSCEEEECTT-CTTEEEEECCCCSCSS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCCCCcccCCC-------CCcEEEEEEEEec-CCeEEEEECCCcCccC
Confidence            578999999999999999996543  222222       1232222223333 6789999999998876

>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=99.17  E-value=4.8e-11  Score=88.63  Aligned_cols=71  Identities=14%  Similarity=0.221  Sum_probs=42.6

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHH-hh--ccccccC----------CC-------------CCCccccccceeeEEEEeCC
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESA-KT--KFTKNYK----------GM-------------NPSKITTTVGLNIGQIDINT   68 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i-~~--~~~~~~~----------~~-------------~~~~~~~t~~~~~~~~~~~~   68 (125)
                      ++.++|+++|..++|||||++++ .+  .+...+.          +.             .......|+...+..+..++
T Consensus         4 k~~~~I~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~giTi~~~~~~~~~~~   83 (435)
T 1jny_A            4 KPHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFETKK   83 (435)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEECSS
T ss_pred             CCEEEEEEEeCCCCCHHHHHHHHHHHcCCcCHHHHhhhhhhhhhcCCcchhhhhhhccChHHHhcCceeEeeEEEEecCC
Confidence            56789999999999999999994 42  2211100          00             00011145555555666678


Q ss_pred             EEEEEEECCCccccccc
Q psy9521          69 VRLNFWDLGGQLELQSL   85 (125)
Q Consensus        69 ~~~~i~D~~G~~~~~~~   85 (125)
                      ..+.+||++|+++|...
T Consensus        84 ~~~~iiDtpG~~~f~~~  100 (435)
T 1jny_A           84 YFFTIIDAPGHRDFVKN  100 (435)
T ss_dssp             CEEEECCCSSSTTHHHH
T ss_pred             eEEEEEECCCcHHHHHH
Confidence            99999999999988543

>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=99.17  E-value=7.8e-11  Score=86.65  Aligned_cols=26  Identities=23%  Similarity=0.323  Sum_probs=23.3

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +++.++|+++|+.++|||||++++.+
T Consensus         5 ~~~~~~I~vvG~~~~GKSTLi~~L~~   30 (403)
T 3sjy_A            5 VQPEVNIGVVGHVDHGKTTLVQAITG   30 (403)
T ss_dssp             CCCCCEEEEECSTTSSHHHHHHHHHS
T ss_pred             cCCCcEEEEECCCCCCHHHHHHHHhC
Confidence            46789999999999999999999654

>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=99.17  E-value=4.7e-11  Score=87.72  Aligned_cols=70  Identities=16%  Similarity=0.097  Sum_probs=44.6

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhccccccCCCC---------C--CccccccceeeEEEEeCCEEEEEEECCCccccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMN---------P--SKITTTVGLNIGQIDINTVRLNFWDLGGQLELQ   83 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~---------~--~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~   83 (125)
                      ++.++|+++|..++|||||++++.+..........         .  .....|+...+..+..++..+.+||++|+++|.
T Consensus         1 k~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~d~~~~e~~~giTi~~~~~~~~~~~~~~~iiDtpG~~~f~   80 (397)
T 1d2e_A            1 KPHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYV   80 (397)
T ss_dssp             CCEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSSCEEEEEECSSHHHHH
T ss_pred             CCeEEEEEEeCCCCCHHHHHHHHhChhhhcCccccchhhhhhcCHHHHhcCcEEEeeeEEeccCCeEEEEEECCChHHHH
Confidence            46789999999999999999995432110000000         0  011134444444455567899999999998875


Q ss_pred             c
Q psy9521          84 S   84 (125)
Q Consensus        84 ~   84 (125)
                      .
T Consensus        81 ~   81 (397)
T 1d2e_A           81 K   81 (397)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.17  E-value=6.4e-11  Score=87.23  Aligned_cols=68  Identities=19%  Similarity=0.277  Sum_probs=43.2

Q ss_pred             ccCceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCcccc--ccceeeEEEEe---------------C--------
Q psy9521          13 LRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITT--TVGLNIGQIDI---------------N--------   67 (125)
Q Consensus        13 ~~~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~--t~~~~~~~~~~---------------~--------   67 (125)
                      .+++.++|+++|..++|||||++++.+.+.....    .+..+  |+...+.....               +        
T Consensus         4 ~r~~~~~I~iiG~~d~GKSTLi~~L~g~~~~~~~----~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~   79 (408)
T 1s0u_A            4 GSQAEVNIGMVGHVDHGKTSLTKALTGVWTDRHS----EELRRGISIRLGYADCEIRKCPQCGTYTTKPRCPNCLAETEF   79 (408)
T ss_dssp             -CCCCEEEEEESCTTSSHHHHHHHHHSCCCCC-----------CCCCCCEEEEEEEEECTTTCCEESSSBCTTSCCBCEE
T ss_pred             ccCCceEEEEEcCCCCCHHHHHHHHhCCccccCc----ccccCCcEEEecccccccccccccccccccccccccCccccc
Confidence            3567899999999999999999997543321111    11113  66554432211               1        


Q ss_pred             CEEEEEEECCCcccccc
Q psy9521          68 TVRLNFWDLGGQLELQS   84 (125)
Q Consensus        68 ~~~~~i~D~~G~~~~~~   84 (125)
                      ...+.+||++|+++|..
T Consensus        80 ~~~i~iiDtPGh~~f~~   96 (408)
T 1s0u_A           80 LRRVSFVDSPGHETLMA   96 (408)
T ss_dssp             EEEEEEEECSSHHHHHH
T ss_pred             ccEEEEEECCCHHHHHH
Confidence            16899999999988754

>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=99.16  E-value=2.7e-11  Score=91.13  Aligned_cols=70  Identities=17%  Similarity=0.218  Sum_probs=42.9

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhccccc-cCC-CCCCccccccceeeEEEEeCCEEEEEEECCCccccccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKFTKN-YKG-MNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSL   85 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~~~~-~~~-~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~   85 (125)
                      +.++|+++|..++|||||++++.+..... ... ........|+...+..+..++..+.+||++|+++|...
T Consensus        18 ~~~~I~iiG~~d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~~i~iiDtPGh~~~~~~   89 (482)
T 1wb1_A           18 KNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLENYRITLVDAPGHADLIRA   89 (482)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEETTEEEEECCCSSHHHHHHH
T ss_pred             CCCEEEEECCCCChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEECCEEEEEEECCChHHHHHH
Confidence            57899999999999999999965432000 000 00011124555555566778899999999999887443

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

Probab=99.16  E-value=1.2e-10  Score=86.68  Aligned_cols=73  Identities=18%  Similarity=0.186  Sum_probs=46.9

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHH-hh--cccccc---------------------CCCCCCc--cccccceeeEEEEeC
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESA-KT--KFTKNY---------------------KGMNPSK--ITTTVGLNIGQIDIN   67 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i-~~--~~~~~~---------------------~~~~~~~--~~~t~~~~~~~~~~~   67 (125)
                      .+..++|+++|..++|||||++++ ..  ......                     ......+  ...|+...+..+..+
T Consensus        14 ~k~~~~i~iiG~~d~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTid~~~~~~~~~   93 (439)
T 3j2k_7           14 KKEHVNVVFIGHVDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTVEVGRAYFETE   93 (439)
T ss_pred             CCceeEEEEEeCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHhccccchhhhhhhccchhHhhcCceEEEeEEEEecC
Confidence            357799999999999999999995 32  110000                     0000000  113444444566777


Q ss_pred             CEEEEEEECCCcccccccc
Q psy9521          68 TVRLNFWDLGGQLELQSLW   86 (125)
Q Consensus        68 ~~~~~i~D~~G~~~~~~~~   86 (125)
                      +..+.+||++|+++|....
T Consensus        94 ~~~~~iiDTPGh~~f~~~~  112 (439)
T 3j2k_7           94 KKHFTILDAPGHKSFVPNM  112 (439)
T ss_pred             CeEEEEEECCChHHHHHHH
Confidence            8999999999999875543

>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=99.16  E-value=3.9e-10  Score=81.83  Aligned_cols=56  Identities=18%  Similarity=0.181  Sum_probs=41.4

Q ss_pred             CCEEEEEEECCCcccccccccc------------ccc----------CccCHHHHHHHHhhhcccccCCCCeEEEEeec
Q psy9521          67 NTVRLNFWDLGGQLELQSLWDK------------DIR----------DCMGVREVKPIFNKNSAHLIGRRDCMVMPVSA  123 (125)
Q Consensus        67 ~~~~~~i~D~~G~~~~~~~~~~------------Di~----------~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~sA  123 (125)
                      +.+.+++||++||++++.+|..            |++          +..+|+++..|++.+ .+.....+++++.+-.
T Consensus       181 ~~v~l~iwDtaGQe~~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~i-~~~~~~~~~piiLvgN  258 (354)
T 2xtz_A          181 SGEVYRLFDVGGQRNERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDWV-LKQPCFEKTSFMLFLN  258 (354)
T ss_dssp             ---EEEEEEECCSTTGGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHHH-HTCGGGSSCEEEEEEE
T ss_pred             cceeeEEEECCCchhhhHHHHHHhCCCCEEEEEEECcccccccccccchhHHHHHHHHHHHH-HhccccCCCeEEEEEE
Confidence            3489999999999999999988            877          889999999999887 2221224566666543

>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=99.15  E-value=6.7e-10  Score=78.90  Aligned_cols=62  Identities=24%  Similarity=0.169  Sum_probs=40.6

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHH-hhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESA-KTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLEL   82 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i-~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~   82 (125)
                      +..+|+++|.+|||||||++++ ..++....     ...+.|.......+..++.++.+|||+|+.+.
T Consensus         6 ~~g~V~ivG~~nvGKSTLln~l~g~~~~ivs-----~~~~tTr~~i~~i~~~~~~~l~l~DTpG~~~~   68 (301)
T 1wf3_A            6 YSGFVAIVGKPNVGKSTLLNNLLGVKVAPIS-----PRPQTTRKRLRGILTEGRRQIVFVDTPGLHKP   68 (301)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTSCCSCCC-----SSSCCCCSCEEEEEEETTEEEEEEECCCCCCC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCceeeec-----CCCCceeEEEEEEEEeCCcEEEEecCccccch
Confidence            4567999999999999999994 44432110     11112322222234456799999999998764

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.15  E-value=5.9e-11  Score=91.51  Aligned_cols=71  Identities=15%  Similarity=0.212  Sum_probs=45.7

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhcccc--c-----------cCCCCCC-------------ccccccceeeEEEEeCC
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFTK--N-----------YKGMNPS-------------KITTTVGLNIGQIDINT   68 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~~--~-----------~~~~~~~-------------~~~~t~~~~~~~~~~~~   68 (125)
                      ++.+||+++|..++|||||++++.+....  +           ..+...-             ....|+...+..+...+
T Consensus       165 k~~lkV~ivG~~n~GKSTLin~Ll~~~~~i~~~~i~~~~~~~~~~g~~~~~~a~~~d~~~~e~~~GiTid~~~~~~~~~~  244 (611)
T 3izq_1          165 LPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTHR  244 (611)
T ss_dssp             CCCCEEEEECCSSSCHHHHHHHHHSCSSCSCCHHHHHHHHHSSCSSSSCCSSSHHHHHHHHHHHTTTCCSCSCCEEECSS
T ss_pred             CCceEEEEEECCCCCHHHHHHHHHHhcCCccHHHHHHHHhhhhhccccccceeeeeccchhhhhCCeeEeeeeEEEecCC
Confidence            56899999999999999999995322100  0           0000000             01134444445666778


Q ss_pred             EEEEEEECCCccccccc
Q psy9521          69 VRLNFWDLGGQLELQSL   85 (125)
Q Consensus        69 ~~~~i~D~~G~~~~~~~   85 (125)
                      ..+.+|||+|+++|...
T Consensus       245 ~~~~iiDTPG~e~f~~~  261 (611)
T 3izq_1          245 ANFTIVDAPGHRDFVPN  261 (611)
T ss_dssp             CEEEEEECCSSSCHHHH
T ss_pred             ceEEEEECCCCcccHHH
Confidence            99999999999887544

>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=99.13  E-value=1.4e-10  Score=85.48  Aligned_cols=66  Identities=21%  Similarity=0.320  Sum_probs=44.1

Q ss_pred             ccCceEEEEEEeCCCCcHHHHHHHHhhc----cccccCCCCCCccccccceeeEEEEe---------------C------
Q psy9521          13 LRKDEFCVLILGLDNAGKTTYLESAKTK----FTKNYKGMNPSKITTTVGLNIGQIDI---------------N------   67 (125)
Q Consensus        13 ~~~~~~ki~v~G~~~~GKTsl~~~i~~~----~~~~~~~~~~~~~~~t~~~~~~~~~~---------------~------   67 (125)
                      .+++.++|+++|..++|||||++++.+.    +..++.      ...|+...+.....               +      
T Consensus         6 ~~~~~~~I~iiG~~~~GKSTLi~~L~g~~~~~~~~e~~------~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~   79 (410)
T 1kk1_A            6 SRQAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELR------RGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHET   79 (410)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGG------SCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBC
T ss_pred             cCCCccEEEEECCCCCCHHHHHHHHhCCccccChhhhc------CCcEEEEeeeeeecccccccccccccccccccCccc
Confidence            3467899999999999999999996543    222222      01266555442222               1      


Q ss_pred             --CEEEEEEECCCcccccc
Q psy9521          68 --TVRLNFWDLGGQLELQS   84 (125)
Q Consensus        68 --~~~~~i~D~~G~~~~~~   84 (125)
                        ...+.+||++|++.|..
T Consensus        80 ~~~~~i~iiDtPGh~~f~~   98 (410)
T 1kk1_A           80 EFVRRVSFIDAPGHEALMT   98 (410)
T ss_dssp             EEEEEEEEEECSSHHHHHH
T ss_pred             ccccEEEEEECCChHHHHH
Confidence              16899999999988744

>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=99.13  E-value=1.6e-10  Score=85.08  Aligned_cols=73  Identities=14%  Similarity=0.042  Sum_probs=45.2

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHhhccccccC-CC-------CCC----ccccccceeeEEEEeCCEEEEEEECCCccc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAKTKFTKNYK-GM-------NPS----KITTTVGLNIGQIDINTVRLNFWDLGGQLE   81 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~-~~-------~~~----~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~   81 (125)
                      .++.++|+++|..++|||||++++.+....... ..       ...    ....|+......+..++..+.+||++|+++
T Consensus         8 ~~~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~~~~iiDtpG~~~   87 (405)
T 2c78_A            8 TKPHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHAD   87 (405)
T ss_dssp             -CCEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCSGG
T ss_pred             CCCeEEEEEEcCCCCCHHHHHHHHHhhhhhcCccccccchhhccCCHHHHHcCCCEEeeeeEeccCCeEEEEEECCChHH
Confidence            467899999999999999999995442111100 00       000    011233333334555678999999999998


Q ss_pred             ccccc
Q psy9521          82 LQSLW   86 (125)
Q Consensus        82 ~~~~~   86 (125)
                      |....
T Consensus        88 f~~~~   92 (405)
T 2c78_A           88 YIKNM   92 (405)
T ss_dssp             GHHHH
T ss_pred             HHHHH
Confidence            75443

>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=99.12  E-value=1.1e-10  Score=84.81  Aligned_cols=75  Identities=20%  Similarity=0.277  Sum_probs=38.0

Q ss_pred             ccCceEEEEEEeCCCCcHHHHHHHHh--hccccccCCCCCCccccccceeeEEE--EeCC--EEEEEEECCCc-------
Q psy9521          13 LRKDEFCVLILGLDNAGKTTYLESAK--TKFTKNYKGMNPSKITTTVGLNIGQI--DINT--VRLNFWDLGGQ-------   79 (125)
Q Consensus        13 ~~~~~~ki~v~G~~~~GKTsl~~~i~--~~~~~~~~~~~~~~~~~t~~~~~~~~--~~~~--~~~~i~D~~G~-------   79 (125)
                      .+...++|+++|++|+|||||++++.  +.+...+.........+|++.....+  ..++  ..+++||++|+       
T Consensus        33 ~~~~~~~I~vvG~~g~GKSTLln~L~~~~~~~~~~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~l~i~DTpG~gd~~~~~  112 (361)
T 2qag_A           33 KKGFEFTLMVVGESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCR  112 (361)
T ss_dssp             HHCCEECEEECCCTTSCHHHHHHHHTTCCC---------------CEEEEEEEEC----CEEEEEEEEC-----------
T ss_pred             cCCCCEEEEEEcCCCCCHHHHHHHHhCCCCCCCCcccCCCcccCCceeEEEEEEEeecCCcccceEEEEeccccccCccH
Confidence            34567899999999999999999953  33333221111222336666665433  2234  57999999999       


Q ss_pred             cccccccc
Q psy9521          80 LELQSLWD   87 (125)
Q Consensus        80 ~~~~~~~~   87 (125)
                      +.++.++.
T Consensus       113 e~~~~i~~  120 (361)
T 2qag_A          113 DCFKTIIS  120 (361)
T ss_dssp             ---CCTHH
T ss_pred             HHHHHHHH
Confidence            77777765

>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=99.12  E-value=2.7e-10  Score=84.61  Aligned_cols=61  Identities=25%  Similarity=0.215  Sum_probs=38.9

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhc-c--ccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTK-F--TKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQ   83 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~-~--~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~   83 (125)
                      ..+|++++|++|||||||++++.+. +  ...++       ..|.......+..++..+.+|||+|+++..
T Consensus       179 ~~~kvaivG~~gvGKSTLln~l~g~~~~~v~~~~-------gtT~d~~~~~i~~~g~~~~l~Dt~G~~~~~  242 (439)
T 1mky_A          179 DAIKVAIVGRPNVGKSTLFNAILNKERALVSPIP-------GTTRDPVDDEVFIDGRKYVFVDTAGLRRKS  242 (439)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC-------------CCEEEEETTEEEEESSCSCC----
T ss_pred             cCceEEEECCCCCCHHHHHHHHhCCcccccCCCC-------CCcCCceEEEEEECCEEEEEEECCCCcccc
Confidence            3489999999999999999995543 2  12221       122223334677788899999999985443

>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=99.11  E-value=1.1e-10  Score=87.50  Aligned_cols=77  Identities=19%  Similarity=0.212  Sum_probs=40.7

Q ss_pred             hhhccCceEEEEEEeCCCCcHHHHHHHH-h--hcccc--------cc--CC-------------CCCCccccccceeeEE
Q psy9521          10 KYMLRKDEFCVLILGLDNAGKTTYLESA-K--TKFTK--------NY--KG-------------MNPSKITTTVGLNIGQ   63 (125)
Q Consensus        10 ~~~~~~~~~ki~v~G~~~~GKTsl~~~i-~--~~~~~--------~~--~~-------------~~~~~~~~t~~~~~~~   63 (125)
                      +..+.++.++|+++|..++|||||++++ .  +.+..        +.  .+             ........|++..+..
T Consensus        36 ~~~~~k~~~~i~iiG~vd~GKSTLi~~Ll~~~g~~~~~~~~~~~~~~~~~G~~~~~~~~~~D~~~~er~~giTi~~~~~~  115 (467)
T 1r5b_A           36 KDMYGKEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAY  115 (467)
T ss_dssp             HHHSCCEEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCE
T ss_pred             HhhcCCCeeEEEEEECCCCCHHHHHHHHHHHhCCCChHHHHHHHhHHHhcCCcchhhhhhcccchhhhhcCceEEeeeEE
Confidence            3345678899999999999999999994 3  22210        00  00             0001123566665556


Q ss_pred             EEeCCEEEEEEECCCcccccccc
Q psy9521          64 IDINTVRLNFWDLGGQLELQSLW   86 (125)
Q Consensus        64 ~~~~~~~~~i~D~~G~~~~~~~~   86 (125)
                      +..++..+.+||++|+++|...+
T Consensus       116 ~~~~~~~~~iiDtPGh~~f~~~~  138 (467)
T 1r5b_A          116 FETEHRRFSLLDAPGHKGYVTNM  138 (467)
T ss_dssp             EECSSEEEEECCCCC--------
T ss_pred             EecCCeEEEEEECCCcHHHHHHH
Confidence            77778999999999999886543

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.09  E-value=4.3e-10  Score=78.46  Aligned_cols=65  Identities=15%  Similarity=0.156  Sum_probs=43.2

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHh-hccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAK-TKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQS   84 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~-~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~   84 (125)
                      .+.++|+++|.+|+|||||++++. ..+.. ..    .....|.......+..++..+.+|||+|++++..
T Consensus        37 ~~~~~I~vvG~~g~GKSSLin~l~~~~~~~-~~----~~~~~t~~~~~~~~~~~~~~l~iiDTpG~~~~~~  102 (270)
T 1h65_A           37 VNSLTILVMGKGGVGKSSTVNSIIGERVVS-IS----PFQSEGPRPVMVSRSRAGFTLNIIDTPGLIEGGY  102 (270)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSC-CC----SSSCCCSSCEEEEEEETTEEEEEEECCCSEETTE
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCccc-cc----CCCCcceeeEEEEEeeCCeEEEEEECCCCCCCcc
Confidence            368999999999999999999954 33311 11    0001222222234556789999999999977653

>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=99.09  E-value=5e-10  Score=83.16  Aligned_cols=56  Identities=21%  Similarity=0.254  Sum_probs=37.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh-cc--ccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKT-KF--TKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLE   81 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~-~~--~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~   81 (125)
                      +|+++|.+|||||||++++.+ +.  ...++       ..|....+..+..++..+.+|||+|++.
T Consensus         3 ~v~ivG~pnvGKStL~nrl~~~~~~~v~~~~-------g~T~d~~~~~~~~~~~~~~l~DT~G~~~   61 (439)
T 1mky_A            3 TVLIVGRPNVGKSTLFNKLVKKKKAIVEDEE-------GVTRDPVQDTVEWYGKTFKLVDTCGVFD   61 (439)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC---------------------CCSEEEEEETTEEEEEEECTTTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCceecCCC-------CCccceeeEEEEECCeEEEEEECCCccc
Confidence            699999999999999999543 32  12221       1333344556777889999999999875

>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=99.08  E-value=2.6e-10  Score=85.27  Aligned_cols=71  Identities=15%  Similarity=0.224  Sum_probs=47.0

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHH-hh--ccccc----------cCCCCC-------C------ccccccceeeEEEEeCC
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESA-KT--KFTKN----------YKGMNP-------S------KITTTVGLNIGQIDINT   68 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i-~~--~~~~~----------~~~~~~-------~------~~~~t~~~~~~~~~~~~   68 (125)
                      ++.++|+++|..++|||||++++ ..  .+...          ..+...       +      ....|+...+..+..++
T Consensus         5 ~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~~~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTi~~~~~~~~~~~   84 (458)
T 1f60_A            5 KSHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFETPK   84 (458)
T ss_dssp             CEEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEECSS
T ss_pred             CceeEEEEEcCCCCCHHHHHHHHHHHcCCcChHHHHHhhhhHHhcCCcchhhhhhhccchhHHhcCcEEEEEEEEEecCC
Confidence            46789999999999999999994 32  11110          000000       0      01245655556677778


Q ss_pred             EEEEEEECCCccccccc
Q psy9521          69 VRLNFWDLGGQLELQSL   85 (125)
Q Consensus        69 ~~~~i~D~~G~~~~~~~   85 (125)
                      ..+.+||++|+++|...
T Consensus        85 ~~~~iiDtPGh~~f~~~  101 (458)
T 1f60_A           85 YQVTVIDAPGHRDFIKN  101 (458)
T ss_dssp             EEEEEEECCCCTTHHHH
T ss_pred             ceEEEEECCCcHHHHHH
Confidence            99999999999887543

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.08  E-value=6.9e-10  Score=77.60  Aligned_cols=67  Identities=22%  Similarity=0.319  Sum_probs=38.9

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHh--hccccccCCCCCCccccccceeeEEEEe--CC--EEEEEEECCCccc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAK--TKFTKNYKGMNPSKITTTVGLNIGQIDI--NT--VRLNFWDLGGQLE   81 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~--~~~~~~~~~~~~~~~~~t~~~~~~~~~~--~~--~~~~i~D~~G~~~   81 (125)
                      +..+++|+++|.+|+|||||++++.  +.+..+++ .+.....+|++.+......  ++  +.+.+|||+|...
T Consensus         5 ~g~~~~I~vvG~~g~GKSTLin~L~~~~~~~~~~~-~~~~~~~~t~~~~~~~~~~~~~~~~~~l~liDTpG~~d   77 (274)
T 3t5d_A            5 SGFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYP-GPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGD   77 (274)
T ss_dssp             --CEEEEEEEECTTSSHHHHHHHHSSSCC----------------CCCEEEEEEECC--CCEEEEEEECCCCSC
T ss_pred             CccEEEEEEECCCCCCHHHHHHHHhCCCccccCCC-CcccccCCceEEEEEEEEEecCCeEEEEEEEECCCccc
Confidence            4568999999999999999999943  33443331 1112224777777654433  33  6999999999853

>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=99.07  E-value=4.9e-10  Score=76.66  Aligned_cols=61  Identities=16%  Similarity=0.130  Sum_probs=40.8

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHh-hccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAK-TKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ   79 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~-~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~   79 (125)
                      ...+||+++|.+|||||||++++. ..+.....    .....|.......+..++..+.+|||+|.
T Consensus        27 ~~~~~i~lvG~~g~GKStlin~l~g~~~~~~~~----~~~~~t~~~~~~~~~~~~~~i~liDTpG~   88 (239)
T 3lxx_A           27 NSQLRIVLVGKTGAGKSATGNSILGRKVFHSGT----AAKSITKKCEKRSSSWKETELVVVDTPGI   88 (239)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHTSCCSCC-----------CCSCEEEEEEETTEEEEEEECCSC
T ss_pred             CCceEEEEECCCCCCHHHHHHHHcCCCcCccCC----CCCceeeeEEEEEEEeCCceEEEEECCCc
Confidence            468999999999999999999954 44332221    00113334444466778899999999993

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

Probab=99.06  E-value=9.8e-11  Score=89.04  Aligned_cols=65  Identities=22%  Similarity=0.309  Sum_probs=47.0

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceee--EEEEe-CCEEEEEEECCCcccccccccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNI--GQIDI-NTVRLNFWDLGGQLELQSLWDK   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~--~~~~~-~~~~~~i~D~~G~~~~~~~~~~   88 (125)
                      +..+|+++|+.++|||||+++ ....+...+.        +++..++  ..+.. ++..+.+|||||++.|..++..
T Consensus         3 r~pkV~IvG~~~vGKTSLl~~L~~~~~~~~~~--------~giT~~i~~~~v~~~~g~~i~~iDTPGhe~f~~~~~~   71 (537)
T 3izy_P            3 RSPVVTIMGHVDHGKTTLLDKLRKTQVAAMEA--------GGITQHIGAFLVSLPSGEKITFLDTPGHAAFSAMRAR   71 (537)
T ss_dssp             CCCBCEEEESTTTTHHHHHHHHHHHHHHHSSS--------CCBCCCTTSCCBCSSCSSCCBCEECSSSCCTTTSBBS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcccccC--------CceeEEEeEEEEEeCCCCEEEEEECCChHHHHHHHHH
Confidence            456799999999999999999 5555554443        3333332  23333 3568999999999999887765

>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=99.05  E-value=7.4e-10  Score=76.57  Aligned_cols=63  Identities=16%  Similarity=0.169  Sum_probs=43.7

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHh-hc-cccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAK-TK-FTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLEL   82 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~-~~-~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~   82 (125)
                      .+.++|+++|.+|||||||++++. .. +...+.     +...|.......+..++..+.+|||+|+..+
T Consensus        20 ~~~~~I~lvG~~g~GKStl~n~l~~~~~~~~~~~-----~~~~t~~~~~~~~~~~~~~i~iiDTpG~~~~   84 (260)
T 2xtp_A           20 RSELRIILVGKTGTGKSAAGNSILRKQAFESKLG-----SQTLTKTCSKSQGSWGNREIVIIDTPDMFSW   84 (260)
T ss_dssp             -CCEEEEEEECTTSCHHHHHHHHHTSCCSCCCTT-----SCCCCCSCEEEEEEETTEEEEEEECCGGGGS
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhCCCCcccCCC-----CCceeeeeEEEEEEeCCCEEEEEECcCCCCC
Confidence            467999999999999999999954 33 332222     1112344444456677899999999998654

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

Probab=99.05  E-value=3.1e-10  Score=82.76  Aligned_cols=53  Identities=17%  Similarity=0.196  Sum_probs=43.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQS   84 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~   84 (125)
                      +|+++|..++|||||++++.     ++.        .|+...+..+..++..+.+||++|+++|..
T Consensus        23 ~i~iiG~~d~GKSTL~~~L~-----~~g--------iTi~~~~~~~~~~~~~i~iiDtPGh~~f~~   75 (370)
T 2elf_A           23 NVAIIGTEKSGRTSLAANLG-----KKG--------TSSDITMYNNDKEGRNMVFVDAHSYPKTLK   75 (370)
T ss_dssp             EEEEEESTTSSHHHHHHTTS-----EEE--------EESSSEEEEECSSSSEEEEEECTTTTTCHH
T ss_pred             EEEEECCCCCCHHHHHHHHH-----hCC--------EEEEeeEEEEecCCeEEEEEECCChHHHHH
Confidence            89999999999999999954     222        677777767777788999999999998843

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.05  E-value=1.9e-09  Score=78.09  Aligned_cols=85  Identities=27%  Similarity=0.332  Sum_probs=59.2

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhcccc--ccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccccccc-------
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFTK--NYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSL-------   85 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~~--~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-------   85 (125)
                      ...++++++|.+|||||||++++.+....  .++       ..|.+.....+...+..+.+|||+|.......       
T Consensus       165 ~~~~~v~lvG~~gvGKSTLin~L~~~~~~~~~~~-------~~t~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~  237 (357)
T 2e87_A          165 LEIPTVVIAGHPNVGKSTLLKALTTAKPEIASYP-------FTTRGINVGQFEDGYFRYQIIDTPGLLDRPISERNEIEK  237 (357)
T ss_dssp             SSSCEEEEECSTTSSHHHHHHHHCSSCCEEECCT-------TCSSCEEEEEEEETTEEEEEEECTTTSSSCSTTSCHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCC-------CeeeceeEEEEEecCceEEEEeCCCccccchhhhhHHHH
Confidence            46689999999999999999996543221  111       14555555566667889999999998543210       


Q ss_pred             ------c--cc------cccCcc--CHHHHHHHHhhh
Q psy9521          86 ------W--DK------DIRDCM--GVREVKPIFNKN  106 (125)
Q Consensus        86 ------~--~~------Di~~~~--s~~~i~~~l~~~  106 (125)
                            .  ..      |.++..  ++++...|+..+
T Consensus       238 ~~~~~~~~~ad~illV~D~s~~~~~~~~~~~~~~~~i  274 (357)
T 2e87_A          238 QAILALRYLGNLIIYIFDPSEHCGFPLEEQIHLFEEV  274 (357)
T ss_dssp             HHHHGGGGTCSEEEEEECTTCTTSSCHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCEEEEEEeCCccccCCHHHHHHHHHHH
Confidence                  0  00      877766  788888888876

>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=99.05  E-value=4.1e-10  Score=81.99  Aligned_cols=58  Identities=28%  Similarity=0.278  Sum_probs=38.5

Q ss_pred             eEE-EEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCc
Q psy9521          17 EFC-VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ   79 (125)
Q Consensus        17 ~~k-i~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~   79 (125)
                      .++ |+++|.+|||||||++++.+.....     .+...+|.+.....+..++..+.+|||+|.
T Consensus       178 ~~~~V~lvG~~naGKSTLln~L~~~~~~~-----~~~~~~T~d~~~~~i~~~g~~v~l~DT~G~  236 (364)
T 2qtf_A          178 NIPSIGIVGYTNSGKTSLFNSLTGLTQKV-----DTKLFTTMSPKRYAIPINNRKIMLVDTVGF  236 (364)
T ss_dssp             -CCEEEEECBTTSSHHHHHHHHHCC----------------CCSCEEEEEETTEEEEEEECCCB
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCCccc-----cCCcccccCCEEEEEEECCEEEEEEeCCCc
Confidence            456 9999999999999999965432210     011225555555677788889999999997

>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=99.03  E-value=4.7e-10  Score=84.00  Aligned_cols=62  Identities=21%  Similarity=0.280  Sum_probs=37.4

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHH-hhccc--cccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESA-KTKFT--KNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQ   83 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i-~~~~~--~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~   83 (125)
                      +..+||+++|.+|||||||++++ ...+.  ...+       ..|.......+..++..+.+|||+|++.+.
T Consensus       222 r~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~-------gtT~d~~~~~i~~~g~~v~liDT~G~~~~~  286 (462)
T 3geh_A          222 RTGLKVAIVGRPNVGKSSLLNAWSQSDRAIVTDLP-------GTTRDVVESQLVVGGIPVQVLDTAGIRETS  286 (462)
T ss_dssp             HHCEEEEEEECTTSSHHHHHHHHHHHHBSCCSCCT-------TCCHHHHHHEEEETTEEEEECC--------
T ss_pred             cCCCEEEEEcCCCCCHHHHHHHHhCCCcccccCCC-------CeeEEEEEEEEEECCEEEEEEECCccccch
Confidence            35789999999999999999995 43332  1211       122233233677789999999999986543

>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=99.02  E-value=6.7e-10  Score=83.55  Aligned_cols=78  Identities=22%  Similarity=0.246  Sum_probs=54.5

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHh-hcc--ccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcc-ccccc------
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAK-TKF--TKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQL-ELQSL------   85 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~-~~~--~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~-~~~~~------   85 (125)
                      ..++|+++|.+|||||||++++. ..+  ..+++       ..|.......+..++..+.+|||+|++ ++...      
T Consensus       242 ~~~kV~ivG~pnvGKSSLln~L~~~~~a~vs~~~-------gTT~d~~~~~i~~~g~~~~l~DTaG~~~~~~~~ve~~gi  314 (482)
T 1xzp_A          242 RGLRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIP-------GTTRDVISEEIVIRGILFRIVDTAGVRSETNDLVERLGI  314 (482)
T ss_dssp             HCEEEEEECCHHHHTCHHHHHHHHHTBCCCCCSS-------CCSSCSCCEEEEETTEEEEEEESSCCCSSCCTTCCCCCH
T ss_pred             CCCEEEEECcCCCcHHHHHHHHHCCCCCccCCCC-------CeeeeeEEEEEecCCeEEEEEECCCccccchhhHHHHHH
Confidence            45899999999999999999954 432  22222       134444445677789999999999998 55421      


Q ss_pred             ---ccc-----------cccCccCHHHHH
Q psy9521          86 ---WDK-----------DIRDCMGVREVK  100 (125)
Q Consensus        86 ---~~~-----------Di~~~~s~~~i~  100 (125)
                         +..           |.++..++++.+
T Consensus       315 ~~~~~~~~~aD~vl~VvD~s~~~s~~~~~  343 (482)
T 1xzp_A          315 ERTLQEIEKADIVLFVLDASSPLDEEDRK  343 (482)
T ss_dssp             HHHHHHHHHCSEEEEEEETTSCCCHHHHH
T ss_pred             HHHHHHhhcccEEEEEecCCCCCCHHHHH
Confidence               111           888888887653

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.00  E-value=3.4e-10  Score=84.02  Aligned_cols=59  Identities=20%  Similarity=0.146  Sum_probs=32.5

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQL   80 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~   80 (125)
                      .+|+++|.+|||||||++++.+.......    +....|....+..+...+..+.+|||+|++
T Consensus         4 ~~V~ivG~~nvGKStL~n~l~~~~~~~v~----~~~g~T~d~~~~~~~~~~~~~~l~DT~G~~   62 (436)
T 2hjg_A            4 PVVAIVGRPNVGKSTIFNRIAGERISIVE----DTPGVTRDRIYSSAEWLNYDFNLIDTGGID   62 (436)
T ss_dssp             CEEEEECSTTSSHHHHHHHHEEEECC---------------CEEEECTTCSSCCEEEC-----
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeec----CCCCCccceEEEEEEECCceEEEEECCCCC
Confidence            57999999999999999996543322221    001122223333455567889999999986

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=98.98  E-value=5.2e-10  Score=86.03  Aligned_cols=73  Identities=15%  Similarity=0.137  Sum_probs=33.8

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHH-hhc--ccccc----------CC-----------CCCC--ccccccceeeEEEEeC
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESA-KTK--FTKNY----------KG-----------MNPS--KITTTVGLNIGQIDIN   67 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i-~~~--~~~~~----------~~-----------~~~~--~~~~t~~~~~~~~~~~   67 (125)
                      .+..++|+++|..++|||||++++ ...  .....          .+           ....  ....|+...+..+..+
T Consensus       174 ~k~~~~I~iiG~~d~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~GiTid~~~~~~~~~  253 (592)
T 3mca_A          174 PKPVVHLVVTGHVDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLLDTTEEERARGVTMDVASTTFESD  253 (592)
T ss_dssp             CCCEEEEEEECCSSSTHHHHHHHHHHHHHCC-------------------------------------------------
T ss_pred             CCCccEEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHhHhhcCCcchhhhhhhccchhhhcCCeeEEeeEEEEEeC
Confidence            457789999999999999999995 311  10000          00           0000  0112333333455556


Q ss_pred             CEEEEEEECCCcccccccc
Q psy9521          68 TVRLNFWDLGGQLELQSLW   86 (125)
Q Consensus        68 ~~~~~i~D~~G~~~~~~~~   86 (125)
                      +..+.+|||+|+++|....
T Consensus       254 ~~~i~iiDTPGh~~f~~~~  272 (592)
T 3mca_A          254 KKIYEIGDAPGHRDFISGM  272 (592)
T ss_dssp             -----CCEEESSSEEEEEC
T ss_pred             CeEEEEEECCChHHHHHHH
Confidence            7899999999998876543

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=98.93  E-value=7e-09  Score=78.80  Aligned_cols=87  Identities=17%  Similarity=0.101  Sum_probs=56.2

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHh-h-c-----------------cccccCCCCCCccccccceeeEEEEeCCEEEEEEEC
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAK-T-K-----------------FTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDL   76 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~-~-~-----------------~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~   76 (125)
                      +..+|+++|.+|+|||||++++. . .                 +.....  .......|+......+..++..+.+|||
T Consensus        12 ~~r~IaIiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~d~~~--~e~~~GiTi~~~~~~~~~~~~~i~liDT   89 (528)
T 3tr5_A           12 MRRTFAIISHPDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSDWME--LEKQRGISVTTSVMQFPYKDYLINLLDT   89 (528)
T ss_dssp             TEEEEEEEECTTSSHHHHHHHHHHHTTCHHHHHHHHTC----CCHHHHHH--HHHHHCCSSSSSEEEEEETTEEEEEECC
T ss_pred             cCCEEEEECCCCCcHHHHHHHHHhhcCCcccceeeeccccccceecccch--hhhcCCeeEEEeEEEEEeCCEEEEEEEC
Confidence            45689999999999999999952 0 0                 000000  0000012343344456677899999999


Q ss_pred             CCcccccccccc------------cccCccCHHHHHHHHh
Q psy9521          77 GGQLELQSLWDK------------DIRDCMGVREVKPIFN  104 (125)
Q Consensus        77 ~G~~~~~~~~~~------------Di~~~~s~~~i~~~l~  104 (125)
                      +|+++|...+..            |..+..+.+...-|..
T Consensus        90 PG~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~~~~~~  129 (528)
T 3tr5_A           90 PGHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIKLMEV  129 (528)
T ss_dssp             CCSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHHHHHH
T ss_pred             CCchhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHH
Confidence            999988765443            7777777777665543

>1lnz_A SPO0B-associated GTP-binding protein; GTPase, OBG, stringent factor, stress response, sporulation, large G-protein, structural genomics, PSI; HET: G4P; 2.60A {Bacillus subtilis} SCOP: b.117.1.1 c.37.1.8

Probab=98.93  E-value=7.3e-10  Score=80.07  Aligned_cols=81  Identities=22%  Similarity=0.257  Sum_probs=55.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccc--cccCCCCCCccccccceeeEEEEeCC-EEEEEEECCCccc----ccccccc---
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFT--KNYKGMNPSKITTTVGLNIGQIDINT-VRLNFWDLGGQLE----LQSLWDK---   88 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~--~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~i~D~~G~~~----~~~~~~~---   88 (125)
                      +|+++|.+|||||||++++.+..+  .+++       .+|...++..+..++ ..+.+||++|+.+    ++.+...   
T Consensus       160 ~V~lvG~~nvGKSTLln~L~~~~~~i~~~~-------ftTl~p~~g~v~~~~~~~~~l~DtPG~i~~a~~~~~l~~~fl~  232 (342)
T 1lnz_A          160 DVGLVGFPSVGKSTLLSVVSSAKPKIADYH-------FTTLVPNLGMVETDDGRSFVMADLPGLIEGAHQGVGLGHQFLR  232 (342)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCEESSTT-------SSCCCCCEEEEECSSSCEEEEEEHHHHHHHTTCTTTTHHHHHH
T ss_pred             eeeeeCCCCCCHHHHHHHHHcCCCccccCC-------ccccCceEEEEEeCCCceEEEecCCCCcccccccchhHHHHHH
Confidence            478999999999999999543322  1221       134444444566665 8899999999643    2222111   


Q ss_pred             ------------cccC---ccCHHHHHHHHhhh
Q psy9521          89 ------------DIRD---CMGVREVKPIFNKN  106 (125)
Q Consensus        89 ------------Di~~---~~s~~~i~~~l~~~  106 (125)
                                  |+++   +.+++++..|+.++
T Consensus       233 ~i~~~d~ll~VvD~s~~~~~~~~~~~~~~~~eL  265 (342)
T 1lnz_A          233 HIERTRVIVHVIDMSGLEGRDPYDDYLTINQEL  265 (342)
T ss_dssp             HHHHCCEEEEEEESSCSSCCCHHHHHHHHHHHH
T ss_pred             HHHhccEEEEEEECCcccccChHHHHHHHHHHH
Confidence                        8887   78899988888776

>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=98.91  E-value=3.9e-10  Score=84.11  Aligned_cols=63  Identities=21%  Similarity=0.269  Sum_probs=39.7

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCcccccccee----eEEEEeCCEEEEEEECCC--------cccccc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLN----IGQIDINTVRLNFWDLGG--------QLELQS   84 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~----~~~~~~~~~~~~i~D~~G--------~~~~~~   84 (125)
                      ..+|+++|.+|||||||++++.+.......        ++.|.+    +..+...+..+.+|||+|        +++++.
T Consensus        23 ~~~V~lvG~~nvGKSTL~n~l~~~~~~~v~--------~~~g~t~~~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~   94 (456)
T 4dcu_A           23 KPVVAIVGRPNVGKSTIFNRIAGERISIVE--------DTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQ   94 (456)
T ss_dssp             CCEEEEECSSSSSHHHHHHHHEEEEEC-------------------CEEEECTTCSSCCEEECCCC------CCHHHHHH
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCCcccC--------CCCCcceeEEEEEEEECCceEEEEECCCCCCcchHHHHHHHH
Confidence            458999999999999999996543322221        233333    334444568899999999        665555


Q ss_pred             ccc
Q psy9521          85 LWD   87 (125)
Q Consensus        85 ~~~   87 (125)
                      .+.
T Consensus        95 ~~~   97 (456)
T 4dcu_A           95 QAE   97 (456)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>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=98.91  E-value=5.5e-09  Score=81.62  Aligned_cols=91  Identities=18%  Similarity=0.095  Sum_probs=56.9

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-Hhh--ccccc--cC-C-CCC------CccccccceeeEEEEeCCEEEEEEECCCccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKT--KFTKN--YK-G-MNP------SKITTTVGLNIGQIDINTVRLNFWDLGGQLE   81 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~--~~~~~--~~-~-~~~------~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~   81 (125)
                      .+..+|+++|..|+|||||+++ +..  .+...  .. + ...      ....+|+......+..++..+++|||+|++.
T Consensus        10 ~~~~~I~IvG~~~aGKTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giTi~~~~~~~~~~~~~i~liDTPG~~d   89 (691)
T 1dar_A           10 KRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKDHRINIIDTPGHVD   89 (691)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHHHHHCC----------------------------CCEEEEEETTEEEEEECCCSSTT
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhcCCCcccceecCCceeccCchhhhhcccccccceEEEEECCeEEEEEECcCccc
Confidence            4578899999999999999999 432  11100  00 0 000      0223566666666777789999999999988


Q ss_pred             ccccccc------------cccCccCHHHHHHHHhh
Q psy9521          82 LQSLWDK------------DIRDCMGVREVKPIFNK  105 (125)
Q Consensus        82 ~~~~~~~------------Di~~~~s~~~i~~~l~~  105 (125)
                      |...+..            |..+..+++....|...
T Consensus        90 f~~~~~~~l~~aD~~ilVvDa~~g~~~~t~~~~~~~  125 (691)
T 1dar_A           90 FTIEVERSMRVLDGAIVVFDSSQGVEPQSETVWRQA  125 (691)
T ss_dssp             CHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHCCEEEEEEECCCCcchhhHHHHHHH
Confidence            7665444            77777777777666543

>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=9.7e-09  Score=72.02  Aligned_cols=27  Identities=30%  Similarity=0.393  Sum_probs=22.6

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHH-hhccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESA-KTKFT   42 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i-~~~~~   42 (125)
                      ...+|+++|.+|||||||++++ ...+.
T Consensus        25 ~~~~i~vvG~~~~GKSSLln~l~g~~~~   52 (299)
T 2aka_B           25 DLPQIAVVGGQSAGKSSVLENFVGRDFL   52 (299)
T ss_dssp             CCCEEEEEEBTTSCHHHHHHHHHTSCCS
T ss_pred             CCCeEEEEeCCCCCHHHHHHHHHCCCcC
Confidence            5679999999999999999994 45543

>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=98.90  E-value=3.4e-09  Score=86.43  Aligned_cols=72  Identities=21%  Similarity=0.236  Sum_probs=41.6

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHhhccccc-------cCCCCCCccccccceee----EEEEeCCEEEEEEECCCcccc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAKTKFTKN-------YKGMNPSKITTTVGLNI----GQIDINTVRLNFWDLGGQLEL   82 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~-------~~~~~~~~~~~t~~~~~----~~~~~~~~~~~i~D~~G~~~~   82 (125)
                      .++.++|+++|..++|||||++++.+.....       +......+.+.+.|.++    ..+..++..+.+|||+|+++|
T Consensus       293 ~k~~lnIvIIGhvDvGKSTLInrLt~~~~~~G~a~f~~~a~lD~~~~ErerGITIdva~v~f~~~~~kI~IIDTPGHedF  372 (1289)
T 3avx_A          293 TKPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHADY  372 (1289)
T ss_dssp             CCCEEEEEEEESTTSSHHHHHHHHHHHHHHHSCC---------------------CCSCEEEECSSCEEEEEECCCHHHH
T ss_pred             cCCeeEEEEEcCCCCCHHHHHHHHHhhhccccccccccccccccccccccCceeEEEEEEEEcCCCEEEEEEECCChHHH
Confidence            3577999999999999999999954321100       00000001112333332    244556689999999999988


Q ss_pred             ccc
Q psy9521          83 QSL   85 (125)
Q Consensus        83 ~~~   85 (125)
                      ...
T Consensus       373 ~~~  375 (1289)
T 3avx_A          373 VKN  375 (1289)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=98.89  E-value=1.9e-09  Score=79.93  Aligned_cols=66  Identities=14%  Similarity=0.187  Sum_probs=42.5

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEeCC-EEEEEEECCCccccccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINT-VRLNFWDLGGQLELQSL   85 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~i~D~~G~~~~~~~   85 (125)
                      ...++|+++|..|+|||||+++ +...+....     .....|.......+...+ ..+.+|||+|++.+..+
T Consensus        32 ~~~~kI~IvG~~~vGKSTLin~L~~~~~~~~~-----~~~gtT~d~~~~~~~~~~~~~l~liDTpG~~d~~~l   99 (423)
T 3qq5_A           32 GFRRYIVVAGRRNVGKSSFMNALVGQNVSIVS-----DYAGTTTDPVYKSMELHPIGPVTLVDTPGLDDVGEL   99 (423)
T ss_dssp             CCCEEEEEECSCSTTTTTTTTSSCC------------------CCCCEEEEEETTTEEEEEEECSSTTCCCTT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHcCCCCccC-----CCCCeeeeeEEEEEEECCCCeEEEEECcCCCcccch
Confidence            4678999999999999999999 444432110     011134444445566665 48999999999887655

>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=98.85  E-value=8.5e-09  Score=82.11  Aligned_cols=91  Identities=13%  Similarity=0.114  Sum_probs=57.1

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-Hhhc-cccc-cCC--CC----C--CccccccceeeEEEEeC----------------
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTK-FTKN-YKG--MN----P--SKITTTVGLNIGQIDIN----------------   67 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~-~~~~-~~~--~~----~--~~~~~t~~~~~~~~~~~----------------   67 (125)
                      .+..+|+++|..++|||||+++ +... .... ..+  ..    .  .....|+......+..+                
T Consensus        17 ~~~rnI~IiG~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~D~~~~E~~rgiTI~~~~~~~~~~~~~~~~~~i~~~~~~~   96 (842)
T 1n0u_A           17 TNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGN   96 (842)
T ss_dssp             GGEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSS
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhcCCcccccCCCceeecCchhhhhcceeEeeceeEEEecccccccccccccccCC
Confidence            4567899999999999999999 4431 1100 000  00    0  01113444333333222                


Q ss_pred             CEEEEEEECCCcccccccccc------------cccCccCHHHHHHHHhh
Q psy9521          68 TVRLNFWDLGGQLELQSLWDK------------DIRDCMGVREVKPIFNK  105 (125)
Q Consensus        68 ~~~~~i~D~~G~~~~~~~~~~------------Di~~~~s~~~i~~~l~~  105 (125)
                      ++.+++|||+|+++|...+..            |..+..+++...-|...
T Consensus        97 ~~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g~~~qt~~~~~~~  146 (842)
T 1n0u_A           97 SFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQA  146 (842)
T ss_dssp             EEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHH
T ss_pred             CceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHH
Confidence            588999999999998765554            88888888887666544

>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=98.82  E-value=1.1e-08  Score=78.72  Aligned_cols=82  Identities=23%  Similarity=0.265  Sum_probs=53.3

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEE----------------eCCEEEEEEECCCc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQID----------------INTVRLNFWDLGGQ   79 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~----------------~~~~~~~i~D~~G~   79 (125)
                      +..+|+++|+.++|||||++++.+....++.   +..+.++++..+....                .....+++|||||+
T Consensus         4 r~~~V~IvGh~d~GKTTLl~~L~~~~v~~~e---~ggiT~~ig~~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTPGh   80 (594)
T 1g7s_A            4 RSPIVSVLGHVDHGKTTLLDHIRGSAVASRE---AGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGH   80 (594)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHHHSCC-------CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTT
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhcccCcccc---CCceecccCeEEEeechhhhhccccccccccccccCCEEEEECCCc
Confidence            4578999999999999999995443332221   1123355665543211                11236999999999


Q ss_pred             ccccccccc------------cccC---ccCHHHHH
Q psy9521          80 LELQSLWDK------------DIRD---CMGVREVK  100 (125)
Q Consensus        80 ~~~~~~~~~------------Di~~---~~s~~~i~  100 (125)
                      +.|..++..            |.++   +.+++.+.
T Consensus        81 e~F~~~~~r~~~~aD~aILVvDa~~Gv~~qT~e~l~  116 (594)
T 1g7s_A           81 EAFTTLRKRGGALADLAILIVDINEGFKPQTQEALN  116 (594)
T ss_dssp             SCCTTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhhCCEEEEEEECCCCccHhHHHHHH
Confidence            999887765            7776   56666554

>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=98.82  E-value=1.6e-09  Score=81.86  Aligned_cols=67  Identities=22%  Similarity=0.280  Sum_probs=45.1

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHH-hhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESA-KTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i-~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   88 (125)
                      +..+|+++|+.++|||||++++ ...+.....    ..  .|.......+..++..+.+|||||++.|..++..
T Consensus         3 R~~~V~IvGhvd~GKTTLl~~L~~~~v~~~e~----~G--IT~~i~~~~v~~~~~~i~~iDTPGhe~f~~~~~~   70 (501)
T 1zo1_I            3 RAPVVTIMGHVDHGKTSLLEYIRSTKVASGEA----GG--ITQHIGAYHVETENGMITFLDTPGHAAFTSMRAR   70 (501)
T ss_dssp             CCCCEEEEESTTSSSHHHHHHHHHHHHSBTTB----CC--CCCCSSCCCCCTTSSCCCEECCCTTTCCTTSBCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcCCCccccC----CC--eeEeEEEEEEEECCEEEEEEECCCcHHHHHHHHH
Confidence            4567999999999999999995 444433221    00  1211112234445678999999999999877665

>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=98.81  E-value=5.7e-09  Score=75.94  Aligned_cols=59  Identities=27%  Similarity=0.432  Sum_probs=38.2

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhh-ccc-cccCCCCCCccccccceeeEEEEeCC-----------------EEEEEEECC
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKT-KFT-KNYKGMNPSKITTTVGLNIGQIDINT-----------------VRLNFWDLG   77 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~-~~~-~~~~~~~~~~~~~t~~~~~~~~~~~~-----------------~~~~i~D~~   77 (125)
                      .++|+++|.+|||||||++++.+ .+. .+++       .+|++.+...+..++                 ..+++||++
T Consensus         2 ~~kI~IVG~pnvGKSTL~n~Lt~~~~~v~~~p-------~tTi~p~~g~v~~~~~r~~~l~~~~~~~~~~~~~i~lvDtp   74 (363)
T 1jal_A            2 GFKCGIVGLPNVGKSTLFNALTKAGIEAANYP-------FCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIA   74 (363)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTC------C-------CCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCCcccCCC-------CceECceEEEEecCCcccceeeeeecccceeeeEEEEEECC
Confidence            36899999999999999999554 321 1221       123333333344433                 579999999


Q ss_pred             Ccccc
Q psy9521          78 GQLEL   82 (125)
Q Consensus        78 G~~~~   82 (125)
                      |+.++
T Consensus        75 Gl~~~   79 (363)
T 1jal_A           75 GLVAG   79 (363)
T ss_dssp             SCCTT
T ss_pred             CCccc
Confidence            99865

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=98.76  E-value=2.9e-08  Score=77.58  Aligned_cols=90  Identities=17%  Similarity=0.111  Sum_probs=55.9

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHh---hcccccc--C-C-CCCC------ccccccceeeEEEEeCCEEEEEEECCCccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAK---TKFTKNY--K-G-MNPS------KITTTVGLNIGQIDINTVRLNFWDLGGQLE   81 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~---~~~~~~~--~-~-~~~~------~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~   81 (125)
                      .+..+|+++|..|+|||||++++.   +.+....  . + ...+      ....|+......+..++..+.+|||+|+.+
T Consensus         8 ~~~~~I~IvG~~~aGKSTL~~~Ll~~~~~~~~~g~v~~~~~~~D~~~~e~~~giTi~~~~~~~~~~~~~i~liDTPG~~d   87 (693)
T 2xex_A            8 EKTRNIGIMAHIDAGKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGITITSAATTAAWEGHRVNIIDTPGHVD   87 (693)
T ss_dssp             TTEEEEEEECCGGGTHHHHHHHHHHHHSSCC-------------------------CCSEEEEEETTEEEEEECCCCCSS
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCceecccchhhhhcCceEeeeeEEEEECCeeEEEEECcCCcc
Confidence            456789999999999999999943   2221100  0 0 0000      122455555556677789999999999988


Q ss_pred             ccccccc------------cccCccCHHHHHHHHh
Q psy9521          82 LQSLWDK------------DIRDCMGVREVKPIFN  104 (125)
Q Consensus        82 ~~~~~~~------------Di~~~~s~~~i~~~l~  104 (125)
                      +...+..            |..+..++.....|..
T Consensus        88 f~~~~~~~l~~aD~~llVvDa~~g~~~~~~~~~~~  122 (693)
T 2xex_A           88 FTVEVERSLRVLDGAVTVLDAQSGVEPQTETVWRQ  122 (693)
T ss_dssp             CCHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHH
T ss_pred             hHHHHHHHHHHCCEEEEEECCCCCCcHHHHHHHHH
Confidence            7654443            7777777776665544

>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=98.73  E-value=6.2e-08  Score=73.64  Aligned_cols=70  Identities=17%  Similarity=0.198  Sum_probs=40.7

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhh--ccccc-----------cCCCCCCcccccccee----eEEEEeCCEEEEEEECC
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKT--KFTKN-----------YKGMNPSKITTTVGLN----IGQIDINTVRLNFWDLG   77 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~--~~~~~-----------~~~~~~~~~~~t~~~~----~~~~~~~~~~~~i~D~~   77 (125)
                      ++..+|+++|..|+|||||++++..  .....           ..-....+.+++.|..    ...+..++..+.+|||+
T Consensus        11 ~~~~~I~IiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~~~i~liDTP   90 (529)
T 2h5e_A           11 AKRRTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGISITTSVMQFPYHDCLVNLLDTP   90 (529)
T ss_dssp             HTEEEEEEEECTTSSHHHHHHHHHHSCC-------------------------------CCTTEEEEEETTEEEEEECCC
T ss_pred             cCCCEEEEECCCCChHHHHHHHHHhhcCCccccceeecCccccceeeccchhcccCCcceeeeEEEEEECCeEEEEEECC
Confidence            3578899999999999999999432  11100           0000000111222322    23566678999999999


Q ss_pred             Ccccccc
Q psy9521          78 GQLELQS   84 (125)
Q Consensus        78 G~~~~~~   84 (125)
                      |++.|..
T Consensus        91 G~~df~~   97 (529)
T 2h5e_A           91 GHEDFSE   97 (529)
T ss_dssp             CSTTCCH
T ss_pred             CChhHHH
Confidence            9988765

>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=98.73  E-value=6.5e-09  Score=69.22  Aligned_cols=60  Identities=20%  Similarity=0.177  Sum_probs=35.4

Q ss_pred             hccCceEEEEEEeCCCCcHHHHHHHHhhc-cccccCCCCCCccccccceeeE--EEEeCCEEEEEEECCCcc
Q psy9521          12 MLRKDEFCVLILGLDNAGKTTYLESAKTK-FTKNYKGMNPSKITTTVGLNIG--QIDINTVRLNFWDLGGQL   80 (125)
Q Consensus        12 ~~~~~~~ki~v~G~~~~GKTsl~~~i~~~-~~~~~~~~~~~~~~~t~~~~~~--~~~~~~~~~~i~D~~G~~   80 (125)
                      +.-.+..+++++|++|||||||++++.+. +...+.        |+.|....  .+..++ .+.+||++|+.
T Consensus        21 ~~~~~~~~v~lvG~~g~GKSTLl~~l~g~~~~~~~~--------~~~G~~~~~~~~~~~~-~~~l~Dt~G~~   83 (210)
T 1pui_A           21 LPSDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTS--------KTPGRTQLINLFEVAD-GKRLVDLPGYG   83 (210)
T ss_dssp             SSCSCSEEEEEEECTTSSHHHHHTTTCCC---------------------CCEEEEEEET-TEEEEECCCCC
T ss_pred             CCCCCCcEEEEECCCCCCHHHHHHHHhCCCcccccc--------CCCccceeeEEEEecC-CEEEEECcCCc
Confidence            33457789999999999999999996543 233322        55554321  233333 57899999974

>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=98.73  E-value=8e-08  Score=71.12  Aligned_cols=70  Identities=20%  Similarity=0.208  Sum_probs=35.6

Q ss_pred             ccCceEEEEEEeCCCCcHHHHHHHHhh-ccccccCCCCCCccccccceeeEEE--EeCC--EEEEEEECCCcccc
Q psy9521          13 LRKDEFCVLILGLDNAGKTTYLESAKT-KFTKNYKGMNPSKITTTVGLNIGQI--DINT--VRLNFWDLGGQLEL   82 (125)
Q Consensus        13 ~~~~~~ki~v~G~~~~GKTsl~~~i~~-~~~~~~~~~~~~~~~~t~~~~~~~~--~~~~--~~~~i~D~~G~~~~   82 (125)
                      .+.-.++|+++|++|||||||++++.+ .++....+.......+|++.....+  ...+  ..+++||++|...+
T Consensus        27 l~~vsf~I~lvG~sGaGKSTLln~L~g~~~~~~~~~~~~~~~~~t~~~~~i~~v~q~~~~~~~Ltv~Dt~g~~~~  101 (418)
T 2qag_C           27 KRGFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDA  101 (418)
T ss_dssp             C-CCCEEEEEECCTTSSHHHHHHHHTTCCCCCCCCCSCC-----CCEEEEEECC------CEEEEEEECC-----
T ss_pred             ecCCCEEEEEECCCCCcHHHHHHHHhCCCCCCCCCCCcccCCccceeeeeEEEEEecCCcccceeeeechhhhhh
Confidence            345678899999999999999999654 3321111111111124444332221  2223  57999999998754

>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=98.73  E-value=1.2e-08  Score=72.35  Aligned_cols=75  Identities=20%  Similarity=0.285  Sum_probs=33.5

Q ss_pred             ccCceEEEEEEeCCCCcHHHHHHHHhh--ccccccCCCCCCccccccceeeEEE--EeC--CEEEEEEECCCc-------
Q psy9521          13 LRKDEFCVLILGLDNAGKTTYLESAKT--KFTKNYKGMNPSKITTTVGLNIGQI--DIN--TVRLNFWDLGGQ-------   79 (125)
Q Consensus        13 ~~~~~~ki~v~G~~~~GKTsl~~~i~~--~~~~~~~~~~~~~~~~t~~~~~~~~--~~~--~~~~~i~D~~G~-------   79 (125)
                      .+.-.++|+++|++|||||||++++.+  .++.++.........+|+......+  +..  ...+++||++|+       
T Consensus        14 l~~~~~~I~lvG~nG~GKSTLl~~L~g~~~~~~~gi~~~g~~~~~t~~~~~~~~~~q~~~~~~~ltv~Dt~g~~~~~~~~   93 (301)
T 2qnr_A           14 KKGFEFTLMVVGESGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCR   93 (301)
T ss_dssp             ----CEEEEEEEETTSSHHHHHHHHHC------------------------CEEEEC---CCEEEEEEEEC---------
T ss_pred             EcCCCEEEEEECCCCCCHHHHHHHHhCCCccCCCCcccCCcccCCcceEeeEEEEecCCCcccCcchhhhhhhhhhcCcH
Confidence            345678999999999999999999543  4444321000111123433322222  222  378999999998       


Q ss_pred             cccccccc
Q psy9521          80 LELQSLWD   87 (125)
Q Consensus        80 ~~~~~~~~   87 (125)
                      ++++.+..
T Consensus        94 e~~~~l~~  101 (301)
T 2qnr_A           94 DCFKTIIS  101 (301)
T ss_dssp             --CTTHHH
T ss_pred             HHHHHHHH
Confidence            55555543

>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=98.71  E-value=6.2e-08  Score=75.89  Aligned_cols=88  Identities=16%  Similarity=-0.006  Sum_probs=53.3

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHH-h--hcccccc--C-C-CCCC------ccccccceeeEEEEeCC-------EEEEEE
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESA-K--TKFTKNY--K-G-MNPS------KITTTVGLNIGQIDINT-------VRLNFW   74 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i-~--~~~~~~~--~-~-~~~~------~~~~t~~~~~~~~~~~~-------~~~~i~   74 (125)
                      .+..+|+++|..++|||||+.++ .  +.+....  . + ...+      ....|+......+..++       +.+++|
T Consensus         8 ~~~~~I~IiG~~~~GKTTL~~~Ll~~~g~~~~~g~v~~g~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~~~~i~li   87 (704)
T 2rdo_7            8 ARYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTAFWSGMAKQYEPHRINII   87 (704)
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhcCCcccccccCCCceeecChhhHHhcCceeeeceEEEEECCccccCCceeEEEE
Confidence            45678999999999999999994 3  2221110  0 0 0000      11234444444455554       899999


Q ss_pred             ECCCcccccccccc------------cccCccCHHHHHHH
Q psy9521          75 DLGGQLELQSLWDK------------DIRDCMGVREVKPI  102 (125)
Q Consensus        75 D~~G~~~~~~~~~~------------Di~~~~s~~~i~~~  102 (125)
                      ||+|+++|...+..            |.++....+...-|
T Consensus        88 DTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~  127 (704)
T 2rdo_7           88 DTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSETVW  127 (704)
T ss_pred             eCCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHHHHH
Confidence            99999987654443            66666555544434

>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=98.70  E-value=5.3e-08  Score=69.03  Aligned_cols=60  Identities=23%  Similarity=0.150  Sum_probs=39.4

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhh-ccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKT-KFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQL   80 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~-~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~   80 (125)
                      +..+|+++|++|||||||++++.+ .+....     .....|.......+..++..+.+|||+|++
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g~~~~i~s-----~~~~tTr~~~~gi~~~~~~~i~~iDTpG~~   67 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLGQKISITS-----RKAQTTRHRIVGIHTEGAYQAIYVDTPGLH   67 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTCSEEECC-----CCSSCCSSCEEEEEEETTEEEEEESSSSCC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHCCCccccC-----CCCCcceeeEEEEEEECCeeEEEEECcCCC
Confidence            455799999999999999999543 332110     011123222223445567899999999987

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

Probab=98.70  E-value=4e-08  Score=75.64  Aligned_cols=90  Identities=16%  Similarity=0.277  Sum_probs=43.8

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-Hhh--ccccc-cCC--CCCCccccccceee----EEEEeC-----CEEEEEEECCCcc
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKT--KFTKN-YKG--MNPSKITTTVGLNI----GQIDIN-----TVRLNFWDLGGQL   80 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~--~~~~~-~~~--~~~~~~~~t~~~~~----~~~~~~-----~~~~~i~D~~G~~   80 (125)
                      +-.+|+++|+.++|||||+.+ +..  ..... ...  ....+.+.+.|.++    ..+...     ++.+++|||+|++
T Consensus         3 ~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGiTi~~~~~~~~~~~~~g~~~~l~liDTPGh~   82 (599)
T 3cb4_D            3 NIRNFSIIAHIDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERGITIKAQSVTLDYKASDGETYQLNFIDTPGHV   82 (599)
T ss_dssp             TEEEEEEECCC----CCHHHHHHHHTTC--------------------------CEEEEEEECTTSCEEEEEEEECCCCG
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcCCcccccccccccccchhhhcccceeeeeEEEEEEecCCCCeEEEEEEECCCch
Confidence            345799999999999999999 442  11110 000  00011112233332    123222     3789999999999


Q ss_pred             cccccccc------------cccCccCHHHHHHHHhh
Q psy9521          81 ELQSLWDK------------DIRDCMGVREVKPIFNK  105 (125)
Q Consensus        81 ~~~~~~~~------------Di~~~~s~~~i~~~l~~  105 (125)
                      .|...+..            |..+..+++....|...
T Consensus        83 dF~~ev~~~l~~aD~aILVVDa~~gv~~qt~~~~~~~  119 (599)
T 3cb4_D           83 DFSYEVSRSLAACEGALLVVDAGQGVEAQTLANCYTA  119 (599)
T ss_dssp             GGHHHHHHHHHHCSEEEEEEETTTCCCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHH
Confidence            88654443            55555555555555443

>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=98.69  E-value=6e-08  Score=71.34  Aligned_cols=22  Identities=27%  Similarity=0.505  Sum_probs=19.7

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhh
Q psy9521          18 FCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +||+++|.+|||||||++++.+
T Consensus         1 ~kI~ivG~pnvGKSTL~n~L~~   22 (397)
T 1wxq_A            1 MEIGVVGKPNVGKSTFFSAATL   22 (397)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHHC
Confidence            4799999999999999999654

>2ywe_A GTP-binding protein LEPA; G domain, beta-barrel, ferredoxin-like domain, structural GE NPPSFA; 2.05A {Aquifex aeolicus} PDB: 2ywf_A* 2ywg_A* 2ywh_A*

Probab=98.65  E-value=1e-07  Score=73.35  Aligned_cols=90  Identities=13%  Similarity=0.237  Sum_probs=46.6

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-Hhh--ccccccCC---CCCCccccccceee----EEEEe---C--CEEEEEEECCCcc
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKT--KFTKNYKG---MNPSKITTTVGLNI----GQIDI---N--TVRLNFWDLGGQL   80 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~--~~~~~~~~---~~~~~~~~t~~~~~----~~~~~---~--~~~~~i~D~~G~~   80 (125)
                      +-.+|+++|..++|||||+++ +..  .......+   ......+...|+++    ..+..   +  ++.+++|||+|++
T Consensus         5 ~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGITI~~~~~~~~~~~~dg~~~~inliDTPGh~   84 (600)
T 2ywe_A            5 NVRNFCIIAHVDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKMQAVRMFYKAKDGNTYKLHLIDTPGHV   84 (600)
T ss_dssp             GEEEEEEECC--CCHHHHHHHHHHHHTC-----------------------CCCCSEEEEEECTTSCEEEEEEECCCCSG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhccCCcccccccccccccchhhhcccceeeeeEEEEEEEcCCCCeEEEEEEECCCcH
Confidence            456799999999999999999 432  11110000   00000011122221    12222   2  2789999999999


Q ss_pred             cccccccc------------cccCccCHHHHHHHHhh
Q psy9521          81 ELQSLWDK------------DIRDCMGVREVKPIFNK  105 (125)
Q Consensus        81 ~~~~~~~~------------Di~~~~s~~~i~~~l~~  105 (125)
                      .|...+..            |..+..+++....|...
T Consensus        85 dF~~ev~r~l~~aD~aILVVDa~~gv~~qt~~~~~~a  121 (600)
T 2ywe_A           85 DFSYEVSRALAACEGALLLIDASQGIEAQTVANFWKA  121 (600)
T ss_dssp             GGHHHHHHHHHTCSEEEEEEETTTBCCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHhCCEEEEEEECCCCccHHHHHHHHHH
Confidence            88654333            66666666666655543

>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=98.60  E-value=3.3e-07  Score=71.36  Aligned_cols=74  Identities=20%  Similarity=0.172  Sum_probs=45.3

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHh-hccccccCC-----CCCCcc-------ccccceeeEEEEeCCEEEEEEECCCccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAK-TKFTKNYKG-----MNPSKI-------TTTVGLNIGQIDINTVRLNFWDLGGQLE   81 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~-~~~~~~~~~-----~~~~~~-------~~t~~~~~~~~~~~~~~~~i~D~~G~~~   81 (125)
                      .+..+++++|+.|+|||||++++. ........+     ......       ..|+......+...++.+++||++|+++
T Consensus         7 ~~~~~i~IiG~~gaGKTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~e~~~giti~~~~~~~~~~~~~~nliDTpG~~~   86 (665)
T 2dy1_A            7 AMIRTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGYGD   86 (665)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETTEEEEEEECCCSGG
T ss_pred             CCCcEEEEECCCCChHHHHHHHHHHhcCCCCccceecCCcccccCCHHHHhcCCeEEecceEEeeCCEEEEEEeCCCccc
Confidence            456689999999999999999954 222111101     000000       1233333334555679999999999998


Q ss_pred             ccccccc
Q psy9521          82 LQSLWDK   88 (125)
Q Consensus        82 ~~~~~~~   88 (125)
                      |...+..
T Consensus        87 f~~~~~~   93 (665)
T 2dy1_A           87 FVGEIRG   93 (665)
T ss_dssp             GHHHHHH
T ss_pred             hHHHHHH
Confidence            7654433

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.56  E-value=2.4e-08  Score=69.62  Aligned_cols=56  Identities=25%  Similarity=0.302  Sum_probs=34.1

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceee--EEEEeCCEEEEEEECCCcccc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNI--GQIDINTVRLNFWDLGGQLEL   82 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~--~~~~~~~~~~~i~D~~G~~~~   82 (125)
                      ++++++|.+|||||||++++.+.......        ++.|.+.  ..+.. +..+.+|||+|....
T Consensus       100 ~~v~~vG~~~vGKSslin~l~~~~~~~~~--------~~~g~T~~~~~~~~-~~~~~l~DtpG~~~~  157 (262)
T 3cnl_A          100 ARVLIVGVPNTGKSTIINKLKGKRASSVG--------AQPGITKGIQWFSL-ENGVKILDTPGILYK  157 (262)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTCC------------------CCSCEEEC-TTSCEEESSCEECCC
T ss_pred             hheEEeCCCCCCHHHHHHHHhcccccccC--------CCCCCccceEEEEe-CCCEEEEECCCcccC
Confidence            68999999999999999996654332221        3333222  12222 346889999997643

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=98.55  E-value=2.7e-07  Score=61.88  Aligned_cols=25  Identities=28%  Similarity=0.363  Sum_probs=21.4

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHh
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      .++..+++++|.+|||||||++++.
T Consensus        27 ~~~~~~i~i~G~~g~GKTTl~~~l~   51 (221)
T 2wsm_A           27 ESGTVAVNIMGAIGSGKTLLIERTI   51 (221)
T ss_dssp             HHTCEEEEEEECTTSCHHHHHHHHH
T ss_pred             ccCceEEEEEcCCCCCHHHHHHHHH
Confidence            3456789999999999999999944

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=98.53  E-value=6.1e-08  Score=71.26  Aligned_cols=65  Identities=20%  Similarity=0.263  Sum_probs=35.0

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeC-----------------CEEEEEEECC
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDIN-----------------TVRLNFWDLG   77 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~-----------------~~~~~i~D~~   77 (125)
                      +...+|.++|.+|||||||++++.+.....     ......|+..+...+..+                 ...+++||++
T Consensus        20 ~~~~kvgIVG~pnvGKSTL~n~Ltg~~~~~-----~~~p~tTi~p~~g~v~v~~~r~~~l~~~~~p~~~~~~~i~lvDtp   94 (396)
T 2ohf_A           20 GTSLKIGIVGLPNVGKSTFFNVLTNSQASA-----ENFPFCTIDPNESRVPVPDERFDFLCQYHKPASKIPAFLNVVDIA   94 (396)
T ss_dssp             SSCCCEEEECCSSSSHHHHHHHHHC------------------CCSEEEEECCCHHHHHHHHHHCCSEEECCEEEEEECC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHCCCccc-----cCCCccccCceeEEEEECCccceeeccccCcccccccccEEEECC
Confidence            456889999999999999999965432110     001113344333344333                 2359999999


Q ss_pred             Ccccccc
Q psy9521          78 GQLELQS   84 (125)
Q Consensus        78 G~~~~~~   84 (125)
                      |+.+...
T Consensus        95 Gl~~~as  101 (396)
T 2ohf_A           95 GLVKGAH  101 (396)
T ss_dssp             C------
T ss_pred             Ccccccc
Confidence            9986543

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=98.53  E-value=2e-07  Score=67.77  Aligned_cols=68  Identities=18%  Similarity=0.226  Sum_probs=46.3

Q ss_pred             cccceeeEEEEeCCEEEEEEECCCcccccccccc------------cccC----------ccCHHHHHHHHhhhcccccC
Q psy9521          55 TTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK------------DIRD----------CMGVREVKPIFNKNSAHLIG  112 (125)
Q Consensus        55 ~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~------------Di~~----------~~s~~~i~~~l~~~~~~~~~  112 (125)
                      ||+|++...+..+++.+++||++||++++.+|..            |+++          ..+|++...|++.+ .+...
T Consensus       187 ~T~Gi~~~~~~~~~~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~dls~~dq~l~ed~~~n~~~es~~~~~~i-~~~~~  265 (362)
T 1zcb_A          187 PTKGIHEYDFEIKNVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETI-VNNRV  265 (362)
T ss_dssp             CCSSEEEEEEEETTEEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHH-HTCGG
T ss_pred             CccceEEEEeeeCCeEEEEEeccchhhhhhhHHHHhCCCCEEEEEEECccccccccccccccHHHHHHHHHHHH-hcchh
Confidence            5778887788888999999999999999999987            8887          78999999999887 22211


Q ss_pred             CCCeEEEEeec
Q psy9521         113 RRDCMVMPVSA  123 (125)
Q Consensus       113 ~~~~~i~~~sA  123 (125)
                      ..+.+++.+-.
T Consensus       266 ~~~~piILv~N  276 (362)
T 1zcb_A          266 FSNVSIILFLN  276 (362)
T ss_dssp             GTTSEEEEEEE
T ss_pred             hCCCCEEEEEE
Confidence            24456665543

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=98.51  E-value=1.8e-07  Score=71.38  Aligned_cols=26  Identities=23%  Similarity=0.416  Sum_probs=21.9

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-Hhhcc
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKF   41 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~   41 (125)
                      ...+|+++|..|+|||||+++ +...+
T Consensus        64 ~~~~V~vvG~~n~GKSTLIN~Llg~~~   90 (550)
T 2qpt_A           64 GKPMVLVAGQYSTGKTSFIQYLLEQEV   90 (550)
T ss_dssp             SCCEEEEEEBTTSCHHHHHHHHHTSCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCcc
Confidence            457999999999999999999 44443

>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=98.50  E-value=6e-07  Score=64.81  Aligned_cols=27  Identities=30%  Similarity=0.393  Sum_probs=22.3

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHH-hhccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESA-KTKFT   42 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i-~~~~~   42 (125)
                      ...+|+++|.+|||||||++++ ...+.
T Consensus        30 ~~~~I~vvG~~~~GKSSLln~L~g~~~~   57 (353)
T 2x2e_A           30 DLPQIAVVGGQSAGKSSVLENFVGRDFL   57 (353)
T ss_dssp             CCCEEEEECBTTSSHHHHHHTTTTSCCS
T ss_pred             CCCeEEEECCCCCCHHHHHHHHhCCCcC
Confidence            4568999999999999999995 44553

>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=98.48  E-value=1e-06  Score=63.69  Aligned_cols=23  Identities=30%  Similarity=0.548  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh-cc
Q psy9521          19 CVLILGLDNAGKTTYLESAKT-KF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~-~~   41 (125)
                      +|+|+|++|||||||++++.+ .|
T Consensus        36 ~I~vvG~~~sGKSSLln~l~g~~~   59 (360)
T 3t34_A           36 AIAVVGGQSSGKSSVLESIVGKDF   59 (360)
T ss_dssp             EEEEECBTTSSHHHHHHHHHTSCC
T ss_pred             EEEEECCCCCcHHHHHHHHhCCCc
Confidence            799999999999999999554 44

>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=98.45  E-value=2.4e-07  Score=65.19  Aligned_cols=59  Identities=22%  Similarity=0.300  Sum_probs=34.9

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQL   80 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~   80 (125)
                      ...++++++|.+|||||||++++.+........    ....|....  .+.. +..+.++||||-.
T Consensus       118 ~~~~~v~~vG~~nvGKSsliN~l~~~~~~~~~~----~~g~T~~~~--~~~~-~~~~~l~DtpG~~  176 (282)
T 1puj_A          118 PRAIRALIIGIPNVGKSTLINRLAKKNIAKTGD----RPGITTSQQ--WVKV-GKELELLDTPGIL  176 (282)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTSCCC----------------C--CEEE-TTTEEEEECCCCC
T ss_pred             CCCceEEEEecCCCchHHHHHHHhcCceeecCC----CCCeeeeeE--EEEe-CCCEEEEECcCcC
Confidence            467899999999999999999966543222110    001222221  1222 2368899999974

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=98.45  E-value=3.7e-07  Score=66.73  Aligned_cols=57  Identities=25%  Similarity=0.320  Sum_probs=44.0

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhccc--cccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKFT--KNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQL   80 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~~--~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~   80 (125)
                      ..+|.++|.+|||||||++++.+...  .+|+       ..|+......+..++.++++.|+||-.
T Consensus        72 ~a~V~ivG~PNvGKSTL~n~Lt~~~~~v~~~p-------ftT~~~~~g~~~~~~~~i~l~D~pGl~  130 (376)
T 4a9a_A           72 VASVGFVGFPSVGKSTLLSKLTGTESEAAEYE-------FTTLVTVPGVIRYKGAKIQMLDLPGII  130 (376)
T ss_dssp             SEEEEEECCCCHHHHHHHHHHHSBCCCGGGTC-------SSCCCEEEEEEEETTEEEEEEECGGGC
T ss_pred             CCeEEEECCCCCCHHHHHHHHhCCCCcccCCC-------CceeeeeeEEEEeCCcEEEEEeCCCcc
Confidence            46899999999999999999765432  2222       256666666788899999999999974

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=98.43  E-value=1.3e-06  Score=68.44  Aligned_cols=25  Identities=32%  Similarity=0.503  Sum_probs=22.3

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +..++|+++|.+|+|||||++++.+
T Consensus        67 ~~~~~V~VvG~~naGKSSLlNaLlg   91 (695)
T 2j69_A           67 QGVFRLLVLGDMKRGKSTFLNALIG   91 (695)
T ss_dssp             HCCEEEEEECCTTSCHHHHHHHHHT
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhC
Confidence            4689999999999999999999544

>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=98.41  E-value=3.2e-07  Score=66.90  Aligned_cols=62  Identities=26%  Similarity=0.392  Sum_probs=38.0

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhccc--cccCCCCCCccccccceeeEE----------EE-------eCCEEEEEEECCC
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKFT--KNYKGMNPSKITTTVGLNIGQ----------ID-------INTVRLNFWDLGG   78 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~~--~~~~~~~~~~~~~t~~~~~~~----------~~-------~~~~~~~i~D~~G   78 (125)
                      ++|+++|.+|||||||++++.+...  .+++   .....|+++.....          +.       ..+..+++||++|
T Consensus         2 ~~v~IVG~pnvGKSTL~n~L~~~~~~v~~~p---~~Ti~pn~g~~~v~~~~l~~~~~~~~~~~~~~~~~~~~i~lvDtpG   78 (368)
T 2dby_A            2 LAVGIVGLPNVGKSTLFNALTRANALAANYP---FATIDKNVGVVPLEDERLYALQRTFAKGERVPPVVPTHVEFVDIAG   78 (368)
T ss_dssp             CSEEEECCSSSSHHHHHHHHHHHHTTCSSCC---GGGGSTTEEEEECCCHHHHHHHHHHCBTTBCCCEECCEEEEEECCS
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCcccCCC---CceeccceeeEecChHHHHHHHHHhcccccccccCCceEEEEECCC
Confidence            4699999999999999999554321  1211   11223554432100          00       1246799999999


Q ss_pred             cccc
Q psy9521          79 QLEL   82 (125)
Q Consensus        79 ~~~~   82 (125)
                      +.+.
T Consensus        79 l~~~   82 (368)
T 2dby_A           79 LVKG   82 (368)
T ss_dssp             CCCC
T ss_pred             cccc
Confidence            9765

>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=98.29  E-value=1e-06  Score=62.22  Aligned_cols=24  Identities=25%  Similarity=0.411  Sum_probs=20.8

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ...+|+++|.+|||||||++++.+
T Consensus        23 ~~~~I~vvG~~~~GKSTlln~l~g   46 (315)
T 1jwy_B           23 DLPQIVVVGSQSSGKSSVLENIVG   46 (315)
T ss_dssp             CCCEEEEEECSSSSHHHHHHHHHT
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHHC
Confidence            456899999999999999999543

>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=98.28  E-value=2.3e-06  Score=61.81  Aligned_cols=25  Identities=28%  Similarity=0.333  Sum_probs=21.8

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ++...|+++|.+|||||||++++..
T Consensus        77 ~~~~~I~i~G~~G~GKSTl~~~L~~  101 (355)
T 3p32_A           77 GNAHRVGITGVPGVGKSTAIEALGM  101 (355)
T ss_dssp             CCSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHH
Confidence            4678899999999999999999643

>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=98.27  E-value=1.6e-06  Score=63.75  Aligned_cols=25  Identities=24%  Similarity=0.494  Sum_probs=22.0

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ++..++.++|++|||||||++.+.+
T Consensus        18 ~~g~~vgiVG~pnaGKSTL~n~Ltg   42 (392)
T 1ni3_A           18 GNNLKTGIVGMPNVGKSTFFRAITK   42 (392)
T ss_dssp             SSCCEEEEEECSSSSHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHC
Confidence            4567899999999999999999665

>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=98.27  E-value=2.8e-06  Score=62.82  Aligned_cols=55  Identities=27%  Similarity=0.454  Sum_probs=36.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccc--cccCCCCCCccccccceeeEEEEeCC-EEEEEEECCCcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFT--KNYKGMNPSKITTTVGLNIGQIDINT-VRLNFWDLGGQL   80 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~--~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~i~D~~G~~   80 (125)
                      .++++|++|||||||++++.+..+  ..++   .    .|...+...+..++ ..+.+||++|..
T Consensus       159 ~VgLVG~~gAGKSTLL~~Lsg~~~~i~~~~---f----tTl~p~~G~V~~~~~~~~~l~DtpGli  216 (416)
T 1udx_A          159 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYP---F----TTLSPNLGVVEVSEEERFTLADIPGII  216 (416)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCT---T----CSSCCEEEEEECSSSCEEEEEECCCCC
T ss_pred             EEEEECCCCCcHHHHHHHHHcCCccccCcc---c----ceecceeeEEEecCcceEEEEeccccc
Confidence            378999999999999999765422  1111   1    22333333455554 789999999974

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=98.18  E-value=1.4e-06  Score=58.45  Aligned_cols=30  Identities=20%  Similarity=0.231  Sum_probs=24.4

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-Hhhcccc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTK   43 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~   43 (125)
                      .++..+|+++|.+|||||||+++ +.+.+..
T Consensus        35 ~~~~~~i~ivG~~gvGKTtl~~~l~~~~~~~   65 (226)
T 2hf9_A           35 KHGVVAFDFMGAIGSGKTLLIEKLIDNLKDK   65 (226)
T ss_dssp             HTTCEEEEEEESTTSSHHHHHHHHHHHHTTT
T ss_pred             hCCCeEEEEEcCCCCCHHHHHHHHHHHhccC
Confidence            34678999999999999999999 5554544

>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP hydrolysis, GDP, GMP, dynamin related, large GTPase family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens} SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A* 2bc9_A* 2d4h_A*

Probab=97.99  E-value=2.3e-05  Score=60.38  Aligned_cols=65  Identities=18%  Similarity=0.160  Sum_probs=40.4

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHhhcccc-ccCCCCCCccccccceeeEEE---EeCCEEEEEEECCCccc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAKTKFTK-NYKGMNPSKITTTVGLNIGQI---DINTVRLNFWDLGGQLE   81 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~~~~~~-~~~~~~~~~~~~t~~~~~~~~---~~~~~~~~i~D~~G~~~   81 (125)
                      ..+.++|+++|.+|||||||++++.+.... ...   ......|.++.....   ...+..+.++||+|-..
T Consensus        35 ~~~~~~VaivG~pnvGKStLiN~L~g~~~~~~~~---~tt~~~T~gi~~~~~~~~~~~~~~i~LiDTpGi~~  103 (592)
T 1f5n_A           35 TQPMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLG---STVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLGD  103 (592)
T ss_dssp             CSBEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCC---CSSSCCCCSEEEEEEECSSSTTCEEEEEEECCBCC
T ss_pred             cCCCcEEEEECCCCCCHHHHHHhHcCCCCccccC---CCCCCceeEEEEeecccccCCCceEEEecCCCcCc
Confidence            456788999999999999999996554221 111   111123444322111   12457899999999753

>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=97.89  E-value=3.6e-06  Score=59.57  Aligned_cols=64  Identities=13%  Similarity=0.017  Sum_probs=50.6

Q ss_pred             HHHHH-Hhhccc-cccCCCCCCccccccceeeEEEEe-CCEEEEEEECCCcccccccccc------------cccCcc-C
Q psy9521          32 TYLES-AKTKFT-KNYKGMNPSKITTTVGLNIGQIDI-NTVRLNFWDLGGQLELQSLWDK------------DIRDCM-G   95 (125)
Q Consensus        32 sl~~~-i~~~~~-~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~------------Di~~~~-s   95 (125)
                      +|+.+ +.+.|. .++.        ||+|..+. +.. .+-++.+||+  |++++.+++.            |++++. +
T Consensus        32 sl~~~~~~~~f~~~~~~--------pTiGd~~~-~~~~~~~~~~iwD~--qer~~~l~~~~~~~ad~vilV~D~~~~~~s  100 (301)
T 1u0l_A           32 ERILCKLRGKFRLQNLK--------IYVGDRVE-YTPDETGSGVIENV--LHRKNLLTKPHVANVDQVILVVTVKMPETS  100 (301)
T ss_dssp             CEEEEEECGGGTTTTCC--------CCTTCEEE-EECCCSSSEEEEEE--CCCSCEETTTTEESCCEEEEEECSSTTCCC
T ss_pred             cEEEEEEcccccccCCC--------CCCccEEE-EEEcCCCeEEEEEE--ccccceeeccccccCCEEEEEEeCCCCCCC
Confidence            57777 788888 7777        99997665 222 1237899999  9999998887            999887 7


Q ss_pred             HHHHHHHHhhh
Q psy9521          96 VREVKPIFNKN  106 (125)
Q Consensus        96 ~~~i~~~l~~~  106 (125)
                      |+.+..|+.++
T Consensus       101 ~~~l~~~l~~~  111 (301)
T 1u0l_A          101 TYIIDKFLVLA  111 (301)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999999765

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=97.73  E-value=3.3e-05  Score=56.18  Aligned_cols=24  Identities=25%  Similarity=0.430  Sum_probs=20.6

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ..+++++|.+|+|||||++.+.+.
T Consensus       160 ~~~i~~vG~~nvGKStliN~L~~~  183 (368)
T 3h2y_A          160 GKDVYVVGCTNVGKSTFINRMIKE  183 (368)
T ss_dssp             TSCEEEEEBTTSSHHHHHHHHHHH
T ss_pred             cceEEEecCCCCChhHHHHHHHhh
Confidence            357999999999999999996544

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=97.60  E-value=4.6e-05  Score=53.19  Aligned_cols=25  Identities=20%  Similarity=0.461  Sum_probs=21.5

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      +++++++|++|+|||||++.+.+..
T Consensus         2 ~f~v~lvG~nGaGKSTLln~L~g~~   26 (270)
T 3sop_A            2 DFNIMVVGQSGLGKSTLVNTLFKSQ   26 (270)
T ss_dssp             EEEEEEEESSSSSHHHHHHHHHHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCC
Confidence            4789999999999999999966543

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=97.58  E-value=8.5e-05  Score=54.01  Aligned_cols=24  Identities=25%  Similarity=0.400  Sum_probs=20.5

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ..+++++|.+|+|||||++.+.+.
T Consensus       162 ~~~i~~vG~~nvGKStliN~L~~~  185 (369)
T 3ec1_A          162 GGDVYVVGCTNVGKSTFINRIIEE  185 (369)
T ss_dssp             TSCEEEECCTTSSHHHHHHHHHHH
T ss_pred             cCcEEEEcCCCCchHHHHHHHHhh
Confidence            347999999999999999996544

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.48  E-value=6.6e-05  Score=48.94  Aligned_cols=23  Identities=22%  Similarity=0.391  Sum_probs=19.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      -++++|++|||||||++.+.+.+
T Consensus         7 ~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            7 TLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            58999999999999999976544

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=97.45  E-value=7.7e-05  Score=49.40  Aligned_cols=22  Identities=27%  Similarity=0.517  Sum_probs=18.9

Q ss_pred             EEEEeCCCCcHHHHHHHHhhcc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      |+++|++|||||||++++...+
T Consensus         4 IVi~GPSG~GK~Tl~~~L~~~~   25 (186)
T 1ex7_A            4 IVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            8999999999999999965443

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=97.45  E-value=8.5e-05  Score=48.66  Aligned_cols=22  Identities=27%  Similarity=0.416  Sum_probs=19.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +++++|++|+|||||++.+.+.
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~   23 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999986543

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

Probab=97.42  E-value=0.00041  Score=52.95  Aligned_cols=66  Identities=18%  Similarity=0.161  Sum_probs=38.6

Q ss_pred             EEEEEEeCCCCcHHHHHHH-Hh--hcc------cccc----CCCCCCccc----cccceeeEEEEeCCEEEEEEECCCcc
Q psy9521          18 FCVLILGLDNAGKTTYLES-AK--TKF------TKNY----KGMNPSKIT----TTVGLNIGQIDINTVRLNFWDLGGQL   80 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~--~~~------~~~~----~~~~~~~~~----~t~~~~~~~~~~~~~~~~i~D~~G~~   80 (125)
                      =+|.++|..++|||||..+ +.  +..      ....    .-....+.+    -|+......+..+++.+++.||||+.
T Consensus        32 RNiaIiaHvdaGKTTLtE~lL~~tG~i~~~G~V~~~~~~~~~~~D~~~~EreRGITI~s~~~~~~~~~~~iNlIDTPGHv  111 (548)
T 3vqt_A           32 RTFAIISHPDAGKTTLTEKLLLFGGAIQMAGSVKARKAARHATSDWMAMERERGISVTTSVMQFPYRDRVVNLLDTPGHQ  111 (548)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHTTCHHHHHHHHHC--------------------CTTTEEEEEETTEEEEEECCCCGG
T ss_pred             ceEEEEeCCCCCHHHHHHHHHHhcCcccccceeecCccccccccCChHHHHHCCCcEeeceEEEEECCEEEEEEeCCCcH
Confidence            3599999999999999999 42  110      0000    000001111    22222233567788999999999998


Q ss_pred             ccc
Q psy9521          81 ELQ   83 (125)
Q Consensus        81 ~~~   83 (125)
                      .|.
T Consensus       112 DF~  114 (548)
T 3vqt_A          112 DFS  114 (548)
T ss_dssp             GCS
T ss_pred             HHH
Confidence            773

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=97.40  E-value=0.00067  Score=50.33  Aligned_cols=27  Identities=22%  Similarity=0.320  Sum_probs=22.1

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +...++++++|++|+|||||++.+.+.
T Consensus        39 ~Gei~~vaLvG~nGaGKSTLln~L~G~   65 (427)
T 2qag_B           39 QGFCFNILCVGETGLGKSTLMDTLFNT   65 (427)
T ss_dssp             -CCEEEEEEECSTTSSSHHHHHHHHTS
T ss_pred             CCCeeEEEEECCCCCCHHHHHHHHhCc
Confidence            345567999999999999999997654

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=97.37  E-value=0.0001  Score=48.83  Aligned_cols=23  Identities=30%  Similarity=0.379  Sum_probs=19.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|++|+|||||++.+.+..
T Consensus         6 ~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            6 PVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            48999999999999999965533

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=97.31  E-value=0.00014  Score=48.58  Aligned_cols=24  Identities=8%  Similarity=0.300  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      -++++|++|||||||++.+.+.++
T Consensus        21 ~ivl~GPSGaGKsTL~~~L~~~~~   44 (197)
T 3ney_A           21 TLVLIGASGVGRSHIKNALLSQNP   44 (197)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             EEEEECcCCCCHHHHHHHHHhhCC
Confidence            488999999999999999655443

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=97.30  E-value=0.00014  Score=49.18  Aligned_cols=24  Identities=13%  Similarity=0.217  Sum_probs=20.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      -++++|++|||||||++.+.+..+
T Consensus        18 ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           18 LYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhccCC
Confidence            488999999999999999765543

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.29  E-value=0.00015  Score=47.70  Aligned_cols=23  Identities=22%  Similarity=0.301  Sum_probs=19.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      -++++|++|||||||++.+.+..
T Consensus         9 ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            9 LFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEEECcCCCCHHHHHHHHHhhC
Confidence            48899999999999999976543

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=97.27  E-value=0.00017  Score=48.05  Aligned_cols=24  Identities=21%  Similarity=0.217  Sum_probs=20.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      -++++|++||||||+++.+.+.++
T Consensus        10 ~i~l~GpsGsGKsTl~~~L~~~~~   33 (208)
T 3tau_A           10 LIVLSGPSGVGKGTVREAVFKDPE   33 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHSTT
T ss_pred             EEEEECcCCCCHHHHHHHHHhhCC
Confidence            488999999999999999765543

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=97.26  E-value=0.00018  Score=46.83  Aligned_cols=23  Identities=26%  Similarity=0.309  Sum_probs=19.8

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      -.++++|++|+||||+++.+.+.
T Consensus        10 ~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A           10 NILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            35899999999999999997654

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=97.26  E-value=0.00017  Score=47.99  Aligned_cols=23  Identities=22%  Similarity=0.444  Sum_probs=19.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      -++++|++|||||||++.+.+..
T Consensus        22 i~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           22 VVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            37899999999999999976543

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=97.24  E-value=0.00037  Score=50.25  Aligned_cols=24  Identities=33%  Similarity=0.376  Sum_probs=21.0

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ....|.++|.+|||||||++++.+
T Consensus        73 ~~~~v~lvG~pgaGKSTLln~L~~   96 (349)
T 2www_A           73 LAFRVGLSGPPGAGKSTFIEYFGK   96 (349)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHH
Confidence            367899999999999999999554

>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=97.23  E-value=0.00068  Score=50.10  Aligned_cols=26  Identities=15%  Similarity=0.313  Sum_probs=21.8

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      ....+.++|++|+|||||++.+.+..
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~Gl~   93 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRGIG   93 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTCC
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhCCC
Confidence            34579999999999999999976643

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=97.21  E-value=0.00017  Score=46.61  Aligned_cols=18  Identities=28%  Similarity=0.645  Sum_probs=16.3

Q ss_pred             EEEEEeCCCCcHHHHHHH
Q psy9521          19 CVLILGLDNAGKTTYLES   36 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~   36 (125)
                      -++++|++|+|||||++.
T Consensus        11 i~~l~G~nGsGKSTl~~~   28 (171)
T 4gp7_A           11 LVVLIGSSGSGKSTFAKK   28 (171)
T ss_dssp             EEEEECCTTSCHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHH
Confidence            478999999999999993

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=97.20  E-value=0.00028  Score=52.73  Aligned_cols=86  Identities=16%  Similarity=0.165  Sum_probs=49.5

Q ss_pred             hccCceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEe----CCEEEEEEECCCcc--ccccc
Q psy9521          12 MLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDI----NTVRLNFWDLGGQL--ELQSL   85 (125)
Q Consensus        12 ~~~~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~----~~~~~~i~D~~G~~--~~~~~   85 (125)
                      ++..++.+|+++|.+|+||||+.+++.........        +|.+++...+..    ......+||..|++  +.+..
T Consensus        34 ~~~~~~~~IvlvGlpGsGKSTia~~La~~l~~~~~--------~t~~~~~d~~r~~~~g~~~~~~ifd~~g~~~~r~re~  105 (469)
T 1bif_A           34 CMTNCPTLIVMVGLPARGKTYISKKLTRYLNFIGV--------PTREFNVGQYRRDMVKTYKSFEFFLPDNEEGLKIRKQ  105 (469)
T ss_dssp             ----CCEEEEEECCTTSSHHHHHHHHHHHHHHTTC--------CEEEEEHHHHHHHHHCSCCCGGGGCTTCHHHHHHHHH
T ss_pred             cCCCCcEEEEEECCCCCCHHHHHHHHHHHHhccCC--------CceEEecchhhhhhccCCCcccccCCCCHHHHHHHHH
Confidence            34567889999999999999999996544332222        454443221100    11345688988873  23333


Q ss_pred             c--------------cc------cccCccCHHHHHHHHhhh
Q psy9521          86 W--------------DK------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        86 ~--------------~~------Di~~~~s~~~i~~~l~~~  106 (125)
                      |              ..      |.++. +++....|++..
T Consensus       106 ~~~~~l~~~~~~l~~~~G~~vV~D~tn~-~~~~R~~~~~~~  145 (469)
T 1bif_A          106 CALAALNDVRKFLSEEGGHVAVFDATNT-TRERRAMIFNFG  145 (469)
T ss_dssp             HHHHHHHHHHHHHHTTCCSEEEEESCCC-SHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCCCEEEEeCCCC-CHHHHHHHHHHH
Confidence            3              01      66665 566666676654

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=97.20  E-value=0.00021  Score=48.05  Aligned_cols=23  Identities=26%  Similarity=0.421  Sum_probs=19.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|++|+|||||++.+.+..
T Consensus        25 ~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           25 PLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            48999999999999999976544

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=97.18  E-value=0.00023  Score=47.17  Aligned_cols=23  Identities=22%  Similarity=0.442  Sum_probs=19.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      -|+++|++||||||+.+++...+
T Consensus        14 ~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           14 PLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            48999999999999999976544

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.17  E-value=0.00029  Score=46.88  Aligned_cols=28  Identities=18%  Similarity=0.240  Sum_probs=22.9

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      ++...+.++|++|+|||||++.+.+...
T Consensus        20 ~~g~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A           20 PGRQLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             CSCEEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4567899999999999999998665443

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=97.13  E-value=0.00026  Score=45.15  Aligned_cols=22  Identities=18%  Similarity=0.185  Sum_probs=19.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .|++.|.+||||||+.+.+...
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~   24 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKE   24 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999997543

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=97.12  E-value=0.00035  Score=50.73  Aligned_cols=24  Identities=29%  Similarity=0.577  Sum_probs=21.7

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHh
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      ++.+||+++|.+|+|||||+++++
T Consensus        31 ~~~~killlG~~~SGKST~~kq~~   54 (362)
T 1zcb_A           31 ARLVKILLLGAGESGKSTFLKQMR   54 (362)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHH
T ss_pred             cCccEEEEECCCCCcHHHHHHHHH
Confidence            568999999999999999999854

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=97.10  E-value=0.00033  Score=47.82  Aligned_cols=22  Identities=32%  Similarity=0.392  Sum_probs=19.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .++++|+.|+|||||++.+.+-
T Consensus        33 ~~~iiG~nGsGKSTLl~~l~Gl   54 (235)
T 3tif_A           33 FVSIMGPSGSGKSTMLNIIGCL   54 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            4789999999999999998754

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=97.09  E-value=0.00033  Score=46.05  Aligned_cols=23  Identities=17%  Similarity=0.158  Sum_probs=20.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|++||||||+++.+.+..
T Consensus         8 ~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            8 LIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHCT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhh
Confidence            58999999999999999976554

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=97.08  E-value=0.00064  Score=43.52  Aligned_cols=36  Identities=17%  Similarity=0.284  Sum_probs=25.3

Q ss_pred             HHHHhhhccCceEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521           6 SGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus         6 ~~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      ..+.+.+.....-.+++.|++|+|||++++.+....
T Consensus        32 ~~l~~~l~~~~~~~~ll~G~~G~GKT~l~~~~~~~~   67 (195)
T 1jbk_A           32 RRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQRI   67 (195)
T ss_dssp             HHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            344444444444568999999999999999855443

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=97.07  E-value=0.00049  Score=44.50  Aligned_cols=27  Identities=15%  Similarity=0.144  Sum_probs=21.6

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      +.-.++++|++|+|||+|++.+.+...
T Consensus        37 ~g~~~~l~G~~G~GKTtL~~~i~~~~~   63 (180)
T 3ec2_A           37 EGKGLTFVGSPGVGKTHLAVATLKAIY   63 (180)
T ss_dssp             GCCEEEECCSSSSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            344689999999999999999665443

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=97.07  E-value=0.00039  Score=45.04  Aligned_cols=22  Identities=27%  Similarity=0.415  Sum_probs=19.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .|++.|.+||||||+.+.+...
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~~   24 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKEI   24 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999986543

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.06  E-value=0.00036  Score=44.67  Aligned_cols=22  Identities=23%  Similarity=0.323  Sum_probs=19.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .|+++|++||||||+.+.+.+.
T Consensus         6 ~i~l~G~~GsGKSTl~~~La~~   27 (173)
T 1kag_A            6 NIFLVGPMGAGKSTIGRQLAQQ   27 (173)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999986543

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=97.06  E-value=0.0004  Score=47.00  Aligned_cols=22  Identities=32%  Similarity=0.339  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .+.++|+.|+|||||++.+.+-
T Consensus        32 ~~~iiG~nGsGKSTLl~~l~Gl   53 (224)
T 2pcj_A           32 FVSIIGASGSGKSTLLYILGLL   53 (224)
T ss_dssp             EEEEEECTTSCHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3789999999999999998764

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=97.05  E-value=0.00049  Score=45.54  Aligned_cols=25  Identities=28%  Similarity=0.351  Sum_probs=21.0

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +...+.++|+.|+|||||++.+.+.
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~   29 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALART   29 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHH
Confidence            4456999999999999999986654

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=97.05  E-value=0.00038  Score=44.74  Aligned_cols=25  Identities=28%  Similarity=0.216  Sum_probs=20.9

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      --.++++|+.|+|||||++.+.+..
T Consensus        33 Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           33 AIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhC
Confidence            3458999999999999999976554

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=97.04  E-value=0.00036  Score=46.40  Aligned_cols=21  Identities=33%  Similarity=0.485  Sum_probs=18.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +|++.|.+||||||+.+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIE   22 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999998643

>3l82_B F-box only protein 4; TRFH domain, helix, GTPase domain, acetylation, ADP- ribosylation, alternative splicing, cell cycle, cell division; 2.40A {Homo sapiens}

Probab=97.04  E-value=0.00058  Score=46.30  Aligned_cols=32  Identities=16%  Similarity=0.213  Sum_probs=22.6

Q ss_pred             HHHhhhccCceEEEEEEeCC-CCcHHHHHHH-Hh
Q psy9521           7 GFYKYMLRKDEFCVLILGLD-NAGKTTYLES-AK   38 (125)
Q Consensus         7 ~~~~~~~~~~~~ki~v~G~~-~~GKTsl~~~-i~   38 (125)
                      +.+.++..+.+.++++.|++ .-=..+|+.+ +.
T Consensus         6 ~~~~s~~~~~~pr~amfgpgle~~~~~lv~~~m~   39 (227)
T 3l82_B            6 SFLHSLIIQNEPRFAMFGPGLEELNTSLVLSLMS   39 (227)
T ss_dssp             CSSSCCCCCCCCEEEEECGGGTSSSSCHHHHHHT
T ss_pred             HHHHHhccCCCceEEEecCCcccccHHHHHHHhc
Confidence            44567778889999999975 2234478888 54

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=97.04  E-value=0.00038  Score=46.33  Aligned_cols=21  Identities=33%  Similarity=0.414  Sum_probs=18.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +|+++|.+||||||+.+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVE   22 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999998643

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=97.03  E-value=0.00097  Score=50.47  Aligned_cols=24  Identities=25%  Similarity=0.415  Sum_probs=19.5

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHh
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      ++...|+++|.+||||||+++++.
T Consensus        99 ~~~~vI~ivG~~GvGKTTl~~kLA  122 (504)
T 2j37_W           99 GKQNVIMFVGLQGSGKTTTCSKLA  122 (504)
T ss_dssp             S--EEEEEECSTTSSHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHH
Confidence            345679999999999999999955

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=97.03  E-value=0.00041  Score=47.27  Aligned_cols=21  Identities=29%  Similarity=0.377  Sum_probs=19.1

Q ss_pred             EEEEEEeCCCCcHHHHHHHHh
Q psy9521          18 FCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      -.++++|++||||||+++.+.
T Consensus        28 ~~i~l~G~~GsGKSTl~k~La   48 (246)
T 2bbw_A           28 LRAVILGPPGSGKGTVCQRIA   48 (246)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            469999999999999999965

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=97.03  E-value=0.0004  Score=44.10  Aligned_cols=19  Identities=26%  Similarity=0.580  Sum_probs=17.7

Q ss_pred             EEEEEeCCCCcHHHHHHHH
Q psy9521          19 CVLILGLDNAGKTTYLESA   37 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i   37 (125)
                      -|+++|++||||||+.+.+
T Consensus         3 ~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4899999999999999988

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.01  E-value=0.00039  Score=45.87  Aligned_cols=23  Identities=26%  Similarity=0.440  Sum_probs=19.6

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .-.++++|++|+||||+++.+.+
T Consensus        29 g~~i~l~G~~GsGKSTl~~~L~~   51 (200)
T 4eun_A           29 TRHVVVMGVSGSGKTTIAHGVAD   51 (200)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            34589999999999999999654

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=97.01  E-value=0.00042  Score=45.16  Aligned_cols=21  Identities=24%  Similarity=0.284  Sum_probs=18.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      -++++|++|+||||+++.+.+
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            378999999999999999654

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=97.01  E-value=0.00043  Score=44.53  Aligned_cols=22  Identities=18%  Similarity=0.345  Sum_probs=19.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      -|++.|.+||||||+.+.+...
T Consensus         5 ~i~l~G~~GsGKST~a~~La~~   26 (178)
T 1qhx_A            5 MIILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            4899999999999999997543

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=97.01  E-value=0.00058  Score=44.36  Aligned_cols=23  Identities=26%  Similarity=0.351  Sum_probs=19.8

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ...|++.|.+||||||+.+.+..
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~   27 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALAT   27 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            45699999999999999998654

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.00  E-value=0.00059  Score=43.76  Aligned_cols=22  Identities=23%  Similarity=0.369  Sum_probs=19.1

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhh
Q psy9521          18 FCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ..|++.|.+||||||+.+.+..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            3589999999999999999654

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=97.00  E-value=0.00061  Score=44.29  Aligned_cols=27  Identities=26%  Similarity=0.298  Sum_probs=22.1

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ..+...|+++|.+|+||||+.+.+...
T Consensus        10 ~~~~~~i~l~G~~GsGKsT~~~~L~~~   36 (186)
T 2yvu_A           10 IEKGIVVWLTGLPGSGKTTIATRLADL   36 (186)
T ss_dssp             CSCCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             cCCCcEEEEEcCCCCCHHHHHHHHHHH
Confidence            345667999999999999999986544

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=97.00  E-value=0.0011  Score=48.22  Aligned_cols=22  Identities=32%  Similarity=0.449  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      -++++|++|||||||++.+.+-
T Consensus        32 ~~~llGpsGsGKSTLLr~iaGl   53 (359)
T 3fvq_A           32 ILFIIGASGCGKTTLLRCLAGF   53 (359)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCchHHHHHHHHhcC
Confidence            3789999999999999998764

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=97.00  E-value=0.00047  Score=45.12  Aligned_cols=22  Identities=32%  Similarity=0.366  Sum_probs=19.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .|++.|.+||||||+.+.+...
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~   23 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKK   23 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHHh
Confidence            5899999999999999997653

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.00  E-value=0.00041  Score=45.73  Aligned_cols=23  Identities=17%  Similarity=0.384  Sum_probs=19.6

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ..|+++|.+|+||||+.+.+.+.
T Consensus        19 ~~I~l~G~~GsGKSTla~~L~~~   41 (202)
T 3t61_A           19 GSIVVMGVSGSGKSSVGEAIAEA   41 (202)
T ss_dssp             SCEEEECSTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            35999999999999999986543

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=96.99  E-value=0.00049  Score=47.16  Aligned_cols=22  Identities=32%  Similarity=0.496  Sum_probs=19.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .++++|+.|+|||||++.+.+-
T Consensus        26 ~~~liG~nGsGKSTLl~~l~Gl   47 (240)
T 2onk_A           26 YCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999997764

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=96.98  E-value=0.00058  Score=46.62  Aligned_cols=25  Identities=28%  Similarity=0.246  Sum_probs=21.9

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ++..+|+++|.+||||||+.+++..
T Consensus        27 ~~~~~I~l~G~~GsGKsT~a~~L~~   51 (243)
T 3tlx_A           27 KPDGRYIFLGAPGSGKGTQSLNLKK   51 (243)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            4678899999999999999999654

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.98  E-value=0.0005  Score=45.34  Aligned_cols=22  Identities=27%  Similarity=0.315  Sum_probs=19.2

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhh
Q psy9521          18 FCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      -.|+++|++||||||+.+.+.+
T Consensus        26 ~~i~l~G~~GsGKsTl~~~La~   47 (199)
T 3vaa_A           26 VRIFLTGYMGAGKTTLGKAFAR   47 (199)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            3699999999999999998654

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=96.97  E-value=0.00045  Score=46.32  Aligned_cols=23  Identities=26%  Similarity=0.286  Sum_probs=19.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .|+++|++||||+|...++...+
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~   24 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEK   24 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999966543

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=96.97  E-value=0.0005  Score=47.67  Aligned_cols=22  Identities=27%  Similarity=0.507  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .++++|+.|+|||||++.+.+-
T Consensus        34 ~~~liG~nGsGKSTLlk~l~Gl   55 (262)
T 1b0u_A           34 VISIIGSSGSGKSTFLRCINFL   55 (262)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            3789999999999999998764

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=96.95  E-value=0.00059  Score=46.90  Aligned_cols=23  Identities=22%  Similarity=0.361  Sum_probs=19.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+-.
T Consensus        37 ~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           37 VIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999987643

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=96.95  E-value=0.00061  Score=46.64  Aligned_cols=23  Identities=17%  Similarity=0.307  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+-.
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           30 IIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            58999999999999999977643

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=96.95  E-value=0.00054  Score=47.93  Aligned_cols=22  Identities=27%  Similarity=0.386  Sum_probs=19.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .++++|+.|+|||||++.+.+-
T Consensus        36 ~~~iiGpnGsGKSTLl~~l~Gl   57 (275)
T 3gfo_A           36 VTAILGGNGVGKSTLFQNFNGI   57 (275)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            3789999999999999998764

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=96.95  E-value=0.00053  Score=47.36  Aligned_cols=23  Identities=26%  Similarity=0.468  Sum_probs=19.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .+.++|+.|+|||||++.+.+-.
T Consensus        35 ~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           35 VTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999987643

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=96.94  E-value=0.00057  Score=46.09  Aligned_cols=21  Identities=38%  Similarity=0.427  Sum_probs=18.9

Q ss_pred             EEEEeCCCCcHHHHHHHHhhc
Q psy9521          20 VLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ++++|+.|+|||||++.+.+-
T Consensus        38 ~~iiG~NGsGKSTLlk~l~Gl   58 (214)
T 1sgw_A           38 VNFHGPNGIGKTTLLKTISTY   58 (214)
T ss_dssp             EEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            789999999999999998764

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=96.94  E-value=0.00054  Score=46.80  Aligned_cols=23  Identities=22%  Similarity=0.390  Sum_probs=19.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+-.
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           33 LVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999977643

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=96.94  E-value=0.00064  Score=46.15  Aligned_cols=23  Identities=26%  Similarity=0.329  Sum_probs=19.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+-.
T Consensus        36 ~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           36 LLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999977643

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=96.93  E-value=0.00063  Score=44.79  Aligned_cols=26  Identities=35%  Similarity=0.377  Sum_probs=21.7

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ..+...|++.|.+||||||+.+.+..
T Consensus        17 ~~~~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           17 RGSHMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             CCSCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            34566799999999999999998654

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=96.93  E-value=0.0006  Score=44.14  Aligned_cols=22  Identities=27%  Similarity=0.308  Sum_probs=19.2

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhh
Q psy9521          18 FCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ..|++.|.+||||||+.+.+..
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~   25 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMD   25 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3599999999999999998654

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.92  E-value=0.00077  Score=43.60  Aligned_cols=22  Identities=32%  Similarity=0.326  Sum_probs=19.4

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHh
Q psy9521          17 EFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      ...|+++|.+||||||+.+.+.
T Consensus         4 g~~I~l~G~~GsGKST~~~~La   25 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLA   25 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHH
Confidence            4569999999999999999865

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=96.92  E-value=0.00056  Score=45.68  Aligned_cols=24  Identities=21%  Similarity=0.362  Sum_probs=20.3

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +...|+++|.+||||||+.+.+..
T Consensus         3 ~~~~I~l~G~~GsGKsT~a~~La~   26 (220)
T 1aky_A            3 ESIRMVLIGPPGAGKGTQAPNLQE   26 (220)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999998643

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.92  E-value=0.0007  Score=44.52  Aligned_cols=24  Identities=21%  Similarity=0.300  Sum_probs=20.5

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      ..|++.|.+||||||+.+.+...+
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~l   28 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDWI   28 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHH
Confidence            569999999999999999976543

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=96.91  E-value=0.00075  Score=43.17  Aligned_cols=35  Identities=23%  Similarity=0.301  Sum_probs=25.1

Q ss_pred             HHHhhhccCceEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521           7 GFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus         7 ~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .+.+.+.....-.+++.|++|+|||+++..+....
T Consensus        33 ~l~~~l~~~~~~~vll~G~~G~GKT~la~~~~~~~   67 (187)
T 2p65_A           33 RAIQILSRRTKNNPILLGDPGVGKTAIVEGLAIKI   67 (187)
T ss_dssp             HHHHHHTSSSSCEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCCceEEECCCCCCHHHHHHHHHHHH
Confidence            34444444445568999999999999999865444

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.91  E-value=0.00061  Score=46.59  Aligned_cols=22  Identities=36%  Similarity=0.468  Sum_probs=19.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .++++|+.|+|||||++.+.+-
T Consensus        34 ~~~l~G~nGsGKSTLl~~l~Gl   55 (240)
T 1ji0_A           34 IVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999998764

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=96.90  E-value=0.00053  Score=49.51  Aligned_cols=26  Identities=27%  Similarity=0.414  Sum_probs=21.8

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .-+++++|++|+|||||++.+.+.+.
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~~  195 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVFN  195 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            56799999999999999999765443

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.89  E-value=0.00052  Score=45.37  Aligned_cols=24  Identities=29%  Similarity=0.426  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      +++++|+.|+|||||++.+.+...
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~~~   26 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhhcc
Confidence            488999999999999999665443

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=96.89  E-value=0.00064  Score=47.23  Aligned_cols=22  Identities=27%  Similarity=0.561  Sum_probs=19.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .++++|+.|+|||||++.+.+-
T Consensus        52 i~~liG~NGsGKSTLlk~l~Gl   73 (263)
T 2olj_A           52 VVVVIGPSGSGKSTFLRCLNLL   73 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEEcCCCCcHHHHHHHHHcC
Confidence            4789999999999999998764

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=96.89  E-value=0.00062  Score=45.44  Aligned_cols=23  Identities=26%  Similarity=0.234  Sum_probs=19.9

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ..|.++|++||||||+.+.+.+.
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~   28 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEA   28 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999996543

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=96.89  E-value=0.00063  Score=47.31  Aligned_cols=23  Identities=35%  Similarity=0.453  Sum_probs=19.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .+.++|+.|+|||||++.+.+-.
T Consensus        39 ~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           39 MVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             EEEEECCTTSCHHHHHHHHTSSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            37899999999999999987643

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=96.88  E-value=0.00072  Score=47.33  Aligned_cols=23  Identities=35%  Similarity=0.406  Sum_probs=19.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+-.
T Consensus        49 ~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           49 KWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            47899999999999999987643

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=96.88  E-value=0.0016  Score=47.42  Aligned_cols=21  Identities=33%  Similarity=0.452  Sum_probs=19.0

Q ss_pred             EEEEeCCCCcHHHHHHHHhhc
Q psy9521          20 VLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ++++|++|||||||++.+.+-
T Consensus        32 ~~llGpnGsGKSTLLr~iaGl   52 (372)
T 1g29_1           32 MILLGPSGCGKTTTLRMIAGL   52 (372)
T ss_dssp             EEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCcHHHHHHHHHHcC
Confidence            789999999999999998764

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=96.87  E-value=0.00063  Score=45.29  Aligned_cols=21  Identities=29%  Similarity=0.324  Sum_probs=18.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +|++.|.+||||||+.+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIME   22 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998654

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=96.87  E-value=0.00067  Score=43.57  Aligned_cols=22  Identities=14%  Similarity=0.379  Sum_probs=19.0

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhh
Q psy9521          18 FCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      -.++++|++|+||||+.+.+.+
T Consensus         9 ~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            9 HIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHH
Confidence            4589999999999999998653

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=96.87  E-value=0.00075  Score=47.01  Aligned_cols=23  Identities=17%  Similarity=0.358  Sum_probs=19.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+-.
T Consensus        47 ~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           47 VTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999977643

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.86  E-value=0.0007  Score=46.83  Aligned_cols=22  Identities=36%  Similarity=0.376  Sum_probs=19.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .+.++|+.|+|||||++.+.+-
T Consensus        43 i~~l~G~NGsGKSTLlk~l~Gl   64 (256)
T 1vpl_A           43 IFGLIGPNGAGKTTTLRIISTL   64 (256)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999998764

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=96.85  E-value=0.00069  Score=44.68  Aligned_cols=27  Identities=19%  Similarity=0.348  Sum_probs=21.6

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .+.--|+++|++|+||||+.+.+.+..
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~~~La~~l   49 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLACALNQML   49 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            345569999999999999999865443

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=96.85  E-value=0.00067  Score=46.76  Aligned_cols=22  Identities=27%  Similarity=0.406  Sum_probs=19.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .++++|+.|+|||||++.+.+-
T Consensus        28 ~~~liG~NGsGKSTLlk~l~Gl   49 (249)
T 2qi9_C           28 ILHLVGPNGAGKSTLLARMAGM   49 (249)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            4789999999999999998764

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=96.85  E-value=0.00068  Score=46.62  Aligned_cols=22  Identities=23%  Similarity=0.279  Sum_probs=19.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .+.++|+.|+|||||++.+.+-
T Consensus        31 ~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           31 VHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999997763

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.84  E-value=0.00073  Score=45.38  Aligned_cols=22  Identities=23%  Similarity=0.292  Sum_probs=19.3

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHh
Q psy9521          17 EFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      ...|+++|.+||||||+.+.+.
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La   28 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRIT   28 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            3569999999999999999865

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=96.84  E-value=0.00074  Score=46.74  Aligned_cols=22  Identities=18%  Similarity=0.203  Sum_probs=19.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .++++|+.|+|||||++.+.+-
T Consensus        48 ~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           48 TCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            4889999999999999997754

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=96.84  E-value=0.00071  Score=47.02  Aligned_cols=22  Identities=23%  Similarity=0.377  Sum_probs=19.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .++++|+.|+|||||++.+.+-
T Consensus        48 ~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           48 VHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999997763

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.83  E-value=0.00077  Score=43.61  Aligned_cols=22  Identities=27%  Similarity=0.339  Sum_probs=19.1

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhh
Q psy9521          18 FCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ..|+++|.+||||||+.+.+..
T Consensus         6 ~~i~l~G~~GsGKst~a~~La~   27 (185)
T 3trf_A            6 TNIYLIGLMGAGKTSVGSQLAK   27 (185)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3599999999999999998643

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.83  E-value=0.00088  Score=43.40  Aligned_cols=21  Identities=33%  Similarity=0.384  Sum_probs=18.6

Q ss_pred             EEEEEEeCCCCcHHHHHHHHh
Q psy9521          18 FCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      ..|++.|.+||||||+.+.+.
T Consensus         4 ~~I~l~G~~GsGKsT~a~~L~   24 (196)
T 1tev_A            4 LVVFVLGGPGAGKGTQCARIV   24 (196)
T ss_dssp             EEEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            469999999999999998854

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=96.83  E-value=0.00075  Score=44.95  Aligned_cols=21  Identities=19%  Similarity=0.215  Sum_probs=18.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      -++++|++|+|||||++.+.+
T Consensus        27 ~~~l~G~nGsGKSTll~~l~g   47 (231)
T 4a74_A           27 ITEVFGEFGSGKTQLAHTLAV   47 (231)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999654

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=96.83  E-value=0.00077  Score=46.51  Aligned_cols=23  Identities=26%  Similarity=0.385  Sum_probs=19.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .+.++|+.|+|||||++.+.+-.
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           33 ILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             EEEEECCSSSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999987643

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=96.81  E-value=0.00091  Score=43.98  Aligned_cols=21  Identities=19%  Similarity=0.173  Sum_probs=18.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +|+++|..||||||+.+.+.+
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH
Confidence            599999999999999998654

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.81  E-value=0.00066  Score=45.54  Aligned_cols=22  Identities=27%  Similarity=0.279  Sum_probs=19.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .+.++|+.|+|||||++.+.+.
T Consensus        24 ~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           24 IVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             EEEEECCTTSSTTHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999997665

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=96.81  E-value=0.00092  Score=43.82  Aligned_cols=25  Identities=28%  Similarity=0.335  Sum_probs=21.0

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      ...|++.|.+||||||+.+.+...+
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3469999999999999999976543

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.81  E-value=0.00074  Score=46.81  Aligned_cols=26  Identities=23%  Similarity=0.252  Sum_probs=21.1

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      +.-.++++|+.|+||||+++.+.+..
T Consensus        24 ~g~~v~i~Gp~GsGKSTll~~l~g~~   49 (261)
T 2eyu_A           24 KMGLILVTGPTGSGKSTTIASMIDYI   49 (261)
T ss_dssp             SSEEEEEECSTTCSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCccHHHHHHHHHHhC
Confidence            44469999999999999999965543

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=96.79  E-value=0.00083  Score=46.62  Aligned_cols=22  Identities=32%  Similarity=0.584  Sum_probs=19.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .+.++|+.|+|||||++.+.+-
T Consensus        35 ~~~liG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           35 CLLVAGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            4789999999999999998764

>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=96.78  E-value=0.00086  Score=48.67  Aligned_cols=23  Identities=17%  Similarity=0.237  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|++|||||||++.+.+..
T Consensus       217 ~~~lvG~sG~GKSTLln~L~g~~  239 (358)
T 2rcn_A          217 ISIFAGQSGVGKSSLLNALLGLQ  239 (358)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCCS
T ss_pred             EEEEECCCCccHHHHHHHHhccc
Confidence            58999999999999999976543

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=96.78  E-value=0.00076  Score=47.81  Aligned_cols=25  Identities=28%  Similarity=0.488  Sum_probs=20.7

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      -.++++|++||||||++..+.+.+.
T Consensus       103 ~vi~lvG~nGsGKTTll~~Lagll~  127 (304)
T 1rj9_A          103 RVVLVVGVNGVGKTTTIAKLGRYYQ  127 (304)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHHHHH
Confidence            4688999999999999999765444

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.77  E-value=0.00094  Score=43.44  Aligned_cols=23  Identities=22%  Similarity=0.261  Sum_probs=19.7

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ...|++.|.+||||||+.+.+..
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~   31 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQ   31 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            34699999999999999998653

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=96.77  E-value=0.00094  Score=44.07  Aligned_cols=25  Identities=24%  Similarity=0.307  Sum_probs=21.0

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +...|++.|.+||||||+.+.+...
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~L~~~   32 (215)
T 1nn5_A            8 RGALIVLEGVDRAGKSTQSRKLVEA   32 (215)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3457999999999999999997643

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.77  E-value=0.00092  Score=44.68  Aligned_cols=23  Identities=26%  Similarity=0.392  Sum_probs=19.9

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      -..|+++|.+||||||+.+.+..
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~La~   27 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFIKK   27 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998654

>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=96.76  E-value=0.00087  Score=47.26  Aligned_cols=23  Identities=22%  Similarity=0.426  Sum_probs=19.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|++|||||||++.+.+..
T Consensus       171 iv~l~G~sG~GKSTll~~l~g~~  193 (301)
T 1u0l_A          171 ISTMAGLSGVGKSSLLNAINPGL  193 (301)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTC
T ss_pred             eEEEECCCCCcHHHHHHHhcccc
Confidence            48899999999999999976543

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=96.75  E-value=0.0013  Score=43.36  Aligned_cols=25  Identities=32%  Similarity=0.493  Sum_probs=21.1

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +...|.++|.+|+||||+.+.+.+.
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHh
Confidence            3456999999999999999997654

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=96.75  E-value=0.00098  Score=46.29  Aligned_cols=22  Identities=41%  Similarity=0.543  Sum_probs=19.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .++++|+.|+|||||++.+.+-
T Consensus        32 ~~~i~G~NGsGKSTLlk~l~Gl   53 (263)
T 2pjz_A           32 KVIILGPNGSGKTTLLRAISGL   53 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999997754

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=96.75  E-value=0.00087  Score=43.77  Aligned_cols=23  Identities=22%  Similarity=0.273  Sum_probs=19.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      -++++|.+|+|||||++++...+
T Consensus         8 ~i~i~G~sGsGKTTl~~~l~~~l   30 (174)
T 1np6_A            8 LLAFAAWSGTGKTTLLKKLIPAL   30 (174)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHhc
Confidence            48899999999999999955443

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.74  E-value=0.00098  Score=43.95  Aligned_cols=25  Identities=24%  Similarity=0.260  Sum_probs=21.0

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +...|++.|.+||||||+.+.+...
T Consensus         9 ~~~~I~l~G~~GsGKST~~~~L~~~   33 (212)
T 2wwf_A            9 KGKFIVFEGLDRSGKSTQSKLLVEY   33 (212)
T ss_dssp             CSCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             cCCEEEEEcCCCCCHHHHHHHHHHH
Confidence            3457999999999999999997643

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.74  E-value=0.00079  Score=43.31  Aligned_cols=21  Identities=19%  Similarity=0.423  Sum_probs=18.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +|+++|++|+||||+.+.+..
T Consensus         6 ~i~i~G~~GsGKsTla~~La~   26 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAK   26 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            489999999999999998654

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.73  E-value=0.00052  Score=46.25  Aligned_cols=23  Identities=17%  Similarity=0.164  Sum_probs=14.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHh-hcc
Q psy9521          19 CVLILGLDNAGKTTYLESAK-TKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~-~~~   41 (125)
                      -++++|+.||||||+++.+. +..
T Consensus        29 ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           29 ILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             EEEEECSCC----CHHHHHHC---
T ss_pred             EEEEECCCCCCHHHHHHHHHhcCC
Confidence            48899999999999999976 544

>3zvr_A Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mitochondrial fission, GT stalk, PH, BSE, membrane fission; HET: 1PE; 3.10A {Rattus norvegicus} PDB: 3snh_A

Probab=96.73  E-value=0.0046  Score=49.07  Aligned_cols=24  Identities=29%  Similarity=0.335  Sum_probs=20.6

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .--+|+|+|..++|||||++.+.+
T Consensus        50 ~lp~I~vvG~~saGKSSllnaL~g   73 (772)
T 3zvr_A           50 DLPQIAVVGGQSAGKSSVLENFVG   73 (772)
T ss_dssp             CCSEEEEEECTTTCHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhC
Confidence            445899999999999999999544

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=96.72  E-value=0.00095  Score=43.08  Aligned_cols=22  Identities=27%  Similarity=0.302  Sum_probs=19.1

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhh
Q psy9521          18 FCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ..|+++|.+|+||||+.+.+..
T Consensus        12 ~~i~i~G~~GsGKst~~~~l~~   33 (180)
T 3iij_A           12 PNILLTGTPGVGKTTLGKELAS   33 (180)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEEeCCCCCHHHHHHHHHH
Confidence            3589999999999999998653

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.71  E-value=0.0011  Score=46.42  Aligned_cols=26  Identities=19%  Similarity=0.185  Sum_probs=21.5

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      +..-|++.|++||||||+...+...+
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            45679999999999999999965443

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=96.71  E-value=0.001  Score=47.25  Aligned_cols=25  Identities=24%  Similarity=0.373  Sum_probs=20.5

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +.=.++++|++|+|||||++.+.+-
T Consensus       125 ~Ge~vaIvGpsGsGKSTLl~lL~gl  149 (305)
T 2v9p_A          125 KKNCLAFIGPPNTGKSMLCNSLIHF  149 (305)
T ss_dssp             TCSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhhh
Confidence            3346899999999999999996543

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.71  E-value=0.0005  Score=44.76  Aligned_cols=24  Identities=25%  Similarity=0.397  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .+.++|++|+|||||++.+.+.+.
T Consensus         4 ~v~IvG~SGsGKSTL~~~L~~~~~   27 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRMMPILR   27 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhh
Confidence            488999999999999999655443

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=96.71  E-value=0.0013  Score=46.72  Aligned_cols=28  Identities=18%  Similarity=0.185  Sum_probs=23.0

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      ++..-+.++|++|||||||++.+.+...
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll~  115 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALLA  115 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhcc
Confidence            4566799999999999999999765443

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=96.70  E-value=0.0004  Score=45.94  Aligned_cols=23  Identities=39%  Similarity=0.573  Sum_probs=19.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      -|++.|.+||||||+++.+...+
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l   24 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAF   24 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHH
Confidence            48999999999999999976544

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.69  E-value=0.001  Score=44.72  Aligned_cols=21  Identities=33%  Similarity=0.422  Sum_probs=18.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .|++.|.+||||||+.+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~   22 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKD   22 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998654

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

Probab=96.69  E-value=0.00061  Score=52.87  Aligned_cols=66  Identities=23%  Similarity=0.310  Sum_probs=39.0

Q ss_pred             EEEEEeCCCCcHHHHHHH-Hh--hccccc--cC-C---CCCCccc----cccceeeEEEEeCCEEEEEEECCCcccccc
Q psy9521          19 CVLILGLDNAGKTTYLES-AK--TKFTKN--YK-G---MNPSKIT----TTVGLNIGQIDINTVRLNFWDLGGQLELQS   84 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~-i~--~~~~~~--~~-~---~~~~~~~----~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~   84 (125)
                      +|.++|..++|||||..+ +.  +.....  .. +   ....+.+    -|+......+..++..+++.||||+..|..
T Consensus         4 Ni~IiaHvD~GKTTL~e~LL~~~G~i~~~g~v~~g~~~~D~~~~EreRGITI~s~~~~~~~~~~~iNlIDTPGH~DF~~   82 (638)
T 3j25_A            4 NIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQWENTKVNIIDTPGHMDFLA   82 (638)
T ss_dssp             CCEEECCSTTSSHHHHHHHHHHHTCCSSCSSCCCSCCSTTCSTTHHHHSSCSSCCCCCCBCSSCBCCCEECCCSSSTHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcCCCccccccccCCcccCCcHHHHhCCCcEEeeeEEEEECCEEEEEEECCCcHHHHH
Confidence            489999999999999999 53  221111  00 0   0000111    122222224556788999999999987743

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.68  E-value=0.0015  Score=42.94  Aligned_cols=24  Identities=29%  Similarity=0.307  Sum_probs=20.0

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHh
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      .+...|++.|.+||||||+.+.+.
T Consensus        13 ~~~~~I~l~G~~GsGKsT~~~~L~   36 (203)
T 1ukz_A           13 DQVSVIFVLGGPGAGKGTQCEKLV   36 (203)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHH
Confidence            344569999999999999998864

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.68  E-value=0.0011  Score=44.38  Aligned_cols=22  Identities=41%  Similarity=0.413  Sum_probs=19.2

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhh
Q psy9521          18 FCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ..|+++|.+||||||+.+.+..
T Consensus         6 ~~I~l~G~~GsGKsT~~~~La~   27 (222)
T 1zak_A            6 LKVMISGAPASGKGTQCELIKT   27 (222)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999998654

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=96.68  E-value=0.0014  Score=47.40  Aligned_cols=22  Identities=36%  Similarity=0.395  Sum_probs=19.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .++++|++|||||||++.+.+-
T Consensus        33 ~~~llGpnGsGKSTLLr~iaGl   54 (353)
T 1oxx_K           33 RFGILGPSGAGKTTFMRIIAGL   54 (353)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            3789999999999999998764

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=96.67  E-value=0.0011  Score=48.55  Aligned_cols=22  Identities=27%  Similarity=0.385  Sum_probs=19.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      -++++|++|||||||++.+.+-
T Consensus        31 ~~~llGpsGsGKSTLLr~iaGl   52 (381)
T 3rlf_A           31 FVVFVGPSGCGKSTLLRMIAGL   52 (381)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEEcCCCchHHHHHHHHHcC
Confidence            3789999999999999998764

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=96.66  E-value=0.0012  Score=46.51  Aligned_cols=23  Identities=26%  Similarity=0.329  Sum_probs=19.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+-.
T Consensus        66 ~~~i~G~NGsGKSTLlk~l~Gl~   88 (290)
T 2bbs_A           66 LLAVAGSTGAGKTSLLMMIMGEL   88 (290)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            47899999999999999977643

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=96.66  E-value=0.0011  Score=48.17  Aligned_cols=22  Identities=27%  Similarity=0.378  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .++++|++|||||||++.+.+-
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl   52 (362)
T 2it1_A           31 FMALLGPSGSGKSTLLYTIAGI   52 (362)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCchHHHHHHHHhcC
Confidence            3789999999999999998764

>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=96.66  E-value=0.001  Score=46.97  Aligned_cols=20  Identities=20%  Similarity=0.395  Sum_probs=18.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHh
Q psy9521          19 CVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~   38 (125)
                      .++++|++|||||||++.+.
T Consensus       167 i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          167 ICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            58999999999999999965

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.66  E-value=0.00097  Score=47.20  Aligned_cols=26  Identities=27%  Similarity=0.507  Sum_probs=21.4

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .--++++|+.||||||++..+.+.+.
T Consensus       100 g~vi~lvG~nGsGKTTll~~Lag~l~  125 (302)
T 3b9q_A          100 PAVIMIVGVNGGGKTTSLGKLAHRLK  125 (302)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            34688999999999999999765544

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=96.66  E-value=0.0011  Score=48.17  Aligned_cols=22  Identities=36%  Similarity=0.332  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      -++++|++|||||||++.+.+-
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl   52 (359)
T 2yyz_A           31 FVALLGPSGCGKTTTLLMLAGI   52 (359)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEEcCCCchHHHHHHHHHCC
Confidence            3789999999999999997764

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=96.65  E-value=0.0012  Score=47.84  Aligned_cols=22  Identities=36%  Similarity=0.353  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      -++++|++|||||||++.+.+-
T Consensus        43 ~~~llGpnGsGKSTLLr~iaGl   64 (355)
T 1z47_A           43 MVGLLGPSGSGKTTILRLIAGL   64 (355)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHhCC
Confidence            3789999999999999997754

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=96.65  E-value=0.0015  Score=45.95  Aligned_cols=29  Identities=14%  Similarity=0.162  Sum_probs=23.7

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .++...|.++|++|||||||++.+.+.+.
T Consensus        28 ~~~~~ii~I~G~sGsGKSTla~~L~~~l~   56 (290)
T 1odf_A           28 NKCPLFIFFSGPQGSGKSFTSIQIYNHLM   56 (290)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHhh
Confidence            34667899999999999999998765554

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=96.65  E-value=0.0018  Score=41.88  Aligned_cols=23  Identities=26%  Similarity=0.264  Sum_probs=19.4

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ...|++.|.+||||||+.+.+..
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~   28 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            34699999999999999998643

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.65  E-value=0.0013  Score=41.79  Aligned_cols=21  Identities=19%  Similarity=0.264  Sum_probs=18.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +|++.|.+||||||+.+.+..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSR   22 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998654

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.65  E-value=0.0011  Score=44.79  Aligned_cols=22  Identities=36%  Similarity=0.519  Sum_probs=18.3

Q ss_pred             EEEEeCCCCcHHHHHHHHhhcc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      |+++|++||||+|...++...+
T Consensus        32 I~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           32 IFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             EEEECCTTCCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6678999999999999876544

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=96.64  E-value=0.00089  Score=47.56  Aligned_cols=23  Identities=26%  Similarity=0.361  Sum_probs=19.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|++|+|||||++.+.+-.
T Consensus        82 ~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           82 TLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             EEEEESSSCHHHHHHHHHHTTSS
T ss_pred             EEEEECCCCchHHHHHHHHHcCC
Confidence            58999999999999999976543

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=96.63  E-value=0.0016  Score=42.95  Aligned_cols=22  Identities=27%  Similarity=0.212  Sum_probs=19.2

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhh
Q psy9521          18 FCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +.|.++|..||||||+.+.+.+
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            3589999999999999999754

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.63  E-value=0.0025  Score=45.55  Aligned_cols=27  Identities=26%  Similarity=0.229  Sum_probs=22.1

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      ++.+-+.++|++|||||||++.+.+..
T Consensus        90 ~~p~iigI~GpsGSGKSTl~~~L~~ll  116 (321)
T 3tqc_A           90 KVPYIIGIAGSVAVGKSTTSRVLKALL  116 (321)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            355679999999999999999876443

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=96.63  E-value=0.0019  Score=46.34  Aligned_cols=24  Identities=25%  Similarity=0.328  Sum_probs=21.0

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHh
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      .+-..+.++|++|+|||||++.+.
T Consensus        53 ~~g~~v~i~G~~GaGKSTLl~~l~   76 (337)
T 2qm8_A           53 GRAIRVGITGVPGVGKSTTIDALG   76 (337)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHH
Confidence            456679999999999999999964

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.63  E-value=0.0014  Score=42.66  Aligned_cols=22  Identities=27%  Similarity=0.292  Sum_probs=19.1

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhh
Q psy9521          18 FCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ..|++.|.+||||||+.+.+..
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~   34 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVE   34 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999988654

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=96.63  E-value=0.0012  Score=48.15  Aligned_cols=22  Identities=32%  Similarity=0.407  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .++++|++|||||||++.+.+-
T Consensus        39 ~~~llGpnGsGKSTLLr~iaGl   60 (372)
T 1v43_A           39 FLVLLGPSGCGKTTTLRMIAGL   60 (372)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHHcC
Confidence            3789999999999999997754

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.62  E-value=0.0018  Score=45.02  Aligned_cols=21  Identities=29%  Similarity=0.430  Sum_probs=18.9

Q ss_pred             EEEEeCCCCcHHHHHHHHhhc
Q psy9521          20 VLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ++++|++|+|||+|++.+.+.
T Consensus        47 vlL~Gp~GtGKTtLakala~~   67 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANE   67 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            999999999999999996543

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=96.61  E-value=0.0013  Score=44.82  Aligned_cols=21  Identities=29%  Similarity=0.449  Sum_probs=18.8

Q ss_pred             EEEEeCCCCcHHHHHHHHhhc
Q psy9521          20 VLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ++++|++|+|||+|++.+.+.
T Consensus        52 ~ll~G~~G~GKTtl~~~i~~~   72 (254)
T 1ixz_A           52 VLLVGPPGVGKTHLARAVAGE   72 (254)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            999999999999999996543

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=96.61  E-value=0.0011  Score=47.48  Aligned_cols=27  Identities=19%  Similarity=0.487  Sum_probs=22.0

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      +.--++++|++||||||++..+.+.+.
T Consensus       128 ~g~vi~lvG~nGaGKTTll~~Lag~l~  154 (328)
T 3e70_C          128 KPYVIMFVGFNGSGKTTTIAKLANWLK  154 (328)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            455699999999999999999665443

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=96.59  E-value=0.0016  Score=42.39  Aligned_cols=25  Identities=28%  Similarity=0.395  Sum_probs=20.6

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +...|+++|.+||||||+.+.+...
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3456999999999999999986543

>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=96.59  E-value=0.00047  Score=49.04  Aligned_cols=24  Identities=17%  Similarity=0.351  Sum_probs=19.7

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      -.++++|++|||||||++.+.+..
T Consensus       174 ~~~~lvG~sG~GKSTLln~L~g~~  197 (307)
T 1t9h_A          174 KTTVFAGQSGVGKSSLLNAISPEL  197 (307)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC--
T ss_pred             CEEEEECCCCCCHHHHHHHhcccc
Confidence            368999999999999999976543

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.59  E-value=0.002  Score=42.50  Aligned_cols=25  Identities=28%  Similarity=0.343  Sum_probs=21.1

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .+...+.++|.+|+||||+++.+.+
T Consensus        20 ~~~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A           20 AGRLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3456799999999999999998654

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=96.58  E-value=0.0023  Score=42.63  Aligned_cols=25  Identities=16%  Similarity=0.312  Sum_probs=20.7

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ..-.+++.|++|+|||+++..+...
T Consensus        51 ~~~~~ll~G~~G~GKT~la~~l~~~   75 (242)
T 3bos_A           51 GVQAIYLWGPVKSGRTHLIHAACAR   75 (242)
T ss_dssp             SCSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHH
Confidence            4456999999999999999986543

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.58  E-value=0.0013  Score=45.20  Aligned_cols=21  Identities=29%  Similarity=0.287  Sum_probs=18.3

Q ss_pred             EEEEeCCCCcHHHHHHHHhhc
Q psy9521          20 VLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ++++|++|+|||||...+...
T Consensus         4 i~I~G~~GSGKSTla~~La~~   24 (253)
T 2ze6_A            4 HLIYGPTCSGKTDMAIQIAQE   24 (253)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHhc
Confidence            789999999999999986543

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=96.58  E-value=0.0013  Score=47.78  Aligned_cols=22  Identities=23%  Similarity=0.344  Sum_probs=19.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      -+.++|++|+|||||++.+.+-
T Consensus        56 i~~IiGpnGaGKSTLlr~i~GL   77 (366)
T 3tui_C           56 IYGVIGASGAGKSTLIRCVNLL   77 (366)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEEcCCCchHHHHHHHHhcC
Confidence            3789999999999999997754

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.58  E-value=0.0018  Score=44.04  Aligned_cols=25  Identities=24%  Similarity=0.240  Sum_probs=21.1

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +...|.++|+.|+|||||++.+.+.
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~~   48 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIMEL   48 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            4456999999999999999997653

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.57  E-value=0.0011  Score=45.42  Aligned_cols=27  Identities=33%  Similarity=0.484  Sum_probs=22.1

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .+...|+++|.+|+||||+.+.+...+
T Consensus        30 ~~~~~i~l~G~~GsGKSTla~~L~~~l   56 (253)
T 2p5t_B           30 KQPIAILLGGQSGAGKTTIHRIKQKEF   56 (253)
T ss_dssp             SSCEEEEEESCGGGTTHHHHHHHHHHT
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            345779999999999999999965443

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=96.57  E-value=0.0025  Score=39.91  Aligned_cols=25  Identities=16%  Similarity=0.215  Sum_probs=21.0

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ....|++.|++|+|||++.+.+...
T Consensus        23 ~~~~vll~G~~GtGKt~lA~~i~~~   47 (145)
T 3n70_A           23 TDIAVWLYGAPGTGRMTGARYLHQF   47 (145)
T ss_dssp             CCSCEEEESSTTSSHHHHHHHHHHS
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHHh
Confidence            4456999999999999999997654

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=96.55  E-value=0.0016  Score=43.95  Aligned_cols=24  Identities=25%  Similarity=0.267  Sum_probs=20.4

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +...|+++|.+|+||||+.+.+..
T Consensus        15 ~~~~I~l~G~~GsGKsT~a~~La~   38 (233)
T 1ak2_A           15 KGVRAVLLGPPGAGKGTQAPKLAK   38 (233)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            446799999999999999998654

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=96.55  E-value=0.00098  Score=48.16  Aligned_cols=22  Identities=41%  Similarity=0.493  Sum_probs=19.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      -++++|++|||||||++.+.+-
T Consensus        28 ~~~llGpnGsGKSTLLr~iaGl   49 (348)
T 3d31_A           28 YFVILGPTGAGKTLFLELIAGF   49 (348)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTS
T ss_pred             EEEEECCCCccHHHHHHHHHcC
Confidence            4789999999999999998764

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=96.54  E-value=0.0016  Score=47.13  Aligned_cols=25  Identities=20%  Similarity=0.381  Sum_probs=20.7

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      -.++++|+.|+|||||++.+.+..+
T Consensus       176 ~~i~ivG~sGsGKSTll~~l~~~~~  200 (361)
T 2gza_A          176 RVIVVAGETGSGKTTLMKALMQEIP  200 (361)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHTTSC
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcCC
Confidence            3599999999999999999765443

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=96.54  E-value=0.0022  Score=41.91  Aligned_cols=21  Identities=24%  Similarity=0.230  Sum_probs=18.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .+++.|++|+|||+++..+..
T Consensus        40 ~~ll~G~~G~GKT~l~~~l~~   60 (226)
T 2chg_A           40 HLLFSGPPGTGKTATAIALAR   60 (226)
T ss_dssp             CEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            399999999999999998544

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=96.53  E-value=0.0021  Score=46.59  Aligned_cols=26  Identities=27%  Similarity=0.285  Sum_probs=20.9

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      +.=.++++|+.|+||||+++.+.+..
T Consensus       122 ~~g~i~I~GptGSGKTTlL~~l~g~~  147 (356)
T 3jvv_A          122 PRGLVLVTGPTGSGKSTTLAAMLDYL  147 (356)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            33379999999999999999855433

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=96.52  E-value=0.0016  Score=41.52  Aligned_cols=21  Identities=19%  Similarity=0.252  Sum_probs=18.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .|++.|.+||||||+.+.+..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~   24 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELAR   24 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999998654

>3l2o_B F-box only protein 4; small G protein fold, UBL conjugation pathway, ubiquitin Pro ligase, protein binding-cell cycle complex; 2.80A {Homo sapiens}

Probab=96.52  E-value=0.0023  Score=45.36  Aligned_cols=27  Identities=15%  Similarity=0.129  Sum_probs=17.9

Q ss_pred             hccCceEEEEEEeCCCC-cHHHHHHH-Hh
Q psy9521          12 MLRKDEFCVLILGLDNA-GKTTYLES-AK   38 (125)
Q Consensus        12 ~~~~~~~ki~v~G~~~~-GKTsl~~~-i~   38 (125)
                      +..+.+.|+++.|++=- =..+|+.+ +.
T Consensus        96 l~~~~~pr~amFGpGlE~~~~~lv~~lm~  124 (312)
T 3l2o_B           96 LIIQNEPRFAMFGPGLEELNTSLVLSLMS  124 (312)
T ss_dssp             CCCCCCCEEEEECTHHHHSSSCHHHHHTT
T ss_pred             hhcCCCceEEEECCCcccccHHHHHHHHc
Confidence            46678899999997521 12357777 44

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=96.51  E-value=0.0016  Score=47.77  Aligned_cols=22  Identities=32%  Similarity=0.333  Sum_probs=19.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .++++|++|||||||++.+.+-
T Consensus        49 ~~~llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           49 RVGLLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCChHHHHHHHHhCC
Confidence            4889999999999999997653

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=96.51  E-value=0.0019  Score=46.25  Aligned_cols=24  Identities=33%  Similarity=0.473  Sum_probs=20.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .++++|+.|+|||||++.+.+..+
T Consensus       173 ~v~i~G~~GsGKTTll~~l~g~~~  196 (330)
T 2pt7_A          173 NVIVCGGTGSGKTTYIKSIMEFIP  196 (330)
T ss_dssp             CEEEEESTTSCHHHHHHHGGGGSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCc
Confidence            599999999999999999765443

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.51  E-value=0.0018  Score=41.97  Aligned_cols=23  Identities=26%  Similarity=0.348  Sum_probs=19.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .|++.|.+||||||+.+.+...+
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l   24 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYL   24 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            48999999999999999976543

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=96.51  E-value=0.0012  Score=44.49  Aligned_cols=26  Identities=42%  Similarity=0.528  Sum_probs=21.2

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ++-.-|++.|..|+||||+++.+.+.
T Consensus        18 ~~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           18 TQPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhc
Confidence            34456999999999999999996543

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=96.50  E-value=0.0025  Score=41.57  Aligned_cols=24  Identities=21%  Similarity=0.209  Sum_probs=20.6

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +...|++.|..||||||+.+.+..
T Consensus         7 ~~~~I~i~G~~GsGKST~~~~La~   30 (203)
T 1uf9_A            7 HPIIIGITGNIGSGKSTVAALLRS   30 (203)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            456799999999999999998654

>3q5d_A Atlastin-1; G protein, GTPase, GDP/GTP binding, hydrolase; HET: GDP; 2.70A {Homo sapiens} PDB: 3q5e_A* 3qnu_A* 3qof_A*

Probab=96.49  E-value=0.004  Score=46.46  Aligned_cols=23  Identities=17%  Similarity=0.210  Sum_probs=19.4

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHh
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      +-.-|.|+|+.++|||+|++++-
T Consensus        66 ~v~vVsV~G~~~~GKStLLN~ll   88 (447)
T 3q5d_A           66 EVVAVSVAGAFRKGKSFLMDFML   88 (447)
T ss_dssp             BEEEEEEEESTTSSHHHHHHHHH
T ss_pred             ceEEEEEECCCCCcHHHHHHHHh
Confidence            44558899999999999999953

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=96.49  E-value=0.0023  Score=43.39  Aligned_cols=27  Identities=19%  Similarity=0.281  Sum_probs=22.4

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      +..-|++.|.+||||||+++++.+.+.
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l~   51 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRLV   51 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            556799999999999999999765543

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=96.47  E-value=0.0025  Score=42.37  Aligned_cols=23  Identities=22%  Similarity=0.274  Sum_probs=20.0

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ...|++.|.+||||||+.+.+..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            46799999999999999999753

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.46  E-value=0.0012  Score=41.80  Aligned_cols=24  Identities=21%  Similarity=0.349  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .++++|++|+|||+|++.+.+...
T Consensus        38 ~~~l~G~~G~GKTtL~~~i~~~~~   61 (149)
T 2kjq_A           38 FIYVWGEEGAGKSHLLQAWVAQAL   61 (149)
T ss_dssp             EEEEESSSTTTTCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            488999999999999999665443

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=96.46  E-value=0.0025  Score=45.02  Aligned_cols=26  Identities=19%  Similarity=0.213  Sum_probs=21.6

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .+...+.++|+.|+|||||++.+.+.
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~~  103 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQAL  103 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            34567999999999999999986653

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=96.46  E-value=0.002  Score=41.52  Aligned_cols=21  Identities=19%  Similarity=0.292  Sum_probs=18.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      -.+++|+.|+|||||+..+..
T Consensus        28 ~~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999998653

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=96.46  E-value=0.0025  Score=43.95  Aligned_cols=26  Identities=23%  Similarity=0.318  Sum_probs=21.1

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ...-.+++.|++|+|||++++.+.+.
T Consensus        49 ~~~~~~ll~G~~GtGKT~la~~la~~   74 (285)
T 3h4m_A           49 EPPKGILLYGPPGTGKTLLAKAVATE   74 (285)
T ss_dssp             CCCSEEEEESSSSSSHHHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHH
Confidence            34456999999999999999996543

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=96.45  E-value=0.0016  Score=47.29  Aligned_cols=26  Identities=27%  Similarity=0.507  Sum_probs=21.4

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .--++++|+.||||||++..+.+.+.
T Consensus       157 g~vi~lvG~nGsGKTTll~~Lag~l~  182 (359)
T 2og2_A          157 PAVIMIVGVNGGGKTTSLGKLAHRLK  182 (359)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCChHHHHHHHHHhhcc
Confidence            34689999999999999999765544

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.45  E-value=0.0018  Score=42.99  Aligned_cols=20  Identities=20%  Similarity=0.235  Sum_probs=17.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHh
Q psy9521          19 CVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~   38 (125)
                      -++++|++|+|||||+..+.
T Consensus        25 ~~~i~G~~GsGKTtl~~~l~   44 (235)
T 2w0m_A           25 FIALTGEPGTGKTIFSLHFI   44 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHH
Confidence            37889999999999999954

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.44  E-value=0.0019  Score=44.68  Aligned_cols=21  Identities=29%  Similarity=0.449  Sum_probs=18.8

Q ss_pred             EEEEeCCCCcHHHHHHHHhhc
Q psy9521          20 VLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ++++|++|+|||+|++.+.+.
T Consensus        76 vll~Gp~GtGKTtl~~~i~~~   96 (278)
T 1iy2_A           76 VLLVGPPGVGKTHLARAVAGE   96 (278)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCcChHHHHHHHHHHH
Confidence            999999999999999996543

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=96.44  E-value=0.0019  Score=44.41  Aligned_cols=23  Identities=22%  Similarity=0.482  Sum_probs=19.7

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ..|+++|.+||||||+.+.+...
T Consensus         5 ~lIvl~G~pGSGKSTla~~La~~   27 (260)
T 3a4m_A            5 MLIILTGLPGVGKSTFSKNLAKI   27 (260)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHH
Confidence            45999999999999999986543

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=96.43  E-value=0.0019  Score=42.08  Aligned_cols=23  Identities=26%  Similarity=0.349  Sum_probs=19.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      -+.++|.+|+|||||+.++...+
T Consensus         6 ~i~i~G~sGsGKTTl~~~L~~~l   28 (169)
T 1xjc_A            6 VWQVVGYKHSGKTTLMEKWVAAA   28 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhh
Confidence            48899999999999999955443

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.43  E-value=0.0013  Score=42.42  Aligned_cols=23  Identities=22%  Similarity=0.170  Sum_probs=15.6

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ..|++.|.+||||||+.+.+...
T Consensus         6 ~~I~l~G~~GsGKST~a~~La~~   28 (183)
T 2vli_A            6 PIIWINGPFGVGKTHTAHTLHER   28 (183)
T ss_dssp             CEEEEECCC----CHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            45899999999999999997543

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=96.40  E-value=0.007  Score=47.51  Aligned_cols=18  Identities=39%  Similarity=0.274  Sum_probs=17.2

Q ss_pred             EEEEEeCCCCcHHHHHHH
Q psy9521          19 CVLILGLDNAGKTTYLES   36 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~   36 (125)
                      +|+++|..++|||||..+
T Consensus        15 Ni~IiaHvd~GKTTL~d~   32 (709)
T 4fn5_A           15 NIGICAHVDAGKTTTTER   32 (709)
T ss_dssp             EEEEECCSSSCHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHH
Confidence            499999999999999999

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=96.39  E-value=0.0021  Score=41.56  Aligned_cols=21  Identities=24%  Similarity=0.358  Sum_probs=18.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .|+++|.+||||||+.+.+..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~   24 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAK   24 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            389999999999999988654

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=96.39  E-value=0.002  Score=45.95  Aligned_cols=22  Identities=32%  Similarity=0.368  Sum_probs=19.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .+++.|++|+|||||++.+.+.
T Consensus        53 ~~ll~Gp~G~GKTTLa~~ia~~   74 (334)
T 1in4_A           53 HVLLAGPPGLGKTTLAHIIASE   74 (334)
T ss_dssp             CEEEESSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            3899999999999999996554

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=96.38  E-value=0.0021  Score=43.86  Aligned_cols=24  Identities=25%  Similarity=0.300  Sum_probs=20.1

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .-.+++.|++|+|||++++.+.+.
T Consensus        45 ~~~vll~G~~GtGKT~la~~la~~   68 (257)
T 1lv7_A           45 PKGVLMVGPPGTGKTLLAKAIAGE   68 (257)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEECcCCCCHHHHHHHHHHH
Confidence            335999999999999999996543

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=96.36  E-value=0.003  Score=41.41  Aligned_cols=24  Identities=21%  Similarity=0.223  Sum_probs=20.2

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      -.+++.|++|+|||+|+..+.+..
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~~   78 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANEL   78 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHH
Confidence            569999999999999999865444

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=96.36  E-value=0.0032  Score=40.54  Aligned_cols=24  Identities=33%  Similarity=0.342  Sum_probs=20.3

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ...|+++|.+|+||||+.+.+.+.
T Consensus         5 g~~i~l~G~~GsGKST~~~~L~~~   28 (179)
T 2pez_A            5 GCTVWLTGLSGAGKTTVSMALEEY   28 (179)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            346899999999999999997654

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=96.34  E-value=0.0022  Score=42.32  Aligned_cols=23  Identities=22%  Similarity=0.254  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      -+++.|++|+|||++++.+....
T Consensus        47 ~~ll~G~~G~GKT~l~~~~~~~~   69 (250)
T 1njg_A           47 AYLFSGTRGVGKTSIARLLAKGL   69 (250)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999865433

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=96.33  E-value=0.0032  Score=41.77  Aligned_cols=27  Identities=19%  Similarity=0.394  Sum_probs=21.8

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .+..-|+++|.+|+||||+.+.+.+.+
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~~l   49 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEHQL   49 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            344568999999999999999876544

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=96.32  E-value=0.0024  Score=43.62  Aligned_cols=24  Identities=17%  Similarity=0.241  Sum_probs=20.1

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +.+.|++.|++|+||||+.+.+..
T Consensus         8 ~~~~i~i~G~~GsGKsTla~~la~   31 (233)
T 3r20_A            8 GSLVVAVDGPAGTGKSSVSRGLAR   31 (233)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999998653

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=96.32  E-value=0.0063  Score=41.79  Aligned_cols=26  Identities=27%  Similarity=0.326  Sum_probs=21.9

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ......+++.|++|+|||+++..+..
T Consensus        61 ~~~~~~vLl~G~~GtGKT~la~~ia~   86 (272)
T 1d2n_A           61 RTPLVSVLLEGPPHSGKTALAAKIAE   86 (272)
T ss_dssp             SCSEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCcHHHHHHHHHH
Confidence            45667799999999999999999654

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=96.31  E-value=0.0021  Score=48.61  Aligned_cols=26  Identities=31%  Similarity=0.649  Sum_probs=21.2

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .--++++|++|||||||+..+.+.+.
T Consensus       293 GeVI~LVGpNGSGKTTLl~~LAgll~  318 (503)
T 2yhs_A          293 PFVILMVGVNGVGKTTTIGKLARQFE  318 (503)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCcccHHHHHHHHHHHhh
Confidence            44689999999999999999765443

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=96.30  E-value=0.0026  Score=44.38  Aligned_cols=22  Identities=14%  Similarity=0.377  Sum_probs=18.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      -++++|++|+|||||+..+.+.
T Consensus        37 ~~~i~G~~G~GKTTl~~~ia~~   58 (296)
T 1cr0_A           37 VIMVTSGSGMGKSTFVRQQALQ   58 (296)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            3889999999999999985543

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.29  E-value=0.0028  Score=43.44  Aligned_cols=22  Identities=23%  Similarity=0.231  Sum_probs=19.6

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHh
Q psy9521          17 EFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      ...|.++|+.||||||+++.+.
T Consensus        27 g~~I~I~G~~GsGKSTl~k~La   48 (252)
T 4e22_A           27 APVITVDGPSGAGKGTLCKALA   48 (252)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHH
Confidence            4579999999999999999965

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=96.27  E-value=0.0034  Score=42.85  Aligned_cols=26  Identities=15%  Similarity=0.194  Sum_probs=21.3

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .+.+.|.+.|.+||||||+.+.+...
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~~   45 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQL   45 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            34577999999999999999987543

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=96.27  E-value=0.0045  Score=45.77  Aligned_cols=28  Identities=21%  Similarity=0.361  Sum_probs=21.6

Q ss_pred             ccCceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          13 LRKDEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        13 ~~~~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +..+.=-++++|+.|+||||+++.+.+.
T Consensus       163 ~~~~ggii~I~GpnGSGKTTlL~allg~  190 (418)
T 1p9r_A          163 IKRPHGIILVTGPTGSGKSTTLYAGLQE  190 (418)
T ss_dssp             HTSSSEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             HHhcCCeEEEECCCCCCHHHHHHHHHhh
Confidence            3334445999999999999999995543

>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=96.25  E-value=0.0036  Score=42.58  Aligned_cols=24  Identities=25%  Similarity=0.321  Sum_probs=20.6

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHh
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      ++...+++.|.+||||||+++++.
T Consensus        12 ~~~~i~~~~GkgGvGKTTl~~~La   35 (262)
T 1yrb_A           12 MASMIVVFVGTAGSGKTTLTGEFG   35 (262)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHH
T ss_pred             cceEEEEEeCCCCCCHHHHHHHHH
Confidence            355779999999999999999954

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=96.24  E-value=0.0017  Score=50.20  Aligned_cols=22  Identities=23%  Similarity=0.418  Sum_probs=20.0

Q ss_pred             EEEEeCCCCcHHHHHHHHhhcc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      ++++|++|+|||||++.+.+..
T Consensus        48 iaIvG~nGsGKSTLL~~I~Gl~   69 (608)
T 3szr_A           48 IAVIGDQSSGKSSVLEALSGVA   69 (608)
T ss_dssp             EECCCCTTSCHHHHHHHHHSCC
T ss_pred             EEEECCCCChHHHHHHHHhCCC
Confidence            9999999999999999977654

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=96.23  E-value=0.0028  Score=41.82  Aligned_cols=21  Identities=24%  Similarity=0.184  Sum_probs=18.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      -++++|++|+|||+|+..+..
T Consensus        22 ~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           22 LTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999999543

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=96.23  E-value=0.0037  Score=45.41  Aligned_cols=27  Identities=22%  Similarity=0.249  Sum_probs=21.5

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      +.-.++++|+.|+||||+++.+.+...
T Consensus       135 ~g~~i~ivG~~GsGKTTll~~l~~~~~  161 (372)
T 2ewv_A          135 KMGLILVTGPTGSGKSTTIASMIDYIN  161 (372)
T ss_dssp             SSEEEEEECSSSSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            344699999999999999999655433

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=96.20  E-value=0.003  Score=42.33  Aligned_cols=21  Identities=19%  Similarity=0.180  Sum_probs=18.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      -++++|++|+|||+|+..+..
T Consensus        26 ~~~i~G~~GsGKTtl~~~l~~   46 (243)
T 1n0w_A           26 ITEMFGEFRTGKTQICHTLAV   46 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHH
Confidence            488999999999999999544

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=96.19  E-value=0.0044  Score=43.48  Aligned_cols=25  Identities=24%  Similarity=0.264  Sum_probs=20.6

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ..-.+++.|++|+|||++++.+.+.
T Consensus        48 ~~~~vLL~Gp~GtGKT~la~ala~~   72 (301)
T 3cf0_A           48 PSKGVLFYGPPGCGKTLLAKAIANE   72 (301)
T ss_dssp             CCSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             CCceEEEECCCCcCHHHHHHHHHHH
Confidence            3446999999999999999996543

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=96.19  E-value=0.0035  Score=47.46  Aligned_cols=23  Identities=26%  Similarity=0.382  Sum_probs=19.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+||||+++.+.+..
T Consensus       262 ~i~I~GptGSGKTTlL~aL~~~i  284 (511)
T 2oap_1          262 SAIVVGETASGKTTTLNAIMMFI  284 (511)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGGS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            39999999999999999966543

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=96.18  E-value=0.0035  Score=47.69  Aligned_cols=24  Identities=25%  Similarity=0.353  Sum_probs=20.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .+.++|+.|+|||||++.+.+...
T Consensus        49 ~~~LvG~NGaGKSTLlk~l~Gl~~   72 (538)
T 1yqt_A           49 VVGIVGPNGTGKSTAVKILAGQLI   72 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            489999999999999999877543

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=96.18  E-value=0.003  Score=47.23  Aligned_cols=22  Identities=27%  Similarity=0.332  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .++++|+.|+|||||++.+.+-
T Consensus       140 ~v~IvGpnGsGKSTLlr~L~Gl  161 (460)
T 2npi_A          140 RVVIVGGSQTGKTSLSRTLCSY  161 (460)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            5999999999999999996653

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.17  E-value=0.0033  Score=40.01  Aligned_cols=21  Identities=14%  Similarity=0.396  Sum_probs=18.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .|++.|.+||||||+.+.+..
T Consensus         9 ~i~l~G~~GsGKSTva~~La~   29 (168)
T 1zuh_A            9 HLVLIGFMGSGKSSLAQELGL   29 (168)
T ss_dssp             EEEEESCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999998654

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=96.16  E-value=0.0038  Score=47.83  Aligned_cols=23  Identities=22%  Similarity=0.343  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      ++.++|++|+|||||++.+.+-.
T Consensus       371 ~~~ivG~sGsGKSTLl~~l~g~~  393 (582)
T 3b60_A          371 TVALVGRSGSGKSTIASLITRFY  393 (582)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTTT
T ss_pred             EEEEECCCCCCHHHHHHHHhhcc
Confidence            58999999999999999976543

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.16  E-value=0.0048  Score=45.86  Aligned_cols=34  Identities=21%  Similarity=0.209  Sum_probs=25.4

Q ss_pred             HHHhhhccCceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521           7 GFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus         7 ~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .+|..+.-+..-.|++.|++|+|||+|++.+.+.
T Consensus       205 e~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e  238 (434)
T 4b4t_M          205 DKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQ  238 (434)
T ss_dssp             HHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             HHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHH
Confidence            3444444445567999999999999999996543

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=96.16  E-value=0.0043  Score=46.33  Aligned_cols=35  Identities=17%  Similarity=0.268  Sum_probs=25.2

Q ss_pred             HHHhhhccCceEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521           7 GFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus         7 ~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .+...+.....-.++++|++|+|||++++.+....
T Consensus       191 ~l~~~l~r~~~~~~LL~G~pG~GKT~la~~la~~l  225 (468)
T 3pxg_A          191 RVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQI  225 (468)
T ss_dssp             HHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHH
T ss_pred             HHHHHHhccCCCCeEEECCCCCCHHHHHHHHHHHH
Confidence            34444444455578999999999999999865443

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=96.16  E-value=0.0037  Score=45.04  Aligned_cols=24  Identities=21%  Similarity=0.108  Sum_probs=20.2

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      -=++.++|+.|+|||||++.+.+.
T Consensus        71 Gq~~gIiG~nGaGKTTLl~~I~g~   94 (347)
T 2obl_A           71 GQRIGIFAGSGVGKSTLLGMICNG   94 (347)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            346999999999999999986554

>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=96.15  E-value=0.0053  Score=43.98  Aligned_cols=25  Identities=28%  Similarity=0.414  Sum_probs=21.2

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .+-..++++|.+|+|||||++.+.+
T Consensus        54 ~~~~~i~i~G~~g~GKSTl~~~l~~   78 (341)
T 2p67_A           54 GNTLRLGVTGTPGAGKSTFLEAFGM   78 (341)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHH
Confidence            4567799999999999999999643

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=96.12  E-value=0.0033  Score=43.68  Aligned_cols=24  Identities=25%  Similarity=0.331  Sum_probs=20.4

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .-.+++.|++|+|||++++.+.+.
T Consensus        54 ~~~vll~Gp~GtGKT~la~~la~~   77 (297)
T 3b9p_A           54 AKGLLLFGPPGNGKTLLARAVATE   77 (297)
T ss_dssp             CSEEEEESSSSSCHHHHHHHHHHH
T ss_pred             CCeEEEECcCCCCHHHHHHHHHHH
Confidence            456999999999999999996543

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=96.11  E-value=0.0035  Score=42.53  Aligned_cols=23  Identities=30%  Similarity=0.348  Sum_probs=19.5

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .-.+++.|++|+|||++++.+.+
T Consensus        39 ~~~vll~G~~GtGKT~la~~la~   61 (262)
T 2qz4_A           39 PKGALLLGPPGCGKTLLAKAVAT   61 (262)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            34589999999999999998654

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=96.09  E-value=0.0029  Score=44.91  Aligned_cols=20  Identities=40%  Similarity=0.493  Sum_probs=17.6

Q ss_pred             EEEEeCCCCcHHHHHHHHhh
Q psy9521          20 VLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~   39 (125)
                      ++++|..|+|||||++.+.+
T Consensus         7 ~~i~G~~GaGKTTll~~l~~   26 (318)
T 1nij_A            7 TLLTGFLGAGKTTLLRHILN   26 (318)
T ss_dssp             EEEEESSSSSCHHHHHHHHH
T ss_pred             EEEEecCCCCHHHHHHHHHh
Confidence            67889999999999999554

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.08  E-value=0.0055  Score=45.58  Aligned_cols=33  Identities=21%  Similarity=0.241  Sum_probs=25.3

Q ss_pred             HHHhhhccCceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521           7 GFYKYMLRKDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus         7 ~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .+|..+--+..-.|++.|++|+|||+|++.+.+
T Consensus       205 ~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~  237 (437)
T 4b4t_L          205 EIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAA  237 (437)
T ss_dssp             HHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHH
T ss_pred             HHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHH
Confidence            345555444556799999999999999999654

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=96.08  E-value=0.0057  Score=41.82  Aligned_cols=24  Identities=25%  Similarity=0.236  Sum_probs=20.3

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ..-+++.|++|+|||++++.+...
T Consensus        29 ~~~vll~G~~GtGKt~la~~i~~~   52 (265)
T 2bjv_A           29 DKPVLIIGERGTGKELIASRLHYL   52 (265)
T ss_dssp             CSCEEEECCTTSCHHHHHHHHHHT
T ss_pred             CCCEEEECCCCCcHHHHHHHHHHh
Confidence            356999999999999999997644

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=96.07  E-value=0.004  Score=43.58  Aligned_cols=25  Identities=24%  Similarity=0.113  Sum_probs=20.1

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ...-+++.|++|+|||+|++.+...
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~   59 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRK   59 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4456788899999999999986543

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=96.07  E-value=0.0038  Score=44.61  Aligned_cols=25  Identities=24%  Similarity=0.246  Sum_probs=20.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFTK   43 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~~   43 (125)
                      -|+++|++|||||+|...+...+..
T Consensus         5 ~i~i~GptgsGKt~la~~La~~~~~   29 (322)
T 3exa_A            5 LVAIVGPTAVGKTKTSVMLAKRLNG   29 (322)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHTTTE
T ss_pred             EEEEECCCcCCHHHHHHHHHHhCcc
Confidence            4789999999999999997655543

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=96.07  E-value=0.005  Score=42.86  Aligned_cols=22  Identities=23%  Similarity=0.369  Sum_probs=19.1

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhh
Q psy9521          18 FCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ..|++.|.+||||||+.+++..
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~   24 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIA   24 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3589999999999999999654

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=96.06  E-value=0.0057  Score=42.61  Aligned_cols=24  Identities=17%  Similarity=0.374  Sum_probs=20.6

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHh
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      .+...|++.|.+||||||+.+.+.
T Consensus        73 ~~~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           73 SGLYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             TTCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHH
Confidence            345779999999999999999864

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.04  E-value=0.0058  Score=45.33  Aligned_cols=33  Identities=21%  Similarity=0.304  Sum_probs=24.6

Q ss_pred             HHHhhhccCceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521           7 GFYKYMLRKDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus         7 ~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ..|..+--...--+++.|++|+|||+|++.+.+
T Consensus       196 ~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~  228 (428)
T 4b4t_K          196 DLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVAN  228 (428)
T ss_dssp             HHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHH
T ss_pred             HHHHhCCCCCCceEEEECCCCCCHHHHHHHHHH
Confidence            344444444455699999999999999999654

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=96.02  E-value=0.0042  Score=47.56  Aligned_cols=23  Identities=22%  Similarity=0.332  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+-.
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~~  393 (582)
T 3b5x_A          371 TVALVGRSGSGKSTIANLFTRFY  393 (582)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            58999999999999999976544

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=96.02  E-value=0.0046  Score=45.94  Aligned_cols=25  Identities=12%  Similarity=0.041  Sum_probs=20.5

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +-=++.++|++|+|||||++.+.+.
T Consensus       156 ~Gq~~~IvG~sGsGKSTLl~~Iag~  180 (438)
T 2dpy_A          156 RGQRMGLFAGSGVGKSVLLGMMARY  180 (438)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcc
Confidence            3346899999999999999986553

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=96.02  E-value=0.0035  Score=43.01  Aligned_cols=26  Identities=27%  Similarity=0.180  Sum_probs=21.7

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      +...|++.|..||||||+++.+...+
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~~l   48 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQLC   48 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHhc
Confidence            44679999999999999999976554

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=96.01  E-value=0.0061  Score=42.42  Aligned_cols=25  Identities=24%  Similarity=0.280  Sum_probs=20.7

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .-.+++.|++|+|||++++.+.+..
T Consensus        47 ~~~~ll~G~~GtGKt~la~~la~~~   71 (311)
T 4fcw_A           47 IGSFLFLGPTGVGKTELAKTLAATL   71 (311)
T ss_dssp             SEEEEEESCSSSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCcCHHHHHHHHHHHH
Confidence            3569999999999999999865443

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=96.00  E-value=0.0044  Score=44.08  Aligned_cols=25  Identities=28%  Similarity=0.428  Sum_probs=20.2

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .--+++.|++|+|||+|++.+.+..
T Consensus        45 ~~~vli~G~~G~GKTtl~~~l~~~~   69 (386)
T 2qby_A           45 PNNIFIYGLTGTGKTAVVKFVLSKL   69 (386)
T ss_dssp             CCCEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            3459999999999999999965433

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.98  E-value=0.0045  Score=42.63  Aligned_cols=22  Identities=23%  Similarity=0.280  Sum_probs=19.1

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhh
Q psy9521          18 FCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      -.|+++|.+|+||||+.+.+.+
T Consensus        49 ~~i~l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           49 RSMYLVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3599999999999999998653

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=95.97  E-value=0.0043  Score=43.74  Aligned_cols=23  Identities=30%  Similarity=0.408  Sum_probs=19.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      -+++.|++|+|||+|++.+.+..
T Consensus        39 ~lll~G~~GtGKT~la~~i~~~~   61 (324)
T 1l8q_A           39 PIFIYGSVGTGKTHLLQAAGNEA   61 (324)
T ss_dssp             SEEEECSSSSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHHH
Confidence            49999999999999999965443

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=95.97  E-value=0.0046  Score=39.10  Aligned_cols=19  Identities=32%  Similarity=0.614  Sum_probs=16.8

Q ss_pred             EEEEeCCCCcHHHHHHHHh
Q psy9521          20 VLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~   38 (125)
                      .+++|+.|+|||+++..+.
T Consensus        26 ~~I~G~NGsGKStil~Ai~   44 (149)
T 1f2t_A           26 NLIIGQNGSGKSSLLDAIL   44 (149)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            5789999999999999854

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=95.96  E-value=0.0043  Score=44.24  Aligned_cols=25  Identities=16%  Similarity=0.319  Sum_probs=20.8

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .-|+++|++|||||+|...+...+.
T Consensus        11 ~~i~i~GptgsGKt~la~~La~~~~   35 (316)
T 3foz_A           11 KAIFLMGPTASGKTALAIELRKILP   35 (316)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             cEEEEECCCccCHHHHHHHHHHhCC
Confidence            3488999999999999999765554

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.96  E-value=0.0046  Score=47.10  Aligned_cols=27  Identities=26%  Similarity=0.341  Sum_probs=22.0

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      +-=-+.++|+.|+|||||++.+.+...
T Consensus        24 ~Gei~gLiGpNGaGKSTLlkiL~Gl~~   50 (538)
T 3ozx_A           24 NNTILGVLGKNGVGKTTVLKILAGEII   50 (538)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCCC
Confidence            334588999999999999999876544

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=95.95  E-value=0.005  Score=45.33  Aligned_cols=25  Identities=24%  Similarity=0.474  Sum_probs=20.4

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +..-|+++|.+|+||||+.+++...
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~~  281 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLVS  281 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHh
Confidence            3455889999999999999996543

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=95.94  E-value=0.0062  Score=43.84  Aligned_cols=25  Identities=16%  Similarity=0.325  Sum_probs=21.2

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .-|+++|+.|||||+|...+...+.
T Consensus        41 ~lIvI~GPTgsGKTtLa~~LA~~l~   65 (339)
T 3a8t_A           41 KLLVLMGATGTGKSRLSIDLAAHFP   65 (339)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTTSC
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHCC
Confidence            3589999999999999999776554

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=95.93  E-value=0.0046  Score=46.57  Aligned_cols=22  Identities=27%  Similarity=0.302  Sum_probs=19.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .+.++|+.|+|||||++.+.+-
T Consensus        31 ~~~liG~nGsGKSTLl~~l~Gl   52 (483)
T 3euj_A           31 VTTLSGGNGAGKSTTMAGFVTA   52 (483)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHhcC
Confidence            4789999999999999986653

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=95.92  E-value=0.012  Score=42.78  Aligned_cols=25  Identities=28%  Similarity=0.501  Sum_probs=20.7

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHh
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      ......|+++|.+|+||||+...+.
T Consensus        21 ~g~~~~i~l~G~~G~GKTTl~~~la   45 (359)
T 2ga8_A           21 DNYRVCVILVGSPGSGKSTIAEELC   45 (359)
T ss_dssp             TCSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             cCCeeEEEEECCCCCcHHHHHHHHH
Confidence            3455679999999999999998644

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=95.92  E-value=0.005  Score=44.03  Aligned_cols=23  Identities=26%  Similarity=0.309  Sum_probs=19.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .+++.|++|+|||++++.+.+..
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~~   68 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWELY   68 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            59999999999999999865443

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=95.91  E-value=0.0052  Score=41.18  Aligned_cols=19  Identities=32%  Similarity=0.438  Sum_probs=16.6

Q ss_pred             EEEEEeCCCCcHHHHHHHH
Q psy9521          19 CVLILGLDNAGKTTYLESA   37 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i   37 (125)
                      -++++|++|+|||+|+.++
T Consensus        25 ~~~i~G~~GsGKTtl~~~~   43 (247)
T 2dr3_A           25 VVLLSGGPGTGKTIFSQQF   43 (247)
T ss_dssp             EEEEEECTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3789999999999998873

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=95.90  E-value=0.0049  Score=43.99  Aligned_cols=34  Identities=12%  Similarity=0.211  Sum_probs=25.0

Q ss_pred             HHHhhhccCceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521           7 GFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus         7 ~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .+.+.+...+.-.+++.|++|+|||++++.+...
T Consensus        35 ~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~   68 (318)
T 3te6_A           35 PIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDE   68 (318)
T ss_dssp             HHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHH
T ss_pred             HHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            3344444556667999999999999999995433

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=95.88  E-value=0.0053  Score=47.47  Aligned_cols=24  Identities=25%  Similarity=0.309  Sum_probs=20.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .+.++|+.|+|||||++.+.+...
T Consensus       105 i~~LvGpNGaGKSTLLkiL~Gll~  128 (608)
T 3j16_B          105 VLGLVGTNGIGKSTALKILAGKQK  128 (608)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEEECCCCChHHHHHHHHhcCCC
Confidence            489999999999999999876543

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=95.88  E-value=0.0061  Score=42.44  Aligned_cols=25  Identities=20%  Similarity=0.145  Sum_probs=20.3

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +....+++.|++|+|||++++.+..
T Consensus        65 ~~~~~vll~G~~GtGKT~la~~la~   89 (309)
T 3syl_A           65 TPTLHMSFTGNPGTGKTTVALKMAG   89 (309)
T ss_dssp             CCCCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHH
Confidence            3445699999999999999987543

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=95.87  E-value=0.0054  Score=42.51  Aligned_cols=23  Identities=22%  Similarity=0.300  Sum_probs=19.6

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ...+++.|++|+|||++++.+..
T Consensus        50 ~~~vll~G~~GtGKT~la~~la~   72 (310)
T 1ofh_A           50 PKNILMIGPTGVGKTEIARRLAK   72 (310)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            34599999999999999998654

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.86  E-value=0.0061  Score=44.92  Aligned_cols=33  Identities=15%  Similarity=0.210  Sum_probs=24.9

Q ss_pred             HHHhhhccCceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521           7 GFYKYMLRKDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus         7 ~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .+|..+--+..-.+++.|++|+|||.|.+.+.+
T Consensus       172 e~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~  204 (405)
T 4b4t_J          172 ELFESLGIAQPKGVILYGPPGTGKTLLARAVAH  204 (405)
T ss_dssp             HHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHH
T ss_pred             HHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHH
Confidence            345554444455699999999999999999654

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=95.86  E-value=0.0054  Score=42.44  Aligned_cols=20  Identities=15%  Similarity=0.109  Sum_probs=17.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHh
Q psy9521          19 CVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~   38 (125)
                      -++++|++|+|||||+..+.
T Consensus        32 i~~i~G~~GsGKTtl~~~l~   51 (279)
T 1nlf_A           32 VGALVSPGGAGKSMLALQLA   51 (279)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHH
Confidence            37899999999999999854

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=95.85  E-value=0.0059  Score=41.19  Aligned_cols=25  Identities=20%  Similarity=0.206  Sum_probs=20.8

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .+...|.++|..|+||||+.+.+.+
T Consensus        14 ~~~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           14 MKTIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             CCCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3455799999999999999998654

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.84  E-value=0.0046  Score=47.54  Aligned_cols=23  Identities=26%  Similarity=0.342  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|++|+|||||++.+.+-.
T Consensus       383 ~~~ivG~sGsGKSTll~~l~g~~  405 (598)
T 3qf4_B          383 KVALVGPTGSGKTTIVNLLMRFY  405 (598)
T ss_dssp             EEEEECCTTSSTTHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCc
Confidence            68999999999999999976543

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=95.84  E-value=0.0054  Score=43.89  Aligned_cols=24  Identities=21%  Similarity=0.335  Sum_probs=20.0

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      ..|+++|++|||||+|...+...+
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l   29 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADAL   29 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            358999999999999999865443

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=95.83  E-value=0.0054  Score=43.20  Aligned_cols=26  Identities=27%  Similarity=0.308  Sum_probs=20.8

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .-.++++|++|+||||++..+...+.
T Consensus       105 g~vi~lvG~~GsGKTTl~~~LA~~l~  130 (296)
T 2px0_A          105 SKYIVLFGSTGAGKTTTLAKLAAISM  130 (296)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHH
Confidence            34688999999999999998654443

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=95.82  E-value=0.0042  Score=42.19  Aligned_cols=27  Identities=30%  Similarity=0.326  Sum_probs=18.9

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      +-.-|++.|.+||||||+++.+...+.
T Consensus        24 ~g~~I~~eG~~GsGKsT~~~~l~~~l~   50 (227)
T 3v9p_A           24 RGKFITFEGIDGAGKTTHLQWFCDRLQ   50 (227)
T ss_dssp             CCCEEEEECCC---CHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            345699999999999999999765443

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=95.82  E-value=0.0051  Score=43.61  Aligned_cols=26  Identities=27%  Similarity=0.561  Sum_probs=20.9

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .--++++|++|+||||++..+...+.
T Consensus       104 ~~vi~ivG~~GsGKTTl~~~LA~~l~  129 (306)
T 1vma_A          104 PFVIMVVGVNGTGKTTSCGKLAKMFV  129 (306)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CeEEEEEcCCCChHHHHHHHHHHHHH
Confidence            34588999999999999998665443

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=95.81  E-value=0.0037  Score=47.88  Aligned_cols=23  Identities=22%  Similarity=0.449  Sum_probs=19.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .+.++|++|+|||||++.+.+-.
T Consensus       369 ~~~ivG~sGsGKSTll~~l~g~~  391 (578)
T 4a82_A          369 TVAFVGMSGGGKSTLINLIPRFY  391 (578)
T ss_dssp             EEEEECSTTSSHHHHHTTTTTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            58899999999999999876543

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=95.80  E-value=0.0064  Score=46.97  Aligned_cols=24  Identities=29%  Similarity=0.367  Sum_probs=20.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .+.++|+.|+|||||++.+.+...
T Consensus       119 ~~~LiG~NGsGKSTLlkiL~Gll~  142 (607)
T 3bk7_A          119 VVGIVGPNGTGKTTAVKILAGQLI  142 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEEECCCCChHHHHHHHHhCCCC
Confidence            488999999999999999876543

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=95.80  E-value=0.0058  Score=44.04  Aligned_cols=24  Identities=33%  Similarity=0.541  Sum_probs=20.1

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .-|+++|++|||||||...+...+
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l   31 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKF   31 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHc
Confidence            358999999999999999966544

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=95.79  E-value=0.0083  Score=40.55  Aligned_cols=24  Identities=21%  Similarity=0.267  Sum_probs=20.3

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      ..|++.|..|+||||+++.+...+
T Consensus         3 ~~i~~~G~~g~GKtt~~~~l~~~l   26 (241)
T 2ocp_A            3 RRLSIEGNIAVGKSTFVKLLTKTY   26 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHC
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHc
Confidence            458999999999999999976544

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=95.79  E-value=0.0058  Score=44.60  Aligned_cols=25  Identities=24%  Similarity=0.153  Sum_probs=20.5

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +.-.++++|++|+|||||++.+.+.
T Consensus       168 ~~~~i~l~G~~GsGKSTl~~~l~~~  192 (377)
T 1svm_A          168 KKRYWLFKGPIDSGKTTLAAALLEL  192 (377)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            3346899999999999999986543

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=95.78  E-value=0.0086  Score=42.31  Aligned_cols=21  Identities=24%  Similarity=0.389  Sum_probs=18.4

Q ss_pred             EEEEeCCCCcHHHHHHHHhhc
Q psy9521          20 VLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +++.|++|+|||++++.+.+.
T Consensus        61 ~ll~G~~G~GKT~la~~la~~   81 (353)
T 1sxj_D           61 MLFYGPPGTGKTSTILALTKE   81 (353)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            999999999999999985443

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=95.74  E-value=0.0049  Score=43.73  Aligned_cols=20  Identities=25%  Similarity=0.350  Sum_probs=18.4

Q ss_pred             EEEEeCCCCcHHHHHHHHhh
Q psy9521          20 VLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~   39 (125)
                      +++.|++|+||||+++.+.+
T Consensus        39 ~ll~Gp~G~GKTtl~~~la~   58 (354)
T 1sxj_E           39 LLLYGPNGTGKKTRCMALLE   58 (354)
T ss_dssp             EEEECSTTSSHHHHHHTHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            99999999999999998655

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=95.74  E-value=0.0037  Score=39.05  Aligned_cols=24  Identities=13%  Similarity=-0.029  Sum_probs=20.0

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ....|++.|++|+|||++.+.+..
T Consensus        26 ~~~~vll~G~~GtGKt~lA~~i~~   49 (143)
T 3co5_A           26 RTSPVFLTGEAGSPFETVARYFHK   49 (143)
T ss_dssp             CSSCEEEEEETTCCHHHHHGGGCC
T ss_pred             CCCcEEEECCCCccHHHHHHHHHH
Confidence            344599999999999999998754

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=95.71  E-value=0.0067  Score=40.64  Aligned_cols=22  Identities=27%  Similarity=0.249  Sum_probs=19.0

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhh
Q psy9521          18 FCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ..|+++|++|+|||+|...+..
T Consensus        35 ~~ilI~GpsGsGKStLA~~La~   56 (205)
T 2qmh_A           35 LGVLITGDSGVGKSETALELVQ   56 (205)
T ss_dssp             EEEEEECCCTTTTHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4589999999999999999543

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=95.69  E-value=0.0067  Score=42.61  Aligned_cols=20  Identities=30%  Similarity=0.546  Sum_probs=17.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHh
Q psy9521          19 CVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~   38 (125)
                      -+++.|+.|+|||+|+..+.
T Consensus        33 ~v~i~G~~G~GKT~Ll~~~~   52 (350)
T 2qen_A           33 LTLLLGIRRVGKSSLLRAFL   52 (350)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEECCCcCCHHHHHHHHH
Confidence            58899999999999999853

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=95.69  E-value=0.0068  Score=39.62  Aligned_cols=21  Identities=24%  Similarity=0.281  Sum_probs=18.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .|.+.|..|+||||+.+.+..
T Consensus         4 ~i~i~G~~GsGKst~~~~la~   24 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAA   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998654

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=95.69  E-value=0.0078  Score=42.92  Aligned_cols=24  Identities=29%  Similarity=0.317  Sum_probs=20.2

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      -.+++.|++|+|||++++.+....
T Consensus        71 ~~vLl~GppGtGKT~la~~la~~l   94 (368)
T 3uk6_A           71 RAVLIAGQPGTGKTAIAMGMAQAL   94 (368)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            369999999999999999965443

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=95.68  E-value=0.0054  Score=47.08  Aligned_cols=23  Identities=26%  Similarity=0.375  Sum_probs=19.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .+.++|++|+|||||++.+.+-.
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~~  393 (587)
T 3qf4_A          371 LVAVLGETGSGKSTLMNLIPRLI  393 (587)
T ss_dssp             EEEEECSSSSSHHHHHHTTTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            58999999999999999876543

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=95.67  E-value=0.007  Score=42.55  Aligned_cols=20  Identities=30%  Similarity=0.566  Sum_probs=17.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHh
Q psy9521          19 CVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~   38 (125)
                      -+++.|+.|+|||+|++.+.
T Consensus        32 ~v~i~G~~G~GKT~L~~~~~   51 (357)
T 2fna_A           32 ITLVLGLRRTGKSSIIKIGI   51 (357)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHH
Confidence            58899999999999999854

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=95.66  E-value=0.0059  Score=43.50  Aligned_cols=25  Identities=24%  Similarity=0.312  Sum_probs=20.2

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ..-.+++.|++|+|||++++.+...
T Consensus        43 ~~~~vll~G~~G~GKT~l~~~~~~~   67 (387)
T 2v1u_A           43 KPSNALLYGLTGTGKTAVARLVLRR   67 (387)
T ss_dssp             CCCCEEECBCTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHH
Confidence            3346999999999999999985443

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=95.64  E-value=0.0091  Score=47.04  Aligned_cols=36  Identities=17%  Similarity=0.263  Sum_probs=26.4

Q ss_pred             HHHHhhhccCceEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521           6 SGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus         6 ~~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      ..+...+..+..-.+++.|++|+|||++++.+....
T Consensus       190 ~~l~~~l~~~~~~~vLL~G~pGtGKT~la~~la~~l  225 (758)
T 3pxi_A          190 QRVIEVLSRRTKNNPVLIGEPGVGKTAIAEGLAQQI  225 (758)
T ss_dssp             HHHHHHHHCSSSCEEEEESCTTTTTHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCCCeEEECCCCCCHHHHHHHHHHHH
Confidence            344555544555679999999999999999865443

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=95.64  E-value=0.0067  Score=43.04  Aligned_cols=23  Identities=22%  Similarity=0.367  Sum_probs=19.8

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      -.+++.|++|+|||+|++.+.+.
T Consensus        46 ~~iLL~GppGtGKT~la~ala~~   68 (322)
T 1xwi_A           46 RGILLFGPPGTGKSYLAKAVATE   68 (322)
T ss_dssp             SEEEEESSSSSCHHHHHHHHHHH
T ss_pred             ceEEEECCCCccHHHHHHHHHHH
Confidence            46999999999999999996543

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=95.63  E-value=0.01  Score=42.15  Aligned_cols=20  Identities=25%  Similarity=0.393  Sum_probs=18.0

Q ss_pred             EEEEeCCCCcHHHHHHHHhh
Q psy9521          20 VLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~   39 (125)
                      +++.|++|+|||+++..+.+
T Consensus        49 ~ll~Gp~G~GKTtla~~la~   68 (340)
T 1sxj_C           49 LLFYGPPGTGKTSTIVALAR   68 (340)
T ss_dssp             EEEECSSSSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            89999999999999998544

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=95.62  E-value=0.012  Score=46.32  Aligned_cols=36  Identities=19%  Similarity=0.247  Sum_probs=26.8

Q ss_pred             HHHHhhhccCceEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521           6 SGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus         6 ~~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      ..+.+.+..+..-.++++|++|+|||++++.+....
T Consensus       196 ~~l~~~l~~~~~~~vlL~G~~GtGKT~la~~la~~l  231 (758)
T 1r6b_X          196 ERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAWRI  231 (758)
T ss_dssp             HHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHhccCCCCeEEEcCCCCCHHHHHHHHHHHH
Confidence            344555555566679999999999999999865443

>4edh_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology; HET: TMP ADP; 1.32A {Pseudomonas aeruginosa PAO1} PDB: 4e5u_A* 4esh_A* 4gmd_A* 3uwk_A* 3uwo_A* 3uxm_A*

Probab=95.62  E-value=0.0075  Score=40.46  Aligned_cols=25  Identities=24%  Similarity=0.360  Sum_probs=20.7

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .-|++.|.+|+||||++..+...+.
T Consensus         7 ~~i~~eG~~gsGKsT~~~~l~~~l~   31 (213)
T 4edh_A            7 LFVTLEGPEGAGKSTNRDYLAERLR   31 (213)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            4589999999999999999765443

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.60  E-value=0.009  Score=45.47  Aligned_cols=24  Identities=25%  Similarity=0.331  Sum_probs=20.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .+.++|+.|+|||||++.+.+...
T Consensus       314 ~~~i~G~NGsGKSTLlk~l~Gl~~  337 (538)
T 1yqt_A          314 VIGIVGPNGIGKTTFVKMLAGVEE  337 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            478999999999999999876543

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=95.60  E-value=0.0076  Score=43.60  Aligned_cols=19  Identities=26%  Similarity=0.531  Sum_probs=16.8

Q ss_pred             EEEEeCCCCcHHHHHHHHh
Q psy9521          20 VLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~   38 (125)
                      .+++|+.|+|||||+..+.
T Consensus        26 ~~i~G~NGaGKTTll~ai~   44 (365)
T 3qf7_A           26 TVVEGPNGAGKSSLFEAIS   44 (365)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            5689999999999999854

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.60  E-value=0.0079  Score=45.82  Aligned_cols=23  Identities=30%  Similarity=0.395  Sum_probs=19.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .+.++|+.|+|||||++.+.+..
T Consensus       296 i~~i~G~nGsGKSTLl~~l~Gl~  318 (538)
T 3ozx_A          296 IIGILGPNGIGKTTFARILVGEI  318 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            37899999999999999987643

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=95.58  E-value=0.012  Score=41.37  Aligned_cols=25  Identities=24%  Similarity=0.252  Sum_probs=21.0

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ....+++.|++|+|||++++.+...
T Consensus        24 ~~~~vLi~Ge~GtGKt~lAr~i~~~   48 (304)
T 1ojl_A           24 SDATVLIHGDSGTGKELVARALHAC   48 (304)
T ss_dssp             TTSCEEEESCTTSCHHHHHHHHHHH
T ss_pred             CCCcEEEECCCCchHHHHHHHHHHh
Confidence            4556999999999999999997653

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=95.58  E-value=0.0075  Score=42.60  Aligned_cols=23  Identities=26%  Similarity=0.215  Sum_probs=19.5

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      -.+++.|++|+|||++++.+...
T Consensus        56 ~~vll~G~~GtGKT~la~~ia~~   78 (338)
T 3pfi_A           56 DHILFSGPAGLGKTTLANIISYE   78 (338)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHHH
Confidence            35999999999999999996543

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.57  E-value=0.011  Score=43.97  Aligned_cols=32  Identities=25%  Similarity=0.309  Sum_probs=24.5

Q ss_pred             HHhhhccCceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521           8 FYKYMLRKDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus         8 ~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +|..+--...--|++.|++|+|||+|++.+.+
T Consensus       207 ~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~  238 (437)
T 4b4t_I          207 LYEEMGIKPPKGVILYGAPGTGKTLLAKAVAN  238 (437)
T ss_dssp             HHHHHTCCCCSEEEEESSTTTTHHHHHHHHHH
T ss_pred             HHHhCCCCCCCCCceECCCCchHHHHHHHHHH
Confidence            44444444555799999999999999999654

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=95.57  E-value=0.0075  Score=42.63  Aligned_cols=23  Identities=22%  Similarity=0.325  Sum_probs=19.8

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ...+++.|++|+|||++++.+..
T Consensus        51 ~~~vLl~GppGtGKT~la~aia~   73 (322)
T 3eie_A           51 TSGILLYGPPGTGKSYLAKAVAT   73 (322)
T ss_dssp             CCEEEEECSSSSCHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHH
Confidence            45699999999999999998654

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=95.55  E-value=0.016  Score=41.38  Aligned_cols=22  Identities=36%  Similarity=0.427  Sum_probs=19.1

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhh
Q psy9521          18 FCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      --+++.|++|+|||++++.+..
T Consensus        46 ~~vll~G~~G~GKT~la~~l~~   67 (384)
T 2qby_B           46 FSNLFLGLTGTGKTFVSKYIFN   67 (384)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            3699999999999999998544

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=95.55  E-value=0.0039  Score=42.63  Aligned_cols=22  Identities=27%  Similarity=0.403  Sum_probs=18.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .+++.|++|+|||++++.+.+.
T Consensus        46 ~vll~G~~GtGKT~la~~la~~   67 (268)
T 2r62_A           46 GVLLVGPPGTGKTLLAKAVAGE   67 (268)
T ss_dssp             CCCCBCSSCSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            3899999999999999996543

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=95.51  E-value=0.01  Score=45.92  Aligned_cols=24  Identities=25%  Similarity=0.331  Sum_probs=20.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .+.++|+.|+|||||++.+.+...
T Consensus       384 i~~i~G~NGsGKSTLlk~l~Gl~~  407 (607)
T 3bk7_A          384 VIGIVGPNGIGKTTFVKMLAGVEE  407 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCC
Confidence            478999999999999999876543

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.51  E-value=0.01  Score=44.51  Aligned_cols=33  Identities=15%  Similarity=0.146  Sum_probs=25.1

Q ss_pred             HHHhhhccCceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521           7 GFYKYMLRKDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus         7 ~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .+|..+.-+..-.|++.|++|+|||+|.+.+.+
T Consensus       233 e~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~  265 (467)
T 4b4t_H          233 ERFATLGIDPPKGILLYGPPGTGKTLCARAVAN  265 (467)
T ss_dssp             HHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHH
T ss_pred             HHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHh
Confidence            345555444566799999999999999998654

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=95.50  E-value=0.0091  Score=40.71  Aligned_cols=25  Identities=32%  Similarity=0.414  Sum_probs=20.1

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ...++.++|.+||||||+..++...
T Consensus         7 ~~~~~~~~G~pGsGKsT~a~~L~~~   31 (230)
T 3gmt_A            7 HHMRLILLGAPGAGKGTQANFIKEK   31 (230)
T ss_dssp             --CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cccceeeECCCCCCHHHHHHHHHHH
Confidence            3568999999999999999986543

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=95.46  E-value=0.013  Score=39.89  Aligned_cols=22  Identities=18%  Similarity=0.209  Sum_probs=19.3

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES   36 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~   36 (125)
                      +-+++|++.|.+|||||++...
T Consensus         4 ~g~l~I~~~~kgGvGKTt~a~~   25 (228)
T 2r8r_A            4 RGRLKVFLGAAPGVGKTYAMLQ   25 (228)
T ss_dssp             CCCEEEEEESSTTSSHHHHHHH
T ss_pred             CceEEEEEECCCCCcHHHHHHH
Confidence            4578999999999999999665

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=95.43  E-value=0.0094  Score=42.90  Aligned_cols=21  Identities=19%  Similarity=0.215  Sum_probs=18.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      -+.++|++|+|||+|+..+..
T Consensus       133 i~~I~G~~GsGKTTL~~~l~~  153 (349)
T 1pzn_A          133 ITEVFGEFGSGKTQLAHTLAV  153 (349)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999999544

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=95.42  E-value=0.011  Score=43.52  Aligned_cols=24  Identities=25%  Similarity=0.408  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      -|+++|++|||||+|...+...+.
T Consensus         4 ~i~i~GptgsGKttla~~La~~~~   27 (409)
T 3eph_A            4 VIVIAGTTGVGKSQLSIQLAQKFN   27 (409)
T ss_dssp             EEEEEECSSSSHHHHHHHHHHHHT
T ss_pred             EEEEECcchhhHHHHHHHHHHHCC
Confidence            478999999999999999665554

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=95.41  E-value=0.0096  Score=42.87  Aligned_cols=24  Identities=21%  Similarity=0.376  Sum_probs=20.2

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ...+++.|++|+|||++++.+...
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~~   95 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAKH   95 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHH
Confidence            446999999999999999986543

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=95.41  E-value=0.0086  Score=50.10  Aligned_cols=37  Identities=22%  Similarity=0.338  Sum_probs=0.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEE
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRL   71 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~   71 (125)
                      |+.++|++|+|||||++-+.+-+.            |+-|    .+.++|+.+
T Consensus      1107 ~vaIVG~SGsGKSTL~~lL~rl~~------------p~~G----~I~iDG~di 1143 (1321)
T 4f4c_A         1107 TLALVGPSGCGKSTVVALLERFYD------------TLGG----EIFIDGSEI 1143 (1321)
T ss_dssp             EEEEECSTTSSTTSHHHHHTTSSC------------CSSS----EEEETTEET
T ss_pred             EEEEECCCCChHHHHHHHHhcCcc------------CCCC----EEEECCEEh

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=95.40  E-value=0.01  Score=40.54  Aligned_cols=25  Identities=28%  Similarity=0.449  Sum_probs=20.8

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .-|++.|.+|+||||++..+...+.
T Consensus        28 ~~i~~eG~~GsGKsT~~~~l~~~l~   52 (236)
T 3lv8_A           28 KFIVIEGLEGAGKSTAIQVVVETLQ   52 (236)
T ss_dssp             CEEEEEESTTSCHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHH
Confidence            4589999999999999999765443

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=95.40  E-value=0.0089  Score=45.51  Aligned_cols=22  Identities=23%  Similarity=0.303  Sum_probs=19.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      -++++|++|+|||+|++.+.+.
T Consensus       110 ~vll~Gp~GtGKTtlar~ia~~  131 (543)
T 3m6a_A          110 ILCLAGPPGVGKTSLAKSIAKS  131 (543)
T ss_dssp             EEEEESSSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            5899999999999999996543

>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+ molecular machine, hexamer, asymmetric,, ATP-BIN chaperone, metal-binding; HET: ADP; 3.25A {Escherichia coli} PDB: 3hte_A

Probab=95.39  E-value=0.0099  Score=42.64  Aligned_cols=24  Identities=25%  Similarity=0.364  Sum_probs=20.2

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ...+++.|++|+|||++.+.+...
T Consensus        51 ~~~vll~GppGtGKT~la~~ia~~   74 (363)
T 3hws_A           51 KSNILLIGPTGSGKTLLAETLARL   74 (363)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            446999999999999999986543

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=95.38  E-value=0.0098  Score=44.96  Aligned_cols=18  Identities=28%  Similarity=0.434  Sum_probs=16.8

Q ss_pred             EEEEEeCCCCcHHHHHHH
Q psy9521          19 CVLILGLDNAGKTTYLES   36 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~   36 (125)
                      -++++|++|+|||||++.
T Consensus        41 ~~~l~G~nGsGKSTL~~~   58 (525)
T 1tf7_A           41 STLVSGTSGTGKTLFSIQ   58 (525)
T ss_dssp             EEEEEESTTSSHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHH
Confidence            388999999999999998

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=95.35  E-value=0.015  Score=43.62  Aligned_cols=23  Identities=22%  Similarity=0.322  Sum_probs=19.6

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      --+++.|++|+|||+|++.+.+.
T Consensus        50 ~gvLL~GppGtGKT~Laraia~~   72 (476)
T 2ce7_A           50 KGILLVGPPGTGKTLLARAVAGE   72 (476)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            34999999999999999996543

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=95.34  E-value=0.0099  Score=44.03  Aligned_cols=23  Identities=30%  Similarity=0.287  Sum_probs=19.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      -+++.|++|+|||+|++.+.+..
T Consensus       132 ~lll~Gp~G~GKTtLa~aia~~l  154 (440)
T 2z4s_A          132 PLFIYGGVGLGKTHLLQSIGNYV  154 (440)
T ss_dssp             CEEEECSSSSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            49999999999999999865543

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=95.34  E-value=0.01  Score=42.69  Aligned_cols=23  Identities=22%  Similarity=0.343  Sum_probs=19.5

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      -.+++.|++|+|||+|++.+...
T Consensus        85 ~~iLL~GppGtGKT~la~ala~~  107 (355)
T 2qp9_X           85 SGILLYGPPGTGKSYLAKAVATE  107 (355)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Confidence            35999999999999999986543

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=95.33  E-value=0.0085  Score=40.35  Aligned_cols=21  Identities=29%  Similarity=0.455  Sum_probs=17.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .+++.|++|+|||+++..+.+
T Consensus        60 ~ili~GPPGtGKTt~a~ala~   80 (212)
T 1tue_A           60 CLVFCGPANTGKSYFGMSFIH   80 (212)
T ss_dssp             EEEEESCGGGCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            499999999999999887543

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=95.32  E-value=0.005  Score=43.20  Aligned_cols=23  Identities=17%  Similarity=0.200  Sum_probs=16.6

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ..-|.+.|.+||||||+.+.+..
T Consensus         5 ~~iIgItG~sGSGKSTva~~L~~   27 (290)
T 1a7j_A            5 HPIISVTGSSGAGTSTVKHTFDQ   27 (290)
T ss_dssp             SCEEEEESCC---CCTHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            34599999999999999998654

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=95.31  E-value=0.01  Score=42.61  Aligned_cols=24  Identities=21%  Similarity=0.245  Sum_probs=20.3

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ..-.+++.|++|+|||++++.+..
T Consensus       116 ~~~~vLl~GppGtGKT~la~aia~  139 (357)
T 3d8b_A          116 PPKGILLFGPPGTGKTLIGKCIAS  139 (357)
T ss_dssp             CCSEEEEESSTTSSHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            445699999999999999999654

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=95.30  E-value=0.011  Score=45.63  Aligned_cols=23  Identities=22%  Similarity=0.459  Sum_probs=19.8

Q ss_pred             EEEEeCCCCcHHHHHHHHhhccc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      +.++|+.|+|||||++.+.+-..
T Consensus       381 v~iiG~NGsGKSTLlk~l~Gl~~  403 (608)
T 3j16_B          381 LVMMGENGTGKTTLIKLLAGALK  403 (608)
T ss_dssp             EEEESCTTSSHHHHHHHHHTSSC
T ss_pred             EEEECCCCCcHHHHHHHHhcCCC
Confidence            68999999999999999876443

>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_A*

Probab=95.30  E-value=0.011  Score=39.21  Aligned_cols=19  Identities=32%  Similarity=0.614  Sum_probs=16.7

Q ss_pred             EEEEeCCCCcHHHHHHHHh
Q psy9521          20 VLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~   38 (125)
                      .+++|+.|+||||++..+.
T Consensus        26 ~~I~G~NgsGKStil~ai~   44 (203)
T 3qks_A           26 NLIIGQNGSGKSSLLDAIL   44 (203)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHH
Confidence            5788999999999999854

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=95.30  E-value=0.012  Score=39.68  Aligned_cols=26  Identities=38%  Similarity=0.406  Sum_probs=21.1

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      -.-|++.|.+|+||||+++.+...+.
T Consensus         5 g~~i~~eG~~g~GKst~~~~l~~~l~   30 (216)
T 3tmk_A            5 GKLILIEGLDRTGKTTQCNILYKKLQ   30 (216)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHHHHC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            34589999999999999999765443

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=95.28  E-value=0.011  Score=41.73  Aligned_cols=26  Identities=15%  Similarity=0.232  Sum_probs=21.0

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .-.+++.|++|+|||.|+..+.....
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~~~~  177 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAHELS  177 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHH
Confidence            45699999999999999998654433

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=95.24  E-value=0.018  Score=37.92  Aligned_cols=25  Identities=28%  Similarity=0.312  Sum_probs=20.9

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ....|.+.|..||||||+.+.+...
T Consensus        11 ~~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           11 HHMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHh
Confidence            4567999999999999999986543

---

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	125
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	5e-10
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	3e-09
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	4e-09
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	5e-09
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	9e-09
d1azta2	221	c.37.1.8 (A:35-65,A:202-391) Transducin (alpha sub	1e-08
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	1e-08
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	2e-08
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	7e-08
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	9e-08
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	2e-07
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	3e-07
d1zcba2	200	c.37.1.8 (A:47-75,A:202-372) Transducin (alpha sub	6e-07
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	1e-06
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	1e-06
d1svsa1	195	c.37.1.8 (A:32-60,A:182-347) Transducin (alpha sub	2e-06
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	4e-06
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	7e-06
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	1e-05
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	2e-04
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	2e-04
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	4e-04
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	5e-04
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	7e-04
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	9e-04
d1nrjb_	209	c.37.1.8 (B:) Signal recognition particle receptor	0.001
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	0.002
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	0.003
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	0.003
d2fh5b1	207	c.37.1.8 (B:63-269) Signal recognition particle re	0.004

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 52.1 bits (124), Expect = 5e-10
 Identities = 24/113 (21%), Positives = 43/113 (38%), Gaps = 10/113 (8%)

Query: 9   YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDIN 67
           Y Y+ +     +L++G    GKT  L   ++  F   +       I     +   ++D  
Sbjct: 3   YDYLFK-----LLLIGDSGVGKTCVLFRFSEDAFNSTFIST----IGIDFKIRTIELDGK 53

Query: 68  TVRLNFWDLGGQLELQSLWDKDIRDCMGVREVKPIFNKNSAHLIGRRDCMVMP 120
            ++L  WD  GQ   +++     R  MG+  V  I N+ S   I      +  
Sbjct: 54  RIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEE 106

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 50.2 bits (119), Expect = 3e-09
 Identities = 21/99 (21%), Positives = 40/99 (40%), Gaps = 5/99 (5%)

Query: 20  VLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGG 78
           +L++G    GK+  L    + KF  ++     + I     +    I+   V+L  WD  G
Sbjct: 5   ILLIGDSGVGKSCLLVRFVEDKFNPSFI----TTIGIDFKIKTVDINGKKVKLQIWDTAG 60

Query: 79  QLELQSLWDKDIRDCMGVREVKPIFNKNSAHLIGRRDCM 117
           Q   +++     R  MG+  V  I ++ +   I +    
Sbjct: 61  QERFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKT 99

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.4 bits (117), Expect = 4e-09
 Identities = 17/102 (16%), Positives = 33/102 (32%), Gaps = 10/102 (9%)

Query: 9   YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDIN 67
           Y ++ +     ++++G    GKT  +    +  F                     +I+  
Sbjct: 2   YDFLFK-----IVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTV----EINGE 52

Query: 68  TVRLNFWDLGGQLELQSLWDKDIRDCMGVREVKPIFNKNSAH 109
            V+L  WD  GQ   +S+     R    +     I  + S  
Sbjct: 53  KVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFR 94

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 194

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 49.9 bits (118), Expect = 5e-09
 Identities = 23/102 (22%), Positives = 44/102 (43%), Gaps = 10/102 (9%)

Query: 9   YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDIN 67
           Y Y+ +     +L++G    GK+  L   +   +T +Y     S I     +   ++D  
Sbjct: 3   YDYLFK-----LLLIGNSGVGKSCLLLRFSDDTYTNDYI----STIGVDFKIKTVELDGK 53

Query: 68  TVRLNFWDLGGQLELQSLWDKDIRDCMGVREVKPIFNKNSAH 109
           TV+L  WD  GQ   +++     R   G+  V  + ++ S +
Sbjct: 54  TVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFN 95

>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 = 48.8 bits (115), Expect = 9e-09
 Identities = 31/112 (27%), Positives = 46/112 (41%), Gaps = 8/112 (7%)

Query: 8   FYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDIN 67
           F K      E  +LILGLD AGKTT L           +         T+G N+  +   
Sbjct: 8   FDKLWGSNKELRILILGLDGAGKTTIL--------YRLQIGEVVTTKPTIGFNVETLSYK 59

Query: 68  TVRLNFWDLGGQLELQSLWDKDIRDCMGVREVKPIFNKNSAHLIGRRDCMVM 119
            ++LN WDLGGQ  ++  W     D   V  V    +K+      +   +++
Sbjct: 60  NLKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLML 111

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]} Length = 221

class: 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]

 Score = 49.0 bits (116), Expect = 1e-08
 Identities = 16/85 (18%), Positives = 36/85 (42%), Gaps = 11/85 (12%)

Query: 15 KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFW 74
          +    +L+LG   +GK+T ++    +            +  T G+   +  ++ V  + +
Sbjct: 4  RATHRLLLLGAGESGKSTIVK----QMRIL-------HVVLTSGIFETKFQVDKVNFHMF 52

Query: 75 DLGGQLELQSLWDKDIRDCMGVREV 99
          D+GGQ + +  W +   D   +  V
Sbjct: 53 DVGGQRDERRKWIQCFNDVTAIIFV 77

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.3 bits (114), Expect = 1e-08
 Identities = 20/104 (19%), Positives = 35/104 (33%), Gaps = 5/104 (4%)

Query: 17  EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWD 75
              +LI+G    GK++ L       F           I     +    +D N  +L  WD
Sbjct: 7   TLKILIIGESGVGKSSLLLRFTDDTFDPELAAT----IGVDFKVKTISVDGNKAKLAIWD 62

Query: 76  LGGQLELQSLWDKDIRDCMGVREVKPIFNKNSAHLIGRRDCMVM 119
             GQ   ++L     R   GV  V  +  +++   +      + 
Sbjct: 63  TAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELE 106

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 47.6 bits (112), Expect = 2e-08
 Identities = 20/92 (21%), Positives = 35/92 (38%), Gaps = 10/92 (10%)

Query: 9  YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDIN 67
          + YM +     +LI+G  + GKT++L   A   FT  +                   +  
Sbjct: 2  FDYMFK-----ILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVK----TIYRNDK 52

Query: 68 TVRLNFWDLGGQLELQSLWDKDIRDCMGVREV 99
           ++L  WD  GQ   +++     R  MG   +
Sbjct: 53 RIKLQIWDTAGQERYRTITTAYYRGAMGFILM 84

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.4 bits (109), Expect = 7e-08
 Identities = 25/114 (21%), Positives = 40/114 (35%), Gaps = 11/114 (9%)

Query: 8   FYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKN--YKGMNPSKITTTVGLNIGQID 65
           FY    +     V+++G    GKT  L     +F       G   S +       +  +D
Sbjct: 2   FYDVAFK-----VMLVGDSGVGKTCLLV----RFKDGAFLAGTFISTVGIDFRNKVLDVD 52

Query: 66  INTVRLNFWDLGGQLELQSLWDKDIRDCMGVREVKPIFNKNSAHLIGRRDCMVM 119
              V+L  WD  GQ   +S+     RD   +  +  + NK S   I      + 
Sbjct: 53  GVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIH 106

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.4 bits (109), Expect = 9e-08
 Identities = 27/118 (22%), Positives = 41/118 (34%), Gaps = 12/118 (10%)

Query: 9   YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKG------MNPSKITTTVGLNI 61
           Y Y+++     +L LG    GKTT+L      KF   +             +    G N 
Sbjct: 2   YDYLIK-----LLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNG 56

Query: 62  GQIDINTVRLNFWDLGGQLELQSLWDKDIRDCMGVREVKPIFNKNSAHLIGRRDCMVM 119
                  V L  WD  GQ   +SL     RD MG   +  + ++ S   +      + 
Sbjct: 57  SSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQ 114

>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 = 2e-07
 Identities = 31/104 (29%), Positives = 48/104 (46%), Gaps = 9/104 (8%)

Query: 4   LVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQ 63
           L +  ++ +    E  V+I+GLDNAGKTT L          +        + T+G N+ +
Sbjct: 3   LFTRIWR-LFNHQEHKVIIVGLDNAGKTTILYQ--------FSMNEVVHTSPTIGSNVEE 53

Query: 64  IDINTVRLNFWDLGGQLELQSLWDKDIRDCMGVREVKPIFNKNS 107
           I IN  R   WD+GGQ  L+S W+    +   V  V    ++  
Sbjct: 54  IVINNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTDRER 97

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.9 bits (105), Expect = 3e-07
 Identities = 20/112 (17%), Positives = 39/112 (34%), Gaps = 10/112 (8%)

Query: 9   YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDIN 67
           Y ++ +      L++G    GK+  L    + KF  +       +  +     I  +   
Sbjct: 2   YDFLFK-----FLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGS----KIINVGGK 52

Query: 68  TVRLNFWDLGGQLELQSLWDKDIRDCMGVREVKPIFNKNSAHLIGRRDCMVM 119
            V+L  WD  GQ   +S+     R   G   V  I ++ + + +        
Sbjct: 53  YVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDAR 104

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

class: 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]

 Score = 44.1 bits (103), Expect = 6e-07
 Identities = 16/88 (18%), Positives = 33/88 (37%), Gaps = 10/88 (11%)

Query: 20  VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ 79
           +L+LG   +GK+T+L+  + +               T G++    +I  V     D+GGQ
Sbjct: 5   ILLLGAGESGKSTFLK--QMRIIHGQD--------PTKGIHEYDFEIKNVPFKMVDVGGQ 54

Query: 80  LELQSLWDKDIRDCMGVREVKPIFNKNS 107
              +  W +       +  +      + 
Sbjct: 55  RSERKRWFECFDSVTSILFLVSSSEFDQ 82

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

class: 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]

 Score = 43.4 bits (101), Expect = 1e-06
 Identities = 16/93 (17%), Positives = 35/93 (37%), Gaps = 9/93 (9%)

Query: 17  EFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDL 76
           E  +L+LG   +GK+T+++    +    +          T G+     D+ +V     D+
Sbjct: 2   ELKLLLLGTGESGKSTFIK----QMRIIH-----GSGVPTTGIIEYPFDLQSVIFRMVDV 52

Query: 77  GGQLELQSLWDKDIRDCMGVREVKPIFNKNSAH 109
           GGQ   +  W     +   +  +  +   +   
Sbjct: 53  GGQRSERRKWIHCFENVTSIMFLVALSEYDQVL 85

>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 = 43.0 bits (100), Expect = 1e-06
 Identities = 27/88 (30%), Positives = 37/88 (42%), Gaps = 8/88 (9%)

Query: 8  FYKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDIN 67
              +    E  +L+LGLD AGKTT L           K         TVG N+  +   
Sbjct: 3  VLSKIFGNKEMRILMLGLDAAGKTTILYK--------LKLGQSVTTIPTVGFNVETVTYK 54

Query: 68 TVRLNFWDLGGQLELQSLWDKDIRDCMG 95
           V+ N WD+GGQ +++ LW        G
Sbjct: 55 NVKFNVWDVGGQDKIRPLWRHYYTGTQG 82

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 195

class: 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]

 Score = 42.6 bits (99), Expect = 2e-06
 Identities = 13/93 (13%), Positives = 30/93 (32%), Gaps = 12/93 (12%)

Query: 17  EFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDL 76
           E  +L+LG   +GK+T ++    +    +            G+         +    +D+
Sbjct: 2   EVKLLLLGAGESGKSTIVK----QMKIIH--------EAGTGIVETHFTFKDLHFKMFDV 49

Query: 77  GGQLELQSLWDKDIRDCMGVREVKPIFNKNSAH 109
           GGQ   +  W         +     + + +   
Sbjct: 50  GGQRSERKKWIHCFEGVTAIIFCVALSDYDLVL 82

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.4 bits (96), Expect = 4e-06
 Identities = 21/102 (20%), Positives = 36/102 (35%), Gaps = 10/102 (9%)

Query: 9   YKYMLRKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDIN 67
           Y Y+ +     V+++G    GK+  L    + +F    K      I         Q+D  
Sbjct: 1   YDYLFK-----VVLIGDSGVGKSNLLSRFTRNEFNLESKST----IGVEFATRSIQVDGK 51

Query: 68  TVRLNFWDLGGQLELQSLWDKDIRDCMGVREVKPIFNKNSAH 109
           T++   WD  GQ   + +     R  +G   V  I    +  
Sbjct: 52  TIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAKHLTYE 93

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.0 bits (95), Expect = 7e-06
 Identities = 22/100 (22%), Positives = 40/100 (40%), Gaps = 10/100 (10%)

Query: 9   YKYMLRKDEFCVLILGLDNAGKTTYLESAKTKFTKN-YKGMNPSKITTTVGLNIGQIDIN 67
           Y Y+ +      +I+G    GK+  L     +FT+  +    P  I    G  I ++   
Sbjct: 1   YSYIFK-----YIIIGDMGVGKSCLL----HQFTEKKFMADCPHTIGVEFGTRIIEVSGQ 51

Query: 68  TVRLNFWDLGGQLELQSLWDKDIRDCMGVREVKPIFNKNS 107
            ++L  WD  GQ   +++     R   G   V  I  +++
Sbjct: 52  KIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRST 91

>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 = 40.4 bits (93), Expect = 1e-05
 Identities = 23/86 (26%), Positives = 40/86 (46%), Gaps = 8/86 (9%)

Query: 20  VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ 79
           +L++GLD AGKTT L           K         T+G N+  ++   +    WD+GGQ
Sbjct: 3   ILMVGLDAAGKTTIL--------YKLKLGEIVTTIPTIGFNVETVEYKNISFTVWDVGGQ 54

Query: 80  LELQSLWDKDIRDCMGVREVKPIFNK 105
            +++ LW    ++  G+  V    ++
Sbjct: 55  DKIRPLWRHYFQNTQGLIFVVDSNDR 80

>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 = 37.0 bits (84), Expect = 2e-04
 Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 8/77 (10%)

Query: 20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ 79
          +L LGLDNAGKTT L           K    + +  T      ++ I  ++   +DLGG 
Sbjct: 3  LLFLGLDNAGKTTLLHM--------LKNDRLATLQPTWHPTSEELAIGNIKFTTFDLGGH 54

Query: 80 LELQSLWDKDIRDCMGV 96
          ++ + LW     +  G+
Sbjct: 55 IQARRLWKDYFPEVNGI 71

>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 = 37.0 bits (84), Expect = 2e-04
 Identities = 31/79 (39%), Positives = 42/79 (53%), Gaps = 8/79 (10%)

Query: 17 EFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDL 76
          E  +L+LGLDNAGKTT L        K + G +   I+ T+G NI  ++    +LN WD+
Sbjct: 2  ELRLLMLGLDNAGKTTIL--------KKFNGEDVDTISPTLGFNIKTLEHRGFKLNIWDV 53

Query: 77 GGQLELQSLWDKDIRDCMG 95
          GGQ  L+S W        G
Sbjct: 54 GGQKSLRSYWRNYFESTDG 72

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.0 bits (82), Expect = 4e-04
 Identities = 21/90 (23%), Positives = 32/90 (35%), Gaps = 5/90 (5%)

Query: 18  FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDL 76
           F  +I+G    GK+  L      +F   +       I    G  +  ID   ++L  WD 
Sbjct: 4   FKYIIIGDTGVGKSCLLLQFTDKRFQPVHD----LTIGVEFGARMVNIDGKQIKLQIWDT 59

Query: 77  GGQLELQSLWDKDIRDCMGVREVKPIFNKN 106
            GQ   +S+     R   G   V  I  + 
Sbjct: 60  AGQESFRSITRSYYRGAAGALLVYDITRRE 89

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.7 bits (81), Expect = 5e-04
 Identities = 22/91 (24%), Positives = 34/91 (37%), Gaps = 5/91 (5%)

Query: 18  FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDL 76
           F V++LG    GKT+ +    + KF   +     +   T      G+          WD 
Sbjct: 4   FKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNL----AIWDT 59

Query: 77  GGQLELQSLWDKDIRDCMGVREVKPIFNKNS 107
            GQ    +L     RD  G   V  I +++S
Sbjct: 60  AGQERFHALGPIYYRDSNGAILVYDITDEDS 90

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]} Length = 176

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

 Score = 35.3 bits (80), Expect = 7e-04
 Identities = 30/93 (32%), Positives = 43/93 (46%), Gaps = 8/93 (8%)

Query: 15  KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFW 74
             E  +L+LGLDNAGKTT L        K     + S IT T G NI  +     +LN W
Sbjct: 14  DQEVRILLLGLDNAGKTTLL--------KQLASEDISHITPTQGFNIKSVQSQGFKLNVW 65

Query: 75  DLGGQLELQSLWDKDIRDCMGVREVKPIFNKNS 107
           D+GGQ +++  W     +   +  V    ++  
Sbjct: 66  DIGGQRKIRPYWRSYFENTDILIYVIDSADRKR 98

>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 = 35.1 bits (79), Expect = 9e-04
 Identities = 23/103 (22%), Positives = 42/103 (40%), Gaps = 9/103 (8%)

Query: 6   SGFYKYM-LRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQI 64
           S   +++ L K    ++ LGLDNAGKTT L           K     +   T+     ++
Sbjct: 1   SSVLQFLGLYKKTGKLVFLGLDNAGKTTLL--------HMLKDDRLGQHVPTLHPTSEEL 52

Query: 65  DINTVRLNFWDLGGQLELQSLWDKDIRDCMGVREVKPIFNKNS 107
            I  +    +DLGG ++ + +W   +    G+  +    +   
Sbjct: 53  TIAGMTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCADHER 95

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 209

class: 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]

 Score = 35.0 bits (79), Expect = 0.001
 Identities = 13/75 (17%), Positives = 27/75 (36%), Gaps = 9/75 (12%)

Query: 20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ 79
          ++I G  N+GKT+ L       T +       + T      +   D +   +   D  G 
Sbjct: 6  IIIAGPQNSGKTSLLT----LLTTDS-----VRPTVVSQEPLSAADYDGSGVTLVDFPGH 56

Query: 80 LELQSLWDKDIRDCM 94
          ++L+      ++   
Sbjct: 57 VKLRYKLSDYLKTRA 71

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.8 bits (76), Expect = 0.002
 Identities = 19/81 (23%), Positives = 30/81 (37%), Gaps = 5/81 (6%)

Query: 17 EFCVLILGLDNAGKTTYLESAKTKFTKN-YKGMNPSKITTTVGLNIGQIDINTVRLNFWD 75
          +F +++LG    GK++ +     +F K  +     S I          +D  TV+   WD
Sbjct: 6  QFKLVLLGESAVGKSSLV----LRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWD 61

Query: 76 LGGQLELQSLWDKDIRDCMGV 96
            GQ    SL     R     
Sbjct: 62 TAGQERYHSLAPMYYRGAQAA 82

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 33.5 bits (75), Expect = 0.003
 Identities = 22/101 (21%), Positives = 35/101 (34%), Gaps = 4/101 (3%)

Query: 20  VLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGG 78
           V+ILG    GKT+ +      K+++ YK    +     +   +         +  WD  G
Sbjct: 5   VIILGDSGVGKTSLMHRYVNDKYSQQYK---ATIGADFLTKEVTVDGDKVATMQVWDTAG 61

Query: 79  QLELQSLWDKDIRDCMGVREVKPIFNKNSAHLIGRRDCMVM 119
           Q   QSL     R       V  + N +S   I       +
Sbjct: 62  QERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFL 102

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 33.1 bits (74), Expect = 0.003
 Identities = 21/102 (20%), Positives = 36/102 (35%), Gaps = 5/102 (4%)

Query: 20  VLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGG 78
           ++++G    GK++ ++   K  FTK+YK                +      RL  WD  G
Sbjct: 5   MVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDV----RLMLWDTAG 60

Query: 79  QLELQSLWDKDIRDCMGVREVKPIFNKNSAHLIGRRDCMVMP 120
           Q E  ++     R       V    ++ S   I      V+ 
Sbjct: 61  QEEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVA 102

>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 = 33.5 bits (75), Expect = 0.004
 Identities = 12/57 (21%), Positives = 20/57 (35%), Gaps = 8/57 (14%)

Query: 20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDL 76
          VL +GL ++GKT        +              T++  +     +N  R N   L
Sbjct: 3  VLFVGLCDSGKTLLFV----RLLTG----QYRDTQTSITDSSAIYKVNNNRGNSLTL 51

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	125
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.88
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.85
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.85
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	99.84
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.83
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.83
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.82
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	99.82
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.82
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.81
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	99.81
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.81
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.81
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.81
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.81
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	99.8
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.8
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	99.8
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.8
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.79
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.79
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.79
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.79
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.79
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.79
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.79
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	99.79
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.79
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.79
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.79
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.79
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.79
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.79
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.78
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.78
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.78
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.78
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.78
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.77
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.77
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.76
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.75
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.75
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.74
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.73
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.71
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.71
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.71
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.7
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.7
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.69
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.69
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.67
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.58
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.56
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.39
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.35
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.27
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.25
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.24
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.24
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.17
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.16
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.09
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.08
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	98.9
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	98.89
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	98.88
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	98.87
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	98.87
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	98.82
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	98.79
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	98.76
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	98.73
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	98.64
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	98.63
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	98.59
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	98.58
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	98.54
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.38
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	98.33
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	98.28
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	98.22
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	98.19
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	98.08
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	97.98
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	97.98
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.94
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.94
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	97.84
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.81
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.79
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	97.76
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.62
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.62
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.6
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.57
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.57
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.56
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.55
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.55
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.54
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.53
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.53
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	97.53
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.52
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.5
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	97.48
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	97.47
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.46
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.45
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	97.43
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.38
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.36
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	97.36
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.34
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.29
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	97.29
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	97.27
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	97.26
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.26
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.25
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.24
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.22
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	97.21
d1g2912	240	Maltose transport protein MalK, N-terminal domain	97.2
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.19
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	97.18
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.18
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	97.18
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	97.17
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	97.14
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	97.12
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.1
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.1
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	97.1
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.09
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	97.08
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	97.07
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	97.07
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.07
d2awna2	232	Maltose transport protein MalK, N-terminal domain	97.04
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	97.04
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	97.03
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.02
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	96.99
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.99
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.97
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	96.96
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.95
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.94
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.93
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	96.9
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	96.9
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	96.89
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	96.87
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	96.87
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.86
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	96.83
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	96.78
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	96.77
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	96.75
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	96.75
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.74
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.73
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	96.71
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.69
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.68
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	96.67
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	96.67
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	96.65
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	96.59
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	96.59
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	96.59
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	96.57
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.5
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	96.49
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.46
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	96.45
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	96.36
d2qy9a2	211	GTPase domain of the signal recognition particle r	96.31
d1okkd2	207	GTPase domain of the signal recognition particle r	96.3
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	96.29
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	96.29
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	96.27
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.25
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	96.2
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.19
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	96.19
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	96.18
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	96.15
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.11
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.08
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.08
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	96.04
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.99
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	95.87
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.86
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	95.79
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	95.74
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	95.73
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.67
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.66
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	95.59
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	95.58
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	95.56
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	95.56
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.56
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	95.55
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	95.52
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	95.52
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	95.4
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	95.34
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	95.33
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	95.23
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	95.21
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	95.2
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	95.19
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	95.01
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	94.99
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	94.99
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	94.97
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	94.89
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	94.8
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	94.78
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	94.65
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	94.6
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	94.6
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	94.59
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	94.49
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	94.29
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	94.18
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	94.15
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	94.04
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	93.92
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	93.59
d1xpua3	289	Transcription termination factor Rho, ATPase domai	93.55
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	93.47
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	93.47
d1tuea_	205	Replication protein E1 helicase domain {Human papi	93.17
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	93.07
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	92.96
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	92.92
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	92.84
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	92.54
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	92.41
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	91.77
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	91.31
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	91.09
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	90.99
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	90.94
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	90.44
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	90.18
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	89.5
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	89.42
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	89.32
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	89.07
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	89.02
d1lkxa_	684	Myosin S1, motor domain {Dictyostelium discoideum,	88.62
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	87.73
d1d0xa2	712	Myosin S1, motor domain {Dictyostelium discoideum	87.39
d1br2a2	710	Myosin S1, motor domain {Chicken (Gallus gallus),	87.02
d2eyqa3	233	Transcription-repair coupling factor, TRCF {Escher	86.64
d2mysa2	794	Myosin S1, motor domain {Chicken (Gallus gallus),	86.63
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	86.52
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	86.34
d1w7ja2	730	Myosin S1, motor domain {Chicken (Gallus gallus),	86.3
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	85.9
d1kk8a2	789	Myosin S1, motor domain {Bay scallop (Aequipecten	85.86
d1gm5a3	264	RecG helicase domain {Thermotoga maritima [TaxId:	85.47
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	85.39
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	85.1
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	84.61
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	84.35
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	80.65
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	80.56

>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=99.88  E-value=2.1e-22  Score=131.85  Aligned_cols=97  Identities=30%  Similarity=0.496  Sum_probs=76.2

Q ss_pred             hhhHHHHHhhhcc-CceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcc
Q psy9521           2 YTLVSGFYKYMLR-KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQL   80 (125)
Q Consensus         2 ~~~~~~~~~~~~~-~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~   80 (125)
                      ++.+++++++++. ++++||+++|++|||||||++++.+....+..        ||.+.....+..+++.+.+||++|++
T Consensus         1 ~~~~~~~~~~l~~~~k~~KI~lvG~~~vGKTsLi~~l~~~~~~~~~--------~t~~~~~~~~~~~~~~~~i~D~~g~~   72 (182)
T d1moza_           1 GNIFSSMFDKLWGSNKELRILILGLDGAGKTTILYRLQIGEVVTTK--------PTIGFNVETLSYKNLKLNVWDLGGQT   72 (182)
T ss_dssp             CHHHHHHHGGGTTCSSCEEEEEEEETTSSHHHHHHHTCCSEEEEEC--------SSTTCCEEEEEETTEEEEEEEEC---
T ss_pred             ChhHHHHHHHHhCCCceEEEEEECCCCCCHHHHHHHHhcCCCCccc--------cccceEEEEEeeCCEEEEEEeccccc
Confidence            4678899988754 79999999999999999999995433333444        88888888888889999999999999


Q ss_pred             cccccccc------------cccCccCHHHHHHHHhhh
Q psy9521          81 ELQSLWDK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        81 ~~~~~~~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      .++.++..            |.++..++.++..|+...
T Consensus        73 ~~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~l~~~  110 (182)
T d1moza_          73 SIRPYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLM  110 (182)
T ss_dssp             -CCTTGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHH
T ss_pred             ccchhHHhhhccceeEEEEeeecccccchhHHHHHHHH
Confidence            99888877            888888888888776553

>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=99.85  E-value=3e-21  Score=125.47  Aligned_cols=89  Identities=31%  Similarity=0.571  Sum_probs=72.6

Q ss_pred             HHhhhccCceEEEEEEeCCCCcHHHHHHHH-hhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccc
Q psy9521           8 FYKYMLRKDEFCVLILGLDNAGKTTYLESA-KTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLW   86 (125)
Q Consensus         8 ~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i-~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~   86 (125)
                      ++.++|.++++||+++|++|||||||++|+ .+.+... .        +|.+..+.....+.+.+.+||++|++.++..+
T Consensus         3 ~~~~~~~~k~~kIvlvG~~~vGKTSli~rl~~~~~~~~-~--------~t~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~   73 (173)
T d1e0sa_           3 VLSKIFGNKEMRILMLGLDAAGKTTILYKLKLGQSVTT-I--------PTVGFNVETVTYKNVKFNVWDVGGQDKIRPLW   73 (173)
T ss_dssp             HHHHHHTTCCEEEEEEEETTSSHHHHHHHTTCCCCEEE-E--------EETTEEEEEEEETTEEEEEEEESCCGGGHHHH
T ss_pred             hhhhhhCCCeEEEEEECCCCCCHHHHHHHHhcCCCCCc-c--------ceeeeeEEEeeccceeeEEecCCCcchhhhHH
Confidence            577888889999999999999999999994 5555433 2        88888888788888999999999999998887


Q ss_pred             cc------------cccCccCHHHHHHHHhh
Q psy9521          87 DK------------DIRDCMGVREVKPIFNK  105 (125)
Q Consensus        87 ~~------------Di~~~~s~~~i~~~l~~  105 (125)
                      ..            |.++..++.++..|+..
T Consensus        74 ~~~~~~~~~ii~v~D~s~~~~~~~~~~~l~~  104 (173)
T d1e0sa_          74 RHYYTGTQGLIFVVDCADRDRIDEARQELHR  104 (173)
T ss_dssp             GGGTTTCCEEEEEEETTCGGGHHHHHHHHHH
T ss_pred             HhhhcccceEEEEEecccchhHHHHHHHHHH
Confidence            76            77777777777665544

>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=99.85  E-value=7e-21  Score=122.60  Aligned_cols=80  Identities=36%  Similarity=0.626  Sum_probs=64.9

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc-------
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK-------   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~-------   88 (125)
                      +++||+++|++|||||||++++.+....++.        ||.+.....+..+++.+.+||++|++.++..+..       
T Consensus         1 k~~ki~ivG~~~~GKTsLi~~l~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~   72 (165)
T d1ksha_           1 RELRLLMLGLDNAGKTTILKKFNGEDVDTIS--------PTLGFNIKTLEHRGFKLNIWDVGGQKSLRSYWRNYFESTDG   72 (165)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHTTCCCSSCC--------CCSSEEEEEEEETTEEEEEEEECCSHHHHTTGGGGCTTCSE
T ss_pred             CcEEEEEECCCCCCHHHHHHHHcCCCCCccc--------ceEeeeeeeccccccceeeeecCcchhhhhHHHhhhhhhhc
Confidence            5789999999999999999997655444444        9999988888889999999999999998877765       


Q ss_pred             -----cccCccCHHHHHHHH
Q psy9521          89 -----DIRDCMGVREVKPIF  103 (125)
Q Consensus        89 -----Di~~~~s~~~i~~~l  103 (125)
                           |.++..+++++..++
T Consensus        73 ~i~v~d~~d~~~~~~~~~~~   92 (165)
T d1ksha_          73 LIWVVDSADRQRMQDCQREL   92 (165)
T ss_dssp             EEEEEETTCGGGHHHHHHHH
T ss_pred             ceeeeecccchhHHHHHHhh
Confidence                 666666666665444

>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=99.84  E-value=1.1e-20  Score=122.11  Aligned_cols=100  Identities=21%  Similarity=0.303  Sum_probs=81.3

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      .+.+||+++|++|||||||+++ +.+.|.+++.        ||++.++. .+..++  +.+.+||++|++++..++..  
T Consensus         2 ~k~~Kv~liG~~~vGKTsLl~~~~~~~f~~~~~--------~t~~~~~~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~   73 (167)
T d1xtqa1           2 SKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYD--------PTIENTFTKLITVNGQEYHLQLVDTAGQDEYSIFPQTYS   73 (167)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSCCCSCCC--------SSCCEEEEEEEEETTEEEEEEEEECCCCCTTCCCCGGGT
T ss_pred             CcceEEEEECCCCcCHHHHHHHHHhCCCCcccC--------cceecccceEEecCcEEEEeeecccccccccccccchhh
Confidence            4678999999999999999999 7888888877        99988875 556665  78999999999999887666  


Q ss_pred             ----------cccCccCHHHHHHHHhhhcccccCCCCeEEEEeec
Q psy9521          89 ----------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSA  123 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~sA  123 (125)
                                |++++.||+++..|+.++ .+......++++.+..
T Consensus        74 ~~~d~~ilv~d~~~~~s~~~~~~~~~~i-~~~~~~~~~piilvgn  117 (167)
T d1xtqa1          74 IDINGYILVYSVTSIKSFEVIKVIHGKL-LDMVGKVQIPIMLVGN  117 (167)
T ss_dssp             SSCCEEEEEEETTCHHHHHHHHHHHHHH-HHHHCSSCCCEEEEEE
T ss_pred             hhhhhhhhhcccchhhhhhhhhhhhhhh-hhcccccccceeeecc
Confidence                      999999999999999887 3334445556555543

>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=99.83  E-value=7.2e-21  Score=123.00  Aligned_cols=99  Identities=16%  Similarity=0.307  Sum_probs=79.2

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeC--CEEEEEEECCCcccccccccc---
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDIN--TVRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~--~~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      +++||+++|++|||||||++| +.++|.+++.        ||++..+. .+..+  .+.+.+||++|++.+..+++.   
T Consensus         2 r~~KivvvG~~~vGKTsli~r~~~~~f~~~~~--------~t~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~   73 (167)
T d1c1ya_           2 REYKLVVLGSGGVGKSALTVQFVQGIFVEKYD--------PTIEDSYRKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMK   73 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCSCC--------CCSEEEEEEEEESSSCEEEEEEEEECSSCSSTTHHHHHHH
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCccC--------CccccccceeEEeeeeEEEeccccccCccccccccccccc
Confidence            578999999999999999999 7889988887        89887765 33333  388999999999999888766   


Q ss_pred             ---------cccCccCHHHHHHHHhhhcccccCCCCeEEEEeec
Q psy9521          89 ---------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSA  123 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~sA  123 (125)
                               |++++.||+++..|+..+ .+....+.++++.+..
T Consensus        74 ~~~~~ilv~d~~~~~sf~~~~~~~~~~-~~~~~~~~~p~ilvgn  116 (167)
T d1c1ya_          74 NGQGFALVYSITAQSTFNDLQDLREQI-LRVKDTEDVPMILVGN  116 (167)
T ss_dssp             HCSEEEEEEETTCHHHHHTHHHHHHHH-HHHHCCSCCCEEEEEE
T ss_pred             ccceeEEeeeccchhhhHhHHHHHHHH-HHhcCCCCCeEEEEEE
Confidence                     999999999999999887 2222334555555543

>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=99.83  E-value=1.5e-20  Score=121.19  Aligned_cols=83  Identities=30%  Similarity=0.630  Sum_probs=72.8

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc------
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK------   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~------   88 (125)
                      +++||+++|++|||||||+++ ..+++.+++.        ||++.++..++.+++.+++||++|++.+...|..      
T Consensus         1 ~e~ki~i~G~~~~GKTsLl~~l~~~~~~~~~~--------~T~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~   72 (164)
T d1zd9a1           1 EEMELTLVGLQYSGKTTFVNVIASGQFNEDMI--------PTVGFNMRKITKGNVTIKLWDIGGQPRFRSMWERYCRGVS   72 (164)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCCSCC--------CCCSEEEEEEEETTEEEEEEEECCSHHHHTTHHHHHTTCS
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHcCCCCCccc--------ccceeeeeeeeeeeEEEEEeeccccccccccccccccccc
Confidence            479999999999999999999 6777777776        9999999888889999999999999998887776      


Q ss_pred             ------cccCccCHHHHHHHHhhh
Q psy9521          89 ------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ------Di~~~~s~~~i~~~l~~~  106 (125)
                            |+.+..+|+++..|+..+
T Consensus        73 ~~i~v~d~~~~~~~~~~~~~~~~~   96 (164)
T d1zd9a1          73 AIVYMVDAADQEKIEASKNELHNL   96 (164)
T ss_dssp             EEEEEEETTCGGGHHHHHHHHHHH
T ss_pred             hhhcccccccccccchhhhhhhhh
Confidence                  888888888888776654

>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=99.82  E-value=1.4e-20  Score=122.12  Aligned_cols=83  Identities=25%  Similarity=0.512  Sum_probs=68.2

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEE--EeC--CEEEEEEECCCcccccccccc--
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQI--DIN--TVRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~--~~~--~~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      -++||+++|++|||||||+++ +.+.|..++.        ||++.++...  ..+  .+.+.+||++|++++..++..  
T Consensus         2 ~~~Ki~vvG~~~vGKTsli~~~~~~~f~~~~~--------~Ti~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~   73 (170)
T d1i2ma_           2 VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYV--------ATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYY   73 (170)
T ss_dssp             EEEEEEEEECTTSSHHHHHHTTC-----CCEE--------EETTEEEEEEEECBTTCCEEEEEEECTTHHHHSSCGGGGT
T ss_pred             eeEEEEEECCCCcCHHHHHHHHHhCCCCcccc--------cceeccccccccccccccccccccccccccccceecchhc
Confidence            378999999999999999999 7788888887        9999887633  333  389999999999999888776  


Q ss_pred             ----------cccCccCHHHHHHHHhhh
Q psy9521          89 ----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~  106 (125)
                                |++++.||+++..|+..+
T Consensus        74 ~~~~~~ilv~d~~~~~Sf~~~~~~~~~~  101 (170)
T d1i2ma_          74 IQAQCAIIMFDVTSRVTYKNVPNWHRDL  101 (170)
T ss_dssp             TTCCEEEEEEETTSGGGGTTHHHHHHHH
T ss_pred             ccccchhhccccccccccchhHHHHHHH
Confidence                      999999999999999887

>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=99.82  E-value=3.5e-20  Score=120.13  Aligned_cols=99  Identities=16%  Similarity=0.275  Sum_probs=79.9

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc---
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      +.+||+++|++|||||||+++ +.+.|.+++.        ||++..+. .+..++  +.+++||++|++++..+++.   
T Consensus         3 pt~Ki~lvG~~~vGKTsll~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~   74 (169)
T d1x1ra1           3 PTYKLVVVGDGGVGKSALTIQFFQKIFVPDYD--------PTIEDSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMR   74 (169)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCCTTCC--------TTCCEEEEEEEEETTEEEEEEEEECCSCGGGCSSHHHHHH
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCCCCcccC--------cceeeccccccccccccccccccccccccccccchhhhhh
Confidence            578999999999999999999 7888888877        88887664 445554  88999999999999888765   


Q ss_pred             ---------cccCccCHHHHHHHHhhhcccccCCCCeEEEEeec
Q psy9521          89 ---------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSA  123 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~sA  123 (125)
                               |++++.||+++..|+.++ .+.......|++.+..
T Consensus        75 ~~~~~llv~d~~d~~Sf~~~~~~~~~i-~~~~~~~~~p~ilvgn  117 (169)
T d1x1ra1          75 TGDGFLIVYSVTDKASFEHVDRFHQLI-LRVKDRESFPMILVAN  117 (169)
T ss_dssp             HCSEEEEEEETTCHHHHHTHHHHHHHH-HHHHTSSCCCEEEEEE
T ss_pred             hccEEEEecccccchhhhccchhhHHH-HhhccccCccEEEEec
Confidence                     999999999999999987 3333445556555543

>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=99.82  E-value=6.9e-20  Score=119.07  Aligned_cols=99  Identities=21%  Similarity=0.346  Sum_probs=77.5

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      +.+.+||+++|++|||||||++| +.+.|..++.        ||....+. .+..++  +.+.+||++|++++..++.. 
T Consensus         3 ~~~~~Kv~lvG~~~vGKTsLi~r~~~~~f~~~~~--------~t~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~   74 (173)
T d2fn4a1           3 PSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYD--------PTIEDSYTKICSVDGIPARLDILDTAGQEEFGAMREQY   74 (173)
T ss_dssp             SSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCC--------TTCCEEEEEEEEETTEEEEEEEEECCCTTTTSCCHHHH
T ss_pred             CCCeEEEEEECCCCcCHHHHHHHHHhCCCCcccc--------cccccceeeEeccCCeeeeeeccccccccccccccchh
Confidence            45789999999999999999999 7788888876        77654443 455565  78999999999999888765 


Q ss_pred             -----------cccCccCHHHHHHHHhhhcccccCCCCeEEEEe
Q psy9521          89 -----------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPV  121 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~  121 (125)
                                 |++++.||+++..|+..+ ........++++.+
T Consensus        75 ~~~~~~~i~v~d~~~~~s~~~~~~~~~~i-~~~~~~~~~p~ilv  117 (173)
T d2fn4a1          75 MRAGHGFLLVFAINDRQSFNEVGKLFTQI-LRVKDRDDFPVVLV  117 (173)
T ss_dssp             HHHCSEEEEEEETTCHHHHHHHHHHHHHH-HHHHTSSCCCEEEE
T ss_pred             hccceeeeeecccccccccchhhhhhHHH-HHHhccCCCceEEE
Confidence                       999999999999998886 22233344454444

>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=99.81  E-value=6.3e-20  Score=120.98  Aligned_cols=82  Identities=24%  Similarity=0.280  Sum_probs=69.8

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      .+||+++|++|||||||++| +.+.|..++.        ||++..+. ....++  +.+++||++|+++|+.++..    
T Consensus         3 ~iKvvllG~~~vGKTSli~r~~~~~f~~~~~--------~t~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~   74 (191)
T d2ngra_           3 TIKCVVVGDGAVGKTCLLISYTTNKFPSEYV--------PTVFDNYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQ   74 (191)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCC--------CCSEEEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTT
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCCcC--------CceeeecceeEeeCCceeeeeccccccchhhhhhhhhcccc
Confidence            68999999999999999999 8888888887        99987764 334443  78999999999999988877    


Q ss_pred             --------cccCccCHHHHHH-HHhhh
Q psy9521          89 --------DIRDCMGVREVKP-IFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~-~l~~~  106 (125)
                              |++++.||+++.. |+..+
T Consensus        75 ~~~~ilv~d~~~~~Sf~~~~~~~~~~~  101 (191)
T d2ngra_          75 TDVFLVCFSVVSPSSFENVKEKWVPEI  101 (191)
T ss_dssp             CSEEEEEEETTCHHHHHHHHHTHHHHH
T ss_pred             cceeecccccchHHHHHHHHHHHHHHH
Confidence                    9999999999986 55544

>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=99.81  E-value=6e-20  Score=118.91  Aligned_cols=98  Identities=14%  Similarity=0.245  Sum_probs=75.7

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc---
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      +-+||+++|++|||||||+++ +.++|..++.        ||++.++. .+..++  +.+.+||++|++++..++..   
T Consensus         3 ~~~KivlvG~~~vGKTsli~~~~~~~f~~~~~--------~T~~~~~~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~   74 (168)
T d1u8za_           3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYE--------PTKADSYRKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFR   74 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCC--------TTCCEEEEEEEEETTEEEEEEEEECCC---CHHHHHHHHH
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCcccC--------Cccccccccccccccccccccccccccccchhhhhhhccc
Confidence            357899999999999999999 7888888887        99998875 455555  78999999999998877665   


Q ss_pred             ---------cccCccCHHHHHHHHhhhcccccCCCCeEEEEee
Q psy9521          89 ---------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                               |+.++.||+.+..|++++ .+.....++|++.+.
T Consensus        75 ~~~~~ilv~d~~~~~s~~~~~~~~~~i-~~~~~~~~~piiivg  116 (168)
T d1u8za_          75 SGEGFLCVFSITEMESFAATADFREQI-LRVKEDENVPFLLVG  116 (168)
T ss_dssp             HCSEEEEEEETTCHHHHHHHHHHHHHH-HHHHCCTTSCEEEEE
T ss_pred             ccceeEEEeeccchhhhhhHHHHHHHH-HHhhCCCCCcEEEEe
Confidence                     999999999999999887 333334445554443

>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=99.81  E-value=6.8e-20  Score=118.59  Aligned_cols=82  Identities=26%  Similarity=0.313  Sum_probs=68.1

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      ++||+++|++|||||||++| +.+.|.+++.        ||++.++. .+..++  +.+++||++|++.+......    
T Consensus         2 eiKi~lvG~~~vGKTsli~r~~~~~f~~~~~--------pTi~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~   73 (168)
T d2atva1           2 EVKLAIFGRAGVGKSALVVRFLTKRFIWEYD--------PTLESTYRHQATIDDEVVSMEILDTAGQEDTIQREGHMRWG   73 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHSCCCSCCC--------TTCCEEEEEEEEETTEEEEEEEEECCCCCCCHHHHHHHHHC
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCCccC--------CceeccccccccccccceEEEEeecccccccccchhhhccc
Confidence            68999999999999999999 7888888887        99998876 344444  88999999999877532221    


Q ss_pred             -------cccCccCHHHHHHHHhhh
Q psy9521          89 -------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 -------Di~~~~s~~~i~~~l~~~  106 (125)
                             |++++.||+++..|+...
T Consensus        74 ~~~ilv~d~~~~~s~~~~~~~~~~~   98 (168)
T d2atva1          74 EGFVLVYDITDRGSFEEVLPLKNIL   98 (168)
T ss_dssp             SEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             ccceeecccCCccchhhhhhhcccc
Confidence                   999999999999877654

>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=99.81  E-value=1.3e-19  Score=117.94  Aligned_cols=95  Identities=22%  Similarity=0.283  Sum_probs=73.8

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +.||+++|++|||||||+++ +.+.|.+++.        ||++..+. ....++  +.+++||++|++.++.+++.    
T Consensus         2 r~KivvvG~~~vGKTsLi~~~~~~~f~~~~~--------~t~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~   73 (177)
T d1kmqa_           2 RKKLVIVGDGACGKTCLLIVNSKDQFPEVYV--------PTVFENYVADIEVDGKQVELALWDTAGLEDYDRLRPLSYPD   73 (177)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCC--------CCSEEEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTT
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCCCCCCcC--------CceeeeccccccccccceeeeccccCccchhcccchhhccc
Confidence            57999999999999999999 7888888877        89886654 344443  78999999999999998876    


Q ss_pred             --------cccCccCHHHHHHHH-hhhcccccCCCCeEEEEee
Q psy9521          89 --------DIRDCMGVREVKPIF-NKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l-~~~~~~~~~~~~~~i~~~s  122 (125)
                              |++++.||+++..|+ ..+  .. ...++|++.+.
T Consensus        74 ~~~~ilv~d~~~~~Sf~~~~~~~~~~~--~~-~~~~~piilvg  113 (177)
T d1kmqa_          74 TDVILMCFSIDSPDSLENIPEKWTPEV--KH-FCPNVPIILVG  113 (177)
T ss_dssp             CSEEEEEEETTCHHHHHHHHHTHHHHH--HH-HSTTSCEEEEE
T ss_pred             chhhhhhcccchhHHHHHHHHHHHHHH--HH-hCCCCceEEee
Confidence                    999999999998754 444  22 22345555543

>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=99.81  E-value=1.1e-19  Score=117.34  Aligned_cols=97  Identities=20%  Similarity=0.344  Sum_probs=76.2

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc---
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      +++||+++|++|||||||++| +.+.|.+++.        ||++..+. .+..++  +.+.+||++|++.+..++..   
T Consensus         2 k~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~--------~t~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~   73 (167)
T d1kaoa_           2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYD--------PTIEDFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIK   73 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCCC--------TTCCEEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHH
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCCccC--------CceeeeeeeeeecCcceEeeccccCCCccccccchHHHhh
Confidence            579999999999999999999 7888888877        88886654 344454  78999999999998877665   


Q ss_pred             ---------cccCccCHHHHHHHHhhhcccccCCCCeEEEEe
Q psy9521          89 ---------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPV  121 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~  121 (125)
                               |++++.||+++..|+..+ .......++|++.+
T Consensus        74 ~a~~~ilv~d~~~~~s~~~~~~~~~~~-~~~~~~~~~piilv  114 (167)
T d1kaoa_          74 NGQGFILVYSLVNQQSFQDIKPMRDQI-IRVKRYEKVPVILV  114 (167)
T ss_dssp             HCSEEEEEEETTCHHHHHHHHHHHHHH-HHHTTTSCCCEEEE
T ss_pred             cccceeeeeeecchhhhhhhhchhhhh-hhhccCCCCCEEEE
Confidence                     999999999999998876 22222344455444

>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=99.81  E-value=1e-19  Score=117.92  Aligned_cols=94  Identities=22%  Similarity=0.396  Sum_probs=74.0

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +||+++|++|||||||+++ +.+.|..++.        ++.+.++.  .+..++  +++.+||++|+++++.+++.    
T Consensus         6 ~Ki~lvG~~~vGKTsLi~~l~~~~f~~~~~--------~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~   77 (171)
T d2ew1a1           6 FKIVLIGNAGVGKTCLVRRFTQGLFPPGQG--------ATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRS   77 (171)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSSCCTTCC--------CCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTT
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCccc--------ccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhc
Confidence            6799999999999999999 7788887776        77776654  455554  78999999999999888876    


Q ss_pred             --------cccCccCHHHHHHHHhhhcccccCCCCeEEEEe
Q psy9521          89 --------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPV  121 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~  121 (125)
                              |+.++.+|+++..|+..+  ........+++.+
T Consensus        78 ~~~~i~v~d~~~~~s~~~~~~~~~~i--~~~~~~~~~~ilv  116 (171)
T d2ew1a1          78 ANALILTYDITCEESFRCLPEWLREI--EQYASNKVITVLV  116 (171)
T ss_dssp             CSEEEEEEETTCHHHHHTHHHHHHHH--HHHSCTTCEEEEE
T ss_pred             cceEEEeeecccchhhhhhhhhhhhh--cccccccccEEEE
Confidence                    999999999999988876  2223344454444

>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=8.8e-20  Score=118.04  Aligned_cols=97  Identities=15%  Similarity=0.105  Sum_probs=61.4

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc------
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK------   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~------   88 (125)
                      +||+++|++|||||||++++.+.....+.        ||.+..+. .+..++  +.+.+||++|+++++.++..      
T Consensus         2 fKi~lvG~~~vGKTsLi~~~~~~~~~~~~--------~~~~~~~~~~i~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~~d   73 (168)
T d2gjsa1           2 YKVLLLGAPGVGKSALARIFGGVEDGPEA--------EAAGHTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGD   73 (168)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC-----------------CEEEEEEEEETTEEEEEEEEECC-------CHHHHHTSCS
T ss_pred             eEEEEECCCCcCHHHHHHHHhCCccCCcC--------Ceeeeeecceeeccccccceeeeecccccccceecccchhhhh
Confidence            68999999999999999995544333333        66666654 555555  88999999999999988776      


Q ss_pred             ------cccCccCHHHHHHHHhhhcccccCCCCeEEEEeec
Q psy9521          89 ------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSA  123 (125)
Q Consensus        89 ------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~sA  123 (125)
                            |++++.||+++..|+.++ ........+|++.+..
T Consensus        74 ~~ilv~d~t~~~s~~~~~~~~~~i-~~~~~~~~~piilvgn  113 (168)
T d2gjsa1          74 AYVIVYSVTDKGSFEKASELRVQL-RRARQTDDVPIILVGN  113 (168)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHHH-HHHCC--CCCEEEEEE
T ss_pred             hhceeccccccccccccccccchh-hcccccccceEEEeec
Confidence                  999999999999999987 2223334455555543

>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=99.80  E-value=9.1e-20  Score=117.56  Aligned_cols=81  Identities=30%  Similarity=0.561  Sum_probs=63.7

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +||+++|++|||||||+++ +.++|..++.        ||.+.++.  .+..++  +.+.+||++|+++++.+++.    
T Consensus         3 ~Ki~vvG~~~vGKTSli~~l~~~~~~~~~~--------~t~~~~~~~~~i~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~   74 (166)
T d1g16a_           3 MKILLIGDSGVGKSCLLVRFVEDKFNPSFI--------TTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRG   74 (166)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCCCCC---------------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTT
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCccC--------CccceeEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhc
Confidence            6899999999999999999 7788888777        88887765  444444  78889999999999998877    


Q ss_pred             --------cccCccCHHHHHHHHhhh
Q psy9521          89 --------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~  106 (125)
                              |..++.||+++..|+...
T Consensus        75 ~~~~i~v~d~~~~~s~~~~~~~~~~~  100 (166)
T d1g16a_          75 AMGIILVYDITDERTFTNIKQWFKTV  100 (166)
T ss_dssp             EEEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             CCEEEEEEECCCccCHHHHHhhhhhh
Confidence                    999999999999887766

>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=99.80  E-value=1.1e-19  Score=117.02  Aligned_cols=82  Identities=29%  Similarity=0.512  Sum_probs=70.9

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc---
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      .+||+++|++|||||||++| +.+.|..++.        ||++.++.  ....++  +.+.+||++|++++..++..   
T Consensus         2 ~iKv~liG~~~vGKSsLi~rl~~~~~~~~~~--------~ti~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~   73 (164)
T d1z2aa1           2 AIKMVVVGNGAVGKSSMIQRYCKGIFTKDYK--------KTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYR   73 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCCSS--------CCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHT
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccc--------cccccccceeeeeecCceeeeeeeccCCccchhhhhhhhhc
Confidence            58999999999999999999 7788888877        99987765  334444  78999999999999887766   


Q ss_pred             ---------cccCccCHHHHHHHHhhh
Q psy9521          89 ---------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~  106 (125)
                               |++++.||+++..|++++
T Consensus        74 ~~~~~i~v~d~~~~~s~~~~~~~~~~i  100 (164)
T d1z2aa1          74 GAQACVLVFSTTDRESFEAISSWREKV  100 (164)
T ss_dssp             TCCEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             cCceEEEEEeccchhhhhhcccccccc
Confidence                     999999999999999987

>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=99.80  E-value=7.6e-20  Score=118.36  Aligned_cols=82  Identities=22%  Similarity=0.376  Sum_probs=70.7

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      ++||+++|++|||||||++| +.+.|.+++.        ||++..+. ....++  +.+.+||++|++++...+..    
T Consensus         2 ~~Ki~viG~~~vGKTsLi~r~~~~~f~~~~~--------~T~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~   73 (171)
T d2erxa1           2 DYRVAVFGAGGVGKSSLVLRFVKGTFRESYI--------PTVEDTYRQVISCDKSICTLQITDTTGSHQFPAMQRLSISK   73 (171)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTCCCCSSCC--------CCSCEEEEEEEEETTEEEEEEEEECCSCSSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCCccC--------cceeeccccceeeccccceeccccccccccccccccccccc
Confidence            68999999999999999999 7788888877        99987765 344454  78899999999998887766    


Q ss_pred             --------cccCccCHHHHHHHHhhh
Q psy9521          89 --------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~  106 (125)
                              |++++.||+++..|+.++
T Consensus        74 a~~~ilv~d~~~~~s~~~~~~~~~~~   99 (171)
T d2erxa1          74 GHAFILVYSITSRQSLEELKPIYEQI   99 (171)
T ss_dssp             CSEEEEEEETTCHHHHHTTHHHHHHH
T ss_pred             eeEEEEEeecccccchhcccchhhhh
Confidence                    999999999999998776

>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=99.79  E-value=2.6e-19  Score=115.81  Aligned_cols=82  Identities=22%  Similarity=0.388  Sum_probs=71.3

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc---
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      .+||+++|++|||||||+++ +.++|.+++.        ||.+.++.  .+...+  +.+.+||++|++++..++..   
T Consensus         3 ~iKi~vvG~~~vGKTsLi~~~~~~~f~~~~~--------~t~~~~~~~~~i~~~~~~~~l~i~d~~g~~~~~~~~~~~~~   74 (170)
T d1ek0a_           3 SIKLVLLGEAAVGKSSIVLRFVSNDFAENKE--------PTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPMYYR   74 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCC--------CCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHT
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCcccc--------ccccceeeccccccccccccccccccCCchhHHHHHHHHHh
Confidence            58999999999999999999 7888888887        99988765  455544  88999999999999887775   


Q ss_pred             ---------cccCccCHHHHHHHHhhh
Q psy9521          89 ---------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~  106 (125)
                               |++++.||+++..|+.+.
T Consensus        75 ~~~~~ilv~d~~~~~s~~~~~~~~~~~  101 (170)
T d1ek0a_          75 NAQAALVVYDVTKPQSFIKARHWVKEL  101 (170)
T ss_dssp             TCSEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             ccceEEEEEeCCcccchhhhhhhhhhh
Confidence                     999999999999988765

>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=99.79  E-value=3.6e-19  Score=114.85  Aligned_cols=83  Identities=20%  Similarity=0.316  Sum_probs=71.4

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEE--EEeCC--EEEEEEECCCcccccccccc--
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQ--IDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~--~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      +++||+++|++|||||||++| +.++|.+++.        ||.+..+..  ...++  ..+.+||++|++++..++..  
T Consensus         3 k~~Ki~lvG~~~vGKTsli~rl~~~~f~~~~~--------~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~   74 (167)
T d1z0ja1           3 RELKVCLLGDTGVGKSSIMWRFVEDSFDPNIN--------PTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYY   74 (167)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSCCCTTCC--------CCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHH
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCcccc--------cccccccccccccccccccceeeeecCCchhhhHHHHHHH
Confidence            589999999999999999999 7889988887        888877753  33333  67889999999999888777  


Q ss_pred             ----------cccCccCHHHHHHHHhhh
Q psy9521          89 ----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~  106 (125)
                                |++++.||++++.|+.++
T Consensus        75 ~~~~~~i~v~d~~~~~s~~~~~~~~~~~  102 (167)
T d1z0ja1          75 RGSAAAIIVYDITKEETFSTLKNWVREL  102 (167)
T ss_dssp             TTCSEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             hhccceEEEeeechhhhhhhHHHhhhhh
Confidence                      999999999999998776

>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=99.79  E-value=3.2e-19  Score=115.66  Aligned_cols=84  Identities=33%  Similarity=0.576  Sum_probs=70.5

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHH-hhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc----
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESA-KTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i-~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      .++++||+++|++|||||||++++ .++|... .        |+.+++...+..+++.+.+||++|++.++..|..    
T Consensus        13 ~~~~~kI~vvG~~~vGKSsLi~~l~~~~~~~~-~--------~~~~~~~~~i~~~~~~~~i~d~~g~~~~~~~~~~~~~~   83 (176)
T d1fzqa_          13 PDQEVRILLLGLDNAGKTTLLKQLASEDISHI-T--------PTQGFNIKSVQSQGFKLNVWDIGGQRKIRPYWRSYFEN   83 (176)
T ss_dssp             CSSCEEEEEEESTTSSHHHHHHHHCCSCCEEE-E--------EETTEEEEEEEETTEEEEEEECSSCGGGHHHHHHHHTT
T ss_pred             CCCEEEEEEECCCCCCHHHHHHHHhcCCCCcc-e--------eeeeeeEEEeccCCeeEeEeeccccccchhHHHHHhhc
Confidence            467899999999999999999995 5555433 3        7888888888888999999999999999888776    


Q ss_pred             --------cccCccCHHHHHHHHhhh
Q psy9521          89 --------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~  106 (125)
                              |+++..+|+++..|+..+
T Consensus        84 ~~~ii~v~d~~d~~s~~~~~~~~~~~  109 (176)
T d1fzqa_          84 TDILIYVIDSADRKRFEETGQELTEL  109 (176)
T ss_dssp             CSEEEEEEETTCGGGHHHHHHHHHHH
T ss_pred             cceeEEeeccccccchhhhhhhhhhh
Confidence                    888888898888766554

>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=99.79  E-value=2e-19  Score=116.48  Aligned_cols=84  Identities=19%  Similarity=0.350  Sum_probs=68.3

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      .+++||+++|++|||||||++| +.+.|.+++.        ||.+..+. .+..++  +.+.+||++|++++...++.  
T Consensus         3 ~~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~--------~t~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~   74 (171)
T d2erya1           3 QEKYRLVVVGGGGVGKSALTIQFIQSYFVTDYD--------PTIEDSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYM   74 (171)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHHSCCCSSCC--------TTCCEEEEEEEEETTEEEEEEEEECC----CCHHHHHHH
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhCCCCcccC--------cccccceeeeeeecccccccccccccccccccccccccc
Confidence            4679999999999999999999 7888888887        88876654 455555  78999999999998887665  


Q ss_pred             ----------cccCccCHHHHHHHHhhh
Q psy9521          89 ----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~  106 (125)
                                |.+++.||+++..|+.++
T Consensus        75 ~~~~~~ilv~d~~~~~s~~~~~~~~~~~  102 (171)
T d2erya1          75 RTGEGFLLVFSVTDRGSFEEIYKFQRQI  102 (171)
T ss_dssp             HHCSEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             cccceEEEeeccccccchhhHHHHhHHH
Confidence                      999999999999999876

>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=99.79  E-value=1.9e-19  Score=118.14  Aligned_cols=96  Identities=19%  Similarity=0.224  Sum_probs=74.4

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      +..+||+++|++|||||||++| +.+.|.+++.        ||++..+. .+...+  +.+.+||++|++++..++..  
T Consensus         7 ~~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~--------~Ti~~~~~~~~~~~~~~~~l~i~D~~g~e~~~~~~~~~~   78 (185)
T d2atxa1           7 ALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYV--------PTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSY   78 (185)
T ss_dssp             EEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCC--------CSSCCCEEEEEESSSCEEEEEEECCCCSSSSTTTGGGGC
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHhhCCCCCcCC--------CceeeeeeEEEeeCCceEEeecccccccchhhhhhhhcc
Confidence            4678999999999999999999 7888888887        88875554 334443  88999999999999888776  


Q ss_pred             ----------cccCccCHHHHHH-HHhhhcccccCCCCeEEEEe
Q psy9521          89 ----------DIRDCMGVREVKP-IFNKNSAHLIGRRDCMVMPV  121 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~-~l~~~~~~~~~~~~~~i~~~  121 (125)
                                |++++.||+++.. |+..+  +.. ..+++++.+
T Consensus        79 ~~a~~~ilv~d~t~~~Sf~~~~~~~~~~~--~~~-~~~~~~ilv  119 (185)
T d2atxa1          79 PMTDVFLICFSVVNPASFQNVKEEWVPEL--KEY-APNVPFLLI  119 (185)
T ss_dssp             TTCSEEEEEEETTCHHHHHHHHHTHHHHH--HHH-STTCCEEEE
T ss_pred             cccceeeeccccchHHHHHHHHHHHHHHH--Hhc-CCCCCeeEe
Confidence                      9999999999875 55544  222 334454444

>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=99.79  E-value=2.5e-19  Score=117.10  Aligned_cols=96  Identities=24%  Similarity=0.315  Sum_probs=74.7

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      ++||+++|++|||||||++| +.+.|++++.        ||++..+. .+..++  +.+++||++|++.+..+++.    
T Consensus         2 ~~KivliG~~~vGKTsli~r~~~~~f~~~~~--------~t~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~   73 (179)
T d1m7ba_           2 KCKIVVVGDSQCGKTALLHVFAKDCFPENYV--------PTVFENYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPD   73 (179)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCC--------CCSEEEEEEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTT
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCccC--------CceeecccccccccceEEeeccccccccccccccccchhhh
Confidence            68999999999999999999 8889988887        88876554 444443  88999999999999888776    


Q ss_pred             --------cccCccCHHHHHHHHhhhcccccCCCCeEEEEee
Q psy9521          89 --------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                              |++++.||+++..|+... . .....+.+++.+.
T Consensus        74 ~~~~ilv~d~~~~~Sf~~~~~~~~~~-~-~~~~~~~~iilVg  113 (179)
T d1m7ba_          74 SDAVLICFDISRPETLDSVLKKWKGE-I-QEFCPNTKMLLVG  113 (179)
T ss_dssp             CSEEEEEEETTCHHHHHHHHHTHHHH-H-HHHCTTCEEEEEE
T ss_pred             hhhhheeeecccCCCHHHHHHHHHHH-H-hccCCcceEEEEE
Confidence                    999999999998755443 1 2222355555553

>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=2e-19  Score=116.04  Aligned_cols=99  Identities=18%  Similarity=0.323  Sum_probs=78.6

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc---
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      +++||+++|++|||||||++| +.+.|++++.        ||++..+. .+...+  +.+.+||++|++.+...++.   
T Consensus         2 ~e~Ki~viG~~~vGKTsli~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~l~~~d~~~~~~~~~~~~~~~~   73 (166)
T d1ctqa_           2 TEYKLVVVGAGGVGKSALTIQLIQNHFVDEYD--------PTIEDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMR   73 (166)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHCCCCCSCC--------CCSEEEEEEEEEETTEEEEEEEEEECCCGGGHHHHHHHHH
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHhCCCCCccC--------CccceeeccceeeeceeeeeeeeeccCccccccchhhhhh
Confidence            478999999999999999999 7788888877        89887765 333333  88999999999998877665   


Q ss_pred             ---------cccCccCHHHHHHHHhhhcccccCCCCeEEEEeec
Q psy9521          89 ---------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSA  123 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~sA  123 (125)
                               |.+++.||+++..|+..+ .+.....++|++.+..
T Consensus        74 ~~~~~iiv~d~~~~~s~~~~~~~~~~i-~~~~~~~~~piilv~n  116 (166)
T d1ctqa_          74 TGEGFLCVFAINNTKSFEDIHQYREQI-KRVKDSDDVPMVLVGN  116 (166)
T ss_dssp             HCSEEEEEEETTCHHHHHTHHHHHHHH-HHHHTCSSCCEEEEEE
T ss_pred             cccccceeecccccccHHHHHHHHHHH-HHhcCCCCCeEEEEec
Confidence                     999999999999999987 2223334556655543

>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=99.79  E-value=1.8e-19  Score=116.28  Aligned_cols=82  Identities=30%  Similarity=0.444  Sum_probs=64.6

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc---
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      .+||+++|++|||||||++| +.++|.+++.        ||.+.++.  .+..++  +.+.+||++|+++++.+++.   
T Consensus         3 ~fKivlvG~~~vGKTsLi~r~~~~~f~~~~~--------~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~   74 (167)
T d1z08a1           3 SFKVVLLGEGCVGKTSLVLRYCENKFNDKHI--------TTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYR   74 (167)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHCCCCSSCC--------CCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSST
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccc--------cccccchheeeeccCCccceeeeeccCCcceecccchhhcc
Confidence            36899999999999999999 7889988887        88887765  334443  88999999999999888776   


Q ss_pred             ---------cccCccCHHHHHHHHhhh
Q psy9521          89 ---------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~  106 (125)
                               |++++.||+++..|++.+
T Consensus        75 ~~~~~i~v~d~~~~~Sf~~~~~~~~~~  101 (167)
T d1z08a1          75 DSNGAILVYDITDEDSFQKVKNWVKEL  101 (167)
T ss_dssp             TCSEEEEEEETTCHHHHHHHHHHHHHH
T ss_pred             CCceeEEEEeCCchhHHHhhhhhhhhc
Confidence                     999999999999998876

>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=99.79  E-value=4.5e-19  Score=115.44  Aligned_cols=99  Identities=22%  Similarity=0.397  Sum_probs=77.2

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc--
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      ..+||+++|++|||||||+++ +.++|..++.        ++.+..+.  .+..++  +.+.+||++|+++++.++..  
T Consensus         6 ~~iKi~vvG~~~vGKTsli~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~   77 (177)
T d1x3sa1           6 TTLKILIIGESGVGKSSLLLRFTDDTFDPELA--------ATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYY   77 (177)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCC--------CCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHH
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCCccc--------cceeecceeEEEEEeccccEEEEEECCCchhhHHHHHHHH
Confidence            468999999999999999999 7788887776        66666543  445544  78999999999999988876  


Q ss_pred             ----------cccCccCHHHHHHHHhhhcccccCCCCeEEEEeec
Q psy9521          89 ----------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSA  123 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~sA  123 (125)
                                |++++.+|+.+..|+.++ .+.......+++.+..
T Consensus        78 ~~~~~ii~v~d~~~~~s~~~~~~~~~~i-~~~~~~~~~~i~~~~n  121 (177)
T d1x3sa1          78 RGAQGVILVYDVTRRDTFVKLDNWLNEL-ETYCTRNDIVNMLVGN  121 (177)
T ss_dssp             TTCCEEEEEEETTCHHHHHTHHHHHHHH-TTCCSCSCCEEEEEEE
T ss_pred             hcCCEEEEEEECCCccccccchhhhhhh-cccccccceeeEEEee
Confidence                      999999999999999887 3333344455554443

>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=99.79  E-value=2.2e-19  Score=115.39  Aligned_cols=81  Identities=25%  Similarity=0.518  Sum_probs=69.9

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +||+++|++|||||||++| +.++|..++.        |+++.+..  ....++  +.+.+||++|+++++..+..    
T Consensus         1 fKv~vvG~~~vGKTsLi~r~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~   72 (164)
T d1yzqa1           1 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQ--------ATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSYIRD   72 (164)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHSCCCSSCC--------CCCSEEEEEEEEECSSCEEEEEEEEECCSGGGGGGHHHHHTT
T ss_pred             CEEEEECCCCcCHHHHHHHHHhCCCCCccc--------cceeeeccceeeccCCCceeeeecccCCcchhccchHHHhhc
Confidence            5899999999999999999 7788888887        88887765  333333  88999999999999888776    


Q ss_pred             --------cccCccCHHHHHHHHhhh
Q psy9521          89 --------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~  106 (125)
                              |++++.||+++..|+.++
T Consensus        73 ~~~~ilv~d~~~~~s~~~i~~~~~~~   98 (164)
T d1yzqa1          73 SAAAVVVYDITNVNSFQQTTKWIDDV   98 (164)
T ss_dssp             CSEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             cceEEEeeccccccchhhhHhhHHHH
Confidence                    999999999999999887

>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=99.79  E-value=3.2e-19  Score=116.71  Aligned_cols=97  Identities=21%  Similarity=0.296  Sum_probs=76.6

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc---
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      +.+||+++|++|||||||+++ +.+.|..++.        ||++..+. .+..++  +.+.+||++|++.+..++..   
T Consensus         4 ~~iKivviG~~~vGKTsli~~~~~~~f~~~~~--------~ti~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~   75 (183)
T d1mh1a_           4 QAIKCVVVGDGAVGKTCLLISYTTNAFPGEYI--------PTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYP   75 (183)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSSCCSSCC--------CCSCCEEEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCT
T ss_pred             eeEEEEEECCCCCCHHHHHHHHHhCCCCcccc--------cceeeceeeeeeccCcceEEEeecccccccchhhhhhccc
Confidence            679999999999999999999 7888888887        89886654 444554  78999999999999888776   


Q ss_pred             ---------cccCccCHHHHHH-HHhhhcccccCCCCeEEEEeec
Q psy9521          89 ---------DIRDCMGVREVKP-IFNKNSAHLIGRRDCMVMPVSA  123 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~-~l~~~~~~~~~~~~~~i~~~sA  123 (125)
                               |++++.||+++.. |+..+   .....+++++.+..
T Consensus        76 ~~~~~ilv~d~~~~~sf~~i~~~~~~~~---~~~~~~~piilvgn  117 (183)
T d1mh1a_          76 QTDVSLICFSLVSPASFENVRAKWYPEV---RHHCPNTPIILVGT  117 (183)
T ss_dssp             TCSEEEEEEETTCHHHHHHHHHTHHHHH---HHHSTTSCEEEEEE
T ss_pred             ccceeeeeeccchHHHHHHHHHHHHHHH---HHhCCCCcEEEEee
Confidence                     9999999999986 55555   22234455555543

>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=99.79  E-value=1.1e-18  Score=112.99  Aligned_cols=109  Identities=35%  Similarity=0.624  Sum_probs=80.1

Q ss_pred             hHHHHHhhhccCceEEEEEEeCCCCcHHHHHHHH-hhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccc
Q psy9521           4 LVSGFYKYMLRKDEFCVLILGLDNAGKTTYLESA-KTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLEL   82 (125)
Q Consensus         4 ~~~~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i-~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~   82 (125)
                      |++.++ .+|.++++||+++|.+|||||||++|+ .+++... .        ++.+.....+...+..+.+||.+|++..
T Consensus         3 ~~~~~~-~~~~~k~~kI~vvG~~~~GKSsLi~rl~~~~~~~~-~--------~~~~~~~~~~~~~~~~~~~~d~~~~~~~   72 (177)
T d1zj6a1           3 LFTRIW-RLFNHQEHKVIIVGLDNAGKTTILYQFSMNEVVHT-S--------PTIGSNVEEIVINNTRFLMWDIGGQESL   72 (177)
T ss_dssp             HHHHHH-HHHTTSCEEEEEEESTTSSHHHHHHHHHTTSCEEE-E--------CCSCSSCEEEEETTEEEEEEECCC----
T ss_pred             hHHHHH-HHhCCCeEEEEEECCCCCCHHHHHHHHhcCCCCcc-c--------cccceeEEEEeecceEEEEecccccccc
Confidence            667778 667778999999999999999999995 4544432 2        6666666677778899999999999888


Q ss_pred             cccccc------------------------------------------------cccCccCHHHHHHHHhhhcccccCCC
Q psy9521          83 QSLWDK------------------------------------------------DIRDCMGVREVKPIFNKNSAHLIGRR  114 (125)
Q Consensus        83 ~~~~~~------------------------------------------------Di~~~~s~~~i~~~l~~~~~~~~~~~  114 (125)
                      +..+..                                                |+..+...+++...+...   ....+
T Consensus        73 ~~~~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~i~~~~~~~---~~~~~  149 (177)
T d1zj6a1          73 RSSWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTVAEISQFLKLT---SIKDH  149 (177)
T ss_dssp             CGGGHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGG---GCCSS
T ss_pred             ccchhhhhccceeeeeecccccccchhhhhhhhhhhhhcccccceEEEEEEEcccccccCcHHHHHHHHHHH---hhHhc
Confidence            887776                                                666666666666666544   55667


Q ss_pred             CeEEEEeeccC
Q psy9521         115 DCMVMPVSALT  125 (125)
Q Consensus       115 ~~~i~~~sA~~  125 (125)
                      +++++.|||++
T Consensus       150 ~~~~~~~Sa~t  160 (177)
T d1zj6a1         150 QWHIQACCALT  160 (177)
T ss_dssp             CEEEEECBTTT
T ss_pred             CCEEEEEeCCC
Confidence            88899999875

>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=99.79  E-value=4.8e-19  Score=116.97  Aligned_cols=94  Identities=22%  Similarity=0.473  Sum_probs=74.9

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +||+|+|++|||||||+++ +.+.|..++.        ||.+..+.  .+...+  +.+++||++|+++++.+|+.    
T Consensus         7 ~KivvvG~~~vGKTsli~~l~~~~~~~~~~--------~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~   78 (194)
T d2bcgy1           7 FKLLLIGNSGVGKSCLLLRFSDDTYTNDYI--------STIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRG   78 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCCCCTTCC--------CSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTT
T ss_pred             EEEEEECCCCcCHHHHHHHHhhCCCCCCcC--------CccceeEEEEEEEEeeEEEEEEEEECCCchhhHHHHHHHhcc
Confidence            6799999999999999999 7778888777        88877664  455544  78999999999999998887    


Q ss_pred             --------cccCccCHHHHHHHHhhhcccccCCCCeEEEEe
Q psy9521          89 --------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPV  121 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~  121 (125)
                              |.+++.+|+++..|+..+  ........+++.+
T Consensus        79 a~~~i~v~d~t~~~s~~~~~~~~~~~--~~~~~~~~~iilv  117 (194)
T d2bcgy1          79 SHGIIIVYDVTDQESFNGVKMWLQEI--DRYATSTVLKLLV  117 (194)
T ss_dssp             CSEEEEEEETTCHHHHHHHHHHHHHH--HHHSCTTCEEEEE
T ss_pred             CCEEEEEEeCcchhhhhhHhhhhhhh--hhcccCCceEEEE
Confidence                    999999999999887776  2223344455444

>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=99.79  E-value=3.8e-19  Score=115.05  Aligned_cols=82  Identities=29%  Similarity=0.490  Sum_probs=68.3

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc---
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      .+||+++|++|||||||+++ +.++|..++.        |+.+.++.  .+...+  +.+++||++|++++..+++.   
T Consensus         5 ~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~l~~wDt~G~e~~~~~~~~~~~   76 (169)
T d3raba_           5 MFKILIIGNSSVGKTSFLFRYADDSFTPAFV--------STVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRTITTAYYR   76 (169)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCSSCC--------CCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTTT
T ss_pred             EEEEEEECCCCcCHHHHHHHHHcCCCCcccc--------cccccceeeEEEEeecceEEEEEEECCCchhhHHHHHHHHh
Confidence            36799999999999999999 6788887776        88876654  344443  78999999999999887776   


Q ss_pred             ---------cccCccCHHHHHHHHhhh
Q psy9521          89 ---------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~  106 (125)
                               |..++.+++++..|+..+
T Consensus        77 ~ad~~ilv~d~~~~~s~~~~~~~~~~~  103 (169)
T d3raba_          77 GAMGFILMYDITNEESFNAVQDWSTQI  103 (169)
T ss_dssp             TCCEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             cCCEEEEEEECccchhhhhhhhhhhhh
Confidence                     999999999999888765

>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=99.78  E-value=1.3e-19  Score=117.75  Aligned_cols=95  Identities=21%  Similarity=0.430  Sum_probs=54.0

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +||+++|+++||||||+++ +.++|..++.        ||++.++.  .+..++  +.+.+||++|++.+..+++.    
T Consensus         7 ~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~l~i~D~~G~e~~~~~~~~~~~~   78 (173)
T d2fu5c1           7 FKLLLIGDSGVGKTCVLFRFSEDAFNSTFI--------STIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRG   78 (173)
T ss_dssp             EEEEEECCCCC----------------CHH--------HHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTT
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCccC--------ccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHhccC
Confidence            5799999999999999999 7778877776        88887764  555555  78899999999999988887    


Q ss_pred             --------cccCccCHHHHHHHHhhhcccccCCCCeEEEEee
Q psy9521          89 --------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                              |.+++.||+.+..|+..+  ......+.+++.+-
T Consensus        79 ~~~~i~v~d~~~~~s~~~~~~~~~~~--~~~~~~~~~iilv~  118 (173)
T d2fu5c1          79 AMGIMLVYDITNEKSFDNIRNWIRNI--EEHASADVEKMILG  118 (173)
T ss_dssp             CSEEEEEEETTCHHHHHHHHHHHHHH--HHHSCTTCEEEEEE
T ss_pred             CCEEEEEEECCChhhHHHHHHHHHHh--hhhccCCceEEEEE
Confidence                    999999999999998887  22333444555443

>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=99.78  E-value=5.1e-19  Score=114.04  Aligned_cols=81  Identities=23%  Similarity=0.477  Sum_probs=68.3

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +||+++|++|||||||++| +.++|..++.        |+.+.++.  .+..++  +.+.+||++|+++++.++..    
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~   76 (166)
T d1z0fa1           5 FKYIIIGDMGVGKSCLLHQFTEKKFMADCP--------HTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRG   76 (166)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCSSCT--------TSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHT
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCccc--------ccccccceeEEEEECCEEEEEEEeccCCchhHHHHHHHHhcC
Confidence            5799999999999999999 7788888876        66666554  444454  78999999999999887766    


Q ss_pred             --------cccCccCHHHHHHHHhhh
Q psy9521          89 --------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~  106 (125)
                              |+++..||+.+..|+..+
T Consensus        77 ~d~~ilv~d~~~~~s~~~~~~~~~~~  102 (166)
T d1z0fa1          77 AAGALMVYDITRRSTYNHLSSWLTDA  102 (166)
T ss_dssp             CSEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             CcEEEEEeccCchHHHHHHHHHHHHH
Confidence                    999999999999988876

>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=99.78  E-value=7.4e-19  Score=114.22  Aligned_cols=97  Identities=21%  Similarity=0.420  Sum_probs=74.9

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +||+++|++|||||||+++ +.+.+..++.        ++.+....  .+..++  +.+.+||++|+++|...+..    
T Consensus         5 ~Ki~vvG~~~vGKTsLi~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~i~d~~g~e~~~~~~~~~~~~   76 (175)
T d2f9la1           5 FKVVLIGDSGVGKSNLLSRFTRNEFNLESK--------STIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRG   76 (175)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSCCCC-----------CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTT
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCccc--------ccccceeeeEEEEECCEEEEEEecccCCcHHHHHHHHHHhhc
Confidence            5799999999999999999 7788877776        66655543  455555  78999999999999888766    


Q ss_pred             --------cccCccCHHHHHHHHhhhcccccCCCCeEEEEeecc
Q psy9521          89 --------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSAL  124 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~sA~  124 (125)
                              |.+++.||+.+..|+..+  .....+.+|++.+..+
T Consensus        77 ~~~~i~v~d~~~~~S~~~~~~~~~~i--~~~~~~~~piilvgnK  118 (175)
T d2f9la1          77 AVGALLVYDIAKHLTYENVERWLKEL--RDHADSNIVIMLVGNK  118 (175)
T ss_dssp             CSEEEEEEETTCHHHHHTHHHHHHHH--HHHSCTTCEEEEEEEC
T ss_pred             cCeEEEEEECCCcccchhHHHHHHHH--HHhcCCCCcEEEEEee
Confidence                    999999999999999887  2334456677766543

>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=99.78  E-value=7.1e-19  Score=113.75  Aligned_cols=97  Identities=20%  Similarity=0.308  Sum_probs=77.2

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEE--EEeCC--EEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQ--IDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~--~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      ..++||+++|++|||||||+++ +.++|..++.        ||.+..+..  +...+  +.+.+||++|++++..++.. 
T Consensus         4 ~~~~Ki~vvG~~~vGKTsLi~~l~~~~f~~~~~--------~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~   75 (170)
T d1r2qa_           4 ICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQE--------STIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMY   75 (170)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCC--------CCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHH
T ss_pred             eeEEEEEEECCCCcCHHHHHHHHHhCCCCcccc--------cccccccccceeeccceEEEEEeccCCCchhhhhhHHHH
Confidence            3678999999999999999999 7788888887        888888753  33333  88999999999999888876 


Q ss_pred             -----------cccCccCHHHHHHHHhhhcccccCCCCeEEEEe
Q psy9521          89 -----------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPV  121 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~  121 (125)
                                 |+++..+|+++..|+..+  ......+.+++.+
T Consensus        76 ~~~~~~~ilv~d~~~~~s~~~~~~~~~~~--~~~~~~~~~iilv  117 (170)
T d1r2qa_          76 YRGAQAAIVVYDITNEESFARAKNWVKEL--QRQASPNIVIALS  117 (170)
T ss_dssp             HTTCSEEEEEEETTCHHHHHHHHHHHHHH--HHHSCTTCEEEEE
T ss_pred             hhCcceEEEEeccchhhHHHHHHHHhhhh--hhccCCCceEEee
Confidence                       999999999999988876  2223344555444

>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=99.78  E-value=9.5e-19  Score=113.16  Aligned_cols=83  Identities=24%  Similarity=0.454  Sum_probs=60.1

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc---
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      .+||+++|+++||||||+++ ++++|..++.       .++++.++.  .+..++  +.+++||++|+++++.++..   
T Consensus         6 ~fKi~vvG~~~vGKTsli~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~   78 (170)
T d2g6ba1           6 AFKVMLVGDSGVGKTCLLVRFKDGAFLAGTF-------ISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYR   78 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCCCCC-------CCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGG
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCcccc-------cceeeeeeEEEEEEecCcEEEEEEEECCCchhhHHHHHHhhc
Confidence            45699999999999999999 7777765443       166677765  344454  78999999999999888776   


Q ss_pred             ---------cccCccCHHHHHHHHhhh
Q psy9521          89 ---------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ---------Di~~~~s~~~i~~~l~~~  106 (125)
                               |++++.||+.+..|+...
T Consensus        79 ~~d~~i~v~d~~~~~s~~~~~~~~~~~  105 (170)
T d2g6ba1          79 DAHALLLLYDVTNKASFDNIQAWLTEI  105 (170)
T ss_dssp             GCSEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             CCceeEEEecCCcccchhhhhhhhhhh
Confidence                     999999999999887765

>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=99.77  E-value=7.8e-19  Score=113.89  Aligned_cols=94  Identities=22%  Similarity=0.486  Sum_probs=74.2

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEE--EEeCC--EEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQ--IDINT--VRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~--~~~~~--~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +||+++|++|||||||+++ +.++|.+++.        ||.+..+..  +..++  ..+.+||++|++++..++..    
T Consensus         6 ~KI~lvG~~~vGKTsll~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   77 (174)
T d2bmea1           6 FKFLVIGNAGTGKSCLLHQFIEKKFKDDSN--------HTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRG   77 (174)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSSCCTTCC--------CCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTT
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCcccc--------cccccceeeEEEEecCcceeEEEEECCCchhhhhhHHHHhhh
Confidence            6799999999999999999 7788888877        888777653  33333  78999999999999887766    


Q ss_pred             --------cccCccCHHHHHHHHhhhcccccCCCCeEEEEe
Q psy9521          89 --------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPV  121 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~  121 (125)
                              |.+++.+|+++..|+..+  ......+.|++.+
T Consensus        78 ~~~~i~v~d~~~~~s~~~~~~~~~~~--~~~~~~~~piivv  116 (174)
T d2bmea1          78 AAGALLVYDITSRETYNALTNWLTDA--RMLASQNIVIILC  116 (174)
T ss_dssp             CSEEEEEEETTCHHHHHTHHHHHHHH--HHHSCTTCEEEEE
T ss_pred             CCEEEEEEecccchhHHHHhhhhccc--ccccCCceEEEEE
Confidence                    999999999999998886  2223344555443

>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=99.77  E-value=2e-18  Score=113.35  Aligned_cols=81  Identities=20%  Similarity=0.258  Sum_probs=66.9

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc------
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK------   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~------   88 (125)
                      +++||+++|++|||||||++| ..+.|  ++.        ||+|+++..+....+.+++||++|+++++..|..      
T Consensus         1 ke~Kiv~lG~~~vGKTsll~r~~~~~~--~~~--------pTiG~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~   70 (200)
T d2bcjq2           1 RELKLLLLGTGESGKSTFIKQMRIIHG--SGV--------PTTGIIEYPFDLQSVIFRMVDVGGQRSERRKWIHCFENVT   70 (200)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHTS--SCC--------CCCSCEEEEEECSSCEEEEEECCCSTTGGGGGGGGCSSCS
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhCCCC--CCC--------ceeeEEEEEEeccceeeeeccccccccccccccccccccc
Confidence            589999999999999999999 45655  344        9999999888888999999999999999999887      


Q ss_pred             ------cc-----------cCccCHHHHHHHHhhh
Q psy9521          89 ------DI-----------RDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ------Di-----------~~~~s~~~i~~~l~~~  106 (125)
                            |.           .....++.+..|...+
T Consensus        71 ~~i~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l  105 (200)
T d2bcjq2          71 SIMFLVALSEYDQVLVESDNENRMEESKALFRTII  105 (200)
T ss_dssp             EEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHH
T ss_pred             eeeEeeeccchhhhhhhhccccchHHHHHHHHHHH
Confidence                  33           3344566677787776

>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=99.76  E-value=1.5e-18  Score=112.51  Aligned_cols=95  Identities=21%  Similarity=0.432  Sum_probs=71.1

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeC--CEEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDIN--TVRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~--~~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +||+|+|++|||||||++| +.++|..++.        |+......  .....  .+.+.+||++|++.++.+++.    
T Consensus         4 ~KivvvG~~~vGKTsli~r~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~   75 (173)
T d2a5ja1           4 FKYIIIGDTGVGKSCLLLQFTDKRFQPVHD--------LTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRG   75 (173)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSCCCC-------------CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTT
T ss_pred             EEEEEECCCCcCHHHHHHHHhcCCCCCCcc--------cceeeccceeeeeeeeeEEEEEeecccCccchhhHHHHHhhc
Confidence            6799999999999999999 7888887776        55544443  22333  378999999999999998887    


Q ss_pred             --------cccCccCHHHHHHHHhhhcccccCCCCeEEEEee
Q psy9521          89 --------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                              |++++.||+++..|+..+  ......+++++.+.
T Consensus        76 ~d~~ilv~d~~~~~sf~~~~~~~~~~--~~~~~~~~piilv~  115 (173)
T d2a5ja1          76 AAGALLVYDITRRETFNHLTSWLEDA--RQHSSSNMVIMLIG  115 (173)
T ss_dssp             CSEEEEEEETTCHHHHHTHHHHHHHH--HHHSCTTCEEEEEE
T ss_pred             cCEEEEEEeecChHHHHhHHHHHHHH--HHhCCCCCeEEEEe
Confidence                    999999999999999877  23344556666554

>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=99.75  E-value=2.6e-18  Score=113.08  Aligned_cols=96  Identities=20%  Similarity=0.307  Sum_probs=66.6

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc-------
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK-------   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~-------   88 (125)
                      +.+||+++|++|||||||++|+  +|..++.        ||+|++...+..++..+.+||++||+.++..|..       
T Consensus         1 r~iKivllG~~~vGKTsll~r~--~f~~~~~--------pTiG~~~~~~~~~~~~~~~~D~~gq~~~~~~~~~~~~~~~~   70 (200)
T d1zcba2           1 RLVKILLLGAGESGKSTFLKQM--RIIHGQD--------PTKGIHEYDFEIKNVPFKMVDVGGQRSERKRWFECFDSVTS   70 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHH--HHHHSCC--------CCSSEEEEEEEETTEEEEEEEECC-------CTTSCTTCCE
T ss_pred             CeEEEEEECCCCCCHHHHHHHH--hcCCCCC--------CeeeeEEEEEeeeeeeeeeecccceeeecccccccccccce
Confidence            3589999999999999999998  4666776        9999999899999999999999999999988887       


Q ss_pred             -----cccCc----------cCHHHHHHHHhhhcccccCCCCeEEEEee
Q psy9521          89 -----DIRDC----------MGVREVKPIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 -----Di~~~----------~s~~~i~~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                           |.++.          ..+++...++..+ .+.....+.|++.+-
T Consensus        71 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i-~~~~~~~~~piilv~  118 (200)
T d1zcba2          71 ILFLVSSSEFDQVLMEDRQTNRLTESLNIFETI-VNNRVFSNVSIILFL  118 (200)
T ss_dssp             EEEEEETTCTTCEETTEEEEEHHHHHHHHHHHH-HTCGGGTTSEEEEEE
T ss_pred             eEEEEEcCCcceeeeecccchhhhHHHHHHHHH-hhChhhcCceEEEEe
Confidence                 43333          3455565555554 233334555666543

>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=99.75  E-value=7.1e-18  Score=110.24  Aligned_cols=68  Identities=22%  Similarity=0.386  Sum_probs=57.7

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc------
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK------   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~------   88 (125)
                      +++||+++|++|||||||++| ..+.+             ||.++....++.....+++||++||++++.+|+.      
T Consensus         1 ~e~KivllG~~~vGKTsl~~r~~~~~~-------------~t~~~~~~~~~~~~~~~~i~D~~Gq~~~~~~~~~~~~~~~   67 (195)
T d1svsa1           1 REVKLLLLGAGESGKSTIVKQMKIIHE-------------AGTGIVETHFTFKDLHFKMFDVGGQRSERKKWIHCFEGVT   67 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHS-------------CCCSEEEEEEEETTEEEEEEEECCSGGGGGGGGGGCTTCS
T ss_pred             CceEEEEECCCCCCHHHHHHHHhhCCC-------------CCccEEEEEEEeeeeeeeeeccccccccccchhhcccCCc
Confidence            589999999999999999999 44443             5666666677888899999999999999999998      


Q ss_pred             ------cccCccCH
Q psy9521          89 ------DIRDCMGV   96 (125)
Q Consensus        89 ------Di~~~~s~   96 (125)
                            |+.+..+|
T Consensus        68 ~~i~v~d~~~~~~~   81 (195)
T d1svsa1          68 AIIFCVALSDYDLV   81 (195)
T ss_dssp             EEEEEEEGGGGGCB
T ss_pred             eeeeEEeecccchH
Confidence                  77777766

>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=99.74  E-value=6.7e-18  Score=110.05  Aligned_cols=82  Identities=11%  Similarity=0.113  Sum_probs=66.7

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE-EEEeCC--EEEEEEECCCcccccccccc---
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG-QIDINT--VRLNFWDLGGQLELQSLWDK---   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~-~~~~~~--~~~~i~D~~G~~~~~~~~~~---   88 (125)
                      +++||+++|++|||||||+++ +.++|.. +.        +|.+..+. .+..++  +.+.+||++|++++..+...   
T Consensus         4 p~~ki~vlG~~~vGKTsLi~~~~~~~f~~-~~--------~t~~~~~~~~i~v~~~~~~l~i~Dt~g~~~~~~~~~ad~~   74 (175)
T d2bmja1           4 PELRLGVLGDARSGKSSLIHRFLTGSYQV-LE--------KTESEQYKKEMLVDGQTHLVLIREEAGAPDAKFSGWADAV   74 (175)
T ss_dssp             CEEEEEEECCTTTTHHHHHHHHHHSCCCC-CC--------CSSCEEEEEEEEETTEEEEEEEEECSSCCCHHHHHHCSEE
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHhCCCCC-cC--------CccceeEEEEeecCceEEEEEEeeccccccccccccccee
Confidence            589999999999999999999 7777654 33        66666664 466666  88999999999987755444   


Q ss_pred             ----cccCccCHHHHHHHHhhh
Q psy9521          89 ----DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----Di~~~~s~~~i~~~l~~~  106 (125)
                          |++++.||+++..|++++
T Consensus        75 ilVfd~~~~~Sf~~~~~~~~~i   96 (175)
T d2bmja1          75 IFVFSLEDENSFQAVSRLHGQL   96 (175)
T ss_dssp             EEEEETTCHHHHHHHHHHHHHH
T ss_pred             EEEeecccchhhhhhHHHHHHH
Confidence                999999999999988876

>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=99.73  E-value=2.5e-18  Score=112.49  Aligned_cols=82  Identities=30%  Similarity=0.484  Sum_probs=67.8

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeC------------CEEEEEEECCCccc
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDIN------------TVRLNFWDLGGQLE   81 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~------------~~~~~i~D~~G~~~   81 (125)
                      .+||+++|++|||||||+++ +.++|..++.        +|.+.++.  .+..+            .+++.+||++|+++
T Consensus         5 ~~Ki~ivG~~~vGKTsLi~~l~~~~~~~~~~--------~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~dt~G~e~   76 (186)
T d2f7sa1           5 LIKLLALGDSGVGKTTFLYRYTDNKFNPKFI--------TTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQER   76 (186)
T ss_dssp             EEEEEEESCTTSSHHHHHHHHHCSCCCCEEE--------EEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHH
T ss_pred             EEEEEEECCCCcCHHHHHHHHhcCCCCCccC--------CcccceeeEEEEEEecccccccccccceEEeccccCCcchh
Confidence            37799999999999999999 6788877776        77776654  22221            27899999999999


Q ss_pred             ccccccc------------cccCccCHHHHHHHHhhh
Q psy9521          82 LQSLWDK------------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        82 ~~~~~~~------------Di~~~~s~~~i~~~l~~~  106 (125)
                      ++.+|..            |++++.+|+.+..|+.++
T Consensus        77 ~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~  113 (186)
T d2f7sa1          77 FRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQL  113 (186)
T ss_dssp             HHHHHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTC
T ss_pred             hHHHHHHHHhcCCEEEEEEeccccccceeeeeccchh
Confidence            9888776            999999999999999876

>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=99.71  E-value=2.6e-17  Score=106.64  Aligned_cols=102  Identities=18%  Similarity=0.331  Sum_probs=73.7

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeCC--EEEEEEECCCcccccccccc-
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLGGQLELQSLWDK-   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~G~~~~~~~~~~-   88 (125)
                      .+-+||+++|++|||||||+++ ++++|.+++.        +|++..+.  .+..++  +.+.+||++|+.++...+.. 
T Consensus         4 ~~~~KI~vvG~~~vGKSSli~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~   75 (174)
T d1wmsa_           4 SSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLF--------HTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPF   75 (174)
T ss_dssp             EEEEEEEEECCTTSSHHHHHHHHHHSCCCC------------CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGG
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHhCCCCCccc--------cceeeeeeeeeeeecCceeeEeeecccCcceehhhhhhh
Confidence            3567999999999999999999 7888888887        88877654  334444  78899999999888776665 


Q ss_pred             -----------cccCccCHHHHHHHHhhhcc--cccCCCCeEEEEeecc
Q psy9521          89 -----------DIRDCMGVREVKPIFNKNSA--HLIGRRDCMVMPVSAL  124 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~~~--~~~~~~~~~i~~~sA~  124 (125)
                                 |.++..||+.+..|++++..  .....+..|++.|..+
T Consensus        76 ~~~~~~~i~~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgnK  124 (174)
T d1wmsa_          76 YRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNK  124 (174)
T ss_dssp             GTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEEC
T ss_pred             hhccceEEEEEeeecccccchhhhHHHHHHHHhccccCCCceEEEeccc
Confidence                       99999999999999987611  1122244566665543

>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=99.71  E-value=5.3e-17  Score=104.96  Aligned_cols=73  Identities=29%  Similarity=0.480  Sum_probs=51.3

Q ss_pred             HHhhh-ccCceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccc
Q psy9521           8 FYKYM-LRKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLW   86 (125)
Q Consensus         8 ~~~~~-~~~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~   86 (125)
                      +.+++ +.++..||+++|++|||||||++++.+....+..        |+.+.+...+..++..+..||+.++..+...+
T Consensus         3 ~~~~~~~~~k~~kI~lvG~~~vGKTsLl~~l~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   74 (186)
T d1f6ba_           3 VLQFLGLYKKTGKLVFLGLDNAGKTTLLHMLKDDRLGQHV--------PTLHPTSEELTIAGMTFTTFDLGGHIQARRVW   74 (186)
T ss_dssp             HHHHHTCTTCCEEEEEEEETTSSHHHHHHHHSCC--------------CCCCCSCEEEEETTEEEEEEEECC----CCGG
T ss_pred             hHHhccccCCCCEEEEECCCCCCHHHHHHHHhCCCCccee--------cccccceeEEEecccccccccccchhhhhhHH
Confidence            44444 4578999999999999999999996544333333        77777777778888999999999998887776


Q ss_pred             cc
Q psy9521          87 DK   88 (125)
Q Consensus        87 ~~   88 (125)
                      ..
T Consensus        75 ~~   76 (186)
T d1f6ba_          75 KN   76 (186)
T ss_dssp             GG
T ss_pred             hh
Confidence            55

>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=99.71  E-value=2.6e-17  Score=107.52  Aligned_cols=81  Identities=27%  Similarity=0.463  Sum_probs=69.2

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEE--EEeC--CEEEEEEECCCcccccccccc----
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQ--IDIN--TVRLNFWDLGGQLELQSLWDK----   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~--~~~~--~~~~~i~D~~G~~~~~~~~~~----   88 (125)
                      +||+++|++|||||||+++ +.++|..++.        ||++.++..  +...  .+.+.+||++|++.+...+..    
T Consensus         3 ~Kv~vvG~~~vGKSSLi~~l~~~~f~~~~~--------~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~   74 (184)
T d1vg8a_           3 LKVIILGDSGVGKTSLMNQYVNKKFSNQYK--------ATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRG   74 (184)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCSSCC--------CCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTT
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCCcC--------CccceeeeeeeeeeCCceEEEEeeecCCcccccccccccccC
Confidence            6899999999999999999 7788888887        999887753  3333  378999999999988877776    


Q ss_pred             --------cccCccCHHHHHHHHhhh
Q psy9521          89 --------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 --------Di~~~~s~~~i~~~l~~~  106 (125)
                              |..+..+|+++..|++++
T Consensus        75 ~~~~i~~~d~~~~~~~~~~~~~~~~i  100 (184)
T d1vg8a_          75 ADCCVLVFDVTAPNTFKTLDSWRDEF  100 (184)
T ss_dssp             CSEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             ccEEEEeecccchhhhhcchhhHHHH
Confidence                    999999999999999766

>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=99.70  E-value=2.1e-17  Score=106.89  Aligned_cols=82  Identities=26%  Similarity=0.473  Sum_probs=56.5

Q ss_pred             eEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEe--C---CEEEEEEECCCcccccccccc--
Q psy9521          17 EFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDI--N---TVRLNFWDLGGQLELQSLWDK--   88 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~--~---~~~~~i~D~~G~~~~~~~~~~--   88 (125)
                      -+||+++|++|||||||+++ +.++|..++.        ||.+........  .   ...+.+||++|++++...+..  
T Consensus         2 ~~Ki~~vG~~~vGKSsLi~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~   73 (175)
T d1ky3a_           2 ILKVIILGDSGVGKTSLMHRYVNDKYSQQYK--------ATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFY   73 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCTTC-----------CCCSCEEEEECCSSSCCEEEEEECCC----------CCS
T ss_pred             eEEEEEECCCCcCHHHHHHHHHcCCCCCccC--------cccccceeeeeeeecCcccccceeeccCCchhhhhHHHHHh
Confidence            37899999999999999999 7788887776        776655442222  2   278999999999998887766  


Q ss_pred             ----------cccCccCHHHHHHHHhhh
Q psy9521          89 ----------DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----------Di~~~~s~~~i~~~l~~~  106 (125)
                                |.+++.||+.+..|++++
T Consensus        74 ~~~~~~ilv~d~~~~~s~~~~~~~~~~i  101 (175)
T d1ky3a_          74 RGADCCVLVYDVTNASSFENIKSWRDEF  101 (175)
T ss_dssp             TTCCEEEEEEETTCHHHHHTHHHHHHHH
T ss_pred             hccceEEEEeecccccccchhhhcchhh
Confidence                      999999999999999876

>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=99.70  E-value=6.9e-17  Score=102.31  Aligned_cols=80  Identities=30%  Similarity=0.590  Sum_probs=60.0

Q ss_pred             EEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc--------
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK--------   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~--------   88 (125)
                      +||+++|++|||||||+++ +.+++...+         ++............+.+.+||++|++.++..+..        
T Consensus         1 ikivlvG~~~vGKSsLi~~l~~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~   71 (160)
T d1r8sa_           1 MRILMVGLDAAGKTTILYKLKLGEIVTTI---------PTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGL   71 (160)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSCCC---------CCSSCCEEEEECSSCEEEEEECCCCGGGHHHHHHHTTTCSEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccc---------cceeeEEEEEeeeeEEEEEecCCCcccchhhhhhhhccceeE
Confidence            5899999999999999999 566665544         2333333455566799999999999888766555        


Q ss_pred             ----cccCccCHHHHHHHHhhh
Q psy9521          89 ----DIRDCMGVREVKPIFNKN  106 (125)
Q Consensus        89 ----Di~~~~s~~~i~~~l~~~  106 (125)
                          |+.+..++.++..|+.+.
T Consensus        72 i~~~d~~~~~~~~~~~~~~~~~   93 (160)
T d1r8sa_          72 IFVVDSNDRERVNEAREELMRM   93 (160)
T ss_dssp             EEEEETTCGGGHHHHHHHHHHH
T ss_pred             EEEEEecChHHHHHHHHHHHHH
Confidence                777778888777666554

>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=99.69  E-value=5.1e-17  Score=104.17  Aligned_cols=98  Identities=18%  Similarity=0.388  Sum_probs=72.7

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeE--EEEeC--CEEEEEEECCCccccccc-ccc-
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIG--QIDIN--TVRLNFWDLGGQLELQSL-WDK-   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~--~~~~~i~D~~G~~~~~~~-~~~-   88 (125)
                      +-+||+++|++|||||||++| +.++|..++.        +|.+..+.  .....  ...+.+||.+|++.+... ++. 
T Consensus         1 r~~Kv~liG~~~vGKTsLl~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   72 (165)
T d1z06a1           1 RIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTE--------ATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHY   72 (165)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCC--------CCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHH
T ss_pred             CEEEEEEECCCCcCHHHHHHHHHhCCCCCccC--------cccccccceeeeeeeccceEEEEEeccCchhhccccceee
Confidence            357899999999999999999 7788888877        77766654  33333  378999999998766443 333 


Q ss_pred             -----------cccCccCHHHHHHHHhhhcccccCCCCeEEEEee
Q psy9521          89 -----------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                                 |++++.||+++..|+.++ .......++|++.+.
T Consensus        73 ~~~~d~~ilv~d~~~~~s~~~~~~~~~~i-~~~~~~~~~pi~lvg  116 (165)
T d1z06a1          73 YRNVHAVVFVYDMTNMASFHSLPAWIEEC-KQHLLANDIPRILVG  116 (165)
T ss_dssp             HTTCCEEEEEEETTCHHHHHTHHHHHHHH-HHHCCCSCCCEEEEE
T ss_pred             ecCCCceEEEEEeehhhhhhhhhhhhHHH-HhhccCCCCeEEEEe
Confidence                       999999999999999887 333333455555443

>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=99.69  E-value=4.3e-16  Score=99.15  Aligned_cols=65  Identities=34%  Similarity=0.660  Sum_probs=53.6

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-HhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK   88 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   88 (125)
                      .+++||+++|++|||||||+++ +.++|... .        +|.+........+++.+.+||.+|.+.++..+..
T Consensus         3 ~ke~kI~ivG~~~vGKSSLi~~~~~~~~~~~-~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   68 (169)
T d1upta_           3 TREMRILILGLDGAGKTTILYRLQVGEVVTT-I--------PTIGFNVETVTYKNLKFQVWDLGGLTSIRPYWRC   68 (169)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHSSCCCC-C--------CCSSEEEEEEEETTEEEEEEEECCCGGGGGGGGG
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhCCCCcce-e--------cccceeeeeeccCceEEEEeeccccccccccchh
Confidence            4689999999999999999999 55655432 2        7888777777788899999999999888777666

>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=99.67  E-value=2.6e-16  Score=105.81  Aligned_cols=61  Identities=23%  Similarity=0.457  Sum_probs=53.8

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHH-hhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESA-KTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK   88 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i-~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   88 (125)
                      +.+||+++|++|||||||++|+ .+.+    .        ||+|+....+..+++.+.+||++||+.++..|..
T Consensus         5 ~~~KilllG~~~vGKTsll~~~~~~~~----~--------pTiG~~~~~~~~~~~~~~~~D~~Gq~~~r~~w~~   66 (221)
T d1azta2           5 ATHRLLLLGAGESGKSTIVKQMRILHV----V--------LTSGIFETKFQVDKVNFHMFDVGGQRDERRKWIQ   66 (221)
T ss_dssp             HSEEEEEECSTTSSHHHHHHHHHHHHC----C--------CCCSCEEEEEEETTEEEEEEECCCSTTTTTGGGG
T ss_pred             hcCEEEEECCCCCCHHHHHHHHhcCCc----C--------CCCCeEEEEEEECcEEEEEEecCccceeccchhh
Confidence            4577999999999999999995 3432    3        9999998889999999999999999999999887

>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=99.58  E-value=1.1e-14  Score=91.88  Aligned_cols=95  Identities=26%  Similarity=0.408  Sum_probs=72.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc----------
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK----------   88 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~----------   88 (125)
                      ||+++|++|||||||++++.+....++.        ||.+........++....+||+.|+..+...+..          
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   73 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDRLATLQ--------PTWHPTSEELAIGNIKFTTFDLGGHIQARRLWKDYFPEVNGIVF   73 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCCC--------CCCSCEEEEECCTTCCEEEEECCCSGGGGGGGGGGCTTCSEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCeee--------ceeeEeEEEeccCCeeEEEEeeccchhhhhhHhhhhhheeeeee
Confidence            7999999999999999995443333444        8999888888888899999999999887776666          


Q ss_pred             --cccCccCHHHHHHHHhhhcccccCCCCeEEEEee
Q psy9521          89 --DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVS  122 (125)
Q Consensus        89 --Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~s  122 (125)
                        |..+..++.....|+... .......+.+++.+.
T Consensus        74 ~~d~~~~~~~~~~~~~~~~~-~~~~~~~~~~i~i~~  108 (166)
T d2qtvb1          74 LVDAADPERFDEARVELDAL-FNIAELKDVPFVILG  108 (166)
T ss_dssp             EEETTCGGGHHHHHHHHHHH-HTCTTTTTCCEEEEE
T ss_pred             eccccchhhhhhhhHHHHhh-hhhhccCCceEEEEe
Confidence              889999999888776665 233344555555443

>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=99.56  E-value=2.8e-15  Score=96.84  Aligned_cols=97  Identities=13%  Similarity=0.115  Sum_probs=61.4

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHh-hcccc-ccCCCCCCccccccceeeE--EEEeCC--EEEEEEECC---Ccccccccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAK-TKFTK-NYKGMNPSKITTTVGLNIG--QIDINT--VRLNFWDLG---GQLELQSLW   86 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~-~~~~~-~~~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~D~~---G~~~~~~~~   86 (125)
                      .-+||+++|++|||||||++++. +.+.. ...        +|.+.+..  .+..++  +.+.+||++   |++++....
T Consensus         2 ~~~Kv~lvG~~~vGKTsLi~~~~~~~~~~~~~~--------~t~~~~~~~~~~~~~~~~~~~~~~d~~~~~g~e~~~~~~   73 (172)
T d2g3ya1           2 TYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDC--------EVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDH   73 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC-----------CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHHHHHC
T ss_pred             CEEEEEEECCCCcCHHHHHHHHHhCcCCccccc--------cceeeecceeeeccCCceeeeeeeccccccccccccccc
Confidence            35789999999999999999954 43332 222        55555432  455554  677888854   666552111


Q ss_pred             ---cc-------cccCccCHHHHHHHHhhhcccccCCCCeEEEEe
Q psy9521          87 ---DK-------DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPV  121 (125)
Q Consensus        87 ---~~-------Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~  121 (125)
                         ..       |++++.||+++..|+.++ .......++|++.+
T Consensus        74 ~~~~~~~~ilvfd~t~~~s~~~~~~~~~~i-~~~~~~~~~piilv  117 (172)
T d2g3ya1          74 CMQVGDAYLIVYSITDRASFEKASELRIQL-RRARQTEDIPIILV  117 (172)
T ss_dssp             CCCCCSEEEEEEETTCHHHHHHHHHHHHHH-HTSGGGTTSCEEEE
T ss_pred             cccccceeeeeecccccchhhhhhhhhhhh-hhccccCCceEEEE
Confidence               11       999999999999998877 22222334555544

>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=99.39  E-value=7.1e-13  Score=87.40  Aligned_cols=97  Identities=19%  Similarity=0.251  Sum_probs=62.3

Q ss_pred             EEEEEeCCCCcHHHHHHHH-hhccccccCCCCCCccccccceeeEEEEeC---CEEEEEEECCCcccccc-cccc-----
Q psy9521          19 CVLILGLDNAGKTTYLESA-KTKFTKNYKGMNPSKITTTVGLNIGQIDIN---TVRLNFWDLGGQLELQS-LWDK-----   88 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i-~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~---~~~~~i~D~~G~~~~~~-~~~~-----   88 (125)
                      +|+++|++|||||||++++ .+++... .        ||.+.+...+...   ++.+.+||++|+++++. .+..     
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~~~~~~-~--------~t~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~   72 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTGQYRDT-Q--------TSITDSSAIYKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSA   72 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCB-C--------CCCSCEEEEEECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGE
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCcc-c--------CCeeEEEEEEEEeeeeeeeeeeeeccccccccchhhhhhhhhc
Confidence            5999999999999999994 5544332 2        7777776655543   58899999999988753 3322     


Q ss_pred             -------cccCccCH-HHHHHHHhhh-cccccCCCCeEEEEeecc
Q psy9521          89 -------DIRDCMGV-REVKPIFNKN-SAHLIGRRDCMVMPVSAL  124 (125)
Q Consensus        89 -------Di~~~~s~-~~i~~~l~~~-~~~~~~~~~~~i~~~sA~  124 (125)
                             |.++..++ .+..+|+..+ .......+.+|++.+..|
T Consensus        73 ~~~i~v~D~~d~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK  117 (207)
T d2fh5b1          73 RAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNK  117 (207)
T ss_dssp             EEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEEC
T ss_pred             cccceEEEcccccccHHHHHHHHHHHHHhHHHhhcCCcEEEEEEC
Confidence                   77776553 4444444332 111334456676655443

>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=99.35  E-value=2.9e-13  Score=88.96  Aligned_cols=95  Identities=14%  Similarity=0.162  Sum_probs=61.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHh-hccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc---------
Q psy9521          19 CVLILGLDNAGKTTYLESAK-TKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK---------   88 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~-~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~---------   88 (125)
                      .|+++|++|||||||++++. +++.+.          .|.......++.++..+.+||++|+++++..+..         
T Consensus         5 ~V~lvG~~n~GKTSLln~l~~~~~~~~----------tt~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~~   74 (209)
T d1nrjb_           5 SIIIAGPQNSGKTSLLTLLTTDSVRPT----------VVSQEPLSAADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFV   74 (209)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSSCCCB----------CCCSSCEEETTGGGSSCEEEECCCCGGGTHHHHHHHHHHGGGE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCe----------EEecceEEEEEeCCeEEEEEecccccchhhHHHHHHHHHhhhc
Confidence            69999999999999999954 433211          2222223345556788999999999887665544         


Q ss_pred             -------c-ccCccCHHHHHHHHhhhc--ccccCCCCeEEEEeec
Q psy9521          89 -------D-IRDCMGVREVKPIFNKNS--AHLIGRRDCMVMPVSA  123 (125)
Q Consensus        89 -------D-i~~~~s~~~i~~~l~~~~--~~~~~~~~~~i~~~sA  123 (125)
                             | ..+..+++++..|+.+..  ......+..|++.+..
T Consensus        75 ~~~i~~vd~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~piiiv~N  119 (209)
T d1nrjb_          75 KGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACN  119 (209)
T ss_dssp             EEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEE
T ss_pred             cccceEEEEecccccHHHHHHHHHHHHHHHHHHHhccCCeEEEEE
Confidence                   3 445777888877765430  1223445556655543

>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=99.27  E-value=1.3e-11  Score=79.69  Aligned_cols=64  Identities=23%  Similarity=0.210  Sum_probs=38.7

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhccc---cccCCCCCCccccccceeeEEEEeCCEEEEEEECCCccccccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFT---KNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSL   85 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~---~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~   85 (125)
                      ++.+||+++|.+|||||||++++.+...   ..+.       ..|.......+..++..+.++|++|.......
T Consensus         6 ~~~~kV~iiG~~~~GKSTLin~l~~~~~~~~~~~~-------~t~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~   72 (186)
T d1mkya2           6 TDAIKVAIVGRPNVGKSTLFNAILNKERALVSPIP-------GTTRDPVDDEVFIDGRKYVFVDTAGLRRKSRV   72 (186)
T ss_dssp             CSCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC-------------CCEEEEETTEEEEESSCSCC------
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHCCCcceeeccc-------ccccccceeeeccCCceeeeeccCCccccccc
Confidence            3569999999999999999999543221   1111       12333333456677888999999997654433

>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=99.25  E-value=3.7e-11  Score=75.77  Aligned_cols=84  Identities=21%  Similarity=0.157  Sum_probs=52.3

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccccccccc---------
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDK---------   88 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~---------   88 (125)
                      +||+++|++|||||||++++.+.......    .....+.......+...+..+.+||++|.......+..         
T Consensus         2 ~kI~lvG~~nvGKSsLin~l~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~   77 (161)
T d2gj8a1           2 MKVVIAGRPNAGKSSLLNALAGREAAIVT----DIAGTTRDVLREHIHIDGMPLHIIDTAGLREASDEVERIGIERAWQE   77 (161)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSCCSCCC----SSTTCCCSCEEEEEEETTEEEEEEECCCCSCCSSHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceEee----cccccccceEeeeeeccCceeeeccccccccccccchhHHHHHHHHH
Confidence            68999999999999999996543221110    00112222223356677899999999997554332222         


Q ss_pred             -----------cccCccCHHHHHHHHhh
Q psy9521          89 -----------DIRDCMGVREVKPIFNK  105 (125)
Q Consensus        89 -----------Di~~~~s~~~i~~~l~~  105 (125)
                                 |..+..+++....|...
T Consensus        78 ~~~~d~~i~~~d~~~~~~~~~~~~~~~~  105 (161)
T d2gj8a1          78 IEQADRVLFMVDGTTTDAVDPAEIWPEF  105 (161)
T ss_dssp             HHTCSEEEEEEETTTCCCCSHHHHCHHH
T ss_pred             HHhccccceeeccccccchhhhhhhhhh
Confidence                       66777777666654443

>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=99.24  E-value=1.5e-11  Score=77.62  Aligned_cols=58  Identities=22%  Similarity=0.206  Sum_probs=38.9

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ   79 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~   79 (125)
                      +||+++|.+|||||||++++.+.......    .....|.......+...+..+.+||++|.
T Consensus         1 ikI~liG~~n~GKSSLin~l~g~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~   58 (160)
T d1xzpa2           1 LRMVIVGKPNVGKSTLLNRLLNEDRAIVT----DIPGTTRDVISEEIVIRGILFRIVDTAGV   58 (160)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHHTBCCCC----CSSCCSSCSCCEEEEETTEEEEEEESSCC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeee----ccccccccceeEEEEeCCeeEEecccccc
Confidence            68999999999999999996554322111    11112222223356677899999999994

>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=99.24  E-value=8.3e-11  Score=75.58  Aligned_cols=61  Identities=23%  Similarity=0.135  Sum_probs=41.5

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcccc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLEL   82 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~   82 (125)
                      -+|+++|.+|||||||++++.+.....    .......|...........+..+.+||++|....
T Consensus         6 ~~I~lvG~~~~GKSSLin~l~~~~~~~----~~~~~~tt~~~~~~~~~~~~~~~~~~DtpG~~~~   66 (178)
T d1wf3a1           6 GFVAIVGKPNVGKSTLLNNLLGVKVAP----ISPRPQTTRKRLRGILTEGRRQIVFVDTPGLHKP   66 (178)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSCCSC----CCSSSCCCCSCEEEEEEETTEEEEEEECCCCCCC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCcee----ecccCCcccccccceeeeeeeeeeeccccccccc
Confidence            369999999999999999965432211    1111223444444556677899999999998554

>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=99.17  E-value=7.1e-11  Score=75.99  Aligned_cols=56  Identities=27%  Similarity=0.391  Sum_probs=36.1

Q ss_pred             EEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEe-CCEEEEEEECCCcc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDI-NTVRLNFWDLGGQL   80 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~i~D~~G~~   80 (125)
                      |+++|.+|||||||++++.+...... .    ....|....+..... .+..+.+||++|..
T Consensus         4 VaivG~~nvGKSTLin~L~~~~~~~~-~----~~~~t~~~~~~~~~~~~~~~~~~~DtpG~~   60 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTRAHPKIA-P----YPFTTLSPNLGVVEVSEEERFTLADIPGII   60 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCSSCCEEC-C----CTTCSSCCEEEEEECSSSCEEEEEECCCCC
T ss_pred             EEEECCCCCCHHHHHHHHhCCCCcee-c----cCCCceeeeeceeeecCCCeEEEcCCCeee
Confidence            89999999999999999764332211 0    111333344433223 45789999999953

>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=99.16  E-value=1.8e-11  Score=79.10  Aligned_cols=68  Identities=16%  Similarity=0.213  Sum_probs=40.3

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccce----eeEEEEeCCEEEEEEECCCcccccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGL----NIGQIDINTVRLNFWDLGGQLELQS   84 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~----~~~~~~~~~~~~~i~D~~G~~~~~~   84 (125)
                      .+.++|.++|.+++|||||++++.+.......  .........+.    ....+..++..+.++|++|+..+..
T Consensus         3 ~k~inIaiiG~~naGKSTL~n~L~~~~~~~~~--~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~   74 (179)
T d1wb1a4           3 FKNINLGIFGHIDHGKTTLSKVLTEIASTSAH--DKLPESQKRGITIDIGFSAFKLENYRITLVDAPGHADLIR   74 (179)
T ss_dssp             CEEEEEEEEECTTSSHHHHHHHHHTTC----------------------CCCEEEETTEEEEECCCSSHHHHHH
T ss_pred             CCCEEEEEEeCCCCcHHHHHHHHHHhcCceec--ccccceeeeeeeccccccccccCCcccccccccccccccc
Confidence            36789999999999999999996532111100  00000111122    1224556778999999999876654

>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=99.09  E-value=2.9e-10  Score=74.24  Aligned_cols=26  Identities=27%  Similarity=0.355  Sum_probs=23.5

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +++.++|+++|..++|||||+++|.+
T Consensus         2 ~~~~inIaiiGhvd~GKSTL~~~L~g   27 (195)
T d1kk1a3           2 RQAEVNIGMVGHVDHGKTTLTKALTG   27 (195)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCCcEEEEEEeccCCcHHHHHHHHHh
Confidence            57889999999999999999999754

>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=99.08  E-value=3.4e-11  Score=77.81  Aligned_cols=56  Identities=25%  Similarity=0.264  Sum_probs=36.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEe-CCEEEEEEECCCc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDI-NTVRLNFWDLGGQ   79 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~i~D~~G~   79 (125)
                      .|.++|.+|||||||++++.+......     .....|.......... ++..+.+||+||.
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~~~~~~-----~~~~~T~~~~~~~~~~~~~~~~~~~DtpG~   59 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSAKPKIA-----DYHFTTLVPNLGMVETDDGRSFVMADLPGL   59 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCEES-----STTSSCCCCCEEEEECSSSCEEEEEEHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHhCCCCcee-----cCCCceEeeeeceeEecCCcEEEEecCCCc
Confidence            489999999999999999654322110     0111344444444444 3478999999996

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=98.90  E-value=8.2e-09  Score=65.50  Aligned_cols=58  Identities=21%  Similarity=0.196  Sum_probs=36.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQL   80 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~   80 (125)
                      +|+++|++|||||||++++.+.......    .....|.......+......+.+||++|..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~~~~~~----~~~~~t~~~~~~~~~~~~~~~~~~d~~g~~   59 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKKKAIVE----DEEGVTRDPVQDTVEWYGKTFKLVDTCGVF   59 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC------------------CCSEEEEEETTEEEEEEECTTTT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcceec----ccCceeecccccccccccccccccccccee
Confidence            6899999999999999996543322111    111134444445667778999999999953

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=98.89  E-value=5.5e-09  Score=68.73  Aligned_cols=70  Identities=16%  Similarity=0.065  Sum_probs=45.0

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHH-hhccccccCCCCCC-----------ccccccceeeEEEEeCCEEEEEEECCCcccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESA-KTKFTKNYKGMNPS-----------KITTTVGLNIGQIDINTVRLNFWDLGGQLEL   82 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i-~~~~~~~~~~~~~~-----------~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~   82 (125)
                      |+.++|+++|..++|||||+.++ ...-.....+....           ...-|+...+..+..++.++.+.|+||++.|
T Consensus         1 k~~ini~iiGhvd~GKSTL~~~Ll~~~g~~~~~~~~~~~~~~d~~~eE~~rgiTi~~~~~~~~~~~~~i~iiDtPGh~df   80 (204)
T d2c78a3           1 KPHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADY   80 (204)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCSGGG
T ss_pred             CCCeEEEEEeCCCCcHHHHHHHHHHHhhhccCCcchhhhhhcccchHHhcCCeEEEeeEEEEEeCCeEEEEEeCCCchhh
Confidence            46799999999999999999994 21000000000000           0013444444567778899999999999887


Q ss_pred             cc
Q psy9521          83 QS   84 (125)
Q Consensus        83 ~~   84 (125)
                      -.
T Consensus        81 ~~   82 (204)
T d2c78a3          81 IK   82 (204)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>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=98.88  E-value=4e-09  Score=69.24  Aligned_cols=25  Identities=24%  Similarity=0.363  Sum_probs=22.3

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      |+.++|+++|..++|||||+.+|.+
T Consensus         6 ~p~ini~iiGhVd~GKSTL~~~L~~   30 (205)
T d2qn6a3           6 QPEVNIGVVGHVDHGKTTLVQAITG   30 (205)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHS
T ss_pred             CCCeEEEEEEccCCcHHHHHHHHHh
Confidence            6779999999999999999999653

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=98.87  E-value=6.4e-09  Score=70.65  Aligned_cols=62  Identities=15%  Similarity=0.148  Sum_probs=43.4

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQL   80 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~   80 (125)
                      +..++|+++|.+|||||||+|.+-++......    .....|..........++..+.++||||-.
T Consensus        30 ~~~l~I~LvG~tg~GKSSliN~ilg~~~~~vs----~~~~~T~~~~~~~~~~~g~~i~viDTPGl~   91 (257)
T d1h65a_          30 VNSLTILVMGKGGVGKSSTVNSIIGERVVSIS----PFQSEGPRPVMVSRSRAGFTLNIIDTPGLI   91 (257)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSCCC----SSSCCCSSCEEEEEEETTEEEEEEECCCSE
T ss_pred             CCCcEEEEECCCCCcHHHHHHHHhCCCceeec----CCCCcceeEEEEEEEeccEEEEEEeeeccc
Confidence            57899999999999999999996543221111    111234444445667788999999999964

>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=98.87  E-value=9.2e-09  Score=68.56  Aligned_cols=24  Identities=29%  Similarity=0.382  Sum_probs=21.8

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHH
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESA   37 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i   37 (125)
                      ++..++|+++|..++|||||+.++
T Consensus         6 ~~~~~~i~viGHVd~GKSTL~~~L   29 (222)
T d1zunb3           6 RKEMLRFLTCGNVDDGKSTLIGRL   29 (222)
T ss_dssp             SCEEEEEEEECCTTSSHHHHHHHH
T ss_pred             cCCcceEEEEcCCCCCHHHHHHHH
Confidence            467889999999999999999994

>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=98.82  E-value=4.7e-09  Score=68.77  Aligned_cols=69  Identities=14%  Similarity=0.087  Sum_probs=41.6

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhccccccCCCC-------CCcccccccee----eEEEEeCCEEEEEEECCCccccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMN-------PSKITTTVGLN----IGQIDINTVRLNFWDLGGQLELQ   83 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~-------~~~~~~t~~~~----~~~~~~~~~~~~i~D~~G~~~~~   83 (125)
                      |+.++|+++|..++|||||+.++.+..........       ..+.+...|+.    ...+...+..+.+.|++|++.|.
T Consensus         1 kp~ini~iiGHvd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~Er~rgiTi~~~~~~~~~~~~~~~~iDtPGh~~f~   80 (196)
T d1d2ea3           1 KPHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYV   80 (196)
T ss_dssp             CCEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSSCEEEEEECSSHHHHH
T ss_pred             CCCcEEEEEeCCCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhhcCCCccCCcceEEEEeceeeEEeecCcchHHHH
Confidence            46789999999999999999995321110000000       00011222222    22445567899999999998763

>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=98.79  E-value=1.5e-08  Score=64.38  Aligned_cols=29  Identities=24%  Similarity=0.292  Sum_probs=24.0

Q ss_pred             hhccCceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          11 YMLRKDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        11 ~~~~~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .+..-...+|+++|.+|||||||++++.+
T Consensus        10 ~~p~~~~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          10 HLPSDTGIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             GSSCSCSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             HCCCccCCEEEEECCCCCCHHHHHHHHhC
Confidence            33445679999999999999999999654

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=98.76  E-value=1.9e-08  Score=65.02  Aligned_cols=27  Identities=19%  Similarity=0.395  Sum_probs=22.0

Q ss_pred             ccCceE-EEEEEeCCCCcHHHHHHHHhh
Q psy9521          13 LRKDEF-CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        13 ~~~~~~-ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ++...+ +|+++|.+|||||||++++.+
T Consensus        18 ~p~~~~~~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          18 YPEGGLPEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             SCCSCCCEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CCCCCCCEEEEECCCCCCHHHHHHHhcC
Confidence            334444 899999999999999999654

>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=98.73  E-value=5.6e-08  Score=61.64  Aligned_cols=21  Identities=33%  Similarity=0.460  Sum_probs=18.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .|+++|.+|||||||++++.+
T Consensus         7 ~I~iiG~~nvGKSSLin~L~~   27 (179)
T d1egaa1           7 FIAIVGRPNVGKSTLLNKLLG   27 (179)
T ss_dssp             EEEEECSSSSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            389999999999999999654

>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=98.64  E-value=1.9e-08  Score=72.32  Aligned_cols=64  Identities=17%  Similarity=0.290  Sum_probs=37.2

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEe-CCEEEEEEECCCccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDI-NTVRLNFWDLGGQLE   81 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~i~D~~G~~~   81 (125)
                      ..++|+++|.+|||||||+|.+.+....+...........|....  .+.. ++..+.+|||+|-..
T Consensus        55 ~~l~Iai~G~~n~GKSSLiNaL~G~~~~~~~~~~~g~~~tT~~~~--~~~~~~~~~~~l~DtPG~~~  119 (400)
T d1tq4a_          55 SVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERH--PYKHPNIPNVVFWDLPGIGS  119 (400)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCE--EEECSSCTTEEEEECCCGGG
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCcCCCccCCCCCCCCceeee--eeeccCCCeEEEEeCCCccc
Confidence            579999999999999999999765432221111111111222211  1222 234578999999754

>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=98.63  E-value=4.9e-08  Score=65.81  Aligned_cols=28  Identities=29%  Similarity=0.383  Sum_probs=23.7

Q ss_pred             hhhccCceEEEEEEeCCCCcHHHHHHHH
Q psy9521          10 KYMLRKDEFCVLILGLDNAGKTTYLESA   37 (125)
Q Consensus        10 ~~~~~~~~~ki~v~G~~~~GKTsl~~~i   37 (125)
                      +....|+.++|+++|..++|||||+.++
T Consensus        17 ~~~~~k~~iNi~iiGHVD~GKSTL~~~L   44 (245)
T d1r5ba3          17 KDMYGKEHVNIVFIGHVDAGKSTLGGNI   44 (245)
T ss_dssp             HHHSCCEEEEEEEEECGGGTHHHHHHHH
T ss_pred             HHhcCCCceEEEEEeeCCCCHHHHHHHH
Confidence            3444567889999999999999999995

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=98.59  E-value=4.8e-08  Score=62.20  Aligned_cols=52  Identities=19%  Similarity=0.258  Sum_probs=31.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQ   79 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~   79 (125)
                      .|+++|.+|||||||++++.++.... .    .....|...  ..+...+  +.++|+||.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~~~-~----~~~g~T~~~--~~~~~~~--~~ivDtpG~   53 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKVRR-G----KRPGVTRKI--IEIEWKN--HKIIDMPGF   53 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCCSS-S----SSTTCTTSC--EEEEETT--EEEEECCCB
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcee-e----CCCCEeecc--ccccccc--ceecccCCc
Confidence            58999999999999999965432210 0    000123322  2233333  568999995

>d1jnya3 c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N-terminal (G) domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=98.58  E-value=1.1e-07  Score=62.99  Aligned_cols=64  Identities=14%  Similarity=0.237  Sum_probs=39.8

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHH-h--hcc-----------------------------ccccCCCCCCccccccceeeE
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESA-K--TKF-----------------------------TKNYKGMNPSKITTTVGLNIG   62 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i-~--~~~-----------------------------~~~~~~~~~~~~~~t~~~~~~   62 (125)
                      |+.++|+++|.-++|||||+.++ .  +..                             ..+..      ...|+.....
T Consensus         1 kp~iNi~viGHVd~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~------rg~ti~~~~~   74 (224)
T d1jnya3           1 KPHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERE------RGVTINLTFM   74 (224)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------------C
T ss_pred             CCccEEEEEecCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCcccccccccccCchhhhc------CCccccceEE
Confidence            46799999999999999999884 2  100                             00100      0122222223


Q ss_pred             EEEeCCEEEEEEECCCcccccc
Q psy9521          63 QIDINTVRLNFWDLGGQLELQS   84 (125)
Q Consensus        63 ~~~~~~~~~~i~D~~G~~~~~~   84 (125)
                      .++.++..+.+.|+||++.|..
T Consensus        75 ~~~~~~~~i~iiDtPGH~df~~   96 (224)
T d1jnya3          75 RFETKKYFFTIIDAPGHRDFVK   96 (224)
T ss_dssp             EEECSSCEEEECCCSSSTTHHH
T ss_pred             EEecCCceeEEeeCCCcHHHHH
Confidence            5566789999999999988753

>d1f60a3 c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.54  E-value=1.6e-07  Score=63.08  Aligned_cols=69  Identities=13%  Similarity=0.191  Sum_probs=44.3

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-Hh--hccc-----------cccCCCC------------CCccccccceeeEEEEeCC
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AK--TKFT-----------KNYKGMN------------PSKITTTVGLNIGQIDINT   68 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~--~~~~-----------~~~~~~~------------~~~~~~t~~~~~~~~~~~~   68 (125)
                      |+.++|+++|..++|||||+.+ +.  +...           .+..+..            .....-|+...+..+..++
T Consensus         4 k~~iNi~iiGHvD~GKsTl~~~ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~   83 (239)
T d1f60a3           4 KSHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFETPK   83 (239)
T ss_dssp             CEEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEECSS
T ss_pred             CCccEEEEEeCCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHHhcCCccceeeecccchhhhcceeccccceeEeccCC
Confidence            4578999999999999999999 42  1100           0000000            0001134444445677788


Q ss_pred             EEEEEEECCCccccc
Q psy9521          69 VRLNFWDLGGQLELQ   83 (125)
Q Consensus        69 ~~~~i~D~~G~~~~~   83 (125)
                      .++++.|+||+..|.
T Consensus        84 ~~i~iiDtPGH~df~   98 (239)
T d1f60a3          84 YQVTVIDAPGHRDFI   98 (239)
T ss_dssp             EEEEEEECCCCTTHH
T ss_pred             EEEEEEECCCcHHHH
Confidence            999999999998874

>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=98.38  E-value=1.6e-07  Score=64.04  Aligned_cols=60  Identities=22%  Similarity=0.313  Sum_probs=35.7

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEeCCEEEEEEECCCcc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDINTVRLNFWDLGGQL   80 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~   80 (125)
                      ....++++|+|-+|||||||++++.++......    .....|.+..  .+.. +-.+.+.||||--
T Consensus       109 ~~~~~~v~vvG~PNvGKSsliN~L~~~~~~~~~----~~pG~Tr~~~--~i~~-~~~~~l~DTPGi~  168 (273)
T d1puja_         109 KPRAIRALIIGIPNVGKSTLINRLAKKNIAKTG----DRPGITTSQQ--WVKV-GKELELLDTPGIL  168 (273)
T ss_dssp             CCCCEEEEEEESTTSSHHHHHHHHHTSCCC----------------C--CEEE-TTTEEEEECCCCC
T ss_pred             CCCceEEEEEecCccchhhhhhhhhccceEEEC----Ccccccccce--EEEC-CCCeEEecCCCcc
Confidence            357899999999999999999997654332221    1111222221  1222 3458899999974

>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=98.33  E-value=4.4e-07  Score=60.12  Aligned_cols=19  Identities=42%  Similarity=0.611  Sum_probs=17.7

Q ss_pred             EEEEeCCCCcHHHHHHHHh
Q psy9521          20 VLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~   38 (125)
                      |+++|..++|||||++++.
T Consensus         8 IaIiGh~d~GKSTL~~~L~   26 (227)
T d1g7sa4           8 VSVLGHVDHGKTTLLDHIR   26 (227)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEEeCCCccHHHHHHHHH
Confidence            9999999999999999954

>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=98.28  E-value=1.9e-06  Score=58.57  Aligned_cols=66  Identities=23%  Similarity=0.242  Sum_probs=42.6

Q ss_pred             EEEEEeCCCCcHHHHHHH-HhhccccccCC-----CC-C------CccccccceeeEEEEeCCEEEEEEECCCcccccc
Q psy9521          19 CVLILGLDNAGKTTYLES-AKTKFTKNYKG-----MN-P------SKITTTVGLNIGQIDINTVRLNFWDLGGQLELQS   84 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~-i~~~~~~~~~~-----~~-~------~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~   84 (125)
                      +|+++|..++|||||+.+ +...-..+..+     .. .      .....|+...+..+..++.+++++||||+..|..
T Consensus         4 Nv~iiGh~~~GKTtL~e~ll~~~g~~~~~g~v~~g~~~~D~~~~E~~r~~ti~~~~~~~~~~~~~~n~iDtPGh~dF~~   82 (267)
T d2dy1a2           4 TVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGYGDFVG   82 (267)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETTEEEEEEECCCSGGGHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHcCCchhhccchhccccccchHHHHHhCCeEEeecccccccccceeEEccCchhhhhh
Confidence            389999999999999999 43211111101     00 0      0111344444556778899999999999987744

>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=98.22  E-value=3.8e-06  Score=57.33  Aligned_cols=69  Identities=19%  Similarity=0.137  Sum_probs=43.2

Q ss_pred             eE-EEEEEeCCCCcHHHHHHH-Hhh-cccccc---C-C-------CCCCccccccceeeEEEEeCCEEEEEEECCCcccc
Q psy9521          17 EF-CVLILGLDNAGKTTYLES-AKT-KFTKNY---K-G-------MNPSKITTTVGLNIGQIDINTVRLNFWDLGGQLEL   82 (125)
Q Consensus        17 ~~-ki~v~G~~~~GKTsl~~~-i~~-~~~~~~---~-~-------~~~~~~~~t~~~~~~~~~~~~~~~~i~D~~G~~~~   82 (125)
                      ++ +|+++|..++|||||+.+ +.. ......   . +       ........|+......+..++.++++.||||+..|
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~~~~~~~~~~~n~iDtPG~~dF   84 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKDHRINIIDAPGHVDF   84 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSEEEEEETTEEEEEECCCSSSSC
T ss_pred             hceEEEEEeCCCCCHHHHHHHHHHhcCccccccceecCceEEeccHHHHhcCCccccceeeeccCCeEEEEecCCchhhh
Confidence            45 499999999999999999 432 111100   0 0       00011113444444567788999999999999887


Q ss_pred             ccc
Q psy9521          83 QSL   85 (125)
Q Consensus        83 ~~~   85 (125)
                      ..-
T Consensus        85 ~~e   87 (276)
T d2bv3a2          85 TIE   87 (276)
T ss_dssp             STT
T ss_pred             HHH
Confidence            553

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {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 PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=98.19  E-value=1.6e-06  Score=59.93  Aligned_cols=22  Identities=27%  Similarity=0.505  Sum_probs=19.9

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhh
Q psy9521          18 FCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +||.++|.++||||||++.+.+
T Consensus         1 ~~v~lvG~pn~GKStlfn~lt~   22 (319)
T d1wxqa1           1 MEIGVVGKPNVGKSTFFSAATL   22 (319)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC
T ss_pred             CcEeEECCCCCCHHHHHHHHHC
Confidence            4799999999999999999764

>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=98.08  E-value=3.4e-06  Score=57.85  Aligned_cols=25  Identities=24%  Similarity=0.494  Sum_probs=22.3

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +..+||-++|.++||||||++.+++
T Consensus         8 ~~~~kiGivG~Pn~GKSTlfnalT~   32 (296)
T d1ni3a1           8 GNNLKTGIVGMPNVGKSTFFRAITK   32 (296)
T ss_dssp             SSCCEEEEEECSSSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHC
Confidence            4678999999999999999999654

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=97.98  E-value=5.3e-06  Score=54.98  Aligned_cols=21  Identities=24%  Similarity=0.452  Sum_probs=18.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ..+++|.+|||||||++++.+
T Consensus        97 t~~~~G~SGVGKSTLiN~L~~  117 (225)
T d1u0la2          97 ISTMAGLSGVGKSSLLNAINP  117 (225)
T ss_dssp             EEEEECSTTSSHHHHHHHHST
T ss_pred             eEEEECCCCCCHHHHHHhhcc
Confidence            579999999999999999754

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: 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: Haemophilus influenzae [TaxId: 727]

Probab=97.98  E-value=4.7e-06  Score=56.63  Aligned_cols=23  Identities=35%  Similarity=0.514  Sum_probs=20.6

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .+||-++|.++||||||++++++
T Consensus         2 ~~~~GivG~Pn~GKSTlf~~lt~   24 (278)
T d1jala1           2 GFKCGIVGLPNVGKSTLFNALTK   24 (278)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHC
Confidence            46899999999999999999664

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=97.94  E-value=2.2e-06  Score=53.67  Aligned_cols=23  Identities=30%  Similarity=0.508  Sum_probs=20.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      +|++.|++|||||||+++|...+
T Consensus         9 ~I~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           9 TVAILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             EEEEECCTTSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            59999999999999999987554

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.94  E-value=2.6e-06  Score=53.52  Aligned_cols=25  Identities=24%  Similarity=0.400  Sum_probs=21.1

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      +||+++|++|+|||||++.+.+...
T Consensus         1 ~ki~I~G~~G~GKSTLl~~i~~~l~   25 (178)
T d1ye8a1           1 MKIIITGEPGVGKTTLVKKIVERLG   25 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHG
T ss_pred             CEEEEECCCCcHHHHHHHHHHhcCC
Confidence            4899999999999999999665443

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=97.84  E-value=7.2e-06  Score=57.16  Aligned_cols=24  Identities=29%  Similarity=0.440  Sum_probs=21.8

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHh
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      .+-++|.+.|++|||||||+.++-
T Consensus        52 ~~~~~IgitG~pGaGKSTLi~~l~   75 (327)
T d2p67a1          52 GNTLRLGVTGTPGAGKSTFLEAFG   75 (327)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCceEEEeeCCCCCCHHHHHHHHH
Confidence            578999999999999999999954

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=97.81  E-value=5.9e-06  Score=51.47  Aligned_cols=27  Identities=26%  Similarity=0.383  Sum_probs=23.3

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      -+.++|++.|++||||||+.+.+..++
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHHh
Confidence            367899999999999999999986544

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=97.79  E-value=4.7e-06  Score=51.77  Aligned_cols=22  Identities=32%  Similarity=0.407  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +|+++|++||||||+.+++..+
T Consensus         6 ~I~i~G~pGsGKTTia~~La~~   27 (173)
T d1rkba_           6 NILLTGTPGVGKTTLGKELASK   27 (173)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5999999999999999997544

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.76  E-value=7.5e-05  Score=52.16  Aligned_cols=25  Identities=16%  Similarity=0.195  Sum_probs=21.4

Q ss_pred             ccCceEE-EEEEeCCCCcHHHHHHHH
Q psy9521          13 LRKDEFC-VLILGLDNAGKTTYLESA   37 (125)
Q Consensus        13 ~~~~~~k-i~v~G~~~~GKTsl~~~i   37 (125)
                      .+..++| |+++|..++|||||+.++
T Consensus        12 ~~~~~IRNI~iiGhvd~GKTTL~d~L   37 (341)
T d1n0ua2          12 DKVTNVRNMSVIAHVDHGKSTLTDSL   37 (341)
T ss_dssp             HCGGGEEEEEEECCGGGTHHHHHHHH
T ss_pred             cCcccCcEEEEEeCCCCcHHHHHHHH
Confidence            3456786 999999999999999993

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=97.62  E-value=1.5e-05  Score=50.70  Aligned_cols=26  Identities=27%  Similarity=0.346  Sum_probs=22.0

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      +-++|+++|++||||||+...+..++
T Consensus         2 ~~~riil~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           2 KGVRAVLLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CccEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999976544

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.62  E-value=1.5e-05  Score=50.16  Aligned_cols=24  Identities=29%  Similarity=0.508  Sum_probs=20.5

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      ++|+++|++||||||+...+..++
T Consensus         1 m~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           1 MNLVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            479999999999999999876544

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=97.60  E-value=1.3e-05  Score=51.00  Aligned_cols=26  Identities=42%  Similarity=0.510  Sum_probs=22.0

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      +..+|+++|++||||||+...+..++
T Consensus         2 ~Pm~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           2 DPLKVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            35679999999999999999876554

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {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: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.57  E-value=2e-05  Score=49.84  Aligned_cols=25  Identities=24%  Similarity=0.441  Sum_probs=21.5

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++|+++|++||||||+...+..++
T Consensus         2 ~mrIvl~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           2 SIRMVLIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999976543

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {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: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=97.57  E-value=1.8e-05  Score=48.88  Aligned_cols=20  Identities=25%  Similarity=0.312  Sum_probs=17.7

Q ss_pred             EEEEeCCCCcHHHHHHHHhh
Q psy9521          20 VLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~   39 (125)
                      ++++|.+|||||||++++-.
T Consensus         5 i~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           5 LAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            78999999999999999543

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.56  E-value=2e-05  Score=49.73  Aligned_cols=24  Identities=38%  Similarity=0.418  Sum_probs=20.7

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      ++|+++|++||||||+..++...+
T Consensus         1 m~I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           1 MRVLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            479999999999999999976544

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=97.55  E-value=2.3e-05  Score=47.72  Aligned_cols=19  Identities=26%  Similarity=0.494  Sum_probs=17.1

Q ss_pred             EEEEeCCCCcHHHHHHHHh
Q psy9521          20 VLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~   38 (125)
                      |++.|++||||||+++++.
T Consensus         5 Iii~G~pGsGKTTla~~L~   23 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFI   23 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            7889999999999999854

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=97.55  E-value=2.5e-05  Score=50.04  Aligned_cols=26  Identities=23%  Similarity=0.304  Sum_probs=22.3

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      +-++|+++|++||||||+..++..++
T Consensus         5 r~mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           5 RLLRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             cceeEEEECCCCCCHHHHHHHHHHHH
Confidence            56789999999999999999976543

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {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: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.54  E-value=2.8e-05  Score=49.76  Aligned_cols=23  Identities=22%  Similarity=0.352  Sum_probs=19.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      =|+++|.+||||||+.++|...+
T Consensus         4 li~l~GlpgsGKSTla~~L~~~l   26 (213)
T d1bifa1           4 LIVMVGLPARGKTYISKKLTRYL   26 (213)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            48999999999999999976443

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=97.53  E-value=2.4e-05  Score=48.25  Aligned_cols=22  Identities=23%  Similarity=0.347  Sum_probs=18.9

Q ss_pred             EEEEeCCCCcHHHHHHHHhhcc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      |++.|++||||||+.+++...+
T Consensus         5 I~i~G~~GsGKTTva~~L~~~~   26 (176)
T d2bdta1           5 YIITGPAGVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            8899999999999999976443

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {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: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.53  E-value=2.4e-05  Score=49.25  Aligned_cols=24  Identities=29%  Similarity=0.420  Sum_probs=20.3

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      +||+++|++||||||...++..++
T Consensus         1 m~I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           1 MRIILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999998875443

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {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: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.53  E-value=2.5e-05  Score=49.76  Aligned_cols=23  Identities=26%  Similarity=0.496  Sum_probs=19.9

Q ss_pred             EEEEeCCCCcHHHHHHHHhhccc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      |+++|++|||||||++++..+++
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~~~~   26 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFAEYP   26 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHCT
T ss_pred             EEEECCCCCCHHHHHHHHHHhCC
Confidence            89999999999999999655554

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=97.52  E-value=2.4e-05  Score=49.45  Aligned_cols=24  Identities=29%  Similarity=0.549  Sum_probs=20.6

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      ++|+++|++||||||+...+..++
T Consensus         1 M~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           1 MNIVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            379999999999999999876544

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.50  E-value=3.8e-05  Score=48.85  Aligned_cols=25  Identities=24%  Similarity=0.256  Sum_probs=20.8

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +..-|+++|++||||||+.+++...
T Consensus         5 kp~iI~i~G~pGSGKsT~a~~La~~   29 (194)
T d1qf9a_           5 KPNVVFVLGGPGSGKGTQCANIVRD   29 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            4456899999999999999997543

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {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: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.48  E-value=9.5e-05  Score=47.74  Aligned_cols=35  Identities=17%  Similarity=0.283  Sum_probs=26.9

Q ss_pred             HHHHhhhccCceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521           6 SGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus         6 ~~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ..+..-+.++.+-.++++|++|||||+++..+..+
T Consensus        32 ~~l~~iL~r~~k~n~lLvG~pGVGKTalv~~LA~r   66 (195)
T d1jbka_          32 RRTIQVLQRRTKNNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             HHHHHHHTSSSSCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHhccCCCCeEEEecCCcccHHHHHHHHHH
Confidence            34455566666778999999999999999885433

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.47  E-value=3.2e-05  Score=48.90  Aligned_cols=23  Identities=22%  Similarity=0.446  Sum_probs=19.7

Q ss_pred             EEEEeCCCCcHHHHHHHHhhccc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      |+++|++|||||||++.+.++++
T Consensus         5 ivl~GpsG~GK~tl~~~L~~~~~   27 (182)
T d1znwa1           5 VVLSGPSAVGKSTVVRCLRERIP   27 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHST
T ss_pred             EEEECCCCCCHHHHHHHHHhhCC
Confidence            78899999999999999766554

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {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: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=97.46  E-value=3.4e-05  Score=46.96  Aligned_cols=22  Identities=23%  Similarity=0.323  Sum_probs=19.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .|+++|++||||||+.+.+...
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~   25 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQ   25 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4999999999999999987654

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {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: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.45  E-value=0.00014  Score=44.93  Aligned_cols=23  Identities=30%  Similarity=0.463  Sum_probs=19.2

Q ss_pred             EEEEeCCCCcHHHHHHHHhhccc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      |++.|++|+|||||+..+-....
T Consensus         4 v~ItG~~GtGKTtl~~~i~~~l~   26 (189)
T d2i3ba1           4 VFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             EEEESCCSSCHHHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHHHH
Confidence            88999999999999999544443

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {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: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.43  E-value=4e-05  Score=48.69  Aligned_cols=24  Identities=21%  Similarity=0.390  Sum_probs=20.0

Q ss_pred             EEEEeCCCCcHHHHHHHHhhcccc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKFTK   43 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~~~   43 (125)
                      |+++|++|+||+||++++..+++.
T Consensus         6 ivl~Gpsg~GK~tl~~~L~~~~~~   29 (178)
T d1kgda_           6 LVLLGAHGVGRRHIKNTLITKHPD   29 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHCTT
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCc
Confidence            899999999999999996555443

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {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: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.38  E-value=0.00012  Score=49.49  Aligned_cols=34  Identities=21%  Similarity=0.225  Sum_probs=27.0

Q ss_pred             HHHHhhhccCceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521           6 SGFYKYMLRKDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus         6 ~~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ..+..-+..+.+-.++++|++|||||+++..+..
T Consensus        28 ~~l~~iL~r~~k~n~lLVG~~GvGKTalv~~la~   61 (268)
T d1r6bx2          28 ERAIQVLCRRRKNNPLLVGESGVGKTAIAEGLAW   61 (268)
T ss_dssp             HHHHHHHTSSSSCEEEEECCTTSSHHHHHHHHHH
T ss_pred             HHHHHHHhcCccCCcEEECCCCCcHHHHHHHHHH
Confidence            4455666667777899999999999999998543

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=97.36  E-value=5.4e-05  Score=47.12  Aligned_cols=23  Identities=26%  Similarity=0.380  Sum_probs=19.1

Q ss_pred             EEEEeCCCCcHHHHHHHHhhccc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      |++.|.+||||||+++++...+.
T Consensus         4 I~i~G~~GsGKsT~~~~L~~~l~   26 (190)
T d1khta_           4 VVVTGVPGVGSTTSSQLAMDNLR   26 (190)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            77889999999999998765443

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {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: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.36  E-value=5.2e-05  Score=48.45  Aligned_cols=23  Identities=30%  Similarity=0.446  Sum_probs=19.7

Q ss_pred             EEEEeCCCCcHHHHHHHHhhccc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      |+++|++|||||||.+++...++
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~~~   25 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQEHS   25 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHhCC
Confidence            89999999999999999655544

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.34  E-value=8.9e-05  Score=46.00  Aligned_cols=23  Identities=26%  Similarity=0.349  Sum_probs=18.2

Q ss_pred             EEEEeCCCCcHHHHHHHHhhccc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      +.++|..|||||||+.++-..+.
T Consensus         4 i~I~G~~gSGKTTli~~l~~~L~   26 (165)
T d1xjca_           4 WQVVGYKHSGKTTLMEKWVAAAV   26 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHH
Confidence            35999999999999999544333

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {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: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.29  E-value=8.3e-05  Score=47.16  Aligned_cols=24  Identities=33%  Similarity=0.450  Sum_probs=20.4

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      ..|+++|++||||||...++.+.+
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999976533

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=97.29  E-value=0.00014  Score=48.33  Aligned_cols=22  Identities=32%  Similarity=0.496  Sum_probs=19.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      -++++|+.|||||||++.+.+-
T Consensus        26 ~~~liGpnGaGKSTll~~i~Gl   47 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHHcC
Confidence            3578999999999999998764

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {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: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=97.27  E-value=0.0002  Score=47.61  Aligned_cols=22  Identities=23%  Similarity=0.344  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      -+.++|++|||||||++.+.+-
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~Gl   54 (240)
T d3dhwc1          33 IYGVIGASGAGKSTLIRCVNLL   54 (240)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            3789999999999999998764

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {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: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.26  E-value=7.8e-05  Score=48.39  Aligned_cols=23  Identities=13%  Similarity=0.248  Sum_probs=19.1

Q ss_pred             EEEEeCCCCcHHHHHHHHhhccc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      ++++|++|||||||.+++...++
T Consensus         5 ivi~GPSG~GK~tl~~~L~~~~p   27 (205)
T d1s96a_           5 YIVSAPSGAGKSSLIQALLKTQP   27 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHhhCC
Confidence            78899999999999999654443

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.26  E-value=5.8e-05  Score=46.92  Aligned_cols=22  Identities=23%  Similarity=0.336  Sum_probs=18.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +|+++|.+||||||+.+.+..+
T Consensus         3 ~IvliG~~G~GKSTig~~La~~   24 (165)
T d2iyva1           3 KAVLVGLPGSGKSTIGRRLAKA   24 (165)
T ss_dssp             SEEEECSTTSSHHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999998886543

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {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: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.25  E-value=8.3e-05  Score=46.86  Aligned_cols=23  Identities=26%  Similarity=0.514  Sum_probs=19.4

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHh
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      +..=|+++|.+||||||+..++.
T Consensus        13 ~p~liil~G~pGsGKST~a~~l~   35 (172)
T d1yj5a2          13 NPEVVVAVGFPGAGKSTFIQEHL   35 (172)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Confidence            44568999999999999999853

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=97.24  E-value=9.7e-05  Score=45.67  Aligned_cols=22  Identities=27%  Similarity=0.329  Sum_probs=18.6

Q ss_pred             EEEEeCCCCcHHHHHHHHhhcc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      |++.|++||||||+.+.+.+++
T Consensus         7 I~l~G~~GsGKSTia~~La~~l   28 (176)
T d1zp6a1           7 LLLSGHPGSGKSTIAEALANLP   28 (176)
T ss_dssp             EEEEECTTSCHHHHHHHHHTCS
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7788999999999998876543

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {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: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.22  E-value=8.8e-05  Score=45.78  Aligned_cols=21  Identities=14%  Similarity=0.439  Sum_probs=17.9

Q ss_pred             EEEEeCCCCcHHHHHHHHhhc
Q psy9521          20 VLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ++++|++||||||+.+.+...
T Consensus         9 ivl~G~~GsGKsT~a~~La~~   29 (171)
T d1knqa_           9 YVLMGVSGSGKSAVASEVAHQ   29 (171)
T ss_dssp             EEEECSTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            667899999999999996544

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=97.21  E-value=0.00011  Score=47.55  Aligned_cols=22  Identities=36%  Similarity=0.437  Sum_probs=19.2

Q ss_pred             EEEEeCCCCcHHHHHHHHhhcc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      ++++|+.|+|||||++.+.+..
T Consensus        30 ~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          30 VNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCChHHHHHHHHhccc
Confidence            7899999999999999986543

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=97.20  E-value=0.00029  Score=46.84  Aligned_cols=22  Identities=32%  Similarity=0.419  Sum_probs=19.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .+.++|++|||||||++.+.+-
T Consensus        31 ~~~liG~sGaGKSTll~~i~gl   52 (240)
T d1g2912          31 FMILLGPSGCGKTTTLRMIAGL   52 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            4789999999999999997754

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {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: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.19  E-value=0.0001  Score=46.90  Aligned_cols=22  Identities=32%  Similarity=0.471  Sum_probs=19.1

Q ss_pred             EEEEeCCCCcHHHHHHHHhhcc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      |+++|++||||||+...+...+
T Consensus        11 I~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_          11 IFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            8889999999999999976544

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=97.18  E-value=9.8e-05  Score=48.09  Aligned_cols=19  Identities=32%  Similarity=0.422  Sum_probs=17.3

Q ss_pred             EEEEeCCCCcHHHHHHHHh
Q psy9521          20 VLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~   38 (125)
                      |+++|..|+|||||++++.
T Consensus         3 i~v~G~~GsGKTTLl~~ll   21 (244)
T d1yrba1           3 VVFVGTAGSGKTTLTGEFG   21 (244)
T ss_dssp             EEEECSTTSSHHHHHHHHH
T ss_pred             EEEEcCCCCcHHHHHHHHH
Confidence            7899999999999999953

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=97.18  E-value=0.00011  Score=45.30  Aligned_cols=23  Identities=17%  Similarity=0.374  Sum_probs=18.7

Q ss_pred             EEEEeCCCCcHHHHHHHHhhccc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      |++.|.+||||||+.+.+...+.
T Consensus         6 I~l~G~~GsGKsTva~~L~~~l~   28 (178)
T d1qhxa_           6 IILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHSS
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            55669999999999999766543

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {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: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=97.18  E-value=0.00013  Score=48.59  Aligned_cols=24  Identities=21%  Similarity=0.292  Sum_probs=20.7

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      =+++++|++|+|||||++.+.+-.
T Consensus        30 e~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          30 EVIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             CEEEEECSTTSSHHHHHHHHTTSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHhcC
Confidence            359999999999999999977643

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=97.17  E-value=0.00011  Score=47.41  Aligned_cols=26  Identities=23%  Similarity=0.291  Sum_probs=21.9

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      ++.|++-|++||||||....|..+|.
T Consensus         3 ~i~IaIdGp~GsGKgT~ak~La~~lg   28 (223)
T d1q3ta_           3 TIQIAIDGPASSGKSTVAKIIAKDFG   28 (223)
T ss_dssp             CCEEEEECSSCSSHHHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHhC
Confidence            56788889999999999999776554

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=97.14  E-value=0.00018  Score=47.55  Aligned_cols=22  Identities=32%  Similarity=0.392  Sum_probs=19.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      -+.++|++|||||||++.+.+-
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~gl   54 (230)
T d1l2ta_          33 FVSIMGPSGSGKSTMLNIIGCL   54 (230)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCcchhhHhccCC
Confidence            3789999999999999988764

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=97.12  E-value=0.00015  Score=45.27  Aligned_cols=23  Identities=26%  Similarity=0.494  Sum_probs=18.5

Q ss_pred             EE-EEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CV-LILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki-~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      || ++.|.+||||||+++.+...+
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L   25 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEIL   25 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            55 567999999999999876544

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=97.10  E-value=0.00013  Score=48.14  Aligned_cols=24  Identities=21%  Similarity=0.200  Sum_probs=19.9

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .-|++.|++|+|||+|...+.+..
T Consensus        33 ~~ilL~GpPGtGKT~la~~la~~~   56 (273)
T d1gvnb_          33 TAFLLGGQPGSGKTSLRSAIFEET   56 (273)
T ss_dssp             EEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHh
Confidence            349999999999999999876543

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=97.10  E-value=0.00012  Score=45.35  Aligned_cols=21  Identities=19%  Similarity=0.460  Sum_probs=18.3

Q ss_pred             EEEEeCCCCcHHHHHHHHhhc
Q psy9521          20 VLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~   40 (125)
                      |+++|.+||||||+.+.+...
T Consensus         3 I~liG~~GsGKsTi~k~La~~   23 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKD   23 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            899999999999999886543

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=97.10  E-value=0.00018  Score=47.91  Aligned_cols=25  Identities=16%  Similarity=0.246  Sum_probs=21.0

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      =+++++|++|+|||||++.+.+-..
T Consensus        29 e~vaivG~sGsGKSTLl~ll~gl~~   53 (242)
T d1mv5a_          29 SIIAFAGPSGGGKSTIFSLLERFYQ   53 (242)
T ss_dssp             EEEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhhC
Confidence            3689999999999999999776443

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=97.09  E-value=0.00016  Score=46.02  Aligned_cols=22  Identities=27%  Similarity=0.463  Sum_probs=18.9

Q ss_pred             EEEEeCCCCcHHHHHHHHhhcc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      |+++|++||||||+..++..++
T Consensus        11 I~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_          11 IFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            8899999999999999976443

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=97.08  E-value=5.2e-05  Score=50.24  Aligned_cols=80  Identities=13%  Similarity=0.096  Sum_probs=39.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccccccCCCCCCcc----ccccceeeEEEEeCCEEEEEEECCCccccccccccccc-Cc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKI----TTTVGLNIGQIDINTVRLNFWDLGGQLELQSLWDKDIR-DC   93 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~----~~t~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~Di~-~~   93 (125)
                      ..+++|.+|||||||++++.+...... +......    ..|......  ..++-  .+.||||-..+. +|..|-. =.
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~~~~~~t-~~vs~~~~rGrHTTt~~~l~--~~~gg--~iiDTPG~r~~~-l~~~~~~~l~  172 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISPELGLRT-NEISEHLGRGKHTTRHVELI--HTSGG--LVADTPGFSSLE-FTDIEEEELG  172 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC--------------------CCCCCEE--EETTE--EEESSCSCSSCC-CTTCCHHHHG
T ss_pred             eEEEECCCCccHHHHHHhhccHhHhhh-cccccccCCCceeeeeEEEE--ecCCC--EEEECCcccccc-ccccCcccch
Confidence            467999999999999999654322111 0000000    122222222  22342  477999987765 3332111 13


Q ss_pred             cCHHHHHHHHh
Q psy9521          94 MGVREVKPIFN  104 (125)
Q Consensus        94 ~s~~~i~~~l~  104 (125)
                      ..|.++..+..
T Consensus       173 ~~F~ei~~~~~  183 (231)
T d1t9ha2         173 YTFPDIREKSS  183 (231)
T ss_dssp             GGSHHHHHHGG
T ss_pred             hhhhhHHHHhC
Confidence            35666655544

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=97.07  E-value=0.0002  Score=47.93  Aligned_cols=22  Identities=23%  Similarity=0.282  Sum_probs=19.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +++++|++|+|||||++.+.+-
T Consensus        43 ~iaivG~sGsGKSTLl~ll~gl   64 (253)
T d3b60a1          43 TVALVGRSGSGKSTIASLITRF   64 (253)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTT
T ss_pred             EEEEECCCCChHHHHHHHHhcc
Confidence            6999999999999999997654

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC 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: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.07  E-value=0.00019  Score=48.04  Aligned_cols=23  Identities=17%  Similarity=0.358  Sum_probs=20.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      +++++|++|+|||||++-+.+-.
T Consensus        42 ~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          42 VTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhccc
Confidence            68999999999999999977643

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=97.07  E-value=0.00022  Score=43.91  Aligned_cols=26  Identities=19%  Similarity=0.438  Sum_probs=20.5

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      +-+-|.++|.+||||||+.+.+....
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L   30 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTL   30 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            34568899999999999988765443

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, 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: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=97.04  E-value=0.0002  Score=47.40  Aligned_cols=22  Identities=27%  Similarity=0.385  Sum_probs=19.2

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      -+.++|++|||||||++.+.+-
T Consensus        28 i~~liGpsGsGKSTLl~~i~Gl   49 (232)
T d2awna2          28 FVVFVGPSGCGKSTLLRMIAGL   49 (232)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            4789999999999999997654

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {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: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.04  E-value=0.00022  Score=48.47  Aligned_cols=23  Identities=26%  Similarity=0.310  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++++|+.|+|||||++.+.+..
T Consensus        64 ~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          64 MLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhCCC
Confidence            58999999999999999977643

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {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: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=97.03  E-value=0.00027  Score=46.92  Aligned_cols=23  Identities=30%  Similarity=0.333  Sum_probs=19.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      -+.++|++|||||||++.+.+-.
T Consensus        34 ~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          34 FLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            37899999999999999977643

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.02  E-value=0.00043  Score=43.31  Aligned_cols=29  Identities=24%  Similarity=0.293  Sum_probs=22.8

Q ss_pred             ccCceEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          13 LRKDEFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        13 ~~~~~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .....+=|.+.|++|||||||.+++...+
T Consensus        18 ~~~~~~iIgI~G~~GSGKSTla~~L~~~l   46 (198)
T d1rz3a_          18 KTAGRLVLGIDGLSRSGKTTLANQLSQTL   46 (198)
T ss_dssp             CCSSSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             cCCCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            34456668899999999999999975433

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal 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: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=96.99  E-value=0.00029  Score=46.87  Aligned_cols=22  Identities=36%  Similarity=0.395  Sum_probs=19.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .+.++|++|||||||++.+.+-
T Consensus        33 ~~~iiG~sGsGKSTll~~i~gl   54 (242)
T d1oxxk2          33 RFGILGPSGAGKTTFMRIIAGL   54 (242)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTS
T ss_pred             EEEEECCCCCcHHHHHHHHHcC
Confidence            4889999999999999998764

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=96.99  E-value=0.00023  Score=45.09  Aligned_cols=28  Identities=39%  Similarity=0.439  Sum_probs=23.9

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++.+-|++-|..||||||+++.+.+.+
T Consensus         6 ~~kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           6 GTQPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             TCCCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHHHh
Confidence            3567789999999999999999987654

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {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: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.97  E-value=0.00014  Score=45.73  Aligned_cols=24  Identities=33%  Similarity=0.380  Sum_probs=19.9

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .-|.++|.+||||||+.+.+...+
T Consensus        20 ~vI~L~G~pGSGKTTiAk~La~~l   43 (195)
T d1x6va3          20 CTVWLTGLSGAGKTTVSMALEEYL   43 (195)
T ss_dssp             EEEEEESSCHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHH
Confidence            457788999999999999976544

>d1jwyb_ c.37.1.8 (B:) Dynamin G domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=96.96  E-value=0.0003  Score=47.75  Aligned_cols=21  Identities=24%  Similarity=0.499  Sum_probs=18.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +|+|+|+.++|||||++.+-+
T Consensus        26 ~ivVvG~~ssGKSSliNaLlG   46 (306)
T d1jwyb_          26 QIVVVGSQSSGKSSVLENIVG   46 (306)
T ss_dssp             EEEEEECSSSSHHHHHHHHHT
T ss_pred             eEEEEeCCCCCHHHHHHHHhC
Confidence            699999999999999999543

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {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: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.95  E-value=0.00051  Score=44.05  Aligned_cols=27  Identities=15%  Similarity=0.197  Sum_probs=22.1

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhcccc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKFTK   43 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~~~   43 (125)
                      .+-|.+.|.+|||||||.+.+...+..
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~l~~   28 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQLLGQ   28 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhch
Confidence            355889999999999999997665543

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {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: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=96.94  E-value=0.00036  Score=49.39  Aligned_cols=31  Identities=23%  Similarity=0.396  Sum_probs=24.5

Q ss_pred             HHHHhhhccCceEEEEEEeCCCCcHHHHHHH
Q psy9521           6 SGFYKYMLRKDEFCVLILGLDNAGKTTYLES   36 (125)
Q Consensus         6 ~~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~   36 (125)
                      ..+..-+..+.+-.++++|++|||||+++..
T Consensus        32 ~~~~~~L~r~~k~n~llvG~~GvGKtaiv~~   62 (387)
T d1qvra2          32 RRVIQILLRRTKNNPVLIGEPGVGKTAIVEG   62 (387)
T ss_dssp             HHHHHHHHCSSCCCCEEEECTTSCHHHHHHH
T ss_pred             HHHHHHHhcCCCCCCeEECCCCCCHHHHHHH
Confidence            3455556666777799999999999999975

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=96.93  E-value=0.00025  Score=44.14  Aligned_cols=20  Identities=20%  Similarity=0.316  Sum_probs=17.7

Q ss_pred             EEEEeCCCCcHHHHHHHHhh
Q psy9521          20 VLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~   39 (125)
                      |+++|.+||||||+.+.+..
T Consensus         5 Iil~G~~GsGKSTia~~LA~   24 (170)
T d1e6ca_           5 IFMVGARGCGMTTVGRELAR   24 (170)
T ss_dssp             EEEESCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999998653

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {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: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=96.90  E-value=0.00027  Score=46.11  Aligned_cols=23  Identities=30%  Similarity=0.381  Sum_probs=19.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .+++.|++|+|||++++.+....
T Consensus        37 ~~L~~GPpGtGKT~lA~~la~~~   59 (238)
T d1in4a2          37 HVLLAGPPGLGKTTLAHIIASEL   59 (238)
T ss_dssp             CEEEESSTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHhcc
Confidence            49999999999999999865433

>d2akab1 c.37.1.8 (B:6-304) Dynamin G domain {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: Dynamin G domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.90  E-value=0.00088  Score=45.13  Aligned_cols=21  Identities=29%  Similarity=0.412  Sum_probs=18.8

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +|+|+|+.++|||||++.+-+
T Consensus        28 ~ivvvG~~SsGKSsliNaLlg   48 (299)
T d2akab1          28 QIAVVGGQSAGKSSVLENFVG   48 (299)
T ss_dssp             EEEEEEBTTSCHHHHHHHHHT
T ss_pred             eEEEEcCCCCCHHHHHHHHhC
Confidence            699999999999999999543

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {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: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=96.89  E-value=0.00027  Score=46.20  Aligned_cols=22  Identities=27%  Similarity=0.377  Sum_probs=19.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .+++.|++|+|||++++.+.+.
T Consensus        37 ~~Ll~GPpG~GKTtla~~la~~   58 (239)
T d1ixsb2          37 HLLLFGPPGLGKTTLAHVIAHE   58 (239)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4999999999999999986543

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.87  E-value=0.00044  Score=44.87  Aligned_cols=32  Identities=22%  Similarity=0.176  Sum_probs=22.6

Q ss_pred             HHHhhhccCceEEEEEEeCCCCcHHHHHHHHh
Q psy9521           7 GFYKYMLRKDEFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus         7 ~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      .+...+..++.-.+++.|++|+|||++++.+.
T Consensus        35 ~l~~~i~~~~~~~lll~Gp~G~GKTtla~~ia   66 (231)
T d1iqpa2          35 RLKHYVKTGSMPHLLFAGPPGVGKTTAALALA   66 (231)
T ss_dssp             HHHHHHHHTCCCEEEEESCTTSSHHHHHHHHH
T ss_pred             HHHHHHHcCCCCeEEEECCCCCcHHHHHHHHH
Confidence            33444433333359999999999999999854

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {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: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=96.87  E-value=0.00074  Score=44.76  Aligned_cols=25  Identities=24%  Similarity=0.276  Sum_probs=20.9

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .+...|++.|++|+|||++++.+.+
T Consensus        38 ~p~~~vLL~GppGtGKT~la~alA~   62 (246)
T d1d2na_          38 TPLVSVLLEGPPHSGKTALAAKIAE   62 (246)
T ss_dssp             CSEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHhh
Confidence            3455699999999999999999654

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=96.86  E-value=0.00021  Score=47.94  Aligned_cols=23  Identities=22%  Similarity=0.319  Sum_probs=19.9

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          18 FCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      =+++++|++|+|||||++-+.+-
T Consensus        45 e~vaivG~sGsGKSTLl~ll~gl   67 (255)
T d2hyda1          45 ETVAFVGMSGGGKSTLINLIPRF   67 (255)
T ss_dssp             CEEEEECSTTSSHHHHHTTTTTS
T ss_pred             CEEEEECCCCCcHHHHHHHHHhc
Confidence            36899999999999999987653

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=96.83  E-value=0.00025  Score=46.78  Aligned_cols=21  Identities=43%  Similarity=0.525  Sum_probs=19.1

Q ss_pred             EEEEeCCCCcHHHHHHHHhhc
Q psy9521          20 VLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +.++|++|||||||++.+.+-
T Consensus        29 ~~liGpsGaGKSTll~~l~Gl   49 (229)
T d3d31a2          29 FVILGPTGAGKTLFLELIAGF   49 (229)
T ss_dssp             EEEECCCTHHHHHHHHHHHTS
T ss_pred             EEEECCCCCcHHHHHHHHhcC
Confidence            789999999999999998764

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=96.78  E-value=0.00041  Score=46.00  Aligned_cols=22  Identities=36%  Similarity=0.486  Sum_probs=19.5

Q ss_pred             EEEEeCCCCcHHHHHHHHhhcc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      +.++|+.|+|||||++.+.+-.
T Consensus        35 ~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          35 VTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCcHHHHHHHHhCCC
Confidence            7899999999999999987643

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal 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: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.77  E-value=0.0018  Score=43.68  Aligned_cols=62  Identities=19%  Similarity=0.163  Sum_probs=37.2

Q ss_pred             eEE-EEEEeCCCCcHHHHHHHHhhccccccCCCCCCccccccceeeEEEEe---CCEEEEEEECCCcc
Q psy9521          17 EFC-VLILGLDNAGKTTYLESAKTKFTKNYKGMNPSKITTTVGLNIGQIDI---NTVRLNFWDLGGQL   80 (125)
Q Consensus        17 ~~k-i~v~G~~~~GKTsl~~~i~~~~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~~i~D~~G~~   80 (125)
                      .+. |.++|+.++|||+|++++-+....-  ......-..|.|+-+.....   .+..+-+.|+.|-.
T Consensus        31 ~v~vvsi~G~~~sGKS~llN~l~~~~~~f--~~~~~~~~~T~Giw~~~~~~~~~~~~~~~~lDteG~~   96 (277)
T d1f5na2          31 PMVVVAIVGLYRTGKSYLMNKLAGKKKGF--SLGSTVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLG   96 (277)
T ss_dssp             BEEEEEEEEBTTSSHHHHHHHHTTCSSCS--CCCCSSSCCCCSEEEEEEECSSSTTCEEEEEEECCBC
T ss_pred             CEEEEEEECCCCCCHHHHHHHHcCCCCCC--ccCCCCCCCCCceEEEEeeccCCCCceEEEEeccccc
Confidence            344 7789999999999999954322110  01111122466665432222   34788899999864

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {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: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=96.75  E-value=0.00042  Score=45.45  Aligned_cols=19  Identities=32%  Similarity=0.632  Sum_probs=17.1

Q ss_pred             EEEEEeCCCCcHHHHHHHH
Q psy9521          19 CVLILGLDNAGKTTYLESA   37 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i   37 (125)
                      -+++.|++|+|||||+.++
T Consensus        31 ~i~i~G~~G~GKTsLl~~~   49 (283)
T d2fnaa2          31 ITLVLGLRRTGKSSIIKIG   49 (283)
T ss_dssp             EEEEEESTTSSHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHH
Confidence            4788899999999999984

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {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: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=96.75  E-value=0.00047  Score=45.67  Aligned_cols=22  Identities=36%  Similarity=0.407  Sum_probs=19.4

Q ss_pred             EEEEeCCCCcHHHHHHHHhhcc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      +.++|+.|+|||||++.+.+..
T Consensus        31 ~glvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          31 FGLIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             EEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCCHHHHHHHHhcCC
Confidence            6799999999999999987654

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.74  E-value=0.00042  Score=47.41  Aligned_cols=22  Identities=23%  Similarity=0.321  Sum_probs=19.0

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhh
Q psy9521          18 FCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      --++++||+|||||.|.+.+.+
T Consensus        50 ~~iLl~GPpG~GKT~lAkalA~   71 (309)
T d1ofha_          50 KNILMIGPTGVGKTEIARRLAK   71 (309)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHhh
Confidence            3489999999999999998653

>d1ckea_ c.37.1.1 (A:) CMP kinase {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: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=96.73  E-value=0.00043  Score=44.25  Aligned_cols=23  Identities=26%  Similarity=0.317  Sum_probs=19.2

Q ss_pred             EEEEeCCCCcHHHHHHHHhhccc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      |++.|++||||+|+...+.++|.
T Consensus         6 I~I~GppGSGKgT~ak~La~~~g   28 (225)
T d1ckea_           6 ITIDGPSGAGKGTLCKAMAEALQ   28 (225)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            56669999999999999776654

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {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: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=96.71  E-value=0.00032  Score=46.25  Aligned_cols=21  Identities=29%  Similarity=0.442  Sum_probs=18.9

Q ss_pred             EEEEeCCCCcHHHHHHHHhhc
Q psy9521          20 VLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +.++|+.|+|||||++.+.+-
T Consensus        28 ~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          28 LHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             EECBCCTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCcHHHHHHHHhCC
Confidence            789999999999999998763

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=96.69  E-value=0.00066  Score=44.23  Aligned_cols=30  Identities=23%  Similarity=0.488  Sum_probs=23.8

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHhhcccc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAKTKFTK   43 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~~~~~~   43 (125)
                      +++..-|+++|+.||||||-+.++...+..
T Consensus         8 ~~~p~vi~lvGptGvGKTTTiAKLAa~~~~   37 (213)
T d1vmaa2           8 PEPPFVIMVVGVNGTGKTTSCGKLAKMFVD   37 (213)
T ss_dssp             SSSCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            456777999999999999998886555543

>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=96.68  E-value=0.00075  Score=46.57  Aligned_cols=25  Identities=24%  Similarity=0.312  Sum_probs=22.0

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHh
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      .++-++|-+.|++|+|||||+.++-
T Consensus        48 ~~~~~~igitG~pGaGKSTli~~l~   72 (323)
T d2qm8a1          48 TGRAIRVGITGVPGVGKSTTIDALG   72 (323)
T ss_dssp             CCCSEEEEEECCTTSCHHHHHHHHH
T ss_pred             cCCceEEeeeCCCCCCHHHHHHHHH
Confidence            3578999999999999999999943

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {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: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.67  E-value=0.00073  Score=43.68  Aligned_cols=32  Identities=19%  Similarity=0.211  Sum_probs=22.3

Q ss_pred             HHHHhhhccCceEEEEEEeCCCCcHHHHHHHH
Q psy9521           6 SGFYKYMLRKDEFCVLILGLDNAGKTTYLESA   37 (125)
Q Consensus         6 ~~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i   37 (125)
                      ..+...+.....-.+++.|++|+||||+++.+
T Consensus        25 ~~L~~~~~~~~~~~~ll~Gp~G~GKTt~a~~l   56 (224)
T d1sxjb2          25 DRLQQIAKDGNMPHMIISGMPGIGKTTSVHCL   56 (224)
T ss_dssp             HHHHHHHHSCCCCCEEEECSTTSSHHHHHHHH
T ss_pred             HHHHHHHHcCCCCeEEEECCCCCCchhhHHHH
Confidence            33444443333335999999999999999874

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=96.67  E-value=0.00054  Score=44.86  Aligned_cols=22  Identities=27%  Similarity=0.220  Sum_probs=19.0

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhh
Q psy9521          18 FCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      -.+++.|++|+|||++++.+..
T Consensus        44 ~~lll~GppGtGKT~l~~~l~~   65 (276)
T d1fnna2          44 PRATLLGRPGTGKTVTLRKLWE   65 (276)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999998544

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.65  E-value=0.00058  Score=45.61  Aligned_cols=22  Identities=27%  Similarity=0.489  Sum_probs=19.5

Q ss_pred             EEEEeCCCCcHHHHHHHHhhcc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      +.++|+.|+|||||++.+.+-.
T Consensus        33 ~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          33 TLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCcHHHHHHHHHCCC
Confidence            6899999999999999987653

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.59  E-value=0.00056  Score=43.49  Aligned_cols=24  Identities=38%  Similarity=0.547  Sum_probs=20.1

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      -|++-|..||||||++..+.+.+.
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~   25 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFR   25 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            488999999999999998765543

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {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: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=96.59  E-value=0.001  Score=44.07  Aligned_cols=31  Identities=23%  Similarity=0.243  Sum_probs=22.7

Q ss_pred             HhhhccCceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521           9 YKYMLRKDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus         9 ~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      |..+..+..-.+++.|++|+|||++++.+.+
T Consensus        34 ~~~~g~~~~~giLl~GppGtGKT~la~aia~   64 (247)
T d1ixza_          34 FHEMGARIPKGVLLVGPPGVGKTHLARAVAG   64 (247)
T ss_dssp             HHHTTCCCCSEEEEECCTTSSHHHHHHHHHH
T ss_pred             HHHcCCCCCceEEEecCCCCChhHHHHHHHH
Confidence            3333333334599999999999999999654

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {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: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.59  E-value=0.00069  Score=44.30  Aligned_cols=21  Identities=24%  Similarity=0.300  Sum_probs=18.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .+++.|++|+|||+++..+.+
T Consensus        54 ~lll~GPpG~GKTt~a~~la~   74 (253)
T d1sxja2          54 AAMLYGPPGIGKTTAAHLVAQ   74 (253)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            599999999999999999544

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.57  E-value=0.00065  Score=45.49  Aligned_cols=22  Identities=27%  Similarity=0.507  Sum_probs=19.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      .+.++|++|+|||||++.+.+-
T Consensus        30 i~~iiG~sGsGKSTLl~~i~Gl   51 (258)
T d1b0ua_          30 VISIIGSSGSGKSTFLRCINFL   51 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHHcC
Confidence            4789999999999999998753

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.50  E-value=0.0012  Score=42.67  Aligned_cols=31  Identities=16%  Similarity=0.268  Sum_probs=24.4

Q ss_pred             HhhhccCceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521           9 YKYMLRKDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus         9 ~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ......++..-|.+.|.+|+|||||.+.+..
T Consensus        16 r~~~~~~kg~vIwltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          16 RTELRNQRGLTIWLTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             HHHHHTSSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHhCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3444556677799999999999999988653

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {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: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.49  E-value=0.0011  Score=42.79  Aligned_cols=20  Identities=25%  Similarity=0.375  Sum_probs=17.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHh
Q psy9521          19 CVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~   38 (125)
                      .+++.|++|+|||+++..+.
T Consensus        37 ~lLl~Gp~G~GKttl~~~la   56 (227)
T d1sxjc2          37 HLLFYGPPGTGKTSTIVALA   56 (227)
T ss_dssp             CEEEECSSSSSHHHHHHHHH
T ss_pred             eEEEECCCCCChhHHHHHHH
Confidence            58999999999999999843

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {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: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.46  E-value=0.0014  Score=43.63  Aligned_cols=32  Identities=22%  Similarity=0.276  Sum_probs=22.9

Q ss_pred             HHhhhccCceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521           8 FYKYMLRKDEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus         8 ~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .|+.+-....-.+++.|++|+|||++++.+..
T Consensus        29 ~~~~~g~~~~~giLL~GppGtGKT~l~~ala~   60 (258)
T d1e32a2          29 LFKAIGVKPPRGILLYGPPGTGKTLIARAVAN   60 (258)
T ss_dssp             HHHHCCCCCCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             HHHhCCCCCCceeEEecCCCCCchHHHHHHHH
Confidence            34433223344699999999999999998654

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {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: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.45  E-value=0.0013  Score=42.48  Aligned_cols=20  Identities=25%  Similarity=0.365  Sum_probs=17.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHh
Q psy9521          19 CVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~   38 (125)
                      .+++.|++|+|||++++.+.
T Consensus        35 ~lll~Gp~G~GKTtl~~~i~   54 (237)
T d1sxjd2          35 HMLFYGPPGTGKTSTILALT   54 (237)
T ss_dssp             CEEEECSTTSSHHHHHHHHH
T ss_pred             eEEEECCCCCChHHHHHHHH
Confidence            38999999999999999843

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=96.36  E-value=0.0013  Score=45.25  Aligned_cols=24  Identities=33%  Similarity=0.473  Sum_probs=20.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .|++.|+.|+||||+++.+-+..+
T Consensus       168 nili~G~tgSGKTT~l~al~~~i~  191 (323)
T d1g6oa_         168 NVIVCGGTGSGKTTYIKSIMEFIP  191 (323)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGGSC
T ss_pred             CEEEEeeccccchHHHHHHhhhcc
Confidence            499999999999999999654443

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=96.31  E-value=0.0015  Score=42.43  Aligned_cols=27  Identities=30%  Similarity=0.621  Sum_probs=21.4

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      ...=|+++|+.||||||-+.++...+.
T Consensus         8 ~p~vi~lvGptGvGKTTTiAKLA~~~~   34 (211)
T d2qy9a2           8 APFVILMVGVNGVGKTTTIGKLARQFE   34 (211)
T ss_dssp             TTEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            345588999999999999999654454

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=96.30  E-value=0.0012  Score=42.76  Aligned_cols=24  Identities=29%  Similarity=0.552  Sum_probs=19.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      -++++|+.||||||-+.++...+.
T Consensus         8 vi~lvGptGvGKTTTiaKLA~~~~   31 (207)
T d1okkd2           8 VVLVVGVNGVGKTTTIAKLGRYYQ   31 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            478899999999999988654443

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.29  E-value=0.00099  Score=47.88  Aligned_cols=21  Identities=24%  Similarity=0.389  Sum_probs=19.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +|+++||+|||||-|.+++..
T Consensus        51 NILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          51 NILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            699999999999999999753

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {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: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.29  E-value=0.0012  Score=42.23  Aligned_cols=22  Identities=36%  Similarity=0.499  Sum_probs=18.7

Q ss_pred             EEEEeCCCCcHHHHHHHHhhcc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      |++-|..||||||++..+.+.+
T Consensus         5 IviEG~dGsGKsT~~~~L~~~L   26 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVVETL   26 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            7888999999999999876544

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=96.27  E-value=0.0021  Score=42.11  Aligned_cols=21  Identities=24%  Similarity=0.165  Sum_probs=16.6

Q ss_pred             EEEEeCCCCcHHHHHHHHhhc
Q psy9521          20 VLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +++.|++|+|||++++.+...
T Consensus        49 l~l~GppGtGKT~l~~~l~~~   69 (287)
T d1w5sa2          49 YGSIGRVGIGKTTLAKFTVKR   69 (287)
T ss_dssp             EECTTCCSSSHHHHHHHHHHH
T ss_pred             EEeECCCCCCHHHHHHHHHHH
Confidence            345699999999999995433

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=96.25  E-value=0.0012  Score=42.74  Aligned_cols=23  Identities=26%  Similarity=0.421  Sum_probs=18.9

Q ss_pred             EEEEeCCCCcHHHHHHHHhhccc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      ++++|++||||||.+.++...+.
T Consensus        13 i~lvGp~GvGKTTTiaKLA~~~~   35 (207)
T d1ls1a2          13 WFLVGLQGSGKTTTAAKLALYYK   35 (207)
T ss_dssp             EEEECCTTTTHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            67899999999999998654444

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=96.19  E-value=0.037  Score=34.00  Aligned_cols=25  Identities=28%  Similarity=0.267  Sum_probs=20.6

Q ss_pred             CceEEEEEEeCCCCcHHHHHHH-Hhh
Q psy9521          15 KDEFCVLILGLDNAGKTTYLES-AKT   39 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~-i~~   39 (125)
                      ++..-|++-|+=|+|||+|++. ++.
T Consensus        31 ~~g~ii~L~G~LGaGKTtfvr~~~~~   56 (158)
T d1htwa_          31 EKAIMVYLNGDLGAGKTTLTRGMLQG   56 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEecCCCccHHHHHHHHHhh
Confidence            4556688899999999999999 443

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {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: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.19  E-value=0.0011  Score=43.18  Aligned_cols=20  Identities=25%  Similarity=0.330  Sum_probs=17.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHh
Q psy9521          19 CVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~   38 (125)
                      .+++.|++|+|||+++..+.
T Consensus        35 ~lll~Gp~G~GKTt~~~~la   54 (252)
T d1sxje2          35 HLLLYGPNGTGKKTRCMALL   54 (252)
T ss_dssp             CEEEECSTTSSHHHHHHTHH
T ss_pred             eEEEECCCCCCHHHHHHHHH
Confidence            49999999999999999844

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {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: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=96.18  E-value=0.0014  Score=43.69  Aligned_cols=22  Identities=27%  Similarity=0.317  Sum_probs=19.1

Q ss_pred             EEEEEEeCCCCcHHHHHHHHhh
Q psy9521          18 FCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      -.+++.|++|+|||++++.+..
T Consensus        46 ~~iLL~GppGtGKT~la~~iA~   67 (256)
T d1lv7a_          46 KGVLMVGPPGTGKTLLAKAIAG   67 (256)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEeeCCCCCCccHHHHHHHH
Confidence            3499999999999999999654

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {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: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.15  E-value=0.0012  Score=42.71  Aligned_cols=24  Identities=29%  Similarity=0.281  Sum_probs=20.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .|++-|..||||||+++.+.+.+.
T Consensus         4 ~I~ieG~dGsGKST~~~~L~~~l~   27 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNILKQLCE   27 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHh
Confidence            388889999999999999776553

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=96.11  E-value=0.0017  Score=42.13  Aligned_cols=28  Identities=18%  Similarity=0.386  Sum_probs=17.7

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      ++..-|+++|+.||||||.+.++...+.
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~   37 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYK   37 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            3455588899999999999888654444

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {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: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.08  E-value=0.0027  Score=42.36  Aligned_cols=25  Identities=24%  Similarity=0.264  Sum_probs=20.7

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~   40 (125)
                      ..-.|++.|++|+|||+|++.+.+.
T Consensus        40 ~~~giLL~Gp~GtGKT~l~~ala~~   64 (265)
T d1r7ra3          40 PSKGVLFYGPPGCGKTLLAKAIANE   64 (265)
T ss_dssp             CCCEEEEBCCTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcchhHHHHHHHH
Confidence            3445999999999999999996543

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {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: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=96.08  E-value=0.0028  Score=39.73  Aligned_cols=24  Identities=21%  Similarity=0.209  Sum_probs=20.0

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ..+=|.+.|..||||||+.+.+..
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            456688999999999999988653

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {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: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.04  E-value=0.0022  Score=41.57  Aligned_cols=25  Identities=20%  Similarity=0.316  Sum_probs=21.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcccc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKFTK   43 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~~~   43 (125)
                      -|++=|..||||||+++.+...+..
T Consensus         4 ~IviEG~~GsGKST~~~~L~~~l~~   28 (241)
T d2ocpa1           4 RLSIEGNIAVGKSTFVKLLTKTYPE   28 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHCTT
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHhh
Confidence            3888899999999999998766543

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {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: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.99  E-value=0.0021  Score=41.35  Aligned_cols=22  Identities=27%  Similarity=0.453  Sum_probs=17.9

Q ss_pred             EEEEeCCCCcHHHHHHHHhhcc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      |++-|..||||||++..+.+.+
T Consensus         6 I~ieG~dGsGKsT~~~~L~~~L   27 (209)
T d1nn5a_           6 IVLEGVDRAGKSTQSRKLVEAL   27 (209)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6777999999999888865543

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic 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: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.87  E-value=0.0025  Score=39.77  Aligned_cols=18  Identities=22%  Similarity=0.237  Sum_probs=16.5

Q ss_pred             EEEEeCCCCcHHHHHHHH
Q psy9521          20 VLILGLDNAGKTTYLESA   37 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i   37 (125)
                      +++.|++|+|||+|+.++
T Consensus        26 ~~i~G~~GsGKT~l~l~l   43 (242)
T d1n0wa_          26 TEMFGEFRTGKTQICHTL   43 (242)
T ss_dssp             EEEECCTTSSHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHH
Confidence            788999999999999984

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {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: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=95.86  E-value=0.0051  Score=42.05  Aligned_cols=28  Identities=18%  Similarity=0.240  Sum_probs=23.4

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .+..+=|.+.|.+||||||+.+.+...+
T Consensus        77 ~k~P~iIGIaG~sgSGKSTla~~L~~lL  104 (308)
T d1sq5a_          77 QRIPYIISIAGSVAVGKSTTARVLQALL  104 (308)
T ss_dssp             CCCCEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCCCcHHHHHHHHHH
Confidence            4567889999999999999999876544

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=95.79  E-value=0.0027  Score=42.51  Aligned_cols=22  Identities=23%  Similarity=0.407  Sum_probs=18.4

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHh
Q psy9521          17 EFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      ..-|.+.|.+|+|||||+..+.
T Consensus        44 ~~~v~I~GmgGiGKTtLA~~v~   65 (277)
T d2a5yb3          44 SFFLFLHGRAGSGKSVIASQAL   65 (277)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHH
Confidence            3457799999999999999853

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {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: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.73  E-value=0.0036  Score=40.30  Aligned_cols=22  Identities=45%  Similarity=0.564  Sum_probs=18.7

Q ss_pred             EEEEeCCCCcHHHHHHHHhhcc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      |++-|..||||||+++.+.+.+
T Consensus         6 I~iEG~DGsGKST~~~~L~~~L   27 (214)
T d1tmka_           6 ILIEGLDRTGKTTQCNILYKKL   27 (214)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCcHHHHHHHHHHHH
Confidence            8889999999999998876544

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=95.67  E-value=0.0036  Score=40.48  Aligned_cols=18  Identities=22%  Similarity=0.277  Sum_probs=16.5

Q ss_pred             EEEEeCCCCcHHHHHHHH
Q psy9521          20 VLILGLDNAGKTTYLESA   37 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i   37 (125)
                      +++.|++|+|||+|..++
T Consensus        39 ~li~G~pGsGKT~~~lq~   56 (254)
T d1pzna2          39 TEVFGEFGSGKTQLAHTL   56 (254)
T ss_dssp             EEEEESTTSSHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHH
Confidence            788999999999999983

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic 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: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.66  E-value=0.0035  Score=40.17  Aligned_cols=18  Identities=17%  Similarity=0.237  Sum_probs=16.5

Q ss_pred             EEEEeCCCCcHHHHHHHH
Q psy9521          20 VLILGLDNAGKTTYLESA   37 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i   37 (125)
                      +++.|++|+|||+|..++
T Consensus        37 ~li~G~pGsGKT~l~lq~   54 (251)
T d1szpa2          37 TELFGEFRTGKSQLCHTL   54 (251)
T ss_dssp             EEEEESTTSSHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHH
Confidence            788999999999999983

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {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: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=95.59  E-value=0.00062  Score=42.37  Aligned_cols=18  Identities=28%  Similarity=0.342  Sum_probs=15.9

Q ss_pred             EEEeCCCCcHHHHHHHHh
Q psy9521          21 LILGLDNAGKTTYLESAK   38 (125)
Q Consensus        21 ~v~G~~~~GKTsl~~~i~   38 (125)
                      +++|+.|+|||||+..+.
T Consensus        28 vi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          28 TLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHSCCSHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            567999999999999864

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=95.56  E-value=0.0045  Score=38.95  Aligned_cols=22  Identities=27%  Similarity=0.314  Sum_probs=18.7

Q ss_pred             EEEEEEeCCCCcHHHHHHH-Hhh
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKT   39 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~   39 (125)
                      .-|++.|++|+|||++... +..
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            3489999999999999998 553

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=95.56  E-value=0.0036  Score=43.70  Aligned_cols=23  Identities=22%  Similarity=0.390  Sum_probs=19.5

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHh
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      +.-.++++|++|||||-|.+++.
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA   89 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLA   89 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHH
T ss_pred             CCcceeeeCCCCccHHHHHHHHH
Confidence            34459999999999999999864

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=95.56  E-value=0.0043  Score=40.06  Aligned_cols=20  Identities=25%  Similarity=0.320  Sum_probs=17.4

Q ss_pred             EEEEEeCCCCcHHHHHHHHh
Q psy9521          19 CVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~   38 (125)
                      =+++.|++|+|||+|+.++.
T Consensus        28 l~li~G~pGsGKT~l~~qia   47 (242)
T d1tf7a2          28 IILATGATGTGKTLLVSRFV   47 (242)
T ss_dssp             EEEEEECTTSSHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHH
Confidence            37888999999999999943

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=95.55  E-value=0.0019  Score=44.16  Aligned_cols=21  Identities=29%  Similarity=0.441  Sum_probs=18.9

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .+++.|++|+|||+|++++..
T Consensus        30 ~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_          30 GVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             CEEEECCGGGCTTHHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHHHH
Confidence            599999999999999998654

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {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: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=95.52  E-value=0.0053  Score=41.89  Aligned_cols=24  Identities=21%  Similarity=0.115  Sum_probs=20.0

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +.--++++|++|||||.|...+..
T Consensus        51 p~~~~lf~Gp~GvGKT~lak~la~   74 (315)
T d1r6bx3          51 PVGSFLFAGPTGVGKTEVTVQLSK   74 (315)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CceEEEEECCCcchhHHHHHHHHh
Confidence            344689999999999999998653

>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=95.52  E-value=0.0034  Score=40.78  Aligned_cols=20  Identities=40%  Similarity=0.524  Sum_probs=17.2

Q ss_pred             EEEEeCCCCcHHHHHHH-Hhh
Q psy9521          20 VLILGLDNAGKTTYLES-AKT   39 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~-i~~   39 (125)
                      .++.|.-|+|||||+++ +..
T Consensus         6 ~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           6 TLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             EEEEESSSSSCHHHHHHHHHS
T ss_pred             EEEeeCCCCCHHHHHHHHHhc
Confidence            57789999999999999 553

>d1e69a_ c.37.1.12 (A:) Smc head 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: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=95.40  E-value=0.003  Score=42.27  Aligned_cols=19  Identities=26%  Similarity=0.574  Sum_probs=16.3

Q ss_pred             EEEEeCCCCcHHHHHHHHh
Q psy9521          20 VLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~   38 (125)
                      -+++|+.|+|||+++..+.
T Consensus        27 nvlvG~NgsGKS~iL~Ai~   45 (308)
T d1e69a_          27 TAIVGPNGSGKSNIIDAIK   45 (308)
T ss_dssp             EEEECCTTTCSTHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHH
Confidence            3789999999999998753

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=95.34  E-value=0.0058  Score=38.49  Aligned_cols=21  Identities=24%  Similarity=0.298  Sum_probs=18.2

Q ss_pred             EEEEEEeCCCCcHHHHHHH-Hh
Q psy9521          18 FCVLILGLDNAGKTTYLES-AK   38 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~   38 (125)
                      .-+++.|++|+|||++... +.
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~   37 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLIN   37 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            3489999999999999988 54

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=95.33  E-value=0.0016  Score=44.17  Aligned_cols=25  Identities=20%  Similarity=0.355  Sum_probs=18.5

Q ss_pred             EEEEeCCCCcHHHHHHHHhhccccc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKFTKN   44 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~~~~   44 (125)
                      |.+.|.+||||||+.+.+.+.|..+
T Consensus         7 IgIaG~SGSGKTTva~~l~~i~~~~   31 (288)
T d1a7ja_           7 ISVTGSSGAGTSTVKHTFDQIFRRE   31 (288)
T ss_dssp             EEEESCC---CCTHHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHHHhhc
Confidence            8999999999999999987766543

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=95.23  E-value=0.0059  Score=38.99  Aligned_cols=18  Identities=22%  Similarity=0.344  Sum_probs=16.5

Q ss_pred             EEEEeCCCCcHHHHHHHH
Q psy9521          20 VLILGLDNAGKTTYLESA   37 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i   37 (125)
                      +++.|++|+|||+|..++
T Consensus        37 ~~i~G~~G~GKT~~~l~~   54 (258)
T d2i1qa2          37 TEFAGVFGSGKTQIMHQS   54 (258)
T ss_dssp             EEEEESTTSSHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHH
Confidence            788899999999999993

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=95.21  E-value=0.0072  Score=37.74  Aligned_cols=22  Identities=32%  Similarity=0.283  Sum_probs=18.6

Q ss_pred             EEEEEEeCCCCcHHHHHHH-Hhh
Q psy9521          18 FCVLILGLDNAGKTTYLES-AKT   39 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~-i~~   39 (125)
                      .-+++.|++|+|||++... +..
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            4589999999999999988 553

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=95.20  E-value=0.009  Score=41.20  Aligned_cols=27  Identities=15%  Similarity=0.106  Sum_probs=22.6

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhhccc
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKTKFT   42 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~~~~   42 (125)
                      .-++|.+=|..||||||+++.+.+.+.
T Consensus         5 ~~~rI~iEG~iGsGKSTl~~~L~~~l~   31 (333)
T d1p6xa_           5 TIVRIYLDGVYGIGKSTTGRVMASAAS   31 (333)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHSGGG
T ss_pred             ceEEEEEECCccCCHHHHHHHHHHHhc
Confidence            347899999999999999999876543

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=95.19  E-value=0.0056  Score=42.06  Aligned_cols=21  Identities=29%  Similarity=0.483  Sum_probs=17.3

Q ss_pred             EEEEeCCCCcHHHHHHHHhhc
Q psy9521          20 VLILGLDNAGKTTYLESAKTK   40 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~   40 (125)
                      +++.|++|+|||.|.+.+.+.
T Consensus       126 ~l~~G~pG~GKT~la~ala~~  146 (321)
T d1w44a_         126 VIVTGKGNSGKTPLVHALGEA  146 (321)
T ss_dssp             EEEECSSSSCHHHHHHHHHHH
T ss_pred             EEEECCCCccHHHHHHHHHHH
Confidence            555799999999999986543

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=95.01  E-value=0.0088  Score=38.48  Aligned_cols=24  Identities=33%  Similarity=0.480  Sum_probs=20.1

Q ss_pred             EEEEeCCCCcHHHHHHHHhhcccc
Q psy9521          20 VLILGLDNAGKTTYLESAKTKFTK   43 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~~~~~   43 (125)
                      +.+.|++|+|||-|++.+.+....
T Consensus        39 l~l~G~~G~GKTHLl~A~~~~~~~   62 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGNEAKK   62 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHHhcc
Confidence            789999999999999997655543

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {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: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.99  E-value=0.0077  Score=38.73  Aligned_cols=18  Identities=22%  Similarity=0.178  Sum_probs=16.6

Q ss_pred             EEEEeCCCCcHHHHHHHH
Q psy9521          20 VLILGLDNAGKTTYLESA   37 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i   37 (125)
                      +++.|++|+|||+|..++
T Consensus        40 ~~i~G~~GsGKT~lalq~   57 (258)
T d1v5wa_          40 TEAFGEFRTGKTQLSHTL   57 (258)
T ss_dssp             EEEECCTTCTHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            788999999999999993

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=94.99  E-value=0.0078  Score=41.49  Aligned_cols=25  Identities=28%  Similarity=0.270  Sum_probs=21.5

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      .++|++=|..||||||+++.+.+.+
T Consensus         5 ~lrI~IEG~iGsGKSTl~~~L~~~l   29 (331)
T d1osna_           5 VLRIYLDGAYGIGKTTAAEEFLHHF   29 (331)
T ss_dssp             EEEEEEEESSSSCTTHHHHHHHHTT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHH
Confidence            4679999999999999999976544

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {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: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.97  E-value=0.013  Score=39.58  Aligned_cols=24  Identities=17%  Similarity=0.189  Sum_probs=19.9

Q ss_pred             cCceEEEEEEeCCCCcHHHHHHHH
Q psy9521          14 RKDEFCVLILGLDNAGKTTYLESA   37 (125)
Q Consensus        14 ~~~~~ki~v~G~~~~GKTsl~~~i   37 (125)
                      +++.+=|.+.|.+|||||||...+
T Consensus        24 ~~~P~iIGi~G~qGSGKSTl~~~l   47 (286)
T d1odfa_          24 NKCPLFIFFSGPQGSGKSFTSIQI   47 (286)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHH
T ss_pred             CCCCEEEEeECCCCCCHHHHHHHH
Confidence            345677889999999999998764

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=94.89  E-value=0.008  Score=41.88  Aligned_cols=20  Identities=30%  Similarity=0.252  Sum_probs=18.0

Q ss_pred             EEEEEeCCCCcHHHHHHHHh
Q psy9521          19 CVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~   38 (125)
                      .+++.|++|+|||++...+.
T Consensus       156 ~~~~~g~~~~gk~~~~~~~~  175 (362)
T d1svma_         156 YWLFKGPIDSGKTTLAAALL  175 (362)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHH
Confidence            68999999999999999854

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-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: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=94.80  E-value=0.011  Score=37.68  Aligned_cols=21  Identities=19%  Similarity=0.322  Sum_probs=18.3

Q ss_pred             eEEEEEEeCCCCcHHHHHHHH
Q psy9521          17 EFCVLILGLDNAGKTTYLESA   37 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i   37 (125)
                      .--+++.|++|+|||+++..+
T Consensus        24 ~h~lLl~Gp~G~GKtt~a~~~   44 (207)
T d1a5ta2          24 HHALLIQALPGMGDDALIYAL   44 (207)
T ss_dssp             CSEEEEECCTTSCHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHH
Confidence            445999999999999999973

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=94.78  E-value=0.0091  Score=41.11  Aligned_cols=25  Identities=28%  Similarity=0.088  Sum_probs=20.2

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          17 EFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      -++|.|=|..||||||+++.+.+.+
T Consensus         4 ~lrI~IEG~iGsGKTTl~~~La~~l   28 (329)
T d1e2ka_           4 LLRVYIDGPHGMGKTTTTQLLVALG   28 (329)
T ss_dssp             EEEEEECSCTTSSHHHHHHHHTC--
T ss_pred             ceEEEEECCcCCCHHHHHHHHHHHh
Confidence            3579999999999999999986544

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

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: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=94.65  E-value=0.017  Score=37.82  Aligned_cols=21  Identities=29%  Similarity=0.344  Sum_probs=17.7

Q ss_pred             EEEEEeCCCCcHHHHHHHHhh
Q psy9521          19 CVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +|+|.|-+||||||+...+..
T Consensus         3 ~Iai~gKGGvGKTT~a~nLA~   23 (269)
T d1cp2a_           3 QVAIYGKGGIGKSTTTQNLTS   23 (269)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHHH
Confidence            488899999999999987543

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=94.60  E-value=0.011  Score=37.42  Aligned_cols=17  Identities=29%  Similarity=0.458  Sum_probs=15.3

Q ss_pred             EEEEeCCCCcHHHHHHH
Q psy9521          20 VLILGLDNAGKTTYLES   36 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~   36 (125)
                      +++.|++|+|||+|+.+
T Consensus        29 ~~I~G~~G~GKT~la~~   45 (242)
T d1tf7a1          29 TLVSGTSGTGKTLFSIQ   45 (242)
T ss_dssp             EEEEESTTSSHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHH
Confidence            67889999999999877

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-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: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=94.60  E-value=0.015  Score=37.74  Aligned_cols=20  Identities=25%  Similarity=0.275  Sum_probs=17.3

Q ss_pred             EEEEEeCCCCcHHHHHHHHh
Q psy9521          19 CVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~   38 (125)
                      -+++.|++|+|||+++..+.
T Consensus        36 ~~Ll~Gp~G~GKtt~a~~~~   55 (239)
T d1njfa_          36 AYLFSGTRGVGKTSIARLLA   55 (239)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHH
Confidence            38899999999999998843

>d1w1wa_ c.37.1.12 (A:) Smc head 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: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.59  E-value=0.0093  Score=41.22  Aligned_cols=21  Identities=24%  Similarity=0.597  Sum_probs=17.1

Q ss_pred             eEEEEEEeCCCCcHHHHHHHHh
Q psy9521          17 EFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        17 ~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      .+. +++|+.|+|||+++..+.
T Consensus        26 ~l~-~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          26 NFT-SIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             SEE-EEECSTTSSHHHHHHHHH
T ss_pred             CEE-EEECCCCCCHHHHHHHHH
Confidence            343 578999999999999863

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=94.49  E-value=0.012  Score=39.40  Aligned_cols=17  Identities=35%  Similarity=0.483  Sum_probs=14.6

Q ss_pred             EEEEeCCCCcHHHHHHH
Q psy9521          20 VLILGLDNAGKTTYLES   36 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~   36 (125)
                      ++|.|.+|+|||+.+..
T Consensus        27 ~lV~g~aGSGKTt~l~~   43 (318)
T d1pjra1          27 LLIMAGAGSGKTRVLTH   43 (318)
T ss_dssp             EEEEECTTSCHHHHHHH
T ss_pred             EEEEecCCccHHHHHHH
Confidence            89999999999976654

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=94.29  E-value=0.013  Score=38.49  Aligned_cols=18  Identities=17%  Similarity=0.464  Sum_probs=16.1

Q ss_pred             EEEEeCCCCcHHHHHHHH
Q psy9521          20 VLILGLDNAGKTTYLESA   37 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i   37 (125)
                      +++.|.+|+|||+|+..+
T Consensus        38 ~vi~G~~G~GKT~~~~~l   55 (277)
T d1cr2a_          38 IMVTSGSGMGKSTFVRQQ   55 (277)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHH
Confidence            778999999999998884

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=94.18  E-value=0.0098  Score=39.42  Aligned_cols=16  Identities=31%  Similarity=0.461  Sum_probs=13.8

Q ss_pred             EEEEeCCCCcHHHHHH
Q psy9521          20 VLILGLDNAGKTTYLE   35 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~   35 (125)
                      ++|+|.+|+|||+.+.
T Consensus        17 ~lI~g~aGTGKTt~l~   32 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVIT   32 (306)
T ss_dssp             EEECCCTTSCHHHHHH
T ss_pred             EEEEeeCCccHHHHHH
Confidence            7899999999997654

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {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: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=94.15  E-value=0.016  Score=38.00  Aligned_cols=18  Identities=17%  Similarity=0.128  Sum_probs=16.0

Q ss_pred             EEEEeCCCCcHHHHHHHH
Q psy9521          20 VLILGLDNAGKTTYLESA   37 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i   37 (125)
                      .++.|++|+|||+|+..+
T Consensus        32 ~~i~G~~G~GKS~l~l~l   49 (274)
T d1nlfa_          32 GALVSPGGAGKSMLALQL   49 (274)
T ss_dssp             EEEEESTTSSHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHH
Confidence            668999999999999884

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {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: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=94.04  E-value=0.025  Score=35.89  Aligned_cols=21  Identities=24%  Similarity=0.294  Sum_probs=18.0

Q ss_pred             EEEEEEeCCCCcHHHHHHHHh
Q psy9521          18 FCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      +-|.+.|..||||||+.+.+.
T Consensus         4 ~iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEEECCCcCCHHHHHHHHH
Confidence            447799999999999998865

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=93.92  E-value=0.02  Score=36.27  Aligned_cols=21  Identities=29%  Similarity=0.222  Sum_probs=18.0

Q ss_pred             EEEEEEeCCCCcHHHHHHHHh
Q psy9521          18 FCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      +=|.+.|..||||||+.+.+.
T Consensus         3 ~iIgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
Confidence            347799999999999998864

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {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: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=93.59  E-value=0.02  Score=39.99  Aligned_cols=21  Identities=33%  Similarity=0.472  Sum_probs=17.9

Q ss_pred             EEEEEeCCCCcHHHHHHH-Hhh
Q psy9521          19 CVLILGLDNAGKTTYLES-AKT   39 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~-i~~   39 (125)
                      +++|+|.+|+|||+++.. +.+
T Consensus        52 H~~I~G~tGsGKT~~l~~li~~   73 (433)
T d1e9ra_          52 HLLVNGATGTGKSVLLRELAYT   73 (433)
T ss_dssp             CEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEeCCCCcHHHHHHHHHHH
Confidence            489999999999999887 443

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase 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: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=93.55  E-value=0.027  Score=37.97  Aligned_cols=31  Identities=23%  Similarity=0.155  Sum_probs=23.0

Q ss_pred             HHhhhcc-CceEEEEEEeCCCCcHHHHHHHHh
Q psy9521           8 FYKYMLR-KDEFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus         8 ~~~~~~~-~~~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      +.+.+++ .+=-|++++|+.|+|||+|+..+.
T Consensus        33 ~ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~   64 (289)
T d1xpua3          33 VLDLASPIGRGQRGLIVAPPKAGKTMLLQNIA   64 (289)
T ss_dssp             HHHHHSCCBTTCEEEEEECSSSSHHHHHHHHH
T ss_pred             eeeecccccCCCeeeEeCCCCCCHHHHHHHHH
Confidence            3444443 344579999999999999998843

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=93.47  E-value=0.041  Score=38.58  Aligned_cols=31  Identities=19%  Similarity=0.427  Sum_probs=24.3

Q ss_pred             HhhhccCceEEEEEEeCCCCcHHHHHHH-Hhh
Q psy9521           9 YKYMLRKDEFCVLILGLDNAGKTTYLES-AKT   39 (125)
Q Consensus         9 ~~~~~~~~~~ki~v~G~~~~GKTsl~~~-i~~   39 (125)
                      ++.+...+.==|++.|+.|+||||.++. +..
T Consensus       150 l~~l~~~~~GliLvtGpTGSGKSTTl~~~l~~  181 (401)
T d1p9ra_         150 FRRLIKRPHGIILVTGPTGSGKSTTLYAGLQE  181 (401)
T ss_dssp             HHHHHTSSSEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             HHHHHhhhhceEEEEcCCCCCccHHHHHHhhh
Confidence            4444555666799999999999999999 553

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {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: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=93.47  E-value=0.028  Score=38.18  Aligned_cols=24  Identities=25%  Similarity=0.253  Sum_probs=19.5

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      +.--++++|++|+|||.+.+.+..
T Consensus        52 p~~~~lf~Gp~G~GKt~lak~la~   75 (315)
T d1qvra3          52 PIGSFLFLGPTGVGKTELAKTLAA   75 (315)
T ss_dssp             CSEEEEEBSCSSSSHHHHHHHHHH
T ss_pred             CceEEEEECCCcchHHHHHHHHHH
Confidence            333578899999999999998654

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=93.17  E-value=0.024  Score=36.30  Aligned_cols=23  Identities=26%  Similarity=0.400  Sum_probs=19.1

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHh
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      ++-.+++.|++++|||.|+..+-
T Consensus        52 Kkn~i~~~GP~~TGKS~f~~sl~   74 (205)
T d1tuea_          52 KKNCLVFCGPANTGKSYFGMSFI   74 (205)
T ss_dssp             TCSEEEEESCGGGCHHHHHHHHH
T ss_pred             CceEEEEECCCCccHHHHHHHHH
Confidence            44568999999999999998843

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

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: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=93.07  E-value=0.047  Score=36.11  Aligned_cols=20  Identities=25%  Similarity=0.250  Sum_probs=16.6

Q ss_pred             EEEEEeCCCCcHHHHHHHHh
Q psy9521          19 CVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~   38 (125)
                      +|++-|-+||||||+...+.
T Consensus         4 ~IaisgKGGVGKTT~a~NLA   23 (289)
T d2afhe1           4 QCAIYGKGGIGKSTTTQNLV   23 (289)
T ss_dssp             EEEEEECTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            47788999999999877654

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {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: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=92.96  E-value=0.038  Score=36.16  Aligned_cols=26  Identities=23%  Similarity=0.475  Sum_probs=18.0

Q ss_pred             ceEEE-EEEeCCCCcHHHHHHHHhhcc
Q psy9521          16 DEFCV-LILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        16 ~~~ki-~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      ...|| ++.|.+||||||+...+...+
T Consensus        18 ~~~~iii~sGKGGVGKTT~a~nLA~~l   44 (279)
T d1ihua2          18 NEHGLIMLMGKGGVGKTTMAAAIAVRL   44 (279)
T ss_dssp             TSCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
Confidence            34454 555999999999877654333

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=92.92  E-value=0.048  Score=35.67  Aligned_cols=24  Identities=29%  Similarity=0.278  Sum_probs=19.7

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      .+.-|++.|+.|+||+.+.+.+..
T Consensus        22 ~~~pvlI~Ge~GtGK~~~A~~ih~   45 (247)
T d1ny5a2          22 AECPVLITGESGVGKEVVARLIHK   45 (247)
T ss_dssp             CCSCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCEEEECCCCcCHHHHHHHHHH
Confidence            344589999999999998888764

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {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: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=92.84  E-value=0.04  Score=36.17  Aligned_cols=23  Identities=17%  Similarity=0.313  Sum_probs=17.5

Q ss_pred             EEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      -|++.|.+||||||+...+...+
T Consensus        10 ~i~~sGKGGVGKTTvaa~lA~~l   32 (296)
T d1ihua1          10 YLFFTGKGGVGKTSISCATAIRL   32 (296)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCcChHHHHHHHHHHHH
Confidence            36789999999999877654333

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {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: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=92.54  E-value=0.037  Score=34.56  Aligned_cols=23  Identities=22%  Similarity=0.170  Sum_probs=18.3

Q ss_pred             EEEEEeCC-CCcHHHHHHHHhhcc
Q psy9521          19 CVLILGLD-NAGKTTYLESAKTKF   41 (125)
Q Consensus        19 ki~v~G~~-~~GKTsl~~~i~~~~   41 (125)
                      |+.|.|-. ||||||+..-+...+
T Consensus         3 ~~~i~gt~~GVGKTtvs~~La~aL   26 (224)
T d1byia_           3 RYFVTGTDTEVGKTVASCALLQAA   26 (224)
T ss_dssp             EEEEEESSTTSCHHHHHHHHHHHH
T ss_pred             eEEEEECCCCccHHHHHHHHHHHH
Confidence            68999986 999999988754333

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=92.41  E-value=0.044  Score=35.14  Aligned_cols=20  Identities=20%  Similarity=0.409  Sum_probs=17.6

Q ss_pred             EEEEeCCCCcHHHHHHHHhh
Q psy9521          20 VLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~~   39 (125)
                      |.+.|..||||||..+.+.+
T Consensus         4 IgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           4 IFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78889999999999998743

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {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: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=91.77  E-value=0.068  Score=35.70  Aligned_cols=20  Identities=20%  Similarity=0.169  Sum_probs=18.0

Q ss_pred             EEEEEEeCCCCcHHHHHHHH
Q psy9521          18 FCVLILGLDNAGKTTYLESA   37 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~i   37 (125)
                      =|+.++|.+|+|||+|+..+
T Consensus        69 Qr~~If~~~g~GKt~l~~~i   88 (276)
T d2jdid3          69 GKIGLFGGAGVGKTVLIMEL   88 (276)
T ss_dssp             CEEEEEECTTSSHHHHHHHH
T ss_pred             CEEEeeCCCCCCHHHHHHHH
Confidence            46999999999999999984

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {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: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=91.31  E-value=0.065  Score=37.00  Aligned_cols=17  Identities=35%  Similarity=0.393  Sum_probs=14.9

Q ss_pred             EEEEeCCCCcHHHHHHH
Q psy9521          20 VLILGLDNAGKTTYLES   36 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~   36 (125)
                      .++.|++|+|||+.+..
T Consensus       166 ~vI~G~pGTGKTt~i~~  182 (359)
T d1w36d1         166 SVISGGPGTGKTTTVAK  182 (359)
T ss_dssp             EEEECCTTSTHHHHHHH
T ss_pred             EEEEcCCCCCceehHHH
Confidence            77889999999998865

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=91.09  E-value=0.081  Score=35.02  Aligned_cols=24  Identities=21%  Similarity=0.331  Sum_probs=20.3

Q ss_pred             ceEEEEEEeCCCCcHHHHHHHHhh
Q psy9521          16 DEFCVLILGLDNAGKTTYLESAKT   39 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~i~~   39 (125)
                      ++--+++.|+++.|||+|+..+..
T Consensus       103 k~n~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_         103 KRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccEEEEEEcCCCCCHHHHHHHHHH
Confidence            566788899999999999998654

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=90.99  E-value=0.048  Score=37.10  Aligned_cols=16  Identities=38%  Similarity=0.617  Sum_probs=14.0

Q ss_pred             EEEEeCCCCcHHHHHH
Q psy9521          20 VLILGLDNAGKTTYLE   35 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~   35 (125)
                      -++.|.+|+|||||-.
T Consensus        17 alfFGLSGTGKTTLs~   32 (313)
T d2olra1          17 AVFFGLSGTGKTTLST   32 (313)
T ss_dssp             EEEECSTTSSHHHHHC
T ss_pred             EEEEccCCCCccccee
Confidence            3799999999999875

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=90.94  E-value=0.052  Score=37.02  Aligned_cols=17  Identities=35%  Similarity=0.591  Sum_probs=14.5

Q ss_pred             EEEEeCCCCcHHHHHHH
Q psy9521          20 VLILGLDNAGKTTYLES   36 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~   36 (125)
                      -++.|++|+|||||-..
T Consensus        17 alffGLSGTGKTTLs~~   33 (318)
T d1j3ba1          17 AVFFGLSGTGKTTLSTD   33 (318)
T ss_dssp             EEEEECTTSCHHHHTCB
T ss_pred             EEEEccCCCCccccccC
Confidence            48999999999998653

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-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: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=90.44  E-value=0.087  Score=34.81  Aligned_cols=18  Identities=39%  Similarity=0.457  Sum_probs=16.2

Q ss_pred             EEEEeCCCCcHHHHHHHH
Q psy9521          20 VLILGLDNAGKTTYLESA   37 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i   37 (125)
                      ..+.|++++|||+|+.++
T Consensus        57 tei~G~~gsGKTtl~l~~   74 (263)
T d1u94a1          57 VEIYGPESSGKTTLTLQV   74 (263)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEecCCCcHHHHHHHHH
Confidence            678899999999999984

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=90.18  E-value=0.064  Score=36.63  Aligned_cols=17  Identities=35%  Similarity=0.591  Sum_probs=14.6

Q ss_pred             EEEEeCCCCcHHHHHHH
Q psy9521          20 VLILGLDNAGKTTYLES   36 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~   36 (125)
                      -++.|.+|+|||||-..
T Consensus        17 alfFGLSGTGKTTLs~d   33 (323)
T d1ii2a1          17 TVFFGLSGTGKTTLSAD   33 (323)
T ss_dssp             EEEECCTTSSHHHHHCC
T ss_pred             EEEEccCCCCcccceeC
Confidence            46999999999999853

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-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: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=89.50  E-value=0.12  Score=33.46  Aligned_cols=18  Identities=33%  Similarity=0.698  Sum_probs=16.5

Q ss_pred             EEEEeCCCCcHHHHHHHH
Q psy9521          20 VLILGLDNAGKTTYLESA   37 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i   37 (125)
                      +++.|+..+|||++++.+
T Consensus        44 ~iiTGpN~~GKSt~lk~i   61 (234)
T d1wb9a2          44 LIITGPNMGGKSTYMRQT   61 (234)
T ss_dssp             EEEECCTTSSHHHHHHHH
T ss_pred             EEEeccCchhhHHHHHHH
Confidence            688899999999999984

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal 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: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=89.42  E-value=0.15  Score=29.82  Aligned_cols=27  Identities=11%  Similarity=0.165  Sum_probs=22.3

Q ss_pred             CceEEEEEEeCCCCcHHHHHHHHhhcc
Q psy9521          15 KDEFCVLILGLDNAGKTTYLESAKTKF   41 (125)
Q Consensus        15 ~~~~ki~v~G~~~~GKTsl~~~i~~~~   41 (125)
                      ++-+-|.+-|.+|+||++|.+.+...+
T Consensus         4 kqgf~i~~tg~~~~gk~~ia~al~~~l   30 (122)
T d1g8fa3           4 KQGFSIVLGNSLTVSREQLSIALLSTF   30 (122)
T ss_dssp             GCCEEEEECTTCCSCHHHHHHHHHHHH
T ss_pred             ccceEEEEeCCCCCCHHHHHHHHHHHH
Confidence            456789999999999999999865444

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-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: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=89.32  E-value=0.24  Score=31.04  Aligned_cols=31  Identities=13%  Similarity=0.105  Sum_probs=24.3

Q ss_pred             HHhhhccCceEEEEEEeCCCCcHHHHHHHHh
Q psy9521           8 FYKYMLRKDEFCVLILGLDNAGKTTYLESAK   38 (125)
Q Consensus         8 ~~~~~~~~~~~ki~v~G~~~~GKTsl~~~i~   38 (125)
                      +-+...++.-..+++.|++|+|||++...+.
T Consensus         6 l~~~i~~~~~~~~l~~G~~g~gk~~~a~~l~   36 (198)
T d2gnoa2           6 LKRIIEKSEGISILINGEDLSYPREVSLELP   36 (198)
T ss_dssp             HHHHHHTCSSEEEEEECSSSSHHHHHHHHHH
T ss_pred             HHHHHhcCCCceEEEECCCCCCHHHHHHHHH
Confidence            3344455667789999999999999999844

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=89.07  E-value=0.13  Score=33.10  Aligned_cols=18  Identities=50%  Similarity=0.757  Sum_probs=16.5

Q ss_pred             EEEEeCCCCcHHHHHHHH
Q psy9521          20 VLILGLDNAGKTTYLESA   37 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i   37 (125)
                      +++.|+..+|||++++.+
T Consensus        38 ~iiTGpN~~GKSt~lk~i   55 (224)
T d1ewqa2          38 VLITGPNMAGKSTFLRQT   55 (224)
T ss_dssp             EEEESCSSSSHHHHHHHH
T ss_pred             EEEECCCccccchhhhhh
Confidence            789999999999999983

>d1lkxa_ c.37.1.9 (A:) Myosin S1, motor domain {Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]

Probab=88.62  E-value=0.25  Score=36.89  Aligned_cols=35  Identities=34%  Similarity=0.589  Sum_probs=25.6

Q ss_pred             hhhHHHHHhhhcc-CceEEEEEEeCCCCcHHHHHHH
Q psy9521           2 YTLVSGFYKYMLR-KDEFCVLILGLDNAGKTTYLES   36 (125)
Q Consensus         2 ~~~~~~~~~~~~~-~~~~ki~v~G~~~~GKTsl~~~   36 (125)
                      |++...-|+.+.. ++.--|++.|++|+|||.-.+.
T Consensus        70 f~iA~~Ay~~l~~~~~~QsIiisGeSGsGKTe~~k~  105 (684)
T d1lkxa_          70 YALANDAYRSMRQSQENQCVIISGESGAGKTEASKK  105 (684)
T ss_dssp             HHHHHHHHHHHHHHCCCEEEEEECSTTSSHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCeEEEEEcCCCCCHHHHHHH
Confidence            4455566666643 4455699999999999988776

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {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: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=87.73  E-value=0.13  Score=34.36  Aligned_cols=23  Identities=26%  Similarity=0.196  Sum_probs=18.9

Q ss_pred             ceEEEEEEeCCCCcHHHHHHH-Hh
Q psy9521          16 DEFCVLILGLDNAGKTTYLES-AK   38 (125)
Q Consensus        16 ~~~ki~v~G~~~~GKTsl~~~-i~   38 (125)
                      +--|+.++|.+|+|||+|+.. +.
T Consensus        67 ~GQr~~If~~~g~GKt~ll~~~~~   90 (285)
T d2jdia3          67 RGQRELIIGDRQTGKTSIAIDTII   90 (285)
T ss_dssp             TTCBCEEEESTTSSHHHHHHHHHH
T ss_pred             CCCEEEeecCCCCChHHHHHHHHH
Confidence            344689999999999999887 44

>d1d0xa2 c.37.1.9 (A:2-33,A:80-759) Myosin S1, motor domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=87.39  E-value=0.33  Score=36.43  Aligned_cols=35  Identities=29%  Similarity=0.452  Sum_probs=25.9

Q ss_pred             hhhHHHHHhhhcc-CceEEEEEEeCCCCcHHHHHHH
Q psy9521           2 YTLVSGFYKYMLR-KDEFCVLILGLDNAGKTTYLES   36 (125)
Q Consensus         2 ~~~~~~~~~~~~~-~~~~ki~v~G~~~~GKTsl~~~   36 (125)
                      |.+...-|+.+.. +++--|++.|++|+|||.-.+.
T Consensus       109 faiA~~Ay~~m~~~~~nQsIiisGeSGaGKTe~~k~  144 (712)
T d1d0xa2         109 FAISDVAYRSMLDDRQNQSLLITGESGAGKTENTKK  144 (712)
T ss_dssp             HHHHHHHHHHHHHHTCCEEEEEECSTTSSHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCceEEEeCCCCCCHHHHHHH
Confidence            3445556666643 5666899999999999987776

>d1br2a2 c.37.1.9 (A:80-789) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=87.02  E-value=0.35  Score=36.20  Aligned_cols=35  Identities=29%  Similarity=0.525  Sum_probs=25.5

Q ss_pred             hhhHHHHHhhhcc-CceEEEEEEeCCCCcHHHHHHH
Q psy9521           2 YTLVSGFYKYMLR-KDEFCVLILGLDNAGKTTYLES   36 (125)
Q Consensus         2 ~~~~~~~~~~~~~-~~~~ki~v~G~~~~GKTsl~~~   36 (125)
                      |.+...-|+.+.. +++=-|++.|++|+|||.-.+.
T Consensus        75 f~vA~~Ay~~m~~~~~~Q~IiisGeSGaGKTe~~k~  110 (710)
T d1br2a2          75 YAIADTAYRSMLQDREDQSILCTGESGAGKTENTKK  110 (710)
T ss_dssp             HHHHHHHHHHHHHHTCCEEEEEECSTTSSHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHHHH
Confidence            3444556666643 4555699999999999988776

>d2eyqa3 c.37.1.19 (A:546-778) Transcription-repair coupling factor, TRCF {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: Tandem AAA-ATPase domain
domain: Transcription-repair coupling factor, TRCF
species: Escherichia coli [TaxId: 562]

Probab=86.64  E-value=0.37  Score=31.11  Aligned_cols=33  Identities=21%  Similarity=0.054  Sum_probs=25.0

Q ss_pred             HHHHhhhccCceEEEEEEeCCCCcHHHHHHH-Hh
Q psy9521           6 SGFYKYMLRKDEFCVLILGLDNAGKTTYLES-AK   38 (125)
Q Consensus         6 ~~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~-i~   38 (125)
                      ..+.+-+........++.|+.|+|||-..-+ +.
T Consensus        65 ~~i~~~~~~~~~~~~LL~GdvGsGKT~V~~~a~~   98 (233)
T d2eyqa3          65 NAVLSDMCQPLAMDRLVCGDVGFGKTEVAMRAAF   98 (233)
T ss_dssp             HHHHHHHHSSSCCEEEEECCCCTTTHHHHHHHHH
T ss_pred             HHHHHHHhccCccCeEEEcCCCCCcHHHHHHHHH
Confidence            3455555566667889999999999988877 44

>d2mysa2 c.37.1.9 (A:4-33,A:80-843) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=86.63  E-value=0.4  Score=36.39  Aligned_cols=34  Identities=29%  Similarity=0.547  Sum_probs=23.9

Q ss_pred             hhHHHHHhhhcc-CceEEEEEEeCCCCcHHHHHHH
Q psy9521           3 TLVSGFYKYMLR-KDEFCVLILGLDNAGKTTYLES   36 (125)
Q Consensus         3 ~~~~~~~~~~~~-~~~~ki~v~G~~~~GKTsl~~~   36 (125)
                      ++...-|+.+.. +++=-|++.|++|+|||.-.+.
T Consensus       108 aiA~~Ay~~m~~~~~~QsIiisGeSGaGKTe~~K~  142 (794)
T d2mysa2         108 SISDNAYQFMLTDRENQSILITGESGAGKTVNTKR  142 (794)
T ss_dssp             HHHHHHHHHHHHHTCCEEEEEEECTTSCHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCcEEEEEcCCCCCHHHHHHH
Confidence            344455666643 4556699999999999976665

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=86.52  E-value=0.13  Score=29.78  Aligned_cols=17  Identities=18%  Similarity=0.255  Sum_probs=14.8

Q ss_pred             EEEEeCCCCcHHHHHHH
Q psy9521          20 VLILGLDNAGKTTYLES   36 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~   36 (125)
                      .++.++.|+|||.++..
T Consensus        11 ~ll~apTGsGKT~~~~~   27 (136)
T d1a1va1          11 AHLHAPTGSGKSTKVPA   27 (136)
T ss_dssp             EEEECCTTSCTTTHHHH
T ss_pred             EEEEeCCCCCHHHHHHH
Confidence            57789999999998876

>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=86.34  E-value=0.62  Score=27.53  Aligned_cols=34  Identities=18%  Similarity=0.261  Sum_probs=27.9

Q ss_pred             cccCccCHHHHHHHHhhhcccccCCCCeEEEEeeccC
Q psy9521          89 DIRDCMGVREVKPIFNKNSAHLIGRRDCMVMPVSALT  125 (125)
Q Consensus        89 Di~~~~s~~~i~~~l~~~~~~~~~~~~~~i~~~sA~~  125 (125)
                      |+.+..+.+++.+.+...   .+..+.+++++|||++
T Consensus       115 Dl~~~~~~~~i~~~~~~~---~~~~~~~~~~e~Sa~~  148 (164)
T d1zd9a1         115 DLPGALDEKELIEKMNLS---AIQDREICCYSISCKE  148 (164)
T ss_dssp             TSTTCCCHHHHHHHTTGG---GCCSSCEEEEECCTTT
T ss_pred             ccchhhhHHHHHHHHHHH---HHHhCCCEEEEEeCcC
Confidence            888888888888777654   6667899999999985

>d1w7ja2 c.37.1.9 (A:63-792) Myosin S1, motor domain {Chicken (Gallus gallus), Va isoform [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), Va isoform [TaxId: 9031]

Probab=86.30  E-value=0.41  Score=35.95  Aligned_cols=35  Identities=26%  Similarity=0.416  Sum_probs=25.5

Q ss_pred             hhhHHHHHhhhcc-CceEEEEEEeCCCCcHHHHHHH
Q psy9521           2 YTLVSGFYKYMLR-KDEFCVLILGLDNAGKTTYLES   36 (125)
Q Consensus         2 ~~~~~~~~~~~~~-~~~~ki~v~G~~~~GKTsl~~~   36 (125)
                      |++...-|+.+.. +++-.|++.|++|+|||.-.+.
T Consensus        78 f~vA~~Ay~~l~~~~~~Q~IiisGeSGsGKTe~~k~  113 (730)
T d1w7ja2          78 FAVAEEAYKQMARDERNQSIIVSGESGAGKTVSAKY  113 (730)
T ss_dssp             HHHHHHHHHHHHHHTCCEEEEEECSTTSSHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCeEEEEEeCCCCCHHHHHHH
Confidence            3444556666643 4566799999999999987776

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

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: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=85.90  E-value=0.32  Score=30.43  Aligned_cols=19  Identities=32%  Similarity=0.433  Sum_probs=15.5

Q ss_pred             EEEE-eCCCCcHHHHHHHHh
Q psy9521          20 VLIL-GLDNAGKTTYLESAK   38 (125)
Q Consensus        20 i~v~-G~~~~GKTsl~~~i~   38 (125)
                      |+|. +.+||||||+...+.
T Consensus         5 Iav~~~kGGvGKTtia~nLA   24 (237)
T d1g3qa_           5 ISIVSGKGGTGKTTVTANLS   24 (237)
T ss_dssp             EEEECSSTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCcHHHHHHHHH
Confidence            5566 689999999998754

>d1kk8a2 c.37.1.9 (A:1-28,A:77-837) Myosin S1, motor domain {Bay scallop (Aequipecten irradians) [TaxId: 31199]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Bay scallop (Aequipecten irradians) [TaxId: 31199]

Probab=85.86  E-value=0.47  Score=35.98  Aligned_cols=35  Identities=26%  Similarity=0.471  Sum_probs=25.2

Q ss_pred             hhhHHHHHhhhcc-CceEEEEEEeCCCCcHHHHHHH
Q psy9521           2 YTLVSGFYKYMLR-KDEFCVLILGLDNAGKTTYLES   36 (125)
Q Consensus         2 ~~~~~~~~~~~~~-~~~~ki~v~G~~~~GKTsl~~~   36 (125)
                      |+....-|+.+.. +++--|++.|++|+|||--.+.
T Consensus       105 yavA~~Ay~~m~~~~~nQ~IiisGESGaGKTe~~K~  140 (789)
T d1kk8a2         105 FSVADNAYQNMVTDRENQSCLITGESGAGKTENTKK  140 (789)
T ss_dssp             HHHHHHHHHHHHHHTSEEEEEEECSTTSSHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCcEEEEEeCCCCCHHHHHHH
Confidence            3444555666643 5667799999999999977665

>d1gm5a3 c.37.1.19 (A:286-549) RecG helicase 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: Tandem AAA-ATPase domain
domain: RecG helicase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=85.47  E-value=0.3  Score=32.20  Aligned_cols=31  Identities=19%  Similarity=0.201  Sum_probs=24.2

Q ss_pred             HHHHhhhccCceEEEEEEeCCCCcHHHHHHH
Q psy9521           6 SGFYKYMLRKDEFCVLILGLDNAGKTTYLES   36 (125)
Q Consensus         6 ~~~~~~~~~~~~~ki~v~G~~~~GKTsl~~~   36 (125)
                      ..+..-+.+.....-++.|+.|+|||-..-.
T Consensus        93 ~ei~~d~~~~~~m~rLL~GdvGSGKT~Va~~  123 (264)
T d1gm5a3          93 QEIRNDMISEKPMNRLLQGDVGSGKTVVAQL  123 (264)
T ss_dssp             HHHHHHHHSSSCCCCEEECCSSSSHHHHHHH
T ss_pred             HHHHHHhhccCcceeeeeccccccccHHHHH
Confidence            3455556566677789999999999987776

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=85.39  E-value=0.28  Score=32.44  Aligned_cols=17  Identities=35%  Similarity=0.448  Sum_probs=15.3

Q ss_pred             EEEEeCCCCcHHHHHHH
Q psy9521          20 VLILGLDNAGKTTYLES   36 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~   36 (125)
                      ..+.|++++|||+|+.+
T Consensus        63 ~e~~G~~~~GKT~l~l~   79 (269)
T d1mo6a1          63 IEIYGPESSGKTTVALH   79 (269)
T ss_dssp             EEEECSSSSSHHHHHHH
T ss_pred             EEEecCCCcHHHHHHHH
Confidence            67889999999999877

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

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: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=85.10  E-value=0.37  Score=30.11  Aligned_cols=19  Identities=26%  Similarity=0.365  Sum_probs=14.8

Q ss_pred             EEEE-eCCCCcHHHHHHHHh
Q psy9521          20 VLIL-GLDNAGKTTYLESAK   38 (125)
Q Consensus        20 i~v~-G~~~~GKTsl~~~i~   38 (125)
                      |+|. |.+||||||+...+.
T Consensus         4 Iav~s~KGGvGKTtia~nlA   23 (232)
T d1hyqa_           4 ITVASGKGGTGKTTITANLG   23 (232)
T ss_dssp             EEEEESSSCSCHHHHHHHHH
T ss_pred             EEEECCCCCChHHHHHHHHH
Confidence            4444 799999999998754

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=84.61  E-value=0.21  Score=33.17  Aligned_cols=19  Identities=32%  Similarity=0.330  Sum_probs=17.0

Q ss_pred             EEEEEEeCCCCcHHHHHHH
Q psy9521          18 FCVLILGLDNAGKTTYLES   36 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~~~   36 (125)
                      -|+.++|.+|+|||+|+..
T Consensus        68 Qr~~Ifg~~g~GKt~l~~~   86 (276)
T d1fx0a3          68 QRELIIGDRQTGKTAVATD   86 (276)
T ss_dssp             CBCBEEESSSSSHHHHHHH
T ss_pred             ceEeeccCCCCChHHHHHH
Confidence            3588999999999999987

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=84.35  E-value=0.35  Score=31.87  Aligned_cols=18  Identities=33%  Similarity=0.385  Sum_probs=15.9

Q ss_pred             EEEEeCCCCcHHHHHHHH
Q psy9521          20 VLILGLDNAGKTTYLESA   37 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i   37 (125)
                      ..+.|++++|||+|+..+
T Consensus        60 tei~G~~~sGKT~l~l~~   77 (268)
T d1xp8a1          60 TEIYGPESGGKTTLALAI   77 (268)
T ss_dssp             EEEEESTTSSHHHHHHHH
T ss_pred             EEEecCCccchHHHHHHH
Confidence            568899999999999884

>d1c9ka_ c.37.1.11 (A:) Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU
species: Salmonella typhimurium [TaxId: 90371]

Probab=80.65  E-value=0.65  Score=28.71  Aligned_cols=19  Identities=26%  Similarity=0.375  Sum_probs=17.0

Q ss_pred             EEEEeCCCCcHHHHHHHHh
Q psy9521          20 VLILGLDNAGKTTYLESAK   38 (125)
Q Consensus        20 i~v~G~~~~GKTsl~~~i~   38 (125)
                      ++|+|...+|||.+..++.
T Consensus         2 iLVtGGarSGKS~~AE~l~   20 (180)
T d1c9ka_           2 ILVTGGARSGKSRHAEALI   20 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHH
T ss_pred             EEEECCCCccHHHHHHHHH
Confidence            6899999999999999853

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=80.56  E-value=0.25  Score=28.09  Aligned_cols=17  Identities=24%  Similarity=0.178  Sum_probs=12.9

Q ss_pred             EEEEEEeCCCCcHHHHH
Q psy9521          18 FCVLILGLDNAGKTTYL   34 (125)
Q Consensus        18 ~ki~v~G~~~~GKTsl~   34 (125)
                      -.+++.++.|+|||...
T Consensus         8 ~~~il~~~tGsGKT~~~   24 (140)
T d1yksa1           8 MTTVLDFHPGAGKTRRF   24 (140)
T ss_dssp             CEEEECCCTTSSTTTTH
T ss_pred             CcEEEEcCCCCChhHHH
Confidence            34677889999999443